Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_065232
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: 535727
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Found at i:3100 original size:18 final size:18
Alignment explanation
Indices: 3060--3102 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
3050 ACCGCCCTGC
3060 CATAGTCGCGAGTCTGTTT
1 CATAGTCGCGAG-CTGTTT
3079 -ATAGTCGCGA-CTGTTGT
1 CATAGTCGCGAGCTGTT-T
3096 CATAGTC
1 CATAGTC
3103 AACAAGGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 5 0.23
17 1 0.05
18 16 0.73
ACGTcount: A:0.19, C:0.21, G:0.26, T:0.35
Consensus pattern (18 bp):
CATAGTCGCGAGCTGTTT
Left flanking sequence: Indices 2560 -- 3059
CCTTGAAAGCTTCTTTTTCAAGTGTCAGTAGCGGAACGTTCTGTCAATCGGGAAGGTTTTGGTGA
CAACACCTGGAGATATCAGAAGTGAGAATGCTGACATGAGTAACGATAAATCCTGTGAAAAACAC
GATCGCCTGCCAGTGGAAGGCTTTCTGCGTTCAGTCAATCTACGCAGAGTGAATCGGTCCCTAAG
GAACCCCCGAAAGGGCTGCCGTCCGATGGGTACACGAAAGTGACGAAGTTGCTTTGACTACAGAA
CCATGCCTATCTGTTGGAGCGAATTGGATGATCGGGCCGAGGGCTGCCCCCTCTTCCCCTCACTC
TCCTTTCCCTAATATGAACCTTGAGTCATCAAAGCCTTTCTGACTCGGCCTGGCCCGGTCGCCCT
ACGCGACTGGCGCTTCAAAAGGCGAAACTCGTCGTAGTTTGGCGACCTAAGGGGCCCTTAGTCTT
TTGATTAGAGTAGGGGTCGCGAGAGAGCAGAGCGTACCGCCCTGC
Right flanking sequence: Indices 3103 -- 3602
AACAAGGTTGAAACTTCCAGGAAAAAACTTCGAATTGGGAGGGCGATCCTCCCGGTGAACTGACC
GTACCCCAAACCGACACAGGTGAACAGGTAGAGTATACTAGGGCGCTTGAGAGAACCATGTCGAA
GGAACTCGGCAAAATAGCCCCGTAACTTCGGGAGAAGGGGTGCTCTCCTATCTTTTGATTAGGAA
AGCGGCACATACCAGGGGGTAGCGACTGTTTATTAAAAACACAGGACTCTGCTAAGTGGTAACAC
GATGTATAGAGTCTGACACCTGCCCGGTGCTGGAAGGTCGGAAGGAGAAGTGTTATAAGCTTTGA
ATGGAAGCCCCGGTGAACGGCGGCCGTAACTATAACGGTCCTAAGGTAGCGAAATTCCTTGTCGG
GTAAGTTCCGACCCGCACGAAAGGCGTAACGACTGCCCCGCTGTCTCCGACATGGACTCAGTGAA
ATTGAATTCTCCGTGAAGATGCGGAGTACCAACGGCTAGACGGAA
Found at i:4508 original size:21 final size:21
Alignment explanation
Indices: 4482--4523 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
4472 CTTCCTCATT
4482 CGACTACCACAAGAAAGAGAA
1 CGACTACCACAAGAAAGAGAA
4503 CGACTACCACAAGAAAGAGAA
1 CGACTACCACAAGAAAGAGAA
4524 GTGGAAGAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.52, C:0.24, G:0.19, T:0.05
Consensus pattern (21 bp):
CGACTACCACAAGAAAGAGAA
Left flanking sequence: Indices 3982 -- 4481
CAGGCTGATCTTCCCCAAGAGCTCACATCGACGGGAAGGTTTGGCACCTCGATGTCGGCTCTTCG
CCACCTGGGGCTGTAGTATGTTCCAAGGGTTGGGCTGTTCGCCCATTAAAGCGGTACGTGAGCTG
GGTTCAGAACGTCGTGAGACAGTTCGGTTCCTATCTACCGTTGGTGTTAAAGGGAGAACTGCGAG
GAGCCAACCCTAGTACGAGAGGACTGGGTTGGGCCAACCTATGGTGTACCGGTTGTTATGCCAAT
AGCAGCGCCGGGCAGCTAAGTTGGTATGGAAGAACTGCAGCTCTGCGGGAAATCCTTCTCTATAC
AAGTTCTCGGAAGAGGTTTTAGAACAGAACTTCGATAGGCGAGAGGTGTAAGCACCGCGAGGTGT
GAAGCGATCTCGTACTAAACAACTTTACATAACTGAAAGAAAGTCAAACTCTTACTGCAATTGCG
GTCAGTCTCGATAACTCTTTAGTTGCCGCAACATACTTCCTCATT
Right flanking sequence: Indices 4524 -- 5023
GTGGAAGAAGCGGGGTAGAGTAATTGGTCGACTCATCAGGCTCATGCCCTGAAGACTGCAGGTTC
GAATCCTGTCCCCGCCTAATAAAATAACTCAAATTACTTGAGATGCATTTGTAGGTATTGGTCGG
TTACAGCTGGTGTATTTCTCCATAGATAGCATGGATTGGGAAAGAGTACGGCTGATTTATCACCC
TTCAGTTGAAGTAGGTTTTATTTGTGACGAAAGTTGTCACAAATAAAACCTATCGTTACGAACAA
ATGGCATAGAAACCCTTTACCCACACCTAAGCTAAGGAAGTCAAAGGGGAAAGAGCCTAGAGGAC
GCTTTGTTACCAGTTGAAAGTAGACACTTCCGAGAATGGTACCCATTGATCTCACAAAGCAAACC
CCCATTAGAAGACCCCAACCTACCCCCTAGACAACACCTTGCTGCAACACATTGACTAGGCAGAG
TTCAGAGACTTCACAGCAGCCTCGGGGGGTACTATTATTAGTCCC
Found at i:31224 original size:21 final size:20
Alignment explanation
Indices: 31194--31233 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
31184 CAAGCCGACC
31194 TAACCAACCTACGATATATAG
1 TAACCAACCTACGA-ATATAG
*
31215 TAACCGACCTACGAATATA
1 TAACCAACCTACGAATATA
31234 ACTTTGGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.42, C:0.25, G:0.10, T:0.23
Consensus pattern (20 bp):
TAACCAACCTACGAATATAG
Left flanking sequence: Indices 30694 -- 31193
AGACTCACCCTTGCCATGGGCGATAGCGGCTATGTCTAAGCAGCTGCTTTCCCATTCATTCCATA
GGTAAGTCTTATTTTTTGCTGTAAACGAAGAAGGAATGATTCAATATCATATCATAAAAGACCTA
GATGCTCTAGCTCCAAGAAAAGACTAAGAAAACTCCTTAAAAAGAGAAGAGTCAATCCTCAGCGT
CGGATTCTTCTTATGCTGATTGACCTAGCCGTGCGTTTCCAACTGTTATGACTGGGAGCTAGGCG
CTATTTAGCCCTCCATTTCTAAAGCAAGCAGGGGAGCTAGACTCGCTCGACTGAAAGGAACGAAG
TAGCTTGATTGATGAAAGGAACGAAGTAGCTTGACCGCGGGCGCAGGGAAAGGAGAGGGAGTCAC
CGAAGAGAAAAAATAAAGGTTCAAGACAATGAAAAATATAAACGCAGGAAGGAACAAAAGTCAAG
TATGTAATCTAGCAGTCATGAGAGCAGGTTAGAGGCAAGCCGACC
Right flanking sequence: Indices 31234 -- 31733
ACTTTGGGTTAGGTTGAAAAGTCTAGTTGGAAAAACAGATCAATCGCATCCCAAAGGGTCAAGGG
CTGAGTTGCACATTCTATTTTGGCCTCTTTTCTTAAGTAGAATGAAATGTTCGGCCTAATCTATG
ATATTGTGATTATGTTACTGTTATTTGGTCTTTTTCAAGCTTCCCAGAGTTGTCCTTCAGCAAGC
AATTATAGGGGTTGAAGGGGTACCCTTCTAGGTCGTCGCTTTAGTGGTCTAATTTCGGTCTTTTT
ACGTTATGGAGTTTACTCACTTCTTTTTTATATTATTAGAGTTGAGTCTGGTATCGATAGATTGG
CAACCTCTAGGGTACAAGCCCCTCCAGGTACACATATATGGGCTCTAATCCCAGGTTAAACTATC
CAGTCGAACTACGTAATCAAATAATCCATGGAAGACAGGGGTTGATCGAGTTTTGTACCCTTTAT
CGTTTTTGGGTATAGGCTGATAGTTAGGCGGTGACTCACGTATCC
Found at i:68687 original size:17 final size:17
Alignment explanation
Indices: 68665--68707 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
68655 TGGGGAAGAG
*
68665 AGGAAATCTTTCTTTAT
1 AGGAAATCTTTATTTAT
*
68682 AGGAAATTTTTATTTAT
1 AGGAAATCTTTATTTAT
*
68699 AGGGAATCT
1 AGGAAATCT
68708 GTGCTTACTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.16, T:0.44
Consensus pattern (17 bp):
AGGAAATCTTTATTTAT
Left flanking sequence: Indices 68165 -- 68664
TGTGAAGCGAGGCTGGCTCCATACCCATGATTTAAGGCGGGCGGGGAAGAAAGACTTTCTCTTGA
ACCAAAACTCAAGATGATCCGATCCGTGCTTCGCCCCGGAGAAATTATCTCTCTAAAACCAAACC
GATCTGATCCACAGGTCGTTCTGCCAACCGGGAAGAAATCTCTGTAGTGTGCAGTCCCTAGCCTT
ATGGGGTGGTGAAGCAGAGCAAGCAGCCCTCGTTAAGATAGGAATATCTATTAAATAGATAAAAA
GACGCTATTTTCATTCAACTGTGCTTGAAAGAGAGAGGATATGATATAAGGTAAGCCCCAATTCC
ACTGAAAGATTCAATTCAGTCAGCTTGGCTTTTTCTCTAGTTTGCCTTTTTGTCTACCTTCTTTA
GTCAATGTCGCATTTCGAGTGCTTGGTTAGATCTCCTAATGTAATGAACGAGAAGATGCGGTGAA
TCAATCAGTATTAGCTAAGGAAAGCATTCTAATTCTGGGGAAGAG
Right flanking sequence: Indices 68708 -- 69207
GTGCTTACTAAGCCTTTGTTTGAAGGACCGGTCTGAAAGTGCAAGACTAGCTGGACCCGGACTGA
CTAATCGCTAAGAGCTCACCCCGAGTGGGATAACTCTAAGTACGGCATTCAGTAAGAAGTAAGCC
AAGTTCAGTGATCCTCGAGAATGAACTATCAGGCCTAAAGCCTAGACTAGGAGGAAAGAACTGAT
GACTCGCATCCCCTTAATCTGAAACTCTCACAACACAAGAAGGATGGAAAGTCGTGGAATTGATC
GAAGTTAGCCAAGTTCTCTTAGCCGTTACGTTAGGGTGACTCGAGAAAGCTTGAAAGGGAATTCC
GAGAGCCCTTAAGCTTCAAGCTATCCGGCTTCAAGCCGTGAAGGAGGAATCCGAGTTGCATCCTA
AAATAAGGAAGATCGTTCATCAGCGCTTTCAGTAACTAAAAGTAAATCTGGTGCGTAATCAAGCT
AATCTCATTCCTTAGGAGCTGGAGCAATAAGAGATGAAAGAGTTT
Found at i:136078 original size:30 final size:30
Alignment explanation
Indices: 136042--136176 Score: 270
Period size: 30 Copynumber: 4.5 Consensus size: 30
136032 ATCTTCCGTC
136042 TCGTTACCCTCTCCTTTCAGTCGAGCTACT
1 TCGTTACCCTCTCCTTTCAGTCGAGCTACT
136072 TCGTTACCCTCTCCTTTCAGTCGAGCTACT
1 TCGTTACCCTCTCCTTTCAGTCGAGCTACT
136102 TCGTTACCCTCTCCTTTCAGTCGAGCTACT
1 TCGTTACCCTCTCCTTTCAGTCGAGCTACT
136132 TCGTTACCCTCTCCTTTCAGTCGAGCTACT
1 TCGTTACCCTCTCCTTTCAGTCGAGCTACT
136162 TCGTTACCCTCTCCT
1 TCGTTACCCTCTCCT
136177 CTGAGATACG
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 105 1.00
ACGTcount: A:0.13, C:0.38, G:0.13, T:0.37
Consensus pattern (30 bp):
TCGTTACCCTCTCCTTTCAGTCGAGCTACT
Left flanking sequence: Indices 135542 -- 136041
CTATTTTCTGGTTAAATACATTACGAGATGTTTTTCCATACTTTCCGCATTCAGTTCTAGTTATT
TCTGCGCCCCTCCACTTACTCGTAACAGGCTTTCCTCGCTAAACAAGAAGAAGCTGCTAAGGTTG
CCCAATTCGTTCTATCATGGGACAGGCAGGGTTTCGCACTAAGCAAGTAAACTACCTTTATCTAA
CTGAGTTATCTGTCCTGTGAGACATAGAAGGATTATCTCATTAACTCATTCAATCAGGAAGAAGT
TTAGTCATAACGATCAGGCTATTTCAGTAGTTTTAACCCTACCCTAAGAGCGTGTCTGTCCCTAT
ATTATTTCCTCTAAAGTGGAGTCATGTCTATAGACGATAGGATCTTACGCTCATGGGAGACCGGC
TCTATGCAAGCCGCAGCTCTGAACGCATATAGTTCTACTGGGCGTGAGTTTCTCGTTCCATGTGG
GATAGCTTGCTCTAGTTGACACCCCGAACTATCACATCTTCCGTC
Right flanking sequence: Indices 136177 -- 136676
CTGAGATACGAGCTTGACAACCACATAGTAATATCCTTTCAAGTACTCCTACAGGGATAGGATTT
TCCTTCTTTTTTCGACAACCAGTATAGAAAGTATCTCGCCCCTCTGTAATTCTTATCCGTCCCCA
GATGCTGAATGAGCTAATCCTGATCTTTCTCTCATAGGGTGAGAACAAGCTCGACCACTCTTAAG
CTAGCCCGAAGCTTGATCCCGCGGCCCCGATGCTACACATCAGTTCAGAACTCTACACATAAGTT
CCTTGGCTCTGCTCGCGAATCCATTGCAATTGGGGCGAAATAAATAAAATCCCTTTTTTCTCTGT
CTGTGCGCTTAGCATCGCTTTAGCCGCATTGCTATTGCTATCTGGGAATCGGGGATCATTCCTTA
GCGCTTCACACTAAGTAAGCAAGCTACCTCTCCCTATGTCGAGCAAGTAAACTACCTCTTACTCT
GCCTCAACAGGATCTGGGCTCCGCTTGTCTTGGTCCTTAAGTGGA
Found at i:151167 original size:22 final size:23
Alignment explanation
Indices: 151128--151173 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
151118 CTTTGAGACT
**
151128 TTCTTCTCTTTGCTAGAAT-CGC
1 TTCTTCTCTTTGAAAGAATGCGC
151150 TTCTTCTCTTTGAAAGAATGCGC
1 TTCTTCTCTTTGAAAGAATGCGC
151173 T
1 T
151174 GTGATCTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.17, C:0.24, G:0.15, T:0.43
Consensus pattern (23 bp):
TTCTTCTCTTTGAAAGAATGCGC
Left flanking sequence: Indices 150628 -- 151127
CGGAAAGGAATGGAATTTCTTTAAGCTTCACTCCGCTATCAGACTAGTTGCGAAGCGTTGGGATA
ACTAAAGTGGAATATGCCTCAACTAGTTGCCCAGGATGAGGCCATTGCAGCCACTAGCACGGCCA
AGTCACCAACCTATGGCTCCGGGGAAGCCGGCAGGGAGGAAGGATGATAATCCAACCAAAGGAAT
TAGCCACTCGTTCTATCAATAGGCGCCGTGGGCCTATGAGCTTCTGGGCCTGTACGATTTCCTGT
CCTCAACAGTTCAAAACGCTTGACACTGAGAGCTTTGGTGAATATTTTGCCTTTTGGTTATGGAG
TCTTTCCTTCCTTCCAAGCCGCTTTCAAAGCAGTAGGCAGTCTCTTCTTTCTTCTTATACGGTAG
CCAGTCTTTTTTAGAATGGTTGAATAGAGCCTCCCTTCTGTCTCCCAGTCTGTCTTATAAGAAGA
TAGTAGTAAGTCAGTTGTAGGTTTACGAATGGCTTCTTTGAGACT
Right flanking sequence: Indices 151174 -- 151673
GTGATCTTTTCAAGTTCATCCTAGCTATCATCTCAATCATTCTTCATTCACTTCGAGCCCTCGGG
TAGTTTTCTCATCCAGGAGAGTAGTCTTAGAGGCGGTCTCCTCCCTGTCCTTCTTAGATGGTATC
CTCTCTGTCCTTCCCCTTTCCCGGACTCGAGAACCCCTGAAGCGCACTGGAAGCATCTCAAGGAA
AAGAGAGAAGTCAAATATCGTAGGCTTTAGATAAGATTCCCTAGTAGATAGCTAAGCTAAGAGAG
TGCTCCGGAAGAGCTAATATTAAAAATTCTTTCCCTTTCTTTCACCGAGGAGGCTAACTAGATAG
ATGGTGGGTCTAAGGAAGAGAAGAATATGAGCTATATTTTCATCCCCTTTCAGTCCCTTTCCTTA
TCCTTAGAACAGTAGGGTTTGAAGCTGGCAAAGTCAATCAATCCAGCAGTCAAAGGGGCAAGTGC
AGTCACTCAACCAACGCCTTTCAAGCAATATCTTAAGTAGGGGTA
Found at i:161857 original size:19 final size:19
Alignment explanation
Indices: 161821--161875 Score: 62
Period size: 17 Copynumber: 3.0 Consensus size: 19
161811 ACTAAAGGGG
*
161821 TTATGAGTTAGAAG-AGTTA
1 TTATGAGTTA-TAGCAGTTA
161840 TTATGAGTTATAGCAG-T-
1 TTATGAGTTATAGCAGTTA
*
161857 TTAAGAGTTATAGCAGTTA
1 TTATGAGTTATAGCAGTTA
161876 GGGAGTTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
17 15 0.48
18 4 0.13
19 12 0.39
ACGTcount: A:0.35, C:0.04, G:0.24, T:0.38
Consensus pattern (19 bp):
TTATGAGTTATAGCAGTTA
Left flanking sequence: Indices 161321 -- 161820
TAAACTAACACTGATTTAAAGTTAGGGGAGCAGTGTAACTGCCATCAACTCCTATAACTCTTTTC
CTTAAGTTTAGGTTAGTTCCCTCTTAATTAGGTATTATGCAGAGTTCCTACCTAGAACTCCCTTA
TAAACTAGAAAGCTAACTCGAACTCGTAACTCAATTAATTTAAGTTACAGGTATGATAAATATAA
GTTACTGTTATTAGGCACATCCTTATTTCTTGTCCTTGTTGGGGAATCCTATATCTTTTAAGAAA
AAAGAAGTTTGAAGTCCTCTCCTTTGCAGTCGAGTTACTTTATTCCTCATAGCTTCACTCTTTTC
TTTTAGTTCCCTACGGGGTTAAGTTAAAGTCTTATTATTATTGATATTCCCCCTACGGCCGTTAT
TATTATTAATAGAATTCTAATTAGTTACCAGTAAAGTATTATTAGGTATTAAAAGTCTTTTTAGT
TAGGGGTGTAACTGGGGGCACTCCCCCGGAACTAAACTAAAGGGG
Right flanking sequence: Indices 161876 -- 162375
GGGAGTTATGAGTTGCTAATTGTCATTCTCTTTAGGGGTAGTTACAGGTATGATAAATATAAATC
TTAGTTACCGGTATTAGAAATATAAGTAATATAAATATATTGGTAGTTACAGATATTCTTAATTT
GGTGGAACTGGGGGGTCTGGCGCAGTGTAACTGCCCCCGGAACTGGTTTAAAGAAGAGTTAATTG
TCTTAATCTTTAGAAACTAATAGCTAGAAAAACAGGCTATTCCATCTAAGGCATAACATGAACCG
AGGAATCCAACCAAATAGGAATGAATAGGCATGTGGGAACAGCATTGCTTGCATTGATTCAATTG
ATTTGAAGCGGCGGTTATACTATACATACAGACATAGTTTTCACTAGGGGTTTTTACCGAGTTGG
TCACAAGCCCGTCAGAAGCAACCTCAGCAGAAAGCCACTCTTCCAGAGTCTCGTCCATCGTCTGC
TTAGGCGACTATTTAATAGCCTTTAGATCTGCCTGTGAGTTAGGC
Found at i:180748 original size:39 final size:39
Alignment explanation
Indices: 180705--180783 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
180695 CGATTTTCTA
* *
180705 TTCACTCATGATCTGGCCTGGTCGACTCGATCATGATAT
1 TTCACTCATGATCTGGCCTGGTCGACCCAATCATGATAT
180744 TTCACTCATGATCTGGCCTGGTCGACCCAATCATGATAT
1 TTCACTCATGATCTGGCCTGGTCGACCCAATCATGATAT
180783 T
1 T
180784 GAAGGATGGG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.22, C:0.27, G:0.19, T:0.33
Consensus pattern (39 bp):
TTCACTCATGATCTGGCCTGGTCGACCCAATCATGATAT
Left flanking sequence: Indices 180205 -- 180704
GCCCACACCTGTGTAGAGTGGATCGTTCAACACCTGCGGCACAAACCCATTTTTGACCTATTGGT
CCTAGTATCATAGGCGACCGAACGGCCGCCCCCTAATTACTAGACCAACCTGCTATAATAATTCC
ATAAACACCTAGCGAAGATATGGCAAACAAATAAAGTAGCCCTATGTTCGAATCTGACAATACCA
TACCATAATCAAAAGGTACAACGGCCCGAGCAACCAGACTTAACATAAATGTAGTCACTGGAGCC
ATTCTAAAAAGGGAGAAATTAGCACTACTTGGTGAAATAGGTTCTTTTAGAATCAATTTCAAACC
ATCTGCTAGAGGTTGTAACAATCCGAACGATCCCACTACATCAGGACCCTTTCGACGTTGCACAA
AAGCCATTACTTTACGTTCAGCTAGCACTAAAAAGGCTACTCCTAGTAGAAGTGGTAGAATTATT
CCAAGTATTTCGGCTGGAACAGCTATGTACGTTTTCGATTTTCTA
Right flanking sequence: Indices 180784 -- 181283
GAAGGATGGGACCTTTTCTCGAAAAACTCCGGATCCAGAGAAGAGTTGAAGATGGTGCAACATCG
TTCCCCTCTACGTTCTGTTAAAATGAAAAAACTTGCTAGAGCGAAAGCACTAACGCCAGAGCTTG
GGCAAAGTGGGGACTCTGCGTGCCCTGATTGACCAGATCTAAATAGATCTGGTTCAGACATTGAA
AGCTCTCGTCGCGAAAAAAAAGATGTTCGGATAACTCTTGGAGATTTACTTCTGCGGGTAGGTTC
ACGTTCCCATCCGGAGTAGTATCTCTATAGACTCTAAAAATTATTGAGAGTTGTTCCACTATTTT
TTCTTTAATAACATTCATGGTTACATCAGTAACCTTTGTTTCTATATTCATACTATCCATTAGAT
GGAGCATTTGGCCAGCTCTAACGGCTACAAGAATAGCTACAGGCAAAGCCAAACCCATCCTAGAT
ATAAAATCCGTAATCAGGTGATCCATATCCGCTATTATATCGTAG
Found at i:225219 original size:14 final size:14
Alignment explanation
Indices: 225200--225227 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
225190 GAAATAAGAG
225200 TACATATTCGAGAA
1 TACATATTCGAGAA
225214 TACATATTCGAGAA
1 TACATATTCGAGAA
225228 GAAGGGATGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (14 bp):
TACATATTCGAGAA
Left flanking sequence: Indices 224700 -- 225199
GATCAGCCAGAGATTCTTCTTCCTTGACTTGTGATCAATTAGACAAGAGGTGCATATAGCTCCTT
GTAGGTGCGGAGGAAAGATATCGGCTACAAAGAAAATTGAAGATGGCGACTCATAGTTAAGAGGA
TAAGTTCGGGTCTGGTGAAGTCCCTACATTAAAAGATTCGGCCTTGCGATCATGCCCCTTGAGTC
ACGGTACTTTGGTTTAGTCAGGATCACCCTGTAAAACTAGCTTAATAGAGGTCGAAATAAAAGAG
TTTTGAGGTTCAATCTTCAAGTAAGGAGGAGTAAAGAAGAGGAATCGCGAACATACTCAATAGAT
ATCTTTCTTCGACGAGGCGGTGCCTATTAAAGAGTTATTATTTCAGGGACGCCACCCCGATGAAT
GCTACCCGAGGATGAGGCCTTGCTTGCTTATTATGTGGTAATTGTCTACCTTCCTGACGAACCGG
GCAGCGTAGAGAAAGGCGAGATGGTTCATTTCTATGAAATAAGAG
Right flanking sequence: Indices 225228 -- 225727
GAAGGGATGGTTATTTTCTGTAGAGTAGATACAGAAGGGTCCAATCTAGTATAGTCGGGCTTGGA
AGCCCTACGATTGCTTATGGGCTCATCTAGCAGAAGAATGACATGATGAAGAAGCTAAAGCTCCC
CTTGCTATGCTTCGGTTGCTTTCATTGATCTAGGATTGTTCCCGGGTATCATCCTCAAATAGGAA
GGAGGTTAAGGGCTTTTGATCGAGGCAGTCACTAGAGCTTGTTGGCCGCGAGATGCACTTCAAAA
GCACTAAAATCCGCAGGTAAGAGATGAAGCTTCATTTTCAATATTAGAAGCAAAAGTCTTATAGT
TTACTACTAATATAATCTATTTCTTGTACAGCAGCTATAATCGTTATAGTTTTGAATAAGGCGAC
TGCTCCGGGACATAAAAAGAAAACGCTAGTGAAGACAATAAGGGGATGCTATCCACTACAAAAGG
AAATCCGAATCGGAACAGGATCGAGATCACAGCAAATAAAAGGTT
Found at i:289375 original size:22 final size:22
Alignment explanation
Indices: 289347--289431 Score: 80
Period size: 22 Copynumber: 3.5 Consensus size: 22
289337 AGAAAACAAG
289347 CTCGACCATAGGTAGGGACTCA
1 CTCGACCATAGGTAGGGACTCA
* **
289369 CTCGACCATAGGAGAGGGAGTGAAACTTG
1 CTCGACCATAGG-TA--G-G-G--ACTCA
289398 CTCGACCATAGGTAGGGACTCA
1 CTCGACCATAGGTAGGGACTCA
289420 CTCGACCATAGG
1 CTCGACCATAGG
289432 AGAGGGAGAG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
22 27 0.54
23 1 0.02
24 1 0.02
25 2 0.04
26 2 0.04
27 1 0.02
28 1 0.02
29 15 0.30
ACGTcount: A:0.28, C:0.25, G:0.29, T:0.18
Consensus pattern (22 bp):
CTCGACCATAGGTAGGGACTCA
Left flanking sequence: Indices 288847 -- 289346
GCCGTTGCAAACACTGAGCGAGAACGGTAAGGGGCGCACAAACAATGTCGTTGCGCGGGGATGCG
ATTCGCCAAGCTGGGGCAAACAAAGCCGTCCGGCCCCCGGAATGCGAAGGCCTCTCCTTTTTTCT
AATTTTGTTTGAGGCTAGAGAATGAAATGCAGAAATAGGGGAAGGGTTCCAAACCTTTTTTGGTT
TAAGGGCTGCTCGCCCTACCGAAGTACCAAAGGCTTTCGAGGCTTACACCTTACCTTCCTATTAC
ACGACCTAAAAAAAGGCTTTCAGTAGCGCCCTTAGAATCTACGAAGCCTTTTGAAGCGCCAGTGG
TTGTAGCTGTGGGTAGAACTTTCGTTCTTATCGCTCTGGGTTTCGATCTATATGACCTCCGGGCG
GTACAAAGTACACCTCTTCCGTAGAGGCAGGTAGTAACCTAACCTTTAAGAGTCTGTTCAAGGTA
GCTTGCTTACTTAGTGCTTGCGCTAAGGTTCTGAAAGAAAACAAG
Right flanking sequence: Indices 289432 -- 289931
AGAGGGAGAGGGAGAGGTAGTTTACTTGCTTAGTGTGAAACGCTAAGAGAGGAGCCCTCTTACCT
ATCAATGGAAAGATCTACGTGCGTGGCGTGATAAGGAATCCTAGAAAAGATCTCATGAGACCCGC
CCACTATTACTACGAAAAAAGTACTGCCCTTTTCCGTCGGGAGAGTCAGCTACTTCTATTAGCGC
CGGACCTTGAGTCGAATTGATCGTGTCATGTGCAACGTCCATCAATGATGGTTCATTAATGTCCA
TTGATTTAGACTCCTTCCCCCCTCCCAACTACGAATAAGATCGAGAGGAGCCCGAAAGCCCCCAA
ACCAAGAACGGAAACGGAAGCCTTTCGATTCACTCCCCATTCTCTCTTAAATAAAGCTCACCCTC
GAGCCCTGGGCAGGTCGGCCGGGTCTTTCCCTGTTGTTCTGTTCCCGCCACGAGAAAGACGCACA
GAAGAGGTATGCCCAGCGCGCGGAGGATCCGTTGAGAGTTTCTGT
Found at i:324902 original size:20 final size:20
Alignment explanation
Indices: 324877--324914 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
324867 TCTTGTTTTA
324877 GTAGCTAAGGAGTT-CTAGTT
1 GTAGCT-AGGAGTTGCTAGTT
324897 GTAGCTAGGAGTTGCTAG
1 GTAGCTAGGAGTTGCTAG
324915 CAGCTATGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.24, C:0.11, G:0.34, T:0.32
Consensus pattern (20 bp):
GTAGCTAGGAGTTGCTAGTT
Left flanking sequence: Indices 324377 -- 324876
GGGTCTACCGGGGCTAAGGAGGCAGTTAGTACTATAGCCATAGTCCCTTCTGAGTATAAGCATGA
GCGTTCGCCTACTTTTGAGTCTGGCTATTATAACTGTGTAGTAAAGACTGAGCCACATATTTTAG
TTGTTTGACATTCGTCGGGCGAGCCGCCCTCTATAAGCTTATTCTGTTTTTTCGTGAACTGAACC
ATACTTAGTCACTTCCCATCTATCTGACAGATTCTGAATCCACTGGTTCAACGAGACCAACTGAA
AGCAGATCTACGCTTCGAGCTGCAACCAGAACAAGGGTACAAGCTGCCCCATACGCTTCAAAGAA
GCAACAAGCTACATTAGCAGACCGACCTGAATCCGTTCAAAAGGTGCTCTTGCCCCTTTCCGGTA
GGGATGGTTCTTCTCGACAGATTAAGCTACTTACTATAGTTAGGGTATCGAACAATGGAACTTGC
CCAATAAGAAATAAAAGTAGCCCGAGTGAAAGAGCTCTTGTTTTA
Right flanking sequence: Indices 324915 -- 325414
CAGCTATGAGTTCCGAGTTGACGAGATCATAAACAAATCTGTCTGGGACTGGTGACACCTGTACC
ACACTCTATGGCACACACCCCTCGTTGTAGTAGACGAAGATGGTCACCTAGGATAGGCAGACAAC
CCTGAACCTTAGAAAGTAGCCGGCGGAGACGCTACGGGAGAACCGCCTAGGATGGCGTAAGAGAC
TCGAGCATCTCTTTCTTCAATTTGGGTTTGTGCATTTGTCTTTCAAATAGGTCAAGGGTTCAGAC
AGGAGATGTGCTTTAGCCAAAGAAGCTTGGGCACCTGCTCCAATAAAGCTAAGAGGACTAGCTAC
GGTGTGGGCACCAGATCCACTCAGTGAGGCCGGGCAAGACTTTACGTCCGATATAGTAGTGTCAG
ACATTTGTCATACTTAAGCAGTGGGATAGACTCCTTCAAATGGAAAGATAGGAGAAGCCAGTACA
AGCTGTGTTTGTGGCACCCATCCGGGTGGAGTAGCCAGGAAGAGG
Found at i:327833 original size:14 final size:14
Alignment explanation
Indices: 327811--327840 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
327801 ATTAGTTCCC
*
327811 CTTCTTTAATAGGT
1 CTTCCTTAATAGGT
327825 CTTCCTTAATAGGT
1 CTTCCTTAATAGGT
327839 CT
1 CT
327841 CATGGGTCAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.47
Consensus pattern (14 bp):
CTTCCTTAATAGGT
Left flanking sequence: Indices 327311 -- 327810
CACACTTCCCGCAGCTAGCGCAGGGACAGCAACCTAAACCTAAATCGCATCAGCAACCGAACTCG
GTATTTGAAGTTCCGGGCACAGTGACTCTTCCGAAAAGAGGAACTTTTCTTTTGAGCTTGACCAA
ACACACCAGCGGGAGCTTCAATCGCAATCGTCATAATCGGAATAGGCGTATTGGCCTATAAGAAT
CCCCTTGTCTAGAAGTTCTGAAGCTCGTACTCGTCTCTCTTTCACCTCGTATTTTGAATAGGCAA
CACGCGCACAAGCAAACAAAGGAACTGGGTCACGATGGGAACGGTCAATCAACGTTTTCCGCTTC
GAATAGGGACGGTCGTCCCGTTCACCACTTATATCTGGTCTTTTATTTTGTTAAGTCAGTGATTG
GAAATCAAAGCAAGGTCCGTGAAGTCAATGAAGTCGCGGGGTCAGCAGGTCAATCCGTCGGTCTA
GGGATAGGTTGGCAAGCAGTTAATCGATATCTGGAATTAGTTCCC
Right flanking sequence: Indices 327841 -- 328340
CATGGGTCAGAGTACTTGAGCCTTGAAAAAGGATCTCAAATAGCCTTTCTTTCTTTTGTAGTAAG
CCTATTAGTAGCTCGTACCGCTCCTCTAGTTCAAGTAGTTAAAGAGTTAAGCTAGCTTAGTGAAT
CGATTTCAGTATGAAACTCCTCCCCTTCATCCCTTGCTTCTTTGGATGCCAATGCGTCTCTTGTT
TCAGCTGATTCTCCGGTTGCGTCTTAAACTGCGGATTCTCCTTTTGCTACGGATGAAGATTTGGA
TACAGGGCATCTTTCTACCATAAAAACGAGGGTTTATGACCCGGCCAGAAATGAGGCGAGAGTTA
TTAATTTCCGCTTTAAGATCGGTCTTCTCAAGGGAATCTTTCATGCTGTCTGAAAACCTTGTTTT
CCATCTGTATATCCAACCCAAGAGTGTACCGGAGCGAGCACTAAAGCAAGTGGAGTGTACGAAAC
GAACGAATGAAGTGATAGCGGCCAGCGAGCTATTGGGGAAGAGTA
Found at i:331606 original size:21 final size:21
Alignment explanation
Indices: 331580--331621 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
331570 ATTGTGCCAC
331580 CTCAAACTCAAAACTATATTT
1 CTCAAACTCAAAACTATATTT
331601 CTCAAACTCAAAACTATATTT
1 CTCAAACTCAAAACTATATTT
331622 ATTACCCCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.24, G:0.00, T:0.33
Consensus pattern (21 bp):
CTCAAACTCAAAACTATATTT
Left flanking sequence: Indices 331080 -- 331579
TTGGTTTTATTTATGAGTAGAGGTCTTGCTATTGCATTTTGTCTCTTTCATCTGGTGAATTTTGA
ACTTTCGGGGCATTGACTCAGACCAGGAAAGCATCCAATTCTAGCAGCTAGAATCAAGAAAGAAA
ATACCCTTATATTAGTAAGGGGTATTTTTAACTACAGGTAAGATTCACTACCTCTTCTATCAATA
TAGCTAGTATAAAGCCACTTCCTTTCCTGATTCAGTTTCTCTTTCGGGGTAATCCTCCTGCAGCT
TATTTTGAAGCCTATGTTCCGGTTTCGGGGGATGAGTTTCCTGCCGCTATTTCATCTTTTTGTCT
ACTTTACTATTTCGAAGTCAAGCCTACATACACCTCCTGTCCTTCTACCTCCTCCCAGGGTAGTC
GAGTAAGTACCACACACAAGGCAAAAGCTCTTGCTTGATCCGCCCGGGCTACTGATTGTGCTTGT
GCCAGCTACGTCTTTCCTCTACCTAAAGGTAAGGTATTGTGCCAC
Right flanking sequence: Indices 331622 -- 332121
ATTACCCCTCCCCTCTTTCTACGGTACCGGAGGATCAGTTGCTGGAGAAGAGGAATCCTGTAGAT
CGGCGGAATCTCTGTTCTCACCCCCTCTCGCTAAAGAAAGGAACTAGTTAGGATATACCTTGGTA
TTGGTTCTCAACCCAGCGGAAGGGAAAGGCAGTGAAGAGGCTCCGGCTCCAAGGTCCAGCTTCTT
TCTCTTTTGCTTAGATGGCACCTTGGCGAGGAATCTTTGAACCTAGAAAAACTAAGAGCTTCGTC
CCTCCTGAGGAAAGACCCACCTCGAGTTCAGTGGCTGCTTAGTAGAGCAAGGTTTAGTTCTTTTC
TTCCTAAGGGCTTCACTGGTAAAGAATCCAAAGAGTTTCACTCAGTCATATACCCCCTCTACCAA
AACCCAGATTCTCTGCTTTCGGGTTACCCCATTACCACTAAAGCTCGATATTGATCTTGATCCCT
ATCCTTTCTTTGATTAAAGAAGGAGCCTTCACTCCGCCCCAGCTA
Found at i:339316 original size:18 final size:18
Alignment explanation
Indices: 339276--339318 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
339266 ACCGCCCTGC
339276 CATAGTCGCGAGTCTGTTT
1 CATAGTCGCGAG-CTGTTT
339295 -ATAGTCGCGA-CTGTTGT
1 CATAGTCGCGAGCTGTT-T
339312 CATAGTC
1 CATAGTC
339319 AACAAGGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 5 0.23
17 1 0.05
18 16 0.73
ACGTcount: A:0.19, C:0.21, G:0.26, T:0.35
Consensus pattern (18 bp):
CATAGTCGCGAGCTGTTT
Left flanking sequence: Indices 338776 -- 339275
GAAAGCTTCTTTTTCAAGTGTCAGTAGCGGAACGTTCTGTCAATCGGGGAAGGTTTTTGGTGACA
ACACCTGGAGATATCAGAAGTGAGAATGCTGACATGAGTAACGATAAATCCTGTGAAAAACACGA
TCGCCTGCCAGTGGAAGGCTTTCTGCGTTCAGTCAATCTACGCAGAGTGAATCGGTCCCTAAGGA
ACCCCCGAAAGGGCTGCCGTCCGATGGGTACACGAAAGTGACGAAGTTGCTTTGACTACAGAACC
ATGCCTATCTGTTGGAGCGAATTGGATGATCGGGCCGAGGGCTGCCCCCTCTTCCCCTCACTCTC
CTTTCCCTAATATGAACCTTGAGTCATCAAAGCCTTTCTGACTCGGCCTGGCCCGGTCGCCCTAC
GCGACTGGCGCTTCAAAAGGCGAAACTCTCGTCGTAGTTTGGCGACCTAAGGGGCCCTTAGTCTT
TTGATTAGAGTAGGGGTCGCGAGAGAGCAGAGCGTACCGCCCTGC
Right flanking sequence: Indices 339319 -- 339818
AACAAGGTTGAAACTTCCAGGAAAAAACTTCGAATTGGGAGGGCGATCCTCCCGGTGAACTGACC
GTACCCCAAACCGACACAGGTGAACAAGTAGAGTATACTAGGGCGCTTGAGAGAACCATGTCGAA
GGAACTCGGCAAAATGACCCCGTAACTTCGGGAGAAGGGGTGCTCTCCTATCTTTTGATTAGGAA
AGCGGCACATACCAGGGGGTAGCGACTGTTTATTAAAAACACAGGACTCTGCTAAGTGGTAACAC
GATGTATAGAGTCTGACACCTGCCCGGTGCTGGAAGGTCGGAAGGAGAAGTGTTATAAGCTTTGA
ATGGAAGCCCCGGTAAACGGCGGCAGTAACTCTAACTGTCCTAAGGTAGCGAAATTCCTTGTCGC
ATAAGTAGCGACCTGCACGAATGGTGTAACGACTGCCCCGCTGTCTCCGACATGGACCCGGTGAA
ATTGAATTCTCCGTGAAGATGCGGAGTACCAACGGCTAGACGGTA
Found at i:340724 original size:21 final size:21
Alignment explanation
Indices: 340698--340739 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
340688 CTTCCTCATT
340698 CGACTACCACAAGAAAGAGAA
1 CGACTACCACAAGAAAGAGAA
340719 CGACTACCACAAGAAAGAGAA
1 CGACTACCACAAGAAAGAGAA
340740 GTGGAAGAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.52, C:0.24, G:0.19, T:0.05
Consensus pattern (21 bp):
CGACTACCACAAGAAAGAGAA
Left flanking sequence: Indices 340198 -- 340697
CAGGCTGATGACTCCCAAGAGCTCTTATCGACGGAGTCGTTTGGCACCTCGATGTCGACTCATCA
CATCCTGGGGTTGAAGAAGGTCCCAAGGGTTCGGTTGTTCGCCGATTCAAGTGGTACGTGAGTTG
GGTTTAGAACGTCGTGAGACAGTTCGGTTCCTATCTACCGTTGGTGTTAAAGGGAGAACTGCGAG
GAGCCAACCCTAGTACGAGAGGACTGGGTTGGGCCAACCTATGGTGTACCGGTTGTTATGCCAAT
AGCAGCGCCGGGCAGCTAAGTTGGTATGGAAGAACTGCAGCTCTGCGGGAAATCCTTCTCTATAC
AAGTTCTCGGAAGAGGTTTTAGAACAGAACTTCGATAGGCGAGAGGTGTAAGCACCGCGAGGTGT
GAAGCGATCTCGTACTAAACAACTTTACATAACTGAAAGAAAGTCAAACTCTTACTGCAATTGCG
GTCAGTCTCGATAACTCTTTAGTTGCCGCAACATACTTCCTCATT
Right flanking sequence: Indices 340740 -- 341239
GTGGAAGAAGCGGGGTAGAGTAATTGGTCGACTCATCAGGCTCATGCCCTGAAGACTGCAGGTTC
GAATCCTGTCCCCGCCTAATAAAATAACTCAAATTACTTGAGATGCATTTGTAGGTATTGGTCGG
TTACAGCTGGTGTATTTCTCCATAGATAGCATGGATTGGGAAAGAGTACGGCTGATTTATCACCC
TTCAGTTGAAGTAGGTTTTATTTGTGACGAAAGTTGTCACAAATAAAACCTATCGTTACGAACAA
ATGGCATAGAAACCCTTTACCCACACCTAAGCTAAGGAAGTCAAAGGGGAAAGAGCCTAGAGGAC
GCTTTGTTACCAGTTGAAAGTAGACACTTCCGAGAATGGTACCCATTGATCTCACAAAGCAAACC
CCCATTAGAAGACCCCAACCTACCCCCTAGACAACACCTTGCTGCAACACATTGACTAGGCAGAG
TTCAGAGACTTCACAGCAGCCTCGGGGGGTACTATTATTAGTCCC
Found at i:359506 original size:30 final size:30
Alignment explanation
Indices: 359465--359528 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
359455 TCTGCCATCG
* * *
359465 AAGCTGTAGGACCTATGGTTGGGCTAAGGT
1 AAGCAGTAGGACCTACGGCTGGGCTAAGGT
*
359495 AAGCAGTAGGACGTACGGCTGGGCTAAGGT
1 AAGCAGTAGGACCTACGGCTGGGCTAAGGT
359525 AAGC
1 AAGC
359529 TAAGCTGTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.16, G:0.38, T:0.20
Consensus pattern (30 bp):
AAGCAGTAGGACCTACGGCTGGGCTAAGGT
Left flanking sequence: Indices 358965 -- 359464
TGAAAGACAAATTCAAGACAATATCCTTTTGGCCCATGAGTCCTATCATTACTTGAAATTGAAAA
GGCGAAGAAGGAAGGCGGACCGCTCGCTATTTCTATTATCAAATCCACTATGATCGCCCGAAGCA
CAAGAGAAAGTCTCAGCTTAGCGTAGTTCAATCAAACGGCCTGAACCGCATCGATCAGGGTTCAT
CCACCACATCCGAAGTGAACAACGTATCACATCTGAAGTGAACAACCATTAATTATAAGCGACTT
TATGACATAGAGAAGAGGGCGACTATATCTACATCAAAACTTGACCGATCTAACTCGCATAGCAG
CTACTGCTTCTCTAACCACTTCCCTAGTTTGATTGAATGGATAAAGAAAGTCCCGGCGTGGCCCG
GGTTGTGTTGGTAGGTGAATATCCAGAAGTTCATTCACAGACAGGTACGGCAGCAGGTAGGGCTG
CTAGTTCAAGTGGGCCAAGCGGCCCGGTCAATCATTCTGCCATCG
Right flanking sequence: Indices 359529 -- 360028
TAAGCTGTTGGTCTAGGAACGAAGGAGAAGCTGTGAGCAAATCCACTTCTTTGATAACTTGTTTA
AGGTTCAGGAAGTCAATAACTAGGCTCAAGTCCGCCTCAGTCGAAGGGGAAGCCAAGGTTAGCTT
ATTTACTCGCGGGGGGACAGACTCATGGATATTTCTCAATAGTCAGAATTGAAAGACGGCAAGGA
AATGAGGAGCGAAGCGAGACGTACCTACTTAGATACAGGCAAGGAAGTACAGCTTAGAGACAGGC
AACCAAGTACAGAAGTAGGGAAGCTCAGCCTCAGACAACTTAGGAAATACTAATCTCTACCGACA
GCGAGAAAGACAAAGCAGAAAGAGGAAAGACAGATAGGCAGAAAGATAGGAAGACAGGAAAGCAG
AGATAGATAGCGGGGCTTCCTTCTTATAGTAATCAATACATAGCTTTCTTAGTCGATGGGGGATT
CTTGCTAGGATAACTCAATAAGGACAATACGACAGGACAGAAGTT
Found at i:359779 original size:25 final size:25
Alignment explanation
Indices: 359751--359800 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
359741 GACGTACCTA
* **
359751 CTTAGATACAGGCAAGGAAGTACAG
1 CTTAGAGACAGGCAACCAAGTACAG
359776 CTTAGAGACAGGCAACCAAGTACAG
1 CTTAGAGACAGGCAACCAAGTACAG
359801 AAGTAGGGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.40, C:0.20, G:0.26, T:0.14
Consensus pattern (25 bp):
CTTAGAGACAGGCAACCAAGTACAG
Left flanking sequence: Indices 359251 -- 359750
ATCTACATCAAAACTTGACCGATCTAACTCGCATAGCAGCTACTGCTTCTCTAACCACTTCCCTA
GTTTGATTGAATGGATAAAGAAAGTCCCGGCGTGGCCCGGGTTGTGTTGGTAGGTGAATATCCAG
AAGTTCATTCACAGACAGGTACGGCAGCAGGTAGGGCTGCTAGTTCAAGTGGGCCAAGCGGCCCG
GTCAATCATTCTGCCATCGAAGCTGTAGGACCTATGGTTGGGCTAAGGTAAGCAGTAGGACGTAC
GGCTGGGCTAAGGTAAGCTAAGCTGTTGGTCTAGGAACGAAGGAGAAGCTGTGAGCAAATCCACT
TCTTTGATAACTTGTTTAAGGTTCAGGAAGTCAATAACTAGGCTCAAGTCCGCCTCAGTCGAAGG
GGAAGCCAAGGTTAGCTTATTTACTCGCGGGGGGACAGACTCATGGATATTTCTCAATAGTCAGA
ATTGAAAGACGGCAAGGAAATGAGGAGCGAAGCGAGACGTACCTA
Right flanking sequence: Indices 359801 -- 360300
AAGTAGGGAAGCTCAGCCTCAGACAACTTAGGAAATACTAATCTCTACCGACAGCGAGAAAGACA
AAGCAGAAAGAGGAAAGACAGATAGGCAGAAAGATAGGAAGACAGGAAAGCAGAGATAGATAGCG
GGGCTTCCTTCTTATAGTAATCAATACATAGCTTTCTTAGTCGATGGGGGATTCTTGCTAGGATA
ACTCAATAAGGACAATACGACAGGACAGAAGTTCACTACCTATATACCAGGATAAGCAAATGCAG
TCAATCAAAGGGTATTACCAAATGAAAGAGGGCGAGGAAAGGCACCAAAGCCGGGGATGAATACC
GCCCCAGATTAATCAACAAATGGGCATCGAAGGTAGGGACTGACGGGGCTCGAACCCGCAGCTTC
CGCCTTGACAGGGCGGTGCTCTGACCGATTGAACTACAATCCCAGGAAAATTAGGTATACAGCCT
AAAAATTCTTATTATTTTTTCTCATTGGATTTCATTCGAACCTTT
Found at i:363368 original size:22 final size:21
Alignment explanation
Indices: 363324--363370 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
363314 CACTCCAGCG
*
363324 TTCTTTTTTCAGTCTTTTTCT
1 TTCTTTTTTCAGTCTCTTTCT
363345 TTCTTTTGTTCCA-TCTCTTTCT
1 TTCTTTT-TT-CAGTCTCTTTCT
363367 TTCT
1 TTCT
363371 CATTGAGGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 7 0.30
22 14 0.61
23 2 0.09
ACGTcount: A:0.04, C:0.23, G:0.04, T:0.68
Consensus pattern (21 bp):
TTCTTTTTTCAGTCTCTTTCT
Left flanking sequence: Indices 362824 -- 363323
TAAGGTAGCTTAAGTACTCCTCTTAATAGAGCAACTGGTGGTACCTATTTAATATTAAATAGAAG
AAAGGAAGAAGCTCCTCCCAGGCGCAACTTCCCCACCTTTGTTGCCTACGCCCGCATTCTGTCCC
CCGCCTCTGTTGCCTGTGTGTTGCGCCTCCTACTTCTCACCTTTCGTTTTTCCATTAAGGCGGTG
GTTTACCTTTTGGTTTATTTTCCAAACCCTTTCGGTTTCTTTCCTTTCCATGGTTTGCCTTTATT
CTTTTTCTTGGAAGGTTTGTGGTCATATAGTTTAGGTTGTTTAGCTTTGACTTCATCTTTTATGG
CTTGTAGTTGTTCTTTGGTCAATTCATTTTTGTTCTTTAGTGCAGTGGTGGTATCGTGTACACCA
TTATCTCTTAGTGTTTCATCCCTGACAGTAAGATCGTATTTTCCTTCTTCTTTCCATTGATCTGT
CCCACCTTCATGTTCTTTATATTCTTTATAAAGTTCACTCCAGCG
Right flanking sequence: Indices 363371 -- 363870
CATTGAGGTATAGTTTGTATAGTATTGTCTGTGCCTCATCTATCCGGCTCGTGATTAGTTCGTTA
AGTTGTCCTTGCATCCTCTCTTTGTCTGCTAGTAGCTCATCTAACATCTGTTCTTTCACAGTTTT
AGGGAGACCGTCATTCATATGCTTCTCTTCGGACTGGACTTCAGTAGTCTCTTTCATTGTTTTGT
CTATTTCTTCTTTCCCCGTAGTTGTTTCAGCATCTCTTCTCTTTCTTTGACGCAGATCCCTTTCG
GGAATTGAATTTATGCAATCTTCCCGCTTATTCGCTTATTCTTTCATTGGACTCTCCTTAAAAAA
AGAAAAAATCTCGTATGTAAGCAAGCATCTCTGTTAACAGCTGATATGCGATAGCAGGAAGCAGG
ATGGGCTGTTACGTAATGGACAGCTACTCAGTCTTCTAGTGTTTATAGTGCATAAACGGCCTACC
GGTCTGCGACCCTTTATTCATCAATACTATCTTGATTCATTCATA
Found at i:393518 original size:30 final size:30
Alignment explanation
Indices: 393497--393558 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
393487 CTTCTTCTTA
393497 TAAGAAGGAGGGCTTTAGGGCTTAACTAAG
1 TAAGAAGGAGGGCTTTAGGGCTTAACTAAG
393527 TAAGAAGGAGGGCTTTAGGGCTTAACTAAG
1 TAAGAAGGAGGGCTTTAGGGCTTAACTAAG
393557 TA
1 TA
393559 TTAGTTAAGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.34, C:0.10, G:0.32, T:0.24
Consensus pattern (30 bp):
TAAGAAGGAGGGCTTTAGGGCTTAACTAAG
Left flanking sequence: Indices 392997 -- 393496
CGGTACTCAAAAGTCTTATTTGCGGAGAAGGGTTGGTCGTAGATCAGAACGATCGGGCTTCAGGG
TAGCTTCTGGGAGTGCTCTACGAGAAGGCATATGTGTTACATCCGGGAGTGCTCAATGATGTCTA
GCAGAAGAAGAGGAGAGGATAAGCAAGAAGGTAATATCAGTAGTGAGACTCGAGGGTACCATCAG
GGGGGGTTTGGGGGTCCTCCCCCAGCCTAGCTAATAGAGAACTTCAATCTTCCCGTTAAGACTGA
CCGGGTTGAAGGCTTCAGTGAGAGTTCCAGGGTTGTCAACTAGAAGGCTGATTAGAAGATAAGGT
TTTTTCCAGGGCGATCAGAACTAGAAGGAAGATGTGATAGCAGTAGCAGAAGGCGGATGCTCTAG
TTCCAGGCTGATTATAAGAGATAGTTTACTCGGACGGTGGGATAGCTTAAACATCATCTCCTCCT
ATCCCGGTGGGAGTACTGAAAGAGGGTGTTACGGGCTTCTTCTTA
Right flanking sequence: Indices 393559 -- 394058
TTAGTTAAGGGCTCGGAACTTCTAGTAAGTGAAGGTCAGCGGGAGCTGCTATCGGTAGCGGAAAG
GGCTTGACTTATCTAAGTAAAGGTAGTAGAGACGGCTTGCATCAGGGTTGGCGTGGATAAGGCTT
ATGTGTAGCATAAGGGTTGGCTTTTAGTCCTTCTTTCCCAAAAAGAAGTAGACCTTATGGTACGT
ACCCTTCTTAGCCATTGGTGCGTTAAGGCTGAATGGGTAGTCTAAAAACAAAAGAGGCTTCTCCT
CAAAGGTAGTTTACTTGCTTAGTGCTTGCTTGCGCTAAGGATCGAAGAGCTTAGTGTGAAACGCT
AAGGAAGTCATATGCTCTTTTCTTAAGTGTGGTGCCCTCAATACAACCTTCCCTAAAAGTGGAGG
TAGGAGATCCAGTTAACGAATAGGCTACGGCTGTAGCTGCAACGAGTAATGAATTCTCGGAAGCT
CTTTCTTAAAGGGTGCCCCCTTCCCTCGAATGCTGCATTGGAGCG
Found at i:410412 original size:18 final size:17
Alignment explanation
Indices: 410381--410438 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 17
410371 ACCAATTACA
*
410381 TAAAGAGGTTAAACCCT
1 TAAAGAGGTCAAACCCT
410398 TAAACGAGGTCAAACCCT
1 TAAA-GAGGTCAAACCCT
* *
410416 GAAAGAAAGTCAAACCACT
1 TAAAG-AGGTCAAACC-CT
410435 TAAA
1 TAAA
410439 TGTAAGACTA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
17 5 0.15
18 24 0.71
19 5 0.15
ACGTcount: A:0.47, C:0.21, G:0.16, T:0.17
Consensus pattern (17 bp):
TAAAGAGGTCAAACCCT
Left flanking sequence: Indices 409881 -- 410380
AAAAAGAAAGCACGAACGGAAGCTGGGACCTCCTGATCGCGTAAGGTATCCAACGAGAGAAGCCA
TAAGTCAGCACAGCTTTGTCACCTGTATCCGGATCCTGGATATAAATTTGACTACCCGGAAGAGC
AGAAGAAATGGGATTCTTGTTCACACGAAACCAAAGGGGTGCTTGAGCACGCCAACCACGGGTAC
GTGTATGGAACGGAAGCGGCATACGACTGGTCACAGGATAGACCGAGTCGGAGCCGTGAACACGA
ACTCGACCCTCGAAAGGCGGAGCGATCGAGTCGGAATAGGACGGACCTACGAAAATGGGATGATT
TCGAGGATCGGACTGTAAGCACAACTTTCGAAATAGAGTAATCATGGATGGAACTTGTTATTAGA
ATAGAAGACCAGAAATCAGACAATAGCAGAGCAGCCAGGGAATGAGGAACAAGGTTAACCAACTG
TATTTTACCTCATTACATCCCCTTCCTTTCAATTAACCAATTACA
Right flanking sequence: Indices 410439 -- 410938
TGTAAGACTATGGATTCAATCCAGCCCGCTTTGCGAGCTAACTTGTAAAGAAGATGTAGCTACTC
GCCCATGGCGGACGAGGCCCAGAGAAGGGCAAAGGACTCATTTCTTTTTGATCCCAAACGAGAAG
AGAGAACAAACGGCGATTACTAATAGCCGGTGGAGATTGGAAATGTCCCAACCAACATAGCTTGC
TAGCTGAAGGAGCTGCCAGAGCAGAGGAAGCGAACCGCCTTGACTTATTCGATTCTCCTTCTTCA
CCGTTCGAAAAGAAGTGGATTGGCGCACGTCTTCCTATGAAATCGATTATGTTTCCCCATCAAGC
CCGTTTCCTTACTCGAGATATCTGAGATAGCCCCGTCAACTAATAACTTATAATAGACGAGCCCA
TTATCCTTCTGTTTTGAACTTGCTTCTTGGTACAAGGGGAGGGGCGAAGAATTCGAGTTCTAGTT
CTGCTTTTGCCTAATTTTTAGTATCGCTTTGAGATTGAATCTTTA
Found at i:411655 original size:14 final size:14
Alignment explanation
Indices: 411636--411662 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
411626 GCTATCCCGA
411636 GAAAGCGTTCTAAT
1 GAAAGCGTTCTAAT
411650 GAAAGCGTTCTAA
1 GAAAGCGTTCTAA
411663 CGATAAGCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (14 bp):
GAAAGCGTTCTAAT
Left flanking sequence: Indices 411136 -- 411635
CCCATTTCCTATTACCGTTTCGCTGCTTGTTCTTCCCCTTCGCCTGAGAATAATAAATTACCTTC
GATGGGAGCTTACTCTTACTTAAGTAAGAGGGAAACTCGCTTGCCCACTGGAAAGACTGAAACTT
GAAAACGGAGGTAAGATTTTTCTTATTCTTCCTAAAAAAGAGGACTGTGTAACTAGGGTGAGAAG
CGAGCTGAGCTGCCACGGATTGCTCCTTCGATTGCTTGAAACCTCTTTGCTGAAAGTGAAAGTGA
ATACATGAGAAAGACTAGAGACCCAGCTGGAGGATGCCCACTTTGAGAATCAATATCAGAGTCAG
CAACCCTTGAGTAGCCTAGCCCATGAATGAGTAGAAGAGGGTTCCTCGCCCAATTCCATAGGGAT
TCTAAAGAAAAAGCAATCTCTATCGACCAAGCCCTTCCCACTAATCCCGTCTGCGCTTTTCTAAG
ATTCGGTTGCTACCCCGAGACGAAAGCCCTGGACAGCTATCCCGA
Right flanking sequence: Indices 411663 -- 412162
CGATAAGCTGAAAGTCCTTACTAAACTCTCAGGACAGAATGACAGACCGACCCTTCCCCTTCGCT
ACCGACGGTTTAGGCAAGCTGAAGGAAGTGGGTCAAATGCCATTTCTATAGTATAGGATTCAGTG
TTCAAGGGCTCAGTAGGTAAGCAGAGTCGGTTTGTTAGCGCCTTCCGGAGTTTTCTAGTCTTCTC
TCCGTCCCGATTGCCGCTAGTCAGTAGCTCGCTTCCGGAGAAACTACATTCAACAGGAGAAACGA
AACTTTGAATAGAAAATAGAAGGATCAGTGCCCGTAGCAGTCCTGGAGTTAGGTTATGATGGTCG
TGATGAGCTCTACTAGAAAGAAAATCTCTTCTATTCATAGAGGAAGTGCTATCTAAGGGGCTTCT
AAGCCCAGCCCTTGAATTCCGTTCCGTAGTTCAGTCCGGAACTCCAGATGTGTAAGTAGCGGCCA
AGCGGCTCTGTCCTTTTCAAAGAGGTTATCCTTCTCTGTCCCCGC
Found at i:415371 original size:19 final size:19
Alignment explanation
Indices: 415347--415384 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
415337 CGGAATCTGA
*
415347 AACCCTTTGGTGTTACTGC
1 AACCCTTTGGGGTTACTGC
415366 AACCCTTTGGGGTTACTGC
1 AACCCTTTGGGGTTACTGC
415385 TGGAAACTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.16, C:0.26, G:0.24, T:0.34
Consensus pattern (19 bp):
AACCCTTTGGGGTTACTGC
Left flanking sequence: Indices 414847 -- 415346
CGTCAACCGAGTTCTTGCTTTTGGATTCAATCCTTGGTAAAGTGTTCGATCTCGTGGAGAGGTAC
GCCTCTAAAAGAAAAGAGAGTAGATATAGGCTCGAGAATAGGCTTGATGAACAAACAGCCGATAC
GGAATCTGAGCCAAAAAGCCAAGCCCTTGAACTTCACTCCTAGGCCATTCAACAAATCTGGCGCG
AAAAGTAAATCCGATTTCGGTCAGATCTTCAGGAGCTTCCGAATTTTTAGGTTAGTTAGGCGCCT
GGCCGAAGGTTGAAAGAATGATTCGGGGTCAGAGGAAGGGGGCAGCATTCAACCTTTCCTCTATC
AAAGAAGACTAACCCTTTGATTTTATTCAATGGTGGTTTCTACAAGAGATTCAACGACAAGGGGG
GCTATTAGTAGGATATGAAGCTTGAAATGGAAAGGTAAGGGTGAGAAAAAGAGGCCAAACGAGAT
ACGCTCGAATGAGCTAGCCGACTACGAGATCAGTCCGGAATCTGA
Right flanking sequence: Indices 415385 -- 415884
TGGAAACTCCTGAACATATAACTCTGCATGGTAAGAGGATATACAAGCTAAAGAAACATACGTCC
TGGTCGGAAAGAAGGGAATTTAGTGCTGGTAGAGCTGCCCGGTATAAGTAGGAATCTCTCTCCAG
GGCCATAGCAGCAACACCATGTAGTTACCAATTATGCTAAGCAACTTAACCGAGGAACTGGCCGA
AGTCATCAACATATTAGTAACAGAACACTGATCAGCCGGGTTCTTGAAACTCCTCGTATTTAAGG
AGCGACTTTCCCTCTTCTGCCTTCCGTCGCCTTAAGACAAGACTCAAAGCGGCGATCCAAGAAGT
TCCCTTAATGATAGTGAACTAAGGTTTTGAAAATACTCGTCCAAAGCGTCAAGTAGGAATGATCG
GTGAAATCCGCCCTCCTTGCCTTACCGACTTAAAGCAGTTAATAATATCTGTCTGCCTGCCTCAA
TGCTCGCTGACTTACTGGCCACGTTACTGAGTTCCTAGGAACGAG
Found at i:417306 original size:36 final size:36
Alignment explanation
Indices: 417257--417326 Score: 115
Period size: 36 Copynumber: 1.9 Consensus size: 36
417247 TTGGACGGCC
*
417257 CAGCTTCCTGGGAACC-CGCTGGATTCGCGGGCGGTA
1 CAGCTTCCCGGGAACCTC-CTGGATTCGCGGGCGGTA
417293 CAGCTTCCCGGGAACCTCCTGGATTCGCGGGCGG
1 CAGCTTCCCGGGAACCTCCTGGATTCGCGGGCGG
417327 CGCAGCCTCA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
36 31 0.97
37 1 0.03
ACGTcount: A:0.13, C:0.33, G:0.36, T:0.19
Consensus pattern (36 bp):
CAGCTTCCCGGGAACCTCCTGGATTCGCGGGCGGTA
Left flanking sequence: Indices 416757 -- 417256
GAACTATTGGAAGCAAATGGAAAAGGAACACCGAGTGGGATCAAAGAAACTAGCGGACTGATCAC
TAAATAGATACAAATAGGTGCAAATTCTGACATCACCACAGCCCACTTGGTTCTTTCGCTCCTTG
CTCGCGGAGCGGCATAACGGAAAAAAAGTCGGAATTCTACAATTTCGTGGTCAGCTTAGCGAACG
CCTCCGACTGGCGTCCGCCCTCCCGGAGTGCGTCCAATATCGCGAAAAGCCTCTCGAGGGACTCC
TCCCCCGGGGGGCGCCCGAGCACCGCGTTCCAACCAAGGCCCTTCTGGGTCGAGGCGTGACATTT
CCCCGAGAATCTCTGCTTTGACCTCAAAGAGGTCCTCGGCCCGGGCGAACTCGCAGACCTCGTAG
GTCAGCCTCGTGCCCCGACAAGAGTCGCCTCTTTATGGTCTCGACACTATCGCCCCCTATCACCT
GATCTGGTTGATACGGATAGGGAGCGGGGCCTTGGTTGGACGGCC
Right flanking sequence: Indices 417327 -- 417826
CGCAGCCTCAGAAGGGGCGGGCTCCCCCCCGGGCTGTTCCACCGAGTCTCTAAAGAGAGACTCCC
CGCTTATGCCCGGGGAAGAGATTTCGAGCGGCGAACCAGGAAGCCGCTGCCCGACTCCCTGAGAA
GGCTGCGAATTTCCTTCTTCCCGGGGTATTTTGAACCCAGGCGGAAATACCCTAAAAAAAGGAAG
AGGAAGGATGGTCATCCCCCCCGGCCCCATAAGCATTCATCATAATACACGTAGAGGAAAAAATG
GCCCCTACGGCAATAAAGAAAGAACTTCGGATCCAAAAAAAGTAAAAAAAAACAAAATGAGATGC
ACGATTAGCTTCAATTGAAAGGGCATCTTTCTCCTTCTCCAATAAAGCCATAGATAGATAAAGAT
CAAAGCTAACAGAAAAACAGTAAGAAGCATGCAGTCAAATGGATTGAAATCAATAATATTCTGCA
AATTTCTACGCAGCCACATGGATGAGCATGTACTTATCAAACCTA
Found at i:421502 original size:21 final size:21
Alignment explanation
Indices: 421478--421525 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
421468 TTTTCTTCTT
421478 TCTTAGGTATCTTCTCGTCTG
1 TCTTAGGTATCTTCTCGTCTG
* * *
421499 TCTTAGGTATCTTTTGGTCTT
1 TCTTAGGTATCTTCTCGTCTG
421520 TCTTAG
1 TCTTAG
421526 TTTTCTCGTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.10, C:0.19, G:0.19, T:0.52
Consensus pattern (21 bp):
TCTTAGGTATCTTCTCGTCTG
Left flanking sequence: Indices 420978 -- 421477
CCCCAACAGACGTAGGTTGCGTATGAGCCTCCAGTAGGACTCTGGCACCCGAACTGTAGAAATGG
GTCCCGAACTAGAGGTGGTTTGATGGGTGCTCTTTGGGTTCTTAGATCCGGCGGCTACTTTACTC
ACTTAGCACCCTACGTAGGCGGGGGGAATCAACACCCCCCTCAACTGCCAATGGCCAAATCCTTA
CCCATACGAGAACTTGACTGAGCGAAATTAGCGACTTTTCGATCTGCTGTGGCCTACTAAAGAAA
CTCTAACCTTACAATGTTCATTATAGAATACTGCGTATCCATTTTTCCTCCCTTTCATTTCATAA
TACGATTAGCCTAATCTGCGAAGGTCGGTGAAATGCAGAAATGCAGGATGACCAAAAACGAACTC
ACGGAAGTTCGATCAACTATTCCCCCCTAAGGCTGAGGTCTTTGATGCGCTTCTTCATCAGTTCT
TTCGTCAGTTATCAATTGTCTTTCAAGGCGGTTTCTTTTCTTCTT
Right flanking sequence: Indices 421526 -- 422025
TTTTCTCGTCGTTAGTCACCTCTGTTTGTTCTTGTTCTTCTTTATCTAATAGCGTTCTTTCTTCA
GTAAGACTTTTCTGTCTCTCTGTAGTGTATTGAGTGTGCATCCTTTTATCTGTATTCTTCTTAGC
ATCAAACTGTGATATCATCTCTTTGTATCTCTCGGCAAACTCTCTTTCCTTCTTAGATAATTTCT
CATTTAGAATTTCATTTTCAGTCTGTAGTTGTATTAAAGCATTCCCTAGTGATTTTGTTTTTTGT
TTTCCTGGCTAGACAAGTCTTGGATATCAATTGGATCAGTATCCACCCAGACATCTCTGTGATAT
ACTGGTATCCTCTTGGTCCCCAGCTGAAGCCCAACCCTGACCATTGTGTCTTTCTTGATGATGTT
AAGAGTGTGCCAATCAATCCGGAAGTTGGCTTCCACCGGTACCTGTTTTGTACGAGATGGGTCCG
CGTACTGTGACTCAAACCATTCTTGATTGACCTGGTTTTTCGCTG
Found at i:441829 original size:17 final size:17
Alignment explanation
Indices: 441807--441841 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
441797 AAGAGGAACC
441807 TGAAGTGACTAGTCCTA
1 TGAAGTGACTAGTCCTA
*
441824 TGAAGTGACTCGTCCTA
1 TGAAGTGACTAGTCCTA
441841 T
1 T
441842 ATAGTTGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (17 bp):
TGAAGTGACTAGTCCTA
Left flanking sequence: Indices 441307 -- 441806
TGTGAGACCTTGTATACAAATTTCTCACATACCAGATTCCCGAGGAAGAAAGAGAGCTTCTTGCT
TTCATGCATAGCAGACTAACAGAAAAGTGATCTCGCTGTACCCGATCTCCCAGCACTGACATTGA
GAGAAGAGTGGAACGGGACTTGCTTTATATTATAGGGGACTTCCCTGGATACTTTTCAACTCATA
TCGGAGCAAGGAAGCAAGTGGCTAAAATGGTGGAAGTTACTTCAGCGCTTGGGGGAAGAGGACTC
TCTACCACTGCTGATTGGATCCGGGGACGGATAACAACAAAAAGAAGAGTGAGGGTTCTATGGTA
TGGATGGCTTTGGTGAGCATAGCAGGAAAGACCGACGAGAAATTGATGTCTGTAGAAGAAGGAAT
TGAAAGCTAGGATAGACCTTCAAATCAGCGAGCTAGGAAGGCCAAGGAAAGTATCCAGAACCCAG
TTGTGAAGGAAAGGCAGGAATTAGTAAGAAATCTCAAGAGGAACC
Right flanking sequence: Indices 441842 -- 442341
ATAGTTGGAAGTGGGCATGACGAACCACAAAACATGAGGAAAGATCCTTAGGGGCAGATGCTTTG
CTACAGTCCCATGCATGTGTGGGTTTCAAGGAAATGAAGGAAAATTTAAACGTATCCAGGGCGGG
AATAAAAAGTGGCTCTCTAGAGACGGAAAGGAGACCCTCATAACATAAAAGAAGTGGCCCAGGCG
ATTCTCTCGTATGCAATGAGTTGGTTAGTTTCATTAGCAGGTTATGGGGGCGGGGTAATAATTAT
AAGCTAAGGAAAAGAAAATGCATTGGATGGGCTGGAATAGAATTGCATCCAAAAGAAGAATGGCG
GGCTAGGTTTCCTAGACCTTAAAGCTTTTTTCCATGCAATGCTAGCAAAGCAAGGTTGGAGGCTT
ACAAAGGCTCCGGAGTCATTATGTGCGCGTGTGCTGAAGGCAAAATCTTTCCCAGCTTGTTTTTT
TCTTTTTTGGAAGCGAAGAAGTTGGGTTGGGCTCGTGCCCTTCGT
Found at i:482282 original size:21 final size:21
Alignment explanation
Indices: 482256--482318 Score: 126
Period size: 21 Copynumber: 3.0 Consensus size: 21
482246 AGAAAGGGTC
482256 CATAGGCTTCTCTCTCAAGAA
1 CATAGGCTTCTCTCTCAAGAA
482277 CATAGGCTTCTCTCTCAAGAA
1 CATAGGCTTCTCTCTCAAGAA
482298 CATAGGCTTCTCTCTCAAGAA
1 CATAGGCTTCTCTCTCAAGAA
482319 AGCGGGTCTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.29
Consensus pattern (21 bp):
CATAGGCTTCTCTCTCAAGAA
Left flanking sequence: Indices 481756 -- 482255
TTGAGATTTTCTCGTTCATGATCTCTAATCCTTTGAGTAGATTGGGCAGGGGTAAGACTATGCAC
ATAGCTTCGGTTCCGTCTTGTTTGCCAAGGAGATATGGTTGCTTTTCCTTCTTCAGTAGGCTTTC
CCGCAGGTTCGGTTACAGATAGGATACGCGGGTCAAAGGGAAGGCTTGAGTTCAGAGACGAAGTT
GGCTTTGAAGGGACAAACTTTCAGACAGTTCCTTACTTTCTATTCTCTAATCTCTCGCTTCCGAC
TCCTATATTGAAACTCTAAGGTACGAAACTATATATTTAGTCTCTGTCCCGGACTACACAAATTC
CATAAACCCCGTGTTTTTTGATGCGTGTCAAGAGAGTAGTTTCCGCAAGATATTCCATAGGTGGA
TTTAAGCGGAAGATCTGCGTGATCTGATCTTTCTTGAGGACTAGTAACTGGTCCTGTAGCTAGAA
GTCCCCATGAGCTCCCTCAATTCCTATTGAGATTGAGAAAGGGTC
Right flanking sequence: Indices 482319 -- 482818
AGCGGGTCTTAGTGGGTAGTATAGTGCCGTTCAAGCGTACTCCCTGCGGGTAGGGTCTAATACCC
CTTATTGGCATGAGGAACTGGGCTCCCAATTCTTCATCCTCCTTTTTGAGCTGTAAGACCAGGCA
AGGGATCCCGCTTAGTGGGTTCGAGTTCAGTAACAGAACCTCCTAGCCTGCCCTTTTTTAATAGA
TATCTAGGGGCACCCTTCCTCTCCCTCTCCCTACCTTTGGTCGAGCTAGTAAACTTCCTCAACTG
GAGAGGGAAGAATAAGCTGCAAAGCTCTGCTGGTGAATAGCAGATGATGCTCGATTAGGTATGCC
AATCCGGCAGCTTGAAGGCGCGTGTCTGATGTTTCGGTAGGATGTTGCTATGTCCGCTTTCAGCC
CGTAAATCGAAGGCTGTTCTTCCGGGATGACGTTATAGGGTTCAAATTAAAGAATCTTATAGGTG
GAACTAGACATCGAATAAATATTCGTGCATCTCCTAATCGGCGTT
Found at i:487588 original size:15 final size:16
Alignment explanation
Indices: 487546--487588 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
487536 TCCTACCTTA
487546 ACAGTCGATCATGCGCTC
1 ACAGTCGATCATGCG--C
*
487564 ACACTCGATCATGCG-
1 ACAGTCGATCATGCGC
487579 ACAGTCGATC
1 ACAGTCGATC
487589 TGTCCATCCG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 9 0.39
18 14 0.61
ACGTcount: A:0.26, C:0.33, G:0.21, T:0.21
Consensus pattern (16 bp):
ACAGTCGATCATGCGC
Left flanking sequence: Indices 487046 -- 487545
GCCACATAAGAAGCTTTTATTGACCTTTTTTGCCTTTCCTCCGTCTTCGTCACCTGATGACTTTC
CTGCTTTACTTTGTCGGCTTTGGTAGGGTGGTAGCATGTCCTTTAGCAAGGCTAGGCACCTTCCT
TAAAGGAGGCAGCATCCGATCTTTAGCATCCTAGCCAGGGAAATCCCCAAATCGCGAGTCCGGGG
CATATACTTTTTCTTTATCCCCCAGAGAATCCGACAAGAAAGAAGATAAAATAAAGTACATATAT
ATGGGCAAGATCCATATTCCATTTCTAACAGTTCCTTACTTTCTATTCTCTAATCTCGTATGGCA
GCTTTCAGTCTCATCTTCAGTTTCGGGACATTGTTCCTATGCCTCTTTGAAGTGAAGCCCTTATA
TCGAATGATTCAAGACATTTTATTTTATAATAGAAATGAGAGGACAGCCGAATTGACAGAAAATA
GTCTGAACTTGTTGATCAACTCTCTTTGTTGAAGGTCCTACCTTA
Right flanking sequence: Indices 487589 -- 488088
TGTCCATCCGACTACATTCACTGGGGGGTGAGGTTGTCCAATTTCAATTATGTGCCGCTCGTTGA
CATCTAGTTTCCATTGCCGGTGTGAGAGATCTTCCTTCGGTTCTAGTCAAGTATGGCAGCTTGAG
GTCTCCTATTTCACTTTCACCAGCCATTGGGAACTCAAATAAACTTTCATTTAACGGCAGGCGAG
AAAGGTTCTGAAAGAAAGAAAGGTAGAAGGGGGGTTTGCTCCCGTTTCGGGGTTCTCTTGTGGAC
TGGCTGTTGACTGGCCGGGAGAAAACCGGTGCTTTTAGCTTAAACGGATTTTAACTGGATCGGAG
CCTTTCGGAAATCCTCCCGCTTCACTTGAGCGGTTGACGCAATCCAAGAGGAAGAGGAAGCTAAA
CCCGTGCTGACGAATAACCAAACCCCTTAATTCGTCGAGTAAAGTAAATAGGGAAGGTATAGGTT
TGCTATGAATGACCCAGTATCGAATACAGGTAATAATATCAGCAA
Found at i:490613 original size:31 final size:31
Alignment explanation
Indices: 490575--490677 Score: 206
Period size: 31 Copynumber: 3.3 Consensus size: 31
490565 CTTTGGCTGC
490575 CTCCTCTTCCTTGCCAGTTGAGCTACTTCCA
1 CTCCTCTTCCTTGCCAGTTGAGCTACTTCCA
490606 CTCCTCTTCCTTGCCAGTTGAGCTACTTCCA
1 CTCCTCTTCCTTGCCAGTTGAGCTACTTCCA
490637 CTCCTCTTCCTTGCCAGTTGAGCTACTTCCA
1 CTCCTCTTCCTTGCCAGTTGAGCTACTTCCA
490668 CTCCTCTTCC
1 CTCCTCTTCC
490678 AATTTGAGTT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 72 1.00
ACGTcount: A:0.12, C:0.41, G:0.12, T:0.36
Consensus pattern (31 bp):
CTCCTCTTCCTTGCCAGTTGAGCTACTTCCA
Left flanking sequence: Indices 490075 -- 490574
AAAAGACACTCCGGCCTAACATAACAGCACTTTCCTTACCCGTTGTGCTCTGTCTGAGATAAGGA
GCAAAAGGCTAGACGGAAGACCTCTAATCTACCAATCAATCTAGCTAGCATCCTATGATTTTTGT
TCCAGAGGCCAATAACCCGAAAGTAAGTATTTACATCTCCTGCCAGGTGTAAGATAGAGGTTTAA
AGCTCTCTTGGCAGCCTCTACGCTACGCCCGGTTCACTCTTTTCATAAGGGCTTTACCCGCTCAA
CCATCAGAAGGGGGCTTTTCCCATCATGCCATGGAGTGAGTAACTAGCTCGGCTAACCACTAAGT
CGCTCATGCACAAATTCTTACAAAAAGGGGAGCCCCGCGAAGGGTGGAGATGAATCTATATCTGT
CAATCACAAAGCCAAGACATCCCCCAAACGTAGATTGTAACAACCAACGAATTTCTTTTCTATTC
CTGTCTGGTCTAACCAATTCTCGAGGTTTAATGGCCTTTGGCTGC
Right flanking sequence: Indices 490678 -- 491177
AATTTGAGTTTCCTCCTCTGTTTAGTTTGAAACTGAAAGGCATAGAAGCTCTCTAGAGAGCTACC
GTATCCATGAGGGGCAAGCCAATGCTTTAGAGCTCTTTAGCTGCCTCTGCACGAATTCTTCTTCC
GGTTGGAAAACTATACCTCTTCTTTCGTCTTGCGATTGGATGAACCAGCAAGTGTTTTTCATGCA
TTGACCTCGGTATCGTAAACACATATCTACTGCTTGCTGCCCGTCCCAAAACAGCCTATTTTAGA
CCCTAATTTAACGTTGCGCCGAGAGTTATCGTTAAATCCAATGGCAAGAGCCCTAACCTCGGCTG
CTGCCCCGGGCTGTCATATGTTGGGATCGCCTGCCCGAAGGGCCTAGATCTGAGTCTCCTATTCT
GTTTCTGTTTTAGAGAGATAAACCCCCTTTACTTTACTAAGTCTGGTGCCTCTGTTCCTTGGGCC
CTATCATCAATAGTAAGCTAATCCAATTATGCATGTGTTCCACAG
Found at i:532061 original size:20 final size:20
Alignment explanation
Indices: 532036--532075 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
532026 TATCTTCATT
532036 CCTTCCCATAGGCATTAGCC
1 CCTTCCCATAGGCATTAGCC
532056 CCTTCCCATAGGCATTAGCC
1 CCTTCCCATAGGCATTAGCC
532076 TCAGAATCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.40, G:0.15, T:0.25
Consensus pattern (20 bp):
CCTTCCCATAGGCATTAGCC
Left flanking sequence: Indices 531536 -- 532035
TGGAATCTTTGAATCATGCAGCTTTGCTCAAGCACATATGGCACCTCCGCTCAGATGGGGATCAT
GGTCTCCCCTCCGGATCTTTGTTGTCCTCCTCAACCAACATATTGATATACTAAGGACTGGCGAA
TTCACACTTCTTCAAGTTCAGCCCCGTGCTTCAAGGCAGGCATCCGAAACAGATCTGGGACTTTG
CACATGCTCTTACCATGTCCCACTGAAAACCGGGATGTTGAGGATACCAATACAGAGTGAGAACA
GTATGGTAACCTACATAACTCATCAGCCTCATGGATGGACACGATCCCTTACCCTGTGCTATAAG
TCGCGCCTTAGCCTATCTTGAGAAGGAAGAAATAGTTAGGTTGGACGGCCGAGGTACCTTACTTC
CCAACTGAAGGAGATGTCTAAATGTCATTAGATACGGAATTGGAAGATAGAAAGGATGGTTCGGT
CCCCCCATAAAAATCGCCTTAGCATTTAGCATCTCTATCTTCATT
Right flanking sequence: Indices 532076 -- 532575
TCAGAATCTCCATCTGATCTGAATCCCATTCACATCGTGTGAAGCCAAATCTGAAGTTTGATTCA
GAGCTAGTTTCAAACTATAGGGTAGGGGCTCTTCCCGCGCTATTGCGTACGTACTTAGCTTAGCT
AGTTTAGGGCTTCTATCGCGCTATTATAGCTAATTTTAGGCTAAAAACACGGGGTTTTAAAGCTA
GAGACGTTCAATTCATGCTTTTTTATGATAGCTATTTAATCTTGTTAGTTAATCCATGCCCCCCG
TCACAAAGTTGCTAATGGCTTTCGGTACGCCGTGCGCACGAAAGGATCTCAACTGGTGTAGGGTT
CTCGTCCCACAGACCCCATTTCGGTGCCATTGCAGTGGGCTCACTGGGCCCTCCAGTTTTTCCGA
TCGCTCTTCTTGCGCGCGAAGTACAGCAAGCTATAGCCACTTTGCTTCCAAGCGCGGATCGCTAA
TCAAGTTGAGAGATCGGTCCTGACGTCGAACAGGTTGCCTCCCTA
Done.