Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_065233
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: 508005
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.27
Found at i:102317 original size:22 final size:23
Alignment explanation
Indices: 102278--102323 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
102268 CTTTGAGACT
**
102278 TTCTTCTCTTTGCTAGAAT-CGC
1 TTCTTCTCTTTGAAAGAATGCGC
102300 TTCTTCTCTTTGAAAGAATGCGC
1 TTCTTCTCTTTGAAAGAATGCGC
102323 T
1 T
102324 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 101778 -- 102277
CGGAAAGGAATGGAATTTCTTTAAGCTTCACTCCGCTATCAGACTAGTTGCGAAGCGTTGGGATA
ACTAAAGTGGAATATGCCTCAACTAGTTGCCCAGGATGAGGCCATTGCAGCCACTAGCACGGCCA
AGTCACCAACCTATGGCTCCGGGGAAGCCGGCAGGGAGGAAGGATGATAATCCAACCAAAGGAAT
TAGCCACTCGTTCTATCAATAGGCGCCGTGGGCCTATGAGCTTCTGGGCCTGTACGATTTCCTGT
CCTCAACAGTTCAAAACGCTTGACACTGAGAGCTTTGGTGAATATTTTGCCTTTTGGTTATGGAG
TCTTTCCTTCCTTCCAAGCCGCTTTCAAAGCAGTAGGCAGTCTCTTCTTTCTTCTTATACGGTAG
CCAGTCTTTTTTAGAATGGTTGAATAGAGCCTCCCTTCTGTCTCCCAGTCTGTCTTATAAGAAGA
TAGTAGTAAGTCAGTTGTAGGTTTACGAATGGCTTCTTTGAGACT
Right flanking sequence: Indices 102324 -- 102823
GTGATCTTTTCAAGTTCATCCTAGCTATCATCTCAATCATTCTTCATTCACTTCGAGCCCTCGGG
TAGTTTTCTCATCCAGGAGAGTAGTCTTAGAGGCGGTCTCCTCCCTGTCCTTCTTAGATGGTATC
CTCTCTGTCCTTCCCCTTTCCCGGACTCGAGAACCCCTGAAGCGCACTGGAAGCATCTCAAGGAA
AAGAGAGAAGTCAAATATCGTAGGCTTTAGATAAGATTCCCTAGTAGATAGCTAAGCTAAGAGAG
TGCTCCGGAAGAGCTAATATTAAAAATTCTTTCCCTTTCTTTCACCGAGGAGGCTAACTAGATAG
ATGGTGGGTCTAAGGAAGAGAAGAATATGAGCTATATTTTCATCCCCTTTCAGTCCCTTTCCTTA
TCCTTAGAACAGTAGGGTTTGAAGCTGGCAAAGTCAATCAATCCAGCAGTCAAAGGGGCAAGTGC
AGTCACTCAACCAACGCCTTTCAAGCAATATCTTAAGTAGGGGTA
Found at i:110817 original size:6 final size:6
Alignment explanation
Indices: 110806--110836 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
110796 GATCAATCTT
110806 CCTCTC CCTCTC CCTCTC CCTCTC CCTCTC C
1 CCTCTC CCTCTC CCTCTC CCTCTC CCTCTC C
110837 TATGGTCGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.68, G:0.00, T:0.32
Consensus pattern (6 bp):
CCTCTC
Left flanking sequence: Indices 110306 -- 110805
GTTCTCTCGGCGCTGCTTTCATTCTTGTTCACCAAGACGTAGCTGATCCGATCTAAGAAGATGAT
ACTGACCGCGCTGAGGAGTTGGAATCTTGAGGTGACTACCCGGAGGATGTAGAAACAATCAAAGA
TCTTATTTAGTGCCTACCTATATTCCATACATATAAAAGCAGCGGGCAAGGCTTAAAGTGAGAGC
TGCCCGATCTTGAAGCTTTAGTTGGAGGACGCAAATCTGCTTCACTTGGTTTGTTGTCGGTAAGA
GATCTCTAATTCAACATATGTCAGAGTGGGAAGGTAAAGGCTGCTTAAGGTGTAGAAGTACCTCT
TGGCCATTGTCTCAAGAGCAGCTACTGATGCTAGATTCGCTAAAGCAAGAATAAGGTTGGTCGTA
GATCAGGAGATTGAATAGCGGGAATCGGAGATTGCTCGTTCGCTAAAGTCCTGTCTGCCTGCCCG
TTGATTCAGTACGTTCCTATCCCCTTGGGAAGTTTGATCAATCTT
Right flanking sequence: Indices 110837 -- 111336
TATGGTCGAGTGAGTCCCTACCTATGGTCGAGCTAGTTTAACCTTCCTCCAAGACTTGAATCAGG
AATATCTTTTCTGTACTATGCCCTGCGCCTGGTCTTTCTTCTTTATTGCCTTGGCCTTTCACCGG
ATCGATCCCTTCCACCATTCCTCCAACAGATGCGGATGAATTAGCTGCCGTTATTCTTTCAACAT
TTGCAGAGCTAACCCCTGAAGTGACTTCAGTCCCGTGTTAGAGCTAACTGCTGCTTCTTCTATAG
CAAGTGCCGAGCAGGAATCACTGCTTATTCGACCGGTAATGCCGTATGCCCCTCATGCTTTGCCT
TGCCAGCTTTGCTTTGCCCAAGCCCTTTGACCCCCTGCACCTATAACATAACTATATGCTTCTTT
CGAGGAATTATTATCGCTTAGCGCTTGTGCTGAGGAAGTGAAAGACGGTGGAGGGGCACTAGACT
GACTCGCTTTTCCGAAAGGTTTTGTCTTCGCCTCAATCCCAGTCG
Found at i:113104 original size:19 final size:19
Alignment explanation
Indices: 113068--113122 Score: 62
Period size: 17 Copynumber: 3.0 Consensus size: 19
113058 ACTAAAGGGG
*
113068 TTATGAGTTAGAAG-AGTTA
1 TTATGAGTTA-TAGCAGTTA
113087 TTATGAGTTATAGCAG-T-
1 TTATGAGTTATAGCAGTTA
*
113104 TTAAGAGTTATAGCAGTTA
1 TTATGAGTTATAGCAGTTA
113123 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 112568 -- 113067
CACTGATTTAAAGTTAGGGGAGCAGTGTAACTGCCATCAACTCCTATAACTCTTTTCCTTAAGTT
TAGGTTAGTTCCCTCTTAATTAGGTATTATGCAGAGTTCCTACCTAGAACTCCCTTATAAACTAG
AAAGCTAACTCGAACTCGTAACTCAATTAATTTAAGTTACAGGTATGATAAATATAAGTTACTGT
TATTAGGCACATCCTTCTTTCTTGTCCTTGTTGGGGAATCCTATATCTTTTAAGAAAAAAGAAGT
TTGAAGTCCTCTCCTTTGCAGTCGAGTTACTTTATTCCTCATAGCTTCACTCTTTTCTTTTAGTT
CCCTACGGGGTTAAGTTAAAGTCTTATTATTATTGATATTCCCCCTACGGGGAGGTTACCGTTAT
TATTATTAATAGAATTCTAATTAGTTACCAGTAAAGTATTATTAGGTATTAAAAGTCTTTTTAGT
TAGGGGTGTAACTGGGGGCACTCCCCCGGAACTAAACTAAAGGGG
Right flanking sequence: Indices 113123 -- 113622
GGGAGTTATGAGTTGCTAATTGTCATTCTCTTTAGTTCCCTACGGGGTAGTTACAGGTATGATAA
ATATAAATCTTAGTTACCGGTATTAGAAATATAAGTAATATAAATATATTGGTAGTTACAGATAT
TCTTAATTTGGTGGAACTGGGGGGTCTGGCGCAGTGTAACTGCCCCCGGAACTGGTTTAAAGAAG
AGTTAATTGTCTTAATCTTTAGAAACTAATAGCTAGAAAAACAGGCTATTCCATCTAAGGCATAA
CATGAACCGAGGAATCCAACCAAATAGGAATGAATAGGCATGTGGGAACAGCATTGCTTGCATTG
ATTCAATTGATTTGAAGCGGCGGTTATACTATACATACAGACATAGTTTTCACTAGGGGTTTTTA
CCGAGTTGGTCACAAGCCCGTCAGAAGCAACCTCAGCAGAAAGCCACTCTTCCAGAGTCTCGTCC
ATCGTCTGCTTAGGCGACTATTTAATAGCCTTTAGATCTGCCTGT
Found at i:137432 original size:21 final size:22
Alignment explanation
Indices: 137407--137471 Score: 75
Period size: 21 Copynumber: 3.0 Consensus size: 22
137397 TCTTCCGCTA
137407 TAGTAGCTCCTCTGATAGTAGC
1 TAGTAGCTCCTCTGATAGTAGC
137429 -AGTAGCT-CTCCTG-TAGTAGC
1 TAGTAGCTCCT-CTGATAGTAGC
*
137449 TAGTAGCTCTTCTGA-AGGTAGC
1 TAGTAGCTCCTCTGATA-GTAGC
137471 T
1 T
137472 CAGTCGAATA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
20 9 0.24
21 21 0.57
22 7 0.19
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.32
Consensus pattern (22 bp):
TAGTAGCTCCTCTGATAGTAGC
Left flanking sequence: Indices 136907 -- 137406
CGATTTTAGGCTTTCAGAGCAGGAGAGGAAAAGCAAGATGATCGACCGGCTACAGGAGTTGCAGA
GGCTCTCGAACTTTCTGTGATCACTATACGGTGATTGTGAAATTGGGATCTTGGGGGTTTACAAC
TCCTTAGAACTCTCTTCAAGTGGAAGGCAGGGGGGATCAAATAGAATAGATAACTCTTCATACTA
TTCCATTATGTGCTTCCCCCTTCCAGAGCTAAGCTAGACGACTCAAATAGTTTATAGCGTCTCGT
ATGGGACATATCTAGTCTTTCCCCGAATAGAGTACTTCATTCTTACTATAGCAGGCATGCGAAAG
GGCTCTCTCATCTGCTATTTGTACCAGAAGACGAAAAAAGCAAGGAATCCTAGATTTCCGAGACG
ATAGGAGCGAGGCTGAGCGTTATAAGGCGGCTAAGGCAATCCGTTAATCTCTTTATGAAATAGAT
CCCCCTTCGTCTGGCTTAGCTCATGGAATAGTAGCTCTTCCGCTA
Right flanking sequence: Indices 137472 -- 137971
CAGTCGAATATGCATTAGAGTAAAGGAAAGCTGTCCAATCGGTCTAACCAATCCTCTAGTTTCAG
AGTCAAAATAGGACGGTAAACAGGAGCAAGAATTAAGGCCTCAGTTAAGGCAGGGGCCATTCCAG
GTATTCTGGGGCAGAGCAGTAGCACCGGAACTCTGGCGGCTAGCATTTCGACCGTTAAAACGAGC
GCCCTGAATGAATAAAAGAAATGGACAGGAGAAGCAAAGAAGAGTGAAGGCGAAGAAAACTGTAG
CCTTCATACCCGACTTCCTCGATCAAAATCTTTCACCATTTCGCTCGACAACTGGGGCTTCGGCA
GCTTATATCCGTTCCAGTGTCTCATAGCAGTCTGAATCTGAATAGTACGGCGTCGAAGCGGTTCA
ATCTTCTTTCTCTGGATGGTGTGGTAAGGATGTGTGTGAGTAAGCGCCTGATGACGAAAAAGGTT
GATCCGGGTGGAAGTCCCCCGGACGCTCCTAGCCTGAGTCCTGCT
Found at i:210179 original size:21 final size:20
Alignment explanation
Indices: 210149--210188 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
210139 CAAGCCGACC
210149 TAACCAACCTACGATATATAG
1 TAACCAACCTACGA-ATATAG
*
210170 TAACCGACCTACGAATATA
1 TAACCAACCTACGAATATA
210189 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 209649 -- 210148
AGGCTCACCCTTGCCATGGGCGATAGCGGCTATGTCTAAGCAGCTGCTTTCCCATTCATTCCATA
GGTAAGTCTTATTTTTTGCTGTAAACGAAGAAGGAATGATTCAATATCATATCATAAAAGACCTA
GATGCTCTAGCTCCAAGAAAAGACTAAGAAAACTCCTTAAAAAGAGAAGAGTCAATCCTCAGCGT
CGGATTCTTCTTATGCTGATTGACCTAGCCGTGCGTTTCCAACTGTTATGACTGGGAGCTAGGCG
CTATTTAGCCCTCCATTTCTAAAGCAAGCAGGGGAGCTAGACTCGCTCGACTGAAAGGAACGAAG
TAGCTTGATTGATGAAAGGAACGAAGTAGCTTGACCGCGGGCGCAGGGAAAGGAGAGGGAGTCAC
CGAAGAGAAAAAATAAAGGTTCAAGACAATGAAAAATATAAACGCAGGAAGGAACAAAAGTCAAG
TATGTAATCTAGCAGTCATGAGAGCAGGTTAGAGGCAAGCCGACC
Right flanking sequence: Indices 210189 -- 210688
ACTTTGGGTTAGGTTGAAAAGTCTAGTTGGAAAAACAGATCAATCGCATCCCAAAGGGTCAAGGG
CTGAGTTGCACATTCTATTTTGGCCTCTTTTCTTAAGTAGAATGAAATGTTCGGCCTAATCTATG
ATATTGTGATTATGTTACTGTTATTTGGTCTTTTTCAAGCTTCCCAGAGTTGTCCTTCAGCAAGC
AATTATAGGGGTTGAAGGGGTACCCTTCTAGGTCGTCGCTTTAGTGGTCTAATTTAGGTCTTTTT
ACGTTATGGAGTTTACTCACTTCTTTTTTATATTATTAGAGTTGAGTCTGGTATCGATAGATTGG
CAACCTCTAGGGTACAAGCCCCTCCAGGTACACATATATGGGCTCTAATCCCAGGTTAAACTATC
CAGGCGAACTACGTAATCAAATAATCCATGGAAGACAGGGGTTGATCGAGTTTTGTACCCTTTAT
CGTTTTTGGGTATAGGCTGATAGTTAGGCGGTGACTCACGTATCC
Found at i:260857 original size:21 final size:21
Alignment explanation
Indices: 260831--260893 Score: 126
Period size: 21 Copynumber: 3.0 Consensus size: 21
260821 AGAAAGGGTC
260831 CATAGGCTTCTCTCTCAAGAA
1 CATAGGCTTCTCTCTCAAGAA
260852 CATAGGCTTCTCTCTCAAGAA
1 CATAGGCTTCTCTCTCAAGAA
260873 CATAGGCTTCTCTCTCAAGAA
1 CATAGGCTTCTCTCTCAAGAA
260894 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 260331 -- 260830
ATTTTCTCGTTCATGATCTCTAATCCTTTGAGTAGATTGGGCAGGGGTAAGACTATGCACATAGC
TTCGGTTCCGTCTTGTTTGCCAAGGAGATATGGTTGCTTTTCCTTCTTCAGTAGGCTTTCCCGCA
GGTTCGGTTACAGATAGGATACGCGGGTCAAAGGGAAGGCTTGAGTTCAGAGACGAAGTTGGCTT
TGAAGGGACAAACTTTCAGACAGTTCCTTACTTTCTATTCTCTAATCTCTCGCTTCCGACTCCTA
TATTGAAACTCTAAGGTACGAAACTATATATTTAGTCTCTGTCCCGGACTACACAAATTCCATAA
ACCCCGTGTTTTTTGATGCAAATTGTGTCAAGAGAGTAGTTTCCGCAAGATATTCCATAGGTGGA
TTTAAGCGGAAGATCTGCGTGATCTGATCTTTCTTGAGGACTAGTAACTGGTCCTGTAGCTAGAA
GTCCCCATGAGCTCCCTCAATTCCTATTGAGATTGAGAAAGGGTC
Right flanking sequence: Indices 260894 -- 261393
AGCGGGTCTTAGTGGGTAGTATAGTGCCGTTCAAGCGTACTCCCTGCGGGTAGGGTCTAATACCC
CTTATTGGCATGAGGAACTGGGCTCCCAATTCTTCATCCTCCTTTTTGAGCTGTAAGACCAGGCA
AGGGATCCCGCTTAGTGGGTTCGAGTTCAGTAACAGAACCTCCTAGCCTGCCCTTTTTTAATAGA
TATCTAGGGTTGTCGGCACCCTTCCTCTCCCTCTCCCTACCTTTGGTCGAGCTAGTAAACTTCCT
CAACTGGAGAGGGAAGAATAAGCTGCAAAGCTCTGCTGGTGAATAGCAGATGATGCTCGATTAGG
TATGCCAATCCGGCAGCTTGAAGGCGCGTGTCTGATGTTTCGGTAGGATGTTGCTATGTCCGCTT
TCAGCCCGTAAATCGAAGGCTGTTCTTCCCATAAGGGGGATGACGTTATAGGGTTCAAATTAAAG
AATCTTATAGGTGGAACTAGACATCGAATAAATATTCGTGCATCT
Found at i:266208 original size:15 final size:16
Alignment explanation
Indices: 266166--266208 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
266156 TCCTACCTTA
266166 ACAGTCGATCATGCGCTC
1 ACAGTCGATCATGCG--C
*
266184 ACACTCGATCATGCG-
1 ACAGTCGATCATGCGC
266199 ACAGTCGATC
1 ACAGTCGATC
266209 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 265666 -- 266165
GCCACATAAGAAGCTTTTATTGACCTTTTTTGCCTTTCCTCCGTCTTCGTCACCTGATGACTTTC
CTGCTTTACTTTGTCGGCTTTGGTAGGGTGGTAGCATGTCCTTTAGCAAGGCTAGGCACCTTCCT
TAAAGGAGGCAGCATCCGATCTTTAGCATCCTAGCCAGGGAAATCCCCAAATCGCGAGTCCGGGG
CATATACTTTTTCTTTATCCCCCAGAGAATCCGACAAGAAAGAAGATAAAATAAAGTACATATAT
ATGGGCAAGATCCATATTCCATTTCTAACAGTTCCTTACTTTCTATTCTCTAATCTCGTATGGCA
GCTTTCAGTCTCATCTTCAGTTTCGGGACATTGTTCCTATGCCTCTTTGAAGTGAAGCCCTTATA
TCGAATGATTCAAGACATTTGATTTTATAATAGAAATGAGAGGACAGCCGAATTGACAGAAAATA
GTCTGAACTTGTTGATCAACTCTCTTTGTTGAAGGTCCTACCTTA
Right flanking sequence: Indices 266209 -- 266708
TGTCCATCCGACTACATTCACTGGGGGGTGAGGTTGTCCAATTTCAATTATGTGCCGCTCGTTGA
CATCTAGTTTCCATTGCCGGTGTGAGAGATCTTCCTTCGGTTCTAGTCAAGTATGGCAGCTTGAG
GTCTCCTATTTCACTTTCACCAGCCATTGGGAACTCAAATAAACTTTCATTTAACGGCAGGCGAG
AAAGGTTCTGAAAGAAAGAAAGGTAGAAGGGGGGTTTGCTCCCGTTTCGGGGTTCTCTTGTGGAC
TGGCTGTTGACTGGCCTTTGCCTGGGGAGAAAACCGGTGCTTTTAGCTTAAACGGATTTTAACTG
GATCGGAGCCTTTCGGAAATCCTCCCTTTTTGGCTTCACTTGAGCGGTTGACGCAATCCAAGAGG
AAGAGGAAGCTAAACCCGTGCTGACGAATAACCAAACCCCTTAATTCGTCGAGTAAAGTAAATAG
GGAAGGTATAGGTTTGCTATGAATGACCCAGTATCGAATACAGGT
Found at i:309932 original size:20 final size:20
Alignment explanation
Indices: 309907--309946 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
309897 TATCTTCATT
309907 CCTTCCCATAGGCATTAGCC
1 CCTTCCCATAGGCATTAGCC
309927 CCTTCCCATAGGCATTAGCC
1 CCTTCCCATAGGCATTAGCC
309947 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 309407 -- 309906
TGGAATCTTTGAATCATGCAGCTTTGCTCAAGCACATATGGCACCTCCGCTCAGATGGGGATCAT
GGTCTCCCCTCCGGATCTTTGTTGTCCTCCTCAACCAACATATTGATATACTAAGGACTGGCGAA
TTCACACTTCTTCAAGTTCAGCCCCGTGCTTCAAGGCAGGCATCCGAAACAGATCTGGGACTTTG
CACATGCTCTTACCATGTCCCACTGAAACCCGGGATGTTGAGGATACCAATACAGAGTGAGAACA
GTATGGTAACCTACATAACTCATCAGCCTCATGGATGGACACGATCCCTTACCCTGTGCTATAAG
TCGCGCCTTAGCCTATCTTGAGAAGGAAGAAATAGTTAGGTTGGACGGCCGAGGTACCTTACTTC
CCAACTGAAGGAGATGTCTAAATGTCATTAGATACGGAATTGGAAGATAGAAAGGATGGTTCGGT
CCCCCCATAAAAATCGCCTTAGCATTTAGCATCTCTATCTTCATT
Right flanking sequence: Indices 309947 -- 310446
TCAGAATCTCCATCTGATCTGAATCCCATTCACATCGTGTGAAGCCAAATCTGAAGTTTGATTCA
GAGCTAGTTTCAAACTATAGGGTAGGGGCTCTTCCCGCGCTATTGCGTACGTACTTAGCTAGTTT
AGGGCTTCTATCGCGCTATTATAGCTAATTTTAGGCTAAAAACACGGGGTTTTAAAGCTAGAGAC
GTTCAATTCATGCTTTTTTATGATAGCTATTTAATCTTGTTAGTTAATCCATGCCATGGTCGCCC
CCGTCACAAAGTTGCTAATGGCTTTCGGTACGCCGTGCGCACGAAAGGATCTCAACTGGTGTAGG
GTTCTCGTCCCACAGACCCCATTTCGGTGCCATTGCAGTGGGCTCACTGGGCCCTCCAGTTTTTC
CGATCGCTCTTCTTGCGCGCGAAGTACAGCAAGCTATAGCCACTTTGCTTCCAAGCGCGGATCGC
TAATCAAGTTGAGAGATCGGTCCTGACGTCGAACAGGTTGCCTCC
Found at i:316738 original size:18 final size:18
Alignment explanation
Indices: 316698--316740 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
316688 ACCGCCCTGC
316698 CATAGTCGCGAGTCTGTTT
1 CATAGTCGCGAG-CTGTTT
316717 -ATAGTCGCGA-CTGTTGT
1 CATAGTCGCGAGCTGTT-T
316734 CATAGTC
1 CATAGTC
316741 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 316198 -- 316697
GAAAGCTTATTTTTCAAGTGTCAGTAGCGGAACGTTCTGTCAATCGGGGAAGGTTTTTGGTGACA
ACACCTGGAGATATCAGAAGTGAGAATGCTGACATGAGTAACGATAAATCCTGTGAAAAACACGA
TCGCCTGCCAGTGGAAGGCTTTCTGCGTTCAGTCAATCTACGCAGAGTGAATCGGTCCCTAAGGA
ACCCCCGAAAGGGCTGCCGTCCGATGGGTACACGAAAGTGACGAAGTTGCTTTGACTACAGAACC
ATGCCTATCTGTTGGAGCGAATTGGATGATCGGGCCGAGGGCTGCCCCCTCTTCCCCTCACTCTC
CTTTCCCTAATATGAACCTTGAGTCATCAAAGCCTTTCTGACTCGGCCTGGCCCGGTCGCCCTAC
GCGACTGGCGCTTCAAAAGGCGAAACTCTCGTCGTAGTTTGGCGACCTAAGGGGCCCTTAGTCTT
TTGATTAGAGTAGGGGTCGCGAGAGAGCAGAGCGTACCGCCCTGC
Right flanking sequence: Indices 316741 -- 317240
AACAAGGTTGAAACTTCCAGGAAAAAACTTCGAATTGGGAGGGCGATCCTCCCGGTGAACTGACC
GTACCCCAAACCGACACAGGTGAACAAGTAGAGTATACTAGGGCGCTTGAGAGAACCATGTCGAA
GGAACTCGGCAAAATGACCCCGTAACTTCGGGAGAAGGGGTGCTCTCCTATCTTTTGATTAGGAA
AGCGGCACATACCAGGGGGTAGCGACTGTTTATTAAAAACACAGGACTCTGCTAAGTGGTAACAC
GATGTATAGAGTCTGACACCTGCCCGGTGCTGGAAGGTCGGAAGGAGAAGTGTTATAAGCTTTGA
ATGGAAGCCCCGGTAAACGGCGGCAGTAACTCTAACTGTCCTAAGGTAGCGAAATTCCTTGTCGC
ATAAGTAGCGACCTGCACGAATGGTGTAACGACTGCCCCGCTGTCTCCGACATGGACCCGGTGAA
ATTGAATTCTCCGTGAAGATGCGGAGTACCAACGGCTAGACGGTA
Found at i:318146 original size:21 final size:21
Alignment explanation
Indices: 318120--318161 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
318110 CTTCCTCATT
318120 CGACTACCACAAGAAAGAGAA
1 CGACTACCACAAGAAAGAGAA
318141 CGACTACCACAAGAAAGAGAA
1 CGACTACCACAAGAAAGAGAA
318162 GTGGAAGGAG
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 317620 -- 318119
CAGGCTGATGACTCCCAAGAGCTCTTATCGACGGAGTCGTTTGGCACCTCGATGTCGACTCATCA
CATCCTGGGGTTGAAGAAGGTCCCAAGGGTTCGGTTGTTCGCCGATTCAAGTGGTACGTGAGTTG
GGTTTAGAACGTCGTGAGACAGTTCGGTTCCTATCTACCGTTGGTGTTAAAGGGAGAACTGCGAG
GAGCCAACCCTAGTACGAGAGGACTGGGTTGGGCCAACCTATGGTGTACCGGTTGTTATGCCAAT
AGCAGCGCCGGGCAGCTAAGTTGGTATGGAAGAACTGCAGCTCTGCGGGAAATCCTTCTCTATAC
AAGTTCTCGGAAGAGGTTTTAGAACAGAACTTCGATAGGCGAGAGGTGTAAGCACCGCGAGGTGT
GAAGCGATCTCGTACTAAACAACTTTACATAACTGAAAGAAAGTCAAACTCTTACTGCAATTGCG
GTCAGTCTCGATAACTCTTTAGTTGCCGCAACATACTTCCTCATT
Right flanking sequence: Indices 318162 -- 318661
GTGGAAGGAGCGGGGTAGAGGAACTGGTCGACTCATCAGGCTCATGACCTGAAGACTGCAGGTTC
GAATCCTGTCCCCGCCTAAAAAAATAACTCAAATTACTTGAGATGCATTTGTAGGTATTGGTCGG
TTACAGCTGGTGTATTTCTACACGCCATAGATAGCATGGATTGGGAAAGAGTACGGCTGATTTAT
CACCCTTCAGTTGAAGTAGGTTTTATTTGTGACGAAAGTTGTCACAAATAAAACCTATCGTTACG
AACAAATGGCATAGAAACCCTTTACCCACACCTAAGCTAAGGAAGTCAAAGGGGAAAGAGCCTAG
AGGACGCATTGTTACCAGTTGAAAGTAGACACTTCCGAGAATGGTACCCATTGATCTCACAAAGC
AAACCCCCATTAGAAGACCCCAACCTACCCCCTAGACAACACCTTGCTGCAACACATTGACTAGG
CAGAGTTCAGAGACTTCACAGCAGCCTCGGGGGGTTGAAGCTCTT
Found at i:343077 original size:51 final size:51
Alignment explanation
Indices: 343009--343105 Score: 151
Period size: 51 Copynumber: 1.9 Consensus size: 51
342999 TAATAGCAAA
*
343009 GGAATCTCAAGCCAAGGAATCGAATTTCTGAC-AAGGAATCTCAAGCCGCAG
1 GGAATCTCAAGCCAAGGAATCGAATTTCAG-CGAAGGAATCTCAAGCCGCAG
* *
343060 GGAATCTCAGGCGAAGGAATCGAATTTCAGCGAAGGAATCTCAAGC
1 GGAATCTCAAGCCAAGGAATCGAATTTCAGCGAAGGAATCTCAAGC
343106 TAATTTCAGT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
50 1 0.02
51 41 0.98
ACGTcount: A:0.35, C:0.22, G:0.26, T:0.18
Consensus pattern (51 bp):
GGAATCTCAAGCCAAGGAATCGAATTTCAGCGAAGGAATCTCAAGCCGCAG
Left flanking sequence: Indices 342509 -- 343008
GGTAGATAGGAACCGAATTCAAAGGCTTGCATGTTAAAGATAGAACCAACGGTGGCAGAAGAGAT
TTGTGCAGGAGCTGGCGGAGAGCGGAAGATTCGAATCTCGATCCGGGGAGACGTTTCAACGTTAG
CTCCTGTAAGCCTGAGCAAACAAAGGTTGTAGTAGGGGCTTCCGCGACACTTTGATTAGTTCAAT
TAACCCAGCCTCAAGGACAGAAAGGGAGGGTAGGGTTTTTCCTTGATGAACCGAAGGAGGCCTAA
GCATTTTGAAAACCCATATCATTCATTGGTAAGCGTAATTGGTTGGCCCTGCCAACTATATGCAG
GTCTCTCGAGCCTTCCCTATTTCTCGATCGGTTCAATGCTTCATATTTATTCCACTCAAAGCCTG
AGCGTGGCTAGGGTTCTCCCCCACTTCATTAATATAGTATAGCGAGGTGTGGTATAAAGAATACT
GATCGTCCAGTAATGGGTAGCGACAACTGATAAATTAATAGCAAA
Right flanking sequence: Indices 343106 -- 343605
TAATTTCAGTGAAATCCCATGTTTTACTTCAAACTGAAAAAAAAGGAAAGACATGAATCACAAAA
ACTGGCTTACTCGATCATTGGATGATATGCCTAGAAAAGAGGAAGACAAAAAGGAACTAATAAGG
TTTTGGAATGAGTTTTACACTTATTTATTGCAAAATACTAACAAGAGTGGACAACATGGTAAGAG
TCACTCAGTTCAGTATAAGGAAACCGCCTTCGATATTTTGGAAGAAGCAAAAACAAGATTACCAT
TAAGTGTAGATGAATTAAGTGAGATCCAAAAGCAAATTGAGGAGATTACTATATGGTTCGATGAG
AAATCTATTTTTAGGTCAGCTTCCGACATAATCAAAATCTTAATCAGGGAAAATGAGGAAAGTGC
TAAGGATTTTCTCAGGAGAAGGCCATTCGAAAAGGATGATCTTGAATTGCTTTCAGAGTTCGGTC
AATATACGATTGAGGCATTAATAGTTCATGTACTAAGTATGTTTT
Found at i:343089 original size:20 final size:19
Alignment explanation
Indices: 343061--343099 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
343051 AAGCCGCAGG
343061 GAATCTCAGGCGAAGGAATC
1 GAATCTCA-GCGAAGGAATC
*
343081 GAATTTCAGCGAAGGAATC
1 GAATCTCAGCGAAGGAATC
343100 TCAAGCTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.36, C:0.18, G:0.28, T:0.18
Consensus pattern (19 bp):
GAATCTCAGCGAAGGAATC
Left flanking sequence: Indices 342561 -- 343060
TGGCAGAAGAGATTTGTGCAGGAGCTGGCGGAGAGCGGAAGATTCGAATCTCGATCCGGGGAGAC
GTTTCAACGTTAGCTCCTGTAAGCCTGAGCAAACAAAGGTTGTAGTAGGGGCTTCCGCGACACTT
TGATTAGTTCAATTAACCCAGCCTCAAGGACAGAAAGGGAGGGTAGGGTTTTTCCTTGATGAACC
GAAGGAGGCCTAAGCATTTTGAAAACCCATATCATTCATTGGTAAGCGTAATTGGTTGGCCCTGC
CAACTATATGCAGGTCTCTCGAGCCTTCCCTATTTCTCGATCGGTTCAATGCTTCATATTTATTC
CACTCAAAGCCTGAGCGTGGCTAGGGTTCTCCCCCACTTCATTAATATAGTATAGCGAGGTGTGG
TATAAAGAATACTGATCGTCCAGTAATGGGTAGCGACAACTGATAAATTAATAGCAAAGGAATCT
CAAGCCAAGGAATCGAATTTCTGACAAGGAATCTCAAGCCGCAGG
Right flanking sequence: Indices 343100 -- 343599
TCAAGCTAATTTCAGTGAAATCCCATGTTTTACTTCAAACTGAAAAAAAAGGAAAGACATGAATC
ACAAAAACTGGCTTACTCGATCATTGGATGATATGCCTAGAAAAGAGGAAGACAAAAAGGAACTA
ATAAGGTTTTGGAATGAGTTTTACACTTATTTATTGCAAAATACTAACAAGAGTGGACAACATGG
TAAGAGTCACTCAGTTCAGTATAAGGAAACCGCCTTCGATATTTTGGAAGAAGCAAAAACAAGAT
TACCATTAAGTGTAGATGAATTAAGTGAGATCCAAAAGCAAATTGAGGAGATTACTATATGGTTC
GATGAGAAATCTATTTTTAGGTCAGCTTCCGACATAATCAAAATCTTAATCAGGGAAAATGAGGA
AAGTGCTAAGGATTTTCTCAGGAGAAGGCCATTCGAAAAGGATGATCTTGAATTGCTTTCAGAGT
TCGGTCAATATACGATTGAGGCATTAATAGTTCATGTACTAAGTA
Found at i:348749 original size:21 final size:21
Alignment explanation
Indices: 348690--348749 Score: 84
Period size: 21 Copynumber: 2.9 Consensus size: 21
348680 GACGAGAAAA
*
348690 CTAAGAAAGACCAAAAGATAC
1 CTAAGAAAGACGAAAAGATAC
* *
348711 CTAAGACAGACGAGAAGATAC
1 CTAAGAAAGACGAAAAGATAC
*
348732 CTAAGAAAGAAGAAAAGA
1 CTAAGAAAGACGAAAAGA
348750 AACCGCCTTG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.57, C:0.15, G:0.20, T:0.08
Consensus pattern (21 bp):
CTAAGAAAGACGAAAAGATAC
Left flanking sequence: Indices 348190 -- 348689
CCAGGTCAATCAAGAATGGTTTGAGTCACAGTACGCGGACCCATCTCGTACAAAACAGGTACCGG
TGGAAGCCAACTTCCGGATTGATTGGCACACTCTTAACATCATCAAGAAAGACACAATGGTCAGG
GTTGGGCTTCAGCTGGGGACCAAGAGGATACCAGTATATCACAGAGATGTCTGGGTGGATACTGA
TCCAATTGATATCCAAGACTTGTCTAGCCTAGATCACAAAGGAAAACAAAAAATAAAATCACTAG
GGAATGCTTTAATACAACTACAGACTGAAAATGAAATTCTAAATGAGAAATTATCTAAGAAGGAA
AGAGAGTTTGCCGAGAGATACAAAGAGATGATATCACAGTTTGATGCTAAGAAGAATACAGATAA
AAGGATGCACACTCAATACACTACAGAGAGACAGAAAAGTCTTACTGAAGAAAGAACGCTATTAG
ATAAAGAAGAACAAGAACAAACAGAGGTGACTAACGACGAGAAAA
Right flanking sequence: Indices 348750 -- 349249
AACCGCCTTGAAAGACAATTGATAACTGACGAAAGAACTGATGAAGAAGCGCATCAAAGACCTCA
GCCTTAGGGGGGAATAGTTGATCGAACTTCCGTGAGTTCGTTTTTGGTCATCCTGCATTTCTGCA
TTTCACCGACCTTCGCGGATTAGGCTAATCGTATTATGAAATGAAAGGGAGGAAAAATGGATACG
CAGTATTCTATAATGAACATTGTAAGGTTAGAGTTTCTTTAGTAGGCCACAGCAGATCGAAAAGT
CGCTAATTTCGCTCAGTCAAGTTCTCGTATGGGTAAGGATTTGGCCATTGGCAGTTGAGGGGGGT
GTTGATTCCCCCCGCCTACGTAGGGTGCTAAGTGAGTAAAGTAGCCGCCGGATCTAAGAACCCAA
AGAGCACCCATCAAACCACCTCTAGTTCGGGACCCATTTCTACAGTTCGGGTGCCAGAGTCCTAC
TGGAGGCTCATACGCAACCTACGTCTGTTGGGGGGGCTGCCCCCT
Found at i:354762 original size:19 final size:19
Alignment explanation
Indices: 354738--354775 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
354728 GGAGTTTCCA
*
354738 GCAGTAACCCCAAAGGGTT
1 GCAGTAACACCAAAGGGTT
354757 GCAGTAACACCAAAGGGTT
1 GCAGTAACACCAAAGGGTT
354776 TCAGATTCCG
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:0.34, C:0.24, G:0.26, T:0.16
Consensus pattern (19 bp):
GCAGTAACACCAAAGGGTT
Left flanking sequence: Indices 354238 -- 354737
ATGCTATCTTCGACAGTCTTGAGAGCGAGGGCCGCAATAGCGACCACTTTTAACTCTTTTGTTTC
TAAATGATCCCGCTCTTGATCTGGGCGGGATCTATCAGCAGCGGCATTCTTCCTTGCTCGTTCCT
AGGAACTCAGTAACGTGGCCAGTAAGTCAGCGAGCATTGAGGCAGGCAGACAGATATTATTAACT
GCTTTAAGTCGGTAAGGCAAGGAAGGCGGAAGAGGGAAAGTCGCTCCTTAAATACGAGGAGTTTC
AAGAACCCGGCTGATCAGTGTTCTGTTACTAATATGTTGATGACTTCGGCCAGTTCCTCGGTTAA
GTTGCTTAGCATAATTGGTAACTACATGGTGTTGCTGCTATGGCCCTGGAGAGAGATTCCTACTT
ATACCGGGCAGCTCTACCAGCACTAAATTCCCTTCCTTCCGACCAGGACGTATGTTTCTTTAGCT
TGTATATCCTCTTACCATGCAGAGTTATATGTTCAGGAGTTTCCA
Right flanking sequence: Indices 354776 -- 355275
TCAGATTCCGGACTGATCTCGTAGTCGGCTAGCTCATTCGAGCGTATCTCGTTTGGCCTCTTTTT
CTCACCCTTACCTTTCCATTTCAAGCTTCATATCCTACTAATAGCCCCCTTGTCGTTGAATCTCT
TGTAGAAACCACCATTGAATAAAATCAAAGGGTTAGTCTTCTTTGATAGAGGAAAGGTTGAATGC
TGCCCCCTTCCTCTGACCCCGAATCATTCTTTCAACCTTCGGCCAGGCGCCTAACTAACCTAAAA
ATTCGGAAGCTCCTGAAGATCTGACCGAAATCGGATTTACTTTTCGCGCCAAATTTGTTGAATGG
CCTAGGAGTGAAGTTCAAGGGCTTGGCTTTTTGGCTCAGATTCCGTATCGGCTGTTTGTTCATCA
AGCCTATTCTCGAGCCTATATCTACTCTCTTTTCTTTTAGAGGCGTACCTCTCCACGAGATCGAA
CACTTTACCAAGGATTGAATCCAAAAGCAAGAACTCGGTTGACAT
Found at i:358511 original size:14 final size:14
Alignment explanation
Indices: 358492--358518 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
358482 CAGCTTATCG
358492 TTAGAACGCTTTCA
1 TTAGAACGCTTTCA
358506 TTAGAACGCTTTC
1 TTAGAACGCTTTC
358519 TCGCGGGCAA
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:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (14 bp):
TTAGAACGCTTTCA
Left flanking sequence: Indices 357992 -- 358491
GCGGGGACAGAGAAGGATAACCTCTTTGAAAAGGACAGAGCCGCTTGGCCGCTACTTACACATCT
GGAGTTCCGGACTGAACTACGGAACGGAATTCAAGGGCTGGGCTTAGAAGCCCCTTAGATAGCAC
TTCCTCTATGAATAGAAGAGATTTTCTTTCTAGTAGAGCTCATCACGACCATCATAACCTAACTC
CAGGACTGCTACGGGCGCTGATCCTTCTATTTTCTATTCAAAGTTTCGTTTCTCCTGTTGAATGT
AGTTTCTCCGGAAGCGAGCTACTGACTAGCGGCAATCGGGACGGAGAGAAGACTAGAAAACTCCG
GAAGGCGCTAACAAACCGACTCTGCTTACCTACTGAGCCCTTGAACACTGAATCCTATACTATAG
AAATGGCATTTGACCCACTTCCTTCAGCTTGCCTAAACCGTCGGTAGCGAAGGGGAAGGGTCGGT
CTGTCATTCTGTCCTGAGAGTTTAGTAAGGACTTTCAGCTTATCG
Right flanking sequence: Indices 358519 -- 359018
TCGCGGGCAAGGATAGCTGTCCAGGGCTTTCGTCTCGGGGTAGCAACCGAATCTTAGAAAAGCGC
AGACGGGATTAGTGGGAAGGGCTTGGTCGATAGAGATTGCTTTTTCTTTAGAATCCCTATGGAAT
TGGGCGAGGAACCCTCTTCTACTCATTCATGGGCTAGGCTACTCAAGGGTTGCTGACTCTGATAT
TGATTCTCAAAGTGGGCATCCTCCAGCTGGGTCTCTAGTCTTTCTCATGTATTCACTTTCACTTT
CAGCAAAGAGGTTTCAAGCAATCGAAGGAGCAATCCGTGGCAGCTCAGCTCGCTTCTCACCCTAG
TTACACAGTCCTCTTTTTTAGGAAGAATAAGAAAAATCTTACCTCCGTTTTCAAGTTTCAGTCTT
TCCAGTGGGCAAGCGAGTTTCCCTCTTACTTAAGTAAGAGTAAGCTCCCATCGAAGGTAATTTCT
TATTCTCAGGCGAAGGGGAAGAACAAGCAGCGAAACGGTAATAGG
Found at i:359767 original size:18 final size:17
Alignment explanation
Indices: 359723--359780 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 17
359713 TAGTCTTACA
*
359723 TTTAAGTGGTTTGACTTTC
1 TTTAAG-GGTTTGAC-CTC
*
359742 TTTCAGGGTTTGACCTC
1 TTTAAGGGTTTGACCTC
*
359759 GTTTAAGGGTTTAACCTC
1 -TTTAAGGGTTTGACCTC
359777 TTTA
1 TTTA
359781 TGTAATTGGT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
17 6 0.18
18 23 0.68
19 5 0.15
ACGTcount: A:0.17, C:0.16, G:0.21, T:0.47
Consensus pattern (17 bp):
TTTAAGGGTTTGACCTC
Left flanking sequence: Indices 359223 -- 359722
TAAAGATTCAATCTCAAAGCGATACTAAAAATTAGGCAAAAGCAGAACTAGAACTCGAATTCTTC
GCCCCTCCCCTTGTACCAAGAAGCAAGTTCAAAACAGAAGGATAATGGGCTCGTCTATTATAAGT
TATTAGTTGACGGGGCTATCTCAGATATCTCGAGTAAGGAAACGGGCTTGATGGGGAAACATAAT
CGATTTCATAGGAAGACGTGCGCCAATCCACTTCTTTTCGAACGGTGAAGAAGGAGAATCGAATA
AGTCAAGGCGGTTCGCTTCCTCTGCTCTGGCAGCTCCTTCAGCTAGCAAGCTATGTTGGTTGGGA
CATTTCCAATCTCCACCGGCTATTAGTAATCGCCGTTTGTTCTCTCTTCTCGTTTGGGATCAAAA
AGAAATGAGTCCTTTGCCCTTCTCTGGGCCTCGTCCGCCATGGGCGAGTAGCTACATCTTCTTTA
CAAGTTAGCTCGCAAAGCGGGCTGGATTGAATCCATAGTCTTACA
Right flanking sequence: Indices 359781 -- 360280
TGTAATTGGTTAATTGAAAGGAAGGGGATGTAATGAGGTAAAATACAGTTGGTTAACCTTGTTCC
TCATTCCCTGGCTGCTCTGCTATTGTCTGATTTCTGGTCTTCTATTCTAATAACAAGTTCCATCC
ATGATTACTCTATTTCGAAAGTTGTGCTTACAGTCCGATCCTATCGTTCGAAATCATCCCATTTT
CGTAGGTCCGTCCTATTCCGACTCGATCGCTCCACCTTTCGAGGGTCGAGTTCGTGTTCACGGCT
CCGACTCGGGCTATCCTGTGACCAGTCGTATGCCGCTTCCGTTCCATACACGTACCCGTGGTTGG
CGTGCTCAAGCACCCCTTTGGTTTCGTGTGAACAAGAATCCCATTTCTTCTGCTCTTCCGGGTAG
TCAAATTTATATCCAGGATCCGGATACAGGTGACAAAGCTGTGCTGACTTATGGCTTCTCTCGTT
GGATACCTTACGCGATCAGGAGGTCCCAGCTTCCGTTCGTGCTTT
Found at i:400759 original size:16 final size:16
Alignment explanation
Indices: 400738--400771 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
400728 AGAAAGAGTA
*
400738 TAAGTAGGATTCCACT
1 TAAGTAGGATTACACT
400754 TAAGTAGGATTACACT
1 TAAGTAGGATTACACT
400770 TA
1 TA
400772 GGGCACACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (16 bp):
TAAGTAGGATTACACT
Left flanking sequence: Indices 400238 -- 400737
AAAGCCCCTTACAGGGAGTTCGGGTTAGCCCACTTGCCCCAGCACACTCTCAACTTGTAGATGCG
AAAATCCCCCCTTCCCACAACAGAACAGAAAAACCAACAGAACACGAACACCAGCACGTATGAAA
GCAGACCTAAGGAGCGGGCAACTATCCAATCTTCACTCAAATGGACTTATTTCCCTTCGTTAACT
ACTTCAAACGGTGTAGCTACCTCGGCTCCATGTTGGGACAAAGAGCAATAACCGTGCTTATCCTT
CTAATAAAGAAACAAAAACTTGCCTAAGAAACCGATTCACTCATTACTCCTACTACTAGTATAGA
AGAAGATCTATTAACGCGCATGGCTACCTATATAACAGGGGGCCTCTGACCTCTGTCTCACAACC
GAAAATAGAACCTGTAGCTTCATGCCCCGACCTGAACTGAACTACTACTGGCTTAGCTGCCTAGC
TACTAATAACTTGGAACCCGACATGCTAATATAGTAGAAAGAGTA
Right flanking sequence: Indices 400772 -- 401271
GGGCACACTTATTAGCTACAGTTCCCATCTGTCTTGTAAAGAACTAGAACTCGAGCTGCCCGCAG
TTACGGGACCGGACGTAGCAACTACAGTTACTCTTGCTCCGGAGCTTACCAATCCTTGCTTCAGC
GGATTAAGGTAACCTTAGCTACTTACTTGTATTAGAGTAGGACAAGGACTTTACTCTATTACCTC
CTATTTCATATCATACTTGGGAACTACTATCTGAATAGACGCCTTGGGTCAACTCCTAGCCCGAA
ACCCTCCTAACTCCTTACTGAGATTGAGGGGGGGTAAGGTGGGTTACTTGCTGGACGATAAGTAC
GGTAGCGAAGCCTAAGATTAGATGACTGATTAGATTACTAGTTTGGTTAACTCAGGCTCTACGAC
TAAATCTCAGATCTGAAAGAATATAACTCAACAGAAAGCTGCCTTTACTTGGCTTCAAGTACCAT
AAGAGAAGGAAGAATAGATGGAAGCTAGAGAGTAGCTGCCTAGAT
Found at i:439080 original size:39 final size:39
Alignment explanation
Indices: 439037--439115 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
439027 CGATTTTCTA
* *
439037 TTCACTCATGATCTGGCCTGGTCGACTCGATCATGATAT
1 TTCACTCATGATCTGGCCTGGTCGACCCAATCATGATAT
439076 TTCACTCATGATCTGGCCTGGTCGACCCAATCATGATAT
1 TTCACTCATGATCTGGCCTGGTCGACCCAATCATGATAT
439115 T
1 T
439116 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 438537 -- 439036
GCCCACACCTGTGTAGAGTGGATCGTTCAACACCTGCGGCACAAACCCATTTTTGACCTATTGGT
CCTAGTATCATAGGCGACCGAACGGCCGCCCCCTAATTACTAGACCAACCTGCTATAATAATTCC
ATAAACACCTAGCGAAGATATGGCAAACAAATAAAGTAGCCCTATGTTCGAATCTGACAATACCA
TACCATAATCAAAAGGTACAACGGCCCGAGCAACCAGACTTAACATAAATGTAGTCACTGGAGCC
ATTCTAAAAAGGGAGAAATTAGCACTACTTGGTGAAATAGGTTCTTTTAGAATCAATTTCAAACC
ATCTGCTAGAGGTTGTAACAATCCGAACGATCCCACTACATCAGGACCCTTTCGACGTTGCACAA
AAGCCATTACTTTACGTTCAGCTAGCACTAAAAAGGCTACTCCTAGTAGAAGTGGTAGAATTATT
CCAAGTATTTCGGCTGGAACAGCTATGTACGTTTTCGATTTTCTA
Right flanking sequence: Indices 439116 -- 439615
GAAGGATGGGACCTTTTCTCGAAAAACTCCGGATCCAGAGAAGAGTTGAAGATGGTGCAACATCG
TTCCCCTCTACGTTCTGTTAAAATGAAAAAACTTGCTAGAGCGAAAGCACTAACGCCAGAGCTTG
GGCAAAGTGGGGACTCTGCGTGCCCTGATTGACCAGATCTAAATAGATCTGGTTCAGACATTGAA
AGCTCTCGTCGCGAAAAAAAAGATGTTCGGATAACTCTTGGAGATTTACTTCTGCGGGTAGGTTC
ACGTTCCCATCCGGAGTAGTATCTCTATAGACTCTAAAAATTATTGAGAGTTGTTCCACTATTTT
TTCTTTAATAACATTCATGGTTACATCAGTAACCTTTGTTTCTATATTCATACTATCCATTAGAT
GGAGCATTTGGCCAGCTCTAACGGCTACAAGAATAGCTACAGGCAAAGCCAAACCCATCCTAGAT
ATAAAATCCGTAATCAGGTGATCCATATCCGCTATTATATCGTAG
Found at i:460311 original size:27 final size:25
Alignment explanation
Indices: 460276--460326 Score: 66
Period size: 27 Copynumber: 2.0 Consensus size: 25
460266 CTTTGAGTTG
*
460276 AAGGGGCTAGAGCAGCCACAATGAGCC
1 AAGGAGCTAGAG-AGCC-CAATGAGCC
*
460303 AAGGAGCTAGTGAGCCCAATGAGC
1 AAGGAGCTAGAGAGCCCAATGAGC
460327 TGAGGATGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 8 0.36
26 4 0.18
27 10 0.45
ACGTcount: A:0.33, C:0.24, G:0.33, T:0.10
Consensus pattern (25 bp):
AAGGAGCTAGAGAGCCCAATGAGCC
Left flanking sequence: Indices 459776 -- 460275
GAATCGGGCTTTTTCAAAGAATTACTGCAGCTTTCCCACTCCCTTTGATTATCATATACAAAAAA
GTCTCTTCCACTTTCCTACCGTACTACACGAGAGGGCCCCCTGCCCTGGAAGAAAGGGAAGTGAG
GGAAACGGGAAAAAAAGATAGATGATAAATCCCCCCGGATGTAGTCGCGTAGTCTTTTTTTCTAT
GTCGCGCGAGGAACCGGGTTACCAAAGTCACGATCAGAAAGGTTGAAATCCAGATCATGAATCTG
GAAAGCGCTGGTTCGATCCCAGCTCGTGACAAGGCCTAAGCTGAATGTTATCTTGATCACCGGCC
AAGATTGGGTTGGAAGCCCAGGAACGTGCCGTTTAGACCCTATAAGGTCCCTTCCACCTACTTCC
ACTGACTTCGACTTTCTGCCCCTGGAAAGGCTGTCACAGCTTAAGGACTTCTGGTAGTCAACCCG
TTTCAGGGCAAAAAGTGACTAAAGGAACTAAGAAGCTTTGAGTTG
Right flanking sequence: Indices 460327 -- 460826
TGAGGATGTCCTTGAGTTAATGCAGTTCTTGAAGCTTTTGCTTTTTTCCTTTTAGGAGTGAGCAA
GGCATATAGAAGGCATACATCAATAAACCAAGGGGGAACGTTAAGACAACTTTAAGAATCCTCTT
AACAAAGGGCTTTAGGAAGGAGAACGTCATATAGAGTGCATCAAGCCATAAGCATGGGAGGCTTT
ATTAGCTCCCTTTAACACAACCAAATCCGCTTCCGTGTCCTCATGAGAGAGAAGCACGCGTTCTT
GGACTACCAGCTGAATGAAAAAACCTGCGATGTTGGCATTCTTTGGTCTTTCTCCTAGAGATGCC
CGCTTCGGTAAGTCGAAAACTGAAGGAAGGTGAAAGGCTAACCGCAACTTGAGCATATTCTATTA
ATTCCGGTTTCCAGAAGCATCATCTTAGAACATTGCAACGTGGGTCATATCGCAAAGCCGGAGCT
TACAGCATTTACCATTAAAAGTAGGTATCGCACTTTCTCATCATT
Found at i:473727 original size:22 final size:21
Alignment explanation
Indices: 473683--473729 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
473673 CACTCCAGCG
*
473683 TTCTTTTTTCAGTCTTTTTCT
1 TTCTTTTTTCAGTCTCTTTCT
473704 TTCTTTTGTTCCA-TCTCTTTCT
1 TTCTTTT-TT-CAGTCTCTTTCT
473726 TTCT
1 TTCT
473730 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 473183 -- 473682
TAAGGTAGCTTAAGTACTCCTCTTAATAGAGCAACTGGTGGTACCTATTTAATATTAAATAGAAG
AAAGGAAGAAGCTCCTCCCAGGCGCAACTTCCCCACCTTTGTTGCCTACGCCCGCATTCTGTCCC
CCGCCTCTGTTGCCTGTGTGTTGCGCCTCCTACTTCTCACCTTTCGTTTTTCCATTAAGGCGGTG
GTTTACCTTTTGGTTTATTTTCCAAACCCTTTCGGTTTCTTTCCTTTCCATGGTTTGCCTTTATT
CTTTTTCTTGGAAGGTTTGTGGTCATATAGTTTAGGTTGTTTAGCTTTGACTTCATCTTTTATGG
CTTGTAGTTGTTCTTTGGTCAATTCATTTTTGTTCTTTAGTGCAGTGGTGGTATCGTGTACACCA
TTATCTCTTAGTGTTTCATCCCTGACAGTAAGATCGTATTTTCCTTCTTCTTTCCATTGATCTGT
CCCACCTTCATGTTCTTTATATTCTTTATAAAGTTCACTCCAGCG
Right flanking sequence: Indices 473730 -- 474229
CATTGAGGTATAGTTTGTATAGTATTGTCTGTGCCTCATCTATCCTTTCCTTTGGCTCGTGATTA
GTTCGAAAAGTTGTCCTTGCATCCTCTCTTTGTCTGCTAGTAGCTCATCTAACATCTGTTCTTTC
ACAGTTTTAGGGAGACCGTCATTCATATGCTTCTCTTCGGACTGGACTTCAGTAGTCTCTTTCAT
TGTTTTGTCTATTTCTTCTTTCCCTTCGTACTTCCGTAGTTGTTTCAGCATCTCTTCTCTTTCTT
TGACGCAGATCCCTTTCGGGAATTGAATTTATGCAATCTTCCCCTGTCCCGGCGGATCCAGCTTA
TTCGCTTATTCTTTCATTGGACTCTCTTTAAAAAAGAAAAAATCTCGTATGTAAGCAAGCATCTC
TGTTAACAGCTGATATGCGATAGCAGGAAGCAGGATGGGCTGTTACGTAATGGACAGCTACTCAG
TCTTCTAGTGTTTATAGTGCATAAACGGCCTACCGATCTGCGACC
Done.