Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: MT122970
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 481443
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Found at i:1598 original size:9 final size:9
Alignment explanation
Indices: 1584--1610 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
1574 GGTCTGGACC
1584 CTACTACTT
1 CTACTACTT
1593 CTACTACTT
1 CTACTACTT
1602 CTACTACTT
1 CTACTACTT
1611 TTGAAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.33, G:0.00, T:0.44
Consensus pattern (9 bp):
CTACTACTT
Left flanking sequence: Indices 1084 -- 1583
CTTTCAATGGCTCCCTTAATTATGTGCGAGGAATTGCCCTATTGAGTAATGGGAAGCGGGCTAGT
CCCCGAAAATGCCCCGCCCGTAAGTTCCTTTGTCGTTGGGGAAAAAAAAGAAAGAGATTTTTTTG
AGAAAAGAAATTCTGCCTTTTTTGATCCCATGCTTTCCGTTGGTCAACAACCAACGAAAATCTCT
AGACTTCTTCACTACTCGTACAGGCTTGACGGAGTTAAGCTGTATTGAGGGAATCATCTTATAAA
ATCAAAATACGGTGCAACGAATTTTCCGCTTTGATGAAGCTAGTCTGAACTCAAGTTCCAGTAAT
ATAGCTTCGACTTCGTCTAGTAGTTCATTCGGAACTAGTAGTACTGGGATTCAAAATCCTACGAA
TCAATCTACTACGACTATTCACGATTTTAGTCTTCGGTCGTCCAGTACTCAGGTTGATGGGAGTG
GTTCGAGTATTTCGAATAATCATGGTATTTTTGAAGGTCTGGACC
Right flanking sequence: Indices 1611 -- 2110
TTGAAAATATAGCGGACTACCTAAGGGGTGAAATCTTTGAGTCCGTTCAAAAAGTCTTCCAAAAT
CATTGTTCAGATGAAAACAAATTACTCGCAATCAGCGAAAATTTGCATAATGATGAAGACAGCAC
GGGTTTTCTAAGAGAAATTTTAGAACATTTAAAAGACAAACAGGGTGAGCACTATGACTTTGCCC
TAAAACAATTTAACGTGATTGTAGGGGGGACACCTCCGACGATCACCAGTCCACTTGAACAATTT
GAAATAATCCCATTGATTCCTATGAAAATAGGAAACTTCTATTTCTCATTCACAAATCCATCTTT
GTTTATGCTACTAACTCTCAGTTTGGTCCTACTTTTGGTTTATTTTGTTACTAAAAAGGGAGGAG
GAAACTCAGTACCAAATGCTTGGCAATCCTTGGTAGAGCTTATTTATGATTTCGTGCTGAACCCG
GTAAACGAACAAATAGGTGGTCTTTCCGGAAATGTTAAACAAAAG
Found at i:20896 original size:12 final size:12
Alignment explanation
Indices: 20879--20903 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
20869 GCAGAATGCC
20879 TTTGAGATTCAA
1 TTTGAGATTCAA
20891 TTTGAGATTCAA
1 TTTGAGATTCAA
20903 T
1 T
20904 CAATGCGAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (12 bp):
TTTGAGATTCAA
Left flanking sequence: Indices 20379 -- 20878
CGCAGCCAGTTCAATGTCAGCTATATTCTTCCACGTTCAAATCTAAGTCAAGCAGTCCAGCAGAG
ACTACCGGAATAAAAAGAATGACATCCGTAAAAGAGAAAAAGGCACTCTTTAGGCCTAATCAATT
AAGATTAAATTAAGGAAGCATTCCAATATTTTCAAAACCTTATTGTTATTTTTCATCGGATAGGC
AAAGTTTGAATCAAAGCCAGGCGGCTGGATGGAATGAAGCTCTCCCCTTTGGATAGGGCTCGACT
GACCAGAAAGAGAGTCCCCTATCCTATATTGTTATATTGTCTATTTGATTTTCAGGGCTTTGCAC
TTGAAAGAGATTCCCTTATTATTAGCTTGGGTACACCTTACTTTATGCTAGCTCTGGATGGAAGA
CTGCCTTATCTTATATTTATTGTATTTCTTCCCGGATGGGTGACCACTTTTTCTTTGAGAATACG
AAAGGCCACTGCCGAATCCTTATCCTTGCTTAAGTGCAGAATGCC
Right flanking sequence: Indices 20904 -- 21403
CAATGCGAATTGATTTACCTAGGCTTGACGGATTGTCCTAGCTTTTCATATACGTGGAATGAAAT
ATGAATTAGTAATTCTTGATCCAATCCTGAACAAATGAACAATTGACTTAGGTCCTTGTACGCCG
CGGCTCACCATTTTAGGTTAGGAATAAGGGTGAATCCCGCTTGAAGTCAACTAAGTAAGCCTGGA
AGCGAGAGGTACGAAGGTCACTCGACAGGGGATAAAGTCGCTCGACATAGAGTTGCATCGGATCC
TTCTCCAAAAGAGTGCCTTTGCCCGGCTATCGGTTTTTCTCGAAATAACGCCTTTGAAAAAAAAA
GAATGCTACTTACCAAGGCGACTCTAGAGATTCCAGAAAGTAAGAAGAAGCGTCCGACTATCTAT
CTCATACCTGTCCATCAATCCGATAAGGGGCTATCTTCCTCTATCAAAGAGCGTATTCTCTAACA
CCCCTCAAGGCAATTTCCCCATACTTTTTTTTCCCATGAGCATGG
Found at i:30101 original size:8 final size:8
Alignment explanation
Indices: 30085--30121 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
30075 CGGCATTCTC
30085 TCTTATTT
1 TCTTATTT
*
30093 TCTTCTTT
1 TCTTATTT
30101 TCTTATTT
1 TCTTATTT
*
30109 TCTTCTTT
1 TCTTATTT
30117 TCTTA
1 TCTTA
30122 AATATCAAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.08, C:0.19, G:0.00, T:0.73
Consensus pattern (8 bp):
TCTTATTT
Left flanking sequence: Indices 29585 -- 30084
TGAGCAGAACGAAATGGCTTCTCTAATAAATCGACTTCCTAAGGAAGAACTTAAAGACGTAATTG
GGGAAAACTCCATTCGAAAGCCACTAAACGAGTTCAACGCAGAGCAGCAAGCACGGTTAATGGAT
CTCGCTATTAACCACTTTTCATTAAAGAATGATATTATTTCGAAAATGAAATTGCTTTATCCTAA
GGATGAATGGGAATTTACTAAAGTGATTCGAGAGGCATTCTTTCTGGGGCGACAAAAAGATCGGG
AGTCTTCCTTGGAAGATCTCCAAAAGATGCTTTACGCTTTAAAGGAAAATGGAAAATATGCGAGT
TGTGCACAAAGGCTACGATATAACATTTCAAATTGGAATTGGAAATCCTAAAAAGGTCTTATTAC
TCTTTTCTGCATATTTACTATACAACACGTATGTTCCACTTTGGATTTGGTCATGCAAGAGACCC
CCCGGTAGAGTTAAGTTCGGACTCGCTTTCGTAAGCGGCATTCTC
Right flanking sequence: Indices 30122 -- 30621
AATATCAAGAATTTCATTATGGAACTTTCTCCCCGAGCTGCGGAACTAACAAGTCTATTAGAAAG
TCGAATTAGCAACTTTTACACGAATTTTCAAGTGGATGAAATCGGTCGAGTGGTCTCAGTTGGAG
ATGGGATTGCACGTGTTTATGGATTGAACGAGATTCAAGCTGGGGAAATGGTTGAATTTGCCAGC
GGTGTGAAAGGAATAGCCTTGAATCTTGAGAATGAGAATGTAGGGATTGTTGTCTTTGGTAGTGA
TACTGCTATTAAAGAAGGAGATCTTGTCAAGCGCACTGGATCTATTGTGGATGTTCCTGCGGGAA
AGGCTATGCTAGGGCGTGTGGTCGATGGCTTGGGAGTACCTATTGATGGAAGGGGGGCTCTAAGC
GATCACGAGCGAAGACGTGTTGAAGTGAAAGCCCCTGGGATTATTGAACGTAAATCAGTGCACGA
GCCTATGCAAACAGGTTTAAAAGCGGTAGATAGCCTGGTTCCTAT
Found at i:30106 original size:16 final size:16
Alignment explanation
Indices: 30085--30121 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
30075 CGGCATTCTC
30085 TCTTATTTTCTTCTTT
1 TCTTATTTTCTTCTTT
30101 TCTTATTTTCTTCTTT
1 TCTTATTTTCTTCTTT
30117 TCTTA
1 TCTTA
30122 AATATCAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.08, C:0.19, G:0.00, T:0.73
Consensus pattern (16 bp):
TCTTATTTTCTTCTTT
Left flanking sequence: Indices 29585 -- 30084
TGAGCAGAACGAAATGGCTTCTCTAATAAATCGACTTCCTAAGGAAGAACTTAAAGACGTAATTG
GGGAAAACTCCATTCGAAAGCCACTAAACGAGTTCAACGCAGAGCAGCAAGCACGGTTAATGGAT
CTCGCTATTAACCACTTTTCATTAAAGAATGATATTATTTCGAAAATGAAATTGCTTTATCCTAA
GGATGAATGGGAATTTACTAAAGTGATTCGAGAGGCATTCTTTCTGGGGCGACAAAAAGATCGGG
AGTCTTCCTTGGAAGATCTCCAAAAGATGCTTTACGCTTTAAAGGAAAATGGAAAATATGCGAGT
TGTGCACAAAGGCTACGATATAACATTTCAAATTGGAATTGGAAATCCTAAAAAGGTCTTATTAC
TCTTTTCTGCATATTTACTATACAACACGTATGTTCCACTTTGGATTTGGTCATGCAAGAGACCC
CCCGGTAGAGTTAAGTTCGGACTCGCTTTCGTAAGCGGCATTCTC
Right flanking sequence: Indices 30122 -- 30621
AATATCAAGAATTTCATTATGGAACTTTCTCCCCGAGCTGCGGAACTAACAAGTCTATTAGAAAG
TCGAATTAGCAACTTTTACACGAATTTTCAAGTGGATGAAATCGGTCGAGTGGTCTCAGTTGGAG
ATGGGATTGCACGTGTTTATGGATTGAACGAGATTCAAGCTGGGGAAATGGTTGAATTTGCCAGC
GGTGTGAAAGGAATAGCCTTGAATCTTGAGAATGAGAATGTAGGGATTGTTGTCTTTGGTAGTGA
TACTGCTATTAAAGAAGGAGATCTTGTCAAGCGCACTGGATCTATTGTGGATGTTCCTGCGGGAA
AGGCTATGCTAGGGCGTGTGGTCGATGGCTTGGGAGTACCTATTGATGGAAGGGGGGCTCTAAGC
GATCACGAGCGAAGACGTGTTGAAGTGAAAGCCCCTGGGATTATTGAACGTAAATCAGTGCACGA
GCCTATGCAAACAGGTTTAAAAGCGGTAGATAGCCTGGTTCCTAT
Found at i:69093 original size:27 final size:29
Alignment explanation
Indices: 69043--69100 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
69033 CGTGTATTAA
*
69043 TCTACTATAACTATAGGGTAATACTTCCCT
1 TCTACTATAACTATAGGG-AATACTCCCCT
*
69073 TCTATTATAACTATA-GG-ATACTCCCCT
1 TCTACTATAACTATAGGGAATACTCCCCT
69100 T
1 T
69101 TCGCGAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 10 0.38
29 2 0.08
30 14 0.54
ACGTcount: A:0.29, C:0.24, G:0.09, T:0.38
Consensus pattern (29 bp):
TCTACTATAACTATAGGGAATACTCCCCT
Left flanking sequence: Indices 68543 -- 69042
GTATGAGAACTCTTTACTATCTCTGGAATCTAGCTATGCTCTTACATCTTACAGGCACTGGGAAT
TCCTGACTTCCAGTCCTAACTCTTAGTCGCGCATCCGCTGTGAATGGAAGAAGTTTATGTGGCAT
ATAAGCTCTTCCTTTCGGTTCAGCCTTAGTAGCGTTCACTGTGCGTTAGCCCGATATTTTGCCTT
AGGTTGTATGTCTCACTGCTAGATTAGGTTAGGAATGGAAGAAGTAGTCCCTTTTCCCTGAAACT
CACTGGCTTGATTCCCAGGCTTTAGCCAAAGACACATCCCGCTTTTGGCTTGGCTCCAGAACACC
AGTGACTCAAGCAGCGGATTACAGTTCTTCCTTTAAGAAAGAAAGTTTACTTGCTCGTTTAGGTA
GTTAGTTCGCTTCCGCATCGGCGAGAGAGAGAATTCCTATTTGATATAGCTATTTGTGCAAGTAT
TTTACGGTTAAGAAGCAACTGTCTCTTGTACAGATCGTGTATTAA
Right flanking sequence: Indices 69101 -- 69600
TCGCGAATTACTGCGTTTATCCGAGTGATCCACAAACGACGAAAATCTCTCTTTTTCCTATCCCT
ATCCCATTCACCGGTACCGATCGTTGATACTGTAAAAGTCGTTTTCTTGCTTTTGTGCCAGCTCA
TGATCTAAACGAGTCGCACATACACCCTAGTACATGTTCCTCGACGCTGAGGGCACCCCCGAAGA
GCGGGGGATTTCGTGACATTTCTGATTGGCTGTCTTGTATTTCTAATAAGTTGTTTAATAGTTGG
CATGTTGAATCGTATACATAATATGATGGGTTGGTTTAGATTGATCCTAACCGAATGATGATGAA
TTACTTCTATTTAATAGAATATTCAATTCGAAGATAAAATCTCAAATCACAGATTTGCGCGAAAT
CCATGTTATTTTCATTGAACTGCTACAAGATCAACAATTCCATAATCTTGGGCTTCTGTTGCTGA
CATAAAAATATCTCTTTCCAGATCTTCGGATACAACCCATAAGGG
Found at i:140169 original size:22 final size:22
Alignment explanation
Indices: 140142--140183 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
140132 GACTTATTCG
140142 CTTCGCTACGCTTCGC-TCTTAC
1 CTTCGCTACG-TTCGCATCTTAC
*
140164 CTTCGCTTCGTTCGCATCTT
1 CTTCGCTACGTTCGCATCTT
140184 GCATCGGGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.07, C:0.38, G:0.14, T:0.40
Consensus pattern (22 bp):
CTTCGCTACGTTCGCATCTTAC
Left flanking sequence: Indices 139642 -- 140141
AGCCTATTGAAAAAAGTCAATCAAGACCTTCCTCGCCTCTATCAAGAAATTCTTCCTTGTAATAG
TTCGCTTCAATCGCTTCGCCTTCTATACTCACTCAGGTGTAGAAGGAAAGCTCTTCGCTTAACAG
CTCAGCGTCAATACTTCGCTGCGTAGCAGCTCATCTTATTCGCCTGTAGGCTCACCGACTTCGTC
CTCTTCTTTGGTTTGTTGTGAAATCACATATATAATATTCCTCGCTTAGCTCTTTTAGTGCTCGT
TGCGAAATGTCATATAGAATGTTTCGCCGCGTAGCTACTTTGCTCACCTCGTCATACCCGTTCGC
CTGTAGGCTCACCTCCTTCGTACCCTTACGGCTTACCAGCCTTACTGCAACAAGCTCCTGTTCGC
CTATCGTCTCACCGTGAACGTCCTCTGCTACGTAATCACTTCGTCTTTGGTGGGACCTAATCACT
TCTCCGCTCGGATTTCTTCGCTTACAGCCCCCGCCGACTTATTCG
Right flanking sequence: Indices 140184 -- 140683
GCATCGGGCTTGGCATCTTCGCCTAACGGTCCAGTCTTTTAGTTCCCCATCATGATCTGGAAAAA
CCCTTACTCAACTTCATGATTTGCTTCACTCATTGAAGATTCGTCACTTTCGGAAAAATCAAGAA
TTCCAATACCTTTTCGGACGAGGCATCGAAGCGCCCGGAGGGAGCAGCTATACTAGAGTCTAGAA
CACTCTCCTATTCTATCTAAAGGTCCCACTCAGACATTCAGACACACACAAAGACAAAACAAAGA
TTACCTTTGACGAGCAAGTTCATCTGTCTTTTTGAGTTGTTAGTTGATCGGTTTTCAAAGTAGCT
TCATCGCGTATTGGAAAAAGATAGAAATTGCATTTTAGAACTTAGGGGTGGATCCAATGATTCCT
AGTTGCATTCCAGACTCCATTCCTACCTCCTCCTTGAATCAGGCAGGGCAGACACGAACAACTGG
CAGAAAACCCCCGAGTTGGTTCTGTACCAGGTCATGCTAGATACC
Found at i:147579 original size:17 final size:17
Alignment explanation
Indices: 147528--147572 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
147518 AGAGCCTGTT
*
147528 GGTGGAGTTTAGAAGTA
1 GGTGGAGTTCAGAAGTA
*
147545 GGTGGTGTTCAGAAGTA
1 GGTGGAGTTCAGAAGTA
147562 GGTGGAGTTCA
1 GGTGGAGTTCA
147573 ATAGTAGCGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.24, C:0.04, G:0.42, T:0.29
Consensus pattern (17 bp):
GGTGGAGTTCAGAAGTA
Left flanking sequence: Indices 147028 -- 147527
GAAATCCTACAGGCACATGTTGTTGAGTTTTATTCCCGGTTGTTTAGTCAACCAGAAACGTATTC
AGTTCTTTGATGACTCTAGGCCCACCTCTGTTCGCCTAACGGCCTTTGCTTGTTATGTTAGCCAA
TATTACACCTACTTTGCAGCTACGCGGATGACCCACCTGTGTCGGTTATAGGCGAAGAGTGGGGG
CAGTTCGTTTTCTAGTCGCGGTATTTCGTTTACAACTTGAGCGAGCCTTTCTCTATCTGCAATAG
TAGCCATACGTGCTAGTACTTTATTTTTCTTTCTTTTATTTGAATTTAATGAAAGTGAATTAGGA
ATCTCGATAGAGTTGACTATGAGTTTCGATTCGTTACTTCTATTATCTATTATCTATTAATAATA
TTTATAGTAGTGAATCCAAGATCTACCTGCTGCTTCGTTCGCATGTGAGGCCTGGCGGTGAACCT
TCATAAGTCCTCCTACTTCACTTTGCTATTGCCTCAGAGCCTGTT
Right flanking sequence: Indices 147573 -- 148072
ATAGTAGCGAACAGTACGTAGGTTACTTCCGAGGCTCCTTTCTATATAGGGCGAAGTGACGGGCC
TAATCAGCGACGAGACAATCTCGGCTTTTCAGAAGAGGTGATCGGGTGTCACTAGTGTTGTTACT
CTTTTAGTAGATTGTATACTATTCAAAGAAAGTCCTCAATAAAGTATCGATGATTACGAGAAATT
GACCAAGCAAGAAAGGCTGAAACCTTCTCGAGCAACAAACGACGTGGGATCCGATACATACTGCT
GGGAACGAGGGTATCAACAAGTCATGGTCTTTAAAAGAAGGAACGGCACTAGCACTGCTCTAGCA
TCGATTTGATTCAACACTATTTCCAATTAGATCTCCGTGAATGGAGCTTATACTCCTATTAAATA
ATATATAGAATGTACGTGTGAGCGTAGGCGAAGACGGGCATTGAGAACGACGTCCCCAACGGGGG
GGGGTCGTGATAGAGCGCAGATCCGAATGGATTGAAGCGACAACT
Found at i:150392 original size:16 final size:16
Alignment explanation
Indices: 150371--150403 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
150361 GCTGGGTAAT
150371 TCCTTAGAGCGTTAAA
1 TCCTTAGAGCGTTAAA
150387 TCCTTAGAGCGTTAAA
1 TCCTTAGAGCGTTAAA
150403 T
1 T
150404 GCTAGAATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (16 bp):
TCCTTAGAGCGTTAAA
Left flanking sequence: Indices 149871 -- 150370
CCTCAAGTGAGAAGATGGAACTTGAAACCGTTGACAATATTGTTAATGGATTGAATCCTATGGAA
CAGTAGAGGAGCAGGGAAAAAGTCCTTCCTGCGTAACTCAAAGGACTTGCTAAGAAACTTGAAGC
CATCGATTTTGGCTGTTGTCGAACCTCGGATCTCCGGTGTCCGTGCAAAAAGGGTTATTAAGAAG
TGGAATTTTTCTAGGAATTGTATCTCTGACCCTGTAGGCTACGCAGGGGTATATGGTTGTGTTGG
GATGATGGTGTGATGGATTTGGATGTGGTATATATGTCACCACAGACAATACATGCGGTGGTGAA
GTTAAAGGATAAGCAAGCTTTTCTTTTAACCATCATATATGCCAGTCCAATTTTCGAAGTTCGTA
GACAATTATGGTTGTACCTCGAGGACTTTGCGAAGTCGGTGGACTTGCCTTGGTTGGGGCTTTCG
ATCGATACACATTCTCACTGGGTAATTTATTCATGGCTGGGTAAT
Right flanking sequence: Indices 150404 -- 150903
GCTAGAATAGAGTTGAGTTACTGAATGAATCTATTGCACAGTATTCATAGAGTTCAGCTGAAATT
CGTTCAAACAGAAATAACCACAGAAAGAATAGATTAGAGTTTCGAATAGATTACATAGAATTGAG
TTTAAGTAGCAGCTTCCCCGACAAGGGGAAGCTGCGTAGACCCCTCTAAGACCCTTGAAATAAGC
TCGCGAAGCGAAGAAGAGGACGCGGTTAAGTAGTAGGGGCGAAGACCAAACAAACAAGCAATTGC
AAGGTGTGCCCGAACATCTAAGTCCTTCTCCAAGCAAGTCCGAAAAATCCCAAGCCAACGTTGAT
CTAGTTGTTCAAGCACTTCATCGAGACTTTGAGGCAACCAAGCCCGAGGCCGCAACTTCATAGAC
TCCCAAAAACCGCAGCTTACGAGCAAGACGACTTCCCATTCGCCATTACGGGGTTCCAAGTTCGC
CGATAGGCAGGAGTAATACGAAACTCTATTTCATTAAATAGTTGG
Found at i:151940 original size:18 final size:18
Alignment explanation
Indices: 151921--151990 Score: 70
Period size: 18 Copynumber: 3.7 Consensus size: 18
151911 CAGTTCTTTT
*
151921 CTATTATATTAGTATTTT
1 CTATTATATTAGTATTTA
151939 CTATTATATTAGATATATTAGA
1 CTATTATATTAG-TAT-TT--A
*
151961 CTATTATATTAG-ATTAGA
1 CTATTATATTAGTATT-TA
151979 CTATTATATTAG
1 CTATTATATTAG
151991 ATTAGTATTA
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
18 25 0.56
19 4 0.09
20 4 0.09
22 12 0.27
ACGTcount: A:0.36, C:0.06, G:0.09, T:0.50
Consensus pattern (18 bp):
CTATTATATTAGTATTTA
Left flanking sequence: Indices 151421 -- 151920
TCATATTTATTTAATATGAATATTTTCCCTCTCTTTTTTTTATATCATTCCTTAAGTCCCATAGG
TTTGATCCTGTAGAATTTGACCCATTTTCTCATTGAACGAAAGGTACGAAATAAATCAGATTGAT
AAAAGTACCATGTGAAATCTTCGGTTTTTCCCCTTCCTCGATCCCTATCCCATAGGTACAGTGTT
TGAATCAATAGAGAACCTTTTGTATGAATCGATATTATTCCATTCCAAATCCTTCCCGATACCTC
CCAAGGAAAATCTCCAATTTGGATCCCAAATTGACGGGTTAGTGTGAGCTTATCCATGCGGTTAT
GCACTCTTTGAATAGGAATCCGTTTTCTGAAAGATCCTGGCTTTCGTACTTTGGTGGGTCTCCGA
GATCCTTTCGATGACCTATGTTGAAGGGATATCTATCTAATCCGATCGATTGCGTAAAGCCCGCG
GTAGCAACGGAACCGGGGAAAGTCTACAGAAAAGACAGTTCTTTT
Right flanking sequence: Indices 151991 -- 152490
ATTAGTATTAGTTAGTGATCCCGACTTAGTGAGTCCTTTCTTCCGTGATGAACTGTTGGCACCAG
TCCTACATTTTGTCTCTGTGGACCGAGGAGAAAGGGGGCTCGGCGGGAAGAGGAGTGTACCATGA
GAGAAGCAAGGAGGTCAACCTCTTTCAAATATACAACATGGATTCTGGTAATGTAGTTGGACTCT
CATGTCGATCCGAATGAATCATCCTTTCCACGGAGGTAAATCTTTGCCTGCTAGGCAAGAGGATA
GCAAGTTCCAAATTCTGTCTCGGTAGGACATGTATTTCTATTACTATGAAATTCATAAATGAAGT
AGTTAATGGTAGGGTTACCATTATCCTTTTTGTAGTGACGAATCTTGTATGTGTTCCTAAGAAAA
GGAATTTTTCCATTTTTCGGGGTCTCAAAGGGGCGTGGAAACGCATAAGAACTCTTGAATGGAAA
AGAGATGTAACTCCAGTTCCTTCGGAATCGGTAGTCAATCCTATT
Found at i:151983 original size:40 final size:42
Alignment explanation
Indices: 151921--152001 Score: 114
Period size: 40 Copynumber: 2.0 Consensus size: 42
151911 CAGTTCTTTT
**
151921 CTATTATATTAGTATTTTCTATTATATTAGA-TA-TATTAGA
1 CTATTATATTAGTATTGACTATTATATTAGATTAGTATTAGA
151961 CTATTATATTAG-ATTAGACTATTATATTAGATTAGTATTAG
1 CTATTATATTAGTATT-GACTATTATATTAGATTAGTATTAG
152002 TTAGTGATCC
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
39 3 0.08
40 25 0.69
41 2 0.06
42 6 0.17
ACGTcount: A:0.36, C:0.05, G:0.10, T:0.49
Consensus pattern (42 bp):
CTATTATATTAGTATTGACTATTATATTAGATTAGTATTAGA
Left flanking sequence: Indices 151421 -- 151920
TCATATTTATTTAATATGAATATTTTCCCTCTCTTTTTTTTATATCATTCCTTAAGTCCCATAGG
TTTGATCCTGTAGAATTTGACCCATTTTCTCATTGAACGAAAGGTACGAAATAAATCAGATTGAT
AAAAGTACCATGTGAAATCTTCGGTTTTTCCCCTTCCTCGATCCCTATCCCATAGGTACAGTGTT
TGAATCAATAGAGAACCTTTTGTATGAATCGATATTATTCCATTCCAAATCCTTCCCGATACCTC
CCAAGGAAAATCTCCAATTTGGATCCCAAATTGACGGGTTAGTGTGAGCTTATCCATGCGGTTAT
GCACTCTTTGAATAGGAATCCGTTTTCTGAAAGATCCTGGCTTTCGTACTTTGGTGGGTCTCCGA
GATCCTTTCGATGACCTATGTTGAAGGGATATCTATCTAATCCGATCGATTGCGTAAAGCCCGCG
GTAGCAACGGAACCGGGGAAAGTCTACAGAAAAGACAGTTCTTTT
Right flanking sequence: Indices 152002 -- 152501
TTAGTGATCCCGACTTAGTGAGTCCTTTCTTCCGTGATGAACTGTTGGCACCAGTCCTACATTTT
GTCTCTGTGGACCGAGGAGAAAGGGGGCTCGGCGGGAAGAGGAGTGTACCATGAGAGAAGCAAGG
AGGTCAACCTCTTTCAAATATACAACATGGATTCTGGTAATGTAGTTGGACTCTCATGTCGATCC
GAATGAATCATCCTTTCCACGGAGGTAAATCTTTGCCTGCTAGGCAAGAGGATAGCAAGTTCCAA
ATTCTGTCTCGGTAGGACATGTATTTCTATTACTATGAAATTCATAAATGAAGTAGTTAATGGTA
GGGTTACCATTATCCTTTTTGTAGTGACGAATCTTGTATGTGTTCCTAAGAAAAGGAATTTTTCC
ATTTTTCGGGGTCTCAAAGGGGCGTGGAAACGCATAAGAACTCTTGAATGGAAAAGAGATGTAAC
TCCAGTTCCTTCGGAATCGGTAGTCAATCCTATTTCCGATAGGGG
Found at i:151991 original size:18 final size:18
Alignment explanation
Indices: 151955--151995 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
151945 TATTAGATAT
151955 ATTAGACTATTATATTAG
1 ATTAGACTATTATATTAG
151973 ATTAGACTATTATATTAG
1 ATTAGACTATTATATTAG
151991 ATTAG
1 ATTAG
151996 TATTAGTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.39, C:0.05, G:0.12, T:0.44
Consensus pattern (18 bp):
ATTAGACTATTATATTAG
Left flanking sequence: Indices 151455 -- 151954
TTTTTTTATATCATTCCTTAAGTCCCATAGGTTTGATCCTGTAGAATTTGACCCATTTTCTCATT
GAACGAAAGGTACGAAATAAATCAGATTGATAAAAGTACCATGTGAAATCTTCGGTTTTTCCCCT
TCCTCGATCCCTATCCCATAGGTACAGTGTTTGAATCAATAGAGAACCTTTTGTATGAATCGATA
TTATTCCATTCCAAATCCTTCCCGATACCTCCCAAGGAAAATCTCCAATTTGGATCCCAAATTGA
CGGGTTAGTGTGAGCTTATCCATGCGGTTATGCACTCTTTGAATAGGAATCCGTTTTCTGAAAGA
TCCTGGCTTTCGTACTTTGGTGGGTCTCCGAGATCCTTTCGATGACCTATGTTGAAGGGATATCT
ATCTAATCCGATCGATTGCGTAAAGCCCGCGGTAGCAACGGAACCGGGGAAAGTCTACAGAAAAG
ACAGTTCTTTTCTATTATATTAGTATTTTCTATTATATTAGATAT
Right flanking sequence: Indices 151996 -- 152495
TATTAGTTAGTGATCCCGACTTAGTGAGTCCTTTCTTCCGTGATGAACTGTTGGCACCAGTCCTA
CATTTTGTCTCTGTGGACCGAGGAGAAAGGGGGCTCGGCGGGAAGAGGAGTGTACCATGAGAGAA
GCAAGGAGGTCAACCTCTTTCAAATATACAACATGGATTCTGGTAATGTAGTTGGACTCTCATGT
CGATCCGAATGAATCATCCTTTCCACGGAGGTAAATCTTTGCCTGCTAGGCAAGAGGATAGCAAG
TTCCAAATTCTGTCTCGGTAGGACATGTATTTCTATTACTATGAAATTCATAAATGAAGTAGTTA
ATGGTAGGGTTACCATTATCCTTTTTGTAGTGACGAATCTTGTATGTGTTCCTAAGAAAAGGAAT
TTTTCCATTTTTCGGGGTCTCAAAGGGGCGTGGAAACGCATAAGAACTCTTGAATGGAAAAGAGA
TGTAACTCCAGTTCCTTCGGAATCGGTAGTCAATCCTATTTCCGA
Found at i:170226 original size:7 final size:7
Alignment explanation
Indices: 170214--170246 Score: 57
Period size: 7 Copynumber: 4.6 Consensus size: 7
170204 ACTCTGCTAT
170214 ATATATA
1 ATATATA
170221 ATATATA
1 ATATATA
170228 ATATGATA
1 ATAT-ATA
170236 ATATATA
1 ATATATA
170243 ATAT
1 ATAT
170247 GATTTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 18 0.72
8 7 0.28
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (7 bp):
ATATATA
Left flanking sequence: Indices 169714 -- 170213
AGGTTAGATCCTCGTATGTCGCCACTCTCGTCACTGGGCCTTGTCACTGATGTCTTGTTATCTCA
GGACACTCTGCCAGGTTGTTCCTTGTTGACCGGCCTTGTGATTCTCGTTATAGAATTATAGAATG
TAGTGCTCAACAGTTTAAAGGAAGGGGTGAAGTCTCGGGATCCGCTCTAGTCGAGTTGTTAGATG
TCTCTCTCCGGAGTCGCTCCTCTATCTTTCGTGAAAGCATACGAGTCGTTATGTTAAGCATCTAA
TCCTAGTCTTTATGTTATCTGTGTTAGAGGAGTTAGATGTCCCTCATGTTGAACAGTCTGACATC
AAGTTGTTAGGACCTTAGTCGCTATGCGAACACTTAACACAAGACTGAAAGCGTTAGTGGTTTAT
GAATCAGTCATCAAGGATCTTAGCCAAACGGTGACCGGCTACGTAAGCACTTTGGGCGCAGGTTT
CTCGATCGGACTTGACGAATTGTCATAAAGACATCACTCTGCTAT
Right flanking sequence: Indices 170247 -- 170746
GATTTTTTTTCTAAAAAAAGATTCAATTAATTAGAAGCATTCGCAGTTTTCAGTTCGTTTGTCAT
CATCTAAAAGAAAAGAGAAAACGAAAGTCATTTTGAAAGACAAAACTGCTAAGCTATAAGTAGAA
GTTGTTGAAGTAGAAAATGCTTGCTGCTCGCTTAGCGCACGGATCATACGCTATCTCATCACTCA
CTAAGGCTAGCGAAAAGTGATCGAATAAAGCATTTCTTCGTACAGCTCTCGAACCTCACGCTCTA
TCACGCACGGAAAAGAAGCTGACTCAAAGAAATCGGTCACAAAGCTTATTTTTGCGGGTCAATAA
GCTCTCGAAAAGACCTGATCCTTCCCTAAAAACCACTAAACACAAAGTGGTTTCGCCCTATCCTC
TGAGAACGTTATAAGAGAAAGACGGCAAAACAATGCTCACACACGCATTTCACGCTTCAAGAACC
AAGAAAGACTCAAACAAACTAGCTCTCGCTTAATCCGCATATCTG
Found at i:170238 original size:15 final size:15
Alignment explanation
Indices: 170214--170249 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
170204 ACTCTGCTAT
170214 ATAT-ATAATATATA
1 ATATGATAATATATA
170228 ATATGATAATATATA
1 ATATGATAATATATA
170243 ATATGAT
1 ATATGAT
170250 TTTTTTTCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 4 0.19
15 17 0.81
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.42
Consensus pattern (15 bp):
ATATGATAATATATA
Left flanking sequence: Indices 169714 -- 170213
AGGTTAGATCCTCGTATGTCGCCACTCTCGTCACTGGGCCTTGTCACTGATGTCTTGTTATCTCA
GGACACTCTGCCAGGTTGTTCCTTGTTGACCGGCCTTGTGATTCTCGTTATAGAATTATAGAATG
TAGTGCTCAACAGTTTAAAGGAAGGGGTGAAGTCTCGGGATCCGCTCTAGTCGAGTTGTTAGATG
TCTCTCTCCGGAGTCGCTCCTCTATCTTTCGTGAAAGCATACGAGTCGTTATGTTAAGCATCTAA
TCCTAGTCTTTATGTTATCTGTGTTAGAGGAGTTAGATGTCCCTCATGTTGAACAGTCTGACATC
AAGTTGTTAGGACCTTAGTCGCTATGCGAACACTTAACACAAGACTGAAAGCGTTAGTGGTTTAT
GAATCAGTCATCAAGGATCTTAGCCAAACGGTGACCGGCTACGTAAGCACTTTGGGCGCAGGTTT
CTCGATCGGACTTGACGAATTGTCATAAAGACATCACTCTGCTAT
Right flanking sequence: Indices 170250 -- 170749
TTTTTTTCTAAAAAAAGATTCAATTAATTAGAAGCATTCGCAGTTTTCAGTTCGTTTGTCATCAT
CTAAAAGAAAAGAGAAAACGAAAGTCATTTTGAAAGACAAAACTGCTAAGCTATAAGTAGAAGTT
GTTGAAGTAGAAAATGCTTGCTGCTCGCTTAGCGCACGGATCATACGCTATCTCATCACTCACTA
AGGCTAGCGAAAAGTGATCGAATAAAGCATTTCTTCGTACAGCTCTCGAACCTCACGCTCTATCA
CGCACGGAAAAGAAGCTGACTCAAAGAAATCGGTCACAAAGCTTATTTTTGCGGGTCAATAAGCT
CTCGAAAAGACCTGATCCTTCCCTAAAAACCACTAAACACAAAGTGGTTTCGCCCTATCCTCTGA
GAACGTTATAAGAGAAAGACGGCAAAACAATGCTCACACACGCATTTCACGCTTCAAGAACCAAG
AAAGACTCAAACAAACTAGCTCTCGCTTAATCCGCATATCTGGAA
Found at i:203483 original size:19 final size:19
Alignment explanation
Indices: 203459--203496 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
203449 AGTAAACGTA
*
203459 TATAAGCAGCTCTTTAGTG
1 TATAAGCAACTCTTTAGTG
*
203478 TATAAGCAATTCTTTAGTG
1 TATAAGCAACTCTTTAGTG
203497 GTCGCACCGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.39
Consensus pattern (19 bp):
TATAAGCAACTCTTTAGTG
Left flanking sequence: Indices 202959 -- 203458
CACTCACTCATCTACTCCTTATCTATTTAATACTTTCTTCTATCTACAACATTAATTTAAAAGGC
GACCCGCCGCGCCGGGCTATAAGATAAGATAGAGTTCTTGTACTACTTGATTGACTGGTAAGAAA
GAGCTTCCGTAAGAACTGGAAGACTCTTGTATGTACGGTAACCCTCTCTTCCGCTACTGGTGGAC
TGTTGCACAGAAAGGGCGACAGAAGCAACCTTTCTTAGCGCGCTTTTCAAGCGCTTAGCTTCTGC
TAGTGGCGGGGCGGCAAGGCCATGTTGTTCAGTTGGAAGCCTAAGCCAAGAAGGTACGAACGAAG
TGACGGGCCCCTTTAGAAGATAGGGGGCGGCTTTCTTGTGGTAGTAATTGCGAACATCTCTCCTC
TTCTCTTAGCGTGCACAGTTTGCTTACATGCCGCCTTAGGCACATCTCTCTTTCTTAGTTTCACG
CTGGACTAATGATAATGAATGAAAGTCAGTCTTTTAGTAAACGTA
Right flanking sequence: Indices 203497 -- 203996
GTCGCACCGAAAGTACGGTGGAGGTTGGTTGAAGATGATGTTACGCGGCGTTCAGAACCAGTCTT
GAAGTGAATGAATTATAAAGAAGTAAGGAAATGAGACGACTCTTTCTTGAACTATATCATAAACA
GATCTTCCCCTCCACACCAATCACGAGTTTTTCTCTATTCCTCTCGTATATCGTCGTAACGCCCT
TAATGCTAGGTTTTGAAAAAGACTTTTCATGTCATTCCCATTTAGGTCCGATTCGGATCCCTCCG
TTGTTTCCTTTTCCTTCCGCACCTTTTCCTCGAAATGAGAAAGAAGATGGTACACTTGAATTGTA
TTATTTAAGTGCTTATTGCTTGCCAAAAATCCTACTTCTACAATTGGTAGGTCACCGGGTTATTC
AAATAAGTCGTGTTTTCCGTGGTTTTCCCATGTTACAACTTCCGTACCAATTCGGTCGATCCGGA
ATGGATCGGTTAAACATTCCATTAGGTAGCCTGGTCTTGACTCTT
Found at i:208809 original size:20 final size:20
Alignment explanation
Indices: 208780--208817 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
208770 GGCAAGAAGC
*
208780 CGGTGTTTGTTCACACCGTT
1 CGGTGCTTGTTCACACCGTT
208800 CGGTGCTTGTTCACACCG
1 CGGTGCTTGTTCACACCG
208818 GCTTCCGCGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.11, C:0.29, G:0.26, T:0.34
Consensus pattern (20 bp):
CGGTGCTTGTTCACACCGTT
Left flanking sequence: Indices 208280 -- 208779
TAAGGGAGGAGTGTCATGGCTAGAGGTCGAAGAAGCTCCAACCCCGGCGATCTAAGTGAGGCGAT
GCCTTTGAAGTAGCGGACCTATAGGTGTGACTGAACTCGCCGATCAGGCGTATACTGATGAAAAG
AAGATTCTTATGAGAGAAAGCCTCCAATACGTTCGTGCATTTGCTTGCCTTGCCGTTTTCATACG
TTTTTCAGTGGGAGCCTGAAGCTGAGACCTGGGAGAGGAGACCAGACTGAAGTAAGGCCTAACTT
GAAACTATGTACCGTAGTTTGAGCAATCATAACTGATCACTATATATTGATCTTGCCAAAAATAA
CTAGTGGAATAACAAGTACAAGTAATGGTACACGCGCCTTCGAAAGCTTCTTCTCGAGTTTGGAG
CATGAAGCGGTCTTGTGGATAGTTCTCCGGTTCGGGTACCAAGGAAACGGAGCAAGAAAAGGTAT
GCGCATCCGAACTATTAGCTTCACTAACGCACACCGGCAAGAAGC
Right flanking sequence: Indices 208818 -- 209317
GCTTCCGCGGTAGCTCAGCCGTTGCTTGTTCTGAATGAAAGTGAATACAGACGCACCTTTCTTTA
GTGCAGAGCCGGGTTCATGATTGCGGATTGCGCAGACTGACTTCTCCTAATGGCATATAGAAACG
TGGTAGAGGAGGTTAGCTCAGGGAAGGAAGCTAAGTAAGGGCGAGCTACAACAAACACAAAGGAA
AGGTCCGCTTCAGGATCATTTGAATAATGTGAAGATACAGACGAAGCAGCTAAAGCCGAATCAGA
ATATTCCGCTGAAGCAGAAAGGAGAGGATCGTAAGAAGAAAAAGGCTATACGCCGATCCGTATTA
TGTAAAATAGCCCGTCCCTTGAGCGTGGAGCCCTTGCTCTATCCCCCCTTCTCGTTGGCACGGAT
GAATCAGTTACATCTTGTTCCTACTACTACCGAGTAGAGGACATTTCATTCACAGACCTTGATCT
TTAAGGTAAAAGTGGGCCTTAGCTGGCTGACCTGATTTACCCCTT
Found at i:238280 original size:27 final size:27
Alignment explanation
Indices: 238242--238306 Score: 121
Period size: 27 Copynumber: 2.4 Consensus size: 27
238232 ATTGCTTAAA
238242 GCGAAGAGGCGTTAGCTGATAATATAG
1 GCGAAGAGGCGTTAGCTGATAATATAG
238269 GCGAAGAGGCGTTAGCTGATAATATAG
1 GCGAAGAGGCGTTAGCTGATAATATAG
*
238296 GCGAACAGGCG
1 GCGAAGAGGCG
238307 ATACCGAATA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.32, C:0.14, G:0.35, T:0.18
Consensus pattern (27 bp):
GCGAAGAGGCGTTAGCTGATAATATAG
Left flanking sequence: Indices 237742 -- 238241
CGCTATCTTACTTCTGAATCGGCATACTTAGCAATCGTCCTCTTCTTCGCTTACAGCTTCTTTGC
CTTACTGAACTCAACGTTCTCTTCGCCTTCCTTATTAATTAATTAAGAAACCTTCATTCGGCATA
CTTACCGCACCGTGGGCTTGTTAATCTGATCAAGTTTCTGGCATGTCGATGCTGGTAAGAAGAAA
TTCTAATCTAATGAAAGACCCCAACTGAACTTTTCCTATTTGCTGGCTCTGTTTCCGCAGATCTG
GGGGCCCAGAGTGGGGGAGAGGGATGTGGATGTAGCTATAAACTCTTCTTTGAGGCACAAGCAGG
ATCCTTTCTTCGAAATAGAATATATAATCTTCCTCCAAAGGGATATACGATCCGTCTTAAAGTGG
TCAAGGAAGTATATATTATAGCAATCGCGCTTAAAGTATAAATGAAAGGAGTAAAACAAACATCA
AAATACAATTGGTCAGATTTTGCTTTACAAGCGGCATTGCTTAAA
Right flanking sequence: Indices 238307 -- 238806
ATACCGAATAGCTACAGAAGCATAGAATTCATGTTCTATGGATTCTCTTAAGAGTTCATCTGGTT
CATTTCCATCGGATGTAGGAAAGCTTTCTGAACAGCATGAAAAAAACCATACACACATTCTCTTC
AGATCAGAAAGAAGATTCTCAAATTGAGATTCAGATGTGATTTACGCCAATAGGTGAACATGAAC
AGCCGGAGTGAATTCCTGAAAAAGTGAAGAAAAGGATGCATCGAAAGTTAGTCTGTCTAACAGGG
ATTACACTCTTGCAAGGGGGCGTTGCTGGGTCCTGTCCTTCATTGTCGTAAGGGGACAGTGTGAC
CAGCGTGTGTGTGCCAACGACATAGTCAGAAAACCCAATTTCCTGCTAGGGAGCTGGGTAGGAAT
TATCACTCACTAAGTTCGGGTATTCATTTGATTAACGCTTACTTAATTCCTGTAATTGTTGGGAC
GGCCTATTCGTCTAGATCCTCTTCTTCGCCTATGTCTTAGCAGAC
Found at i:241304 original size:15 final size:16
Alignment explanation
Indices: 241284--241314 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
241274 TACGTCGTTT
241284 AGTTTA-GCAACAAAA
1 AGTTTAGGCAACAAAA
241299 AGTTTAGGCAACAAAA
1 AGTTTAGGCAACAAAA
241315 TCCGTCAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.52, C:0.13, G:0.16, T:0.19
Consensus pattern (16 bp):
AGTTTAGGCAACAAAA
Left flanking sequence: Indices 240784 -- 241283
TTTTCTCTTTATCAGGTAGGAGGTAATGGTAGGGGGTTTATACAGCACATCGTGAGAGAGTTCTG
TCCCTCCCATCCATCAGCAGAGATAGGATGGATGTATAGAGGAATCAATGAGGGATAAATCGATG
ATGAATAGTTAAGCTAGGTAGGGCCAAAAGGTGATTTATAGGCATAGAGACTTCAAGACCCCGTT
CCTTTAAGAATCACATAACCTAACTTGCAGTTGCTGCCATGGCTCTATACTCAGCCTCTGTGCTC
GACTTTGACTATTGCAAAGGCTAAGGTGGCTTCCCCAACTTTTTATTATGATGACCACTTTGAAT
ATGTTCTGTGAGGAATCTGGAGAGAAGGTGAGTCTATCCAAATCGAAGATGTTAGTCTCTTCTCT
AAGAACATTGATTCTCATCAAGCTGCAGATCTCAGTAGATACTGTGGAATCCCTTTTAACCGTTA
GAAATGTATGCTTTTATAACTGGCATGCCATATTGTACGTCGTTT
Right flanking sequence: Indices 241315 -- 241814
TCCGTCAAGAAATGCCTTTTATCTTACGAGTGCCTCGCCAGCTACTCCACAAGGGACCAGAAAGA
GAGAATTGATCCACGACTCTTTGACGAGACCTGAGACCGGTAACTCTAACCAAGTTGGTATCCAC
TTCTTTTTTTGGATCTCGTCGAGTTCGACTTTCGAGGTGCTTCGTTCCAGTAAAAAGAGTAATTA
TCTCTTCTGCCACCGTAAGAGGGGCTGATTGGGATTGTTTAAGCAACTCACGTAATCGTTGACCT
TCTTGCCAATCAAATGATTCTGACTAGCTTTCTTTCTCGAGATCAGAAGCAAATTGCGCAAAGGC
TTCTTCTAATTCAGCGAATTGACACCCCTTTAATTTGTCCGAAGAAAGTTTGTGACTTACAGCCA
TAAAGAAGGGGGCCTCGACTTGTACCAGCCACTTATGCCGATTTGTCTGCCTAACTAAACTAAGG
ATCGGGCTTTGACTTGACCCAGTCGTCATGCCAGCCCTTTTTTAT
Found at i:249024 original size:17 final size:17
Alignment explanation
Indices: 249002--249036 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
248992 GCCAAAGACT
249002 TCCAGTCTATTTACCAA
1 TCCAGTCTATTTACCAA
249019 TCCAGTCTATTTACCAA
1 TCCAGTCTATTTACCAA
249036 T
1 T
249037 GAAAGACTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.29, G:0.06, T:0.37
Consensus pattern (17 bp):
TCCAGTCTATTTACCAA
Left flanking sequence: Indices 248502 -- 249001
GCGCCTTTCTCCCCCTGTGATTATGGCTCGCCCGCCCAGTCTAGTACCAAAGCACCCCGGTTCAA
TACCCGGGAGTAGAAGAGAAAACTCCTCTTTCTCATAAGTAGTGCCTCTCCTTCTCTACTACCGT
AGCTGTCGGAAATAGCGAATTTGACTTCTTTTCCCCTTTCCCTCATCTTCCTAATGGTGTTGGCA
AGAATCTCTTCGAGAATAGTTAGATTCTCCTTCTAAGACTTTTGTTGGACGCTAGAGGTGATCGT
AGAAAGAGAGACTTTCTTTTCTTTTTCCAATTTCCTCAGTTCGGATTCTTCTCTGCAACCCGGGA
AGATGAAGAGGAGAGTCATCAAAGGGATCAATAGTTTTCCTCGAGTCTTCTTGTCTGCGGTGGGG
AATGCATTCCGGTGCGATGTCTCCGGTTTAGACACCAGGCGCCAACCTTCCTAAAGGGCTCTGTC
TTTATTTAGGTGAGGGCGAGTAGGTCAGCGCACTAGCCAAAGACT
Right flanking sequence: Indices 249037 -- 249536
GAAAGACTGATTCTTGATCTTCGAGCGCTTTGGTGCGCAGGCTTGGCTCCGGATCTTTGAAAAAG
TCCTCGATGCGGCTTCTAAAGAAAGTCAACTTAGGCATCTTCAAGAGCTTAACCAAAGAGAGGTG
CATCGCGGTATACTTTTTTCTTTTCTTCGGTGGGTCATGATTCCTAAGTCGGGGTGCTTATAAAC
CTCTCTTCACTTTCTGGCGGGCATGCCCTGCAAGTCTCGTACGGTGGCGATTTTGAGTTGTCTTT
TTGATATGCCACCCGGATCTCACTCTCCCGAAGTGCTATCCTAAGTGCGTACTGGTTCATCACCG
ACGGGGGATTTCCGATCACGTAAAAAAAACCTCGTTCTATTTGTCTTTTTTTTTTCATGACTTAT
TTTATCATCTCTTTCCTCAAACGAAGGATTCTCCAACGCTATTCTTTCCTAAGTTTTCCCTTTCA
TCAGTACGTTTAGTCCTTCTAAATTACCTAAATTCTACGTCAACT
Found at i:262239 original size:15 final size:15
Alignment explanation
Indices: 262219--262249 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
262209 ATCTCATAGG
262219 AATGTTAAGAATGAA
1 AATGTTAAGAATGAA
262234 AATGTTAAGAATGAA
1 AATGTTAAGAATGAA
262249 A
1 A
262250 TAGATTCAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.19, T:0.26
Consensus pattern (15 bp):
AATGTTAAGAATGAA
Left flanking sequence: Indices 261719 -- 262218
GCCTTCAAAGACATCTCTGCAAATAGCGGAAGTAATTTGATGTCTGATCTTTATCTTGCAGACAT
AAGATCGGGTGAAGAAAGTGCTCAATCAGACCTTCTTTTAGGTGTCCTGCTCCCTATAGTTGATA
GTGGGACCTCCTTGCTCTTCTTCTTGACCCTGAAGAAGTTAGCTCTGAAGGCATAACTCTGGGCT
TCTAGTAGCCCTTCCGACAACAGATTCAATTGCAGCAGTTACTCTAACAGCGGCAATCGCCCATG
GTTCTGCTCTACTATATTCACATGTTGGCCCAAGGCTCACTCCCAGCCCTAAGCTAAGCCCTACG
GTTCCTTCGCTTCCCGCCGTTAAGAGTTATGGCTTATAGGATAATAAGAGTTAAGGACAGTAGTT
AGCAATCCCGGTATTCAAGATGAGGAAGTTAGCTGGCTGGCTGGGGTAACTCTCCTTGCCGAGGA
GATAAAGAATGCTTACTCAAGCCCAAGAAGGAGCTATCTCATAGG
Right flanking sequence: Indices 262250 -- 262749
TAGATTCAACTATAGCAAGTCAACTCACCTTTGCTTTTAAGAAAAATTGTTGGCAAGCAAATAAC
TTGTTACTCTTTTTCTTTCTGTAAGTCAAGTCCCCGGTGATCCAAAACCTCAGTCAGGGCGGAGT
TAAAGATAATAGAATAGAATATGAAAGAAATGTTTTTGAATCTTTTTGGGATCGGGCTAAGGATG
TTCAATGTTCAAGCGTAGTCAATCCATTCATCTGAGGAGTTTACCGCTCCGTGGGGGCTGTCATT
TTTCCTCTGCTGCGTCTGACTGTCCTCATTCTAGTTGGTAGGCGTGCGAGTAAGAGAGTAGTAGG
CGAAGTTCTATGAATTGAATGGGACTTCAGCTTCGACAATCGTATCCTCCCTCCAGCAAATAAGG
TGGAGTGGGCAAGGCAGAGAAGACAGGAAAAGACAAGCTCAAACTTCAGCATTTCCATTACCTGC
TCCAGTAAAGGAAGCATTTCCTGTGAATAAGAACTCGAATTGGAA
Found at i:271832 original size:7 final size:7
Alignment explanation
Indices: 271820--271847 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
271810 GGTAGGCTCT
271820 TGCTTAA
1 TGCTTAA
271827 TGCTTAA
1 TGCTTAA
271834 TGCTTAA
1 TGCTTAA
271841 TGCTTAA
1 TGCTTAA
271848 AGCGGTTCGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (7 bp):
TGCTTAA
Left flanking sequence: Indices 271320 -- 271819
TATGGCGGCTTACCTTCGTACATTCAAGAACAGTTGTGACTCCTTGGCATCTATCAATGCACCGG
TGTCCCAATCTGATATGTTTACATTCCTTCTTGCTGGCCTGCCTTCGGAGTATGAAAGCTTTGTC
ACTACGGCGAAGCTTCAACGACCAAAACCAACTATGGCTGAGCTTCGGTCCAGCTTGTTGTTACA
TGAGTCTTGGCTTCAGCAGATGCATCCTATTACTATGTTGATGATCTTGTATACTAACCGAGTCC
GCACTCGCCCGAGAACACGTACGTCCTCCCTGTAATTGTCTTGTCTTTGTTATGGTTTCAGGGCC
TACGTCTACCCGTATGGAGCCACCATCATTCGCAAGGCTTGCTTTACATTGGACCCGATGTTGAG
CCTCTCATAGCCTAGTACCGGTGAACTAGGCAAGCGACCCTGCAAGGCAGCCAGCCTTTCTGCAA
AATCAATGTCCGCCTCGCCGCTGCTTTCGGGTAGAGGTAGGCTCT
Right flanking sequence: Indices 271848 -- 272347
AGCGGTTCGAGCTGCTCTCGCTCATTCTTTCGTTGTTGCTAGCTTGCGGTCACTGCGATGGTCAC
AAGCTCTCACTAGAAGGATCGGAACACACAACAGTAGCCCAGGCTTAGGTTAGGGCGCATGATCT
CATTGCAGGGCTTGACCACTCATGCTCATCTCGATAAGAAGACTAGACTTCGTTCGCTAGGGCAG
CTGATAGCTAGCTTAGGCTTCTCGGCCAGTTTCCCCTGTATTGATCCATTGTGTTAGCCGGCGAA
AGTGGGCATGCTTTCATCGCTTCCGTGCTCCTAGTTTTCCATTGCATTGAGGAAGGTGATGTCCT
ACGGTCAAGTCAAACGGAATCTTTGTTAGGAATATTATCACATAAGTGTTTGTAAATGAAGAAAG
GATTTTTGATTGTTGAAAGAAGAACCCTAAGGCCAGAGTGAGAAGAGTTATGACCCGATAGCTCT
ATGCCTACGGTTCCTTGTTAGGGGTTCATATAACATCTAAAGCTA
Found at i:274594 original size:155 final size:156
Alignment explanation
Indices: 274341--274621 Score: 370
Period size: 155 Copynumber: 1.8 Consensus size: 156
274331 GTACCGGCAG
* * * * * *
274341 AGACGGATTCAGAATTGGAAGTTTGCGGGTTTGAGATTCTCGCTTTTTTTAGTTATTGAGTTTGA
1 AGACAGATTCAGAATTGGAAGTCTACGAGTTTGAGAATCTAGC-TTTTTTAGTTATTGAGTTTGA
* * * * * * * *
274406 ATTTAGTAATTTGGACAAAAGTCGTTGGGTTCGGTTGAATCTGTACCTTCTATCGTGCATCCACG
65 ATTTAATAATTTGGACAAAAGTCATTGGATTCGGTCGAACCTGTACCCTCAACCGTGCATCCACG
274471 CATCCCTGATCAACTATGAAATTCGAA
130 CATCCCTGATCAACTATGAAATTCGAA
*
274498 AGACAGATTCAGAATTGGAAGTCTATGAGTTTGAGAATCTAGC-TTTTTAGTTATTGAGTTTTGA
1 AGACAGATTCAGAATTGGAAGTCTACGAGTTTGAGAATCTAGCTTTTTTAGTTATTGAG-TTTGA
*
274562 A-TTAATAATTTGGACAACAA-TTATTGGATTCGGTCGAACCTGTACCCTCAACCGTGCATC
65 ATTTAATAATTTGGACAA-AAGTCATTGGATTCGGTCGAACCTGTACCCTCAACCGTGCATC
274622 AGCACCTGAT
Statistics
Matches: 106, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
155 62 0.58
156 8 0.08
157 36 0.34
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.36
Consensus pattern (156 bp):
AGACAGATTCAGAATTGGAAGTCTACGAGTTTGAGAATCTAGCTTTTTTAGTTATTGAGTTTGAA
TTTAATAATTTGGACAAAAGTCATTGGATTCGGTCGAACCTGTACCCTCAACCGTGCATCCACGC
ATCCCTGATCAACTATGAAATTCGAA
Left flanking sequence: Indices 273841 -- 274340
TTGAGATTTTTTAGCACGGAAAACAATACAAATACCGAACACCAGATAAAAAAAGGGGATTAAAG
AAACAAACCAGCATGCTTAGGAATGAGACGCCAATTACGAGTTCCATGTTGAGCAATGTAAGATG
AAAGCTTATGATCTTCCTCTGGTGTCCATTGTCCCCTCTTGACATTGTCTTTTTCACAACATGGA
ATTCTCCCCATCTCTCCAAAATTTTGTGTTAAAATGGTTAAAGATGAACTTGTTTGTTTTTCACT
TTGTTTAGTGTTTTTCTTTTTCGAAAATCGAAAGAAATGTATATATAGTGTGTTAAATGTTATGT
GAAGGGGGGTGTGTCAATAAGGCATCAAAGGTGCATGACATGATTAAAGAATTCAACGATGTTGA
GCGTGTGAGACATTGGCCGGTAGCTCACCCACAAGACGCCCGGTCAACTCTCTTTCTTACTATGT
GTTAATTGTGTGCACATGCATGGGGTTGACCACTCGTACCGGCAG
Right flanking sequence: Indices 274622 -- 275121
AGCACCTGATCCACGACGAAATAAGAAATTCTAATTAATCTATTTTTTAGAAAAAGAAATTAGAA
CGGTCTATTTCCATAACTTTTCACGATACGATGGCATTATAGTAACGAGAGCTTTTACTTTTTCA
TTATATTATATTAGTAAAGCGTTAGCACCTCCATAGAGTAAGGCTCTCTTCTGGTTCTGGATAGC
TGCAAAGCCTTCTATGTTGGTATGGAGACTGCTTCCCGTTCGCTAAACAACCCCCTATTGCAACA
CTTAACTATCCTTCAAGGGGCGAACTCCACCTATTTTTGAGCGGCGATCCGAAAATGAAAATCAA
TCTCTTCATACAATCCGTCTTGGTGTTATGATGTAGACGTGAGAGTCTTCCCAGATGTGACTAGA
GAATAGCCCAACATAACCCGATTATCACGTTAGCGGGACTAGTGACTCCGCACTTTCTTCGTCCG
AATTCATTTGATTCCAAGTGCTCCCTATTCCGATCGAAGAAGGAT
Found at i:312942 original size:18 final size:18
Alignment explanation
Indices: 312874--312933 Score: 93
Period size: 18 Copynumber: 3.3 Consensus size: 18
312864 GTCACGATCG
*
312874 ATATCGTCACTAGCATCA
1 ATATCGTCACTATCATCA
* *
312892 AGATTGTCACTATCATCA
1 ATATCGTCACTATCATCA
312910 ATATCGTCACTATCATCA
1 ATATCGTCACTATCATCA
312928 ATATCG
1 ATATCG
312934 ATCTCATCAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.33, C:0.25, G:0.10, T:0.32
Consensus pattern (18 bp):
ATATCGTCACTATCATCA
Left flanking sequence: Indices 312374 -- 312873
TACTAATCGATAGGACCTCATTGGTAAGTGCTACAAGATCTCGTGCATTGGAACCCATGGTTATG
GACCCGAATCCGTTAGTATGGAACATTTTCTTTTCCAAGTGAAATCCCCTAGTATATGAAAGAGT
GAAAAAGTGCTTTCGTTGTTGTGGAATAAGAAGCCTTCGTATCTTAATGCACGTATTTAATTTAT
TCGGAGCTATTAGAGCGGGATCTACTTTTTGGGGAATATGAGTCGAAGCAATAACAAGAATATTT
CTAGTAGAACATCTTTCACAATCCCTGGAGAGATGGTTCACTAATAGACCGAGGGATAAGTCATT
CGACTCATTCACATCCAGATCATGAATGTTTGGAATCCATATTATGCAAGGAGACATTGCTTTTG
CTAATTCGAATTGAAGGGTGATATAAAATCGGTCTATTTCCGGCATCATATCCACAGTTAGCCCA
TTCATCCTAGTTAGCAGTTCCAGCTCCGTATCAAGGTCACGATCG
Right flanking sequence: Indices 312934 -- 313433
ATCTCATCAAGAAGAAAACCTTTAGACTTGTTATCCAGGAACTTGTTCAGAAATACCGTAATGAA
AGGAACATAGGAGTTTGTCGCTAGGTATTTGACCAAATAGGATCGTCCAGTTCCTATAGAACCTA
TCACTAAAATACCCCTAGAGGGGGATAAGGCTAAGCGGAGCGAAAAGGGTTTTCCATGAGATGGG
AAATGAAAACTATTTTCCCCACACGAAGTTTGTGAATAAGTGATTGTCTGATAATGAGCAAGGAA
TATCCGTCTTTCTGCTAAACAGGATGGATTGAACTCATAATTCATTAGATGCTTTTTATGAATGT
CAACTAAGTATCGTAAGTAAATTGCTCCCGGTTGTTCAATCATTTGATAACCAGAGTCATTCTTT
GATAAATGATCACTATGAGTCAGACTCAATAGAATTTGATCAATCCTATTTTCTGTCGTTAAGGT
GGAGAAATGAACCAAGAATTCTTTTTCTTCATCATCAATCGAATC
Found at i:315367 original size:24 final size:22
Alignment explanation
Indices: 315286--315375 Score: 85
Period size: 21 Copynumber: 4.1 Consensus size: 22
315276 ACTCACACAG
* * *
315286 AAAAAAGGAAGTGAGTTAGACA
1 AAAAAAAGAAGTGACTTGGACA
* **
315308 AAAATAA-AAGCAACTTGGAC-
1 AAAAAAAGAAGTGACTTGGACA
315328 AAAAAAAGAAGTGACTTGGACA
1 AAAAAAAGAAGTGACTTGGACA
*
315350 AAAAGAAACGAAGTGACTTAGACA
1 AAAA-AAA-GAAGTGACTTGGACA
315374 AA
1 AA
315376 TCTTTTTTGT
Statistics
Matches: 54, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
20 6 0.11
21 20 0.37
22 9 0.17
23 3 0.06
24 16 0.30
ACGTcount: A:0.56, C:0.10, G:0.21, T:0.13
Consensus pattern (22 bp):
AAAAAAAGAAGTGACTTGGACA
Left flanking sequence: Indices 314786 -- 315285
GTCCATACGTAAAATCCGAATTATTGATACGGGCCTTTTCCACAGAAAAGGGGAATCTTGTGTTC
CAATAGAAGCAGAAGTGATGTGGATTATTCAAGAATCGAAGTCGATTTGCTTTATAAAAAGAAGA
TATCAATGAACTTCTATGAAATGGTTTCACGGGATTCAGCCAATTGTCTTGATCGTGGAATATCA
TTGAGAAATAGGAATCCGGGCTATCAAAGGATTTCCTGCGATTATTTCGAGTATGGAATGAGTCA
ATCATCCACTTTGGTATCTTATTGAACAAAAATGGTGATATTGTTCCTCCATTGATCAAGAATTT
CGATTTTTGGGAAGTATCATGATCGTCCAATAAGAAGGGTTTCAATTTTTTCAAATGAACAATTT
GAAGACCTATTGATTCTAACAACTGATTGCAGAGTTGATCATTCGGACCTTTCAATTCATAGATG
TAGATCTCGGACCTATGAATGGGGATATTTCCGAAACTCACACAG
Right flanking sequence: Indices 315376 -- 315875
TCTTTTTTGTCGATAACCTCAGACCAATCAATCGAATATTGATTAATACGTAATCGATCGAACAC
TACTTGAAAACGGCTCTTCTGCTCCGAAACGGACTGTTCCAAATGTTCCTGGAAATTCTTGCTCC
CATTGGACCATTTGTATCTATATGCATCAGGATCCCGATTCATGGATCTCTCGGTTCGAGAAATC
AAAATAAGAGGCTCGAACCATTTCTTCTGACTCTTTTTCAAATTCGATAAATATTGGTTGATCGT
ATATTTCATTATAGTTCTATGATTCAGAGTATCCTTTCCTATTTGATCCCTTTGAATTCCATATT
CGAAGTTGCGATCGGATCTATTCATTAAAAAGAATCGATTCAATACATTTCTTATGTACCCATAG
GTACTATATTGGATTTGAATCAGATTTCGGATCAATCTATATTGAGTGACTGCCTCCATTATGTT
GTTGCTAGCAAATAGTGCCTCTGGAATTATGAAATCCTCTTCTAG
Found at i:317711 original size:17 final size:17
Alignment explanation
Indices: 317678--317711 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
317668 CGCTCCTGAC
* *
317678 TATTCATATTCACGGCT
1 TATTCATAATCAAGGCT
317695 TATTCATAATCAAGGCT
1 TATTCATAATCAAGGCT
317712 CTAACCTCCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (17 bp):
TATTCATAATCAAGGCT
Left flanking sequence: Indices 317178 -- 317677
GGCCTTGAGGGTAATGTCGGAGCCTCTGCCTAGCCCACACCAAGGCGAGGCACGTCTTTTCCAAG
GTCGAATATGACGACTCGTAGTCCGTCAGCTTCTTTCTCAGGTAGTAATCTTTCCTTTCTTCCCC
TTTCATCATGCTGGCCTAAGACGCATCTCATGGAGTTTTCCGTGACCGAGAGGTATAGCAAGAGG
GTTCTTCCCTTAATAAAAAAAGTACCAAGACCGGAGAATAAAAAAGATAGGTCTTAATCTTCTCG
AAAGCACTCTGCATAGTCAGTCTAGGGCATCGTTCTACTCCTTTTCTTCTTCCTCAAGAGCTTGA
AAATGGGCTCGCAAAAGGGAGTGAGCTGTGCGATGAACCTGCTGATATACTACCCAAGAATCCTC
TTCTTTCTTTCCTTTCTATCCCTTTCCTTTCTCGGGGAATGAGCACACCTTCAACTAGTCACCAG
TGCCCAGATTTTCTGTCTCTGCCAGCTCGTAACCTCGCTCCTGAC
Right flanking sequence: Indices 317712 -- 318211
CTAACCTCCTAATCAAGGAGTGGAATTCTCTGCTCCCCTCGGAAAACTCCATTGCTTTGACCATC
CTCAATGACCTGAGGATGCTTCTAGCCTTCAAAGAAGACCAATTGACCACTACTACTATAATGGA
GAAAGGACAATCTGCCTTCTAACCCGAGGTCCAGGTATTCCGGCCCCAGAGAGAGAGCGTGCCAA
AGCCCGATGAATAGACAGGGGATGGACAGTCCTTGGAGCCGTACCACCAAGAAGAAGATCAAGGG
AATCTCTACCATCAGGCTTCGAATCTGAGGTTGAGGTCTAGCCTCTCTTTTCAGTGGAAGTTGAG
CTCGTCGGATCTGCTGCCCGTGACGTGAGTGATCCTTAACCCTGCCCCTTCTTATTGCTATTTGT
GACATCGAGTGCTTAAGTGAGATCAGCGGTCTGGCAGGTCCTTGGACGCTGGCCCTTATAGTCTA
GTCTATTCGGACCTCTACTAGGGCTAGAGCTAGCCGGAAAAAGAA
Found at i:337110 original size:19 final size:19
Alignment explanation
Indices: 337083--337152 Score: 79
Period size: 19 Copynumber: 3.7 Consensus size: 19
337073 TTAGCAAGAT
337083 CTACAGGTCGTGGAACTTC
1 CTACAGGTCGTGGAACTTC
* * *
337102 CTACGGGTCGTGCAGCTTC
1 CTACAGGTCGTGGAACTTC
* *
337121 CTACAGGTTGAGGAACTTC
1 CTACAGGTCGTGGAACTTC
337140 CTAC-GGCTCGTGG
1 CTACAGG-TCGTGG
337153 TCCTGGTTTT
Statistics
Matches: 40, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
18 2 0.05
19 38 0.95
ACGTcount: A:0.17, C:0.27, G:0.30, T:0.26
Consensus pattern (19 bp):
CTACAGGTCGTGGAACTTC
Left flanking sequence: Indices 336583 -- 337082
CTCTCTTTAGCTATAGCTAAAATGATGCTGGGAGTCCTGAAAAGCATTAGTGGTACCTGTTGGAT
TTTCCGCTCTTTCTCCATTAGTAGAGATCTTAAACATGGGGAGGCAGAAGGGTCAGGACTTCGAA
GCTCTGCTTCAAGTCTGGAAACTTCCTTTTGTAAATGCTTCAGCAATTGCTTCTCGGCAACAACC
TGGAAAAATGAAAGGAAAACAAGAAAGAAGAAGTCAAACATGAAGTTCTGCAAATTGTAGAATTA
CCTAGTAGAATAAGTATAGTGGAATAGGACCCCGGTTTTTACTGTAACACAGACTTATTTAACTT
GCATAAAAAGGAATACATAAATGGAATGCAACTGCATAATTTAATACAACATTTGGTTGGCCATA
TTAAAGTCCGCATTTGCTAACATCCACACAAGTAATACAAAGAATTTGTGTATGTGTATTTTTTT
ATGCCAAATAGAATATGGGATAAGAGAACATGTAATTAGCAAGAT
Right flanking sequence: Indices 337153 -- 337652
TCCTGGTTTTCTCACTATCGAGGCTTCCATTTTACGGCCATTCTACGGCCCATATTTGTTTCCTG
GAGCCATCTTGTTGGCTTGACTTAATAAAACAATCAATGGCATGTACTATAGAAGTTACCTAGAT
TTTACGGATTTAATTCACTTTACGAGATAACTAGTGGGCCTAAACAATTACTTAGGGGGTCTTAT
GGTTAAAGTTGCAGAGGAAAAAGAAAGCTATCTGGGAGGTGGAGGTTGACTATAAAATTCGTTTC
TCTCTGGCCCTATGGGAGTTTTTTCAGGGTTGAATTGCACCTCTAATCACCCTCAAGCACAACTA
CTCCAAGCTTGCAGGAATCTCGTCCAAAGGGATTGGCAGGACAGAAAATCCTTGTGCCACCAGTT
CCAATCTGGATTGGGAATTAATAAGCTGGGATTGCTCAGTTGGTAAAGTGAAGGACTGAAAATCC
TCATGTCATATGTTGCTTGAGATCTTCACTTTCGGTGCCAAAATC
Found at i:384050 original size:11 final size:11
Alignment explanation
Indices: 384036--384119 Score: 55
Period size: 11 Copynumber: 7.6 Consensus size: 11
384026 TGAGTTGAGT
384036 ATGAGTTAATG
1 ATGAGTTAATG
*
384047 ATGAGATAATG
1 ATGAGTTAATG
* *
384058 ATGAGATGATG
1 ATGAGTTAATG
* *
384069 ATGAGTTGAGTT
1 ATGAGTT-AATG
*
384081 ATGA--TGATG
1 ATGAGTTAATG
* *
384090 ATAAGTCAATG
1 ATGAGTTAATG
*
384101 ATGACTTAATTG
1 ATGAGTTAA-TG
384113 ATGAGTT
1 ATGAGTT
384120 GAGCATGATT
Statistics
Matches: 53, Mismatches: 16, Indels: 7
0.70 0.21 0.09
Matches are distributed among these distances:
9 4 0.08
10 1 0.02
11 35 0.66
12 13 0.25
ACGTcount: A:0.36, C:0.02, G:0.27, T:0.35
Consensus pattern (11 bp):
ATGAGTTAATG
Left flanking sequence: Indices 383536 -- 384035
ATTCTACACTCCCAGGTATGTAAGGCTTACCAAAGTGTAGATTTCTTTCTTCACACGCCCTTTTC
CATTATCTTGAGTCAAGAATTGAGGAGAGTTGAGGTTTTTGAGAAATTTCTTCCATTTTAATACT
ATATCTTTGTATTCATCATGAGGTCTTATTTTATACTACATTACATGAGAGAATTCCTATGTTTT
CATGAGCATGAATGGGAGATGCATACATGTGTTTTCATTCTTGATAGTACGAACCCTAATTTACA
TGTTTCCATGGAATTTTATGCATAAATTTTTCATATTGAATTGAATGGTTTGATGCACATTGAGT
TGAGTAACTTAAGTATACATGAGCATGAGGAGTATGTTGCATTGAGTCACATACATTATGATATA
TGATGTCTTGGTCGTATTGCATGACGAGTTGATTGAATGAGTCTAAATGACCGTTTGAGTCTAAG
CCGAGTTAATCATTTGCATTGATTGATTGAATTATTGAGTTGAGT
Right flanking sequence: Indices 384120 -- 384619
GAGCATGATTTAGTCTTGGGATAAGTATCGAACACCGAGCGAGGAGCGAGTATACTTCTACTTTA
ACCTACATAACTACGTTGCCAGCGTAGGATAGTTGTTAAATTGAGTCTGACGGCTCCTGTCCCGC
AAGTGGACATTTATTATGGATCCAAGAGAGAGTTGATCGCCCTTTTTTGTGTCAAGTTAAGGGCG
AGCGTGGCAACGATGCTGATTTGTTGTGCATCACCTAACTTAAGGTGGTGGGATGAGGATGTCGG
TTAAGAGAAACTCCCAAGCAATCTTGATTGAGCTTGATATTTCAAAATGAGTCTATCTATCATAT
ACATATTTTTAAAGCATGATTTACTTCAAATGTGCGTGCATACATTGAGTTGAGCATGAGTTGTT
GAGTAGAGATGAATAAGTTGAGTCGTATTTTCTTGGGCCATTTTACATACCAGTATATTCCATGT
ACTGACGTCCATTTTGGGCCTGCATCATTTTATGATACAGATACA
Found at i:384051 original size:22 final size:22
Alignment explanation
Indices: 384026--384084 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 22
384016 ATTGAATTAT
*
384026 TGAGTTGAGTATGAGTTAATGA
1 TGAGTTGAGTATGAGATAATGA
* * *
384048 TGAGAT-AATGATGAGATGATGA
1 TGAGTTGAGT-ATGAGATAATGA
384070 TGAGTTGAGTTATGA
1 TGAGTTGAG-TATGA
384085 TGATGATAAG
Statistics
Matches: 28, Mismatches: 6, Indels: 5
0.72 0.15 0.13
Matches are distributed among these distances:
21 2 0.07
22 20 0.71
23 5 0.18
24 1 0.04
ACGTcount: A:0.34, C:0.00, G:0.32, T:0.34
Consensus pattern (22 bp):
TGAGTTGAGTATGAGATAATGA
Left flanking sequence: Indices 383526 -- 384025
ATACTTCAAGATTCTACACTCCCAGGTATGTAAGGCTTACCAAAGTGTAGATTTCTTTCTTCACA
CGCCCTTTTCCATTATCTTGAGTCAAGAATTGAGGAGAGTTGAGGTTTTTGAGAAATTTCTTCCA
TTTTAATACTATATCTTTGTATTCATCATGAGGTCTTATTTTATACTACATTACATGAGAGAATT
CCTATGTTTTCATGAGCATGAATGGGAGATGCATACATGTGTTTTCATTCTTGATAGTACGAACC
CTAATTTACATGTTTCCATGGAATTTTATGCATAAATTTTTCATATTGAATTGAATGGTTTGATG
CACATTGAGTTGAGTAACTTAAGTATACATGAGCATGAGGAGTATGTTGCATTGAGTCACATACA
TTATGATATATGATGTCTTGGTCGTATTGCATGACGAGTTGATTGAATGAGTCTAAATGACCGTT
TGAGTCTAAGCCGAGTTAATCATTTGCATTGATTGATTGAATTAT
Right flanking sequence: Indices 384085 -- 384584
TGATGATAAGTCAATGATGACTTAATTGATGAGTTGAGCATGATTTAGTCTTGGGATAAGTATCG
AACACCGAGCGAGGAGCGAGTATACTTCTACTTTAACCTACATAACTACGTTGCCAGCGTAGGAT
AGTTGTTAAATTGAGTCTGACGGCTCCTGTCCCGCAAGTGGACATTTATTATGGATCCAAGAGAG
AGTTGATCGCCCTTTTTTGTGTCAAGTTAAGGGCGAGCGTGGCAACGATGCTGATTTGTTGTGCA
TCACCTAACTTAAGGTGGTGGGATGAGGATGTCGGTTAAGAGAAACTCCCAAGCAATCTTGATTG
AGCTTGATATTTCAAAATGAGTCTATCTATCATATACATATTTTTAAAGCATGATTTACTTCAAA
TGTGCGTGCATACATTGAGTTGAGCATGAGTTGTTGAGTAGAGATGAATAAGTTGAGTCGTATTT
TCTTGGGCCATTTTACATACCAGTATATTCCATGTACTGACGTCC
Found at i:398146 original size:24 final size:24
Alignment explanation
Indices: 398114--398160 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
398104 CCATTTCTTC
* *
398114 GGAATTGTCCGCTCATAGCACGAT
1 GGAAGTGTCCGATCATAGCACGAT
*
398138 GGAAGTGTCCGATTATAGCACGA
1 GGAAGTGTCCGATCATAGCACGA
398161 CGCGCTGCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (24 bp):
GGAAGTGTCCGATCATAGCACGAT
Left flanking sequence: Indices 397614 -- 398113
CAAATAACGAGATGGAAAAAAAAAGAAATATATATATGATAAAGACAAGTCGAAAGCCAAATTTT
TGATTCAAACGAAAACGATTTCTACGAACGAGAAAGGTCAGGCTCAAAAGAAGGATTGCAAAAAG
CAGGATATTTCTACCCGTGGTCATTATAGCGGTTCCTTCTATTCCTAGAAAATGAAAAAAAGAAT
TGGCAGCTATGAAAGTAAGAAAGGTCAAAAAATAACGAATGATAGTCATGGTTTGTCTTGTACAT
TCTTTAGGTACGACCACCGAACGAACTTGGTTGACGAACATAGTTTATGCGCCGCTAATGTAGCG
GCTTGACGAGCATTTGACAAACTCACACCATCCATTTCAAATAGGATTTGTCCCCTGGACACACG
AGCAATCCAACCCGTAGGATTTCCTTTTCCTCTTCCCATTCTTACTTCTGTAGGTTTCCCGGTAA
TAGGGATATCTGCGAGAACTCTTACCCATATCTTACCATTTCTTC
Right flanking sequence: Indices 398161 -- 398660
CGCGCTGCTTCAATGGCTCGATATGAAAGACGACCAGCTCTACAACTTTGAGTGCCATATCTTCC
AAAACCAAGTTGTGTACCGTCCGGTTTGCAACCCCTACTACATCTGCCTTTACGATATTTACTAA
ATTTCGTACGTTTCGGATATAGCATGTCCCCCCTTTTTTTTACTATATGAAATCCACACTTTGAC
ACCTGAGATTCCGTAACGAGTAGATACTTCCGCAGGAGCATAATCTATTTTCTGGTTAAATACAT
TACGAGATGTTTTTCCATACTTTCCGCATTCAGTTCTAGCGATTTCTGCACCTTCTAATCGACCT
GAACAACATATACGGATCCCCTCCACCCCCTTTTTCATTACTAATGGAATATCCTTCACTATTTT
ACGAAAAATGGAACGAAATGATCTTGTTTTGTTCCTCGGTTGAAAAGAGATGTCTTGAGCAATCG
GAGAAGCACTTTGATAAACAGATTTGATCTTGACCGATTCAATTA
Found at i:471256 original size:21 final size:20
Alignment explanation
Indices: 471215--471257 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
471205 GTCGAGAAGA
* * *
471215 TTTTTTCTCTTAGAGAGGCG
1 TTTTTTCGCTTAGAAAAGCG
471235 TTTTCTTCGCTTAGAAAAGCG
1 TTTT-TTCGCTTAGAAAAGCG
471256 TT
1 TT
471258 CCTTCTCTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.19, C:0.16, G:0.21, T:0.44
Consensus pattern (20 bp):
TTTTTTCGCTTAGAAAAGCG
Left flanking sequence: Indices 470715 -- 471214
GAACCACTTAAATGGAGGAATCGATTGTATTTCGTCCTTTGTTCCCCATAGCAACTGGGGATCAA
AAAACACCAAATTTGATGACTTATTAAGGGAAAGACGAAGTAAGAGCATGCTATTGGAGACGTTG
CAACATATGTCGGGAAGGCCTCCGTTGATTGTGTACGAACAAAATACGAATCCAAAGGCAGGGTA
AGAAAGGGTTTAGCTAATGGAGATATTAACTCTTCCGGGAACCAGTAACGCGTAAACCATGTCAA
ACCAAGACCAATCAATATCCGAACGGAACGGATTCGAACTTCTCCTAGAATAGTTTCCGGTGCGA
AATGAAATTCATAGGATATATATGAGTAATTCAAAGGAGAAATAGAAATATTTGATAGGATTCGA
TTCATTTTAGTAATGAACAAAACTAATAGGATTGATTATGTATCAGAACTGAATCACTACACGAA
TCAGAACTTGAAACAATGAAAAAATAATGTTATGGGTCGAGAAGA
Right flanking sequence: Indices 471258 -- 471757
CCTTCTCTCAAGGGATTTCCATAACTCAACTAACTCTCGGCGATGGTGCATTTCCAATTGGGCTT
GGTGCTTTTGTTTTAAAAAGCCCTGGAAATGCTCTGCCTGGGTCCTTTTGACTTCCGCATAGAAT
GGGGATTCTTCTCTGTCCCCACACAGGCTTTCCAAGACCTGGCATAGAGCCGGGTGATTGAATTC
AAAGGGTTCAAGGTGTACCCTCAGTATGGAATCCAGGTCTTGTGGATCAATGAAGAGTTGGGGAT
CCTCCCGACCATAATAAAGTTGTTGACCAACGGAAAGCATGGGAGAAAGATGCACAAACGAAAAA
GGGCTCAAAAAAAAGAAGGAATTTCATATATAAAAAGAGCGGTACACTTCACACCAACCCAATCT
CGAAAAATAAAGAGAAGTACAAGCAAGGACATTTTCTCGATCAAGAAGGTATTGAACTTCTCGAC
GCACCTCTATCAATTCCTTCTTTGCCTCATCTTCTTCTCTTATGA
Done.