Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold949
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: 126206
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Found at i:153 original size:55 final size:55
Alignment explanation
Indices: 9--194 Score: 207
Period size: 55 Copynumber: 3.3 Consensus size: 55
1 AAAAGGCG
* * *
9 GTCCTACTCTTTGAGGAATG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAGAAAAAGAC
1 GTCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAG-----GGC
* * * *
68 ATCCTGCTCTTTGAAGACT-AAAAGGTGCCACCAACTAGTGTGGGCTTTAAAGGGC
1 GTCCTACTCTTTGAGGACTGAAAA-GTGCCACCAACTTGTGTGGGCTTTAAAGGGC
* *
123 GTCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAA-GGC
1 GTCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGGC
178 GTCCTACTCTTTGAGGA
1 GTCCTACTCTTTGAGGA
195 GTAAAGGGCG
Statistics
Matches: 111, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
55 60 0.54
56 7 0.06
59 17 0.15
60 27 0.24
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (55 bp):
GTCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAGGGC
Found at i:482 original size:55 final size:54
Alignment explanation
Indices: 398--525 Score: 161
Period size: 55 Copynumber: 2.3 Consensus size: 54
388 AAAGATGTCT
* * *
398 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT-AAGGGGCATCC
1 TGCTCTTTGAGGACTAAAA-GTGCCACCAACTCGTATGGGCTTTGAA-AGACATCC
* *
453 TGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTATGGGCTTTGAAAGACGTCC
1 TGCTCTTTGAGGACT--AAAAGTGCCACCAACTCGTATGGGCTTTGAAAGACATCC
508 TGCTCTTTGAGGACTAAA
1 TGCTCTTTGAGGACTAAA
526 GGGCGAAAGG
Statistics
Matches: 65, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
53 3 0.05
55 56 0.86
56 2 0.03
57 4 0.06
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (54 bp):
TGCTCTTTGAGGACTAAAAGTGCCACCAACTCGTATGGGCTTTGAAAGACATCC
Found at i:502 original size:116 final size:114
Alignment explanation
Indices: 218--502 Score: 317
Period size: 116 Copynumber: 2.5 Consensus size: 114
208 GGAGAGAGCG
* * * * * *
218 TCCTGTTCTTTAAGGACTAGG-AAGTGCCACCAACTTGTATGGGCTTTAAAAGGAGAAGGCATCC
1 TCCTGCTCTTTGAGGACT-GGAAAATGCCACCAACTTGTATGGGCTTTAAAAGAAAAAGACATCC
* * *
282 TACTCTTTGAGGACTGGGAAATGCCACCAACTTGTGTGGGCTTTAAGGGCG
65 TACTCTTTGAGGACT-GAAAATGCCACCAACTCGTGTGGGCTTTAAGGGCA
* * * **
333 TCCTGCTCTTTGAGGACT--AAAAGGTGCCACCAAATCGTGTGGGCTTTAAAAAGAAAAAGATGT
1 TCCTGCTCTTTGAGGACTGGAAAA--TGCCACCAACTTGTATGGGCTTT-AAAAGAAAAAGACAT
* *
396 CTTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTCGTGTGGGCTTTAAGGGGCA
63 CCTACTCTTTGAGGACTGAAAA--TGCCACCAACTCGTGTGGGCTTTAA-GGGCA
*
450 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTATGGGCTTTGAAAGA
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTATGGGCTTTAAAAGA
503 CGTCCTGCTC
Statistics
Matches: 141, Mismatches: 20, Indels: 17
0.79 0.11 0.10
Matches are distributed among these distances:
113 2 0.01
114 3 0.02
115 36 0.26
116 54 0.38
117 42 0.30
119 4 0.03
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (114 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTATGGGCTTTAAAAGAAAAAGACATCCT
ACTCTTTGAGGACTGAAAATGCCACCAACTCGTGTGGGCTTTAAGGGCA
Found at i:535 original size:117 final size:110
Alignment explanation
Indices: 218--525 Score: 286
Period size: 117 Copynumber: 2.7 Consensus size: 110
208 GGAGAGAGCG
* * * * * *
218 TCCTGTTCTTTAAGGACTAGGAAGTGCCACCAACTTGTATGGGCTTTA-AAAGGAGAAGGCATCC
1 TCCTGCTCTTTGAGGACTA-AAAGTGCCACCAAATCGTATGGGCTTTAGAAA--AG-A--CGTCC
* * * *
282 TACTCTTTGAGGACTGGGAAA--TGCCACCAACTTGTGTGGGCTTTAAGGGCG
60 TGCTCTTTGAGGACT--AAAAGGTGCCACCAACTCGTGTGGGCTTTAAGGGCA
* * *
333 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAAATCGTGTGGGCTTTAAAAAGAAAAAGATGTCT
1 TCCTGCTCTTTGAGGACTAAAA-GTGCCACCAAATCGTATGGGCTTT----AG-AAAAGACGTCC
398 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAGGGGCA
60 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAA-GGGCA
* *
450 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTATGGGCTTT-G-AAAGACGTCCTGCT
1 TCCTGCTCTTTGAGGACT--AAAAGTGCCACCAAATCGTATGGGCTTTAGAAAAGACGTCCTGCT
512 CTTTGAGGACTAAA
64 CTTTGAGGACTAAA
526 GGGCGAAAGG
Statistics
Matches: 163, Mismatches: 18, Indels: 29
0.78 0.09 0.14
Matches are distributed among these distances:
110 26 0.16
112 1 0.01
114 5 0.03
115 38 0.23
116 40 0.25
117 42 0.26
118 1 0.01
119 7 0.04
121 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.27
Consensus pattern (110 bp):
TCCTGCTCTTTGAGGACTAAAAGTGCCACCAAATCGTATGGGCTTTAGAAAAGACGTCCTGCTCT
TTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAGGGCA
Found at i:691 original size:326 final size:322
Alignment explanation
Indices: 10--770 Score: 1068
Period size: 326 Copynumber: 2.3 Consensus size: 322
1 AAAAGGCGG
* * * *
10 TCCTACTCTTTGAGGAATGAAGGTGCCACCAACTTGTGTGGGCTTT--AAAGAAAAAGACATCCT
1 TCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGACGTCCT
* * *
73 GCTCTTTGAAGACTAAAAGGTGCCACCAACTAGTGTGGGCTTTAAAGGGCGTCCTGCTCTTTGAG
66 GCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAGGGCATCCTGCTCTTTGAG
* * *
138 GACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTACTCTTTGAGGAGTAAAGGG
131 GACTGAAAAATGCCACCAACTTGTATGGGCTTTGAAAGACGTCCTACTCTTTGAGGACTAAAGGG
*
203 CGAAAGGAGAGAGCGTCCTGTTCTTTAAGGACTAGGAAGTGCCACCAACTTGTATGGGCTTTAAA
196 CGAAAGGAGAGAGCGTCCTGCTCTTTAAGGACTAGGAAGTGCCACCAACTTGTATGGGCTTT-AA
* ** *
268 AGGAGAAGGCATCCTACTCTTTGAGGACTGGGAAATGCCACCAACTTGTGTGGGCTTTAAGGGCG
260 AGGAG-AGGCATCCTACTCTTTGAGGACT-GAAAATGCCACCAACTCATGTGGGCTTTAAGGGCA
* * * *
333 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAAATCGTGTGGGCTTTAAAAAGAAAAAGATGTCT
1 TCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGACGTCC
*
398 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAGGGGCATCCTGCTCTTTGA
65 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAGGGCATCCTGCTCTTTGA
* *
463 GGACTGGAAAATGCCACCAACTTGTATGGGCTTTGAAAGACGTCCTGCTCTTTGAGGACTAAAGG
130 GGACTGAAAAATGCCACCAACTTGTATGGGCTTTGAAAGACGTCCTACTCTTTGAGGACTAAAGG
* * *
528 GCGAAAGGGGAGAGCGTCCTGCTCTTTAAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTT-A
195 GCGAAAGGAGAGAGCGTCCTGCTCTTTAAGGACTAGGAAGTGCCACCAACTTGTATGGGCTTTAA
* *
592 A-G-G-GGCGTCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTCATGTGGGCTTTAAAAGGA
260 AGGAGAGGCATCCTACTCTTTGAGGACTGAAAA--TGCCACCAACTCATGTGGGCTTT--AAGG-
653 AAAAGCA
320 ----GCA
* * *
660 TCCTGCTCTTTGAGGACTAAAGGTACCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGACGTCCT
1 TCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGACGTCCT
* *
725 GCTCTTTAAGGACTAAAAGGTGCCACCAACTCATGTGGGCTTTAAA
66 GCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAA
771 AGAAAAAGGG
Statistics
Matches: 389, Mismatches: 37, Indels: 21
0.87 0.08 0.05
Matches are distributed among these distances:
318 3 0.01
320 41 0.11
322 5 0.01
323 17 0.04
324 27 0.07
326 276 0.71
327 20 0.05
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (322 bp):
TCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGACGTCCT
GCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAGGGCATCCTGCTCTTTGAG
GACTGAAAAATGCCACCAACTTGTATGGGCTTTGAAAGACGTCCTACTCTTTGAGGACTAAAGGG
CGAAAGGAGAGAGCGTCCTGCTCTTTAAGGACTAGGAAGTGCCACCAACTTGTATGGGCTTTAAA
GGAGAGGCATCCTACTCTTTGAGGACTGAAAATGCCACCAACTCATGTGGGCTTTAAGGGCA
Found at i:701 original size:60 final size:59
Alignment explanation
Indices: 596--985 Score: 455
Period size: 60 Copynumber: 6.4 Consensus size: 59
586 GCTTTAAGGG
596 GCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCATGTGGGCTTTAAAAGGAAAAA
1 GCGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTCATGTGGGCTTTAAAA-GAAAAA
* * ** *
657 GCATCCTGCTCTTTGAGGACTAAAGGTACCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCATGTGGGCTTTAAAA-GAAAAA
*
717 GACGTCCTGCTCTTTAAGGACTAAAAGGTGCCACCAACTCATGTGGGCTTTAAAAGAAAAA
1 G-CGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTCATGTGGGCTTTAAAAGAAAAA
* * *
778 GGGTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACT--TGTGTGGC-TTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTCATGTG-GGCTTTAAAA-GAAAAA
* *
837 GCGTCCTGCT-TTTGAGGACTAAAAGGGTGCCACCAACTCGTTTGGGCTTTGAAAAGAGAAAA
1 GCGTCCTGCTCTTTGAGGACT-AAA-GGTGCCACCAACTCATGTGGGCTTT-AAAAGA-AAAA
* * *
899 GTCGTCTTGCTTTTTGAGGACTAAAGGGTACCACCAACTCATGTGGGCTTTGAAAAGAAAAA
1 G-CGTCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTCATGTGGGCTTT-AAAAGAAAAA
* * *
961 GATGTCTTGTTCTTTGAGGACTAAA
1 G-CGTCCTGCTCTTTGAGGACTAAA
986 AGTCTAAAAG
Statistics
Matches: 288, Mismatches: 27, Indels: 27
0.84 0.08 0.08
Matches are distributed among these distances:
58 22 0.08
59 31 0.11
60 71 0.25
61 51 0.18
62 62 0.22
63 41 0.14
64 10 0.03
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.25
Consensus pattern (59 bp):
GCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCATGTGGGCTTTAAAAGAAAAA
Found at i:742 original size:122 final size:120
Alignment explanation
Indices: 540--987 Score: 556
Period size: 122 Copynumber: 3.7 Consensus size: 120
530 GAAAGGGGAG
* * *
540 AGCGTCCTGCTCTTTAAGGACTGGGAA-GTGCCACCAACTTGTGTGGGCTTT--AAGG----GGC
1 AGCGTCCTGCTCTTTGAGGACT--AAAGGTACCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
598 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCATGTGGGCTTTAAAAGGAAAA
64 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCATGTGGGCTTTAAAA-GAAAA
*
656 AGCATCCTGCTCTTTGAGGACTAAAGGTACCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGACG
1 AGCGTCCTGCTCTTTGAGGACTAAAGGTACCACCAACTTGTGTGGGCTTTAAAAGGAAAAGG-CG
*
721 TCCTGCTCTTTAAGGACTAAAAGGTGCCACCAACTCATGTGGGCTTTAAAAGAAAA
65 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCATGTGGGCTTTAAAAGAAAA
* * *
777 AGGGTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGT-GGC-TTAAAAGGAAAAGGCG
1 AGCGTCCTGCTCTTTGAGGACTA-AAGGTACCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
* *
840 TCCTGCT-TTTGAGGACTAAAAGGGTGCCACCAACTCGTTTGGGCTTTGAAAAGAGAAA
65 TCCTGCTCTTTGAGGACTAAAA-GGTGCCACCAACTCATGTGGGCTTT-AAAAGA-AAA
* * ** * *
898 AGTCGTCTTGCTTTTTGAGGACTAAAGGGTACCACCAACTCATGTGGGCTTTGAAAAGAAAAAGA
1 AG-CGTCCTGCTCTTTGAGGACTAAA-GGTACCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGG
* * *
963 TGTCTTGTTCTTTGAGGACTAAAAG
63 CGTCCTGCTCTTTGAGGACTAAAAG
988 TCTAAAAGGG
Statistics
Matches: 290, Mismatches: 24, Indels: 27
0.85 0.07 0.08
Matches are distributed among these distances:
114 2 0.01
115 23 0.08
116 20 0.07
117 4 0.01
118 13 0.04
119 32 0.11
120 20 0.07
121 37 0.13
122 103 0.36
123 3 0.01
124 2 0.01
125 17 0.06
126 14 0.05
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.25
Consensus pattern (120 bp):
AGCGTCCTGCTCTTTGAGGACTAAAGGTACCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGT
CCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCATGTGGGCTTTAAAAGAAAA
Found at i:921 original size:182 final size:182
Alignment explanation
Indices: 598--987 Score: 529
Period size: 182 Copynumber: 2.1 Consensus size: 182
588 TTTAAGGGGC
*
598 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCATGTGGGCTTTAAAAGGAAAAAGCATCC
1 GTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACT-ATGTGGGCTTTAAAAGGAAAAAGCATCC
*
663 TGCTCTTTGAGGACTAAAGGTACCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGACGTCCTGCT
65 TGCTCTTTGAGGACTAAAGGTACCACCAACTCGTGTGGGCTTTAAAAGGAAAAGGACGTCCTGCT
*
728 CTTTAAGGACTAAAAGGTGCCACCAACTCATGTGGGCTTT-AAAAGAAAAAGG
130 CTTTAAGGACTAAAAGGTACCACCAACTCATGTGGGCTTTGAAAAGAAAAAGG
* * *
780 GTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACT-TGTGTGGC-TTAAAAGGAAAAGGCGTCC
1 GTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTATGTG-GGCTTTAAAAGGAAAAAGCATCC
* * * *
843 TGCT-TTTGAGGACTAAAAGGGTGCCACCAACTCGTTTGGGCTTTGAAAAGAGAAAA-GTCGTCT
65 TGCTCTTTGAGGACT-AAA-GGTACCACCAACTCGTGTGGGCTTT-AAAAG-GAAAAGGACGTCC
* * * *
906 TGCTTTTTGAGGACTAAAGGGTACCACCAACTCATGTGGGCTTTGAAAAGAAAAAGAT
126 TGCTCTTTAAGGACTAAAAGGTACCACCAACTCATGTGGGCTTTGAAAAGAAAAAG-G
* **
964 GTCTTGTTCTTTGAGGACTAAAAG
1 GTCCTACTCTTTGAGGACTAAAAG
988 TCTAAAAGGG
Statistics
Matches: 183, Mismatches: 18, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
179 10 0.05
180 28 0.15
181 25 0.14
182 84 0.46
183 16 0.09
184 20 0.11
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (182 bp):
GTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTATGTGGGCTTTAAAAGGAAAAAGCATCCT
GCTCTTTGAGGACTAAAGGTACCACCAACTCGTGTGGGCTTTAAAAGGAAAAGGACGTCCTGCTC
TTTAAGGACTAAAAGGTACCACCAACTCATGTGGGCTTTGAAAAGAAAAAGG
Found at i:7164 original size:28 final size:28
Alignment explanation
Indices: 7146--7201 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
7136 TATCCCTTCA
7146 GAAATAACGGGGCTGGAGTATCCCCGAT
1 GAAATAACGGGGCTGGAGTATCCCCGAT
* *
7174 GAAATAACGGGGTTGGAGTATCCTCGAT
1 GAAATAACGGGGCTGGAGTATCCCCGAT
7202 TGTGAAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.29, C:0.18, G:0.32, T:0.21
Consensus pattern (28 bp):
GAAATAACGGGGCTGGAGTATCCCCGAT
Found at i:7253 original size:51 final size:51
Alignment explanation
Indices: 7184--7298 Score: 144
Period size: 51 Copynumber: 2.3 Consensus size: 51
7174 GAAATAACGG
* * *
7184 GGTTGGAGTATCCTCGATTGTGAAAAATTAATGTTATGGAAATAAAATCG-
1 GGTTAGAGTATCCTCGATTATGAAAAATTAATGTTATAGAAATAAAATCGT
* *
7234 GAGTTAGAGTAT-CTCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGT
1 G-GTTAGAGTATCCT-CGATTATGAAAAATTAATGTTATAGAAATAAAATCGT
*
7286 GGTTGGAGTATCC
1 GGTTAGAGTATCC
7299 CCTTGGAAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
50 3 0.05
51 50 0.91
52 2 0.04
ACGTcount: A:0.35, C:0.09, G:0.23, T:0.33
Consensus pattern (51 bp):
GGTTAGAGTATCCTCGATTATGAAAAATTAATGTTATAGAAATAAAATCGT
Found at i:7392 original size:130 final size:130
Alignment explanation
Indices: 7153--7433 Score: 377
Period size: 130 Copynumber: 2.2 Consensus size: 130
7143 TCAGAAATAA
* * * * *
7153 CGGGGCTGGAGTATCCCCGATGAAATAACGGGGTTGGAGTATCCTCGATTGTGAAAAATTAATGT
1 CGGGGTTGGAGTATCCCCGATGAAATAACAGGGTTAGAGTATCCTCGATGGTGAAAAATCAATGT
* * *
7218 TATGGAAATAAAATCGGAGTTAGAGTATCTCCGATTATGAAAAATTGATGTTTTAGAAATAAAAT
66 TATGAAAATAAAATCAGAGTTAGAGTATCTCCGATTATGAAAAATTGATGTTTTAGAAATAAAAC
* * * *
7283 CGTGGTTGGAGTATCCCC-TTGGAAATAACAGGGTTAGAGTATCCTCGATGGTGGAAAATCGATG
1 CGGGGTTGGAGTATCCCCGAT-GAAATAACAGGGTTAGAGTATCCTCGATGGTGAAAAATCAATG
* * * * *
7347 TTTTGAAAATAAAATTAGAGTTAGAGTTTC-CTCGATTGTGGAAAATTGATGTTTTAGAAATAAA
65 TTATGAAAATAAAATCAGAGTTAGAGTATCTC-CGATTATGAAAAATTGATGTTTTAGAAATAAA
7411 AC
129 AC
7413 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
7434 TGTGGAAAAT
Statistics
Matches: 129, Mismatches: 19, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
129 2 0.02
130 126 0.98
131 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.30
Consensus pattern (130 bp):
CGGGGTTGGAGTATCCCCGATGAAATAACAGGGTTAGAGTATCCTCGATGGTGAAAAATCAATGT
TATGAAAATAAAATCAGAGTTAGAGTATCTCCGATTATGAAAAATTGATGTTTTAGAAATAAAAC
Found at i:7445 original size:181 final size:181
Alignment explanation
Indices: 7189--7542 Score: 521
Period size: 181 Copynumber: 2.0 Consensus size: 181
7179 AACGGGGTTG
* * *
7189 GAGTATCCTCGATTGTGAAAAATTAATGTTATGGAAATAAAATCGGAGTTAGAGTATCTCCGATT
1 GAGTATCCTCGATTGTGAAAAATTAATGTTATAGAAATAAAACCGGAGTTAGAGTATCCCCGATT
*
7254 ATGAAAAATTGATGTTTTAGAAATAAAATCGTGGTTGGAGTATCCCCTTGGAAATAACAGGGTTA
66 ATGAAAAATTGATGTTTTAGAAATAAAATCGAGGTTGGAGTATCCCCTTGGAAATAACAGGGTTA
* * *
7319 GAGTATCCTCGATGGTGGAAAA-TCGATGTTTTGAAAATAAAATTAGAGTTA
131 GAGTATCCTCGATGATGAAAAATTAGA-GTTTTGAAAATAAAATTAGAGTTA
* * * * * *
7370 GAGTTTCCTCGATTGTGGAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCGATT
1 GAGTATCCTCGATTGTGAAAAATTAATGTTATAGAAATAAAACCGGAGTTAGAGTATCCCCGATT
* * * *
7435 GTGGAAAATTGATGTTTTAGAAATAAAATCGAGGTTGGAGTATCCCCTTGGAAATAACGGGGTTG
66 ATGAAAAATTGATGTTTTAGAAATAAAATCGAGGTTGGAGTATCCCCTTGGAAATAACAGGGTTA
* *
7500 GAGTATCCTTGATTATGAAAAATTAGAGTTTTGAAAATAAAAT
131 GAGTATCCTCGATGATGAAAAATTAGAGTTTTGAAAATAAAAT
7543 CAGGGTTGAA
Statistics
Matches: 153, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
181 150 0.98
182 3 0.02
ACGTcount: A:0.35, C:0.10, G:0.24, T:0.32
Consensus pattern (181 bp):
GAGTATCCTCGATTGTGAAAAATTAATGTTATAGAAATAAAACCGGAGTTAGAGTATCCCCGATT
ATGAAAAATTGATGTTTTAGAAATAAAATCGAGGTTGGAGTATCCCCTTGGAAATAACAGGGTTA
GAGTATCCTCGATGATGAAAAATTAGAGTTTTGAAAATAAAATTAGAGTTA
Found at i:7480 original size:51 final size:51
Alignment explanation
Indices: 7314--7481 Score: 214
Period size: 51 Copynumber: 3.3 Consensus size: 51
7304 GAAATAACAG
* * * *
7314 GGTTAGAGTATCCTCGATGGTGGAAAATCGATGTTTT-GAAAATAAAAT-TA
1 GGTTAGAGTATCCCCGATTGTGGAAAATTGATGTTTTAG-AAATAAAATCGA
* * * *
7364 GAGTTAGAGTTTCCTCGATTGTGGAAAATTGATGTTTTAGAAATAAAACCGG
1 G-GTTAGAGTATCCCCGATTGTGGAAAATTGATGTTTTAGAAATAAAATCGA
*
7416 GGTTGGAGTATCCCCGATTGTGGAAAATTGATGTTTTAGAAATAAAATCGA
1 GGTTAGAGTATCCCCGATTGTGGAAAATTGATGTTTTAGAAATAAAATCGA
*
7467 GGTTGGAGTATCCCC
1 GGTTAGAGTATCCCC
7482 TTGGAAATAA
Statistics
Matches: 104, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
50 1 0.01
51 101 0.97
52 2 0.02
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.32
Consensus pattern (51 bp):
GGTTAGAGTATCCCCGATTGTGGAAAATTGATGTTTTAGAAATAAAATCGA
Found at i:7504 original size:79 final size:80
Alignment explanation
Indices: 7413--7778 Score: 433
Period size: 79 Copynumber: 4.6 Consensus size: 80
7403 GAAATAAAAC
* *
7413 CGGGGTTGGAGTATCCCCGATTGTGGAAAATTGATGTTTT-AGAAATAAAATCGA-GGTTGGAGT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGA-AAATAAAATCGAGGGTTGGAGT
*
7476 ATCCCCTTGGAAATAA
65 ATCCCCTCGGAAATAA
** * * * *
7492 CGGGGTTGGAGTATCCTTGATTATGAAAAATTAGAGTTTTGAAAATAAAATC-AGGGTTGAAGTA
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAAATAAAATCGAGGGTTGGAGTA
7556 TCCCCTCGGAAATAA
66 TCCCCTCGGAAATAA
* * *
7571 -TGGGTTGGAGTATCCCCGATTGTAAAAAATTGGTGTTTTTG-AAATAAAA-CCAGGGTTGGAGT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTG-TTTTGAAAATAAAATCGAGGGTTGGAGT
* * *
7633 ATTCCCTTGAAAATAA
65 ATCCCCTCGGAAATAA
* * * * *
7649 CGGGATTGGAGTATCCCTGATTATGAAAAATTGGTGTTTTGAAAATAAAACCG-GAGTTGGAGTA
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAAATAAAATCGAGGGTTGGAGTA
*
7713 TCCCCTCAGAAATAA
66 TCCCCTCGGAAATAA
* *
7728 CGGGGTT-GAGGTATCCTCGATTGTAAAAAATTGGTGTTTTGGAAAATAAAA
1 CGGGGTTGGA-GTATCCCCGATTGTGAAAAATTGGTGTTTT-GAAAATAAAA
7779 ACATGAATGA
Statistics
Matches: 242, Mismatches: 36, Indels: 17
0.82 0.12 0.06
Matches are distributed among these distances:
77 1 0.00
78 67 0.28
79 162 0.67
80 12 0.05
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (80 bp):
CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAAATAAAATCGAGGGTTGGAGTA
TCCCCTCGGAAATAA
Found at i:7608 original size:157 final size:158
Alignment explanation
Indices: 7413--7778 Score: 515
Period size: 157 Copynumber: 2.3 Consensus size: 158
7403 GAAATAAAAC
** * *
7413 CGGGGTTGGAGTATCCCCGATTGTGGAAAATTGATGTTTTAGAAATAAAATC-GAGGTTGGAGTA
1 CGGGGTTGGAGTATCCCCGATTGTAAAAAATTGGTGTTTTAGAAATAAAACCAG-GGTTGGAGTA
* * *
7477 TCCCCTTGGAAATAACGGGGTTGGAGTATCCTTGATTATGAAAAATTAGAGTTTTGAAAATAAAA
65 TCCCCTTGAAAATAACGGGATTGGAGTATCCCTGATTATGAAAAATTAGAGTTTTGAAAATAAAA
*
7542 TCAGG-GTTGAAGTATCCCCTCGGAAATAA
130 -CAGGAGTTGAAGTATCCCCTCAGAAATAA
* *
7571 -TGGGTTGGAGTATCCCCGATTGTAAAAAATTGGTGTTTTTGAAATAAAACCAGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTAAAAAATTGGTGTTTTAGAAATAAAACCAGGGTTGGAGTAT
* * *
7635 TCCCTTGAAAATAACGGGATTGGAGTATCCCTGATTATGAAAAATTGGTGTTTTGAAAATAAAAC
66 CCCCTTGAAAATAACGGGATTGGAGTATCCCTGATTATGAAAAATTAGAGTTTTGAAAATAAAAC
* *
7700 CGGAGTTGGAGTATCCCCTCAGAAATAA
131 AGGAGTTGAAGTATCCCCTCAGAAATAA
* *
7728 CGGGGTT-GAGGTATCCTCGATTGTAAAAAATTGGTGTTTTGGAAAATAAAA
1 CGGGGTTGGA-GTATCCCCGATTGTAAAAAATTGGTGTTTTAG-AAATAAAA
7779 ACATGAATGA
Statistics
Matches: 185, Mismatches: 18, Indels: 9
0.87 0.08 0.04
Matches are distributed among these distances:
156 3 0.02
157 138 0.75
158 36 0.19
159 8 0.04
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (158 bp):
CGGGGTTGGAGTATCCCCGATTGTAAAAAATTGGTGTTTTAGAAATAAAACCAGGGTTGGAGTAT
CCCCTTGAAAATAACGGGATTGGAGTATCCCTGATTATGAAAAATTAGAGTTTTGAAAATAAAAC
AGGAGTTGAAGTATCCCCTCAGAAATAA
Found at i:10141 original size:20 final size:19
Alignment explanation
Indices: 10116--10211 Score: 122
Period size: 20 Copynumber: 4.8 Consensus size: 19
10106 AAAATGCCTG
10116 AATGTATCGATACATTGCAA-
1 AATGTATCGATACATT--AAC
10136 AATGTATCGATACAATTAAC
1 AATGTATCGATAC-ATTAAC
*
10156 AATGTATCGATACAATCAAC
1 AATGTATCGATAC-ATTAAC
*
10176 AATGTATCGATACAATGAAC
1 AATGTATCGATAC-ATTAAC
10196 AATGTATCGATACATT
1 AATGTATCGATACATT
10212 TGGGTAAAAC
Statistics
Matches: 71, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
19 4 0.06
20 64 0.90
21 3 0.04
ACGTcount: A:0.43, C:0.16, G:0.12, T:0.29
Consensus pattern (19 bp):
AATGTATCGATACATTAAC
Found at i:10161 original size:40 final size:40
Alignment explanation
Indices: 10116--10211 Score: 158
Period size: 40 Copynumber: 2.4 Consensus size: 40
10106 AAAATGCCTG
*
10116 AATGTATCGATACATTGCAA-AATGTATCGATACAATTAAC
1 AATGTATCGATACATT-CAACAATGTATCGATACAATGAAC
*
10156 AATGTATCGATACAATCAACAATGTATCGATACAATGAAC
1 AATGTATCGATACATTCAACAATGTATCGATACAATGAAC
10196 AATGTATCGATACATT
1 AATGTATCGATACATT
10212 TGGGTAAAAC
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
39 3 0.06
40 49 0.94
ACGTcount: A:0.43, C:0.16, G:0.12, T:0.29
Consensus pattern (40 bp):
AATGTATCGATACATTCAACAATGTATCGATACAATGAAC
Found at i:15898 original size:13 final size:13
Alignment explanation
Indices: 15880--15905 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15870 CAATTTTTTG
15880 TGTATCGATACAT
1 TGTATCGATACAT
15893 TGTATCGATACAT
1 TGTATCGATACAT
15906 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:20578 original size:15 final size:15
Alignment explanation
Indices: 20558--20589 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
20548 ATTTCGTTTG
*
20558 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
20573 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
20588 GA
1 GA
20590 ACACTTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.22, G:0.16, T:0.47
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:24701 original size:13 final size:13
Alignment explanation
Indices: 24683--24708 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24673 CAATTTTTTG
24683 TGTATCGATACAT
1 TGTATCGATACAT
24696 TGTATCGATACAT
1 TGTATCGATACAT
24709 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:30388 original size:24 final size:22
Alignment explanation
Indices: 30353--30396 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 22
30343 CCAATAGGGA
30353 AGTCAAGTCAATACTCGAAAAGGT
1 AGTCAAGTCAAT-C-CGAAAAGGT
30377 AGTCAA-TCCAATCCGAAAAG
1 AGTCAAGT-CAATCCGAAAAG
30397 ATTGGAGTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 7 0.37
23 2 0.11
24 10 0.53
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.18
Consensus pattern (22 bp):
AGTCAAGTCAATCCGAAAAGGT
Found at i:32427 original size:3 final size:3
Alignment explanation
Indices: 32419--32465 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
32409 ATATTTTATC
32419 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
32466 TGCATGTGTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:33232 original size:15 final size:14
Alignment explanation
Indices: 33212--33288 Score: 61
Period size: 15 Copynumber: 5.4 Consensus size: 14
33202 TTTGCTTTGA
33212 AAAAAAATGAAAACT
1 AAAAAAATGAAAA-T
*
33227 -AAAAAATAAAAAATT
1 AAAAAAAT-GAAAA-T
* *
33242 AAAAAAAAGAAAAG
1 AAAAAAATGAAAAT
33256 AAAAAAATTTGAAAAT
1 AAAAAAA--TGAAAAT
33272 -AAAAAATGAAAA-
1 AAAAAAATGAAAAT
33284 AAAAA
1 AAAAA
33289 TTATTTAAAC
Statistics
Matches: 50, Mismatches: 7, Indels: 12
0.72 0.10 0.17
Matches are distributed among these distances:
13 10 0.20
14 14 0.28
15 15 0.30
16 11 0.22
ACGTcount: A:0.79, C:0.01, G:0.06, T:0.13
Consensus pattern (14 bp):
AAAAAAATGAAAAT
Found at i:35704 original size:75 final size:74
Alignment explanation
Indices: 35575--35758 Score: 201
Period size: 75 Copynumber: 2.4 Consensus size: 74
35565 GTGGCATTGG
* ** *
35575 TTAGAACAAAAATCATTATCTTCAACTAGTGGCATAGTTTGAAACAAGAACCATTA-TTCTTAAT
1 TTAGAACAAAAATCACTAT-TTTTACTAGTGGCATAGTTTGAAACAAAAACCATTAGTT-TTAAT
**
35639 TGATGGCACAAC
64 TGATAACAC-AC
* *
35651 TTAGAACAAAAATCACTATTTTTACCAGTGGCATGGTTT-AGAACAAAAACCATTAGTTTTAATT
1 TTAGAACAAAAATCACTATTTTTACTAGTGGCATAGTTTGA-AACAAAAACCATTAGTTTTAATT
* * *
35715 GGTAATACAG
65 GATAACACAC
*
35725 TTAAGAAAAAAAATCACTATTTTTACTAGTGGCA
1 TT-AGAACAAAAATCACTATTTTTACTAGTGGCA
35759 CTCTTCAAAA
Statistics
Matches: 92, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
74 4 0.04
75 68 0.74
76 20 0.22
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.32
Consensus pattern (74 bp):
TTAGAACAAAAATCACTATTTTTACTAGTGGCATAGTTTGAAACAAAAACCATTAGTTTTAATTG
ATAACACAC
Found at i:41014 original size:17 final size:17
Alignment explanation
Indices: 40992--41027 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
40982 ATTCAATGAA
40992 CATATTACTTTCAAAAT
1 CATATTACTTTCAAAAT
*
41009 CATATTATTTTCAAAAT
1 CATATTACTTTCAAAAT
41026 CA
1 CA
41028 AGTTTAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.42
Consensus pattern (17 bp):
CATATTACTTTCAAAAT
Found at i:41183 original size:38 final size:37
Alignment explanation
Indices: 41130--41219 Score: 108
Period size: 37 Copynumber: 2.4 Consensus size: 37
41120 GTAGGTCGAG
* *
41130 ACAAAAATTATTATTCTCAACTGGTAGCACAGTTCAAA
1 ACAAAAATCACTATTCTCAACT-GTAGCACAGTTCAAA
* * **
41168 ACAAAAATCACTATTCTTAACTGTGGCACAGTTCGGA
1 ACAAAAATCACTATTCTCAACTGTAGCACAGTTCAAA
*
41205 ATAAAAATCACTATT
1 ACAAAAATCACTATT
41220 TGTAATCGGT
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
37 26 0.58
38 19 0.42
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.29
Consensus pattern (37 bp):
ACAAAAATCACTATTCTCAACTGTAGCACAGTTCAAA
Found at i:41249 original size:38 final size:37
Alignment explanation
Indices: 41125--41250 Score: 128
Period size: 38 Copynumber: 3.4 Consensus size: 37
41115 GTTTCGTAGG
* * * * *
41125 TCGAGACAAAAATTATTATTCTCAACTGGTAGCACAGT
1 TCGAAACAAAAATCACTATTCTTAAC-GGTGGCACAGT
* *
41163 TCAAAACAAAAATCACTATTCTTAACTGTGGCACAGT
1 TCGAAACAAAAATCACTATTCTTAACGGTGGCACAGT
* *
41200 TCGGAATAAAAATCACTATT-TGTAATCGGTGGCACAGT
1 TCGAAACAAAAATCACTATTCT-TAA-CGGTGGCACAGT
*
41238 GCGAAACAAAAAT
1 TCGAAACAAAAAT
41251 TATTGTTCTT
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
36 1 0.01
37 29 0.40
38 42 0.58
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.26
Consensus pattern (37 bp):
TCGAAACAAAAATCACTATTCTTAACGGTGGCACAGT
Found at i:45844 original size:21 final size:21
Alignment explanation
Indices: 45810--45850 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
45800 GTACAGTTGA
*
45810 TTTATATGCACATATAGTTTG
1 TTTATATGCACATAAAGTTTG
**
45831 TTTATATGTGCATAAAGTTT
1 TTTATATGCACATAAAGTTT
45851 TGACATATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.29, C:0.07, G:0.15, T:0.49
Consensus pattern (21 bp):
TTTATATGCACATAAAGTTTG
Found at i:45960 original size:66 final size:66
Alignment explanation
Indices: 45878--46005 Score: 186
Period size: 66 Copynumber: 1.9 Consensus size: 66
45868 GAATTCAGCC
*
45878 AGCATTTGTCATTATAAAATTGAAATAAGTTAATAAAGCTCAT-AAAAAATAATATGGTTTGTGA
1 AGCATTTGTCATTATAAAATTGAAATAAGTTAATAAAGCTC-TCAAAAAATAATATAGTTTGTGA
45942 GA
65 GA
* ** * *
45944 AGCATTTGTTATTATAAAATTGAAATGGGTTAATGAAGCTCTCAAGAAATAATATAGTTTGT
1 AGCATTTGTCATTATAAAATTGAAATAAGTTAATAAAGCTCTCAAAAAATAATATAGTTTGT
46006 AAGGTTGACG
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
65 1 0.02
66 54 0.98
ACGTcount: A:0.42, C:0.06, G:0.16, T:0.35
Consensus pattern (66 bp):
AGCATTTGTCATTATAAAATTGAAATAAGTTAATAAAGCTCTCAAAAAATAATATAGTTTGTGAG
A
Found at i:47015 original size:19 final size:20
Alignment explanation
Indices: 46991--47040 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
46981 TATGCTTTGT
**
46991 ATCGATACATGTTC-ATTGC
1 ATCGATACATGGACAATTGC
*
47010 ATCGATACATGGACAATTGT
1 ATCGATACATGGACAATTGC
47030 ATCGATACATG
1 ATCGATACATG
47041 AAACTAGCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 12 0.44
20 15 0.56
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (20 bp):
ATCGATACATGGACAATTGC
Found at i:47033 original size:20 final size:19
Alignment explanation
Indices: 46987--47040 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
46977 ACTTTATGCT
**
46987 TTGTATCGATACATGTTCA
1 TTGTATCGATACATGGACA
*
47006 TTGCATCGATACATGGACAA
1 TTGTATCGATACATGGAC-A
47026 TTGTATCGATACATG
1 TTGTATCGATACATG
47041 AAACTAGCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.35
Consensus pattern (19 bp):
TTGTATCGATACATGGACA
Found at i:47118 original size:20 final size:20
Alignment explanation
Indices: 47095--47135 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
47085 CACATTGTAT
47095 TGATACAATT-TATCGATACA
1 TGAT-CAATTGTATCGATACA
*
47115 TGATGAATTGTATCGATACA
1 TGATCAATTGTATCGATACA
47135 T
1 T
47136 TGCTTCTAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (20 bp):
TGATCAATTGTATCGATACA
Found at i:48385 original size:13 final size:13
Alignment explanation
Indices: 48367--48392 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
48357 CAATTTTTTG
48367 TGTATCGATACAT
1 TGTATCGATACAT
48380 TGTATCGATACAT
1 TGTATCGATACAT
48393 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:48477 original size:20 final size:20
Alignment explanation
Indices: 48452--48524 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
48442 CAACTTTTTT
48452 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
48472 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
48493 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
48513 ATGTATCGATAC
1 ATGTATCGATAC
48525 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:48490 original size:41 final size:41
Alignment explanation
Indices: 48431--48524 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
48421 CTACCAAGAA
*
48431 ATGTATCGATACAACTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
*
48472 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
48513 ATGTATCGATAC
1 ATGTATCGATAC
48525 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
Found at i:48506 original size:21 final size:21
Alignment explanation
Indices: 48431--48506 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
48421 CTACCAAGAA
* *
48431 ATGTATCGATACAACTTTTTT
1 ATGTATCGATACATCTTTTTC
****
48452 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
48472 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
48493 ATGTATCGATACAT
1 ATGTATCGATACAT
48507 TGCAACATGT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:50989 original size:13 final size:13
Alignment explanation
Indices: 50971--51009 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
50961 ATAATCACCC
*
50971 TGTATCGATACAG
1 TGTATCGATACAA
50984 TGTATCGATACAA
1 TGTATCGATACAA
50997 TGTATCGATACAA
1 TGTATCGATACAA
51010 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:51020 original size:20 final size:20
Alignment explanation
Indices: 50995--51073 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
50985 GTATCGATAC
50995 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
51015 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
*
51040 GATGTATCGATACACAA-AAA
1 AATGTATCGATACA-AAGAAA
*
51060 CATGTATCGATACA
1 AATGTATCGATACA
51074 TTTTGGACAT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
20 32 0.65
25 16 0.33
26 1 0.02
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:57186 original size:13 final size:13
Alignment explanation
Indices: 57168--57193 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
57158 CAATTTTTTG
57168 TGTATCGATACAT
1 TGTATCGATACAT
57181 TGTATCGATACAT
1 TGTATCGATACAT
57194 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:57278 original size:20 final size:20
Alignment explanation
Indices: 57253--57325 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
57243 CAACTTTTTT
57253 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
57273 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
57294 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
57314 ATGTATCGATAC
1 ATGTATCGATAC
57326 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:57291 original size:41 final size:41
Alignment explanation
Indices: 57232--57325 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
57222 CTGCCAAGAA
*
57232 ATGTATCGATACAACTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
*
57273 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
57314 ATGTATCGATAC
1 ATGTATCGATAC
57326 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
Found at i:57307 original size:21 final size:21
Alignment explanation
Indices: 57232--57307 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
57222 CTGCCAAGAA
* *
57232 ATGTATCGATACAACTTTTTT
1 ATGTATCGATACATCTTTTTC
****
57253 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
57273 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
57294 ATGTATCGATACAT
1 ATGTATCGATACAT
57308 TGCAACATGT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:58737 original size:3 final size:3
Alignment explanation
Indices: 58724--58760 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
58714 TCAACCATCA
* *
58724 ATG ACG ATG ATG ATG ATA ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
58761 CTTGGATGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.38, C:0.03, G:0.30, T:0.30
Consensus pattern (3 bp):
ATG
Found at i:63450 original size:20 final size:20
Alignment explanation
Indices: 63412--63451 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
63402 TTACAAATTT
63412 CTTCATTTTCACTTCAAAATA
1 CTTCATTTTCAC-TCAAAATA
63433 CTTCATTTTTCA-TCAAAAT
1 CTTCA-TTTTCACTCAAAAT
63452 TATCAACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 5 0.28
22 6 0.33
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.45
Consensus pattern (20 bp):
CTTCATTTTCACTCAAAATA
Found at i:65820 original size:13 final size:13
Alignment explanation
Indices: 65802--65828 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
65792 ACATTATGCT
65802 TTGTATCGATACA
1 TTGTATCGATACA
65815 TTGTATCGATACA
1 TTGTATCGATACA
65828 T
1 T
65829 GTTCATGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:65859 original size:20 final size:20
Alignment explanation
Indices: 65814--65887 Score: 107
Period size: 20 Copynumber: 3.8 Consensus size: 20
65804 GTATCGATAC
**
65814 ATTGTATCGATACATGTTC-
1 ATTGTATCGATACATGGACA
65833 A-TGTATCGATACATGGACA
1 ATTGTATCGATACATGGACA
65852 ATTGTATCGATACATGGACA
1 ATTGTATCGATACATGGACA
*
65872 ATTATATCGATACATG
1 ATTGTATCGATACATG
65888 AAACTAGCAG
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
18 15 0.30
19 2 0.04
20 33 0.66
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.34
Consensus pattern (20 bp):
ATTGTATCGATACATGGACA
Found at i:65955 original size:13 final size:13
Alignment explanation
Indices: 65937--65961 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65927 CATGGCACAT
65937 TGTATCGATACAA
1 TGTATCGATACAA
65950 TGTATCGATACA
1 TGTATCGATACA
65962 TGATGAATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:65961 original size:33 final size:32
Alignment explanation
Indices: 65919--65981 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 32
65909 CCACTGTTTA
65919 TATCGATACATG-GCACATTGTATCGATACAATG
1 TATCGATACATGAG-A-ATTGTATCGATACAATG
65952 TATCGATACATGATGAATTGTATCGATACA
1 TATCGATACATGA-GAATTGTATCGATACA
65982 TTGCTTGTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 26 0.93
34 1 0.04
35 1 0.04
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32
Consensus pattern (32 bp):
TATCGATACATGAGAATTGTATCGATACAATG
Found at i:68330 original size:87 final size:87
Alignment explanation
Indices: 67940--68337 Score: 385
Period size: 87 Copynumber: 4.6 Consensus size: 87
67930 GTTTTTGAAA
* * * * * * **
67940 AACGAGATTAGAA-TATCCCTTCGAAGGAGTAGGGACGGAGTTT-TCCCAAGGATAAAATTATAT
1 AACGAGGTTA-AAGTATCCCCTCAAAGGAGTGGGGATGGAGTTTCTCCAAAGG-TAAAATTCCAT
* *
68003 GAAAGAAAATTTGAATTTTTATTAG
64 G-AAGTAAATTTGAATTTTTGTTAG
* * * * *
68028 AGCGAGGTTAAAGTA-CCCCTCAGAA-TAGTGGGGATGGAGTTTCCCCAAAGATAAAATTTCATG
1 AACGAGGTTAAAGTATCCCCTCA-AAGGAGTGGGGATGGAGTTTCTCCAAAGGTAAAATTCCATG
* * * *
68091 TAGGAAGATTTAAATTTTTGTTAA
65 AAGTAA-ATTTGAATTTTTGTTAG
* * *
68115 AACG-GGTTAAAGTGTCCTCTCAAAGGAGTGGGGATGGAGTTTCCCCAAAGGTAAAATTCCATGA
1 AACGAGGTTAAAGTATCCCCTCAAAGGAGTGGGGATGGAGTTTCTCCAAAGGTAAAATTCCATGA
68179 AGTAAATTTGAATTTTTGTTAG
66 AGTAAATTTGAATTTTTGTTAG
* * * * * **
68201 AACAAGATTGAAGTGTCCCCTCAAAGGAATGGGGATACAGTTTCTCCAAAGGTAAAATTCCATGA
1 AACGAGGTTAAAGTATCCCCTCAAAGGAGTGGGGATGGAGTTTCTCCAAAGGTAAAATTCCATGA
68266 AGTAAATTTGAATTTTTGTTAG
66 AGTAAATTTGAATTTTTGTTAG
* ** * * *
68288 AACGGGGTTGGAGTATCCTCTCGAAA-TAGTGGGAATGGAGTTTCTCCAAA
1 AACGAGGTTAAAGTATCCCCTC-AAAGGAGTGGGGATGGAGTTTCTCCAAA
68338 ATCGTAAATT
Statistics
Matches: 256, Mismatches: 46, Indels: 17
0.80 0.14 0.05
Matches are distributed among these distances:
86 33 0.13
87 203 0.79
88 20 0.08
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (87 bp):
AACGAGGTTAAAGTATCCCCTCAAAGGAGTGGGGATGGAGTTTCTCCAAAGGTAAAATTCCATGA
AGTAAATTTGAATTTTTGTTAG
Found at i:76568 original size:2 final size:2
Alignment explanation
Indices: 76561--76592 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
76551 AGAAGGAACA
76561 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
76593 GAAAATACAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:80879 original size:29 final size:29
Alignment explanation
Indices: 80837--80895 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 29
80827 TTTATAGTTG
80837 AACTTTACGAAATTCTAAAGAGATTAAAA
1 AACTTTACGAAATTCTAAAGAGATTAAAA
*
80866 AACTTTGA-GAAATTCTAAAGGGATTAAAA
1 AACTTT-ACGAAATTCTAAAGAGATTAAAA
80895 A
1 A
80896 TAGCATGAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 27 0.96
30 1 0.04
ACGTcount: A:0.51, C:0.08, G:0.14, T:0.27
Consensus pattern (29 bp):
AACTTTACGAAATTCTAAAGAGATTAAAA
Found at i:82467 original size:16 final size:17
Alignment explanation
Indices: 82450--82481 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
82440 TTGGGTTAAT
82450 TTTG-TAAT-AAGATAA
1 TTTGATAATAAAGATAA
82465 TTTGATAATAAAGATAA
1 TTTGATAATAAAGATAA
82482 AGTTGAGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 4 0.27
17 7 0.47
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (17 bp):
TTTGATAATAAAGATAA
Found at i:82475 original size:59 final size:60
Alignment explanation
Indices: 82403--82519 Score: 200
Period size: 60 Copynumber: 2.0 Consensus size: 60
82393 TCAATTGGTG
* *
82403 TAATTTGATAATAAAAATAAA-TTGAGGTTCAATTGATTTGGGTTAATTTTGTAATAAGA
1 TAATTTGATAATAAAAATAAAGTTGAGATTCAATTGATTTGAGTTAATTTTGTAATAAGA
*
82462 TAATTTGATAATAAAGATAAAGTTGAGATTCAATTGATTTGAGTTAATTTTGTAATAA
1 TAATTTGATAATAAAAATAAAGTTGAGATTCAATTGATTTGAGTTAATTTTGTAATAA
82520 AAATCAAATT
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
59 20 0.37
60 34 0.63
ACGTcount: A:0.41, C:0.02, G:0.16, T:0.41
Consensus pattern (60 bp):
TAATTTGATAATAAAAATAAAGTTGAGATTCAATTGATTTGAGTTAATTTTGTAATAAGA
Found at i:82640 original size:17 final size:17
Alignment explanation
Indices: 82595--82642 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
82585 TTGGGTTAAT
82595 TTTG-TAATAAAAATCAA
1 TTTGATAATAAAAAT-AA
*
82612 ATTGA-AAT--AAATAA
1 TTTGATAATAAAAATAA
82626 TTTGATAATAAAAATAA
1 TTTGATAATAAAAATAA
82643 AAGTAAGGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 8
0.71 0.06 0.23
Matches are distributed among these distances:
14 6 0.24
15 7 0.28
17 12 0.48
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.33
Consensus pattern (17 bp):
TTTGATAATAAAAATAA
Found at i:82674 original size:76 final size:78
Alignment explanation
Indices: 82455--82693 Score: 261
Period size: 85 Copynumber: 3.0 Consensus size: 78
82445 TTAATTTTGT
* * * *
82455 AATAAGATAATTTGATAATAAAGAT-AAAGTTGAGATTCAATTGATTTGAGTTAATTTTGTAATA
1 AATAAGATAATTTGATAATAAAAATAAAAGATAAGGTTCAATTGATTTGAGTTAATTTTGTAATA
82519 AAAATCAAATTGA
66 AAAATCAAATTGA
* * * * * * *
82532 AGTCGAAGGTAGTTTTATAATAAAAATCAAATTGATCGATGGCGTT-AATTGATTTGGGTTAATT
1 AAT--AAGATAATTTGATAATAAAAAT-AAA-AGAT--A-AG-GTTCAATTGATTTGAGTTAATT
82596 TTGTAATAAAAATCAAATTGA
58 TTGTAATAAAAATCAAATTGA
*
82617 AATAA-ATAATTTGATAATAAAAATAAAAG-TAAGGTTCAATTGATGTGAGTTAATTTTGTAATA
1 AATAAGATAATTTGATAATAAAAATAAAAGATAAGGTTCAATTGATTTGAGTTAATTTTGTAATA
*
82680 AAAATAAAATTGA
66 AAAATCAAATTGA
82693 A
1 A
82694 GTATAATGTC
Statistics
Matches: 132, Mismatches: 20, Indels: 21
0.76 0.12 0.12
Matches are distributed among these distances:
75 3 0.02
76 38 0.29
77 3 0.02
79 19 0.14
80 1 0.01
81 5 0.04
82 18 0.14
83 2 0.02
85 41 0.31
86 2 0.02
ACGTcount: A:0.46, C:0.03, G:0.15, T:0.36
Consensus pattern (78 bp):
AATAAGATAATTTGATAATAAAAATAAAAGATAAGGTTCAATTGATTTGAGTTAATTTTGTAATA
AAAATCAAATTGA
Found at i:82984 original size:29 final size:29
Alignment explanation
Indices: 82926--82984 Score: 66
Period size: 28 Copynumber: 2.0 Consensus size: 29
82916 GTCATGTTAG
* *
82926 TATTATTTTTTTATGTTATATTGTACTTT
1 TATTATTTTTTTATGTTATATTCTAATTT
* *
82955 TATTA-TTTTTTATGTTGTGTTCTAAATTT
1 TATTATTTTTTTATGTTATATTCT-AATTT
82984 T
1 T
82985 TAGATTTAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
28 15 0.60
29 10 0.40
ACGTcount: A:0.20, C:0.03, G:0.08, T:0.68
Consensus pattern (29 bp):
TATTATTTTTTTATGTTATATTCTAATTT
Found at i:83490 original size:29 final size:30
Alignment explanation
Indices: 83435--83492 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
83425 TCTTGTTTTA
**
83435 AAATTATTTAATAAAAATTATTGTATTGAT
1 AAATTATTTAATAAAAATTATAATATTGAT
83465 AAATTATTT-ATAAAAA-TATAAATATTGA
1 AAATTATTTAATAAAAATTAT-AATATTGA
83493 ATAATAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 3 0.12
29 13 0.52
30 9 0.36
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (30 bp):
AAATTATTTAATAAAAATTATAATATTGAT
Found at i:83707 original size:91 final size:91
Alignment explanation
Indices: 83552--83737 Score: 291
Period size: 91 Copynumber: 2.0 Consensus size: 91
83542 ATGTTTTTAA
* * *
83552 AAATTTTGAGTTATTAGATGAATTGCTACATTTACATTTTATTATTTTTTATTTTTAATATGAAT
1 AAATTATGAGTTATTAGATAAACTGCTACATTTACATTTTATTATTTTTTATTTTTAATATGAAT
*
83617 ATAAATAATAGATACCAATATAATCT
66 ATAAATAATAAATACCAATATAATCT
* **
83643 AAATTATGAGTTATTAGATAAACTGCTAGATTTATTTTTTATTATTTTTTATTTTTAATATGAAT
1 AAATTATGAGTTATTAGATAAACTGCTACATTTACATTTTATTATTTTTTATTTTTAATATGAAT
* *
83708 ATAAATGATAAATATCAATATAATCT
66 ATAAATAATAAATACCAATATAATCT
83734 AAAT
1 AAAT
83738 GAATTAAATT
Statistics
Matches: 86, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
91 86 1.00
ACGTcount: A:0.40, C:0.05, G:0.08, T:0.47
Consensus pattern (91 bp):
AAATTATGAGTTATTAGATAAACTGCTACATTTACATTTTATTATTTTTTATTTTTAATATGAAT
ATAAATAATAAATACCAATATAATCT
Found at i:92747 original size:31 final size:31
Alignment explanation
Indices: 92712--92776 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
92702 TGTAATCAAC
92712 ATTAAGTCAAAACATTGCTAGTAAGGTACCA
1 ATTAAGTCAAAACATTGCTAGTAAGGTACCA
92743 ATTAAGTCAAAACATTGCTAGTAAGGTACCA
1 ATTAAGTCAAAACATTGCTAGTAAGGTACCA
92774 ATT
1 ATT
92777 TCGGGCGTCG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (31 bp):
ATTAAGTCAAAACATTGCTAGTAAGGTACCA
Found at i:92840 original size:19 final size:19
Alignment explanation
Indices: 92816--92853 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
92806 TTGTTCCCCA
92816 TTTTCAAAGTGAAATCCAG
1 TTTTCAAAGTGAAATCCAG
92835 TTTTCAAAGTGAAATCCAG
1 TTTTCAAAGTGAAATCCAG
92854 AGAGCATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.32
Consensus pattern (19 bp):
TTTTCAAAGTGAAATCCAG
Found at i:94844 original size:13 final size:13
Alignment explanation
Indices: 94826--94850 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
94816 CATTTTATGG
94826 TGTATCGATACAA
1 TGTATCGATACAA
94839 TGTATCGATACA
1 TGTATCGATACA
94851 TACTGTGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:94866 original size:32 final size:33
Alignment explanation
Indices: 94803--94870 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
94793 TGTTACAAGC
**
94803 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
*
94836 CAATGTATCGATACATACTGT-GTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
94868 CAA
1 CAA
94871 GTTTGGCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 14 0.44
33 18 0.56
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (33 bp):
CAATGTATCGATACATACTATGGTGTATCGATA
Found at i:103161 original size:13 final size:13
Alignment explanation
Indices: 103143--103167 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
103133 CATTTTATGG
103143 TGTATCGATACAA
1 TGTATCGATACAA
103156 TGTATCGATACA
1 TGTATCGATACA
103168 TACTGTGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:103167 original size:33 final size:32
Alignment explanation
Indices: 103120--103187 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 32
103110 CGTTACAAGC
**
103120 CAATATATCGATACATTTTATGGTGTATCGATA
1 CAATATATCGATACATACTAT-GTGTATCGATA
* *
103153 CAATGTATCGATACATACTGTGTGTATCGATA
1 CAATATATCGATACATACTATGTGTATCGATA
103185 CAA
1 CAA
103188 GTTTGGCTAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 14 0.45
33 17 0.55
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (32 bp):
CAATATATCGATACATACTATGTGTATCGATA
Found at i:113640 original size:18 final size:18
Alignment explanation
Indices: 113618--113653 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
113608 ATCATCCGCA
*
113618 AAAAAAAAACACAACAAAC
1 AAAAACAAA-ACAACAAAC
113637 AAAAACAAAACAACAAA
1 AAAAACAAAACAACAAA
113654 AAAGGTCTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (18 bp):
AAAAACAAAACAACAAAC
Found at i:113651 original size:14 final size:15
Alignment explanation
Indices: 113622--113655 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
113612 TCCGCAAAAA
*
113622 AAAAACACAACAAAC
1 AAAAACAAAACAAAC
113637 AAAAACAAAAC-AAC
1 AAAAACAAAACAAAC
113651 AAAAA
1 AAAAA
113656 AGGTCTGGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.79, C:0.21, G:0.00, T:0.00
Consensus pattern (15 bp):
AAAAACAAAACAAAC
Found at i:115153 original size:58 final size:56
Alignment explanation
Indices: 115052--115442 Score: 529
Period size: 58 Copynumber: 6.9 Consensus size: 56
115042 AGACATTCCT
* * * *
115052 CACC-TTTCAAAGCTCACAAGTCAGTGGCATCTTTTCAAAAGCCCATAAGTCAGTGG
1 CACCTTTTCAAAGCCCACAAGTCAGTGGCAAC-CTTCAAAAGCCCACAAGTCAGTGG
115108 CACCCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGG
1 CA-CCTTTTC-AAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGG
*
115166 CACCCTTTTCAAAAGCCCACAAGTCAATGGC-ACCTTTTC-AAAGCCCACAAGTCAGTGG
1 CA-CCTTTTC-AAAGCCCACAAGTCAGTGGCAACC--TTCAAAAGCCCACAAGTCAGTGG
* * * *
115224 CACCGTTTCAAAGCCCAAAAGTCAGTGGCAACCTTCAAAATCCCACAAGTTAGTGG
1 CACCTTTTCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGG
* * *
115280 CATCTTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTTAGTGG
1 CACCTTTTC-AAAGCCCACAAGTCAGTGGCAACC--TTCAAAAGCCCACAAGTCAGTGG
115339 CACCTTTTCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGG
1 CACCTTTTCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGG
* * *
115395 CACCTTTTCAAAGCCCACAAGTTAATGGCAACTTTC-AAAGCCCACAAG
1 CACCTTTTCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAG
115443 GTAGTGACAG
Statistics
Matches: 304, Mismatches: 21, Indels: 21
0.88 0.06 0.06
Matches are distributed among these distances:
55 15 0.05
56 99 0.33
57 36 0.12
58 100 0.33
59 54 0.18
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.21
Consensus pattern (56 bp):
CACCTTTTCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGG
Found at i:115155 original size:28 final size:29
Alignment explanation
Indices: 115053--115442 Score: 475
Period size: 28 Copynumber: 13.7 Consensus size: 29
115043 GACATTCCTC
*
115053 ACCTTTC-AAAGCTCACAAGTCAGTGGCA
1 ACCTTTCAAAAGCCCACAAGTCAGTGGCA
* * *
115081 TCTTTTCAAAAGCCCATAAGTCAGTGGCA
1 ACCTTTCAAAAGCCCACAAGTCAGTGGCA
*
115110 CCCTTTTCAAAAGCCCACAAGTCAGTGGCA
1 ACC-TTTCAAAAGCCCACAAGTCAGTGGCA
115140 ACC-TTCAAAAGCCCACAAGTCAGTGGCA
1 ACCTTTCAAAAGCCCACAAGTCAGTGGCA
* *
115168 CCCTTTTCAAAAGCCCACAAGTCAATGGC-
1 ACC-TTTCAAAAGCCCACAAGTCAGTGGCA
115197 ACCTTTTC-AAAGCCCACAAGTCAGTGGC-
1 ACC-TTTCAAAAGCCCACAAGTCAGTGGCA
*
115225 ACCGTTTC-AAAGCCCAAAAGTCAGTGGCA
1 ACC-TTTCAAAAGCCCACAAGTCAGTGGCA
* *
115254 ACC-TTCAAAATCCCACAAGTTAGTGGCA
1 ACCTTTCAAAAGCCCACAAGTCAGTGGCA
* *
115282 TCTTTTCAAAAGCCCACAAGTCAGTGGCA
1 ACCTTTCAAAAGCCCACAAGTCAGTGGCA
* *
115311 CCCTTTTCAAAAGCCCACAAGTTAGTGGC-
1 ACC-TTTCAAAAGCCCACAAGTCAGTGGCA
115340 ACCTTTTC-AAAGCCCACAAGTCAGTGGCA
1 ACC-TTTCAAAAGCCCACAAGTCAGTGGCA
115369 ACC-TTCAAAAGCCCACAAGTCAGTGGC-
1 ACCTTTCAAAAGCCCACAAGTCAGTGGCA
* *
115396 ACCTTTTC-AAAGCCCACAAGTTAATGGCA
1 ACC-TTTCAAAAGCCCACAAGTCAGTGGCA
115425 A-CTTTC-AAAGCCCACAAG
1 ACCTTTCAAAAGCCCACAAG
115443 GTAGTGACAG
Statistics
Matches: 321, Mismatches: 28, Indels: 27
0.85 0.07 0.07
Matches are distributed among these distances:
27 25 0.08
28 154 0.48
29 68 0.21
30 74 0.23
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.21
Consensus pattern (29 bp):
ACCTTTCAAAAGCCCACAAGTCAGTGGCA
Found at i:115316 original size:143 final size:143
Alignment explanation
Indices: 115052--115442 Score: 571
Period size: 143 Copynumber: 2.7 Consensus size: 143
115042 AGACATTCCT
* * * *
115052 CACC-TTTCAAAGCTCACAAGTCAGTGGCATCTTTTCAAAAGCCCATAAGTCAGTGGCACCCTTT
1 CACCTTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTCAAAAGCCCAAAAGTCAGTGGCAACC-TT
* *
115116 TCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAG
64 TCAAAAGCCCACAAGTTAGTGGCAACTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAG
115181 CCCACAAGTCAATGG
129 CCCACAAGTCAATGG
115196 CACCTTTTCAAAGCCCACAAGTCAGTGGCACCGTTTC-AAAGCCCAAAAGTCAGTGGCAACC-TT
1 CACCTTTTCAAAGCCCACAAGTCAGTGGCACC-TTTCAAAAGCCCAAAAGTCAGTGGCAACCTTT
* *
115259 CAAAATCCCACAAGTTAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAG
65 CAAAAGCCCACAAGTTAGTGGCAAC-TTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAG
* *
115324 CCCACAAGTTAGTGG
129 CCCACAAGTCAATGG
*
115339 CACCTTTTCAAAGCCCACAAGTCAGTGGCAACC-TTCAAAAGCCCACAAGTCAGTGGC-ACCTTT
1 CACCTTTTCAAAGCCCACAAGTCAGTGGC-ACCTTTCAAAAGCCCAAAAGTCAGTGGCAACC-TT
*
115402 TC-AAAGCCCACAAGTTAATGGCAACTTTC-AAAGCCCACAAG
64 TCAAAAGCCCACAAGTTAGTGGCAACTTTCAAAAGCCCACAAG
115443 GTAGTGACAG
Statistics
Matches: 226, Mismatches: 14, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
141 12 0.05
142 34 0.15
143 119 0.53
144 33 0.15
145 28 0.12
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.21
Consensus pattern (143 bp):
CACCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTCAAAAGCCCAAAAGTCAGTGGCAACCTTTC
AAAAGCCCACAAGTTAGTGGCAACTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCC
CACAAGTCAATGG
Found at i:115549 original size:43 final size:43
Alignment explanation
Indices: 115488--115623 Score: 155
Period size: 43 Copynumber: 3.0 Consensus size: 43
115478 CATCTTCTTC
115488 TAAGTCCAATATCGCTAGCCTTGAATCAGCATATTAGCACCTT
1 TAAGTCCAATATCGCTAGCCTTGAATCAGCATATTAGCACCTT
* * * * *
115531 TAAGTCCAATGTTGCTAGCCTTGAATCAGGACATTGGCACTTTCATCTT
1 TAAGTCCAATATCGCTAGCCTTGAATCAGCATATTAGCA----C--CTT
* *
115580 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTAGCGCCTT
1 TAAGTCCAATATCGCTAGCCTTGAATCAGCATATTAGCACCTT
115623 T
1 T
115624 GTCATCTTCA
Statistics
Matches: 75, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
43 38 0.51
45 1 0.01
47 1 0.01
49 35 0.47
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.32
Consensus pattern (43 bp):
TAAGTCCAATATCGCTAGCCTTGAATCAGCATATTAGCACCTT
Found at i:115641 original size:52 final size:49
Alignment explanation
Indices: 115483--115804 Score: 266
Period size: 49 Copynumber: 6.7 Consensus size: 49
115473 GGTGGCATCT
* *
115483 TCTTCTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTAGCA-C--C-
1 TCTTC-AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCGTCA
* * * * * *
115529 T-TT-AAGTCCAATGTTGCTAGCCTTGAATCAGGACATTGGCA-CTTTCA
1 TCTTCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATC-GTCA
* * *
115576 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTAGCGCCTTTGTCA
1 TCTTCAAGTCCAATATCGCTGGCCTTGAATCAGCATATT-G-G-CATCGTCA
*
115628 TCTTCAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCGTCA
1 TCTTCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCGTCA
* * * * *
115677 TCTTCAAGTCCAATGTCACTAGCCTTGAATCAGCACATTGGCATCTTCA
1 TCTTCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCGTCA
* * * * ** * *
115726 TTTTTAAGTCCGATATCGTTGGCCTTGTCTCAGCACATTGGCAT--TCT
1 TCTTCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCGTCA
* * * * *
115773 TTTTCAAGTCTAATGTCACTGGCCTTGGATCA
1 TCTTCAAGTCCAATATCGCTGGCCTTGAATCA
115805 ACACATTGTC
Statistics
Matches: 225, Mismatches: 41, Indels: 19
0.79 0.14 0.07
Matches are distributed among these distances:
43 34 0.15
45 2 0.01
46 2 0.01
47 27 0.12
48 2 0.01
49 113 0.50
50 2 0.01
51 2 0.01
52 41 0.18
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (49 bp):
TCTTCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCGTCA
Found at i:115711 original size:101 final size:97
Alignment explanation
Indices: 115548--115842 Score: 295
Period size: 101 Copynumber: 3.0 Consensus size: 97
115538 AATGTTGCTA
* * * * * *
115548 GCCTTGAATCAGGACATTGGCACTTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATA
1 GCCTTGAATCAGCACATTGGCA-TCTCATCTTCAAGTCCAATGTCACTGGCCTTGAATCAGCACA
* *
115613 TTAGCGCCTTTGTCATCTTCAAGCCCAATATCGCTG
65 TT-G-GCATCT-TCATCTTCAAGCCCAATATCGCTG
* *
115649 GCCTTGAATCAGCATATTGGCATCGTCATCTTCAAGTCCAATGTCACTAGCCTTGAATCAGCACA
1 GCCTTGAATCAGCACATTGGCATC-TCATCTTCAAGTCCAATGTCACTGGCCTTGAATCAGCACA
* * * * *
115714 TTGGCATCTTCATTTTTAAGTCCGATATCGTTG
65 TTGGCATCTTCATCTTCAAGCCCAATATCGCTG
** * * * * *
115747 GCCTTGTCTCAGCACATTGGCAT-TCTTTTTCAAGTCTAATGTCACTGGCCTTGGATCAACACAT
1 GCCTTGAATCAGCACATTGGCATCTCATCTTCAAGTCCAATGTCACTGGCCTTGAATCAGCACAT
* *
115811 TGTCATTCTTCGCATCTTCGAGCCCAATATCG
66 TGGCA-TCTT--CATCTTCAAGCCCAATATCG
115843 TTAGCTGCAT
Statistics
Matches: 160, Mismatches: 30, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
96 39 0.24
97 4 0.03
98 39 0.24
99 19 0.12
100 2 0.01
101 57 0.36
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.33
Consensus pattern (97 bp):
GCCTTGAATCAGCACATTGGCATCTCATCTTCAAGTCCAATGTCACTGGCCTTGAATCAGCACAT
TGGCATCTTCATCTTCAAGCCCAATATCGCTG
Found at i:115760 original size:150 final size:145
Alignment explanation
Indices: 115483--115752 Score: 382
Period size: 150 Copynumber: 1.8 Consensus size: 145
115473 GGTGGCATCT
* **
115483 TCTTCTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTAGCACCTTTAAGTCCAATGTTGCTA
1 TCTTCTAAGCCCAATATCGCTAGCCTTGAATCAGCATATTAGCACCTTTAAGTCCAATGTCACTA
*
115548 GCCTTGAATCAGGACATTGGCACTTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATA
66 GCCTTGAATCAGCACATTGGCACTTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATA
115613 TTAGCGCCTTTGTCA
131 TTAGCGCCTTTGTCA
* *
115628 TCTTC-AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCGTCATCTTCAAGTCCAATG
1 TCTTCTAAGCCCAATATCGCTAGCCTTGAATCAGCATATTAGCA-C--C-T-TT-AAGTCCAATG
* * *
115692 TCACTAGCCTTGAATCAGCACATTGGCA-TCTTCATTTTTAAGTCCGATATCGTTGGCCTTG
60 TCACTAGCCTTGAATCAGCACATTGGCACT-TTCATCTTTAAGTCCAATATCGCTGGCCTTG
115753 TCTCAGCACA
Statistics
Matches: 109, Mismatches: 9, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
144 35 0.32
145 6 0.06
147 1 0.01
148 1 0.01
149 3 0.03
150 63 0.58
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (145 bp):
TCTTCTAAGCCCAATATCGCTAGCCTTGAATCAGCATATTAGCACCTTTAAGTCCAATGTCACTA
GCCTTGAATCAGCACATTGGCACTTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATA
TTAGCGCCTTTGTCA
Found at i:116646 original size:13 final size:13
Alignment explanation
Indices: 116624--116696 Score: 65
Period size: 13 Copynumber: 5.2 Consensus size: 13
116614 CATTATTCAA
116624 TGTATCGATACAT
1 TGTATCGATACAT
*
116637 TGTATTGATACATATT
1 TGTATCGATAC--A-T
116653 CAATGTATCGATACAT
1 ---TGTATCGATACAT
116669 TGTATCGATACAT
1 TGTATCGATACAT
* *
116682 TATATTGATACAT
1 TGTATCGATACAT
116695 TG
1 TG
116697 ATCTTTGTAT
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
13 35 0.71
15 1 0.02
16 2 0.04
17 1 0.02
19 10 0.20
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:116658 original size:32 final size:32
Alignment explanation
Indices: 116604--116681 Score: 138
Period size: 32 Copynumber: 2.4 Consensus size: 32
116594 GCCAAGGAAA
116604 TGTATCGATACATTATTCAATGTATCGATACAT
1 TGTATCGATACA-TATTCAATGTATCGATACAT
*
116637 TGTATTGATACATATTCAATGTATCGATACAT
1 TGTATCGATACATATTCAATGTATCGATACAT
116669 TGTATCGATACAT
1 TGTATCGATACAT
116682 TATATTGATA
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
32 32 0.74
33 11 0.26
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.40
Consensus pattern (32 bp):
TGTATCGATACATATTCAATGTATCGATACAT
Found at i:120893 original size:160 final size:162
Alignment explanation
Indices: 120644--121043 Score: 588
Period size: 160 Copynumber: 2.5 Consensus size: 162
120634 AATATAAAAG
* * * * * * *
120644 ATTAAAATTTTTCTCAAAAATAGCAATTCAATTTAATTTTATTGATTTTCAAAAATACCATTTCG
1 ATTAGAATTTATCCCAAGAATACCAATTTAATTTAATTTTATTTATTTTCAAAAATACCATTTCG
** * * *
120709 TGCCCTAATGGAAGCCCGAAAGAATACTAAAGGTTTCTGAAATCTTTTATACCCCTACGGATACC
66 TATCCTAATGAAAGCCCAAAAGAATACGAAAGGTTTCTGAAATCTTTTATACCCCTACGGATACC
120774 CATAGGAATACAAAAGATTAGAAAAAATAAAT
131 CATAGGAATACAAAAGATTAGAAAAAATAAAT
* * * *
120806 ATTAGAATTTATCCCAAGAATACTAATTTAA-TTAATTTAATTTATTTTC-GAAATACGATTTCG
1 ATTAGAATTTATCCCAAGAATACCAATTTAATTTAATTTTATTTATTTTCAAAAATACCATTTCG
* * * * *
120869 TATCATAATGAAAGCCTAAAAGAATACGAAAGGTTTTTGAAATCTTTTATACCCTTACGGATGCC
66 TATCCTAATGAAAGCCCAAAAGAATACGAAAGGTTTCTGAAATCTTTTATACCCCTACGGATACC
120934 CATAGGAATACAAAAGATTAGAAAAAATAAAT
131 CATAGGAATACAAAAGATTAGAAAAAATAAAT
*
120966 ATTAGAATTTATCCCAAGAATACCAATTTAATTTAATTTTATTTATTTTCAAAAATACCATTTTG
1 ATTAGAATTTATCCCAAGAATACCAATTTAATTTAATTTTATTTATTTTCAAAAATACCATTTCG
121031 TATCCTAATGAAA
66 TATCCTAATGAAA
121044 ATGTAGACAC
Statistics
Matches: 209, Mismatches: 27, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
160 129 0.62
161 33 0.16
162 47 0.22
ACGTcount: A:0.41, C:0.14, G:0.10, T:0.34
Consensus pattern (162 bp):
ATTAGAATTTATCCCAAGAATACCAATTTAATTTAATTTTATTTATTTTCAAAAATACCATTTCG
TATCCTAATGAAAGCCCAAAAGAATACGAAAGGTTTCTGAAATCTTTTATACCCCTACGGATACC
CATAGGAATACAAAAGATTAGAAAAAATAAAT
Found at i:121879 original size:20 final size:20
Alignment explanation
Indices: 121854--121891 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
121844 TTTTTACCCA
121854 AATGTATAGATACATTTTTC
1 AATGTATAGATACATTTTTC
*
121874 AATGTATAGATATATTTT
1 AATGTATAGATACATTTT
121892 GTCTTTTACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.05, G:0.11, T:0.47
Consensus pattern (20 bp):
AATGTATAGATACATTTTTC
Found at i:121969 original size:51 final size:51
Alignment explanation
Indices: 121844--121989 Score: 224
Period size: 51 Copynumber: 2.9 Consensus size: 51
121834 AAAAGTCATA
* * * * *
121844 TTTTTACCCAAATGTAT-AGATACATTTTTCAATGTATAGATATATTTTGTC
1 TTTTTACCCAGATGTATCA-ATACATTTTTCAATGTATTGATACATTCTATC
121895 -TTTTACCCAGATGTATCAATACATTTTTCAATGTATTGATACATTCTATC
1 TTTTTACCCAGATGTATCAATACATTTTTCAATGTATTGATACATTCTATC
121945 TTTTTACCCAGATGTATCAATACATTTTTCAATGTATTGATACAT
1 TTTTTACCCAGATGTATCAATACATTTTTCAATGTATTGATACAT
121990 CTAGTTAAAA
Statistics
Matches: 88, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
50 43 0.49
51 45 0.51
ACGTcount: A:0.31, C:0.15, G:0.09, T:0.45
Consensus pattern (51 bp):
TTTTTACCCAGATGTATCAATACATTTTTCAATGTATTGATACATTCTATC
Done.