Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 72 of 185
Found at i:21832915 original size:79 final size:80
Alignment explanation
Indices: 21832753--21832920 Score: 180
Period size: 79 Copynumber: 2.1 Consensus size: 80
21832743 AGATACAAAT
* * *
21832753 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGCCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
21832818 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * * *
21832833 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGCCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
21832897 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
21832912 TCC-GGTTAA
1 TCCGGGTTAA
21832921 ATTCCGAAGG
Statistics
Matches: 72, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
78 6 0.08
79 48 0.67
80 18 0.25
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGCCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:21843683 original size:480 final size:480
Alignment explanation
Indices: 21842782--21843729 Score: 1601
Period size: 480 Copynumber: 2.0 Consensus size: 480
21842772 CATCTAACAT
21842782 AGTTATTAGTTGATCAGAATTAGCTGGTTCAGAAGTTACCTTGTCAGATTTTACAAATTCAATTT
1 AGTTATTAGTTGATCAGAATTAGCTGGTTCAGAAGTTACCTTGTCAGATTTTACAAATTCAATTT
*
21842847 CCGGTGAAACTGGAATTTCAACACTCGGTTGAACTTCCTCTGATTCTTGAGCATCAGCTAGCTCC
66 CCAGTGAAACTGGAATTTCAACACTCGGTTGAACTTCCTCTGATTCTTGAGCATCAGCTAGCTCC
* * *
21842912 TTCTCAACTTTGATGGAATTGGGCTCTAAATTCTTTCCGCTCCTTAATGTTAACGCTTTACAATG
131 TTCTCAACTTTGATGGAATTGGGCTCTAAAGTCTTTCCGCTCCTCAATGTTAACGCTTTACAATA
* *
21842977 CTCCTTCCCTGGATTCCTCAAATTCTCTGTATCACTAGGTAAAGCACCTTGTGGTCAGTTTCTGA
196 CTCCTTCCCTAGATTCCTCAAATTCTCTATATCACTAGGTAAAGCACCTTGTGGTCAGTTTCTGA
* * * *
21843042 GTTTAGTTGCAAGCTGGCCCACTTGATTCTCCAATTTCCTTAGATAAGTATAATTTCTCGCCATG
261 GTTCAGTTGCAAGCTGGCCCACTTGATTCTCCAAATTCCTTAGAGAAGTATAATTTCTAGCCATG
* * * *
21843107 TATTCCTTCAATAGATTCTCTAGGCTATTGTATGGTTCAGCTTGCGTTGGTTTTTGAGCTTGTTG
326 TATGCCTTCAATAGATTCTCTAGGCTATTGGATGGTTCAACTTGCGTTGGTTTCTGAGCTTGTTG
* * * * *
21843172 GGAAAAACTATGTGGCTGGGTCGATCTAGGTTGGACTTAATTGTTACTGGTTTCTACGGTTACTC
391 GGAAAAACTAGGTGGCTAGGTCAATCTAGGTTGGACATAATTGTTACTGGTTCCTACGGTTACTC
*
21843237 TAGGAAAAATTCGAGTGTTTAACGC
456 CAGGAAAAATTCGAGTGTTTAACGC
* *
21843262 AGTTATTAGTTGATCAGAATTAGCTGGTTCAGAAGTTACCTTGTCAGATTTTATAGATTCAATTT
1 AGTTATTAGTTGATCAGAATTAGCTGGTTCAGAAGTTACCTTGTCAGATTTTACAAATTCAATTT
* * *
21843327 CCAGTGTAACTGGAATTTCAACACTCGGTTGAACTTCCTCTTATTCTTGAGCGTCAGCTAGCTCC
66 CCAGTGAAACTGGAATTTCAACACTCGGTTGAACTTCCTCTGATTCTTGAGCATCAGCTAGCTCC
*
21843392 TTCTCAACTTTGATGGAATTGGGCTCTAAAGTCTTTCTGCTCCTCAATGTTAACGCTTTACAATA
131 TTCTCAACTTTGATGGAATTGGGCTCTAAAGTCTTTCCGCTCCTCAATGTTAACGCTTTACAATA
*
21843457 CTCTTTCCCTAGATTCCTCAAATTCT-TCATATCACTAGGTAAAGCACCTTGTGGTCAGTTTCTG
196 CTCCTTCCCTAGATTCCTCAAATTCTCT-ATATCACTAGGTAAAGCACCTTGTGGTCAGTTTCTG
* *
21843521 AGTTCAGTTGCATGCTGGCCCACTTGATTCTCCAAATTCCTTAGAGAAGTATCATTTCTAGCCAT
260 AGTTCAGTTGCAAGCTGGCCCACTTGATTCTCCAAATTCCTTAGAGAAGTATAATTTCTAGCCAT
*
21843586 GTATGCCTTCAATAGATTCTCTAGGCTATTGGATGGTTCAACTTGGGTTGGTTTCTGAGCTTGTT
325 GTATGCCTTCAATAGATTCTCTAGGCTATTGGATGGTTCAACTTGCGTTGGTTTCTGAGCTTGTT
*
21843651 GGGAAAAACTAGGTGGCTAGGTCAATCTAGGTTGGACATAATTGTTACTGGTTCCTGCGGTTACT
390 GGGAAAAACTAGGTGGCTAGGTCAATCTAGGTTGGACATAATTGTTACTGGTTCCTACGGTTACT
21843716 CCAGGAAAAATTCG
455 CCAGGAAAAATTCG
21843730 GGTGGTTTCG
Statistics
Matches: 436, Mismatches: 31, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
479 1 0.00
480 435 1.00
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (480 bp):
AGTTATTAGTTGATCAGAATTAGCTGGTTCAGAAGTTACCTTGTCAGATTTTACAAATTCAATTT
CCAGTGAAACTGGAATTTCAACACTCGGTTGAACTTCCTCTGATTCTTGAGCATCAGCTAGCTCC
TTCTCAACTTTGATGGAATTGGGCTCTAAAGTCTTTCCGCTCCTCAATGTTAACGCTTTACAATA
CTCCTTCCCTAGATTCCTCAAATTCTCTATATCACTAGGTAAAGCACCTTGTGGTCAGTTTCTGA
GTTCAGTTGCAAGCTGGCCCACTTGATTCTCCAAATTCCTTAGAGAAGTATAATTTCTAGCCATG
TATGCCTTCAATAGATTCTCTAGGCTATTGGATGGTTCAACTTGCGTTGGTTTCTGAGCTTGTTG
GGAAAAACTAGGTGGCTAGGTCAATCTAGGTTGGACATAATTGTTACTGGTTCCTACGGTTACTC
CAGGAAAAATTCGAGTGTTTAACGC
Found at i:21852478 original size:67 final size:67
Alignment explanation
Indices: 21852348--21852494 Score: 195
Period size: 67 Copynumber: 2.2 Consensus size: 67
21852338 ACGGCTTGGC
* * * * * *
21852348 ACACGGACATGTGGCTTGGCCGTGAGACCTAAGTCAAAGAGTTACATGGGAACGAATGGGGGCTG
1 ACACGGCCGTGTGGCTTGGCCGTGAGACCCAAGTCAAAGAGTAACATGGGAACGAACGCGGGCTG
21852413 GG
66 GG
* * * *
21852415 ACATGGCCGTGTGGCTTGGCCGTGTGACCCAAGTCAAAGAGTAACATGGGCACGGACGCGGGCTG
1 ACACGGCCGTGTGGCTTGGCCGTGAGACCCAAGTCAAAGAGTAACATGGGAACGAACGCGGGCTG
21852480 GG
66 GG
*
21852482 GCACGGCCGTGTG
1 ACACGGCCGTGTG
21852495 TCCCTACTTC
Statistics
Matches: 68, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
67 68 1.00
ACGTcount: A:0.22, C:0.22, G:0.39, T:0.17
Consensus pattern (67 bp):
ACACGGCCGTGTGGCTTGGCCGTGAGACCCAAGTCAAAGAGTAACATGGGAACGAACGCGGGCTG
GG
Found at i:21869958 original size:28 final size:27
Alignment explanation
Indices: 21869849--21870026 Score: 295
Period size: 27 Copynumber: 6.6 Consensus size: 27
21869839 TAAATTGTAC
21869849 AGCACTAAGTGTGCGAGTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGATTATGT
21869876 AGCACTAAGTGTGCGA-TTGATTATGT
1 AGCACTAAGTGTGCGAGTTGATTATGT
*
21869902 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGATTATGT
21869929 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGATTATGT
*
21869957 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAG-TTGATTATGT
*
21869985 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGATTATGT
*
21870012 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
21870027 GACTTAATAT
Statistics
Matches: 146, Mismatches: 3, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
26 26 0.18
27 66 0.45
28 54 0.37
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGATTATGT
Found at i:21869972 original size:55 final size:54
Alignment explanation
Indices: 21869849--21870026 Score: 295
Period size: 55 Copynumber: 3.3 Consensus size: 54
21869839 TAAATTGTAC
*
21869849 AGCACTAAGTGTGCGAGTTGATTATGTAGCACTAAGTGTGCGA-TTGATTATGT
1 AGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTGTGCGAGTTGATTATGT
21869902 AGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTGTGCGAG-TTGATTATGT
* *
21869957 AGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTTGATTATGTAGCACTAAGTGTGCGAGTTGATTATGT
*
21870012 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
21870027 GACTTAATAT
Statistics
Matches: 118, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
53 42 0.36
55 49 0.42
56 27 0.23
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (54 bp):
AGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTGTGCGAGTTGATTATGT
Found at i:21878128 original size:28 final size:28
Alignment explanation
Indices: 21878088--21878297 Score: 359
Period size: 28 Copynumber: 7.5 Consensus size: 28
21878078 TAAATTGTAC
21878088 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
21878116 AGCACTAAGTGTGCGAATTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
21878144 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
21878172 AGCACTAAGTGTGCGAATTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
21878200 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
21878228 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
21878256 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
* *
21878283 AACACTGAGTGTGCG
1 AGCACTAAGTGTGCG
21878298 GACTTAATAT
Statistics
Matches: 175, Mismatches: 7, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
27 23 0.13
28 152 0.87
ACGTcount: A:0.27, C:0.11, G:0.27, T:0.34
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:21878205 original size:84 final size:84
Alignment explanation
Indices: 21878063--21878297 Score: 355
Period size: 84 Copynumber: 2.8 Consensus size: 84
21878053 GAGATTGGCG
* * * * *
21878063 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGT
1 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAATTTGATTATGTAGCACTAAGTGT
21878128 GCGAATTTGATTATGTAGCA
65 GCGAATTTGATTATGTAGCA
*
21878148 CTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAATTTGATTATGTAGCACTAAGTGTG
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAATTTGATTATGTAGCACTAAGTGTG
*
21878213 CGAGTTTGATTATGTAGCA
66 CGAATTTGATTATGTAGCA
* * * *
21878232 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCG-AGTTGATTATATAACACTGAGTGTG
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAATTTGATTATGTAGCACTAAGTGTG
21878296 CG
66 CG
21878298 GACTTAATAT
Statistics
Matches: 138, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
83 23 0.17
84 100 0.72
85 15 0.11
ACGTcount: A:0.27, C:0.11, G:0.27, T:0.34
Consensus pattern (84 bp):
CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAATTTGATTATGTAGCACTAAGTGTG
CGAATTTGATTATGTAGCA
Found at i:21887201 original size:27 final size:27
Alignment explanation
Indices: 21887170--21887346 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
21887160 TAAATTGTAC
21887170 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
21887197 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
21887223 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
21887251 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
21887279 AGCACTAAGTGTG-GATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
21887305 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
21887332 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
21887347 GACTCAATAT
Statistics
Matches: 127, Mismatches: 19, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
26 22 0.17
27 85 0.67
28 20 0.16
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:21887313 original size:81 final size:81
Alignment explanation
Indices: 21887171--21887325 Score: 224
Period size: 81 Copynumber: 1.9 Consensus size: 81
21887161 AAATTGTACA
* *
21887171 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
21887236 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
** *
21887252 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTG-GATTTGATTACG-TAGCACTAAGT
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAGT
*
21887315 GTGCGAGTTGA
64 GTGCGAATTGA
21887326 TTATATAGCA
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
80 1 0.02
81 42 0.64
82 23 0.35
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:21887337 original size:81 final size:81
Alignment explanation
Indices: 21887167--21887346 Score: 220
Period size: 81 Copynumber: 2.2 Consensus size: 81
21887157 GATTAAATTG
* *
21887167 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
21887232 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
21887248 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTG-GATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
21887311 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
21887329 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
21887347 GACTCAATAT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
80 1 0.01
81 59 0.71
82 23 0.28
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:21895259 original size:27 final size:27
Alignment explanation
Indices: 21895225--21895402 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
21895215 TTAAATTTAC
21895225 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
21895252 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
21895278 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
21895306 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
21895334 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
21895361 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
21895388 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
21895403 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:21895339 original size:82 final size:81
Alignment explanation
Indices: 21895226--21895381 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
21895216 TAAATTTACA
* *
21895226 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
21895290 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
21895307 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
21895372 TGCGAGTTGA
65 TGCGAATTGA
21895382 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:21895393 original size:82 final size:81
Alignment explanation
Indices: 21895222--21895402 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
21895212 GGATTAAATT
* *
21895222 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
21895287 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
21895303 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
21895367 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
21895385 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
21895403 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:21900559 original size:25 final size:23
Alignment explanation
Indices: 21900491--21900559 Score: 75
Period size: 25 Copynumber: 2.8 Consensus size: 23
21900481 AAATTTCTAA
*
21900491 TTAATTTTAATTTTTTTTTAATT
1 TTAATTTTTATTTTTTTTTAATT
* *
21900514 TTCATTTTTATCTTTGCTTTTAATT
1 TTAATTTTTAT-TTT-TTTTTAATT
21900539 TTAATGTTTTATTTATTTTTT
1 TTAAT-TTTTATTT-TTTTTT
21900560 TTATGTTTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
23 9 0.24
24 3 0.08
25 18 0.49
26 7 0.19
ACGTcount: A:0.20, C:0.04, G:0.03, T:0.72
Consensus pattern (23 bp):
TTAATTTTTATTTTTTTTTAATT
Found at i:21902133 original size:77 final size:76
Alignment explanation
Indices: 21902006--21902218 Score: 284
Period size: 75 Copynumber: 2.8 Consensus size: 76
21901996 TATCCGTTAC
* * *
21902006 CGGTGGATTCAGCACTTAGCAACCATCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTTTCA
1 CGGTGGAATCAGCACTTAGCAACCACCAATGATTCAGGGAATCAGCACTTAGCAACCCCTTTTCA
21902071 CATTCAAAAATA
66 CATT-AAAAATA
* * *
21902083 CGGTGGAATCAACACTTAGCAACCACCAATGAATCAGGGAATCAACACTTAGCAACCCC-TTTCA
1 CGGTGGAATCAGCACTTAGCAACCACCAATGATTCAGGGAATCAGCACTTAGCAACCCCTTTTCA
* *
21902147 CATTTAAGATA
66 CATTAAAAATA
* * * * * *
21902158 CGATGGGATCAGCAGTTAGCAACCACCAATGATTCAGGGAACCAGTACTTAGAAACCCCTT
1 CGGTGGAATCAGCACTTAGCAACCACCAATGATTCAGGGAATCAGCACTTAGCAACCCCTT
21902219 AGGGGAATTA
Statistics
Matches: 118, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
75 55 0.47
76 10 0.08
77 53 0.45
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.22
Consensus pattern (76 bp):
CGGTGGAATCAGCACTTAGCAACCACCAATGATTCAGGGAATCAGCACTTAGCAACCCCTTTTCA
CATTAAAAATA
Found at i:21914228 original size:43 final size:41
Alignment explanation
Indices: 21914109--21914336 Score: 147
Period size: 43 Copynumber: 5.4 Consensus size: 41
21914099 CTCGGTGGAT
* * * **
21914109 TCAGTACTTAGCAACCACC-TTAAATTCAGTGATATGGGGAA
1 TCAGCACTTAGCAACCACCTTTAAAATCA-TAATACAGGGAA
* ** * * * *
21914150 TCAACACAGAGCAACC-CCTTTCACAGTCAAAAATACAGTGGAT
1 TCAGCACTTAGCAACCACCTTT-AAAATC-ATAATACAG-GGAA
* * *
21914193 TCAGCACTTAGCAACCACCTTTATATTTAGTAATACAGGGAA
1 TCAGCACTTAGCAACCACCTTTAAAATCA-TAATACAGGGAA
* * * * *
21914235 TCAGCACATAACAACC-CCTTTCACAATCAAAGATACGGTGGAA
1 TCAGCACTTAGCAACCACCTTT-AAAATCATA-ATACAG-GGAA
* *
21914278 TCAGCACTTAGCAACCACCTTTAAAGTCAATAATTCAGGGAAA
1 TCAGCACTTAGCAACCACCTTTAAAATC-ATAATACAGGG-AA
21914321 TCAGCACTTAGCAACC
1 TCAGCACTTAGCAACC
21914337 CTTTTTTATT
Statistics
Matches: 142, Mismatches: 33, Indels: 22
0.72 0.17 0.11
Matches are distributed among these distances:
40 2 0.01
41 20 0.14
42 37 0.26
43 71 0.50
44 12 0.08
ACGTcount: A:0.37, C:0.25, G:0.15, T:0.23
Consensus pattern (41 bp):
TCAGCACTTAGCAACCACCTTTAAAATCATAATACAGGGAA
Found at i:21914265 original size:85 final size:85
Alignment explanation
Indices: 21914103--21914337 Score: 301
Period size: 85 Copynumber: 2.8 Consensus size: 85
21914093 CCGTTACTCG
* * ** * *
21914103 GTGGATTCAGTACTTAGCAACCACC-TTAAATTCAGTGATATGGGGAATCAACACAGAGCAACCC
1 GTGGATTCAGCACTTAGCAACCACCTTTAAATTCAGTAATACAGGGAATCAGCACATAGCAACCC
*
21914167 CTTTCACAGTCAAAAATACA
66 CTTTCACAATCAAAAATACA
* * *
21914187 GTGGATTCAGCACTTAGCAACCACCTTTATATTTAGTAATACAGGGAATCAGCACATAACAACCC
1 GTGGATTCAGCACTTAGCAACCACCTTTAAATTCAGTAATACAGGGAATCAGCACATAGCAACCC
* *
21914252 CTTTCACAATCAAAGATACG
66 CTTTCACAATCAAAAATACA
* * * * *
21914272 GTGGAATCAGCACTTAGCAACCACCTTTAAAGTCAATAATTCAGGGAAATCAGCACTTAGCAACC
1 GTGGATTCAGCACTTAGCAACCACCTTTAAATTCAGTAATACAGGG-AATCAGCACATAGCAACC
21914337 C
65 C
21914338 TTTTTTATTC
Statistics
Matches: 129, Mismatches: 20, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
84 24 0.19
85 88 0.68
86 17 0.13
ACGTcount: A:0.37, C:0.25, G:0.16, T:0.23
Consensus pattern (85 bp):
GTGGATTCAGCACTTAGCAACCACCTTTAAATTCAGTAATACAGGGAATCAGCACATAGCAACCC
CTTTCACAATCAAAAATACA
Found at i:21915468 original size:24 final size:24
Alignment explanation
Indices: 21915405--21915483 Score: 108
Period size: 24 Copynumber: 3.4 Consensus size: 24
21915395 GCCCAAACGT
21915405 CGAAATTTTAGAACGAAATTTT-A
1 CGAAATTTTAGAACGAAATTTTCA
* *
21915428 TG-AACTTTAGAACGAAATTTTCA
1 CGAAATTTTAGAACGAAATTTTCA
* *
21915451 CGAAATTTTAGAATGAAATTTGCA
1 CGAAATTTTAGAACGAAATTTTCA
21915475 CGAAATTTT
1 CGAAATTTT
21915484 CATGGGATTT
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
22 18 0.38
23 3 0.06
24 27 0.56
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.35
Consensus pattern (24 bp):
CGAAATTTTAGAACGAAATTTTCA
Found at i:21920406 original size:20 final size:20
Alignment explanation
Indices: 21920381--21920432 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
21920371 AAGCTTATGC
21920381 TAAGTAAATGGAATACAAAG
1 TAAGTAAATGGAATACAAAG
* **
21920401 TAAGTAAATGGGATGGAAAG
1 TAAGTAAATGGAATACAAAG
21920421 TAAGTAAATGGA
1 TAAGTAAATGGA
21920433 TTTGCTCATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.50, C:0.02, G:0.27, T:0.21
Consensus pattern (20 bp):
TAAGTAAATGGAATACAAAG
Found at i:21933585 original size:12 final size:11
Alignment explanation
Indices: 21933558--21933595 Score: 53
Period size: 10 Copynumber: 3.5 Consensus size: 11
21933548 GAAAATAGTC
21933558 AAAATTAATA-
1 AAAATTAATAT
21933568 AAAATTAACTAT
1 AAAATTAA-TAT
21933580 AAAATTAAT-T
1 AAAATTAATAT
21933590 AAAATT
1 AAAATT
21933596 CATCATGTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 15 0.58
11 3 0.12
12 8 0.31
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (11 bp):
AAAATTAATAT
Found at i:21940666 original size:15 final size:15
Alignment explanation
Indices: 21940642--21940671 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
21940632 TTCTCGGTTC
*
21940642 ACTAATCCAATTTTT
1 ACTAACCCAATTTTT
21940657 ACTAACCCAATTTTT
1 ACTAACCCAATTTTT
21940672 GGGATGTAAC
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:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
ACTAACCCAATTTTT
Found at i:21943512 original size:47 final size:47
Alignment explanation
Indices: 21943447--21943552 Score: 151
Period size: 47 Copynumber: 2.3 Consensus size: 47
21943437 GTCACAAAAA
* * *
21943447 TGCAGATAATCTGTCACTTAAGA-ATATTGTGGACAAGCCACCATTTT
1 TGCAGATAAACTGGCACTTAAGACA-ATTGTGGACAAGCCACCACTTT
* *
21943494 TGTAGATAAACTGGCACTTAATACAATTGTGGACAAGCCACCACTTT
1 TGCAGATAAACTGGCACTTAAGACAATTGTGGACAAGCCACCACTTT
21943541 TGCAGATAAACT
1 TGCAGATAAACT
21943553 ACCACTTATT
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
47 51 0.98
48 1 0.02
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (47 bp):
TGCAGATAAACTGGCACTTAAGACAATTGTGGACAAGCCACCACTTT
Found at i:21943630 original size:20 final size:20
Alignment explanation
Indices: 21943605--21943644 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
21943595 ATGTGGCCAA
21943605 AAAAAT-AACATTTTCACTTT
1 AAAAATCAA-ATTTTCACTTT
21943625 AAAAATCAAATTTTCACTTT
1 AAAAATCAAATTTTCACTTT
21943645 GTCATGTAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.89
21 2 0.11
ACGTcount: A:0.45, C:0.15, G:0.00, T:0.40
Consensus pattern (20 bp):
AAAAATCAAATTTTCACTTT
Found at i:21945422 original size:27 final size:26
Alignment explanation
Indices: 21945379--21945649 Score: 292
Period size: 27 Copynumber: 10.1 Consensus size: 26
21945369 CAATATCTTC
*
21945379 ACCGAAATACCCTCATAGAGTAAAATG
1 ACCGAAATACCC-CATAGGGTAAAATG
* * *
21945406 ACCGAAATACCTCCATAGGTTATAATT
1 ACCGAAATACC-CCATAGGGTAAAATG
21945433 ACCGAAATACCCTCATAGGGTAAAATG
1 ACCGAAATACCC-CATAGGGTAAAATG
**
21945460 ATTGAAATACCCCCATAGGGTAAAATG
1 ACCGAAATA-CCCCATAGGGTAAAATG
**
21945487 ACTAAAATACCCTCATAGGGTAAAATG
1 ACCGAAATACCC-CATAGGGTAAAATG
** *
21945514 ACTAAAAT-CCCTTATAGGGTAAAATG
1 ACCGAAATACCC-CATAGGGTAAAATG
*
21945540 ACTGAAATACCCCTATAGGGTAAAATG
1 ACCGAAATACCCC-ATAGGGTAAAATG
*
21945567 ACTGAAATACCCCCATAGGGTAAAATG
1 ACCGAAATA-CCCCATAGGGTAAAATG
* *
21945594 ATCGAAATACCCCCATAGGGTAAAATA
1 ACCGAAATA-CCCCATAGGGTAAAATG
* *
21945621 ATCGAAATACCCCTATAAGGTAAAATG
1 ACCGAAATACCCC-ATAGGGTAAAATG
21945648 AC
1 AC
21945650 TGTAATTGAT
Statistics
Matches: 216, Mismatches: 20, Indels: 16
0.86 0.08 0.06
Matches are distributed among these distances:
26 32 0.15
27 176 0.81
28 8 0.04
ACGTcount: A:0.42, C:0.20, G:0.16, T:0.22
Consensus pattern (26 bp):
ACCGAAATACCCCATAGGGTAAAATG
Found at i:21945467 original size:54 final size:54
Alignment explanation
Indices: 21945379--21945649 Score: 341
Period size: 54 Copynumber: 5.0 Consensus size: 54
21945369 CAATATCTTC
* * * * * *
21945379 ACCGAAATACCCTCATAGAGTAAAATGACCGAAATACCTCCATAGGTTATAATT
1 ACCGAAATACCCTCATAGGGTAAAATGACTGAAATACCCCCATAGGGTAAAATG
*
21945433 ACCGAAATACCCTCATAGGGTAAAATGATTGAAATACCCCCATAGGGTAAAATG
1 ACCGAAATACCCTCATAGGGTAAAATGACTGAAATACCCCCATAGGGTAAAATG
** * **
21945487 ACTAAAATACCCTCATAGGGTAAAATGACTAAAAT-CCCTTATAGGGTAAAATG
1 ACCGAAATACCCTCATAGGGTAAAATGACTGAAATACCCCCATAGGGTAAAATG
*
21945540 ACTGAAATACCC-CTATAGGGTAAAATGACTGAAATACCCCCATAGGGTAAAATG
1 ACCGAAATACCCTC-ATAGGGTAAAATGACTGAAATACCCCCATAGGGTAAAATG
* * * * *
21945594 ATCGAAATACCCCCATAGGGTAAAAT-AATCGAAATACCCCTATAAGGTAAAATG
1 ACCGAAATACCCTCATAGGGTAAAATGACT-GAAATACCCCCATAGGGTAAAATG
21945648 AC
1 AC
21945650 TGTAATTGAT
Statistics
Matches: 190, Mismatches: 23, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
52 1 0.01
53 49 0.26
54 139 0.73
55 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.16, T:0.22
Consensus pattern (54 bp):
ACCGAAATACCCTCATAGGGTAAAATGACTGAAATACCCCCATAGGGTAAAATG
Found at i:21945643 original size:134 final size:135
Alignment explanation
Indices: 21945383--21945650 Score: 373
Period size: 134 Copynumber: 2.0 Consensus size: 135
21945373 ATCTTCACCG
* * * *
21945383 AAATACCCTCATAGAGTAAAATGACCGAAATACCTCCATAGGTTATAATTACCGAAATACCCTCA
1 AAATACCCTCATAGAGTAAAATGACCGAAATACCTCCATAGGGTAAAATGACCGAAATACCCCCA
* * *
21945448 TAGGGTAAAATGATTGAAATACCCCCATAGGGTAAAATGACTAAAATACCCTCATAGGGTAAAAT
66 TAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATAACTAAAATACCCTCATAAGGTAAAAT
21945513 GACTA
131 GACTA
* * * *
21945518 AAAT-CCCTTATAGGGTAAAATGACTGAAATACC-CCTATAGGGTAAAATGACTGAAATACCCCC
1 AAATACCCTCATAGAGTAAAATGACCGAAATACCTCC-ATAGGGTAAAATGACCGAAATACCCCC
*
21945581 ATAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATAA-TCGAAATACCC-CTATAAGGTAA
65 ATAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATAACT-AAAATACCCTC-ATAAGGTAA
21945644 AATGACT
128 AATGACT
21945651 GTAATTGATA
Statistics
Matches: 118, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
133 4 0.03
134 110 0.93
135 4 0.03
ACGTcount: A:0.42, C:0.20, G:0.16, T:0.22
Consensus pattern (135 bp):
AAATACCCTCATAGAGTAAAATGACCGAAATACCTCCATAGGGTAAAATGACCGAAATACCCCCA
TAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATAACTAAAATACCCTCATAAGGTAAAAT
GACTA
Found at i:21946265 original size:42 final size:42
Alignment explanation
Indices: 21946164--21946246 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
21946154 AATATGTGTG
*
21946164 AAACGTTTGAAATTCAAACATTTGAACTCTTGTTCTTATCCA
1 AAACATTTGAAATTCAAACATTTGAACTCTTGTTCTTATCCA
21946206 AAACATTTGAAATTCAAACATTTGAACTCTTGTTCTTATCC
1 AAACATTTGAAATTCAAACATTTGAACTCTTGTTCTTATCC
21946247 CTTTGAATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.34, C:0.19, G:0.08, T:0.39
Consensus pattern (42 bp):
AAACATTTGAAATTCAAACATTTGAACTCTTGTTCTTATCCA
Found at i:21947309 original size:26 final size:26
Alignment explanation
Indices: 21947247--21947310 Score: 74
Period size: 26 Copynumber: 2.5 Consensus size: 26
21947237 TACTGGTAGA
21947247 TTTGCTACGATACTAATACTAGAAGC
1 TTTGCTACGATACTAATACTAGAAGC
* * * * *
21947273 TCTACTACGATGCTATTACTAGCAGC
1 TTTGCTACGATACTAATACTAGAAGC
*
21947299 TTTGCTGCGATA
1 TTTGCTACGATA
21947311 TTGGTGTGTT
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (26 bp):
TTTGCTACGATACTAATACTAGAAGC
Found at i:21947430 original size:28 final size:29
Alignment explanation
Indices: 21947390--21947590 Score: 247
Period size: 28 Copynumber: 7.2 Consensus size: 29
21947380 TTATTACACT
* *
21947390 ACACTG-TTACTGTATTTGACTAAGGCCC
1 ACACTGATTACTGTATTGGGCTAAGGCCC
21947418 ACACTGATT-CTGTATTGGGCTAAGGCCC
1 ACACTGATTACTGTATTGGGCTAAGGCCC
21947446 ACACT-ATTACTGTATTGGGCTAAGGCCC
1 ACACTGATTACTGTATTGGGCTAAGGCCC
* * *
21947474 ACACT-ATTACTCTATTAGGCTAAGGCAC
1 ACACTGATTACTGTATTGGGCTAAGGCCC
* * **
21947502 ACACTAATT-CTGTATTGGACTAAGGCTT
1 ACACTGATTACTGTATTGGGCTAAGGCCC
*
21947530 ACACT-ATTACTGTATTGGGCTATGGCCC
1 ACACTGATTACTGTATTGGGCTAAGGCCC
*
21947558 ACACTG-TTACTATATTGGG-TAAGGCCC
1 ACACTGATTACTGTATTGGGCTAAGGCCC
21947585 ACACTG
1 ACACTG
21947591 TACTGTCACT
Statistics
Matches: 152, Mismatches: 16, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
27 19 0.12
28 128 0.84
29 5 0.03
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (29 bp):
ACACTGATTACTGTATTGGGCTAAGGCCC
Found at i:21947505 original size:84 final size:83
Alignment explanation
Indices: 21947390--21947590 Score: 285
Period size: 84 Copynumber: 2.4 Consensus size: 83
21947380 TTATTACACT
* * *
21947390 ACACTGTTACTGTATTTGACTAAGGCCCACACTGATTCTGTATTGGGCTAAGGCCCACACTATTA
1 ACACTGTTACTATA-TTGGCTAAGGCCCACACTGATTCTGTATTGGACTAAGGCCCACACTATTA
21947455 CTGTATTGGGCTAAGGCCC
65 CTGTATTGGGCTAAGGCCC
* * * * **
21947474 ACACTATTACTCTATTAGGCTAAGGCACACACTAATTCTGTATTGGACTAAGGCTTACACTATTA
1 ACACTGTTACTATATT-GGCTAAGGCCCACACTGATTCTGTATTGGACTAAGGCCCACACTATTA
*
21947539 CTGTATTGGGCTATGGCCC
65 CTGTATTGGGCTAAGGCCC
*
21947558 ACACTGTTACTATATTGGGTAAGGCCCACACTG
1 ACACTGTTACTATATTGGCTAAGGCCCACACTG
21947591 TACTGTCACT
Statistics
Matches: 102, Mismatches: 14, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
83 16 0.16
84 86 0.84
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (83 bp):
ACACTGTTACTATATTGGCTAAGGCCCACACTGATTCTGTATTGGACTAAGGCCCACACTATTAC
TGTATTGGGCTAAGGCCC
Found at i:21964949 original size:17 final size:17
Alignment explanation
Indices: 21964927--21964959 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
21964917 ATTCTTTGAG
21964927 AATTGCCAC-AGCATTTC
1 AATTGCC-CTAGCATTTC
21964944 AATTGCCCTAGCATTT
1 AATTGCCCTAGCATTT
21964960 TTTCATTCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 1 0.07
17 14 0.93
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.33
Consensus pattern (17 bp):
AATTGCCCTAGCATTTC
Found at i:21982588 original size:55 final size:55
Alignment explanation
Indices: 21982527--21982703 Score: 255
Period size: 55 Copynumber: 3.2 Consensus size: 55
21982517 ATATTAAGTC
* * *
21982527 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* *
21982582 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* * * * *
21982637 CGCACACTTAGTGCTACATATTCAATTCGCACACTTAGTGCTACACAATTTAAACC
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAA-TCAAACT
21982693 CGCACACTTAG
1 CGCACACTTAG
21982704 CGCCAATCTC
Statistics
Matches: 110, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
55 94 0.85
56 16 0.15
ACGTcount: A:0.32, C:0.29, G:0.12, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:21982591 original size:28 final size:27
Alignment explanation
Indices: 21982527--21982681 Score: 238
Period size: 27 Copynumber: 5.7 Consensus size: 27
21982517 ATATTAAGTC
* *
21982527 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
21982554 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*
21982582 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
21982609 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
21982637 CGCACACTTAGTGCTACATATTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
21982664 CGCACACTTAGTGCTACA
1 CGCACACTTAGTGCTACA
21982682 CAATTTAAAC
Statistics
Matches: 121, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 69 0.57
28 52 0.43
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:21990756 original size:55 final size:55
Alignment explanation
Indices: 21990695--21990846 Score: 232
Period size: 55 Copynumber: 2.8 Consensus size: 55
21990685 ATATTAAGTC
* * * *
21990695 CGCACACTCAGTGCTATATAAACAACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* *
21990750 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* *
21990805 CGCACACTTAGTGCTACATATTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCT
21990847 GCACAATTTA
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 89 1.00
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:21990757 original size:28 final size:27
Alignment explanation
Indices: 21990695--21990846 Score: 223
Period size: 27 Copynumber: 5.6 Consensus size: 27
21990685 ATATTAAGTC
* * *
21990695 CGCACACTCAGTGCTATATAAACAACT
1 CGCACACTTAGTGCTACATAATCAACT
21990722 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*
21990750 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
21990777 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
21990805 CGCACACTTAGTGCTACATATTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
21990832 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
21990847 GCACAATTTA
Statistics
Matches: 117, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
27 65 0.56
28 52 0.44
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:21997519 original size:26 final size:27
Alignment explanation
Indices: 21997471--21997521 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
21997461 CTCACTGCAA
21997471 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGGCCTCGCCACATATATCTGT
*
21997498 TCTGGT-GCCTTCGTCACA-ATATCT
1 TCTGGTGGCC-TCGCCACATATATCT
21997522 AGCAGCCTCG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.16, C:0.29, G:0.20, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCCTCGCCACATATATCTGT
Found at i:21997590 original size:26 final size:27
Alignment explanation
Indices: 21997561--21997620 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
21997551 CCAAAAATAT
* *
21997561 ATATCTGT-TCTGGTGGCCT-AGCCACA
1 ATATCTGTAACTGGTGACCTCA-CCACA
*
21997587 ATATCTGTAACTGGTGACCTCATCACA
1 ATATCTGTAACTGGTGACCTCACCACA
21997614 ATATCTG
1 ATATCTG
21997621 GCAGCCTTGC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 8 0.28
27 20 0.69
28 1 0.03
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (27 bp):
ATATCTGTAACTGGTGACCTCACCACA
Found at i:22004967 original size:43 final size:44
Alignment explanation
Indices: 22004919--22005075 Score: 182
Period size: 43 Copynumber: 3.7 Consensus size: 44
22004909 ATATGATTTT
*
22004919 GTGTAAGACCATGTCTGGGATGTTGGCATCG-ATTTGAGATTAC
1 GTGTAAGACCATGTCTGGGACGTTGGCATCGTATTTGAGATTAC
* * *
22004962 GTGTAAGACCATGTCTGGGACATCGGCATCGTATTT--GATTTC
1 GTGTAAGACCATGTCTGGGACGTTGGCATCGTATTTGAGATTAC
*
22005004 GTGTAAGACCCTGTCTGGGACAG-TGGCATCGATATTTGAG--TAC
1 GTGTAAGACCATGTCTGGGAC-GTTGGCATCG-TATTTGAGATTAC
* * *
22005047 ATGTAAGACCACGTCGGGGACGTTGGCAT
1 GTGTAAGACCATGTCTGGGACGTTGGCAT
22005076 TGTACAAGCT
Statistics
Matches: 96, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
42 33 0.34
43 58 0.60
44 4 0.04
45 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.29
Consensus pattern (44 bp):
GTGTAAGACCATGTCTGGGACGTTGGCATCGTATTTGAGATTAC
Found at i:22005075 original size:85 final size:84
Alignment explanation
Indices: 22004912--22005067 Score: 208
Period size: 85 Copynumber: 1.8 Consensus size: 84
22004902 TTTTGATATA
* * * *
22004912 TGATTTTGTGTAAGACCATGTCTGGGATGTTGGCATCGATTTGAGATTACGTGTAAGACCATGTC
1 TGATTTCGTGTAAGACCATGTCTGGGAAGTTGGCATCGATTTGAGA-TACATGTAAGACCACGTC
*
22004977 TGGGACATCGGCATCGTATT
65 GGGGACATCGGCATCGTATT
*
22004997 TGATTTCGTGTAAGACCCTGTCTGGGACAG-TGGCATCGATATTTGAG-TACATGTAAGACCACG
1 TGATTTCGTGTAAGACCATGTCTGGGA-AGTTGGCATCG--ATTTGAGATACATGTAAGACCACG
22005060 TCGGGGAC
63 TCGGGGAC
22005068 GTTGGCATTG
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
85 54 0.87
86 1 0.02
87 7 0.11
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (84 bp):
TGATTTCGTGTAAGACCATGTCTGGGAAGTTGGCATCGATTTGAGATACATGTAAGACCACGTCG
GGGACATCGGCATCGTATT
Found at i:22012521 original size:43 final size:41
Alignment explanation
Indices: 22012473--22012626 Score: 175
Period size: 43 Copynumber: 3.6 Consensus size: 41
22012463 ATGTGATTTT
22012473 GTGTAAGACCACGTCTGGGACATTGGCATCGATTTGAGATTAC
1 GTGTAAGACCACGTCTGGGACATTGGCATCGATTT--GATTAC
* *
22012516 GTGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATTTC
1 GTGTAAGACCACGTCTGGGACATTGGCATCG-ATTTGATTAC
* * * *
22012558 GTCTAAGACC-CTATCTGGTACAGTGGCATCGATATTTGATTAC
1 GTGTAAGACCAC-GTCTGGGACATTGGCATCG--ATTTGATTAC
* *
22012601 ATGTAAGACCACGTCTGGGACGTTGG
1 GTGTAAGACCACGTCTGGGACATTGG
22012627 TATTGTACGA
Statistics
Matches: 93, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
42 30 0.32
43 58 0.62
44 5 0.05
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.31
Consensus pattern (41 bp):
GTGTAAGACCACGTCTGGGACATTGGCATCGATTTGATTAC
Found at i:22018904 original size:15 final size:16
Alignment explanation
Indices: 22018868--22018897 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
22018858 ACATATCATT
22018868 TATTTCATTATACCAA
1 TATTTCATTATACCAA
22018884 TATTTCA-TATACCA
1 TATTTCATTATACCA
22018898 TAGTTTCCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.43
Consensus pattern (16 bp):
TATTTCATTATACCAA
Found at i:22033916 original size:17 final size:18
Alignment explanation
Indices: 22033894--22033936 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
22033884 GGTGTATTCA
22033894 GCCAATC-ACAGGTTTAG
1 GCCAATCTACAGGTTTAG
22033911 GCCAATCATTACAGGTTTAG
1 GCCAATC--TACAGGTTTAG
22033931 GCCAAT
1 GCCAAT
22033937 TTTTATAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 7 0.30
20 16 0.70
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (18 bp):
GCCAATCTACAGGTTTAG
Found at i:22050169 original size:3 final size:3
Alignment explanation
Indices: 22050161--22050194 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
22050151 GGATCCCAAA
22050161 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
22050195 TCCCATATAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:22053066 original size:20 final size:21
Alignment explanation
Indices: 22053041--22053082 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
22053031 TGGCATGATT
22053041 AATTTAATCAGT-TTAGGTTG
1 AATTTAATCAGTGTTAGGTTG
**
22053061 AATTTAATTTGTGTTAGGTTG
1 AATTTAATCAGTGTTAGGTTG
22053082 A
1 A
22053083 TTGCATTTCG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.29, C:0.02, G:0.21, T:0.48
Consensus pattern (21 bp):
AATTTAATCAGTGTTAGGTTG
Found at i:22057875 original size:50 final size:50
Alignment explanation
Indices: 22057750--22057934 Score: 198
Period size: 50 Copynumber: 3.7 Consensus size: 50
22057740 GATAATAACA
* * *
22057750 TGCCAAAGCCATGTCCCAGACATGGTCTTACAT-GGATGTT-TCTTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATAT-CGG
* * *
22057798 TGCCAATCCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
* ** ** *
22057848 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
* *
22057898 TGCCAACGCCATGTCTCAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
22057935 TCTCTTTACC
Statistics
Matches: 113, Mismatches: 20, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
48 33 0.29
49 7 0.06
50 73 0.65
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
Found at i:22076093 original size:24 final size:24
Alignment explanation
Indices: 22076052--22076102 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
22076042 GAGGAATAAT
*
22076052 TGGTTGCTTCATCCACAACCTACA
1 TGGTTGCTTCATCAACAACCTACA
* * *
22076076 TGGTTGTTTCGTCAACAACTTACA
1 TGGTTGCTTCATCAACAACCTACA
22076100 TGG
1 TGG
22076103 CAGCTTGTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (24 bp):
TGGTTGCTTCATCAACAACCTACA
Found at i:22077127 original size:15 final size:15
Alignment explanation
Indices: 22077107--22077139 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
22077097 TACTTATACT
*
22077107 TGAAACTTTAGATTA
1 TGAAACTTTAGACTA
22077122 TGAAACTTTAGACTA
1 TGAAACTTTAGACTA
22077137 TGA
1 TGA
22077140 GATTAAATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.36
Consensus pattern (15 bp):
TGAAACTTTAGACTA
Found at i:22101011 original size:24 final size:24
Alignment explanation
Indices: 22100979--22101027 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
22100969 GAGGAAGAAT
*
22100979 TGGTGGCTTCATCCACAACCTACA
1 TGGTAGCTTCATCCACAACCTACA
*
22101003 TGGTAGCTTCGTCCACAACCTACA
1 TGGTAGCTTCATCCACAACCTACA
22101027 T
1 T
22101028 ACAGCTTGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (24 bp):
TGGTAGCTTCATCCACAACCTACA
Found at i:22104284 original size:39 final size:40
Alignment explanation
Indices: 22104193--22104411 Score: 258
Period size: 39 Copynumber: 5.5 Consensus size: 40
22104183 ATGATGTCCA
*
22104193 GGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT-TCCG
* *
22104232 GACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTCTG
1 GGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAATTCCG
22104272 GGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATTCCG
*
22104311 GGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATTCCG
* *
22104350 GGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT-TCCG
*
22104390 GGCTATGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
22104412 AACGAGGAGC
Statistics
Matches: 160, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
39 90 0.56
40 58 0.36
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATTCCG
Found at i:22104326 original size:78 final size:80
Alignment explanation
Indices: 22104193--22104411 Score: 263
Period size: 79 Copynumber: 2.8 Consensus size: 80
22104183 ATGATGTCCA
* * * * *
22104193 GGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATATCCGGACTAAGAT-CCGAAGGCATTTGT
1 GGCTAAGTCCCGAAGGCATTTGTGCGAA-TTACTATAACCGGGCTAAG-TCCCGAAGGCATTTGT
* *
22104255 GCGAGATACTAATTCTG
64 GCGAGATACTAAATCCG
*
22104272 GGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTA-ATTCCGGGCTAAG-CCCGAAGGCATTTGT
1 GGCTAAGTCCCGAAGGCATTTGTGCGA-ATTACTATA-ACCGGGCTAAGTCCCGAAGGCATTTGT
22104333 GCGAGATACTAAATCCG
64 GCGAGATACTAAATCCG
* *
22104350 GGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTATGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
22104412 AACGAGGAGC
Statistics
Matches: 122, Mismatches: 9, Indels: 17
0.82 0.06 0.11
Matches are distributed among these distances:
78 46 0.38
79 53 0.43
80 22 0.18
81 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (80 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGC
GAGATACTAAATCCG
Found at i:22104442 original size:79 final size:79
Alignment explanation
Indices: 22104241--22104444 Score: 211
Period size: 79 Copynumber: 2.6 Consensus size: 79
22104231 GGACTAAGAT
** * * * *
22104241 CCGAAGGCATTTGTGCGAGATACTAATTCTGGGCT-AAGCCCGAAGGCATTTGTGCGAGATACTA
1 CCGAAGGCATTTGAACGAGATACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGATACTA
*
22104305 ATTCCGGGCTAAGC
66 ATACCGGGCTAAGC
** *
22104319 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT
1 CCGAAGGCATTTGAACGAGATACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGA-TACT
*
22104383 -ATAACCGGGCTATGTC
65 AAT-ACCGGGCTAAG-C
* * *
22104399 CCGAAGGCATTTGAACGAGGA-GCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGA-GATACTAAATCCGGGTTAAATCCCGAAGG
22104445 TACTTGATTT
Statistics
Matches: 108, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
78 35 0.32
79 47 0.44
80 24 0.22
81 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGATACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGATACTA
ATACCGGGCTAAGC
Found at i:22112254 original size:39 final size:39
Alignment explanation
Indices: 22112206--22112412 Score: 298
Period size: 39 Copynumber: 5.3 Consensus size: 39
22112196 GGACTAAGAT
22112206 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
22112245 CCGAAGGCATTTGTGCGAGATACTAATT--GGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
*
22112282 CCGAAGGCATTTGTGCGAGATGCTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
* *
22112321 CCGAAGGCATTTGTGCGAG-TACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-C
* *
22112360 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-TCCGGGCTAAG-C
22112400 CCGAAGGCATTTG
1 CCGAAGGCATTTG
22112413 AACGAGGAGC
Statistics
Matches: 154, Mismatches: 8, Indels: 11
0.89 0.05 0.06
Matches are distributed among these distances:
37 36 0.23
38 15 0.10
39 76 0.49
40 27 0.18
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
Found at i:22112294 original size:76 final size:78
Alignment explanation
Indices: 22112155--22112412 Score: 302
Period size: 76 Copynumber: 3.3 Consensus size: 78
22112145 TTGAATGATG
* *
22112155 TCCGGGCTAAGTCCCGAAGG---TTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGCA
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGT-ACTAA-ATCCGGGCTAAG-TCCCGAAGGCA
22112215 TTTGTGCGAGATACTAAT
61 TTTGTGCGAGATACTAAT
*
22112233 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACT-AAT-TGGGCTAAG-CCCGAAGGCATTTG
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAG-TACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
*
22112295 TGCGAGATGCTAAT
65 TGCGAGATACTAAT
*
22112309 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGT
22112374 GCGA-ATTACT-AT
66 GCGAGA-TACTAAT
* *
22112386 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAG-CCCGAAGGCATTTG
22112413 AACGAGGAGC
Statistics
Matches: 159, Mismatches: 9, Indels: 23
0.83 0.05 0.12
Matches are distributed among these distances:
75 4 0.03
76 60 0.38
77 25 0.16
78 44 0.28
79 19 0.12
80 7 0.04
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (78 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGT
GCGAGATACTAAT
Found at i:22112426 original size:40 final size:39
Alignment explanation
Indices: 22112156--22112412 Score: 232
Period size: 39 Copynumber: 6.6 Consensus size: 39
22112146 TGAATGATGT
* * *
22112156 CCGGGCTAAGTCCCGAAGG---TTGTGCTAAGTGACAATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGT-ACTATAA
* *
22112194 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAG-TACTATA-A
22112234 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAG-A-TACTAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTA-TAA
** * *
22112271 TTGGGCTAAG-CCCGAAGGCATTTGTGCGAGATGCTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATA-A
22112310 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATAA
* *
22112347 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTACTATAA
*
22112388 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
22112413 AACGAGGAGC
Statistics
Matches: 185, Mismatches: 17, Indels: 32
0.79 0.07 0.14
Matches are distributed among these distances:
36 2 0.01
37 29 0.16
38 32 0.17
39 67 0.36
40 46 0.25
41 9 0.05
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATAA
Found at i:22114856 original size:25 final size:26
Alignment explanation
Indices: 22114820--22114868 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
22114810 GAAGGTTTTC
22114820 GAAATAATAAAAAA-TCAAAAAAACT
1 GAAATAATAAAAAATTCAAAAAAACT
*
22114845 GAAATGAA-AAAAAATTCGAAAAAA
1 GAAAT-AATAAAAAATTCAAAAAAA
22114869 TTCTGAAGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.71, C:0.06, G:0.08, T:0.14
Consensus pattern (26 bp):
GAAATAATAAAAAATTCAAAAAAACT
Found at i:22117476 original size:29 final size:29
Alignment explanation
Indices: 22117444--22117539 Score: 138
Period size: 29 Copynumber: 3.3 Consensus size: 29
22117434 AACTCTACAT
* *
22117444 ACATGCATATGGCCCACTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
**
22117473 ACATTTGTATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
**
22117502 ACATTTGTATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
22117531 ACATTCATA
1 ACATTCATA
22117540 CATGCTTTCA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 61 1.00
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:22133420 original size:101 final size:101
Alignment explanation
Indices: 22133305--22133527 Score: 258
Period size: 101 Copynumber: 2.2 Consensus size: 101
22133295 GCATGGACTG
* * *
22133305 TGTGTAGGCCACTATGTGAAAGTGAAAG-TGAT-GGTTACGTGTGTAGTACTATGTGCAGGCTAC
1 TGTGTAGGCTACTATGTGAAAG-GAAAGCT--TCGATTACGTGTGCAGTACTATGTGCAGGCTAC
*
22133368 TACGTGTACCAGA-A-TGATAGGTCGCATGTGTAGTACTA
63 TACGTGTACCAGATAGTGAT-GGTCACATGTGTAGTACTA
* ** *
22133406 TGTGTAGGCTACTATGCGTATCGGATAGCTTCGATTACGTGTGCAGTACTATGTGCAGGCTACTA
1 TGTGTAGGCTACTATGTG-AAAGGAAAGCTTCGATTACGTGTGCAGTACTATGTGCAGGCTACTA
* * *
22133471 CGTGTATCAGATAGTGATGGTCACATGTTTAGTCCTA
65 CGTGTACCAGATAGTGATGGTCACATGTGTAGTACTA
22133508 TGT-TCAGGCTACTATGTGAA
1 TGTGT-AGGCTACTATGTGAA
22133528 CCGATATCAT
Statistics
Matches: 103, Mismatches: 13, Indels: 12
0.80 0.10 0.09
Matches are distributed among these distances:
100 1 0.01
101 63 0.61
102 35 0.34
103 4 0.04
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.32
Consensus pattern (101 bp):
TGTGTAGGCTACTATGTGAAAGGAAAGCTTCGATTACGTGTGCAGTACTATGTGCAGGCTACTAC
GTGTACCAGATAGTGATGGTCACATGTGTAGTACTA
Found at i:22133509 original size:51 final size:51
Alignment explanation
Indices: 22133331--22133521 Score: 194
Period size: 51 Copynumber: 3.8 Consensus size: 51
22133321 TGAAAGTGAA
* * *
22133331 AGTGATGGTTACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-
1 AGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGAT
* * * * *
22133381 A-TGATAGGTCGCATGTGTAGTACTATGTGTAGGCTACTATGCGTATCGGAT
1 AGTGAT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGAT
* *
22133432 AGCTTCGAT--T-ACGTGTGCAGTACTATGTGCAGGCTACTACGTGTATCAGAT
1 AG--T-GATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGAT
* * *
22133483 AGTGATGGTCACATGTTTAGTCCTATGTTCAGGCTACTA
1 AGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
22133522 TGTGAACCGA
Statistics
Matches: 112, Mismatches: 20, Indels: 17
0.75 0.13 0.11
Matches are distributed among these distances:
48 3 0.03
49 5 0.04
50 38 0.34
51 61 0.54
52 1 0.01
54 1 0.01
55 3 0.03
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (51 bp):
AGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGAT
Found at i:22133768 original size:16 final size:16
Alignment explanation
Indices: 22133747--22133778 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
22133737 TGATTGAACG
*
22133747 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
22133763 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
22133779 GCAACAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:22145503 original size:13 final size:12
Alignment explanation
Indices: 22145474--22145502 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
22145464 AAGAAAAAGC
22145474 AAAAACCGCAAA
1 AAAAACCGCAAA
22145486 AAAAACCGCAAA
1 AAAAACCGCAAA
22145498 AAAAA
1 AAAAA
22145503 AGTTGCCTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.72, C:0.21, G:0.07, T:0.00
Consensus pattern (12 bp):
AAAAACCGCAAA
Found at i:22152095 original size:17 final size:17
Alignment explanation
Indices: 22152073--22152105 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
22152063 ATTCTTTGAG
22152073 AATTGCCAC-AGCATTTC
1 AATTGCC-CTAGCATTTC
22152090 AATTGCCCTAGCATTT
1 AATTGCCCTAGCATTT
22152106 TTTACTCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 1 0.07
17 14 0.93
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.33
Consensus pattern (17 bp):
AATTGCCCTAGCATTTC
Found at i:22153838 original size:20 final size:20
Alignment explanation
Indices: 22153804--22153843 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
22153794 GAACTTTGTC
*
22153804 CAAAAATTTTCTAAG-TGTT
1 CAAAAATTATCTAAGATGTT
22153823 CAAAACATTATCTAAGATGTT
1 CAAAA-ATTATCTAAGATGTT
22153844 TGGAAGTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 9 0.50
21 4 0.22
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (20 bp):
CAAAAATTATCTAAGATGTT
Found at i:22158275 original size:57 final size:57
Alignment explanation
Indices: 22158185--22158298 Score: 194
Period size: 57 Copynumber: 2.0 Consensus size: 57
22158175 AAAATCTAGA
*
22158185 ATGTTTTGAAAATTGAGGGGGATTGTTGAAACATTTTCAAAATAATATACAATATTC
1 ATGTTTTGAAAATTGAGGGAGATTGTTGAAACATTTTCAAAATAATATACAATATTC
*
22158242 ATGTTTTGAAAATTG-GAGGAGATTGTTGGAACATTTTCAAAATAATATACAATATTC
1 ATGTTTTGAAAATTGAG-GGAGATTGTTGAAACATTTTCAAAATAATATACAATATTC
22158299 CTATAGTTGC
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
56 1 0.02
57 53 0.98
ACGTcount: A:0.39, C:0.07, G:0.18, T:0.37
Consensus pattern (57 bp):
ATGTTTTGAAAATTGAGGGAGATTGTTGAAACATTTTCAAAATAATATACAATATTC
Found at i:22167545 original size:22 final size:24
Alignment explanation
Indices: 22167497--22167547 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
22167487 TAGGGCCAGT
22167497 CCAACAGCTAGAAACTGCCATAAG
1 CCAACAGCTAGAAACTGCCATAAG
*
22167521 CCAACAGCTAGAAAC-GGC-TAAG
1 CCAACAGCTAGAAACTGCCATAAG
22167543 CCAAC
1 CCAAC
22167548 CAACGATCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 9 0.35
23 2 0.08
24 15 0.58
ACGTcount: A:0.41, C:0.31, G:0.18, T:0.10
Consensus pattern (24 bp):
CCAACAGCTAGAAACTGCCATAAG
Found at i:22168347 original size:87 final size:86
Alignment explanation
Indices: 22168195--22168358 Score: 224
Period size: 87 Copynumber: 1.9 Consensus size: 86
22168185 TTTAAATTTA
*
22168195 GTGAATTCATCAATTCTGTCTCAATAGGACCACCCAAACTTTGGGATATGAACTCGTTAAAAGTA
1 GTGAATTCATCAATTCTGTCTCAATAGGACCACCCAAACTTTGGGATATGAACTCATTAAAAGTA
22168260 AGAAACTCAACCTCATATGTCG
66 A-AAACTCAACCTCATATGTCG
* * * * *
22168282 GTGAATTCATCAAGTT-TGTCTTAATAGGACCACCTAAA-TTCTGGGCTATGAATTCATTAAGAG
1 GTGAATTCATCAA-TTCTGTCTCAATAGGACCACCCAAACTT-TGGGATATGAACTCATTAAAAG
*
22168345 TAAAAACTTAACCT
64 TAAAAACTCAACCT
22168359 TCTGCATGTA
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
86 12 0.18
87 54 0.79
88 2 0.03
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.30
Consensus pattern (86 bp):
GTGAATTCATCAATTCTGTCTCAATAGGACCACCCAAACTTTGGGATATGAACTCATTAAAAGTA
AAAACTCAACCTCATATGTCG
Found at i:22171456 original size:23 final size:22
Alignment explanation
Indices: 22171421--22171470 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
22171411 AAAATGAACA
22171421 AAACAAAACAAAAATAAAAAAT
1 AAACAAAACAAAAATAAAAAAT
* * *
22171443 AAACTAAACTAAAAATTATAAAT
1 AAACAAAAC-AAAAATAAAAAAT
22171466 AAACA
1 AAACA
22171471 TGCCTAGAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 8 0.35
23 15 0.65
ACGTcount: A:0.74, C:0.10, G:0.00, T:0.16
Consensus pattern (22 bp):
AAACAAAACAAAAATAAAAAAT
Found at i:22176195 original size:31 final size:30
Alignment explanation
Indices: 22176128--22176195 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 30
22176118 CTCAAGCACG
*
22176128 TAGAAAACATGCAAATAAAAATAAAACAAA
1 TAGAAAACATGAAAATAAAAATAAAACAAA
*
22176158 TTGAAAACTACTGAAAAT-AAAATAAAA-ATAA
1 TAGAAAAC-A-TGAAAATAAAAATAAAACA-AA
22176189 TAGAAAA
1 TAGAAAA
22176196 AATTAAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
30 8 0.25
31 18 0.56
32 6 0.19
ACGTcount: A:0.68, C:0.07, G:0.07, T:0.18
Consensus pattern (30 bp):
TAGAAAACATGAAAATAAAAATAAAACAAA
Found at i:22177552 original size:43 final size:43
Alignment explanation
Indices: 22177499--22177705 Score: 227
Period size: 43 Copynumber: 4.8 Consensus size: 43
22177489 TTATGTGGAA
* * *
22177499 AAACGCCGCTATAGAACATGATCTTTAGCGGCGCCTTACATAC
1 AAACACCGCTATAGAACATGATCTTTAGCGGCGCTTTACCTAC
** * * * * *
22177542 AAACGTCGCTATAGAACATGATCTTTAACAGCGTTTTTCCTAT
1 AAACACCGCTATAGAACATGATCTTTAGCGGCGCTTTACCTAC
* * * *
22177585 GAACACCGCTATAGAACATGATATTTAGCGACGCTTTTCCTAC
1 AAACACCGCTATAGAACATGATCTTTAGCGGCGCTTTACCTAC
* * *
22177628 AAACACCGCTATAGAACATTATCTTTAGCGGCGGTTTA-TTAC
1 AAACACCGCTATAGAACATGATCTTTAGCGGCGCTTTACCTAC
* * *
22177670 AAACACCGCTAAAGAACATTATCTTTAGTGGCGCTT
1 AAACACCGCTATAGAACATGATCTTTAGCGGCGCTT
22177706 CTTTTACAAA
Statistics
Matches: 137, Mismatches: 27, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
42 36 0.26
43 101 0.74
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (43 bp):
AAACACCGCTATAGAACATGATCTTTAGCGGCGCTTTACCTAC
Found at i:22177727 original size:43 final size:42
Alignment explanation
Indices: 22177597--22177727 Score: 111
Period size: 43 Copynumber: 3.1 Consensus size: 42
22177587 ACACCGCTAT
* * * * * *
22177597 AGAACATGATATTTAGCGACGCTTT-TCCTACAAACACCGCTAT
1 AGAACATTATCTTTAGCGGCGCTTTAT--TACAAACACCACAAA
* * *
22177640 AGAACATTATCTTTAGCGGCGGTTTATTACAAACACCGCTAA
1 AGAACATTATCTTTAGCGGCGCTTTATTACAAACACCACAAA
* * **
22177682 AGAACATTATCTTTAGTGGCGCTTCTTTTACAAATGCCACAAA
1 AGAACATTATCTTTAGCGGCGCTT-TATTACAAACACCACAAA
22177725 AGA
1 AGA
22177728 CCATGTTCTA
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
42 36 0.49
43 37 0.50
44 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (42 bp):
AGAACATTATCTTTAGCGGCGCTTTATTACAAACACCACAAA
Found at i:22178050 original size:30 final size:30
Alignment explanation
Indices: 22178009--22178076 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
22177999 AACATCTTCG
*
22178009 TCATA-TTTTGAAGCTGTAGCT-GTTGTTCA
1 TCATATTTTTGAAGCTGTAGCTAG-AGTTCA
*
22178038 TCATATTTTTGAAGCTGTAGCTAGAGTTCG
1 TCATATTTTTGAAGCTGTAGCTAGAGTTCA
22178068 TCATATTTT
1 TCATATTTT
22178077 CTTGTTGCCT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
29 5 0.14
30 29 0.83
31 1 0.03
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (30 bp):
TCATATTTTTGAAGCTGTAGCTAGAGTTCA
Found at i:22178104 original size:21 final size:21
Alignment explanation
Indices: 22178078--22178117 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
22178068 TCATATTTTC
22178078 TTGTTGCCTCTGCTGCCCTTG
1 TTGTTGCCTCTGCTGCCCTTG
*
22178099 TTGTTGCCTCTGCTTCCCT
1 TTGTTGCCTCTGCTGCCCT
22178118 CACTGCTGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.00, C:0.35, G:0.20, T:0.45
Consensus pattern (21 bp):
TTGTTGCCTCTGCTGCCCTTG
Found at i:22180563 original size:27 final size:26
Alignment explanation
Indices: 22180533--22180714 Score: 129
Period size: 27 Copynumber: 6.8 Consensus size: 26
22180523 TATAAAAGTC
*
22180533 ATTTTAGCCTATGGGGGTATTTCGATA
1 ATTTTA-CCTATGAGGGTATTTCGATA
* * *
22180560 ATTTTATCCTTTGATGG-ATTTCGGTA
1 ATTTTA-CCTATGAGGGTATTTCGATA
* *
22180586 ATTTTATCCTTTGGGGGTATTTC-AGTA
1 ATTTTA-CCTATGAGGGTATTTCGA-TA
* *
22180613 ATTTTACCTACGAGGGTATTT-TAGTA
1 ATTTTACCTATGAGGGTATTTCGA-TA
* * *
22180639 ATTTTACCTATCAAGGGTATTTTGGTA
1 ATTTTACCTAT-GAGGGTATTTCGATA
* *
22180666 ATTTTACC-ATTCGGGGGTATTTCAATA
1 ATTTTACCTA-T-GAGGGTATTTCGATA
*
22180693 ATTTTACCCATCGAGGGTATTT
1 ATTTTACCTAT-GAGGGTATTT
22180715 TGGTCATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
26 50 0.39
27 76 0.60
28 1 0.01
ACGTcount: A:0.23, C:0.13, G:0.20, T:0.44
Consensus pattern (26 bp):
ATTTTACCTATGAGGGTATTTCGATA
Found at i:22180638 original size:26 final size:27
Alignment explanation
Indices: 22180583--22180715 Score: 146
Period size: 27 Copynumber: 5.0 Consensus size: 27
22180573 ATGGATTTCG
* * *
22180583 GTAATTTTATCCT-TTGGGGGTATTTCA
1 GTAATTTTA-CCTATCGAGGGTATTTTA
22180610 GTAATTTTACCTA-CGAGGGTATTTTA
1 GTAATTTTACCTATCGAGGGTATTTTA
* *
22180636 GTAATTTTACCTATCAAGGGTATTTTG
1 GTAATTTTACCTATCGAGGGTATTTTA
* *
22180663 GTAATTTTACC-ATTCGGGGGTATTTCA
1 GTAATTTTACCTA-TCGAGGGTATTTTA
* *
22180690 ATAATTTTACCCATCGAGGGTATTTT
1 GTAATTTTACCTATCGAGGGTATTTT
22180716 GGTCATTTAA
Statistics
Matches: 90, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
26 27 0.30
27 62 0.69
28 1 0.01
ACGTcount: A:0.24, C:0.13, G:0.20, T:0.44
Consensus pattern (27 bp):
GTAATTTTACCTATCGAGGGTATTTTA
Found at i:22180640 original size:53 final size:51
Alignment explanation
Indices: 22180533--22180700 Score: 149
Period size: 53 Copynumber: 3.2 Consensus size: 51
22180523 TATAAAAGTC
* * * *
22180533 ATTTTAGCCTATGGGGGTATTTCGATAATTTTATCCTTTGATGG-ATTTCGGTA
1 ATTTTA-CCTTTGGGGGTATTTCG-TAATTTTA-CCTTCGAGGGTATTTCAGTA
* *
22180586 ATTTTATCCTTTGGGGGTATTTCAGTAATTTTACCTACGAGGGTATTTTAGTA
1 ATTTTA-CCTTTGGGGGTATTTC-GTAATTTTACCTTCGAGGGTATTTCAGTA
*** * * *
22180639 ATTTTACCTATCAAGGGTATTTTGGTAATTTTACCATTCGGGGGTATTTCAATA
1 ATTTTACCT-TTGGGGGTA-TTTCGTAATTTTACC-TTCGAGGGTATTTCAGTA
22180693 ATTTTACC
1 ATTTTACC
22180701 CATCGAGGGT
Statistics
Matches: 95, Mismatches: 15, Indels: 9
0.80 0.13 0.08
Matches are distributed among these distances:
52 10 0.11
53 59 0.62
54 26 0.27
ACGTcount: A:0.23, C:0.12, G:0.20, T:0.45
Consensus pattern (51 bp):
ATTTTACCTTTGGGGGTATTTCGTAATTTTACCTTCGAGGGTATTTCAGTA
Found at i:22187413 original size:33 final size:34
Alignment explanation
Indices: 22187354--22187441 Score: 153
Period size: 34 Copynumber: 2.6 Consensus size: 34
22187344 ATATAGATTC
22187354 TTTATATTCTTTAAATG-TTATAAATTGCA-TTT
1 TTTATATTCTTTAAATGTTTATAAATTGCATTTT
22187386 TTTATATTCTTTAAATGTTTATAAATTGCATTTT
1 TTTATATTCTTTAAATGTTTATAAATTGCATTTT
*
22187420 TTTATATTCTTTAAATATTTAT
1 TTTATATTCTTTAAATGTTTAT
22187442 GTAAGTTATG
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
32 17 0.32
33 12 0.23
34 24 0.45
ACGTcount: A:0.31, C:0.06, G:0.05, T:0.59
Consensus pattern (34 bp):
TTTATATTCTTTAAATGTTTATAAATTGCATTTT
Found at i:22195627 original size:20 final size:19
Alignment explanation
Indices: 22195569--22195633 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 19
22195559 AATTAGTAAA
22195569 AAAATTATTTATAAAAT-TGT
1 AAAATTATTT-TAAAATAT-T
* *
22195589 AAATTTTACTTTAAAAATATAT
1 AAA-ATTA-TTTTAAAATAT-T
22195611 AAAATTATTTTAAAATATT
1 AAAATTATTTTAAAATATT
22195630 AAAA
1 AAAA
22195634 AATTGTAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
19 5 0.14
20 13 0.35
21 11 0.30
22 8 0.22
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (19 bp):
AAAATTATTTTAAAATATT
Found at i:22195635 original size:21 final size:22
Alignment explanation
Indices: 22195567--22195637 Score: 60
Period size: 21 Copynumber: 3.4 Consensus size: 22
22195557 AAAATTAGTA
*
22195567 AAAAAATTATTTATAAAAT-TGT
1 AAAAAATTATTT-TAAAATATAT
** *
22195589 -AAATTTTACTTTAAAA-ATAT
1 AAAAAATTATTTTAAAATATAT
*
22195609 ATAAAATTATTTTAAAATAT-T
1 AAAAAATTATTTTAAAATATAT
22195630 AAAAAATT
1 AAAAAATT
22195638 GTAAAAGTTA
Statistics
Matches: 37, Mismatches: 9, Indels: 7
0.70 0.17 0.13
Matches are distributed among these distances:
20 7 0.19
21 28 0.76
22 2 0.05
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (22 bp):
AAAAAATTATTTTAAAATATAT
Found at i:22195642 original size:18 final size:20
Alignment explanation
Indices: 22195602--22195643 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 20
22195592 TTTTACTTTA
* *
22195602 AAAATATATAAAATTATTTT
1 AAAATATATAAAATAATTGT
22195622 AAAATAT-TAAAA-AATTGT
1 AAAATATATAAAATAATTGT
22195640 AAAA
1 AAAA
22195644 GTTATTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 8 0.40
19 5 0.25
20 7 0.35
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (20 bp):
AAAATATATAAAATAATTGT
Found at i:22208756 original size:43 final size:41
Alignment explanation
Indices: 22208676--22208759 Score: 116
Period size: 43 Copynumber: 2.0 Consensus size: 41
22208666 TTTTATCCTA
* *
22208676 GAAAAAATGAATTTAAAAAGAGAAGATAATCTTGGGTTGTT
1 GAAAAAATGAATTTAAAAAGAGAAGATAAACATGGGTTGTT
22208717 GAAAAAA-GAATTTAAAAAGAGGAGAAGATAAACATGGGTTGTT
1 GAAAAAATGAATTT-AAAA-A-GAGAAGATAAACATGGGTTGTT
22208760 CGATTTACCT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
40 6 0.16
41 11 0.29
42 1 0.03
43 20 0.53
ACGTcount: A:0.49, C:0.02, G:0.24, T:0.25
Consensus pattern (41 bp):
GAAAAAATGAATTTAAAAAGAGAAGATAAACATGGGTTGTT
Found at i:22209149 original size:111 final size:111
Alignment explanation
Indices: 22208955--22209162 Score: 398
Period size: 111 Copynumber: 1.9 Consensus size: 111
22208945 TATTTTTAGG
* *
22208955 AAGCAAGACCTACTATGGTTACGTTGCAACTAGCCAATCGATCCTATGCTCATCCGAAAGGTAAA
1 AAGCAAGACCTACTATGGTTACATTGCAACTAGCCAATCAATCCTATGCTCATCCGAAAGGTAAA
22209020 ATTGAAGACGTACTGGTAAGGGTAGATAAATTGAAGACATACTGGA
66 ATTGAAGACGTACTGGTAAGGGTAGATAAATTGAAGACATACTGGA
22209066 AAGCAAGACCTACTATGGTTACATTGCAACTAGCCAATCAATCCTATGCTCATCCGAAAGGTAAA
1 AAGCAAGACCTACTATGGTTACATTGCAACTAGCCAATCAATCCTATGCTCATCCGAAAGGTAAA
22209131 ATTGAAGACGTACTGGTAAGGGTAGATAAATT
66 ATTGAAGACGTACTGGTAAGGGTAGATAAATT
22209163 TATCTTCCCT
Statistics
Matches: 95, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
111 95 1.00
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (111 bp):
AAGCAAGACCTACTATGGTTACATTGCAACTAGCCAATCAATCCTATGCTCATCCGAAAGGTAAA
ATTGAAGACGTACTGGTAAGGGTAGATAAATTGAAGACATACTGGA
Found at i:22211410 original size:23 final size:23
Alignment explanation
Indices: 22211383--22211429 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
22211373 CATAAGACTA
22211383 TGAACTACTCCCTTTACTTACTT
1 TGAACTACTCCCTTTACTTACTT
22211406 TGAACTACTCCCTTTACTTACTT
1 TGAACTACTCCCTTTACTTACTT
22211429 T
1 T
22211430 CCATTCCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.21, C:0.30, G:0.04, T:0.45
Consensus pattern (23 bp):
TGAACTACTCCCTTTACTTACTT
Found at i:22222586 original size:31 final size:31
Alignment explanation
Indices: 22222543--22222615 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 31
22222533 ATAAATCTCT
* * *
22222543 AAAATTTTTAAAATTTTTAATTAAAA-CTATA
1 AAAAATTTTAAAAGTTATAATTAAAACCT-TA
* *
22222574 AAAAATTTTAAAAGTTATCATTAAAACCTTC
1 AAAAATTTTAAAAGTTATAATTAAAACCTTA
22222605 AAAAATTTTAA
1 AAAAATTTTAA
22222616 TTAAAATTTC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
31 34 0.94
32 2 0.06
ACGTcount: A:0.52, C:0.07, G:0.01, T:0.40
Consensus pattern (31 bp):
AAAAATTTTAAAAGTTATAATTAAAACCTTA
Found at i:22222628 original size:21 final size:21
Alignment explanation
Indices: 22222575--22222628 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
22222565 AAAACTATAA
* * *
22222575 AAAATTTTAAAAGTTATCATT
1 AAAATTTCAAAAATTATAATT
* *
22222596 AAAACCTTCAAAAATTTTAATT
1 AAAA-TTTCAAAAATTATAATT
22222618 AAAATTTCAAA
1 AAAATTTCAAA
22222629 CTTAACACCA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 10 0.38
22 16 0.62
ACGTcount: A:0.52, C:0.09, G:0.02, T:0.37
Consensus pattern (21 bp):
AAAATTTCAAAAATTATAATT
Found at i:22223308 original size:18 final size:19
Alignment explanation
Indices: 22223285--22223320 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
22223275 CCTGGGAGGA
*
22223285 ATTGGGGTTGGT-TTGGGT
1 ATTGGGCTTGGTCTTGGGT
22223303 ATTGGGCTTGGTCTTGGG
1 ATTGGGCTTGGTCTTGGG
22223321 CTTGGTGGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.06, C:0.06, G:0.47, T:0.42
Consensus pattern (19 bp):
ATTGGGCTTGGTCTTGGGT
Found at i:22223485 original size:12 final size:12
Alignment explanation
Indices: 22223468--22223496 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
22223458 TTCATCAGCC
22223468 GGGTCGAGAGCT
1 GGGTCGAGAGCT
22223480 GGGTCGAGAGCT
1 GGGTCGAGAGCT
22223492 GGGTC
1 GGGTC
22223497 AGGTGGAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.14, C:0.17, G:0.52, T:0.17
Consensus pattern (12 bp):
GGGTCGAGAGCT
Found at i:22224915 original size:7 final size:7
Alignment explanation
Indices: 22224903--22224950 Score: 53
Period size: 7 Copynumber: 6.7 Consensus size: 7
22224893 AAACAATTCG
22224903 AAAATTA
1 AAAATTA
22224910 AAAATTA
1 AAAATTA
22224917 ACAAA-TA
1 A-AAATTA
22224924 AAAATTA
1 AAAATTA
*
22224931 AAAATAA
1 AAAATTA
*
22224938 AAGAAATA
1 AA-AATTA
22224946 AAAAT
1 AAAAT
22224951 ATTGTATCTA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
6 3 0.09
7 23 0.68
8 8 0.24
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (7 bp):
AAAATTA
Found at i:22224928 original size:21 final size:22
Alignment explanation
Indices: 22224903--22224950 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
22224893 AAACAATTCG
*
22224903 AAAATTAAAAAT-TAACAAATA
1 AAAATTAAAAATAAAACAAATA
*
22224924 AAAATTAAAAATAAAAGAAATA
1 AAAATTAAAAATAAAACAAATA
22224946 AAAAT
1 AAAAT
22224951 ATTGTATCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (22 bp):
AAAATTAAAAATAAAACAAATA
Found at i:22232577 original size:151 final size:149
Alignment explanation
Indices: 22232233--22232633 Score: 480
Period size: 151 Copynumber: 2.7 Consensus size: 149
22232223 CGGCTGAGAG
* * *
22232233 ACACGCCCATGTCTCAGGCCTTGTAACCTTCGAACTAGGGACACACGACCGTGTCCCAACTCGTG
1 ACACGCCCGTGTCTCAGG-CTTGTAACCTTCGAACTAGGGACACAAGGCCGTGTCCCAACTCGTG
* * * *
22232298 TGCTCACCCGTGTAACTTACTGAGTAGGGTCACACGGACATGCCGCACGCCGTGTGCCAAGCCAT
65 TCCTCACTCGTGTAACTCACTGAGTAGGGTCACACGGACATGCCACACGCCGTGTGCCAAGCCAT
22232363 GTAACTCTATAACTTGCCCC
130 GTAACTCTATAACTTGCCCC
* * ** * *
22232383 GCACGCCCGTGTCTTAGGCCGCGTAACCTTCGAACTATGGACACAAGGCCGTCTCCCAACTCGTG
1 ACACGCCCGTGTCTCAGG-CTTGTAACCTTCGAACTAGGGACACAAGGCCGTGTCCCAACTCGTG
* * * * *
22232448 TCCTCATTTGTGTAACTCACTGAGTAGGGTCACATGGCCATGTCACACGCCTGTGTGCCAAGCCA
65 TCCTCACTCGTGTAACTCACTGAGTAGGGTCACACGGACATGCCACACGCC-GTGTGCCAAGCCA
* ** *
22232513 TGTAACTCTCTAGGTTTCCCC
129 TGTAACTCTATAACTTGCCCC
* * ** *
22232534 ACATGCCCGTGTCTCAGGCTATGTAACCTTCGAATTAGGGACACACA-GCTATGTTCCAACTCGT
1 ACACGCCCGTGTCTCAGGCT-TGTAACCTTCGAACTAGGGACACA-AGGCCGTGTCCCAACTCGT
* * *
22232598 GTCCTCAGTCCTGTAACTCATTGAGTAGGGTCACAC
64 GTCCTCACTCGTGTAACTCACTGAGTAGGGTCACAC
22232634 AGCCGTGTCA
Statistics
Matches: 210, Mismatches: 38, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
150 99 0.47
151 110 0.52
152 1 0.00
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.24
Consensus pattern (149 bp):
ACACGCCCGTGTCTCAGGCTTGTAACCTTCGAACTAGGGACACAAGGCCGTGTCCCAACTCGTGT
CCTCACTCGTGTAACTCACTGAGTAGGGTCACACGGACATGCCACACGCCGTGTGCCAAGCCATG
TAACTCTATAACTTGCCCC
Found at i:22238999 original size:20 final size:20
Alignment explanation
Indices: 22238974--22239119 Score: 57
Period size: 20 Copynumber: 7.3 Consensus size: 20
22238964 TACTGAATGA
22238974 TTGTACATACGTGCCCATGT
1 TTGTACATACGTGCCCATGT
* * * *
22238994 TTGTAC-TTCGGTACCCCTGA
1 TTGTACATAC-GTGCCCATGT
* *
22239014 TTGCACATACGTTCTCC-TGT
1 TTGTACATACGTGC-CCATGT
* * * **
22239034 TTGTAC-TTCGGTACCCCTAA
1 TTGTACATAC-GTGCCCATGT
** * *
22239054 TTACACATACGTGCCCCTTT
1 TTGTACATACGTGCCCATGT
* **
22239074 TTGTAC-TTCGGTGCCCATAA
1 TTGTACATAC-GTGCCCATGT
*
22239094 TTGCACATACGTGCCCATGT
1 TTGTACATACGTGCCCATGT
22239114 TTGTAC
1 TTGTAC
22239120 TTCGATACCC
Statistics
Matches: 88, Mismatches: 30, Indels: 16
0.66 0.22 0.12
Matches are distributed among these distances:
19 8 0.09
20 72 0.82
21 8 0.09
ACGTcount: A:0.18, C:0.29, G:0.17, T:0.36
Consensus pattern (20 bp):
TTGTACATACGTGCCCATGT
Found at i:22239035 original size:40 final size:40
Alignment explanation
Indices: 22238971--22239133 Score: 220
Period size: 40 Copynumber: 4.1 Consensus size: 40
22238961 AATTACTGAA
*
22238971 TGATTGTACATACGTGCCCATGTTTGTACTTCGGTACCCC
1 TGATTGCACATACGTGCCCATGTTTGTACTTCGGTACCCC
*
22239011 TGATTGCACATACGTTCTCC-TGTTTGTACTTCGGTACCCC
1 TGATTGCACATACGTGC-CCATGTTTGTACTTCGGTACCCC
* * * * * *
22239051 TAATTACACATACGTGCCCCTTTTTGTACTTCGGTGCCCA
1 TGATTGCACATACGTGCCCATGTTTGTACTTCGGTACCCC
* *
22239091 TAATTGCACATACGTGCCCATGTTTGTACTTCGATACCCC
1 TGATTGCACATACGTGCCCATGTTTGTACTTCGGTACCCC
22239131 TGA
1 TGA
22239134 ACACATTTAC
Statistics
Matches: 106, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
39 2 0.02
40 102 0.96
41 2 0.02
ACGTcount: A:0.19, C:0.29, G:0.17, T:0.35
Consensus pattern (40 bp):
TGATTGCACATACGTGCCCATGTTTGTACTTCGGTACCCC
Found at i:22242268 original size:40 final size:40
Alignment explanation
Indices: 22242220--22242527 Score: 571
Period size: 40 Copynumber: 7.7 Consensus size: 40
22242210 GCAAACACAT
* *
22242220 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
22242260 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
22242300 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
22242340 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
22242380 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
22242420 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
22242460 TTGCCTTCGGGTCTTAGCCCAGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
22242500 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
22242528 TCCAATGCTC
Statistics
Matches: 260, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 260 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:22251007 original size:40 final size:40
Alignment explanation
Indices: 22250959--22251306 Score: 642
Period size: 40 Copynumber: 8.7 Consensus size: 40
22250949 GCAAACACAT
* *
22250959 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
22250999 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
22251039 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGTATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
22251079 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
22251119 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
22251159 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
22251199 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
22251239 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
22251279 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
22251307 TCCAATGCTC
Statistics
Matches: 298, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 298 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:22255444 original size:20 final size:20
Alignment explanation
Indices: 22255394--22255450 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 20
22255384 AGTTTATGCT
* ** *
22255394 AAGTAAATGAAATGAAAAGT
1 AAGTAAATGGAATGGTAAGA
*
22255414 AAGTAAGTGGAATGGTAAGA
1 AAGTAAATGGAATGGTAAGA
*
22255434 AAGTAAATGGAGTGGTA
1 AAGTAAATGGAATGGTA
22255451 CATAGTTTAT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.49, C:0.00, G:0.30, T:0.21
Consensus pattern (20 bp):
AAGTAAATGGAATGGTAAGA
Found at i:22258785 original size:25 final size:26
Alignment explanation
Indices: 22258711--22258790 Score: 117
Period size: 26 Copynumber: 3.1 Consensus size: 26
22258701 AACATACCAA
* * *
22258711 TATCACAGCAAGGCTGCCAATAATAG
1 TATCACAGCAAAGCTGCCAGTAACAG
*
22258737 TATCGCAGCAAAGCTGCCAGTAACAG
1 TATCACAGCAAAGCTGCCAGTAACAG
22258763 TATCACAGCAAAG-TGCCAGTAACAG
1 TATCACAGCAAAGCTGCCAGTAACAG
22258788 TAT
1 TAT
22258791 ACTACCTCCA
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
25 15 0.31
26 34 0.69
ACGTcount: A:0.38, C:0.24, G:0.20, T:0.19
Consensus pattern (26 bp):
TATCACAGCAAAGCTGCCAGTAACAG
Found at i:22258973 original size:27 final size:27
Alignment explanation
Indices: 22258943--22259003 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
22258933 TCATCTCGTA
22258943 GGGGTATAACAGTCAGTCTACCCTATG
1 GGGGTATAACAGTCAGTCTACCCTATG
**** * *
22258970 GGGGTATTTTGGTCATTTTACCCTATG
1 GGGGTATAACAGTCAGTCTACCCTATG
22258997 GGGGTAT
1 GGGGTAT
22259004 TTCGATCATT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.20, C:0.16, G:0.30, T:0.34
Consensus pattern (27 bp):
GGGGTATAACAGTCAGTCTACCCTATG
Found at i:22259004 original size:27 final size:27
Alignment explanation
Indices: 22258961--22259094 Score: 214
Period size: 27 Copynumber: 5.0 Consensus size: 27
22258951 ACAGTCAGTC
* *
22258961 TACCCTATGGGGGTATTTTGGTCATTT
1 TACCCTATGGGGGTATTTCGATCATTT
22258988 TACCCTATGGGGGTATTTCGATCATTT
1 TACCCTATGGGGGTATTTCGATCATTT
* *
22259015 TACCCTATGGAGGTATTTCGGTCATTT
1 TACCCTATGGGGGTATTTCGATCATTT
*
22259042 TACCTTATGGGGGTATTTCGATCATTT
1 TACCCTATGGGGGTATTTCGATCATTT
*
22259069 TACCCTATGGGGGTATTTCGACCATT
1 TACCCTATGGGGGTATTTCGATCATT
22259095 CATTGACCTC
Statistics
Matches: 98, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 98 1.00
ACGTcount: A:0.18, C:0.18, G:0.23, T:0.41
Consensus pattern (27 bp):
TACCCTATGGGGGTATTTCGATCATTT
Found at i:22259988 original size:14 final size:15
Alignment explanation
Indices: 22259969--22259997 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
22259959 ACTTTAGGGG
22259969 CAAAATGT-ATTTTT
1 CAAAATGTGATTTTT
22259983 CAAAATGTGATTTTT
1 CAAAATGTGATTTTT
22259998 GGACTGGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.34, C:0.07, G:0.10, T:0.48
Consensus pattern (15 bp):
CAAAATGTGATTTTT
Found at i:22277306 original size:40 final size:40
Alignment explanation
Indices: 22277258--22277604 Score: 642
Period size: 40 Copynumber: 8.7 Consensus size: 40
22277248 GCAAACACAT
* *
22277258 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
22277298 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
22277338 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGTATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
22277378 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
22277418 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
22277458 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
22277498 TTGCCTTCGGGTCTTAGCCCGGATATAT-AACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
22277537 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
22277577 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
22277605 TCCAATGCTC
Statistics
Matches: 298, Mismatches: 8, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
39 39 0.13
40 259 0.87
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:22281740 original size:20 final size:20
Alignment explanation
Indices: 22281690--22281746 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 20
22281680 AGTTTATGCT
* ** *
22281690 AAGTAAATGAAATGAAAAGT
1 AAGTAAATGGAATGGTAAGA
*
22281710 AAGTAAGTGGAATGGTAAGA
1 AAGTAAATGGAATGGTAAGA
*
22281730 AAGTAAATGGAGTGGTA
1 AAGTAAATGGAATGGTA
22281747 CATAGTTTAT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.49, C:0.00, G:0.30, T:0.21
Consensus pattern (20 bp):
AAGTAAATGGAATGGTAAGA
Found at i:22285077 original size:26 final size:26
Alignment explanation
Indices: 22285043--22285123 Score: 126
Period size: 26 Copynumber: 3.1 Consensus size: 26
22285033 AACATACCAA
* * *
22285043 TATCACAGCAAGGCTGCCAATAATAG
1 TATCACAGCAAAGCTGCCAGTAACAG
*
22285069 TATCGCAGCAAAGCTGCCAGTAACAG
1 TATCACAGCAAAGCTGCCAGTAACAG
22285095 TATCACAGCAAAGCTGCCAGTAACAG
1 TATCACAGCAAAGCTGCCAGTAACAG
22285121 TAT
1 TAT
22285124 ACTACCTCCA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 50 1.00
ACGTcount: A:0.37, C:0.25, G:0.20, T:0.19
Consensus pattern (26 bp):
TATCACAGCAAAGCTGCCAGTAACAG
Found at i:22285306 original size:27 final size:27
Alignment explanation
Indices: 22285276--22285336 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
22285266 TCATCTCGTA
22285276 GGGGTATAACAGTCAGTCTACCCTATG
1 GGGGTATAACAGTCAGTCTACCCTATG
**** * *
22285303 GGGGTATTTTGGTCATTTTACCCTATG
1 GGGGTATAACAGTCAGTCTACCCTATG
22285330 GGGGTAT
1 GGGGTAT
22285337 TTCGATCATT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.20, C:0.16, G:0.30, T:0.34
Consensus pattern (27 bp):
GGGGTATAACAGTCAGTCTACCCTATG
Found at i:22285337 original size:27 final size:27
Alignment explanation
Indices: 22285294--22285427 Score: 214
Period size: 27 Copynumber: 5.0 Consensus size: 27
22285284 ACAGTCAGTC
* *
22285294 TACCCTATGGGGGTATTTTGGTCATTT
1 TACCCTATGGGGGTATTTCGATCATTT
22285321 TACCCTATGGGGGTATTTCGATCATTT
1 TACCCTATGGGGGTATTTCGATCATTT
* *
22285348 TACCCTATGGAGGTATTTCGGTCATTT
1 TACCCTATGGGGGTATTTCGATCATTT
*
22285375 TACCTTATGGGGGTATTTCGATCATTT
1 TACCCTATGGGGGTATTTCGATCATTT
*
22285402 TACCCTATGGGGGTATTTCGACCATT
1 TACCCTATGGGGGTATTTCGATCATT
22285428 CATTGACCTC
Statistics
Matches: 98, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 98 1.00
ACGTcount: A:0.18, C:0.18, G:0.23, T:0.41
Consensus pattern (27 bp):
TACCCTATGGGGGTATTTCGATCATTT
Found at i:22286350 original size:15 final size:16
Alignment explanation
Indices: 22286320--22286351 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
22286310 ACTTTAGGGG
22286320 CAAAAATGTAATTTTT
1 CAAAAATGTAATTTTT
*
22286336 CAAAAATGTGATTTTT
1 CAAAAATGTAATTTTT
22286352 GGACTGGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (16 bp):
CAAAAATGTAATTTTT
Found at i:22286600 original size:50 final size:51
Alignment explanation
Indices: 22286515--22286642 Score: 134
Period size: 50 Copynumber: 2.5 Consensus size: 51
22286505 TAGGTCACGT
* * * * *
22286515 GTGTAGTATTATGTGCAGGCTACTACATGTGCCGGA-ATG-ATAGGTCGCAC
1 GTGTAGTACTATGTGCAGGCTACTACACGTACCGGATA-GCATAGATCACAC
** * * **
22286565 GTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGATCACGT
1 GTGTAGTACTATGTGCAGGCTACTACACGTACCGGATAGCATAGATCACAC
22286616 GTGTAGTACTATGTGCAGGCTACTACA
1 GTGTAGTACTATGTGCAGGCTACTACA
22286643 TGTGAGCTAC
Statistics
Matches: 63, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
50 32 0.51
51 31 0.49
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (51 bp):
GTGTAGTACTATGTGCAGGCTACTACACGTACCGGATAGCATAGATCACAC
Found at i:22301131 original size:24 final size:24
Alignment explanation
Indices: 22301104--22301149 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
22301094 AGAACAATCC
*
22301104 CAAAAGGAAATGCAA-GAGCAGCTT
1 CAAAAGCAAATG-AATGAGCAGCTT
22301128 CAAAAGCAAATGAATGAGCAGC
1 CAAAAGCAAATGAATGAGCAGC
22301150 AAAAAATGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (24 bp):
CAAAAGCAAATGAATGAGCAGCTT
Found at i:22305351 original size:132 final size:132
Alignment explanation
Indices: 22305104--22305353 Score: 344
Period size: 132 Copynumber: 1.9 Consensus size: 132
22305094 TTGACAGCGA
*
22305104 AGCAAATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAAATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAAT
* * * *
22305169 TCTACTTCCTTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTAGACAACAGTGGAATAGATTGAAGATTTAAGATCCTATCTCCCTAAGCAGTAGT
22305234 GG
131 GG
* * *
22305236 AGCAGATCGAAGATGGCGGATTTTACCTTCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAA-
1 AGCAAATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAAT
* ** *
22305300 TCATA-TCTCCCTAGTCAGTAGTGGAATAGGTTGAAGATTGTAAG-TCCTATCTCC
66 TC-TACT-TCCCTAGACAACAGTGGAATAGATTGAAGATT-TAAGATCCTATCTCC
22305354 TTGATATTGT
Statistics
Matches: 103, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
131 3 0.03
132 97 0.94
133 3 0.03
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (132 bp):
AGCAAATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAAT
TCTACTTCCCTAGACAACAGTGGAATAGATTGAAGATTTAAGATCCTATCTCCCTAAGCAGTAGT
GG
Found at i:22305691 original size:19 final size:19
Alignment explanation
Indices: 22305664--22305774 Score: 132
Period size: 19 Copynumber: 5.8 Consensus size: 19
22305654 AATCTTCAGG
* *
22305664 GATAGGCAATCATAGATAT
1 GATATGCAATCTTAGATAT
*
22305683 GATATGCAATCTTAAATAT
1 GATATGCAATCTTAGATAT
* ** *
22305702 AATATATAATTTTAGATAT
1 GATATGCAATCTTAGATAT
22305721 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
22305740 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
22305759 GATACGCAATCTTAGA
1 GATATGCAATCTTAGA
22305775 AGATATGATT
Statistics
Matches: 75, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 75 1.00
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:22305773 original size:38 final size:38
Alignment explanation
Indices: 22305671--22305774 Score: 163
Period size: 38 Copynumber: 2.7 Consensus size: 38
22305661 AGGGATAGGC
* *
22305671 AATCATAGATATGATATGCAATCTTAAATATAATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
* *
22305709 AATTTTAGATATGATATGCAATCTTAGATATGATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
*
22305747 AATCTTAGATATGATACGCAATCTTAGA
1 AATCTTAGATATGATATGCAATCTTAGA
22305775 AGATATGATT
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 60 1.00
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.38
Consensus pattern (38 bp):
AATCTTAGATATGATATGCAATCTTAGATATAATATAT
Found at i:22309640 original size:43 final size:44
Alignment explanation
Indices: 22309528--22309658 Score: 122
Period size: 43 Copynumber: 3.0 Consensus size: 44
22309518 TCTAAAATTC
* * * *
22309528 GTGGTTTATCAACAACCTACATGACAGCTTGTCAGCGAATATTA
1 GTGGTTTATCCACAACCTAAATGGCAGATTGTCAGCGAATATTA
* ** *
22309572 ATGGCTTCGTCCACAACCTAAATGGCCGATTGTCCA-CGAAT-TTA
1 GTGG-TTTATCCACAACCTAAATGGCAGATTGT-CAGCGAATATTA
* * * *
22309616 GTGGTTTATCCACAACCTATATGGCAGCTTGTCTGCAAATATT
1 GTGGTTTATCCACAACCTAAATGGCAGATTGTCAGCGAATATT
22309659 GGTGACTTTG
Statistics
Matches: 67, Mismatches: 16, Indels: 8
0.74 0.18 0.09
Matches are distributed among these distances:
42 1 0.01
43 27 0.40
44 11 0.16
45 26 0.39
46 2 0.03
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (44 bp):
GTGGTTTATCCACAACCTAAATGGCAGATTGTCAGCGAATATTA
Found at i:22312491 original size:22 final size:22
Alignment explanation
Indices: 22312466--22312510 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
22312456 AGATCAACAC
22312466 AAATAT-AATCACATACATATCA
1 AAATATCAATCACA-ACATATCA
*
22312488 AAATATCAATCTCAACATATCA
1 AAATATCAATCACAACATATCA
22312510 A
1 A
22312511 TCATCATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.53, C:0.20, G:0.00, T:0.27
Consensus pattern (22 bp):
AAATATCAATCACAACATATCA
Found at i:22314016 original size:25 final size:26
Alignment explanation
Indices: 22313983--22314031 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
22313973 TGTAAATTGA
*
22313983 ATTTCATTGA-AAATGTCAAATATGG
1 ATTTAATTGAGAAATGTCAAATATGG
*
22314008 ATTTAATTGAGAAATGTGAAATAT
1 ATTTAATTGAGAAATGTCAAATAT
22314032 TCATGGTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.43
26 12 0.57
ACGTcount: A:0.43, C:0.04, G:0.16, T:0.37
Consensus pattern (26 bp):
ATTTAATTGAGAAATGTCAAATATGG
Found at i:22330916 original size:20 final size:22
Alignment explanation
Indices: 22330870--22330921 Score: 56
Period size: 20 Copynumber: 2.5 Consensus size: 22
22330860 TCAAATGAGG
*
22330870 GAAAAAGAAAAGAATGAAAACA
1 GAAAAAGAAAAGAATGAAAAAA
*
22330892 -CAAAAG-AAAGAA-GAAAAAA
1 GAAAAAGAAAAGAATGAAAAAA
*
22330911 GAAAAATAAAA
1 GAAAAAGAAAA
22330922 AAAGGAGAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
19 6 0.25
20 10 0.42
21 8 0.33
ACGTcount: A:0.77, C:0.04, G:0.15, T:0.04
Consensus pattern (22 bp):
GAAAAAGAAAAGAATGAAAAAA
Found at i:22330969 original size:17 final size:18
Alignment explanation
Indices: 22330947--22330980 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
22330937 GAATGAGAGA
22330947 AAAGAGAG-ATGAAAAAG
1 AAAGAGAGAATGAAAAAG
*
22330964 AAAGAGTGAATGAAAAA
1 AAAGAGAGAATGAAAAA
22330981 TTGAATGTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.65, C:0.00, G:0.26, T:0.09
Consensus pattern (18 bp):
AAAGAGAGAATGAAAAAG
Found at i:22330969 original size:24 final size:24
Alignment explanation
Indices: 22330921--22330969 Score: 57
Period size: 24 Copynumber: 2.0 Consensus size: 24
22330911 GAAAAATAAA
22330921 AAAAGGAGAGTGAAAAGAATGAGAG
1 AAAAGGAGAGTGAAAAGAA-GAGAG
22330946 AAAA-GAGAGATGAAAAAGAA-AGAG
1 AAAAGGAGAG-TG-AAAAGAAGAGAG
22330970 TGAATGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
24 9 0.41
25 6 0.27
26 7 0.32
ACGTcount: A:0.61, C:0.00, G:0.33, T:0.06
Consensus pattern (24 bp):
AAAAGGAGAGTGAAAAGAAGAGAG
Found at i:22335516 original size:9 final size:9
Alignment explanation
Indices: 22335502--22335527 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
22335492 TTAAAACACA
22335502 AACTAAAAT
1 AACTAAAAT
22335511 AACTAAAAT
1 AACTAAAAT
22335520 AACTAAAA
1 AACTAAAA
22335528 AATTAATGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.69, C:0.12, G:0.00, T:0.19
Consensus pattern (9 bp):
AACTAAAAT
Found at i:22346585 original size:15 final size:16
Alignment explanation
Indices: 22346565--22346597 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
22346555 AAATTACACT
22346565 AACAATA-AAATTTAA
1 AACAATACAAATTTAA
22346580 AACAATATCAAATTTAA
1 AACAATA-CAAATTTAA
22346597 A
1 A
22346598 TATTAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.27
Consensus pattern (16 bp):
AACAATACAAATTTAA
Found at i:22347293 original size:15 final size:16
Alignment explanation
Indices: 22347273--22347305 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
22347263 AAACCATGAA
*
22347273 AAAAGAAA-GGAAAAC
1 AAAAGAAATAGAAAAC
22347288 AAAAGAAATAGAAAAC
1 AAAAGAAATAGAAAAC
22347304 AA
1 AA
22347306 CAACAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.76, C:0.06, G:0.15, T:0.03
Consensus pattern (16 bp):
AAAAGAAATAGAAAAC
Found at i:22348218 original size:41 final size:41
Alignment explanation
Indices: 22348161--22348249 Score: 142
Period size: 41 Copynumber: 2.2 Consensus size: 41
22348151 CACCAAGGAA
* *
22348161 ATAAGATATGATGTGATCTACTCTACTGCAACTTCAGAGAG
1 ATAAGATATGATGTGATCTACTCTACTGCAACCTCAAAGAG
* *
22348202 ATAAGATTTGATGTGATCTACTCTACTGGAACCTCAAAGAG
1 ATAAGATATGATGTGATCTACTCTACTGCAACCTCAAAGAG
22348243 ATAAGAT
1 ATAAGAT
22348250 CTATTATTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (41 bp):
ATAAGATATGATGTGATCTACTCTACTGCAACCTCAAAGAG
Found at i:22348419 original size:44 final size:44
Alignment explanation
Indices: 22348300--22348423 Score: 117
Period size: 44 Copynumber: 2.8 Consensus size: 44
22348290 GGATTACTGG
* * * * *
22348300 CTTCAATCAGCTCCGCTACTGCTTAGGGAGATAAGATCTGCCATT
1 CTTC-ATCTGCTCCACTACTGCTCAGAGAGATAAGATCTGACATT
* * *
22348345 CTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-AC-TT
1 CTTCATCTGCTCCACTACTGCTCAGAGAGATAAGATCTGACATT
* *
22348387 CTTCAGTCTGCTCCACTGCATTCTCAGAGAGATAAGA
1 CTTCA-TCTGCTCCACTAC-TGCTCAGAGAGATAAGA
22348424 ACTAATGCGA
Statistics
Matches: 68, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
42 6 0.09
43 13 0.19
44 46 0.68
45 3 0.04
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (44 bp):
CTTCATCTGCTCCACTACTGCTCAGAGAGATAAGATCTGACATT
Found at i:22348568 original size:216 final size:216
Alignment explanation
Indices: 22348181--22348987 Score: 1231
Period size: 216 Copynumber: 3.7 Consensus size: 216
22348171 ATGTGATCTA
* * ** * * *
22348181 CTCTACTGCAACTTCAGAGAGATAAGATTTGATGTGATCTACTCTACTGGAACCTCAAAGAGATA
1 CTCTGCTGCAACCTCAGAGAGATAAGAACTGATGCGATCTACTCTACTGCAACCTCAGAGAGATA
* * * *
22348246 AGATCTATTATTTTAATTCGCTCCACTGCAACTTCAGGAAGATAGGATTACTGGCTTCAATCAGC
66 AGATCTTTTATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTACTGGCTTCAATCTGC
* *
22348311 TCCGCTACTGCTTAGGGAGATAAGATCTGCCATTCTTGATCTGCTCCACTACTGCTTAGGGAGAT
131 TCCGCTACGGCTTAGGGAGATAAGATCTGCCATCCTTGATCTGCTCCACTACTGCTTAGGGAGAT
* **
22348376 AAGATCTACTTCTTCAGTCTG
196 AAGATTTGTTTCTTCAGTCTG
** ** * *
22348397 CTCCACTGCATTCTCAGAGAGATAAGAACTAATGCGATCTACTCTACTGCAACCTCAGAGAGCTA
1 CTCTGCTGCAACCTCAGAGAGATAAGAACTGATGCGATCTACTCTACTGCAACCTCAGAGAGATA
* *
22348462 AGATCTTTTATTTTAATCCGCTCCATTGTAACTTCAGGGAGATAGGATTACTGGCTTCAATCTGC
66 AGATCTTTTATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTACTGGCTTCAATCTGC
* *
22348527 TCCGCTACGGCTTAGGAAGATAAGATCTGCCATCCTTGATCTGCTCCACTACTGCTTAGGGAGGT
131 TCCGCTACGGCTTAGGGAGATAAGATCTGCCATCCTTGATCTGCTCCACTACTGCTTAGGGAGAT
* *
22348592 AAGGTTTGTTTCTTCAGTCTA
196 AAGATTTGTTTCTTCAGTCTG
*
22348613 CTCTGCTGCAACCTCAG-GAAGATAAGACCTGATGCGATCTACTCTACTGCAACCTCAGAGAGAT
1 CTCTGCTGCAACCTCAGAG-AGATAAGAACTGATGCGATCTACTCTACTGCAACCTCAGAGAGAT
* *
22348677 AAGATCTTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTAATGGCTTCAATCTG
65 AAGATCTTTTATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTACTGGCTTCAATCTG
* *
22348742 CTTCGCTACGGCTTAGGGAGATAAGATCTGCCATCCTCGATCTGCTCCACTACTGCTTAGGGAGA
130 CTCCGCTACGGCTTAGGGAGATAAGATCTGCCATCCTTGATCTGCTCCACTACTGCTTAGGGAGA
*
22348807 TAAGATTTGTTTCTTCATTCTG
195 TAAGATTTGTTTCTTCAGTCTG
* *
22348829 CTCTGCTGCAACCTCAGAGAGATAA-TACTTGATGCGATCTACTCTACTGTAACCTCAGAGAGAT
1 CTCTGCTGCAACCTCAGAGAGATAAGAAC-TGATGCGATCTACTCTACTGCAACCTCAGAGAGAT
* * *
22348893 AAGATCTTTTATTTTAACCCGCTCCACTGCAACTTCAGGGAGATAGGATTACTGGCTTCTATCTA
65 AAGATCTTTTATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTACTGGCTTCAATCTG
22348958 CTCCGCTACGGCTTAGGGAGATAAGATCTG
130 CTCCGCTACGGCTTAGGGAGATAAGATCTG
22348988 TTTCTTTAGT
Statistics
Matches: 537, Mismatches: 51, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
215 2 0.00
216 534 0.99
217 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.30
Consensus pattern (216 bp):
CTCTGCTGCAACCTCAGAGAGATAAGAACTGATGCGATCTACTCTACTGCAACCTCAGAGAGATA
AGATCTTTTATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTACTGGCTTCAATCTGC
TCCGCTACGGCTTAGGGAGATAAGATCTGCCATCCTTGATCTGCTCCACTACTGCTTAGGGAGAT
AAGATTTGTTTCTTCAGTCTG
Done.