Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 393 of 433
Found at i:122092173 original size:74 final size:73
Alignment explanation
Indices: 122092022--122092182 Score: 181
Period size: 74 Copynumber: 2.2 Consensus size: 73
122092012 AAAAATATAT
*
122092022 TTAAAATAAACAATGCA-A-AACAGTTTAAAATAACTAATATAAAAGGTTTAAAATAAATAATAT
1 TTAAAATAAATAATGCATATAA-A-TTTAAAATAACTAATATAAAAGGTTTAAAATAAATAATAT
*
122092085 ATAAAATAGT
64 ATAAAATAGC
* *
122092095 TTAAACTACATAATGCATATAAATTTAAAATATA-TAATATGTAAAA-GTTTAAAATAAATAATG
1 TTAAAATAAATAATGCATATAAATTTAAAATA-ACTAATA--TAAAAGGTTTAAAATAAATAA--
122092158 TATATAAAA-A-C
61 TATATAAAATAGC
122092169 TTAAAATAAATAAT
1 TTAAAATAAATAAT
122092183 ATGTAAAATA
Statistics
Matches: 75, Mismatches: 6, Indels: 13
0.80 0.06 0.14
Matches are distributed among these distances:
73 28 0.37
74 30 0.40
75 8 0.11
76 9 0.12
ACGTcount: A:0.58, C:0.05, G:0.06, T:0.32
Consensus pattern (73 bp):
TTAAAATAAATAATGCATATAAATTTAAAATAACTAATATAAAAGGTTTAAAATAAATAATATAT
AAAATAGC
Found at i:122101484 original size:139 final size:139
Alignment explanation
Indices: 122101289--122101707 Score: 739
Period size: 139 Copynumber: 3.0 Consensus size: 139
122101279 AAAATTATAT
*
122101289 TCATAAAATTACTTATAAGTCACAATCATACTTTGCTAATGTAAAGAAATTTAAAAACTACATGA
1 TCATAAAATTACTTATAAGTCACAACCATACTTTGCTAATGTAAAGAAATTTAAAAACTACATGA
* *
122101354 TAAAAAACGGTTGTCAACAAAGAACCAAATTAGTCAATAATATATCATATTATCGGTACGAGGAT
66 TAAGAAACGGTTGTCAACAAAGAACCAAATAAGTCAATAATATATCATATTATCGGTACGAGGAT
***
122101419 ATTGTAATA
131 ATCACAATA
122101428 TCATAAAATTACTTATAAGTCACAACCATACTTTGCTAATGTAAAGAAATTTAAAAACTACATGA
1 TCATAAAATTACTTATAAGTCACAACCATACTTTGCTAATGTAAAGAAATTTAAAAACTACATGA
*
122101493 TAAGAAACGGTTGTCAACAAAGAACCAAATAAGTCAATAACATATCATATTATCGGTACGAGGAT
66 TAAGAAACGGTTGTCAACAAAGAACCAAATAAGTCAATAATATATCATATTATCGGTACGAGGAT
122101558 ATCACAATA
131 ATCACAATA
*
122101567 TCATAAAATTACTTATAAGTCACAACCATACTTTGCTAATGTAAAGAAATTTAAAAACTAAATGA
1 TCATAAAATTACTTATAAGTCACAACCATACTTTGCTAATGTAAAGAAATTTAAAAACTACATGA
* * *
122101632 TAAGAAACCGTTGTCAACAAAGAATCAAATAAGTCAATAATATATCATATTATCAGTACGAGGAT
66 TAAGAAACGGTTGTCAACAAAGAACCAAATAAGTCAATAATATATCATATTATCGGTACGAGGAT
122101697 ATCACAATA
131 ATCACAATA
122101706 TC
1 TC
122101708 TTTAAGTAGA
Statistics
Matches: 268, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
139 268 1.00
ACGTcount: A:0.46, C:0.15, G:0.11, T:0.28
Consensus pattern (139 bp):
TCATAAAATTACTTATAAGTCACAACCATACTTTGCTAATGTAAAGAAATTTAAAAACTACATGA
TAAGAAACGGTTGTCAACAAAGAACCAAATAAGTCAATAATATATCATATTATCGGTACGAGGAT
ATCACAATA
Found at i:122104103 original size:28 final size:28
Alignment explanation
Indices: 122104045--122104103 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
122104035 ACTATACCTC
* * * *
122104045 TTTTCTCAAATTGGTACCTAAACTTTTT
1 TTTTATCAAATTAGTACCTAAACTATAT
122104073 TTTTATCACAATTAGTACC-AAACTATAT
1 TTTTATCA-AATTAGTACCTAAACTATAT
122104101 TTT
1 TTT
122104104 CTTACCCAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 17 0.65
29 9 0.35
ACGTcount: A:0.31, C:0.17, G:0.05, T:0.47
Consensus pattern (28 bp):
TTTTATCAAATTAGTACCTAAACTATAT
Found at i:122104103 original size:29 final size:28
Alignment explanation
Indices: 122104045--122104103 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 28
122104035 ACTATACCTC
* * *
122104045 TTTTCTCAAATTGGTACCTAAACTTTTT
1 TTTTATCAAATTAGTACCTAAACTTATT
122104073 TTTTATCACAATTAGTACC-AAACTATATT
1 TTTTATCA-AATTAGTACCTAAACT-TATT
122104102 TT
1 TT
122104104 CTTACCCAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
28 12 0.46
29 14 0.54
ACGTcount: A:0.31, C:0.17, G:0.05, T:0.47
Consensus pattern (28 bp):
TTTTATCAAATTAGTACCTAAACTTATT
Found at i:122110098 original size:25 final size:26
Alignment explanation
Indices: 122110034--122110098 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 26
122110024 GAAAAAAATA
*
122110034 TTTTTTTT-ACTATTTTCTTTTTTTC
1 TTTTTTTTCACTATTATCTTTTTTTC
* *
122110059 TTATTTTTTC-TTATTAT-TTTTTTTG
1 TT-TTTTTTCACTATTATCTTTTTTTC
122110084 TTTTTTTTCACTATT
1 TTTTTTTTCACTATT
122110099 TTGTTATCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
24 7 0.21
25 15 0.45
26 11 0.33
ACGTcount: A:0.11, C:0.09, G:0.02, T:0.78
Consensus pattern (26 bp):
TTTTTTTTCACTATTATCTTTTTTTC
Found at i:122114730 original size:11 final size:11
Alignment explanation
Indices: 122114714--122114739 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
122114704 AAAATAGGGC
122114714 TTTAGCGGCGT
1 TTTAGCGGCGT
122114725 TTTAGCGGCGT
1 TTTAGCGGCGT
122114736 TTTA
1 TTTA
122114740 CCAAAAAACG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.12, C:0.15, G:0.31, T:0.42
Consensus pattern (11 bp):
TTTAGCGGCGT
Found at i:122114862 original size:40 final size:41
Alignment explanation
Indices: 122114793--122115011 Score: 322
Period size: 41 Copynumber: 5.4 Consensus size: 41
122114783 CGTTTTACCA
* * **
122114793 AAAAACGCCACTAAAAA-CAGAGCAATAGCGGCG-TTTTTT
1 AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
122114832 ACTAAAACGCCGC-AAAAA-CAGAGCATTAGCGGCGCTTTTGG
1 A--AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
122114873 AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
1 AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
122114914 AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
1 AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
**
122114955 AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCG-TTTTACC
1 AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTT-GG
122114996 AAAAACGCCGCTAAAA
1 AAAAACGCCGCTAAAA
122115012 GTCATATAAC
Statistics
Matches: 168, Mismatches: 6, Indels: 10
0.91 0.03 0.05
Matches are distributed among these distances:
39 11 0.07
40 29 0.17
41 128 0.76
ACGTcount: A:0.37, C:0.24, G:0.21, T:0.17
Consensus pattern (41 bp):
AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
Found at i:122115183 original size:7 final size:7
Alignment explanation
Indices: 122115168--122115221 Score: 54
Period size: 7 Copynumber: 7.7 Consensus size: 7
122115158 TTAATTATCA
*
122115168 TTATAGT
1 TTATGGT
122115175 TTATGGT
1 TTATGGT
122115182 TTATGGT
1 TTATGGT
* *
122115189 TTAAGAT
1 TTATGGT
*
122115196 ATATGGT
1 TTATGGT
*
122115203 TTAGGGT
1 TTATGGT
*
122115210 TTAAGGT
1 TTATGGT
122115217 TTATG
1 TTATG
122115222 AGTTAACTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (7 bp):
TTATGGT
Found at i:122115200 original size:21 final size:21
Alignment explanation
Indices: 122115176--122115260 Score: 89
Period size: 21 Copynumber: 3.9 Consensus size: 21
122115166 CATTATAGTT
*
122115176 TATGGTTTATGGTTTAAGATA
1 TATGGTTTAGGGTTTAAGATA
* *
122115197 TATGGTTTAGGGTTTAAGGTT
1 TATGGTTTAGGGTTTAAGATA
**
122115218 TATGAGTTAACTATAGTTTAAGATA
1 TATG-GTT---TAGGGTTTAAGATA
122115243 TATGGTTTAGGGTTTAAG
1 TATGGTTTAGGGTTTAAG
122115261 GTTTAGGAGT
Statistics
Matches: 51, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
21 31 0.61
22 3 0.06
24 3 0.06
25 14 0.27
ACGTcount: A:0.28, C:0.01, G:0.26, T:0.45
Consensus pattern (21 bp):
TATGGTTTAGGGTTTAAGATA
Found at i:122115239 original size:46 final size:46
Alignment explanation
Indices: 122115187--122115276 Score: 171
Period size: 46 Copynumber: 2.0 Consensus size: 46
122115177 ATGGTTTATG
*
122115187 GTTTAAGATATATGGTTTAGGGTTTAAGGTTTATGAGTTAACTATA
1 GTTTAAGATATATGGTTTAGGGTTTAAGGTTTAGGAGTTAACTATA
122115233 GTTTAAGATATATGGTTTAGGGTTTAAGGTTTAGGAGTTAACTA
1 GTTTAAGATATATGGTTTAGGGTTTAAGGTTTAGGAGTTAACTA
122115277 GTATTTGAAG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.30, C:0.02, G:0.26, T:0.42
Consensus pattern (46 bp):
GTTTAAGATATATGGTTTAGGGTTTAAGGTTTAGGAGTTAACTATA
Found at i:122115332 original size:7 final size:7
Alignment explanation
Indices: 122115303--122115431 Score: 82
Period size: 7 Copynumber: 18.1 Consensus size: 7
122115293 GATGAATTAT
122115303 GGGTTTA
1 GGGTTTA
*
122115310 GGGATTA
1 GGGTTTA
* *
122115317 TGATTTA
1 GGGTTTA
122115324 GGGTTTA
1 GGGTTTA
*
122115331 GGGGTTA
1 GGGTTTA
122115338 GGG-TTA
1 GGGTTTA
*
122115344 GAGTTTA
1 GGGTTTA
* *
122115351 AGGTGTAA
1 GGGT-TTA
*
122115359 GGGTTTG
1 GGGTTTA
*
122115366 GGGTTAA
1 GGGTTTA
*
122115373 GGGTTAA
1 GGGTTTA
122115380 GGGTTTA
1 GGGTTTA
*
122115387 GAGTTTA
1 GGGTTTA
*
122115394 GTGTTTA
1 GGGTTTA
*
122115401 TGGG-ATA
1 -GGGTTTA
*
122115408 GGGGTTAA
1 -GGGTTTA
122115416 GAGGTTTA
1 G-GGTTTA
122115424 GGGTTTA
1 GGGTTTA
122115431 G
1 G
122115432 ATTAATTAGT
Statistics
Matches: 92, Mismatches: 25, Indels: 10
0.72 0.20 0.08
Matches are distributed among these distances:
6 5 0.05
7 73 0.79
8 14 0.15
ACGTcount: A:0.22, C:0.00, G:0.41, T:0.37
Consensus pattern (7 bp):
GGGTTTA
Found at i:122120739 original size:25 final size:24
Alignment explanation
Indices: 122120711--122120765 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
122120701 AATTAAACAT
*
122120711 AATATAATATT-TTAACATAGAAATA
1 AATATAAT-TTATTAAAATA-AAATA
*
122120736 AATATTATTTAATTAAAATAAAATA
1 AATATAATTT-ATTAAAATAAAATA
122120761 AATAT
1 AATAT
122120766 TTAAAAGGTC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 2 0.08
25 17 0.65
26 7 0.27
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (24 bp):
AATATAATTTATTAAAATAAAATA
Found at i:122120815 original size:43 final size:44
Alignment explanation
Indices: 122120767--122121027 Score: 211
Period size: 43 Copynumber: 6.1 Consensus size: 44
122120757 AATAAATATT
* *
122120767 TAAAAGGTCAT-ATTTTTAGCGGCGTTTTTAGTAAAAGCGCCGC
1 TAAAAGGTCATGATCTTTAGCGGCGTTTTTAGGAAAAGCGCCGC
* * * * *
122120810 TAAAA-GTCATGACCTTTAACGGCATTTGTGGGAAAAGCGCCGC
1 TAAAAGGTCATGATCTTTAGCGGCGTTTTTAGGAAAAGCGCCGC
* * * *
122120853 T-AAAGGTCTTGGTCTTTAGCAGCGTTTTTTA-AAAAAGCGCCGC
1 TAAAAGGTCATGATCTTTAGCGGCG-TTTTTAGGAAAAGCGCCGC
* * *
122120896 T-AAAGGTCCTGGTCTTTAGCGGCGTTTTTTA--AAAAGCACCGC
1 TAAAAGGTCATGATCTTTAGCGGCG-TTTTTAGGAAAAGCGCCGC
* * *
122120938 TAAAA-GTCATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
1 TAAAAGGTCATGATCTTTAGCGGCGTTTTTAGGAAAAGCGCCGC
* * * * *
122120981 -GAAAGGTCCTGGTCTTTAGCGACGCTTTTCTA--AAAAACGCCGC
1 TAAAAGGTCATGATCTTTAGCGGCG-TTTT-TAGGAAAAGCGCCGC
122121024 TAAA
1 TAAA
122121028 GACCAGGACC
Statistics
Matches: 174, Mismatches: 34, Indels: 19
0.77 0.15 0.08
Matches are distributed among these distances:
41 4 0.02
42 38 0.22
43 122 0.70
44 9 0.05
45 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (44 bp):
TAAAAGGTCATGATCTTTAGCGGCGTTTTTAGGAAAAGCGCCGC
Found at i:122120986 original size:128 final size:128
Alignment explanation
Indices: 122120781--122121059 Score: 386
Period size: 128 Copynumber: 2.2 Consensus size: 128
122120771 AGGTCATATT
*
122120781 TTTAGCGGCG-TTTTTAGTAAAAGCGCCGCTAAAAGTCATGACCTTTAACGGCATTTGTGGGAAA
1 TTTAGCGGCGTTTTTTA--AAAAGCACCGCTAAAAGTCATGACCTTTAACGGCATTTGTGGGAAA
* * * * *
122120845 AGCGCCGCTAAAGGTCTTGGTCTTTAGC-A-GCGTTTTTTAAAAAAGCGCCGCTAAAGGTCCTGG
64 AGCGCCGCGAAAGGTCCTGGTCTTTAGCGACGC-TTTTCTAAAAAA-CGCCGCTAAA-GACCAGG
*
122120908 -TC
126 ACC
* *
122120910 TTTAGCGGCGTTTTTTAAAAAGCACCGCTAAAAGTCATGACCTTTAGCGGCGTTTGTGGGAAAAG
1 TTTAGCGGCGTTTTTTAAAAAGCACCGCTAAAAGTCATGACCTTTAACGGCATTTGTGGGAAAAG
122120975 CGCCGCGAAAGGTCCTGGTCTTTAGCGACGCTTTTCTAAAAAACGCCGCTAAAGACCAGGACC
66 CGCCGCGAAAGGTCCTGGTCTTTAGCGACGCTTTTCTAAAAAACGCCGCTAAAGACCAGGACC
*
122121038 TTTAGCGGCTTTTTTTTAAAAA
1 TTTAGCGGC-GTTTTTTAAAAA
122121060 ACGCCACTAA
Statistics
Matches: 135, Mismatches: 10, Indels: 10
0.87 0.06 0.06
Matches are distributed among these distances:
127 5 0.04
128 89 0.66
129 33 0.24
130 8 0.06
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (128 bp):
TTTAGCGGCGTTTTTTAAAAAGCACCGCTAAAAGTCATGACCTTTAACGGCATTTGTGGGAAAAG
CGCCGCGAAAGGTCCTGGTCTTTAGCGACGCTTTTCTAAAAAACGCCGCTAAAGACCAGGACC
Found at i:122124413 original size:16 final size:16
Alignment explanation
Indices: 122124394--122124427 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
122124384 ATAAAAGAAT
122124394 TAATTTTGAATTCATA
1 TAATTTTGAATTCATA
122124410 TAATTTTGAATTCATA
1 TAATTTTGAATTCATA
122124426 TA
1 TA
122124428 GATCAAGAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (16 bp):
TAATTTTGAATTCATA
Found at i:122124765 original size:43 final size:43
Alignment explanation
Indices: 122124708--122124820 Score: 120
Period size: 43 Copynumber: 2.7 Consensus size: 43
122124698 TGTGATTACA
* **
122124708 TGTAAGACCATGTCTGGGACATTGGCATCGTTATTTGATTTTG
1 TGTAAGACCATGTCTGGGACAGTGGCATCAATATTTGATTTTG
* * ****
122124751 TGTAGGACCCTGTCTGGGACAGTGGCATCAATATTTGATAACA
1 TGTAAGACCATGTCTGGGACAGTGGCATCAATATTTGATTTTG
* *
122124794 TGTAAGACCATATCTGGGATA-TGGCAT
1 TGTAAGACCATGTCTGGGACAGTGGCAT
122124821 TGTACGAGCT
Statistics
Matches: 57, Mismatches: 13, Indels: 1
0.80 0.18 0.01
Matches are distributed among these distances:
42 6 0.11
43 51 0.89
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.33
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACAGTGGCATCAATATTTGATTTTG
Found at i:122126744 original size:221 final size:221
Alignment explanation
Indices: 122126357--122126806 Score: 740
Period size: 221 Copynumber: 2.0 Consensus size: 221
122126347 ACTTTGTTAT
* * *
122126357 GCATAACAACCTATGTATTCATCAACTATTCAAACATGGTTATTCATTCACATTTAATATTCTAA
1 GCATAACAACCTATGTATTCATAAACTATTCAAACATGGTTATTCATTCACATTTAACATTCCAA
* * *
122126422 TCTCAATCAAAACATATTTAAAATATTCCATTCAATTGCTTCAAACATATCTTACCACAATGCCA
66 ACTCAATCAAAACATATTTAAAACATACCATTCAATTGCTTCAAACATATCTTACCACAATGCCA
*
122126487 TTAATGCACATACAAGCTCATCACATAGGACTATCAAAATACAAGCATTATCAAAAGATCAAAGC
131 TTAATGCACATACAAGCTCACCACATAGGACTATCAAAATACAAGCATTATCAAAAGATCAAAGC
122126552 TACCACATCCAAGTAATCATATATGA
196 TACCACATCCAAGTAATCATATATGA
* *
122126578 GCATAACAACCTATGTATTCATAAACTATTCAAATATGGTTCTTCATTCACATTTAACATTCCAA
1 GCATAACAACCTATGTATTCATAAACTATTCAAACATGGTTATTCATTCACATTTAACATTCCAA
* * *
122126643 ACTCAATCAAAACATATTTAAAACATACCATTCAATTGTTTCAAACATATTTTACCACAATTCCA
66 ACTCAATCAAAACATATTTAAAACATACCATTCAATTGCTTCAAACATATCTTACCACAATGCCA
* * *
122126708 TTAATGCACATACAAGCTCACCACATCAGG-CTATCAAAATACAAGCATTATCCAAATATCGAAG
131 TTAATGCACATACAAGCTCACCACAT-AGGACTATCAAAATACAAGCATTATCAAAAGATCAAAG
*
122126772 CTACCATATCCAAGTAATCATATATGA
195 CTACCACATCCAAGTAATCATATATGA
122126799 GCATAACA
1 GCATAACA
122126807 TTGCCTATTT
Statistics
Matches: 212, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
221 209 0.99
222 3 0.01
ACGTcount: A:0.41, C:0.23, G:0.07, T:0.30
Consensus pattern (221 bp):
GCATAACAACCTATGTATTCATAAACTATTCAAACATGGTTATTCATTCACATTTAACATTCCAA
ACTCAATCAAAACATATTTAAAACATACCATTCAATTGCTTCAAACATATCTTACCACAATGCCA
TTAATGCACATACAAGCTCACCACATAGGACTATCAAAATACAAGCATTATCAAAAGATCAAAGC
TACCACATCCAAGTAATCATATATGA
Found at i:122127331 original size:20 final size:19
Alignment explanation
Indices: 122127285--122127336 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 19
122127275 ATGGGAATGA
*
122127285 GAGTGCAAACCAAGGGCACG
1 GAGTGC-AATCAAGGGCACG
*
122127305 AATGTGCAATCAAGGGCACCG
1 GA-GTGCAATCAAGGGCA-CG
*
122127326 GAGTGCTATCA
1 GAGTGCAATCA
122127337 GGTAAACATC
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 19 0.73
21 7 0.27
ACGTcount: A:0.33, C:0.23, G:0.31, T:0.13
Consensus pattern (19 bp):
GAGTGCAATCAAGGGCACG
Found at i:122133337 original size:14 final size:15
Alignment explanation
Indices: 122133286--122133334 Score: 59
Period size: 16 Copynumber: 3.3 Consensus size: 15
122133276 TAGAATTGGG
122133286 TTAA-TAAAATT-AT
1 TTAATTAAAATTAAT
122133299 TTAATTGGAAAATTAA-
1 TTAATT--AAAATTAAT
122133315 TTAATTAAAATTAAT
1 TTAATTAAAATTAAT
122133330 TTAAT
1 TTAAT
122133335 AAATAATATT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
13 4 0.13
14 9 0.29
15 5 0.16
16 12 0.39
17 1 0.03
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (15 bp):
TTAATTAAAATTAAT
Found at i:122136286 original size:557 final size:557
Alignment explanation
Indices: 122135492--122136580 Score: 2169
Period size: 557 Copynumber: 2.0 Consensus size: 557
122135482 TGATTGACAT
122135492 TTTTCATATGCTTATTTTTCAAGGAAGTTGAGTAATGGTGAGATTAGTGATAGAAAATGGTTGGT
1 TTTTCATATGCTTATTTTTCAAGGAAGTTGAGTAATGGTGAGATTAGTGATAGAAAATGGTTGGT
122135557 TTATTCCAAACATGTTGATAAAGTGTTTTGTTTTTGTTGTAAGTTGTTCAAATCTATTAGGAACA
66 TTATTCCAAACATGTTGATAAAGTGTTTTGTTTTTGTTGTAAGTTGTTCAAATCTATTAGGAACA
122135622 AAAATTTGTTAGCAAATGAGGGTTTAAGTGATTGGAGGCATATTAGTGAGAGGCTCAAACAACAT
131 AAAATTTGTTAGCAAATGAGGGTTTAAGTGATTGGAGGCATATTAGTGAGAGGCTCAAACAACAT
122135687 GAAAACACTATTAAGTATATGACTAATATGAATACTTGGAATGAAATTAGTGTAAGGTTGGACAG
196 GAAAACACTATTAAGTATATGACTAATATGAATACTTGGAATGAAATTAGTGTAAGGTTGGACAG
122135752 AAATGAAACAATAGATAAAAGCTTTCAAGAACAGATAATGAAAGAGAAAAAGCGATGGAGGCAAC
261 AAATGAAACAATAGATAAAAGCTTTCAAGAACAGATAATGAAAGAGAAAAAGCGATGGAGGCAAC
*
122135817 TTTTATTTAGAATATTTTTAGCTGTGAAATGTGTTGCTACTCATAATTTGACTTTTATAGGATCC
326 TTTTATTTAGAATATTTTTAGCTGTGAAACGTGTTGCTACTCATAATTTGACTTTTATAGGATCC
122135882 AATGAAAAACTCTTATCAAGATAACAATGGTAATTTACAGAGATTGATTGAAATGATTGCAGAAT
391 AATGAAAAACTCTTATCAAGATAACAATGGTAATTTACAGAGATTGATTGAAATGATTGCAGAAT
122135947 TCAATATGATAATGCAAGATCATGTTAGACACATACAAAACCGTGAAATTCATTATCATTATCTT
456 TCAATATGATAATGCAAGATCATGTTAGACACATACAAAACCGTGAAATTCATTATCATTATCTT
122136012 GGGAATAAAATTGATTGAAATAAGCATATGAAATTCA
521 GGGAATAAAATTGATTGAAATAAGCATATGAAATTCA
122136049 TTTTCATATGCTTATTTTTCAAGGAAGTTGAGTAATGGTGAGATTAGTGATAGAAAATGGTTGGT
1 TTTTCATATGCTTATTTTTCAAGGAAGTTGAGTAATGGTGAGATTAGTGATAGAAAATGGTTGGT
122136114 TTATTCCAAACATGTTGATAAAGTGTTTTGTTTTTGTTGTAAGTTGTTCAAATCTATTAGGAACA
66 TTATTCCAAACATGTTGATAAAGTGTTTTGTTTTTGTTGTAAGTTGTTCAAATCTATTAGGAACA
122136179 AAAATTTGTTAGCAAATGAGGGTTTAAGTGATTGGAGGCATATTAGTGAGAGGCTCAAACAACAT
131 AAAATTTGTTAGCAAATGAGGGTTTAAGTGATTGGAGGCATATTAGTGAGAGGCTCAAACAACAT
122136244 GAAAACACTATTAAGTATATGACTAATATGAATACTTGGAATGAAATTAGTGTAAGGTTGGACAG
196 GAAAACACTATTAAGTATATGACTAATATGAATACTTGGAATGAAATTAGTGTAAGGTTGGACAG
122136309 AAATGAAACAATAGATAAAAGCTTTCAAGAACAGATAATGAAAGAGAAAAAGCGATGGAGGCAAC
261 AAATGAAACAATAGATAAAAGCTTTCAAGAACAGATAATGAAAGAGAAAAAGCGATGGAGGCAAC
122136374 TTTTATTTAGAATATTTTTAGCTGTGAAACGTGTTGCTACTCATAATTTGACTTTTATAGGATCC
326 TTTTATTTAGAATATTTTTAGCTGTGAAACGTGTTGCTACTCATAATTTGACTTTTATAGGATCC
122136439 AATGAAAAACTCTTATCAAGATAACAATGGTAATTTACAGAGATTGATTGAAATGATTGCAGAAT
391 AATGAAAAACTCTTATCAAGATAACAATGGTAATTTACAGAGATTGATTGAAATGATTGCAGAAT
122136504 TCAATATGATAATGCAAGATCATGTTAGACACATACAAAACCGTGAAATTCATTATCATTATCTT
456 TCAATATGATAATGCAAGATCATGTTAGACACATACAAAACCGTGAAATTCATTATCATTATCTT
122136569 GGGAATAAAATT
521 GGGAATAAAATT
122136581 CAAAATGAGT
Statistics
Matches: 531, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
557 531 1.00
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (557 bp):
TTTTCATATGCTTATTTTTCAAGGAAGTTGAGTAATGGTGAGATTAGTGATAGAAAATGGTTGGT
TTATTCCAAACATGTTGATAAAGTGTTTTGTTTTTGTTGTAAGTTGTTCAAATCTATTAGGAACA
AAAATTTGTTAGCAAATGAGGGTTTAAGTGATTGGAGGCATATTAGTGAGAGGCTCAAACAACAT
GAAAACACTATTAAGTATATGACTAATATGAATACTTGGAATGAAATTAGTGTAAGGTTGGACAG
AAATGAAACAATAGATAAAAGCTTTCAAGAACAGATAATGAAAGAGAAAAAGCGATGGAGGCAAC
TTTTATTTAGAATATTTTTAGCTGTGAAACGTGTTGCTACTCATAATTTGACTTTTATAGGATCC
AATGAAAAACTCTTATCAAGATAACAATGGTAATTTACAGAGATTGATTGAAATGATTGCAGAAT
TCAATATGATAATGCAAGATCATGTTAGACACATACAAAACCGTGAAATTCATTATCATTATCTT
GGGAATAAAATTGATTGAAATAAGCATATGAAATTCA
Found at i:122139019 original size:7 final size:7
Alignment explanation
Indices: 122139005--122139041 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
122138995 AAGAAAGAAA
122139005 GAAA-AG
1 GAAATAG
122139011 GAAATAG
1 GAAATAG
*
122139018 GAAATAT
1 GAAATAG
122139025 G-AATAG
1 GAAATAG
122139031 GAAATAG
1 GAAATAG
122139038 GAAA
1 GAAA
122139042 AATGAAACCG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
6 9 0.33
7 18 0.67
ACGTcount: A:0.59, C:0.00, G:0.27, T:0.14
Consensus pattern (7 bp):
GAAATAG
Found at i:122139034 original size:20 final size:20
Alignment explanation
Indices: 122139009--122139047 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
122138999 AAGAAAGAAA
*
122139009 AGGAAATAGGAAATATGAAT
1 AGGAAATAGGAAAAATGAAT
122139029 AGGAAATAGGAAAAATGAA
1 AGGAAATAGGAAAAATGAA
122139048 ACCGAGTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.26, T:0.15
Consensus pattern (20 bp):
AGGAAATAGGAAAAATGAAT
Found at i:122142412 original size:19 final size:18
Alignment explanation
Indices: 122142363--122142413 Score: 50
Period size: 19 Copynumber: 2.8 Consensus size: 18
122142353 TAATCCTTTT
*
122142363 TAAAATTT-AAAAATTAT
1 TAAAATTTAAAAAATTAA
* *
122142380 TAAAAATCATAAAAATTAAA
1 TAAAATTTA-AAAAATT-AA
122142400 TAAAATTTAAAAAA
1 TAAAATTTAAAAAA
122142414 AAAGCTATAA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
17 6 0.23
19 12 0.46
20 8 0.31
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAATTTAAAAAATTAA
Found at i:122143206 original size:9 final size:9
Alignment explanation
Indices: 122143174--122143215 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
122143164 TAAAAATATC
122143174 TTAT-AAAA
1 TTATAAAAA
122143182 TT-TAAAAA
1 TTATAAAAA
122143190 TTATTAAAAA
1 TTA-TAAAAA
*
122143200 TCATAAAAA
1 TTATAAAAA
122143209 TTATAAA
1 TTATAAA
122143216 TAAAATTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
7 1 0.03
8 8 0.28
9 12 0.41
10 8 0.28
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (9 bp):
TTATAAAAA
Found at i:122144057 original size:29 final size:30
Alignment explanation
Indices: 122144001--122144065 Score: 87
Period size: 31 Copynumber: 2.2 Consensus size: 30
122143991 ATCTCAAAAT
** *
122144001 TATACATGAATTTTAATTTAATGTGTAATTC
1 TATACATGAACATTAATTTAA-GTGTAATTA
122144032 TATACATGAACATTAATTTAA-TGTAATTA
1 TATACATGAACATTAATTTAAGTGTAATTA
122144061 TATAC
1 TATAC
122144066 GTAAAATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
29 12 0.39
31 19 0.61
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.45
Consensus pattern (30 bp):
TATACATGAACATTAATTTAAGTGTAATTA
Found at i:122144534 original size:65 final size:65
Alignment explanation
Indices: 122144463--122144594 Score: 264
Period size: 65 Copynumber: 2.0 Consensus size: 65
122144453 AGTAACCAAA
122144463 ATATAAATAACATTATTTTAAAGTGATTAAGGAGATAATTTATCTAAATTAAATTATAAAACTTG
1 ATATAAATAACATTATTTTAAAGTGATTAAGGAGATAATTTATCTAAATTAAATTATAAAACTTG
122144528 ATATAAATAACATTATTTTAAAGTGATTAAGGAGATAATTTATCTAAATTAAATTATAAAACTTG
1 ATATAAATAACATTATTTTAAAGTGATTAAGGAGATAATTTATCTAAATTAAATTATAAAACTTG
122144593 AT
1 AT
122144595 GCATAATTTT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 67 1.00
ACGTcount: A:0.48, C:0.05, G:0.09, T:0.39
Consensus pattern (65 bp):
ATATAAATAACATTATTTTAAAGTGATTAAGGAGATAATTTATCTAAATTAAATTATAAAACTTG
Found at i:122144757 original size:2 final size:2
Alignment explanation
Indices: 122144750--122144777 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
122144740 ATTAACAGTG
122144750 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
122144778 AACAATACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:122156659 original size:17 final size:17
Alignment explanation
Indices: 122156629--122156662 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
122156619 GGCCTCCAAT
122156629 TTTGAATTCCATAGCTA
1 TTTGAATTCCATAGCTA
122156646 TTTG-ATTCCTATAGCTA
1 TTTGAATTCC-ATAGCTA
122156663 CTAGAACTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.26, C:0.18, G:0.12, T:0.44
Consensus pattern (17 bp):
TTTGAATTCCATAGCTA
Found at i:122158467 original size:32 final size:34
Alignment explanation
Indices: 122158431--122158495 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
122158421 TAACAGTGGT
*
122158431 ACTGGGCCAGAG-CCCTT-TTCAGATTACAATAA
1 ACTGGGCCAGAGCCCCTTATTCAGATAACAATAA
**
122158463 ACTGGGCCTTAGCCCCTTATTCAGATAACAATA
1 ACTGGGCCAGAGCCCCTTATTCAGATAACAATA
122158496 TGGCCCATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 10 0.36
33 5 0.18
34 13 0.46
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (34 bp):
ACTGGGCCAGAGCCCCTTATTCAGATAACAATAA
Found at i:122160377 original size:26 final size:26
Alignment explanation
Indices: 122160345--122160449 Score: 174
Period size: 26 Copynumber: 4.0 Consensus size: 26
122160335 AATGCCCATT
*
122160345 ATGGAACATTTACCTAAACCATTATC
1 ATGGAACATTTACCTAACCCATTATC
122160371 ATGGAACATTTACCTAACCCATTATC
1 ATGGAACATTTACCTAACCCATTATC
* * *
122160397 ATGAAATATTTACCTAATCCATTATC
1 ATGGAACATTTACCTAACCCATTATC
122160423 ATGGAACATTTACCTAACCCATTATC
1 ATGGAACATTTACCTAACCCATTATC
122160449 A
1 A
122160450 ATTTGTACTA
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 72 1.00
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATGGAACATTTACCTAACCCATTATC
Found at i:122166928 original size:283 final size:279
Alignment explanation
Indices: 122166386--122167211 Score: 1119
Period size: 282 Copynumber: 2.9 Consensus size: 279
122166376 ATCGATATGC
* ** * * **
122166386 GGAACAGATTGAACGAGACTCAATTTCAAACAC-AGGATCAAATTAAAATTTCCAGCAACGGAAG
1 GGAACAGATTGAACGGGACTCGGTTTCAAACTCGA-GATCAAATTAAAATTTTCAGCAAAAGAAG
* * * *
122166450 ATGAAGATTTTTATGAAAAGAAAATGAGGGAATAACAAAAAAAGATGTATTTAAATAAGAGAAAA
65 ATGAAGATTTTTATGAAAAGGAAATGAGGGAATAATAGAAAAAGATGTATTTAAAGAAGAGAAAA
*
122166515 GAGAAATTTTAATTAGGGTTGAAAAGAAGTAAAAATCCACATGTAATTAGGAAAATGGATTAAAT
130 GAGAAATTCTAATTAGGGTTGAAAAGAAGTAAAAATCCACATGTAATTAGGAAAATGGATTAAAT
* * * *
122166580 AGTTAGGGTTTCAGAAATTTAAGGGCTTGATTGGTAAAA-TACTCATTTTTGTCGACATTAAAAA
195 AGTTAGGGTTTAAGAAATTTAAGGGGTTGAATGGTAAAATTACTCATTTTGGTCGACATT-AAAA
**
122166644 AAAAAAGAGAAATTGATACGA
259 AAAAAAGAGAAATCAATACGA
* *
122166665 GGAACAAATTGAACGGGACTTGGTTTCAAACTCGAGATCAAATTAAAATTTTCAGCAAAAGAAGA
1 GGAACAGATTGAACGGGACTCGGTTTCAAACTCGAGATCAAATTAAAATTTTCAGCAAAAGAAGA
122166730 TGAAGATTTTTTTTTATGAAAAGGAAATGAGGGAATAATAGAAAAAGATGTATTTAAAGAAGAGA
66 TGAAGA----TTTTTATGAAAAGGAAATGAGGGAATAATAGAAAAAGATGTATTTAAAGAAGAGA
*
122166795 AAAGAGAAATTCTAATTTGGGTTGAAAAGAAGTAAAAATCCACATGTAATTAGGAAAATGGATTA
127 AAAGAGAAATTCTAATTAGGGTTGAAAAGAAGTAAAAATCCACATGTAATTAGGAAAATGGATTA
* * *
122166860 AATA-TTAGGGTTTAAGAAATTTAAGGGGTTGAATGGTAAAATTAC-CCTTTTGGTTGAGATTGA
192 AATAGTTAGGGTTTAAGAAATTTAAGGGGTTGAATGGTAAAATTACTCATTTTGGTCGACATT-A
* *
122166923 AAAAAATAAGAGAAATCAATAGGA
256 AAAAAAAAAGAGAAATCAATACGA
* * * *
122166947 GAAACGGAGTGAACGGGACTCGGTTTCAAACTCGGGATCAAATTAAAA-TTTCTAGCAAAAGAAG
1 GGAACAGATTGAACGGGACTCGGTTTCAAACTCGAGATCAAATTAAAATTTTC-AGCAAAAGAAG
* *
122167011 ATGAAGATTTTTATGAAAA-GAAATGAGTGAATAATAGAAAAAGATAT-TTTAAAGAAGAGAAAA
65 ATGAAGATTTTTATGAAAAGGAAATGAGGGAATAATAGAAAAAGATGTATTTAAAGAAGAGAAAA
* * *
122167074 GAGAAATTCTAATTAAGGTTAAAAAGAAGTAAAAATGCACATGTAATTAGGAAAATGGATTAAAT
130 GAGAAATTCTAATTAGGGTTGAAAAGAAGTAAAAATCCACATGTAATTAGGAAAATGGATTAAAT
* * * * * *
122167139 AGTTAGGGTTTAAAAAAAATTTAAGGAGCTAAATGGTAAAA-TACTCATTTTTGCCGACATTGAA
195 AGTTAGGGTTT--AAGAAATTTAAGGGGTTGAATGGTAAAATTACTCATTTTGGTCGACATT-AA
122167203 AAATAAAAA
257 AAA-AAAAA
122167212 ATGGGGGAGT
Statistics
Matches: 486, Mismatches: 49, Indels: 23
0.87 0.09 0.04
Matches are distributed among these distances:
276 78 0.16
277 35 0.07
278 15 0.03
279 101 0.21
280 5 0.01
281 4 0.01
282 127 0.26
283 121 0.25
ACGTcount: A:0.47, C:0.07, G:0.20, T:0.26
Consensus pattern (279 bp):
GGAACAGATTGAACGGGACTCGGTTTCAAACTCGAGATCAAATTAAAATTTTCAGCAAAAGAAGA
TGAAGATTTTTATGAAAAGGAAATGAGGGAATAATAGAAAAAGATGTATTTAAAGAAGAGAAAAG
AGAAATTCTAATTAGGGTTGAAAAGAAGTAAAAATCCACATGTAATTAGGAAAATGGATTAAATA
GTTAGGGTTTAAGAAATTTAAGGGGTTGAATGGTAAAATTACTCATTTTGGTCGACATTAAAAAA
AAAAGAGAAATCAATACGA
Found at i:122167020 original size:23 final size:22
Alignment explanation
Indices: 122166994--122167036 Score: 52
Period size: 23 Copynumber: 1.9 Consensus size: 22
122166984 TCAAATTAAA
122166994 ATTTCTA-GCAAAAGAAGATGAAG
1 ATTTCTATG-AAAAGAA-ATGAAG
*
122167017 ATTTTTATGAAAAGAAATGA
1 ATTTCTATGAAAAGAAATGA
122167037 GTGAATAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 13 0.72
24 1 0.06
ACGTcount: A:0.49, C:0.05, G:0.19, T:0.28
Consensus pattern (22 bp):
ATTTCTATGAAAAGAAATGAAG
Found at i:122167372 original size:14 final size:15
Alignment explanation
Indices: 122167353--122167381 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
122167343 TATAGTTGCT
122167353 GAAAAAT-AAAAGAG
1 GAAAAATGAAAAGAG
122167367 GAAAAATGAAAAGAG
1 GAAAAATGAAAAGAG
122167382 TAGGTCTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.69, C:0.00, G:0.24, T:0.07
Consensus pattern (15 bp):
GAAAAATGAAAAGAG
Found at i:122169159 original size:18 final size:20
Alignment explanation
Indices: 122169136--122169183 Score: 64
Period size: 18 Copynumber: 2.5 Consensus size: 20
122169126 AATTATTTGT
122169136 ATTTTTTAATTATTTA-A-A
1 ATTTTTTAATTATTTATATA
*
122169154 ATTTTTTAATTGTTTATATA
1 ATTTTTTAATTATTTATATA
122169174 ATTATTTTAA
1 ATT-TTTTAA
122169184 AAAAATTTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 15 0.58
19 1 0.04
20 4 0.15
21 6 0.23
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (20 bp):
ATTTTTTAATTATTTATATA
Found at i:122172602 original size:21 final size:21
Alignment explanation
Indices: 122172576--122172616 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
122172566 AGACAAGCGA
* *
122172576 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
122172597 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
122172617 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:122180741 original size:170 final size:171
Alignment explanation
Indices: 122180451--122180793 Score: 447
Period size: 170 Copynumber: 2.0 Consensus size: 171
122180441 AATCACGAAA
* * * * * *
122180451 TCTTGTCCATTTAAGCTGACTGCTAAAACTTGTGAACTTTAAGGTGGCTGCGGATCGAGGGTTGT
1 TCTTGTCCATTTAAGCTGACTGCTAAAACTCGTGAAATTTAAGGTGCCTGCGAAACAAGGGTTGT
* * ** * **
122180516 TACAAATGTGGTATAACACATTTGAATCCAGTAACCGAGTCGGATTTGGGGTGTTACACAATATT
66 TACAAATGTGGTATAACACATTCGAATCAAACAACCGAGTCAGATTTAAGGTGTTACACAATATT
122180581 TCCCATTTTTT-CTTTTAACATTATAATACAAGTTTTAAGC
131 TCCCATTTTTTCCTTTTAACATTATAATACAAGTTTTAAGC
* **
122180621 TCTTGTCCATTTAAGTTGGTTGCTAAAACTCGTGAAATTTAAGGTGCCTGCGAAACAAGGGTTGT
1 TCTTGTCCATTTAAGCTGACTGCTAAAACTCGTGAAATTTAAGGTGCCTGCGAAACAAGGGTTGT
* * * * *
122180686 TACAAATGTGGTATCACATATTCCG-ATCAAACAATCGGGTTAGATTTAAGGTGTTACACAATAT
66 TACAAATGTGGTATAACACATT-CGAATCAAACAACCGAGTCAGATTTAAGGTGTTACACAATAT
* *
122180750 TTCCCTTTTTTTCCCTTTTAACATTGTAATACAAGTTTTAAGC
130 TTCCCATTTTTT-CCTTTTAACATTATAATACAAGTTTTAAGC
122180793 T
1 T
122180794 TAAAAAAAAT
Statistics
Matches: 147, Mismatches: 23, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
170 117 0.80
171 1 0.01
172 29 0.20
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (171 bp):
TCTTGTCCATTTAAGCTGACTGCTAAAACTCGTGAAATTTAAGGTGCCTGCGAAACAAGGGTTGT
TACAAATGTGGTATAACACATTCGAATCAAACAACCGAGTCAGATTTAAGGTGTTACACAATATT
TCCCATTTTTTCCTTTTAACATTATAATACAAGTTTTAAGC
Found at i:122184543 original size:43 final size:41
Alignment explanation
Indices: 122184406--122184565 Score: 137
Period size: 43 Copynumber: 3.8 Consensus size: 41
122184396 GAGATGTAGT
* *
122184406 TACATGTAAGACCATGTT-TAGGG-TATTAGCATTGTATTGTGA
1 TACATGTAAGACCAT-TTCT-GGGATATTGGCATCGTA-TGTGA
* * * * *
122184448 TTACGTGTAAGACCATGTCTAGGACATTGGCATCGTTATATGA
1 -TACATGTAAGACCATTTCTGGGATATTGGCATCG-TATGTGA
* *
122184491 GTTCGTGTAAGACCATTTCTGGGATATTGGCATCGATATGTGA
1 -TACATGTAAGACCATTTCTGGGATATTGGCATCG-TATGTGA
*
122184534 TAACATGTAAGACCATATCTGGGATA-TGGCAT
1 T-ACATGTAAGACCATTTCTGGGATATTGGCAT
122184566 TGTACGAGCT
Statistics
Matches: 96, Mismatches: 17, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
42 10 0.10
43 84 0.88
44 2 0.02
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.34
Consensus pattern (41 bp):
TACATGTAAGACCATTTCTGGGATATTGGCATCGTATGTGA
Found at i:122191924 original size:43 final size:44
Alignment explanation
Indices: 122191870--122192023 Score: 181
Period size: 43 Copynumber: 3.6 Consensus size: 44
122191860 CCGAGAAGTA
* *
122191870 ATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT-TGTG
1 ATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGTG
* * *
122191913 ATTATGTGTAAGACCATGTCTAGGACATTGGCATCGT-TATATG
1 ATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGTG
* *
122191956 AGTT-CGTGTAAGACCATGTTTGGGATATTGGCATCG-ATATGTG
1 A-TTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGTG
* * *
122191999 ATAACATGTAAGACCATATCTGGGA
1 ATTACGTGTAAGACCATGTCTGGGA
122192024 TATGACATTG
Statistics
Matches: 93, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
42 2 0.02
43 89 0.96
44 2 0.02
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.33
Consensus pattern (44 bp):
ATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGTG
Found at i:122193588 original size:30 final size:31
Alignment explanation
Indices: 122193548--122193607 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 31
122193538 AAATAGTGTG
122193548 AATGATATTAAAGTATTAATTATACTAATTA
1 AATGATATTAAAGTATTAATTATACTAATTA
122193579 AATGA-ATTAAAGTATTAATTATACTAATT
1 AATGATATTAAAGTATTAATTATACTAATT
122193608 CATATTTCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 24 0.83
31 5 0.17
ACGTcount: A:0.48, C:0.03, G:0.07, T:0.42
Consensus pattern (31 bp):
AATGATATTAAAGTATTAATTATACTAATTA
Found at i:122206317 original size:26 final size:26
Alignment explanation
Indices: 122206288--122206397 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
122206278 TGATACAAAT
122206288 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
122206314 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
122206340 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
122206366 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
122206392 TGATAA
1 TGATAA
122206398 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:122218160 original size:15 final size:15
Alignment explanation
Indices: 122218140--122218170 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
122218130 GTCACAAAAT
122218140 TTTCATAGATATAAA
1 TTTCATAGATATAAA
*
122218155 TTTCATATATATAAA
1 TTTCATAGATATAAA
122218170 T
1 T
122218171 AAATAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (15 bp):
TTTCATAGATATAAA
Found at i:122221540 original size:17 final size:16
Alignment explanation
Indices: 122221518--122221549 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
122221508 TAAGTCTAAG
122221518 AAAATAAAAATAAACAT
1 AAAATAAAAA-AAACAT
122221535 AAAATAAAAAAAACA
1 AAAATAAAAAAAACA
122221550 AATGGACTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.81, C:0.06, G:0.00, T:0.12
Consensus pattern (16 bp):
AAAATAAAAAAAACAT
Found at i:122223289 original size:10 final size:11
Alignment explanation
Indices: 122223229--122223289 Score: 56
Period size: 10 Copynumber: 5.6 Consensus size: 11
122223219 AGAATAGAGG
122223229 AATAAAATAAA
1 AATAAAATAAA
* *
122223240 AAT-AAATGAT
1 AATAAAATAAA
*
122223250 AATCAAATAATCA
1 AATAAAATAA--A
122223263 AAT-AAATAAA
1 AATAAAATAAA
122223273 AATAAAAT-AA
1 AATAAAATAAA
122223283 AATAAAA
1 AATAAAA
122223290 AGAAAGAATG
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
10 21 0.50
11 12 0.29
12 6 0.14
13 3 0.07
ACGTcount: A:0.74, C:0.03, G:0.02, T:0.21
Consensus pattern (11 bp):
AATAAAATAAA
Found at i:122225759 original size:17 final size:17
Alignment explanation
Indices: 122225737--122225773 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
122225727 TTCCTTTTGT
122225737 TTGCTTCTGGCAGGTTC
1 TTGCTTCTGGCAGGTTC
*
122225754 TTGCTTCTGGTAGGTTC
1 TTGCTTCTGGCAGGTTC
122225771 TTG
1 TTG
122225774 TAGTTTATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.05, C:0.19, G:0.30, T:0.46
Consensus pattern (17 bp):
TTGCTTCTGGCAGGTTC
Found at i:122228718 original size:42 final size:42
Alignment explanation
Indices: 122228659--122228738 Score: 142
Period size: 42 Copynumber: 1.9 Consensus size: 42
122228649 CATGGCCGTG
*
122228659 TGACCCACATGACTTGGACACACTGGTGTGGCCTTGGCTGTC
1 TGACCCACATGACTTGGACACACGGGTGTGGCCTTGGCTGTC
*
122228701 TGACCCACATGGCTTGGACACACGGGTGTGGCCTTGGC
1 TGACCCACATGACTTGGACACACGGGTGTGGCCTTGGC
122228739 CGTGTGGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.16, C:0.29, G:0.31, T:0.24
Consensus pattern (42 bp):
TGACCCACATGACTTGGACACACGGGTGTGGCCTTGGCTGTC
Found at i:122229534 original size:3 final size:3
Alignment explanation
Indices: 122229526--122229573 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
122229516 TTTATTTCCT
122229526 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
122229574 GGATTTCTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:122229590 original size:18 final size:18
Alignment explanation
Indices: 122229565--122229609 Score: 65
Period size: 17 Copynumber: 2.5 Consensus size: 18
122229555 ATTATTATTA
122229565 TTATTATTAGGATTTCTTT
1 TTATTATTA-GATTTCTTT
*
122229584 TTA-TATTAGTTTTCTTT
1 TTATTATTAGATTTCTTT
122229601 TTATTATTA
1 TTATTATTA
122229610 TTAGTTATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 11 0.46
18 10 0.42
19 3 0.12
ACGTcount: A:0.22, C:0.04, G:0.07, T:0.67
Consensus pattern (18 bp):
TTATTATTAGATTTCTTT
Found at i:122230004 original size:12 final size:13
Alignment explanation
Indices: 122229976--122230004 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
122229966 TTTAATAATA
122229976 AATACTTGTTCTT
1 AATACTTGTTCTT
122229989 AATACTTGTT-TT
1 AATACTTGTTCTT
122230001 AATA
1 AATA
122230005 TTTTCAGGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.31, C:0.10, G:0.07, T:0.52
Consensus pattern (13 bp):
AATACTTGTTCTT
Found at i:122233333 original size:30 final size:30
Alignment explanation
Indices: 122233292--122233349 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
122233282 GTATTTGACC
* * *
122233292 CACATGGCCTGGCCACATGGGTGTGTGGAG
1 CACACGGCCTGGCCACACGGGAGTGTGGAG
122233322 CACACGGCCTGGCCACACGGGAGTGTGG
1 CACACGGCCTGGCCACACGGGAGTGTGG
122233350 GATCTCACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.17, C:0.28, G:0.40, T:0.16
Consensus pattern (30 bp):
CACACGGCCTGGCCACACGGGAGTGTGGAG
Found at i:122233547 original size:30 final size:30
Alignment explanation
Indices: 122233491--122233547 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
122233481 TCAGAGAGTT
* **
122233491 ACACGGCCTGGCCACAGGGGTGTGTGGAGC
1 ACACGGCCTGGCCACACGGGCATGTGGAGC
122233521 ACACGGCCTGGCCACACGGGCATGTGG
1 ACACGGCCTGGCCACACGGGCATGTGG
122233548 GATCTCACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.18, C:0.30, G:0.40, T:0.12
Consensus pattern (30 bp):
ACACGGCCTGGCCACACGGGCATGTGGAGC
Found at i:122233655 original size:198 final size:198
Alignment explanation
Indices: 122233297--122233660 Score: 543
Period size: 198 Copynumber: 1.8 Consensus size: 198
122233287 TGACCCACAT
*
122233297 GGCCTGGCCACATGGGTGTGTGGAGCACACGGCCTGGCCACACGGGAGTGTGGGATCTCACATGG
1 GGCCTGGCCACAGGGGTGTGTGGAGCACACGGCCTGGCCACACGGGAGTGTGGGATCTCACATGG
* * * * * ** *
122233362 GCGTGGGAGAAGCGAAGGAAAACACATATGGCCTGGCAATATAGCCATGTGACCTGCATGGCCTG
66 GCATGGGAGAAGCGAAAGAAAACACACACGGCCTGGCAACATAGCCATGTGACCCACATGGCATG
* * * * *
122233427 GACACACGGGCGTGTCCTAGGCCGTGTGAAACCTGGAGCTATTTTTTTTCAAAGTCAGAGAGTTA
131 GACACAAGGGCATGTCATAGGCCATGTGAAAACTGGAGCTATTTTTTTTCAAAGTCAGAGAGTTA
122233492 CAC
196 CAC
122233495 GGCCTGGCCACAGGGGTGTGTGGAGCACACGGCCTGGCCACACGGGCA-TGTGGGATCTCACATG
1 GGCCTGGCCACAGGGGTGTGTGGAGCACACGGCCTGGCCACACGGG-AGTGTGGGATCTCACATG
* * *
122233559 GGCATGGGAGAAGCGAAAGAAAACACACACGGCCTGGCGACATGGCCATGTGACCCACATGGTAT
65 GGCATGGGAGAAGCGAAAGAAAACACACACGGCCTGGCAACATAGCCATGTGACCCACATGGCAT
122233624 GGACACAAGGGCATGTTCATA-GCCATGTGAAAACTGG
130 GGACACAAGGGCATG-TCATAGGCCATGTGAAAACTGG
122233661 GTTAATCACC
Statistics
Matches: 147, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
198 142 0.97
199 5 0.03
ACGTcount: A:0.25, C:0.24, G:0.33, T:0.18
Consensus pattern (198 bp):
GGCCTGGCCACAGGGGTGTGTGGAGCACACGGCCTGGCCACACGGGAGTGTGGGATCTCACATGG
GCATGGGAGAAGCGAAAGAAAACACACACGGCCTGGCAACATAGCCATGTGACCCACATGGCATG
GACACAAGGGCATGTCATAGGCCATGTGAAAACTGGAGCTATTTTTTTTCAAAGTCAGAGAGTTA
CAC
Found at i:122233695 original size:4 final size:5
Alignment explanation
Indices: 122233674--122233725 Score: 54
Period size: 5 Copynumber: 10.2 Consensus size: 5
122233664 AATCACCCCA
*
122233674 ATTTT ATTTT ATTTT A-TTT ATTTT AATTGTT ATATT A-TTT ATTTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT -ATT-TT ATTTT ATTTT A-TTTT
122233720 ATTTT A
1 ATTTT A
122233726 CTAATTAATT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
4 7 0.17
5 22 0.55
6 9 0.22
7 2 0.05
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (5 bp):
ATTTT
Found at i:122233711 original size:21 final size:19
Alignment explanation
Indices: 122233674--122233725 Score: 68
Period size: 21 Copynumber: 2.6 Consensus size: 19
122233664 AATCACCCCA
*
122233674 ATTTTATTTTATTTTATTT
1 ATTTTATTTTATATTATTT
122233693 ATTTTAATTGTTATATTATTT
1 ATTTT-ATT-TTATATTATTT
122233714 ATTTTTATTTTA
1 A-TTTTATTTTA
122233726 CTAATTAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 5 0.17
20 6 0.21
21 14 0.48
22 4 0.14
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (19 bp):
ATTTTATTTTATATTATTT
Found at i:122233782 original size:24 final size:23
Alignment explanation
Indices: 122233753--122233846 Score: 81
Period size: 26 Copynumber: 4.0 Consensus size: 23
122233743 TAATTATTCT
122233753 TATACTTATATTTTTCATTTTTTA
1 TATACTTATATTTTT-ATTTTTTA
*
122233777 TATAC-T-T-TTATTATTTTTT-
1 TATACTTATATTTTTATTTTTTA
122233796 TAT-CTATATATTTTTATTTTTTTA
1 TATACT-TATATTTTTA-TTTTTTA
*
122233820 TATACTTTTATTATTTTAATTTTTTA
1 TATAC--TTA-TATTTTTATTTTTTA
122233846 T
1 T
122233847 TTTGCTATTT
Statistics
Matches: 57, Mismatches: 3, Indels: 18
0.73 0.04 0.23
Matches are distributed among these distances:
18 1 0.02
19 3 0.05
20 8 0.14
21 5 0.09
22 6 0.11
23 7 0.12
24 8 0.14
25 1 0.02
26 10 0.18
27 8 0.14
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.70
Consensus pattern (23 bp):
TATACTTATATTTTTATTTTTTA
Found at i:122233791 original size:41 final size:43
Alignment explanation
Indices: 122233745--122233834 Score: 132
Period size: 43 Copynumber: 2.1 Consensus size: 43
122233735 TAATTAATTA
122233745 ATTATTCTTATA-CT-TATATTTTTCA-TTTTTTATATACTTTT
1 ATTATTCTTATATCTATATATTTTT-ATTTTTTTATATACTTTT
* *
122233786 ATTATTTTTTTATCTATATATTTTTATTTTTTTATATACTTTT
1 ATTATTCTTATATCTATATATTTTTATTTTTTTATATACTTTT
122233829 ATTATT
1 ATTATT
122233835 TTAATTTTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
41 10 0.23
42 3 0.07
43 31 0.70
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (43 bp):
ATTATTCTTATATCTATATATTTTTATTTTTTTATATACTTTT
Found at i:122233793 original size:18 final size:17
Alignment explanation
Indices: 122233772--122233847 Score: 59
Period size: 18 Copynumber: 4.4 Consensus size: 17
122233762 ATTTTTCATT
122233772 TTTTATATACTTTTAT-TA
1 TTTTAT-TA-TTTTATATA
* *
122233790 TTTTTTTA-TCTATATA
1 TTTTATTATTTTATATA
*
122233806 TTTTTATTTTTTTATATA
1 -TTTTATTATTTTATATA
*
122233824 CTTTTATTATTTTA-ATT
1 -TTTTATTATTTTATATA
122233841 TTTTATT
1 TTTTATT
122233848 TTGCTATTTC
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
15 4 0.09
16 9 0.19
17 10 0.21
18 24 0.51
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTTATTATTTTATATA
Found at i:122233821 original size:16 final size:16
Alignment explanation
Indices: 122233802--122233888 Score: 63
Period size: 16 Copynumber: 5.4 Consensus size: 16
122233792 TTTTTATCTA
122233802 TATATTTTTATTTTTT
1 TATATTTTTATTTTTT
*
122233818 TATATACTTTTATTATTT
1 TATAT--TTTTATTTTTT
*
122233836 TA-ATTTTT-TATTTT
1 TATATTTTTATTTTTT
** *
122233850 GCTATTTCTATTTTTT
1 TATATTTTTATTTTTT
*
122233866 T-TCTTTTGTATTTTTT
1 TATATTTT-TATTTTTT
122233882 TACTATT
1 TA-TATT
122233889 ATCATTAAAA
Statistics
Matches: 53, Mismatches: 11, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
14 4 0.08
15 13 0.25
16 19 0.36
17 2 0.04
18 15 0.28
ACGTcount: A:0.18, C:0.06, G:0.02, T:0.74
Consensus pattern (16 bp):
TATATTTTTATTTTTT
Found at i:122233938 original size:3 final size:3
Alignment explanation
Indices: 122233930--122233964 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
122233920 ATCATTGAGT
122233930 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
122233965 TATCTTTCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:122238242 original size:51 final size:53
Alignment explanation
Indices: 122238135--122238235 Score: 152
Period size: 51 Copynumber: 1.9 Consensus size: 53
122238125 TCTTGAGCCC
*
122238135 TTGAATCGATACTTGTTGATTTTTAAGTGTTTTTTTTGGTGTTTTGGAAGTGGGT
1 TTGAATCGATACTTGTTGA-TTTTAAGTG-TTTTTTTGGTGTTTTGAAAGTGGGT
*
122238190 TTGAATCGATGCTTGTTGA-TTTAAGTG-TTTTTTGGTGTTTTGAAAG
1 TTGAATCGATACTTGTTGATTTTAAGTGTTTTTTTGGTGTTTTGAAAG
122238236 CTGGTTTCTG
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
51 18 0.41
53 8 0.18
55 18 0.41
ACGTcount: A:0.18, C:0.04, G:0.27, T:0.51
Consensus pattern (53 bp):
TTGAATCGATACTTGTTGATTTTAAGTGTTTTTTTGGTGTTTTGAAAGTGGGT
Found at i:122246882 original size:12 final size:11
Alignment explanation
Indices: 122246858--122246892 Score: 54
Period size: 12 Copynumber: 3.2 Consensus size: 11
122246848 TTTCAACAAG
122246858 TTTTCC-TTCA
1 TTTTCCTTTCA
122246868 TTTTCCTTGTCA
1 TTTTCCTT-TCA
122246880 TTTTCCTTTCA
1 TTTTCCTTTCA
122246891 TT
1 TT
122246893 GTCTGCAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 6 0.26
11 6 0.26
12 11 0.48
ACGTcount: A:0.09, C:0.26, G:0.03, T:0.63
Consensus pattern (11 bp):
TTTTCCTTTCA
Found at i:122249279 original size:47 final size:47
Alignment explanation
Indices: 122249211--122249304 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
122249201 TTGGATAGCT
122249211 TTGTTGTATTCTTTTCATTACAGAGAAACTTCTAATCATAAATTTGG
1 TTGTTGTATTCTTTTCATTACAGAGAAACTTCTAATCATAAATTTGG
122249258 TTGTTGTATTCTTTTCATTACAGAGAAACTTCTAATCATAAATTTGG
1 TTGTTGTATTCTTTTCATTACAGAGAAACTTCTAATCATAAATTTGG
122249305 AATCTTTAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.45
Consensus pattern (47 bp):
TTGTTGTATTCTTTTCATTACAGAGAAACTTCTAATCATAAATTTGG
Found at i:122256486 original size:20 final size:21
Alignment explanation
Indices: 122256461--122256502 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
122256451 AAGTTCTAGA
*
122256461 GCAAAATTG-CCTTTGATGTC
1 GCAAAATCGACCTTTGATGTC
*
122256481 GCAAAATCGACCTTTGTTGTC
1 GCAAAATCGACCTTTGATGTC
122256502 G
1 G
122256503 TGACATCAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.33
Consensus pattern (21 bp):
GCAAAATCGACCTTTGATGTC
Found at i:122258406 original size:15 final size:15
Alignment explanation
Indices: 122258386--122258415 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
122258376 CATTTTATTT
*
122258386 ATATTAGGATAATTA
1 ATATTAAGATAATTA
122258401 ATATTAAGATAATTA
1 ATATTAAGATAATTA
122258416 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:122258653 original size:15 final size:16
Alignment explanation
Indices: 122258635--122258672 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
122258625 TAAAATCTCT
122258635 TTTTCCA-TTTTTTCC
1 TTTTCCATTTTTTTCC
*
122258650 TTTTCCATTTTTTTTC
1 TTTTCCATTTTTTTCC
122258666 TTTTCCA
1 TTTTCCA
122258673 CCATTATCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 7 0.33
16 14 0.67
ACGTcount: A:0.08, C:0.24, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTCCATTTTTTTCC
Found at i:122262186 original size:8 final size:8
Alignment explanation
Indices: 122262173--122262227 Score: 56
Period size: 8 Copynumber: 6.2 Consensus size: 8
122262163 GGCAACCCAA
122262173 TTTTTATT
1 TTTTTATT
122262181 TTTTTATT
1 TTTTTATT
122262189 TTATTTATT
1 TT-TTTATT
122262198 TTATCTTATT
1 TT-T-TTATT
*
122262208 ATTTTATT
1 TTTTTATT
122262216 ATTTATTATT
1 -TTT-TTATT
122262226 TT
1 TT
122262228 CAGATATTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
8 15 0.37
9 15 0.37
10 11 0.27
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTTATT
Found at i:122262192 original size:13 final size:13
Alignment explanation
Indices: 122262174--122262215 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
122262164 GCAACCCAAT
122262174 TTTTATTTTTTTA
1 TTTTATTTTTTTA
122262187 TTTTATTTATTTTA
1 TTTTATTT-TTTTA
* *
122262201 TCTTATTATTTTA
1 TTTTATTTTTTTA
122262214 TT
1 TT
122262216 ATTTATTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTATTTTTTTA
Found at i:122262195 original size:9 final size:9
Alignment explanation
Indices: 122262175--122262207 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
122262165 CAACCCAATT
122262175 TTTATTTT-
1 TTTATTTTA
122262183 TTTATTTTA
1 TTTATTTTA
122262192 TTTATTTTA
1 TTTATTTTA
122262201 TCTTATT
1 T-TTATT
122262208 ATTTTATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.35
9 10 0.43
10 5 0.22
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTATTTTA
Found at i:122262199 original size:22 final size:21
Alignment explanation
Indices: 122262174--122262227 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 21
122262164 GCAACCCAAT
122262174 TTTTATTTTTTTATTTTATTTA
1 TTTTATTTTTTTATTTTA-TTA
* *
122262196 TTTTATCTTATTATTTTATTA
1 TTTTATTTTTTTATTTTATTA
*
122262217 -TTTATTATTTT
1 TTTTATTTTTTT
122262228 CAGATATTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 8 0.30
21 3 0.11
22 16 0.59
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTATTTTTTTATTTTATTA
Found at i:122267557 original size:6 final size:6
Alignment explanation
Indices: 122267546--122267584 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
122267536 CTACCATCTC
*
122267546 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTATT TTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTT
122267585 GCCACAAGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTCTT
Found at i:122267905 original size:15 final size:15
Alignment explanation
Indices: 122267887--122267915 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
122267877 GACTCCATTT
122267887 TATTAAGATAATTAA
1 TATTAAGATAATTAA
122267902 TATTAAGATAATTA
1 TATTAAGATAATTA
122267916 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (15 bp):
TATTAAGATAATTAA
Found at i:122267959 original size:10 final size:10
Alignment explanation
Indices: 122267940--122267971 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
122267930 TTTTAGGATT
122267940 TTAT-TTTAA
1 TTATCTTTAA
122267949 TTATCTTTAA
1 TTATCTTTAA
122267959 TTATCTTTAA
1 TTATCTTTAA
122267969 TTA
1 TTA
122267972 ATTGTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:122271341 original size:14 final size:13
Alignment explanation
Indices: 122271312--122271356 Score: 51
Period size: 12 Copynumber: 3.6 Consensus size: 13
122271302 AGTGGGTGGA
122271312 AATAATATT-A-T
1 AATAATATTAAGT
122271323 AATAATATTAAAGT
1 AATAATATT-AAGT
*
122271337 TATAATA-TAAGT
1 AATAATATTAAGT
122271349 AATAATAT
1 AATAATAT
122271357 GTATATATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
11 9 0.32
12 10 0.36
13 2 0.07
14 7 0.25
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (13 bp):
AATAATATTAAGT
Found at i:122272682 original size:50 final size:51
Alignment explanation
Indices: 122272501--122272698 Score: 154
Period size: 50 Copynumber: 3.9 Consensus size: 51
122272491 ATCTTGTATT
* * *
122272501 TATTCGGCCACATAGGTATGTACATATGTGACGTTATA-TTGAATCTTGAA
1 TATTCGGCCATATAGGTATGCACATATGTGATGTTATATTTGAATCTTGAA
* * * * * *
122272551 TATTTGACCATGA-AGGTATGCACAAAAGTGATATTATATTTGAAT-TTGTA
1 TATTCGGCCAT-ATAGGTATGCACATATGTGATGTTATATTTGAATCTTGAA
* * * * * * *
122272601 TATTCAGCCATAT-GAGTAAGTACTTAGGTGATGTTAAATTTG-ATCTTGCA
1 TATTCGGCCATATAG-GTATGCACATATGTGATGTTATATTTGAATCTTGAA
* * * * *
122272651 TATTTGGCCATATAGGTATGCACATTTGTGATATTATCTTTGATTCTT
1 TATTCGGCCATATAGGTATGCACATATGTGATGTTATATTTGAATCTT
122272699 TATAATCGAC
Statistics
Matches: 110, Mismatches: 31, Indels: 13
0.71 0.20 0.08
Matches are distributed among these distances:
49 4 0.04
50 94 0.85
51 12 0.11
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.40
Consensus pattern (51 bp):
TATTCGGCCATATAGGTATGCACATATGTGATGTTATATTTGAATCTTGAA
Found at i:122276236 original size:21 final size:23
Alignment explanation
Indices: 122276215--122276268 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 23
122276205 TCTCACAAAT
122276215 AAAATAAAA-ACAACTAACAATA
1 AAAATAAAAGACAACTAACAATA
* *
122276237 AAAATAAAAGTACAACTAAAAACA
1 AAAATAAAAG-ACAACTAACAATA
122276261 AAAATAAA
1 AAAATAAA
122276269 TAAAATAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 9 0.32
24 19 0.68
ACGTcount: A:0.74, C:0.11, G:0.02, T:0.13
Consensus pattern (23 bp):
AAAATAAAAGACAACTAACAATA
Found at i:122276251 original size:17 final size:17
Alignment explanation
Indices: 122276211--122276273 Score: 58
Period size: 16 Copynumber: 3.8 Consensus size: 17
122276201 AAAGTCTCAC
*
122276211 AAATAAAATAAAAACAA
1 AAATACAATAAAAACAA
** *
122276228 CTA-ACAATAAAAATAA
1 AAATACAATAAAAACAA
*
122276244 AAGTACAACTAAAAACAA
1 AAATACAA-TAAAAACAA
122276262 AAATA-AATAAAA
1 AAATACAATAAAA
122276274 TAGAAAACTA
Statistics
Matches: 35, Mismatches: 9, Indels: 5
0.71 0.18 0.10
Matches are distributed among these distances:
16 16 0.46
17 7 0.20
18 12 0.34
ACGTcount: A:0.75, C:0.10, G:0.02, T:0.14
Consensus pattern (17 bp):
AAATACAATAAAAACAA
Found at i:122277805 original size:16 final size:15
Alignment explanation
Indices: 122277784--122277818 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
122277774 AATAATAGGT
*
122277784 ATAATAATACGAAATA
1 ATAATAAAAC-AAATA
122277800 ATAATAAAACAAATA
1 ATAATAAAACAAATA
122277815 ATAA
1 ATAA
122277819 ATATAATAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.69, C:0.06, G:0.03, T:0.23
Consensus pattern (15 bp):
ATAATAAAACAAATA
Found at i:122280995 original size:40 final size:40
Alignment explanation
Indices: 122280907--122280998 Score: 112
Period size: 40 Copynumber: 2.3 Consensus size: 40
122280897 GCTATTTGTA
* *
122280907 GCACTTAGTGTGCAATTTGAGATAGCTTCGGCTATAAATG
1 GCACTTAGTGTGCAATTTGAGATAGCTTCGACTATAAACG
* * * * **
122280947 GCAATTAGTGTGCGATTTGAGATATCTTCGATTATGTACG
1 GCACTTAGTGTGCAATTTGAGATAGCTTCGACTATAAACG
122280987 GCACTTAGTGTG
1 GCACTTAGTGTG
122280999 TGAGATATCG
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.25, C:0.14, G:0.26, T:0.35
Consensus pattern (40 bp):
GCACTTAGTGTGCAATTTGAGATAGCTTCGACTATAAACG
Found at i:122284057 original size:46 final size:47
Alignment explanation
Indices: 122283909--122284318 Score: 297
Period size: 48 Copynumber: 8.7 Consensus size: 47
122283899 TTATTTGTGT
* * **
122283909 GCCAGTGTAAGA-CATGTCTGAGACAT-GCATCAGCCACTTTATGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATATGA-A
* * * *
122283955 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGACGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATATGA-A
* *
122284003 GCTAGTGTAAGA-CATGTCTGGGATAT-GCATCAGCCTCGATATGTAA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATATG-AA
* * * * *
122284049 GCCAGTGTAAGA-CATGACTGGGACAT-GTATCA-TCTACGAGATG-T
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCT-CGATATGAA
* * * * * **
122284093 GTCAGAGTAAGACCATGTCTGGGACATGGCATC-GGCACGTATAGGGGT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCG-ATA-TGAA
* * *
122284141 GTCAGTGTAAGACAATGTCTGGGACATGGCATCAGCAC-AGATATGTGAAA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAGC-CTCGATA--TG-AA
* * * *
122284191 GCTAGTGTAAGACCATGTC-GGGACATGGCGTTAGCCTCGATTTCGATA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATAT-GA-A
* * * * *
122284239 GTCAGTGTAAGACCATGTCTGAGACATGGCGTC-GACTTGATGGATG-A
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGAT--ATGAA
122284286 GCCAGTGTAAGACCATGTCTGGGACATGGCATC
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATC
122284319 GGCATCATAC
Statistics
Matches: 291, Mismatches: 53, Indels: 39
0.76 0.14 0.10
Matches are distributed among these distances:
44 10 0.03
45 17 0.06
46 67 0.23
47 61 0.21
48 85 0.29
49 33 0.11
50 18 0.06
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (47 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATATGAA
Found at i:122291575 original size:20 final size:20
Alignment explanation
Indices: 122291550--122291590 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
122291540 CAAATTCGTT
122291550 AATAAGGTTTAACGAAAGAC
1 AATAAGGTTTAACGAAAGAC
122291570 AATAAGGTTTAACGAAAGAC
1 AATAAGGTTTAACGAAAGAC
122291590 A
1 A
122291591 TGTAGATTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.51, C:0.10, G:0.20, T:0.20
Consensus pattern (20 bp):
AATAAGGTTTAACGAAAGAC
Found at i:122292372 original size:32 final size:32
Alignment explanation
Indices: 122292336--122292442 Score: 88
Period size: 32 Copynumber: 3.2 Consensus size: 32
122292326 CACATGCATA
122292336 AATTATTCATATAACCGAATATGTACCTCATC
1 AATTATTCATATAACCGAATATGTACCTCATC
** ** ** * *
122292368 AATTAAACACATATACATAAGAACTATCCACATGCATA
1 AATT--ATTCATATA-A-CCGAA-TATGTACCT-CATC
122292406 AATTATTCATATAACCGAATATGTACCTCATC
1 AATTATTCATATAACCGAATATGTACCTCATC
122292438 AATTA
1 AATTA
122292443 AACACATATA
Statistics
Matches: 53, Mismatches: 16, Indels: 12
0.65 0.20 0.15
Matches are distributed among these distances:
32 12 0.23
33 6 0.11
34 10 0.19
35 2 0.04
36 10 0.19
37 6 0.11
38 7 0.13
ACGTcount: A:0.43, C:0.21, G:0.06, T:0.31
Consensus pattern (32 bp):
AATTATTCATATAACCGAATATGTACCTCATC
Found at i:122292382 original size:34 final size:34
Alignment explanation
Indices: 122292343--122292452 Score: 98
Period size: 34 Copynumber: 3.2 Consensus size: 34
122292333 ATAAATTATT
122292343 CATATAACCGAATATGTACCTCATCAATTAAACA
1 CATATAACCGAATATGTACCTCATCAATTAAACA
** ** * * **
122292377 CATATACATAAGAACTATCCACATGCATAAATT--ATT
1 CATATA-A-CCGAA-TATGTACCT-CATCAATTAAACA
122292413 CATATAACCGAATATGTACCTCATCAATTAAACA
1 CATATAACCGAATATGTACCTCATCAATTAAACA
122292447 CATATA
1 CATATA
122292453 CATAAGAACT
Statistics
Matches: 54, Mismatches: 16, Indels: 12
0.66 0.20 0.15
Matches are distributed among these distances:
32 7 0.13
33 6 0.11
34 16 0.30
35 2 0.04
36 10 0.19
37 6 0.11
38 7 0.13
ACGTcount: A:0.45, C:0.22, G:0.05, T:0.28
Consensus pattern (34 bp):
CATATAACCGAATATGTACCTCATCAATTAAACA
Found at i:122292406 original size:70 final size:70
Alignment explanation
Indices: 122292324--122292474 Score: 284
Period size: 70 Copynumber: 2.1 Consensus size: 70
122292314 TATTATACTT
122292324 TCCACATGCATAAATTATTCATATAACCGAATATGTACCTCATCAATTAAACACATATACATAAG
1 TCCACATGCATAAATTATTCATATAACCGAATATGTACCTCATCAATTAAACACATATACATAAG
122292389 AACTA
66 AACTA
122292394 TCCACATGCATAAATTATTCATATAACCGAATATGTACCTCATCAATTAAACACATATACATAAG
1 TCCACATGCATAAATTATTCATATAACCGAATATGTACCTCATCAATTAAACACATATACATAAG
122292459 AACTA
66 AACTA
122292464 TCACAACATGC
1 TC-C-ACATGC
122292475 TTACTACTCA
Statistics
Matches: 79, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
70 72 0.91
71 1 0.01
72 6 0.08
ACGTcount: A:0.44, C:0.23, G:0.06, T:0.28
Consensus pattern (70 bp):
TCCACATGCATAAATTATTCATATAACCGAATATGTACCTCATCAATTAAACACATATACATAAG
AACTA
Found at i:122298574 original size:29 final size:29
Alignment explanation
Indices: 122298532--122298593 Score: 124
Period size: 29 Copynumber: 2.1 Consensus size: 29
122298522 TGGTAAATTC
122298532 CTTAAACTCTTAAAAAAATTACATATTAA
1 CTTAAACTCTTAAAAAAATTACATATTAA
122298561 CTTAAACTCTTAAAAAAATTACATATTAA
1 CTTAAACTCTTAAAAAAATTACATATTAA
122298590 CTTA
1 CTTA
122298594 CCGTTTATTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (29 bp):
CTTAAACTCTTAAAAAAATTACATATTAA
Found at i:122299841 original size:42 final size:42
Alignment explanation
Indices: 122299792--122299887 Score: 120
Period size: 42 Copynumber: 2.3 Consensus size: 42
122299782 CGTGCTTCAG
* * *
122299792 GCCGTGTGACAACCACAGAAGGAAACATGACCGTGCGATACG
1 GCCGTGTGAAAACCACAGAAGGAAACACGACCGTGCGATACA
* * * * *
122299834 GTCGTGTGAAAACCACGGACGGAAATACGGCCGTGCGATACA
1 GCCGTGTGAAAACCACAGAAGGAAACACGACCGTGCGATACA
122299876 GCCGTGTGAAAA
1 GCCGTGTGAAAA
122299888 TAGGGTAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.32, C:0.24, G:0.30, T:0.14
Consensus pattern (42 bp):
GCCGTGTGAAAACCACAGAAGGAAACACGACCGTGCGATACA
Found at i:122308557 original size:31 final size:31
Alignment explanation
Indices: 122308519--122308613 Score: 163
Period size: 31 Copynumber: 3.1 Consensus size: 31
122308509 CCTTTTCATA
* *
122308519 TTTCATATTTCATAATACTGGGCTGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
*
122308550 TTTCATATTTCATATTACTAGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
122308581 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
122308612 TT
1 TT
122308614 ACTGTAAACG
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 60 1.00
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.40
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:122308850 original size:24 final size:24
Alignment explanation
Indices: 122308823--122308945 Score: 187
Period size: 24 Copynumber: 5.2 Consensus size: 24
122308813 AGGCCTACCT
*
122308823 CTTTTAATAACTGGGGCAAAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
122308847 CTTTCAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
122308871 C-TTT-ATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
122308893 CTTTTGATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
122308917 CTTTTGATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
122308941 TTTTT
1 CTTTT
122308946 TCACTTCCTC
Statistics
Matches: 93, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
22 19 0.20
23 5 0.05
24 69 0.74
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (24 bp):
CTTTTAATAACTGGGGCATAAGCC
Found at i:122308882 original size:46 final size:48
Alignment explanation
Indices: 122308823--122308940 Score: 186
Period size: 46 Copynumber: 2.5 Consensus size: 48
122308813 AGGCCTACCT
* *
122308823 CTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAGCC
1 CTTTTGATAACTGGGGCATAAGCCCTTTCAATAACTGGGGCATAAGCC
**
122308871 C-TTT-ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCC
1 CTTTTGATAACTGGGGCATAAGCCCTTTCAATAACTGGGGCATAAGCC
122308917 CTTTTGATAACTGGGGCATAAGCC
1 CTTTTGATAACTGGGGCATAAGCC
122308941 TTTTTTCACT
Statistics
Matches: 65, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
46 40 0.62
47 6 0.09
48 19 0.29
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (48 bp):
CTTTTGATAACTGGGGCATAAGCCCTTTCAATAACTGGGGCATAAGCC
Found at i:122309021 original size:20 final size:20
Alignment explanation
Indices: 122308996--122309055 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
122308986 TATGATTACC
122308996 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
122309016 TCATGTGCATAGCATACATT
1 TCATGTGCATATCATACATA
122309036 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
122309056 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:122309130 original size:25 final size:25
Alignment explanation
Indices: 122309098--122309145 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
122309088 ATACATAAAC
* * *
122309098 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
122309123 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
122309146 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:122310356 original size:27 final size:27
Alignment explanation
Indices: 122310294--122310358 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
122310284 GGGCATATTC
122310294 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
122310321 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
*
122310348 GTCTTTTTACC
1 GTCATTTTACC
122310359 TAATAGGGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:122310585 original size:27 final size:27
Alignment explanation
Indices: 122310417--122310668 Score: 123
Period size: 27 Copynumber: 9.3 Consensus size: 27
122310407 TCTACAAACT
* *
122310417 AAGGGTATTTCAGTAATTTTGTAAACC
1 AAGGGTATTTTAGTAATTTTGTAAATC
* *
122310444 AATGGTATTTCTA-TAATTTTGAGAAAGTC
1 AAGGGTATTT-TAGTAATTTTG-TAAA-TC
* *
122310473 AAGGGTATTTCT-GTAACTTTGTAAATT
1 AAGGGTATTT-TAGTAATTTTGTAAATC
* * ** *
122310500 AGGGGTATTTTGGTAATTTTACAAATT
1 AAGGGTATTTTAGTAATTTTGTAAATC
* * *** *
122310527 GAGGGT-TTTTCGATAATTTCACAAACC
1 AAGGGTATTTTAG-TAATTTTGTAAATC
122310554 AAGGGTATTTTAGTAATTTTGTAAATC
1 AAGGGTATTTTAGTAATTTTGTAAATC
* **** * *
122310581 GAGGGTAAAACATTAATTCTGTAAATC
1 AAGGGTATTTTAGTAATTTTGTAAATC
**** * *
122310608 AAGGGTAAAACAGTAATTCTATAAATC
1 AAGGGTATTTTAGTAATTTTGTAAATC
*** * *
122310635 AAGGGTAAAATAGTAATTCTATAAATC
1 AAGGGTATTTTAGTAATTTTGTAAATC
122310662 AAGGGTA
1 AAGGGTA
122310669 AAACAGTAAT
Statistics
Matches: 183, Mismatches: 35, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
26 6 0.03
27 146 0.80
28 12 0.07
29 19 0.10
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.36
Consensus pattern (27 bp):
AAGGGTATTTTAGTAATTTTGTAAATC
Found at i:122310669 original size:27 final size:27
Alignment explanation
Indices: 122310566--122311038 Score: 491
Period size: 27 Copynumber: 17.6 Consensus size: 27
122310556 GGGTATTTTA
* * *
122310566 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCAAGGGTAAAACG
* *
122310593 TTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCAAGGGTAAAACG
* **
122310620 GTAATTCTATAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCAAGGGTAAAACG
* *
122310647 GTAATTCTATAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCAAGGGTAAAACG
* * *
122310674 GTAATTCAGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCAAGGGTAAAACG
* *
122310701 GTAATTCTGTAAGTCGAGGGTAAAACG
1 GTAATTCTGTAAATCAAGGGTAAAACG
* * * *
122310728 ATAATTATGTAAATTAGGGGTAAAACG
1 GTAATTCTGTAAATCAAGGGTAAAACG
* * *
122310755 GTAATTATGTAAATTAGGGGTAAAACG
1 GTAATTCTGTAAATCAAGGGTAAAACG
* * *
122310782 GTAATTCTATAAGTCGAGGGTAAAACG
1 GTAATTCTGTAAATCAAGGGTAAAACG
* * * *
122310809 ATAATTATGTAAATCAGGGGTAAAATG
1 GTAATTCTGTAAATCAAGGGTAAAACG
* *
122310836 GTAATTATGTAAAT-TAGAGGTAAAACG
1 GTAATTCTGTAAATCAAG-GGTAAAACG
* *
122310863 GTAATTCTGTAAGTCGAGGGTAAAACG
1 GTAATTCTGTAAATCAAGGGTAAAACG
* * *
122310890 ATAATTATGTAAATCAGGGGTAAAACG
1 GTAATTCTGTAAATCAAGGGTAAAACG
* * * *
122310917 ATAATTATGTAAATTAGGGGTAAAACG
1 GTAATTCTGTAAATCAAGGGTAAAACG
* *
122310944 GTAATTCTGTAAGTCGAGGGTAAAACG
1 GTAATTCTGTAAATCAAGGGTAAAACG
* * *
122310971 ATAATTATGTAAAT-TAGGGTAAAACG
1 GTAATTCTGTAAATCAAGGGTAAAACG
* * *
122310997 GTAATTATGTAAATTAGGGGTAAAACG
1 GTAATTCTGTAAATCAAGGGTAAAACG
122311024 GTAATTCTGTAAATC
1 GTAATTCTGTAAATC
122311039 GGGGTACTTT
Statistics
Matches: 380, Mismatches: 63, Indels: 6
0.85 0.14 0.01
Matches are distributed among these distances:
26 25 0.07
27 353 0.93
28 2 0.01
ACGTcount: A:0.41, C:0.07, G:0.23, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCAAGGGTAAAACG
Found at i:122311080 original size:27 final size:26
Alignment explanation
Indices: 122311050--122311139 Score: 99
Period size: 27 Copynumber: 3.3 Consensus size: 26
122311040 GGGTACTTTA
122311050 GTAATTTTACAAGTCGAAGGTATTTCG
1 GTAATTTTACAA-TCGAAGGTATTTCG
* * *
122311077 GTAAATTTACAAATCGAGGGTATTTCA
1 GTAATTTTAC-AATCGAAGGTATTTCG
* * *
122311104 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAATCGAA-GGTATTTCG
122311131 GTAATTTTA
1 GTAATTTTA
122311140 GTAAACTAAA
Statistics
Matches: 51, Mismatches: 10, Indels: 4
0.78 0.15 0.06
Matches are distributed among these distances:
26 4 0.08
27 45 0.88
28 2 0.04
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (26 bp):
GTAATTTTACAATCGAAGGTATTTCG
Found at i:122311080 original size:80 final size:80
Alignment explanation
Indices: 122310567--122311044 Score: 559
Period size: 81 Copynumber: 5.9 Consensus size: 80
122310557 GGTATTTTAG
* * ** * * * * *
122310567 TAATTTTGTAAATCGAGGGTAAAACATTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATAA
1 TAATTATGTAAAT-GAAGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAA
* *
122310632 ATCAAGGGTAAAA-TA
65 ATCGAGGGTAAAACGA
* * * * * *
122310647 GTAATTCTATAAATCAAGGGTAAAACAGTAATTCA-GTAAA-TCGAGGGTAAAATGGTAATTCTG
1 -TAATTATGTAAATGAA-GGTAAAACGGTAATT-ATGTAAATTAG-GGGTAAAACGGTAATTCTG
*
122310710 TAAGTCGAGGGTAAAACGA
62 TAAATCGAGGGTAAAACGA
* * *
122310729 TAATTATGTAAATTAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTATAA
1 TAATTATGTAAATGA-AGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAA
*
122310794 GTCGAGGGTAAAACGA
65 ATCGAGGGTAAAACGA
* * * *
122310810 TAATTATGTAAATCAGGGGTAAAATGGTAATTATGTAAATTAGAGGTAAAACGGTAATTCTGTAA
1 TAATTATGTAAATGA-AGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAA
*
122310875 GTCGAGGGTAAAACGA
65 ATCGAGGGTAAAACGA
* * *
122310891 TAATTATGTAAATCAGGGGTAAAACGATAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAA
1 TAATTATGTAAATGA-AGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAA
*
122310956 GTCGAGGGTAAAACGA
65 ATCGAGGGTAAAACGA
* *
122310972 TAATTATGTAAATTAGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAAA
1 TAATTATGTAAATGAAGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAAA
122311037 TCG-GGGTA
66 TCGAGGGTA
122311045 CTTTAGTAAT
Statistics
Matches: 357, Mismatches: 33, Indels: 16
0.88 0.08 0.04
Matches are distributed among these distances:
79 5 0.01
80 53 0.15
81 296 0.83
82 3 0.01
ACGTcount: A:0.41, C:0.07, G:0.23, T:0.28
Consensus pattern (80 bp):
TAATTATGTAAATGAAGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAAA
TCGAGGGTAAAACGA
Found at i:122311126 original size:54 final size:53
Alignment explanation
Indices: 122311034--122311139 Score: 135
Period size: 54 Copynumber: 2.0 Consensus size: 53
122311024 GTAATTCTGT
*
122311034 AAATCGGGGTACTTTAGTAATTTTACAAGTCGAAGGTATTTCGGTAAATTTAC
1 AAATCGGGGTACTTTAGTAATTTTACAAGACGAAGGTATTTCGGTAAATTTAC
* * *
122311087 AAATCGAGGGTA-TTTCAGTATTTTTACAA-ACTAAGGGTATTTCGGTAATTTTA
1 AAATCG-GGGTACTTT-AGTAATTTTACAAGACGAA-GGTATTTCGGTAAATTTA
122311140 GTAAACTAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
53 12 0.26
54 34 0.74
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (53 bp):
AAATCGGGGTACTTTAGTAATTTTACAAGACGAAGGTATTTCGGTAAATTTAC
Found at i:122313963 original size:30 final size:30
Alignment explanation
Indices: 122313929--122314004 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
122313919 AAAACTATCG
*
122313929 CTTTTCATAAATTGATGGCCT-TCACCATCC
1 CTTTTCATAATTTGATGG-CTGTCACCATCC
* ** *
122313959 CTTTTTATTGTTTGATGGTTGTCACCATCC
1 CTTTTCATAATTTGATGGCTGTCACCATCC
*
122313989 TTTTTCATAATTTGAT
1 CTTTTCATAATTTGAT
122314005 AGCCGAAGCT
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
29 1 0.03
30 35 0.97
ACGTcount: A:0.20, C:0.21, G:0.12, T:0.47
Consensus pattern (30 bp):
CTTTTCATAATTTGATGGCTGTCACCATCC
Found at i:122314019 original size:30 final size:30
Alignment explanation
Indices: 122313983--122314091 Score: 137
Period size: 30 Copynumber: 3.6 Consensus size: 30
122313973 ATGGTTGTCA
* * *
122313983 CCATCCTTTTTCATAATTTGATAGCCGAAG
1 CCATCCTTTTTCATAGTTCGATAGCCAAAG
* *
122314013 CTATCCTTTTTCACAGTTCGATAGCCAAAG
1 CCATCCTTTTTCATAGTTCGATAGCCAAAG
* * *
122314043 CCATCCATTTTCATAGTTCGATAGTCAAAT
1 CCATCCTTTTTCATAGTTCGATAGCCAAAG
*
122314073 CCATCCCTTTTCATAGTTC
1 CCATCCTTTTTCATAGTTC
122314092 AATGGTCGTT
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 68 1.00
ACGTcount: A:0.26, C:0.27, G:0.11, T:0.37
Consensus pattern (30 bp):
CCATCCTTTTTCATAGTTCGATAGCCAAAG
Found at i:122317675 original size:22 final size:23
Alignment explanation
Indices: 122317627--122317676 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
122317617 TCCTTAATTT
*
122317627 ACCTAATTTTTAAACCTAAAAAC
1 ACCTTATTTTTAAACCTAAAAAC
* *
122317650 -CCTTATTTTT-AACTTTAAAAC
1 ACCTTATTTTTAAACCTAAAAAC
122317671 ACCTTA
1 ACCTTA
122317677 AAATCACATT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 9 0.39
22 14 0.61
ACGTcount: A:0.40, C:0.22, G:0.00, T:0.38
Consensus pattern (23 bp):
ACCTTATTTTTAAACCTAAAAAC
Found at i:122325621 original size:21 final size:20
Alignment explanation
Indices: 122325592--122325630 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
122325582 ACGCCTACGA
122325592 AAAGATCGCTTGGATTTAAG
1 AAAGATCGCTTGGATTTAAG
122325612 AAAGAGTCGCTTGGATTTA
1 AAAGA-TCGCTTGGATTTA
122325631 TCCATGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (20 bp):
AAAGATCGCTTGGATTTAAG
Found at i:122325837 original size:16 final size:15
Alignment explanation
Indices: 122325810--122325844 Score: 61
Period size: 16 Copynumber: 2.3 Consensus size: 15
122325800 TATCATTTCA
122325810 ATATATAATTTAAAT
1 ATATATAATTTAAAT
122325825 ATATATAAATTTAAAT
1 ATATAT-AATTTAAAT
122325841 ATAT
1 ATAT
122325845 TCATAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATATATAATTTAAAT
Found at i:122330649 original size:13 final size:13
Alignment explanation
Indices: 122330631--122330658 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
122330621 GTTATTCATA
122330631 ATTAATATGAATT
1 ATTAATATGAATT
122330644 ATTAATATGAATT
1 ATTAATATGAATT
122330657 AT
1 AT
122330659 AGACTCGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (13 bp):
ATTAATATGAATT
Found at i:122330920 original size:25 final size:25
Alignment explanation
Indices: 122330886--122330935 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
122330876 ATCTAGTTTC
122330886 TTTTTATAATATCTATTTATTTCTA
1 TTTTTATAATATCTATTTATTTCTA
122330911 TTTTTATAATATCTATTTATTTCTA
1 TTTTTATAATATCTATTTATTTCTA
122330936 ATAAATATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (25 bp):
TTTTTATAATATCTATTTATTTCTA
Found at i:122330927 original size:15 final size:15
Alignment explanation
Indices: 122330886--122330928 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
122330876 ATCTAGTTTC
122330886 TTTTTATAATATCTA
1 TTTTTATAATATCTA
122330901 --TTTAT--T-TCTA
1 TTTTTATAATATCTA
122330911 TTTTTATAATATCTA
1 TTTTTATAATATCTA
122330926 TTT
1 TTT
122330929 ATTTCTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 10
0.70 0.00 0.30
Matches are distributed among these distances:
10 4 0.17
11 1 0.04
12 5 0.22
13 5 0.22
14 1 0.04
15 7 0.30
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (15 bp):
TTTTTATAATATCTA
Found at i:122330942 original size:21 final size:23
Alignment explanation
Indices: 122330890--122330943 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 23
122330880 AGTTTCTTTT
*
122330890 TATAATATCTATTTATTTCTATTTT
1 TATAATATCTATTTATTTCTA--TA
122330915 TATAATATCTATTTATTTCTA-A
1 TATAATATCTATTTATTTCTATA
122330937 TA-AATAT
1 TATAATAT
122330944 TTATATAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 5 0.18
22 2 0.07
25 21 0.75
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.57
Consensus pattern (23 bp):
TATAATATCTATTTATTTCTATA
Found at i:122332986 original size:341 final size:341
Alignment explanation
Indices: 122332363--122333010 Score: 1278
Period size: 341 Copynumber: 1.9 Consensus size: 341
122332353 AACAGAATCG
122332363 CGTGCTTATCCTAATTGTTGGTTCAGTTTATGCATGGCGAAAAGGAGCATTGGAATGGTCTTAGT
1 CGTGCTTATCCTAATTGTTGGTTCAGTTTATGCATGGCGAAAAGGAGCATTGGAATGGTCTTAGT
122332428 TCCTGAATATTCAGATAATAAAAAGAAAGAAAAAAGTCAAAATAATAATAACATTGAGTATGAAT
66 TCCTGAATATTCAGATAATAAAAAGAAAGAAAAAAGTCAAAATAATAATAACATTGAGTATGAAT
122332493 TCCATCGAATTTCCCTTACTTGATCGAACAACCCAAAATTCAGTTATTTCAACTACATTAAATGA
131 TCCATCGAATTTCCCTTACTTGATCGAACAACCCAAAATTCAGTTATTTCAACTACATTAAATGA
122332558 TCTTTCAAATTGGTCAAGACTCTCCAGTTTATGGCCGCTTCTTTATGGTACCAGTTGTTGCTTTA
196 TCTTTCAAATTGGTCAAGACTCTCCAGTTTATGGCCGCTTCTTTATGGTACCAGTTGTTGCTTTA
122332623 TTGAATTTGCTTCATTAATAGGCTCACGCTTCGACTTTGATCGTTATTGGGGGTACCTGTATTCA
261 TTGAATTTGCTTCATTAATAGGCTCACGCTTCGACTTTGATCGTTATTGGGGGTACCTGTATTCA
122332688 TAGAAGCTTTCATTTT
326 TAGAAGCTTTCATTTT
122332704 CGTGCTTATCCTAATTGTTGGTTCAGTTTATGCATGGCGAAAAGGAGCATTGGAATGGTCTTAGT
1 CGTGCTTATCCTAATTGTTGGTTCAGTTTATGCATGGCGAAAAGGAGCATTGGAATGGTCTTAGT
122332769 TCCTGAATATTCAGATAATAAAAAGAAAGAAAAAAGTCAAAATAATAATAACATTGAGTATGAAT
66 TCCTGAATATTCAGATAATAAAAAGAAAGAAAAAAGTCAAAATAATAATAACATTGAGTATGAAT
122332834 TCCATCGAATTTCCCTTACTTGATCGAACAACCCAAAATTCAGTTATTTCAACTACATTAAATGA
131 TCCATCGAATTTCCCTTACTTGATCGAACAACCCAAAATTCAGTTATTTCAACTACATTAAATGA
* *
122332899 TCTTTCAAATTGGTCAAGACTCTCTAGTTTATGGCCGCTTCTTTATGGTACCAGTTGTTTCTTTA
196 TCTTTCAAATTGGTCAAGACTCTCCAGTTTATGGCCGCTTCTTTATGGTACCAGTTGTTGCTTTA
122332964 TTGAATTTGCTTCATTAATAGGCTCACGCTTCGACTTTGATCGTTAT
261 TTGAATTTGCTTCATTAATAGGCTCACGCTTCGACTTTGATCGTTAT
122333011 GGGCTGGTAC
Statistics
Matches: 305, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
341 305 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (341 bp):
CGTGCTTATCCTAATTGTTGGTTCAGTTTATGCATGGCGAAAAGGAGCATTGGAATGGTCTTAGT
TCCTGAATATTCAGATAATAAAAAGAAAGAAAAAAGTCAAAATAATAATAACATTGAGTATGAAT
TCCATCGAATTTCCCTTACTTGATCGAACAACCCAAAATTCAGTTATTTCAACTACATTAAATGA
TCTTTCAAATTGGTCAAGACTCTCCAGTTTATGGCCGCTTCTTTATGGTACCAGTTGTTGCTTTA
TTGAATTTGCTTCATTAATAGGCTCACGCTTCGACTTTGATCGTTATTGGGGGTACCTGTATTCA
TAGAAGCTTTCATTTT
Found at i:122334534 original size:15 final size:15
Alignment explanation
Indices: 122334514--122334556 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
122334504 TATTAGAAAT
122334514 AAATAGATATTATAA
1 AAATAGATATTATAA
122334529 AAATAGA-A--AT--
1 AAATAGATATTATAA
122334539 AAATAGATATTATAA
1 AAATAGATATTATAA
122334554 AAA
1 AAA
122334557 GAAACTAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 10
0.70 0.00 0.30
Matches are distributed among these distances:
10 7 0.30
11 1 0.04
12 2 0.09
13 2 0.09
14 1 0.04
15 10 0.43
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (15 bp):
AAATAGATATTATAA
Found at i:122334535 original size:25 final size:25
Alignment explanation
Indices: 122334507--122334556 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
122334497 AAATATTTAT
122334507 TAGAAATAAATAGATATTATAAAAA
1 TAGAAATAAATAGATATTATAAAAA
122334532 TAGAAATAAATAGATATTATAAAAA
1 TAGAAATAAATAGATATTATAAAAA
122334557 GAAACTAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (25 bp):
TAGAAATAAATAGATATTATAAAAA
Found at i:122337619 original size:18 final size:18
Alignment explanation
Indices: 122337596--122337638 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
122337586 TTCAAAACGA
* *
122337596 TATTGATGCTAGTGACGT
1 TATTGATGATAGTGACGC
122337614 TATTGATGATAGTGACGC
1 TATTGATGATAGTGACGC
122337632 TATTGAT
1 TATTGAT
122337639 CGTGACCTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.26, C:0.09, G:0.26, T:0.40
Consensus pattern (18 bp):
TATTGATGATAGTGACGC
Found at i:122338726 original size:21 final size:21
Alignment explanation
Indices: 122338687--122338726 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
122338677 TTTATTTAAA
*
122338687 AATATAAATGATATAGAATAT
1 AATATAAATGAAATAGAATAT
*
122338708 AATATAAATGAAATGGAAT
1 AATATAAATGAAATAGAAT
122338727 TACTGATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.12, T:0.30
Consensus pattern (21 bp):
AATATAAATGAAATAGAATAT
Found at i:122365799 original size:20 final size:21
Alignment explanation
Indices: 122365760--122365799 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
122365750 CTGATGTCAC
*
122365760 GACAACAAAGGTCGATTTTGT
1 GACAACAAAGGTCAATTTTGT
*
122365781 GACATCAAAGG-CAATTTTG
1 GACAACAAAGGTCAATTTTG
122365800 CTCTAGAACT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.28
Consensus pattern (21 bp):
GACAACAAAGGTCAATTTTGT
Found at i:122373014 original size:47 final size:47
Alignment explanation
Indices: 122372960--122373053 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
122372950 ATTAAAGATT
122372960 CCAAATTTATGATTAGAAGTTTCTCTGTAATGAAAAGAATACAACAA
1 CCAAATTTATGATTAGAAGTTTCTCTGTAATGAAAAGAATACAACAA
122373007 CCAAATTTATGATTAGAAGTTTCTCTGTAATGAAAAGAATACAACAA
1 CCAAATTTATGATTAGAAGTTTCTCTGTAATGAAAAGAATACAACAA
122373054 AGCTATCCAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.30
Consensus pattern (47 bp):
CCAAATTTATGATTAGAAGTTTCTCTGTAATGAAAAGAATACAACAA
Found at i:122375407 original size:10 final size:11
Alignment explanation
Indices: 122375375--122375409 Score: 54
Period size: 12 Copynumber: 3.2 Consensus size: 11
122375365 ATTTGCAGAC
122375375 AATGAAAGGAA
1 AATGAAAGGAA
122375386 AATGACAAGGAA
1 AATGA-AAGGAA
122375398 AATG-AAGGAA
1 AATGAAAGGAA
122375408 AA
1 AA
122375410 CTTGTTGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 8 0.35
11 5 0.22
12 10 0.43
ACGTcount: A:0.63, C:0.03, G:0.26, T:0.09
Consensus pattern (11 bp):
AATGAAAGGAA
Found at i:122381428 original size:18 final size:18
Alignment explanation
Indices: 122381391--122381483 Score: 114
Period size: 18 Copynumber: 5.2 Consensus size: 18
122381381 CCCAACTACT
*
122381391 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
* * *
122381409 GTATTCGTAAATAGTGCC
1 GTATACGTGAATAGTACC
*
122381427 GTATACGTGAATAGTACT
1 GTATACGTGAATAGTACC
* * *
122381445 GTATATGTGAATAGTGCT
1 GTATACGTGAATAGTACC
122381463 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
122381481 GTA
1 GTA
122381484 AACGGTCGTA
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 62 1.00
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:122381443 original size:36 final size:36
Alignment explanation
Indices: 122381391--122381483 Score: 134
Period size: 36 Copynumber: 2.6 Consensus size: 36
122381381 CCCAACTACT
*
122381391 GTATACGTGAACAGTACCGTAT-TCGTAAATAGTGCC
1 GTATACGTGAATAGTACCGTATAT-GTAAATAGTGCC
* * *
122381427 GTATACGTGAATAGTACTGTATATGTGAATAGTGCT
1 GTATACGTGAATAGTACCGTATATGTAAATAGTGCC
122381463 GTATACGTGAATAGTACCGTA
1 GTATACGTGAATAGTACCGTA
122381484 AACGGTCGTA
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
36 50 0.98
37 1 0.02
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATATGTAAATAGTGCC
Found at i:122389331 original size:51 final size:53
Alignment explanation
Indices: 122389262--122389368 Score: 164
Period size: 54 Copynumber: 2.0 Consensus size: 53
122389252 TCGATGTCAG
*
122389262 AAACCAGCTTTCAAAACACC-AAAAAACACTT-AAATCAACAAGCATCGATTC
1 AAACCAGCTTCCAAAACACCAAAAAAACACTTAAAATCAACAAGCATCGATTC
* *
122389313 AAACCCGCTTCCAAAACACCAAAAAAATACTTAAAAATCAACAAGCATCGATTC
1 AAACCAGCTTCCAAAACACCAAAAAAACACTT-AAAATCAACAAGCATCGATTC
122389367 AA
1 AA
122389369 GGGCTCAAGA
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
51 18 0.36
52 10 0.20
54 22 0.44
ACGTcount: A:0.50, C:0.27, G:0.06, T:0.17
Consensus pattern (53 bp):
AAACCAGCTTCCAAAACACCAAAAAAACACTTAAAATCAACAAGCATCGATTC
Found at i:122393597 original size:21 final size:22
Alignment explanation
Indices: 122393573--122393613 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
122393563 AATAGTAAAA
122393573 AAATA-CAAAAGAAAAAAATAG
1 AAATAGCAAAAGAAAAAAATAG
*
122393594 AAATAGCAAAATAAAAAAAT
1 AAATAGCAAAAGAAAAAAAT
122393614 TAAAATAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.76, C:0.05, G:0.07, T:0.12
Consensus pattern (22 bp):
AAATAGCAAAAGAAAAAAATAG
Found at i:122393619 original size:22 final size:20
Alignment explanation
Indices: 122393572--122393620 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 20
122393562 TAATAGTAAA
122393572 AAAATACAAAAGAAAAAAAT
1 AAAATACAAAAGAAAAAAAT
*
122393592 AGAAATAGCAAAATAAAAAAATT
1 A-AAATA-CAAAAGAAAAAAA-T
122393615 AAAATA
1 AAAATA
122393621 ATAAAAGTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 1 0.04
21 5 0.20
22 17 0.68
23 2 0.08
ACGTcount: A:0.76, C:0.04, G:0.06, T:0.14
Consensus pattern (20 bp):
AAAATACAAAAGAAAAAAAT
Found at i:122393626 original size:22 final size:22
Alignment explanation
Indices: 122393573--122393627 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
122393563 AATAGTAAAA
122393573 AAAT-ACAAAAGAAAAAAATAG
1 AAATAACAAAAGAAAAAAATAG
* *
122393594 AAATAGCAAAATAAAAAAATTA-
1 AAATAACAAAAGAAAAAAA-TAG
*
122393616 AAATAATAAAAG
1 AAATAACAAAAG
122393628 TATATAAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
21 4 0.15
22 21 0.78
23 2 0.07
ACGTcount: A:0.75, C:0.04, G:0.07, T:0.15
Consensus pattern (22 bp):
AAATAACAAAAGAAAAAAATAG
Found at i:122393641 original size:43 final size:43
Alignment explanation
Indices: 122393615--122393709 Score: 149
Period size: 43 Copynumber: 2.3 Consensus size: 43
122393605 TAAAAAAATT
122393615 AAAATAATAAAAGTATATAAAAAAATAAAAATATATAGATAAA
1 AAAATAATAAAAGTATATAAAAAAATAAAAATATATAGATAAA
* *
122393658 AAAATAATAAAAGTATATAAAAAATTAAAAATATA-AG-TATA
1 AAAATAATAAAAGTATATAAAAAAATAAAAATATATAGATAAA
*
122393699 AGAATAATAAA
1 AAAATAATAAA
122393710 TTAATTAATT
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
41 13 0.27
42 2 0.04
43 34 0.69
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (43 bp):
AAAATAATAAAAGTATATAAAAAAATAAAAATATATAGATAAA
Found at i:122393759 original size:21 final size:19
Alignment explanation
Indices: 122393726--122393777 Score: 68
Period size: 21 Copynumber: 2.6 Consensus size: 19
122393716 AATTAATTAG
*
122393726 TAAAATAAAAATAAATAATA
1 TAAAAT-AAAATAAATAAAA
122393746 TAACAATTAAAATAAATAAAA
1 TAA-AA-TAAAATAAATAAAA
122393767 TAAAATAAAAT
1 TAAAATAAAAT
122393778 TGGGGTGATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 6 0.21
20 5 0.17
21 17 0.59
22 1 0.03
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (19 bp):
TAAAATAAAATAAATAAAA
Done.