Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 120 of 211
Found at i:37878093 original size:63 final size:63
Alignment explanation
Indices: 37878020--37878140 Score: 197
Period size: 63 Copynumber: 1.9 Consensus size: 63
37878010 CACGACTTGG
* *
37878020 ACACACGCCTATGTCTCTAGCTAATGTGACCTTAAATCCAAAACAATGAGTTACACGGCCTGC
1 ACACACGCCTATGTCCCTAGCCAATGTGACCTTAAATCCAAAACAATGAGTTACACGGCCTGC
** *
37878083 ACACACGCCTATGTCCCTAGCCCGTGTGACCTTAAATCCAAAACAGTGAGTTACACGG
1 ACACACGCCTATGTCCCTAGCCAATGTGACCTTAAATCCAAAACAATGAGTTACACGG
37878141 GCTGGACATT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
63 53 1.00
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (63 bp):
ACACACGCCTATGTCCCTAGCCAATGTGACCTTAAATCCAAAACAATGAGTTACACGGCCTGC
Found at i:37878154 original size:16 final size:16
Alignment explanation
Indices: 37878133--37878164 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
37878123 AAACAGTGAG
37878133 TTACACGGGCTGGACA
1 TTACACGGGCTGGACA
37878149 TTACACGGGCTGGACA
1 TTACACGGGCTGGACA
37878165 CAAGGCCATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.25, G:0.31, T:0.19
Consensus pattern (16 bp):
TTACACGGGCTGGACA
Found at i:37878201 original size:79 final size:79
Alignment explanation
Indices: 37878070--37878222 Score: 227
Period size: 79 Copynumber: 1.9 Consensus size: 79
37878060 AAACAATGAG
* * * *
37878070 TTACACGGCCTGCACACACGCCTATGTCCCTAGCCCGTGTGACCTTAAATCCAAAACAGTGAGTT
1 TTACACGGCCTGCACACACGCCTATGTACCTAGCCCGTGTGACCATAAATCCAAAACAATAAGTT
37878135 ACACGGGCTGGACA
66 ACACGGGCTGGACA
* * *
37878149 TTACACGGGCTGGACACAAGGCC-ATGTACCTAGCCCGTGTGACCATAAATCCAAAACAATAAGT
1 TTACACGGCCTGCACAC-ACGCCTATGTACCTAGCCCGTGTGACCATAAATCCAAAACAATAAGT
37878213 TACACGGGCT
65 TACACGGGCT
37878223 AGAGATAAGC
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
79 62 0.94
80 4 0.06
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (79 bp):
TTACACGGCCTGCACACACGCCTATGTACCTAGCCCGTGTGACCATAAATCCAAAACAATAAGTT
ACACGGGCTGGACA
Found at i:37878261 original size:63 final size:63
Alignment explanation
Indices: 37878149--37878332 Score: 233
Period size: 63 Copynumber: 2.9 Consensus size: 63
37878139 GGGCTGGACA
* * * *
37878149 TTACACGGGCTGGACACAAGGCCATGTACCTAGCCCGTGTGACCATAAATCCAAAACAATAAG
1 TTACACGGGCTAGACACAAGCCCATGTCCCTAGCCCGTGTGACCCTAAATCCAAAACAATAAG
* * * * * * *
37878212 TTACACGGGCTAGAGATAAGCCCATGTCCCTAGCTCATGTAACCCTAAATCCAAAATAGTAAG
1 TTACACGGGCTAGACACAAGCCCATGTCCCTAGCCCGTGTGACCCTAAATCCAAAACAATAAG
* * * *
37878275 TTAAACGAGCTAGACACAAGCCTATGTCCCTAGCCCGTGTGACCCTAAATCTAAAACA
1 TTACACGGGCTAGACACAAGCCCATGTCCCTAGCCCGTGTGACCCTAAATCCAAAACA
37878333 GTGAGTTCCA
Statistics
Matches: 100, Mismatches: 21, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
63 100 1.00
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.20
Consensus pattern (63 bp):
TTACACGGGCTAGACACAAGCCCATGTCCCTAGCCCGTGTGACCCTAAATCCAAAACAATAAG
Found at i:37878358 original size:12 final size:12
Alignment explanation
Indices: 37878341--37878372 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
37878331 CAGTGAGTTC
*
37878341 CATGGCCTACTA
1 CATGGCCTACCA
37878353 CATGGCCTACCA
1 CATGGCCTACCA
37878365 CATGGCCT
1 CATGGCCT
37878373 GACACACGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.22, C:0.38, G:0.19, T:0.22
Consensus pattern (12 bp):
CATGGCCTACCA
Found at i:37882750 original size:26 final size:26
Alignment explanation
Indices: 37882714--37882766 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
37882704 TTGAATAAAA
* *
37882714 AGGGGTTGCTAAGTGCTGATTCCCCG
1 AGGGATTGCTAAGTACTGATTCCCCG
37882740 AGGGATTGCTAAGTACTGATTCCCCG
1 AGGGATTGCTAAGTACTGATTCCCCG
37882766 A
1 A
37882767 ATTATTGACT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.21, C:0.23, G:0.30, T:0.26
Consensus pattern (26 bp):
AGGGATTGCTAAGTACTGATTCCCCG
Found at i:37882886 original size:42 final size:41
Alignment explanation
Indices: 37882745--37882968 Score: 161
Period size: 42 Copynumber: 5.3 Consensus size: 41
37882735 CCCCGAGGGA
* * * * *
37882745 TTGCTAAGTACTGATTCCCCGAATTATTGACTCTAAAGGTGG
1 TTGCTAAGTGCTGATTCCCCGTATCACTGAAT-TAAAGGTGG
* ** * *
37882787 TTGCTAAGTGCTGATCCCACCGTAT-TTTTAATTGTGAATGG-GG
1 TTGCTAAGTGCTGATTCC-CCGTATCACTGAA-T-T-AAAGGTGG
* *
37882830 TTGCTAAGTGCTGATTCCCTGTATCAATGAATATAAAGGTGG
1 TTGCTAAGTGCTGATTCCCCGTATCACTGAAT-TAAAGGTGG
* *
37882872 TTGCTAAGTGCTGATTCCACCGAATC-CTTAATTGTGAAAGG-GG
1 TTGCTAAGTGCTGATTCC-CCGTATCACTGAA-T-T-AAAGGTGG
* * * *
37882915 TT-CTATGTGCTGATTCCCCATATCACTGAATTTATGGTGG
1 TTGCTAAGTGCTGATTCCCCGTATCACTGAATTAAAGGTGG
37882955 TTGCTAAGTGCTGA
1 TTGCTAAGTGCTGA
37882969 ATCCACCGAG
Statistics
Matches: 144, Mismatches: 27, Indels: 23
0.74 0.14 0.12
Matches are distributed among these distances:
39 3 0.02
40 5 0.03
41 20 0.14
42 67 0.47
43 40 0.28
44 9 0.06
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (41 bp):
TTGCTAAGTGCTGATTCCCCGTATCACTGAATTAAAGGTGG
Found at i:37882892 original size:85 final size:84
Alignment explanation
Indices: 37882740--37882977 Score: 289
Period size: 85 Copynumber: 2.8 Consensus size: 84
37882730 TGATTCCCCG
* * * * * * *
37882740 AGGGATTGCTAAGTACTGATTCCCCGAATTATTGACTCTAAAGGTGGTTGCTAAGTGCTGATCCC
1 AGGGGTTGCTAAGTGCTGATTCCCCGTATCAATGAAT-TAAAGGTGGTTGCTAAGTGCTGATTCC
* **
37882805 ACCGTATTTTTAATTGTGAA
65 ACCGAATCCTTAATTGTGAA
* *
37882825 TGGGGTTGCTAAGTGCTGATTCCCTGTATCAATGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
1 AGGGGTTGCTAAGTGCTGATTCCCCGTATCAATGAAT-TAAAGGTGGTTGCTAAGTGCTGATTCC
37882890 ACCGAATCCTTAATTGTGAA
65 ACCGAATCCTTAATTGTGAA
* * * * * *
37882910 AGGGGTT-CTATGTGCTGATTCCCCATATCACTGAATTTATGGTGGTTGCTAAGTGCTGAATCCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGTATCAATGAATTAAAGGTGGTTGCTAAGTGCTGATTCCA
37882974 CCGA
66 CCGA
37882978 GTAACGGATA
Statistics
Matches: 132, Mismatches: 21, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
83 29 0.22
84 25 0.19
85 78 0.59
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (84 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGTATCAATGAATTAAAGGTGGTTGCTAAGTGCTGATTCCA
CCGAATCCTTAATTGTGAA
Found at i:37898550 original size:40 final size:40
Alignment explanation
Indices: 37898506--37898581 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
37898496 AGCTATGTCG
37898506 AAGTTTATCAGCTAGGAGAATAGGTCCGCGAGCTGTGTTA
1 AAGTTTATCAGCTAGGAGAATAGGTCCGCGAGCTGTGTTA
* ** * *
37898546 AAGTTTATTAGCTAGGAGTGTAGGTTCGTGAGCTGT
1 AAGTTTATCAGCTAGGAGAATAGGTCCGCGAGCTGT
37898582 TTCAGAGTTG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.25, C:0.12, G:0.32, T:0.32
Consensus pattern (40 bp):
AAGTTTATCAGCTAGGAGAATAGGTCCGCGAGCTGTGTTA
Found at i:37902319 original size:3 final size:3
Alignment explanation
Indices: 37902311--37902359 Score: 71
Period size: 3 Copynumber: 16.3 Consensus size: 3
37902301 TAATATTAAT
* * *
37902311 TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA TTG TTA GTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
37902359 T
1 T
37902360 ATTTTTTTAT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:37902769 original size:28 final size:30
Alignment explanation
Indices: 37902733--37902791 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
37902723 AAACCCCTAC
37902733 TTTATTATATT-TTACCTATTTCAAATTTT
1 TTTATTATATTATTACCTATTTCAAATTTT
* **
37902762 TTTA-TATATTATTATCTATTTTGAATTTT
1 TTTATTATATTATTACCTATTTCAAATTTT
37902791 T
1 T
37902792 CATTCTATAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 6 0.23
29 20 0.77
ACGTcount: A:0.27, C:0.07, G:0.02, T:0.64
Consensus pattern (30 bp):
TTTATTATATTATTACCTATTTCAAATTTT
Found at i:37903143 original size:18 final size:17
Alignment explanation
Indices: 37903116--37903149 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
37903106 GATTATTGCT
37903116 CTTATGTGTATTGTATTG
1 CTTATGTGTATT-TATTG
*
37903134 CTTATTTGTATTTATT
1 CTTATGTGTATTTATT
37903150 ATCGTGCTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.18, C:0.06, G:0.15, T:0.62
Consensus pattern (17 bp):
CTTATGTGTATTTATTG
Found at i:37905040 original size:19 final size:19
Alignment explanation
Indices: 37905016--37905062 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
37905006 TCAACACCTT
*
37905016 TTTGCATT-CATTTCATGCA
1 TTTGCATTACATTACAT-CA
37905035 TTTGCATTACATTACATCA
1 TTTGCATTACATTACATCA
*
37905054 TATGCATTA
1 TTTGCATTA
37905063 AAGTCCACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.28, C:0.19, G:0.09, T:0.45
Consensus pattern (19 bp):
TTTGCATTACATTACATCA
Found at i:37911987 original size:50 final size:50
Alignment explanation
Indices: 37911933--37912614 Score: 623
Period size: 50 Copynumber: 13.6 Consensus size: 50
37911923 TGAAGTCATC
* * * * *
37911933 ACAGCAAATCTTACTTCCCCGACATTGCAGTTAAATATATTAAAGCTACA
1 ACAGCGAATCTTACTTCCCCGGCATTGCAGTGAAACAGATTAAAGCTACA
* ** * * *
37911983 ACAGCGAATCTTACTTCCCTGGTGTT-CTAGTGGAACAGATTAAAGTTCCA
1 ACAGCGAATCTTACTTCCCCGGCATTGC-AGTGAAACAGATTAAAGCTACA
* * * * *
37912033 ACAACGAATCTTACTTCCCCGACATTGTAGTTAAATAGATTAAAGCTACA
1 ACAGCGAATCTTACTTCCCCGGCATTGCAGTGAAACAGATTAAAGCTACA
* * * * ** * *
37912083 ACAGAGAATCTTATTTCTCTGGCGGTGCAGTGGAACAGATTAAAGCTACG
1 ACAGCGAATCTTACTTCCCCGGCATTGCAGTGAAACAGATTAAAGCTACA
* * ** * * *
37912133 ACGGCGAATCTTAGTTCCTTGACATTGCACTTAAACAGATTAAAGCTACA
1 ACAGCGAATCTTACTTCCCCGGCATTGCAGTGAAACAGATTAAAGCTACA
* * * ** * * **
37912183 ATAGCAAATCTTATTTCCTTGGCGA-TACAGTGGAACAGATTAAAGCTATG
1 ACAGCGAATCTTACTTCCCCGGC-ATTGCAGTGAAACAGATTAAAGCTACA
* * * *
37912233 ACGGCGAATCTTACTTCCCCGACATTGCAGTTAAACAGATTGAAGCTACA
1 ACAGCGAATCTTACTTCCCCGGCATTGCAGTGAAACAGATTAAAGCTACA
* * * * *
37912283 ACAGCAAATCTTACTTCCTCGGCAGTGCAGTGGAACAAATTAAAGCTACA
1 ACAGCGAATCTTACTTCCCCGGCATTGCAGTGAAACAGATTAAAGCTACA
* * *
37912333 ATAGCGAATCTTACTTCCCCGACATTGCAGTTAAACAGATTAAAGCTACA
1 ACAGCGAATCTTACTTCCCCGGCATTGCAGTGAAACAGATTAAAGCTACA
* * * * ** * *
37912383 ACAACGAATCTTACTTCCTCGGCGTTGCGGCAAAATAGATTAAAGATACA
1 ACAGCGAATCTTACTTCCCCGGCATTGCAGTGAAACAGATTAAAGCTACA
* ** *
37912433 ACAGCAAATCTTACTTCCCCGGTTTTGCAGTGAAACATATTAAAGCTACA
1 ACAGCGAATCTTACTTCCCCGGCATTGCAGTGAAACAGATTAAAGCTACA
* ** * *
37912483 ACAGCGAATCTTATTTCCCTAGCATTGTAGTGAAACAGATTAAAGCTACG
1 ACAGCGAATCTTACTTCCCCGGCATTGCAGTGAAACAGATTAAAGCTACA
* * * *
37912533 ACAACGAATCTTAC-TCCTCCGGCGTTACAGTGGAACAGATTAAAGCTACA
1 ACAGCGAATCTTACTTCC-CCGGCATTGCAGTGAAACAGATTAAAGCTACA
* * **
37912583 ATAGAGAATCTTACTTCCCTAGCATTGCAGTG
1 ACAGCGAATCTTACTTCCCCGGCATTGCAGTG
37912615 GAGCAGATCG
Statistics
Matches: 492, Mismatches: 134, Indels: 12
0.77 0.21 0.02
Matches are distributed among these distances:
49 5 0.01
50 483 0.98
51 4 0.01
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (50 bp):
ACAGCGAATCTTACTTCCCCGGCATTGCAGTGAAACAGATTAAAGCTACA
Found at i:37912075 original size:100 final size:99
Alignment explanation
Indices: 37911933--37912622 Score: 711
Period size: 100 Copynumber: 6.9 Consensus size: 99
37911923 TGAAGTCATC
* * *
37911933 ACAGCAAATCTTACTTCCCCGACATTGCAGTTAAATATATTAAAGCTACAACAGCGAATCTTACT
1 ACAGCGAATCTTACTTCCCCGACATTGCAGTTAAACAGATTAAAGCTACAACAGCGAATCTTACT
* * *
37911998 TCCCTGGTGTTCTAGTGGAACAGATTAAAGTTCCA
66 TCCCTGGCGTTC-AGTGGAACAGATTAAAGCTACA
* * * * *
37912033 ACAACGAATCTTACTTCCCCGACATTGTAGTTAAATAGATTAAAGCTACAACAGAGAATCTTATT
1 ACAGCGAATCTTACTTCCCCGACATTGCAGTTAAACAGATTAAAGCTACAACAGCGAATCTTACT
* * *
37912098 TCTCTGGCGGTGCAGTGGAACAGATTAAAGCTACG
66 TCCCTGGC-GTTCAGTGGAACAGATTAAAGCTACA
* * ** * * * *
37912133 ACGGCGAATCTTAGTTCCTTGACATTGCACTTAAACAGATTAAAGCTACAATAGCAAATCTTATT
1 ACAGCGAATCTTACTTCCCCGACATTGCAGTTAAACAGATTAAAGCTACAACAGCGAATCTTACT
* * **
37912198 TCCTTGGCGATACAGTGGAACAGATTAAAGCTATG
66 TCCCTGGCG-TTCAGTGGAACAGATTAAAGCTACA
* * *
37912233 ACGGCGAATCTTACTTCCCCGACATTGCAGTTAAACAGATTGAAGCTACAACAGCAAATCTTACT
1 ACAGCGAATCTTACTTCCCCGACATTGCAGTTAAACAGATTAAAGCTACAACAGCGAATCTTACT
* *
37912298 T-CCTCGGCAGTGCAGTGGAACAAATTAAAGCTACA
66 TCCCT-GGC-GTTCAGTGGAACAGATTAAAGCTACA
* *
37912333 ATAGCGAATCTTACTTCCCCGACATTGCAGTTAAACAGATTAAAGCTACAACAACGAATCTTACT
1 ACAGCGAATCTTACTTCCCCGACATTGCAGTTAAACAGATTAAAGCTACAACAGCGAATCTTACT
* *** * *
37912398 T-CCTCGGCGTTGCGGCAAAATAGATTAAAGATACA
66 TCCCT-GGCGTT-CAGTGGAACAGATTAAAGCTACA
* *** * * *
37912433 ACAGCAAATCTTACTTCCCCGGTTTTGCAGTGAAACATATTAAAGCTACAACAGCGAATCTTATT
1 ACAGCGAATCTTACTTCCCCGACATTGCAGTTAAACAGATTAAAGCTACAACAGCGAATCTTACT
* * * * *
37912498 TCCCTAGCATTGTAGTGAAACAGATTAAAGCTACG
66 TCCCTGGCGTT-CAGTGGAACAGATTAAAGCTACA
* * * * ** * *
37912533 ACAACGAATCTTAC-TCCTCCGGCGTTACAGTGGAACAGATTAAAGCTACAATAGAGAATCTTAC
1 ACAGCGAATCTTACTTCC-CCGACATTGCAGTTAAACAGATTAAAGCTACAACAGCGAATCTTAC
* * *
37912597 TTCCCTAGCATTGCAGTGGAGCAGAT
65 TTCCCTGGCGTT-CAGTGGAACAGAT
37912623 CGAAGCCACT
Statistics
Matches: 500, Mismatches: 83, Indels: 14
0.84 0.14 0.02
Matches are distributed among these distances:
99 8 0.02
100 485 0.97
101 7 0.01
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (99 bp):
ACAGCGAATCTTACTTCCCCGACATTGCAGTTAAACAGATTAAAGCTACAACAGCGAATCTTACT
TCCCTGGCGTTCAGTGGAACAGATTAAAGCTACA
Found at i:37914087 original size:3 final size:3
Alignment explanation
Indices: 37914079--37914139 Score: 86
Period size: 3 Copynumber: 20.3 Consensus size: 3
37914069 TAATATTAAT
* * *
37914079 TTA TTA TTA TTA TTA TTA TCA TTA TCA TTA TTA TCA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
37914127 GTA TTA TTA TTA T
1 TTA TTA TTA TTA T
37914140 ATTTTTTTAT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:37914182 original size:23 final size:23
Alignment explanation
Indices: 37914156--37914206 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
37914146 TTATATATCA
* *
37914156 TGTAATATCCCGAAAATTACTAC
1 TGTAATACCCCGAAAACTACTAC
37914179 TGTAATACCCCGAAAACTACTAC
1 TGTAATACCCCGAAAACTACTAC
*
37914202 AGTAA
1 TGTAA
37914207 GAAAGTAGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.41, C:0.24, G:0.10, T:0.25
Consensus pattern (23 bp):
TGTAATACCCCGAAAACTACTAC
Found at i:37917303 original size:18 final size:17
Alignment explanation
Indices: 37917276--37917309 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
37917266 GATTATTGCT
37917276 CTTATGTGTATTGTATTG
1 CTTATGTGTATT-TATTG
*
37917294 CTTATTTGTATTTATT
1 CTTATGTGTATTTATT
37917310 AATTATTCGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.18, C:0.06, G:0.15, T:0.62
Consensus pattern (17 bp):
CTTATGTGTATTTATTG
Found at i:37927783 original size:21 final size:22
Alignment explanation
Indices: 37927750--37927794 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
37927740 AAAAAGGACA
*
37927750 ATATTATTTTTTGGTTATATAT
1 ATATTATTTTTTGCTTATATAT
*
37927772 ATATTA-TTTTTGCTTTTATAT
1 ATATTATTTTTTGCTTATATAT
37927793 AT
1 AT
37927795 TTTTTCTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.64
Consensus pattern (22 bp):
ATATTATTTTTTGCTTATATAT
Found at i:37927797 original size:16 final size:17
Alignment explanation
Indices: 37927771--37927803 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
37927761 TGGTTATATA
37927771 TATATTATTTTTGCTTT
1 TATATTATTTTTGCTTT
*
37927788 TATA-TATTTTTTCTTT
1 TATATTATTTTTGCTTT
37927804 CTTCTTCCTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.18, C:0.06, G:0.03, T:0.73
Consensus pattern (17 bp):
TATATTATTTTTGCTTT
Found at i:37928281 original size:11 final size:11
Alignment explanation
Indices: 37928261--37928310 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
37928251 ATTATAGAGG
*
37928261 AAGAAGAGAAA
1 AAGAAAAGAAA
37928272 AAGAAAAGAAA
1 AAGAAAAGAAA
*
37928283 AA-AAAGAGAGA
1 AAGAAA-AGAAA
*
37928294 AA-AAAAGTAA
1 AAGAAAAGAAA
37928304 AAGAAAA
1 AAGAAAA
37928311 AAGGAATTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
10 8 0.24
11 25 0.76
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (11 bp):
AAGAAAAGAAA
Found at i:37928285 original size:13 final size:13
Alignment explanation
Indices: 37928264--37928312 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
37928254 ATAGAGGAAG
*
37928264 AAGAGAAAAAGAA
1 AAGAAAAAAAGAA
37928277 AAGAAAAAAA-AGA
1 AAGAAAAAAAGA-A
*
37928290 GAGAAAAAAAGTAA
1 AAGAAAAAAAG-AA
37928304 AAGAAAAAA
1 AAGAAAAAA
37928313 GGAATTTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
12 1 0.03
13 19 0.63
14 9 0.30
15 1 0.03
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (13 bp):
AAGAAAAAAAGAA
Found at i:37928288 original size:14 final size:14
Alignment explanation
Indices: 37928269--37928312 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
37928259 GGAAGAAGAG
37928269 AAAAAGAAAAGAAA
1 AAAAAGAAAAGAAA
*
37928283 AAAAAG-AGAG-AA
1 AAAAAGAAAAGAAA
37928295 AAAAAGTAAAAGAAA
1 AAAAAG-AAAAGAAA
37928310 AAA
1 AAA
37928313 GGAATTTGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
12 8 0.32
13 3 0.12
14 9 0.36
15 5 0.20
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (14 bp):
AAAAAGAAAAGAAA
Found at i:37928305 original size:22 final size:23
Alignment explanation
Indices: 37928264--37928310 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
37928254 ATAGAGGAAG
37928264 AAGAGAAAAAGAAAAGAAAA-AA
1 AAGAGAAAAAGAAAAGAAAAGAA
*
37928286 AAGAGAGAAA-AAAAGTAAAAGAA
1 AAGAGAAAAAGAAAAG-AAAAGAA
37928309 AA
1 AA
37928311 AAGGAATTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 5 0.23
22 13 0.59
23 4 0.18
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (23 bp):
AAGAGAAAAAGAAAAGAAAAGAA
Found at i:37928306 original size:27 final size:25
Alignment explanation
Indices: 37928261--37928312 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 25
37928251 ATTATAGAGG
*
37928261 AAGAAGAGAAAAAGAAAAGAAAAAA
1 AAGAAGAAAAAAAGAAAAGAAAAAA
37928286 AAGAGAGAAAAAAAGTAAAAGAAAAAA
1 AAGA-AGAAAAAAAG-AAAAGAAAAAA
37928313 GGAATTTGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 4 0.17
26 9 0.38
27 11 0.46
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (25 bp):
AAGAAGAAAAAAAGAAAAGAAAAAA
Found at i:37936866 original size:21 final size:21
Alignment explanation
Indices: 37936842--37936881 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
37936832 TGACTGGACT
*
37936842 GACAATATATTGGACTAGATC
1 GACAATACATTGGACTAGATC
*
37936863 GACAGTACATTGGACTAGA
1 GACAATACATTGGACTAGA
37936882 CCCAAGAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.25
Consensus pattern (21 bp):
GACAATACATTGGACTAGATC
Found at i:37942512 original size:20 final size:20
Alignment explanation
Indices: 37942487--37942527 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
37942477 ACTAAATTGT
*
37942487 AAAATTTTAAAATTCATGAA
1 AAAATTCTAAAATTCATGAA
* *
37942507 AAAATTCTAAATTTTATGAA
1 AAAATTCTAAAATTCATGAA
37942527 A
1 A
37942528 TACATGGGCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.37
Consensus pattern (20 bp):
AAAATTCTAAAATTCATGAA
Found at i:37949054 original size:25 final size:23
Alignment explanation
Indices: 37949008--37949068 Score: 63
Period size: 25 Copynumber: 2.6 Consensus size: 23
37948998 TGCTAACTAA
37949008 ATGAATG-GGAAAATGAAGGGTTT
1 ATGAATGAGGAAAATGAAGGG-TT
37949031 ATGAATGAGAGAAAATG-AGAGGTT
1 ATGAATGAG-GAAAATGAAG-GGTT
*
37949055 AGTGAATGATGAAA
1 A-TGAATGAGGAAA
37949069 GGAAATGAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
23 7 0.21
24 10 0.30
25 16 0.48
ACGTcount: A:0.44, C:0.00, G:0.33, T:0.23
Consensus pattern (23 bp):
ATGAATGAGGAAAATGAAGGGTT
Found at i:37950419 original size:2 final size:2
Alignment explanation
Indices: 37950412--37950444 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
37950402 AATAGAAATT
37950412 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
37950445 TTTAAACACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:37951578 original size:18 final size:17
Alignment explanation
Indices: 37951539--37951589 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
37951529 TATTGAACAT
37951539 AAAATAAAAAAAAATTG
1 AAAATAAAAAAAAATTG
*
37951556 GAAATAAAAAATCAAA-TG
1 AAAATAAAAAA--AAATTG
*
37951574 AAAATGAAAAAAAATT
1 AAAATAAAAAAAAATT
37951590 TCTTTTGGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
16 3 0.11
17 11 0.39
18 11 0.39
19 3 0.11
ACGTcount: A:0.73, C:0.02, G:0.08, T:0.18
Consensus pattern (17 bp):
AAAATAAAAAAAAATTG
Found at i:37955340 original size:23 final size:22
Alignment explanation
Indices: 37955284--37955352 Score: 97
Period size: 23 Copynumber: 3.1 Consensus size: 22
37955274 ATAGAGCTCT
37955284 TTTGAGTTATTATGAACC-TTC
1 TTTGAGTTATTATGAACCATTC
37955305 AATTT-AGTTATTATGAACCATTC
1 --TTTGAGTTATTATGAACCATTC
37955328 TTCTGAGTTATTATGAACCATTC
1 TT-TGAGTTATTATGAACCATTC
37955351 TT
1 TT
37955353 AATTAAAAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
21 2 0.05
22 15 0.35
23 26 0.60
ACGTcount: A:0.28, C:0.14, G:0.12, T:0.46
Consensus pattern (22 bp):
TTTGAGTTATTATGAACCATTC
Found at i:37959804 original size:26 final size:26
Alignment explanation
Indices: 37959769--37959819 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
37959759 AATGTGAAAG
*
37959769 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
37959795 GGGGTTGCTAAGTGCTGATTCCCCG
1 GGGGTTGCTAAGTGCTGATTCCCCG
37959820 TTCATTGGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.12, C:0.24, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:37959905 original size:26 final size:26
Alignment explanation
Indices: 37959870--37959921 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
37959860 AAATGAAAAG
*
37959870 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
37959896 GGGGTTGCTAAGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
37959922 TTCAGTGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.13, C:0.23, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:37959905 original size:101 final size:103
Alignment explanation
Indices: 37959691--37959953 Score: 424
Period size: 102 Copynumber: 2.6 Consensus size: 103
37959681 TTGTATATAA
** *
37959691 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
*
37959755 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
65 TTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCG
**
37959794 AGGGGTTGCTAAGTGCTGATTCCCCG-TTCATTGGTGGTGCTAAGTGCGATATCCACTGTATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
37959858 TGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCG
66 TGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCG
* *
37959895 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
37959954 ATAACGGTTA
Statistics
Matches: 148, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
101 55 0.37
102 68 0.46
103 25 0.17
ACGTcount: A:0.19, C:0.20, G:0.31, T:0.31
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCG
Found at i:37967154 original size:26 final size:26
Alignment explanation
Indices: 37967119--37967169 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
37967109 AATGTGAAAG
*
37967119 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
37967145 GGGGTTGCTAAGTGCTGATTCCCCG
1 GGGGTTGCTAAGTGCTGATTCCCCG
37967170 TTCATTGGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.12, C:0.24, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:37967245 original size:102 final size:103
Alignment explanation
Indices: 37967042--37967304 Score: 426
Period size: 102 Copynumber: 2.6 Consensus size: 103
37967032 TTGTATATAA
** *
37967042 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGG-GGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
*
37967105 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
65 TTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCG
37967144 AGGGGTTGCTAAGTGCTGATTCCCCG-TTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
37967208 TGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTAAAAGGGGGTTGCTATGTGCTGATT-CCCCG
* *
37967246 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
37967305 ATAACGGTTA
Statistics
Matches: 151, Mismatches: 6, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
101 32 0.21
102 88 0.58
103 31 0.21
ACGTcount: A:0.19, C:0.21, G:0.30, T:0.30
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCG
Found at i:37970449 original size:6 final size:6
Alignment explanation
Indices: 37970438--37970463 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
37970428 TTCCAAAAAT
37970438 TGGAAA TGGAAA TGGAAA TGGAAA TG
1 TGGAAA TGGAAA TGGAAA TGGAAA TG
37970464 AATATAATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.35, T:0.19
Consensus pattern (6 bp):
TGGAAA
Found at i:37971481 original size:27 final size:26
Alignment explanation
Indices: 37971451--37971535 Score: 73
Period size: 27 Copynumber: 3.2 Consensus size: 26
37971441 CAATGAAATG
37971451 CACCAAAATACCACTATCACTAATTTA
1 CACCAAAATACCACTATCACTAA-TTA
** *
37971478 CACCAAGGTGCCACTATCACTAGATTA
1 CACCAAAATACCACTATCACTA-ATTA
* * *
37971505 CATC-GAATATCCACTGTCACTAAATTA
1 CACCAAAATA-CCACTATCACT-AATTA
37971532 CACC
1 CACC
37971536 TAGGTGCCCC
Statistics
Matches: 45, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
26 1 0.02
27 42 0.93
28 2 0.04
ACGTcount: A:0.38, C:0.31, G:0.07, T:0.25
Consensus pattern (26 bp):
CACCAAAATACCACTATCACTAATTA
Found at i:37971543 original size:54 final size:53
Alignment explanation
Indices: 37971457--37971606 Score: 169
Period size: 54 Copynumber: 2.8 Consensus size: 53
37971447 AATGCACCAA
*
37971457 AATACCACTATCACTAATTTACACCAAGGTGCCACTATCACT-AGATTACATCG
1 AATACCACTATCACTAAATTACACCAAGGTGCCACTATCACTGAG-TTACATCG
* * *
37971510 AATATCCACTGTCACTAAATTACACCTAGGTGCCCCTATCACTGAGTTACATCG
1 AATA-CCACTATCACTAAATTACACCAAGGTGCCACTATCACTGAGTTACATCG
* * * * *
37971564 AGGTGCCACTATCACTAATTTGCACCGAA-GTGCCACTGTCACT
1 A-ATACCACTATCACTAAATTACACC-AAGGTGCCACTATCACT
37971607 AAGCATGCTG
Statistics
Matches: 81, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
53 4 0.05
54 73 0.90
55 4 0.05
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (53 bp):
AATACCACTATCACTAAATTACACCAAGGTGCCACTATCACTGAGTTACATCG
Found at i:37971551 original size:27 final size:27
Alignment explanation
Indices: 37971461--37971608 Score: 136
Period size: 27 Copynumber: 5.5 Consensus size: 27
37971451 CACCAAAATA
* *
37971461 CCACTATCACTAATTTACACCAAGGTG
1 CCACTATCACTAAATTACACCGAGGTG
* * * *
37971488 CCACTATCACTAGATTACATCGA-ATAT
1 CCACTATCACTAAATTACACCGAGGT-G
* *
37971515 CCACTGTCACTAAATTACACCTAGGTG
1 CCACTATCACTAAATTACACCGAGGTG
* * * *
37971542 CCCCTATCACTGAGTTACATCGAGGTG
1 CCACTATCACTAAATTACACCGAGGTG
* * *
37971569 CCACTATCACTAATTTGCACCGAAGTG
1 CCACTATCACTAAATTACACCGAGGTG
*
37971596 CCACTGTCACTAA
1 CCACTATCACTAA
37971609 GCATGCTGAA
Statistics
Matches: 94, Mismatches: 25, Indels: 4
0.76 0.20 0.03
Matches are distributed among these distances:
26 1 0.01
27 92 0.98
28 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.26
Consensus pattern (27 bp):
CCACTATCACTAAATTACACCGAGGTG
Found at i:37981101 original size:35 final size:35
Alignment explanation
Indices: 37981062--37981181 Score: 107
Period size: 35 Copynumber: 3.2 Consensus size: 35
37981052 TTGTAAATTG
* *
37981062 TTTACATGGTGTCTCCTCGAAGGACCTATATATCA
1 TTTACATGGTGTCACCCCGAAGGACCTATATATCA
*
37981097 TTTACACTGTGTAAATGATATCACCCCGAAGAACCTATATA-CAA
1 TTTACA-TG-G----TG---TCACCCCGAAGGACCTATATATC-A
*
37981141 TTTACATGGTGTCACCCCGAAGGACCTATATATCG
1 TTTACATGGTGTCACCCCGAAGGACCTATATATCA
37981176 TTTACA
1 TTTACA
37981182 CAGTGTCTCC
Statistics
Matches: 69, Mismatches: 5, Indels: 22
0.72 0.05 0.23
Matches are distributed among these distances:
35 32 0.46
36 3 0.04
37 1 0.01
38 2 0.03
41 2 0.03
42 1 0.01
43 3 0.04
44 25 0.36
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (35 bp):
TTTACATGGTGTCACCCCGAAGGACCTATATATCA
Found at i:37993967 original size:17 final size:16
Alignment explanation
Indices: 37993946--37993991 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
37993936 AATTTTTAAA
37993946 AAAAATTAAAAATTATTT
1 AAAAATTAAAAA-TA-TT
37993964 AAAAA-TAAAAATATT
1 AAAAATTAAAAATATT
37993979 AAAAATTAGAAAA
1 AAAAATTA-AAAA
37993992 AAAATATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 7 0.27
16 4 0.15
17 10 0.38
18 5 0.19
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (16 bp):
AAAAATTAAAAATATT
Found at i:37993993 original size:26 final size:26
Alignment explanation
Indices: 37993944--37993994 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
37993934 TTAATTTTTA
***
37993944 AAAAAAATTAAAAATTATTTAAAAAT
1 AAAAAAATTAAAAATTAGAAAAAAAT
*
37993970 AAAAATATTAAAAATTAGAAAAAAA
1 AAAAAAATTAAAAATTAGAAAAAAA
37993995 ATATTTTTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (26 bp):
AAAAAAATTAAAAATTAGAAAAAAAT
Found at i:38007618 original size:19 final size:19
Alignment explanation
Indices: 38007575--38007624 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
38007565 ATGCATACAC
38007575 AATTCCACTAATCACACAT
1 AATTCCACTAATCACACAT
**
38007594 GGTTCCACTAATCA-ATCAT
1 AATTCCACTAATCACA-CAT
38007613 AATTCCACTAAT
1 AATTCCACTAAT
38007625 TAAACACCAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 1 0.04
19 25 0.96
ACGTcount: A:0.38, C:0.28, G:0.04, T:0.30
Consensus pattern (19 bp):
AATTCCACTAATCACACAT
Found at i:38019582 original size:23 final size:24
Alignment explanation
Indices: 38019555--38019601 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
38019545 AAAATACTTT
*
38019555 AATTTAAATAAAAGAA-TATTTAA
1 AATTTAAATAAAACAATTATTTAA
* *
38019578 AATTTTAATTAAACAATTATTTAA
1 AATTTAAATAAAACAATTATTTAA
38019602 TACGAATTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (24 bp):
AATTTAAATAAAACAATTATTTAA
Found at i:38023507 original size:9 final size:9
Alignment explanation
Indices: 38023493--38023523 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
38023483 GTTAAACGAA
38023493 TCGAGTTAT
1 TCGAGTTAT
*
38023502 TCGAGTTAA
1 TCGAGTTAT
38023511 TCGAGTTAT
1 TCGAGTTAT
38023520 TCGA
1 TCGA
38023524 ATCAACTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:38023592 original size:9 final size:9
Alignment explanation
Indices: 38023575--38023611 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
38023565 TGAGTTTTCG
38023575 AATTCGAAT
1 AATTCGAAT
*
38023584 AACTCGAAT
1 AATTCGAAT
38023593 AATTCGAAT
1 AATTCGAAT
38023602 AATTCGAAT
1 AATTCGAAT
38023611 A
1 A
38023612 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:38024768 original size:25 final size:25
Alignment explanation
Indices: 38024740--38024809 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
38024730 GAACAGTAAA
*
38024740 CAGGAAGCTCTTTCGAGCT-AAGTAT
1 CAGGAAGCTCTTGCGAGCTGAA-TAT
*
38024765 CAGGAAGCTCTTGCGAACTGAATAT
1 CAGGAAGCTCTTGCGAGCTGAATAT
*
38024790 CGGGAAGCTCTTGCGAGCTG
1 CAGGAAGCTCTTGCGAGCTG
38024810 TGGTGTGTCC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
25 38 0.95
26 2 0.05
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (25 bp):
CAGGAAGCTCTTGCGAGCTGAATAT
Found at i:38027340 original size:19 final size:19
Alignment explanation
Indices: 38027316--38027356 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
38027306 TTTTTTCGGG
*
38027316 TTTAGGGTTATGTTATAAA
1 TTTAGGATTATGTTATAAA
38027335 TTTAGGATTATGTTATAAA
1 TTTAGGATTATGTTATAAA
38027354 TTT
1 TTT
38027357 TTGTGTTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (19 bp):
TTTAGGATTATGTTATAAA
Found at i:38027757 original size:241 final size:245
Alignment explanation
Indices: 38027323--38027804 Score: 873
Period size: 241 Copynumber: 2.0 Consensus size: 245
38027313 GGGTTTAGGG
38027323 TTATGTTATAAATTTAGGATTATGTTATAAATTTTTGTGTTTGTAATTATTTAAAATTCAATTTA
1 TTATGTTATAAATTTAGGATTATGTTATAAATTTTTGTGTTTGTAATTATTTAAAATTCAATTTA
38027388 TTAGTAATAAATTACAAAATTACTAATAAGTTATACTAATAAATTTATAACATAATCCTAAATTA
66 TTAGTAATAAATTACAAAATTACTAATAAGTTATACTAATAAATTTATAACATAATCCTAAATTA
*
38027453 CTAACAAATTAATTATAAAATAATTTTAATATTCATACAAAAAATTACAATATTACAATATATCC
131 CTAACAAATTAATTATAAAATAATTTCAATATTCATACAAAAAATTACAATATTACAATATATCC
* *
38027518 CGACATTACAATATTCATACAAAATTACAATGTTACAATATTCATACAAA
196 CGACATTACAATATTCACACAAAATTACAATATTACAATATTCATACAAA
* *
38027568 TTAT-TTA-AAATTTAGGATTATGTTATAAATTTTTGTGTTTGTAATTATTTAACATTTAATTTA
1 TTATGTTATAAATTTAGGATTATGTTATAAATTTTTGTGTTTGTAATTATTTAAAATTCAATTTA
38027631 TTAGTAATAAATTACAAAATTACTAATAAG-T-TACTAATAAATTTATAACATAATCCTAAATTA
66 TTAGTAATAAATTACAAAATTACTAATAAGTTATACTAATAAATTTATAACATAATCCTAAATTA
*
38027694 CTAACAAATTAATTATAAAATAATTTCAATATTCATACAAAAAATTATAATATTACAATATATCC
131 CTAACAAATTAATTATAAAATAATTTCAATATTCATACAAAAAATTACAATATTACAATATATCC
*
38027759 CGACATTATAATATTCACACAAAATTACAATATTACAATATTCATA
196 CGACATTACAATATTCACACAAAATTACAATATTACAATATTCATA
38027805 TAAAATTGCA
Statistics
Matches: 230, Mismatches: 7, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
241 138 0.60
242 1 0.00
243 84 0.37
244 3 0.01
245 4 0.02
ACGTcount: A:0.46, C:0.10, G:0.04, T:0.40
Consensus pattern (245 bp):
TTATGTTATAAATTTAGGATTATGTTATAAATTTTTGTGTTTGTAATTATTTAAAATTCAATTTA
TTAGTAATAAATTACAAAATTACTAATAAGTTATACTAATAAATTTATAACATAATCCTAAATTA
CTAACAAATTAATTATAAAATAATTTCAATATTCATACAAAAAATTACAATATTACAATATATCC
CGACATTACAATATTCACACAAAATTACAATATTACAATATTCATACAAA
Found at i:38027799 original size:27 final size:27
Alignment explanation
Indices: 38027763--38027819 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
38027753 ATATCCCGAC
*
38027763 ATTATAATATTCACACAAAATTACAAT
1 ATTACAATATTCACACAAAATTACAAT
* * *
38027790 ATTACAATATTCATATAAAATTGCAAT
1 ATTACAATATTCACACAAAATTACAAT
38027817 ATT
1 ATT
38027820 TTTTTGTTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.49, C:0.12, G:0.02, T:0.37
Consensus pattern (27 bp):
ATTACAATATTCACACAAAATTACAAT
Found at i:38027885 original size:22 final size:22
Alignment explanation
Indices: 38027860--38027946 Score: 120
Period size: 22 Copynumber: 3.7 Consensus size: 22
38027850 TCTATATTTA
38027860 GTATGAATATTGTAATTTTTTT
1 GTATGAATATTGTAATTTTTTT
38027882 GTATGAATATTGTAATATTATAATTTT
1 GTATGAATATTGT-A-ATT-T--TTTT
*
38027909 GTATGAATATTGCAATTTTTTT
1 GTATGAATATTGTAATTTTTTT
38027931 GTATGAATATTGTAAT
1 GTATGAATATTGTAAT
38027947 ATTGTAATAT
Statistics
Matches: 58, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
22 32 0.55
23 1 0.02
24 4 0.07
25 4 0.07
26 1 0.02
27 16 0.28
ACGTcount: A:0.32, C:0.01, G:0.14, T:0.53
Consensus pattern (22 bp):
GTATGAATATTGTAATTTTTTT
Found at i:38027914 original size:49 final size:49
Alignment explanation
Indices: 38027855--38027954 Score: 173
Period size: 49 Copynumber: 2.0 Consensus size: 49
38027845 GATTATCTAT
*
38027855 ATTTAGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATATTATA
1 ATTTAGTATGAATATTGCAATTTTTTTGTATGAATATTGTAATATTATA
* *
38027904 ATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTAATATTGTA
1 ATTTAGTATGAATATTGCAATTTTTTTGTATGAATATTGTAATATTATA
38027953 AT
1 AT
38027955 ATTATAATTT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.33, C:0.01, G:0.13, T:0.53
Consensus pattern (49 bp):
ATTTAGTATGAATATTGCAATTTTTTTGTATGAATATTGTAATATTATA
Found at i:38027949 original size:8 final size:8
Alignment explanation
Indices: 38027936--38028007 Score: 54
Period size: 8 Copynumber: 8.4 Consensus size: 8
38027926 TTTTTGTATG
38027936 AATATTGT
1 AATATTGT
38027944 AATATTGT
1 AATATTGT
*
38027952 AATATTAT
1 AATATTGT
*
38027960 AATTTTGTAT
1 AATATTG--T
38027970 GAATATTGT
1 -AATATTGT
* * *
38027979 AATGTCGGG
1 AATAT-TGT
38027988 ATATATTGT
1 A-ATATTGT
38027997 AATATTGT
1 AATATTGT
38028005 AAT
1 AAT
38028008 TTTTTGTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
8 34 0.69
9 5 0.10
10 4 0.08
11 6 0.12
ACGTcount: A:0.36, C:0.01, G:0.15, T:0.47
Consensus pattern (8 bp):
AATATTGT
Found at i:38028235 original size:27 final size:27
Alignment explanation
Indices: 38028158--38028224 Score: 116
Period size: 27 Copynumber: 2.5 Consensus size: 27
38028148 TAACATAAAT
*
38028158 TTCATTGGCGCCTCTCTATAAAGCACC
1 TTCATTGGCGCCTCTCTATAAGGCACC
*
38028185 TTCATTGGCGCCTCTCTATGAGGCACC
1 TTCATTGGCGCCTCTCTATAAGGCACC
38028212 TTCATTGGCGCCT
1 TTCATTGGCGCCT
38028225 ACCTGATAGG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.16, C:0.33, G:0.19, T:0.31
Consensus pattern (27 bp):
TTCATTGGCGCCTCTCTATAAGGCACC
Found at i:38030121 original size:24 final size:25
Alignment explanation
Indices: 38030087--38030147 Score: 81
Period size: 24 Copynumber: 2.5 Consensus size: 25
38030077 AAGACCATGT
* *
38030087 GAACCCTTATCACT-AGACATGTGC
1 GAACCCCTATCACTCAGACATGTAC
*
38030111 GAACCCCTATCA-TCAGTCATGTAC
1 GAACCCCTATCACTCAGACATGTAC
38030135 GAACCCCTATCAC
1 GAACCCCTATCAC
38030148 ATGGTACACA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
23 1 0.03
24 31 0.97
ACGTcount: A:0.30, C:0.34, G:0.13, T:0.23
Consensus pattern (25 bp):
GAACCCCTATCACTCAGACATGTAC
Found at i:38030275 original size:32 final size:32
Alignment explanation
Indices: 38030189--38030297 Score: 110
Period size: 32 Copynumber: 3.4 Consensus size: 32
38030179 GCGAAACCTA
* * *
38030189 TATGCTATGTGACTGTATGTCATGTGTGAACC
1 TATGTTATGTGACTGTATGTGATGTGCGAACC
* * * *
38030221 TATGTTGTGTGATTGCACGTGATGTGCGAACC
1 TATGTTATGTGACTGTATGTGATGTGCGAACC
* * *
38030253 TGTGTTATTTGACTGTATGTGATGTACGAACC
1 TATGTTATGTGACTGTATGTGATGTGCGAACC
*
38030285 TATGCTTAAGTGA
1 TATG-TTATGTGA
38030298 TATGCAAACC
Statistics
Matches: 59, Mismatches: 17, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
32 53 0.90
33 6 0.10
ACGTcount: A:0.22, C:0.14, G:0.27, T:0.38
Consensus pattern (32 bp):
TATGTTATGTGACTGTATGTGATGTGCGAACC
Found at i:38030332 original size:23 final size:23
Alignment explanation
Indices: 38030279--38030351 Score: 83
Period size: 23 Copynumber: 3.2 Consensus size: 23
38030269 ATGTGATGTA
*
38030279 CGAACCTATGCTTAAGTGATATG
1 CGAACCTATGCTAAAGTGATATG
* *
38030302 CAAACCTACGCTAAAGTGATATG
1 CGAACCTATGCTAAAGTGATATG
* * **
38030325 CGAGCCTATACTAATTTGATATG
1 CGAACCTATGCTAAAGTGATATG
38030348 CGAA
1 CGAA
38030352 TTGTGATTAT
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.27
Consensus pattern (23 bp):
CGAACCTATGCTAAAGTGATATG
Found at i:38032026 original size:22 final size:23
Alignment explanation
Indices: 38031971--38032013 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
38031961 AATATTTTTA
*
38031971 TTTATAGTTTATTAAATTAAGTG
1 TTTACAGTTTATTAAATTAAGTG
38031994 TTTACAGTTTATT-AATTAAG
1 TTTACAGTTTATTAAATTAAG
38032014 CTTATTAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.35, C:0.02, G:0.12, T:0.51
Consensus pattern (23 bp):
TTTACAGTTTATTAAATTAAGTG
Found at i:38035609 original size:43 final size:42
Alignment explanation
Indices: 38035542--38035671 Score: 129
Period size: 43 Copynumber: 3.0 Consensus size: 42
38035532 CATAGGACCT
**
38035542 TCGATATGTGTTTTTGTGTAAGACCACGTCTGGGACGTCGGCA
1 TCGATATGTGTTTACGTGTAAGACCACGTCTGGGACGT-GGCA
* *
38035585 TCGACT-TGTGTTTACGTGTAAGACC-CTGTTTGGGACAGTGACA
1 TCGA-TATGTGTTTACGTGTAAGACCAC-GTCTGGGAC-GTGGCA
* * * *
38035628 TCGATATGTGATTACATGTAAGACCACATCTAGGACGTTGGCA
1 TCGATATGTGTTTACGTGTAAGACCACGTCTGGGACG-TGGCA
38035671 T
1 T
38035672 TGTAAGTGTT
Statistics
Matches: 71, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
42 3 0.04
43 64 0.90
44 4 0.06
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (42 bp):
TCGATATGTGTTTACGTGTAAGACCACGTCTGGGACGTGGCA
Found at i:38041261 original size:43 final size:41
Alignment explanation
Indices: 38041188--38041315 Score: 125
Period size: 42 Copynumber: 3.1 Consensus size: 41
38041178 ACTCAGAAAC
* *
38041188 ACATATATCACATA-CAATGCCATATCCCAGATATGGTCTT
1 ACATGTATCACATATCGATGCCATATCCCAGATATGGTCTT
* * *
38041228 ACATGTTATCACATATCGATGTCACTATCCCAGACAAGGTCTT
1 ACATG-TATCACATATCGATGCCA-TATCCCAGATATGGTCTT
* * * *
38041271 ATATGAAAC-CATATACGATGCCAATGTCCCAGATATGGTCTT
1 ACATGTATCACATAT-CGATGCC-ATATCCCAGATATGGTCTT
38041313 ACA
1 ACA
38041316 CATAATCTTA
Statistics
Matches: 70, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
40 4 0.06
41 14 0.20
42 31 0.44
43 21 0.30
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.29
Consensus pattern (41 bp):
ACATGTATCACATATCGATGCCATATCCCAGATATGGTCTT
Found at i:38046410 original size:54 final size:54
Alignment explanation
Indices: 38046351--38046455 Score: 140
Period size: 54 Copynumber: 1.9 Consensus size: 54
38046341 CTTATTATTT
* * *
38046351 CAAGTCAGTGAGTTACAC-AGTCTAGCACACGGCCTACGACATGACTGTGTGTCA
1 CAAGTCAGAGAGTTACACGA-TCTAGCACAAGGCCTACGACACGACTGTGTGTCA
* * *
38046405 CAAGTCAGAGAGTTACACGATTTGGCACAAGGCCTGCGACACGACTGTGTG
1 CAAGTCAGAGAGTTACACGATCTAGCACAAGGCCTACGACACGACTGTGTG
38046456 ACCTAACTTA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
54 43 0.98
55 1 0.02
ACGTcount: A:0.28, C:0.25, G:0.27, T:0.21
Consensus pattern (54 bp):
CAAGTCAGAGAGTTACACGATCTAGCACAAGGCCTACGACACGACTGTGTGTCA
Found at i:38071419 original size:21 final size:21
Alignment explanation
Indices: 38071372--38071421 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
38071362 GAATTTATTT
* *
38071372 AATATTAAATAATTTAATTAA
1 AATAATAAATAATTTAACTAA
*
38071393 AATAATAAATAATTTAACTAT
1 AATAATAAATAATTTAACTAA
*
38071414 ATTAATAA
1 AATAATAA
38071422 TTTATTATGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (21 bp):
AATAATAAATAATTTAACTAA
Found at i:38071814 original size:19 final size:19
Alignment explanation
Indices: 38071790--38071827 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
38071780 ACAATATTAC
38071790 TTCCATAAAGGAATTTATG
1 TTCCATAAAGGAATTTATG
38071809 TTCCATAAAGGAATTTATG
1 TTCCATAAAGGAATTTATG
38071828 GGTTGAGTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.37
Consensus pattern (19 bp):
TTCCATAAAGGAATTTATG
Found at i:38078361 original size:19 final size:20
Alignment explanation
Indices: 38078318--38078362 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
38078308 TGCAAGTGGG
38078318 TTATTTTCATATGCATTTGT
1 TTATTTTCATATGCATTTGT
*
38078338 TTATTTTTATAT-CAATTT-T
1 TTATTTTCATATGC-ATTTGT
38078357 TTATTT
1 TTATTT
38078363 GTATTTCTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.22, C:0.07, G:0.04, T:0.67
Consensus pattern (20 bp):
TTATTTTCATATGCATTTGT
Found at i:38085275 original size:2 final size:2
Alignment explanation
Indices: 38085268--38085303 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
38085258 AAATTAGTTA
38085268 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
38085304 AAGGGTTCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:38101250 original size:10 final size:10
Alignment explanation
Indices: 38101228--38101274 Score: 60
Period size: 10 Copynumber: 4.6 Consensus size: 10
38101218 AAATCTGTCG
38101228 AAAA-TAATT
1 AAAATTAATT
*
38101237 AAAATTAATC
1 AAAATTAATT
38101247 AAAATTTAATAT
1 AAAA-TTAAT-T
38101259 AAAATTAATT
1 AAAATTAATT
38101269 AAAATT
1 AAAATT
38101275 CAACATGTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
9 4 0.12
10 15 0.45
11 10 0.30
12 4 0.12
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (10 bp):
AAAATTAATT
Found at i:38101264 original size:22 final size:21
Alignment explanation
Indices: 38101232--38101274 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
38101222 CTGTCGAAAA
38101232 TAATTAAAATTAATCAAAATT
1 TAATTAAAATTAATCAAAATT
*
38101253 TAATATAAAATTAATTAAAATT
1 TAAT-TAAAATTAATCAAAATT
38101275 CAACATGTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (21 bp):
TAATTAAAATTAATCAAAATT
Found at i:38103132 original size:12 final size:12
Alignment explanation
Indices: 38103115--38103141 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
38103105 TAGACTCAAT
38103115 AATATTTAATTA
1 AATATTTAATTA
38103127 AATATTTAATTA
1 AATATTTAATTA
38103139 AAT
1 AAT
38103142 TTATAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
AATATTTAATTA
Found at i:38105821 original size:21 final size:21
Alignment explanation
Indices: 38105758--38105833 Score: 75
Period size: 19 Copynumber: 3.7 Consensus size: 21
38105748 CAGAAATCTC
*
38105758 CCCTCGTTCTTGCTGGTTTCT
1 CCCTCGTTTTTGCTGGTTTCT
* * *
38105779 CCCT--TGTTTACTGGTTTGT
1 CCCTCGTTTTTGCTGGTTTCT
*
38105798 CCCTCGTTTTTGCTAGTTTCT
1 CCCTCGTTTTTGCTGGTTTCT
*
38105819 CCCCTCTTTTTTGCT
1 -CCCTCGTTTTTGCT
38105834 TTGTTCTTGG
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
19 15 0.35
21 15 0.35
22 13 0.30
ACGTcount: A:0.03, C:0.30, G:0.16, T:0.51
Consensus pattern (21 bp):
CCCTCGTTTTTGCTGGTTTCT
Found at i:38105837 original size:40 final size:40
Alignment explanation
Indices: 38105758--38105837 Score: 97
Period size: 40 Copynumber: 2.0 Consensus size: 40
38105748 CAGAAATCTC
* * * *
38105758 CCCTCGTTCTTGCTGGTTTCTCCCTTGTTTACTGGTTTGT
1 CCCTCGTTCTTGCTAGTTTCTCCCCTCTTTACTGCTTTGT
* **
38105798 CCCTCGTTTTTGCTAGTTTCTCCCCTCTTTTTTGCTTTGT
1 CCCTCGTTCTTGCTAGTTTCTCCCCTCTTTACTGCTTTGT
38105838 TCTTGGTTGT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.03, C:0.29, G:0.16, T:0.53
Consensus pattern (40 bp):
CCCTCGTTCTTGCTAGTTTCTCCCCTCTTTACTGCTTTGT
Found at i:38105840 original size:22 final size:22
Alignment explanation
Indices: 38105754--38105833 Score: 69
Period size: 22 Copynumber: 3.8 Consensus size: 22
38105744 ACAACAGAAA
* *
38105754 TCTCCCCTCGTTCTTGCTGGTT
1 TCTCCCCTCGTTTTTGCTAGTT
* * *
38105776 TCT-CCCT--TGTTTACTGGTT
1 TCTCCCCTCGTTTTTGCTAGTT
*
38105795 TGT-CCCTCGTTTTTGCTAGTT
1 TCTCCCCTCGTTTTTGCTAGTT
*
38105816 TCTCCCCTCTTTTTTGCT
1 TCTCCCCTCGTTTTTGCT
38105834 TTGTTCTTGG
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
19 15 0.33
21 15 0.33
22 16 0.35
ACGTcount: A:0.03, C:0.31, G:0.15, T:0.51
Consensus pattern (22 bp):
TCTCCCCTCGTTTTTGCTAGTT
Found at i:38106376 original size:17 final size:18
Alignment explanation
Indices: 38106343--38106376 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
38106333 CCGATAACGA
38106343 TCAAATTATACAATAGAT
1 TCAAATTATACAATAGAT
*
38106361 TCAAATT-TAGAATAGA
1 TCAAATTATACAATAGA
38106377 AAAAAAGTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.50, C:0.09, G:0.09, T:0.32
Consensus pattern (18 bp):
TCAAATTATACAATAGAT
Found at i:38107839 original size:15 final size:13
Alignment explanation
Indices: 38107809--38107851 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
38107799 AACAAATAGG
38107809 ATAATTAATATTT
1 ATAATTAATATTT
38107822 ATAATTAATATGTTT
1 ATAATTAATA--TTT
38107837 ATAA--AATATTT
1 ATAATTAATATTT
38107848 ATAA
1 ATAA
38107852 ACATATAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
11 7 0.25
13 14 0.50
15 7 0.25
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (13 bp):
ATAATTAATATTT
Found at i:38108369 original size:6 final size:6
Alignment explanation
Indices: 38108358--38108419 Score: 63
Period size: 6 Copynumber: 10.2 Consensus size: 6
38108348 TGTTGTTGAT
* * * *
38108358 AATGGG AATGGG AATGGG AAATGGG AATGAG AATGGG TAT-TG CATGGG
1 AATGGG AATGGG AATGGG -AATGGG AATGGG AATGGG AATGGG AATGGG
38108406 AATGGG AAATGGG A
1 AATGGG -AATGGG A
38108420 GGAGGGCAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
5 3 0.07
6 31 0.67
7 12 0.26
ACGTcount: A:0.35, C:0.02, G:0.44, T:0.19
Consensus pattern (6 bp):
AATGGG
Found at i:38108448 original size:43 final size:41
Alignment explanation
Indices: 38108401--38108495 Score: 136
Period size: 43 Copynumber: 2.3 Consensus size: 41
38108391 TGGGTATTGC
* *
38108401 ATGGGAATGGGAAATGGGAGGAGGGCAATGTGGAAGAGGGGAG
1 ATGGGAATGGGAAATGGGAGGAGGGCAAGGTGG-A-AGGGGAA
* *
38108444 ATGGGAATGGGAAATGGGAGGAGGGCACGGTGGAATGGGAA
1 ATGGGAATGGGAAATGGGAGGAGGGCAAGGTGGAAGGGGAA
38108485 ATGGGAATGGG
1 ATGGGAATGGG
38108496 TGTTGCATGG
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
41 16 0.33
42 1 0.02
43 31 0.65
ACGTcount: A:0.32, C:0.03, G:0.53, T:0.13
Consensus pattern (41 bp):
ATGGGAATGGGAAATGGGAGGAGGGCAAGGTGGAAGGGGAA
Found at i:38108628 original size:30 final size:30
Alignment explanation
Indices: 38108592--38109323 Score: 1097
Period size: 30 Copynumber: 24.7 Consensus size: 30
38108582 TGTATTTAAA
*
38108592 ATTTTAAAAATAAATAAATATATGTAGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
*
38108622 ATTTTAAAAATAAAAAAATACATGTAGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
* *
38108652 ATTTTAAAAAT-AAAAAATATATGTACTAT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
38108681 ATTTTAAAAAT-AAAAAA-ATATGTAGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
38108709 ATTTTAAAAATAAAAAAGATATATGTAGTGT
1 ATTTTAAAAATAAAAAA-ATATATGTAGTGT
*
38108740 ATTTAAAAAATAAAAAAAAAATATATGTAGTGT
1 ATTTTAAAAAT---AAAAAAATATATGTAGTGT
38108773 ATTTTAAAAAT-AAAAAATATATGTAGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
38108802 ATTTTAAAAAT-AAAAAATATATGTAGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
38108831 ATTTTAAAAATAAAAAAAATATATGTAGTGT
1 ATTTTAAAAAT-AAAAAAATATATGTAGTGT
* *
38108862 ATTTTAAAAA-CAAAAAATATATGTAGTGC
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
*
38108891 ATTTTAAAAATAAAAATATATATGTAGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
*
38108921 ATTTT--AAAT----ATATATATGTAGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
*
38108945 ATTTTAAAAGTAAAAAAATATATATGTAGTGT
1 ATTTTAAAAAT-AAAAAA-ATATATGTAGTGT
38108977 ATTTTAAAAATAAAAAATATATATGTAGTGT
1 ATTTTAAAAATAAAAAA-ATATATGTAGTGT
38109008 ATTTTAAAAATAAAAAAATATATGTAGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
38109038 ATTTTAAAAATAAAAAATATATATGTAGTGT
1 ATTTTAAAAATAAAAAA-ATATATGTAGTGT
* * *
38109069 ATTTAAAAAATAAAAAAATAAATATAGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
38109099 ATTTTAAAAATAAAAAAATATATGTAGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
38109129 ATTTTAAAAAT-AAAAAATATATGTAGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
* *
38109158 ATTTTAAAAATAAAAAACTATATGTAGTGC
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
38109188 ATTTTAAAAATAAAAAAATATATGTAGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
*
38109218 ATTTT----A-AAAAATATATATGTAGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
*
38109243 ATTTTAAAAGT-AAAAAATATATGTAGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
38109272 ATTTTAAAAATAAAAAAATATATGTAGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
38109302 ATTTTAAAAATAAAAAAATATA
1 ATTTTAAAAATAAAAAAATATA
38109324 CACAACCAAA
Statistics
Matches: 646, Mismatches: 31, Indels: 50
0.89 0.04 0.07
Matches are distributed among these distances:
24 20 0.03
25 23 0.04
26 4 0.01
28 24 0.04
29 178 0.28
30 229 0.35
31 116 0.18
32 23 0.04
33 23 0.04
34 6 0.01
ACGTcount: A:0.53, C:0.01, G:0.10, T:0.37
Consensus pattern (30 bp):
ATTTTAAAAATAAAAAAATATATGTAGTGT
Found at i:38108685 original size:59 final size:59
Alignment explanation
Indices: 38108592--38109323 Score: 1062
Period size: 59 Copynumber: 12.4 Consensus size: 59
38108582 TGTATTTAAA
*
38108592 ATTTTAAAAATAAATAAATATATGTAGTGTATTTTAAAAATAAAAAAATACATGTAGTGT
1 ATTTTAAAAATAAA-AAATATATGTAGTGTATTTTAAAAATAAAAAAATATATGTAGTGT
* *
38108652 ATTTTAAAAATAAAAAATATATGTACTATATTTTAAAAAT-AAAAAA-ATATGTAGTGT
1 ATTTTAAAAATAAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATGTAGTGT
*
38108709 ATTTTAAAAATAAAAAAGATATATGTAGTGTATTTAAAAAATAAAAAAAAAATATATGTAGTGT
1 ATTTTAAAAAT-AAAAA-ATATATGTAGTGTATTTTAAAAAT---AAAAAAATATATGTAGTGT
38108773 ATTTTAAAAATAAAAAATATATGTAGTGTATTTTAAAAAT-AAAAAATATATGTAGTGT
1 ATTTTAAAAATAAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATGTAGTGT
* *
38108831 ATTTTAAAAATAAAAAAAATATATGTAGTGTATTTTAAAAA-CAAAAAATATATGTAGTGC
1 ATTTTAAAAAT--AAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATGTAGTGT
*
38108891 ATTTTAAAAATAAAAATATATATGTAGTGTATTTT--AAAT----ATATATATGTAGTGT
1 ATTTTAAAAATAAAAA-ATATATGTAGTGTATTTTAAAAATAAAAAAATATATGTAGTGT
*
38108945 ATTTTAAAAGTAAAAAAATATATATGTAGTGTATTTTAAAAATAAAAAATATATATGTAGTGT
1 ATTTTAAAA--ATAAAAA-ATATATGTAGTGTATTTTAAAAATAAAAAA-ATATATGTAGTGT
38109008 ATTTTAAAAATAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAATATATATGTAGTGT
1 ATTTTAAAAAT-AAAAAATATATGTAGTGTATTTTAAAAATAAAAAA-ATATATGTAGTGT
* * *
38109069 ATTTAAAAAATAAAAAAATAAATATAGTGTATTTTAAAAATAAAAAAATATATGTAGTGT
1 ATTTTAAAAAT-AAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATGTAGTGT
* *
38109129 ATTTTAAAAATAAAAAATATATGTAGTGTATTTTAAAAATAAAAAACTATATGTAGTGC
1 ATTTTAAAAATAAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATGTAGTGT
*
38109188 ATTTTAAAAATAAAAAAATATATGTAGTGTATTTT----A-AAAAATATATATGTAGTGT
1 ATTTTAAAAAT-AAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATGTAGTGT
*
38109243 ATTTTAAAAGTAAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATGTAGTGT
1 ATTTTAAAAATAAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATGTAGTGT
38109302 ATTTTAAAAATAAAAAAATATA
1 ATTTTAAAAAT-AAAAAATATA
38109324 CACAACCAAA
Statistics
Matches: 616, Mismatches: 27, Indels: 58
0.88 0.04 0.08
Matches are distributed among these distances:
54 45 0.07
55 26 0.04
56 26 0.04
57 24 0.04
58 50 0.08
59 146 0.24
60 126 0.20
61 89 0.14
62 29 0.05
63 33 0.05
64 22 0.04
ACGTcount: A:0.53, C:0.01, G:0.10, T:0.37
Consensus pattern (59 bp):
ATTTTAAAAATAAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATGTAGTGT
Found at i:38108932 original size:22 final size:23
Alignment explanation
Indices: 38108903--38108953 Score: 93
Period size: 24 Copynumber: 2.2 Consensus size: 23
38108893 TTTAAAAATA
38108903 AAAATATATATGTAGTGTATTTT
1 AAAATATATATGTAGTGTATTTT
38108926 AAATATATATATGTAGTGTATTTT
1 AAA-ATATATATGTAGTGTATTTT
38108950 AAAA
1 AAAA
38108954 GTAAAAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 4 0.15
24 23 0.85
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.45
Consensus pattern (23 bp):
AAAATATATATGTAGTGTATTTT
Found at i:38113026 original size:21 final size:21
Alignment explanation
Indices: 38113002--38113054 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
38112992 CATTGTTTCT
*
38113002 AATCTCACCGCTACAGTACCC
1 AATCTCACCGCTACAGTAACC
*
38113023 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
38113044 AATCTCACCGC
1 AATCTCACCGC
38113055 CGCCGCTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.40, G:0.09, T:0.21
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:38114581 original size:29 final size:29
Alignment explanation
Indices: 38114543--38114605 Score: 99
Period size: 29 Copynumber: 2.2 Consensus size: 29
38114533 TAAATGACAA
* *
38114543 CCTTTGTGGCATAACTCTAGATAGGAAAG
1 CCTTTGTGGCAAAAATCTAGATAGGAAAG
*
38114572 CCTTTGTGGCAAAAATCTGGATAGGAAAG
1 CCTTTGTGGCAAAAATCTAGATAGGAAAG
38114601 CCTTT
1 CCTTT
38114606 CTAGTGAGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (29 bp):
CCTTTGTGGCAAAAATCTAGATAGGAAAG
Found at i:38122307 original size:10 final size:10
Alignment explanation
Indices: 38122288--38122335 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
38122278 GAATCTGTCA
*
38122288 AAAATAAATC
1 AAAATTAATC
38122298 AAAATTAATC
1 AAAATTAATC
*
38122308 AAAATTAATTAT
1 AAAATTAA-T-C
*
38122320 AAAATTAATT
1 AAAATTAATC
38122330 AAAATT
1 AAAATT
38122336 CAACATATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
10 24 0.71
11 2 0.06
12 8 0.24
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (10 bp):
AAAATTAATC
Found at i:38125545 original size:42 final size:42
Alignment explanation
Indices: 38125486--38125581 Score: 147
Period size: 42 Copynumber: 2.3 Consensus size: 42
38125476 GAGTCTCCAT
* * **
38125486 AGCTCATGTTAGTAGCATTGTGTAGCTTACATTCTGACCCAA
1 AGCTCGTGTGAGTAGCATCATGTAGCTTACATTCTGACCCAA
*
38125528 AGCTCGTGTGAGTAGCATCATGTAGCTTACATTCTGACCCAT
1 AGCTCGTGTGAGTAGCATCATGTAGCTTACATTCTGACCCAA
38125570 AGCTCGTGTGAG
1 AGCTCGTGTGAG
38125582 CATTGATGTA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (42 bp):
AGCTCGTGTGAGTAGCATCATGTAGCTTACATTCTGACCCAA
Found at i:38126825 original size:20 final size:20
Alignment explanation
Indices: 38126766--38126836 Score: 56
Period size: 21 Copynumber: 3.5 Consensus size: 20
38126756 CGTGTGAACC
* *
38126766 CTGTTTCCAATTTTTGC-AA
1 CTGTTTCTAATTTTTCCGAA
* *
38126785 CTTTTTCCTAAACTTTTCCG-A
1 CTGTTT-CT-AATTTTTCCGAA
38126806 CTGTTTCTAATTTTTCCCGAA
1 CTGTTTCTAATTTTT-CCGAA
*
38126827 TTGTTTCTAA
1 CTGTTTCTAA
38126837 GTTATTTCTA
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
19 11 0.28
20 6 0.15
21 23 0.57
ACGTcount: A:0.20, C:0.23, G:0.08, T:0.49
Consensus pattern (20 bp):
CTGTTTCTAATTTTTCCGAA
Found at i:38128533 original size:21 final size:23
Alignment explanation
Indices: 38128490--38128534 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 23
38128480 TTTGATAATA
38128490 TGTTTTGATATAACAAATTAAAG
1 TGTTTTGATATAACAAATTAAAG
*
38128513 TGTTTTGA-ATAA-AAGTTAAAG
1 TGTTTTGATATAACAAATTAAAG
38128534 T
1 T
38128535 TGAACAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.43
22 4 0.19
23 8 0.38
ACGTcount: A:0.42, C:0.02, G:0.16, T:0.40
Consensus pattern (23 bp):
TGTTTTGATATAACAAATTAAAG
Found at i:38128764 original size:22 final size:21
Alignment explanation
Indices: 38128722--38128761 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
38128712 CAATTTACAT
* *
38128722 AAAAAGTATTGCTACCTTTAC
1 AAAAAGTATCGATACCTTTAC
38128743 AAAAAGTATCGATACCTTT
1 AAAAAGTATCGATACCTTT
38128762 TACTAGGTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (21 bp):
AAAAAGTATCGATACCTTTAC
Found at i:38129950 original size:12 final size:12
Alignment explanation
Indices: 38129933--38129958 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
38129923 AAAAATAATT
38129933 AAAAATATTTAG
1 AAAAATATTTAG
38129945 AAAAATATTTAG
1 AAAAATATTTAG
38129957 AA
1 AA
38129959 GGTGAAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (12 bp):
AAAAATATTTAG
Found at i:38134090 original size:163 final size:163
Alignment explanation
Indices: 38133866--38134188 Score: 637
Period size: 163 Copynumber: 2.0 Consensus size: 163
38133856 ATCCAACAAA
38133866 ATAATTCCACATTTATTCCTAAAAATGCATAGATAATCTCAAAAATTAGGACAAGACCACTCTCT
1 ATAATTCCACATTTATTCCTAAAAATGCATAGATAATCTCAAAAATTAGGACAAGACCACTCTCT
38133931 CTCGATTCCCAAACTTGATTCTACTAACCCCCGATTTTTGTGATGTTACATGTGAACTTAGTTCT
66 CTCGATTCCCAAACTTGATTCTACTAACCCCCGATTTTTGTGATGTTACATGTGAACTTAGTTCT
38133996 GAATATGGACTAATTTGTTAAGTAATTTTTTTT
131 GAATATGGACTAATTTGTTAAGTAATTTTTTTT
*
38134029 ATAATTCCATATTTATTCCTAAAAATGCATAGATAATCTCAAAAATTAGGACAAGACCACTCTCT
1 ATAATTCCACATTTATTCCTAAAAATGCATAGATAATCTCAAAAATTAGGACAAGACCACTCTCT
38134094 CTCGATTCCCAAACTTGATTCTACTAACCCCCGATTTTTGTGATGTTACATGTGAACTTAGTTCT
66 CTCGATTCCCAAACTTGATTCTACTAACCCCCGATTTTTGTGATGTTACATGTGAACTTAGTTCT
38134159 GAATATGGACTAATTTGTTAAGTAATTTTT
131 GAATATGGACTAATTTGTTAAGTAATTTTT
38134189 GTTAGTCTTG
Statistics
Matches: 159, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
163 159 1.00
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.37
Consensus pattern (163 bp):
ATAATTCCACATTTATTCCTAAAAATGCATAGATAATCTCAAAAATTAGGACAAGACCACTCTCT
CTCGATTCCCAAACTTGATTCTACTAACCCCCGATTTTTGTGATGTTACATGTGAACTTAGTTCT
GAATATGGACTAATTTGTTAAGTAATTTTTTTT
Found at i:38134575 original size:28 final size:28
Alignment explanation
Indices: 38134535--38134591 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
38134525 GGAGTCGTGT
38134535 TTGAGGTTGTTTTGGTTAGGTAAGTTCG
1 TTGAGGTTGTTTTGGTTAGGTAAGTTCG
38134563 TTGAGGTTGTTTTGGTTAGGTAAGTTCG
1 TTGAGGTTGTTTTGGTTAGGTAAGTTCG
38134591 T
1 T
38134592 ATGGACTTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.14, C:0.04, G:0.35, T:0.47
Consensus pattern (28 bp):
TTGAGGTTGTTTTGGTTAGGTAAGTTCG
Found at i:38138893 original size:19 final size:19
Alignment explanation
Indices: 38138865--38138915 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 19
38138855 TATGGGATTT
38138865 CACTTCGGTGC-CTGTGTTA
1 CACTTCGGTGCTCTGT-TTA
*
38138884 CACTTTGGTGTCTCTGTTTA
1 CACTTCGGTG-CTCTGTTTA
38138904 CACTTCGGTGCT
1 CACTTCGGTGCT
38138916 TCTAATTGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 11 0.39
20 13 0.46
21 4 0.14
ACGTcount: A:0.10, C:0.25, G:0.24, T:0.41
Consensus pattern (19 bp):
CACTTCGGTGCTCTGTTTA
Found at i:38145188 original size:37 final size:35
Alignment explanation
Indices: 38145141--38145220 Score: 88
Period size: 37 Copynumber: 2.2 Consensus size: 35
38145131 AACTAACATT
* * * *
38145141 AAAATTAAAAATTAAATTAAAATTAAAGACAAAGATG
1 AAAATGAAAAATAAAAATAAAACT-AAGA-AAAGATG
* *
38145178 AAAATGAAAAATAAAAATAAAACTAAGAAAGGATT
1 AAAATGAAAAATAAAAATAAAACTAAGAAAAGATG
38145213 AAAATGAA
1 AAAATGAA
38145221 TTAGAAATTT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
35 13 0.35
36 4 0.11
37 20 0.54
ACGTcount: A:0.68, C:0.03, G:0.10, T:0.20
Consensus pattern (35 bp):
AAAATGAAAAATAAAAATAAAACTAAGAAAAGATG
Found at i:38152148 original size:27 final size:26
Alignment explanation
Indices: 38152098--38152418 Score: 281
Period size: 27 Copynumber: 11.9 Consensus size: 26
38152088 TAAAATAACA
*
38152098 GAAATACCCCATAGGGTAACATGATC
1 GAAATACCCCATAGGGTAAAATGATC
38152124 GAAATACCCCGATAGGGTAAAATGA-C
1 GAAATACCCC-ATAGGGTAAAATGATC
* *
38152150 TGAAATACTCTCATAGGGTAAAATGACC
1 -GAAATAC-CCCATAGGGTAAAATGATC
* *
38152178 GAAATGCCCTTATAGGGTAAAATGA-C
1 GAAATACCC-CATAGGGTAAAATGATC
* * *
38152204 TGAAATACCTCTATAGGTTAAAATGACC
1 -GAAATACC-CCATAGGGTAAAATGATC
*
38152232 AAAATAGCCCCATAGGGTAAAATGATC
1 GAAATA-CCCCATAGGGTAAAATGATC
38152259 GAAATACCTCCATAGGGTAAAATGATC
1 GAAATACC-CCATAGGGTAAAATGATC
* * * **
38152286 AAAATACCCCCATAAGATAGTATGATC
1 GAAATA-CCCCATAGGGTAAAATGATC
38152313 GAAATACCCCCATAGGGTAAAATGA-C
1 GAAATA-CCCCATAGGGTAAAATGATC
* * * *
38152339 TAAAATACCCCCATAAGGTAGAATGACC
1 -GAAATA-CCCCATAGGGTAAAATGATC
* *
38152367 GAACTACCCCCATAGGTTAAAATGAT-
1 GAAATA-CCCCATAGGGTAAAATGATC
* *
38152393 GAAAATACACCCATAAGGCAAAATGA
1 G-AAATAC-CCCATAGGGTAAAATGA
38152419 CTGTTATACC
Statistics
Matches: 245, Mismatches: 35, Indels: 29
0.79 0.11 0.09
Matches are distributed among these distances:
26 18 0.07
27 217 0.89
28 10 0.04
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.20
Consensus pattern (26 bp):
GAAATACCCCATAGGGTAAAATGATC
Found at i:38152170 original size:54 final size:52
Alignment explanation
Indices: 38152085--38152430 Score: 311
Period size: 54 Copynumber: 6.4 Consensus size: 52
38152075 ACCCCAAAAT
* * * *
38152085 AGGTAAAATAACAGAAATACCCCATAGGGTAACATGATCGAAATACCCCGATA
1 AGGTAAAATGACTGAAATACCCCATAGGGTAAAATGATCAAAATACCCC-ATA
* * * * * *
38152138 GGGTAAAATGACTGAAATACTCTCATAGGGTAAAATGACCGAAATGCCCTTATA
1 AGGTAAAATGACTGAAATAC-CCCATAGGGTAAAATGATCAAAATACCC-CATA
* * * *
38152192 GGGTAAAATGACTGAAATACCTCTATAGGTTAAAATGACCAAAATAGCCCCATA
1 AGGTAAAATGACTGAAATACC-CCATAGGGTAAAATGATCAAAATA-CCCCATA
*
38152246 GGGTAAAATGA-TCGAAATACCTCCATAGGGTAAAATGATCAAAATACCCCCATA
1 AGGTAAAATGACT-GAAATACC-CCATAGGGTAAAATGATCAAAATA-CCCCATA
* **
38152300 AGATAGTATGA-TCGAAATACCCCCATAGGGTAAAATGA-CTAAAATACCCCCATA
1 AGGTAAAATGACT-GAAATA-CCCCATAGGGTAAAATGATC-AAAATA-CCCCATA
* * * * *
38152354 AGGTAGAATGACCGAACTACCCCCATAGGTTAAAATGATGAAAATACACCCATA
1 AGGTAAAATGACTGAAATA-CCCCATAGGGTAAAATGATCAAAATAC-CCCATA
* **
38152408 AGGCAAAATGACTGTTATACCCC
1 AGGTAAAATGACTGAAATACCCC
38152431 TAAGAGATGA
Statistics
Matches: 249, Mismatches: 34, Indels: 20
0.82 0.11 0.07
Matches are distributed among these distances:
53 25 0.10
54 219 0.88
55 5 0.02
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.21
Consensus pattern (52 bp):
AGGTAAAATGACTGAAATACCCCATAGGGTAAAATGATCAAAATACCCCATA
Found at i:38152420 original size:81 final size:79
Alignment explanation
Indices: 38152086--38152430 Score: 316
Period size: 81 Copynumber: 4.3 Consensus size: 79
38152076 CCCCAAAATA
* * * * * *
38152086 GGTAAAATAACAGAAATA-CCCCATAGGGTAACATGATCGAAATACCCCGATAGGGTAAAATGAC
1 GGTAAAATGACTGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGTTAAAATGA-
*
38152150 TGAAATACTCTCATAG
65 TGAAATAC-CCCATAG
* * ** * * *
38152166 GGTAAAATGACCGAAATGCCCTTATAGGGTAAAATGACTGAAATACCTCTATAGGTTAAAATGAC
1 GGTAAAATGACTGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGTTAAAATGA-
**
38152231 CAAAATAGCCCCATAG
65 TGAAATA-CCCCATAG
* * * * * **
38152247 GGTAAAATGA-TCGAAATACCTCCATAGGGTAAAATGATCAAAATACCCCCATAAGATAGTATGA
1 GGTAAAATGACT-GAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGTTAAAATGA
38152311 TCGAAATACCCCCATAG
65 T-GAAATA-CCCCATAG
* * * *
38152328 GGTAAAATGACTAAAATACCCCCATAAGGTAGAATGACCGAACTACCCCCATAGGTTAAAATGAT
1 GGTAAAATGACTGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGTTAAAATGAT
*
38152393 GAAAATACACCCATAA
66 G-AAATAC-CCCATAG
* **
38152409 GGCAAAATGACTGTTATACCCC
1 GGTAAAATGACTGAAATACCCC
38152431 TAAGAGATGA
Statistics
Matches: 211, Mismatches: 47, Indels: 13
0.78 0.17 0.05
Matches are distributed among these distances:
80 17 0.08
81 192 0.91
82 2 0.01
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.21
Consensus pattern (79 bp):
GGTAAAATGACTGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGTTAAAATGAT
GAAATACCCCATAG
Found at i:38171893 original size:21 final size:21
Alignment explanation
Indices: 38171854--38171893 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
38171844 TATCAGAATT
*
38171854 ATATTAATATTTTTCAAAAAA
1 ATATTAATATTTTTAAAAAAA
38171875 ATATTAAT-TTTATTAAAAA
1 ATATTAATATTT-TTAAAAA
38171894 TTAACCTGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (21 bp):
ATATTAATATTTTTAAAAAAA
Found at i:38183741 original size:4 final size:4
Alignment explanation
Indices: 38183732--38183756 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
38183722 TTTACTTAAA
38183732 ATTT ATTT ATTT ATTT ATTT ATTT A
1 ATTT ATTT ATTT ATTT ATTT ATTT A
38183757 AAAAAAACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (4 bp):
ATTT
Found at i:38185325 original size:50 final size:50
Alignment explanation
Indices: 38185223--38185462 Score: 246
Period size: 50 Copynumber: 4.7 Consensus size: 50
38185213 AAAGAGATCT
* * *
38185223 CATGTAAGCCCATGTTTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAGGTCC
*
38185279 CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
* * *
38185329 CATGTAAGACCATGTCTCGGACATGGCGTTGGCACCAAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
** * * * * * ** *
38185379 CCCGTAAGACCATTTCTGGGACATGGCATGGGCACCTATATAAGAACTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
* * *
38185429 CATGTAAGACCATATCTAGGATATGGCATTGGCA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA
38185463 GTACAAGAAA
Statistics
Matches: 160, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
50 125 0.78
53 3 0.02
55 1 0.01
56 31 0.19
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.24
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
Found at i:38189976 original size:439 final size:439
Alignment explanation
Indices: 38189154--38190032 Score: 1605
Period size: 439 Copynumber: 2.0 Consensus size: 439
38189144 TCAGTTGCAA
38189154 GTTAAAGATTTAGATGTTCCGAAGACTGCTTTCCGGACTAGGTATGGTCACTATGAGTTTCTTGT
1 GTTAAAGATTTAGATGTTCCGAAGACTGCTTTCCGGACTAGGTATGGTCACTATGAGTTTCTTGT
38189219 GATGCCATTTGGTTTGACTAATGCTCCTGCCATATTCATGGATTTAGTGAACCGAATCTTTCGAC
66 GATGCCATTTGGTTTGACTAATGCTCCTGCCATATTCATGGATTTAGTGAACCGAATCTTTCGAC
38189284 TTTACTTGGATAAGTTTGTAGTTGTGTTTATTGATGATATTCTGATTTATTCTCCTAATGAGACT
131 TTTACTTGGATAAGTTTGTAGTTGTGTTTATTGATGATATTCTGATTTATTCTCCTAATGAGACT
* *
38189349 AAACATGCCGAATATTTAAGAACAGTTTTACAGATTCTAAAAGATAATCAGTTGTATGCCAAGTT
196 AAACATCCCGAACATTTAAGAACAGTTTTACAGATTCTAAAAGATAATCAGTTGTATGCCAAGTT
* *
38189414 TAGTAAAAGTGAGTTCTGGCTTCGAGAAGTCAGATTCCTTGGGCACATTATGTCAGGTGATGGTA
261 TAGCAAAAGTGAGTTCTGGCTTCGAGAAGTCAGATTCCTTGGACACATTATGTCAGGTGATGGTA
*
38189479 TTAAAGTTGATCCGAGTAAAATTTCAGCAATTGTTGAGTGGAAACCACCCAAAAATGTGTCAGAT
326 TTAAAGTTGATCCGAGTAAAATTTCAGCAATTGTTGAGTGGAAACCACCCAAAAATGTGTCAGAG
* * *
38189544 GTTAGAATTTTTCTTGGATTAGCTGGTTATGACAGATAGTTTGTAAAGG
391 GTTAGAAGTTTTATTGGATTAGCTGGTTATGACAGACAGTTTGTAAAGG
38189593 GTTAAAGATTTAGATGTTCCGAAGACTGCTTTCCGGACTAGGTATGGTCACTATGAGTTTCTTGT
1 GTTAAAGATTTAGATGTTCCGAAGACTGCTTTCCGGACTAGGTATGGTCACTATGAGTTTCTTGT
* * *
38189658 GATGCCATTTGGTTTGACTAATGCTCCTTCCATATTTATGGATTTAGTGAATCGAATCTTTCGAC
66 GATGCCATTTGGTTTGACTAATGCTCCTGCCATATTCATGGATTTAGTGAACCGAATCTTTCGAC
*
38189723 TTTACTTGGATAAGTTTGTAGTTGTGTTTATTGATGATATTCTGATTTATTCTCCTGATGAGACT
131 TTTACTTGGATAAGTTTGTAGTTGTGTTTATTGATGATATTCTGATTTATTCTCCTAATGAGACT
* *
38189788 AAACATCCCGAACATTTAAGAACAGTTTTACAGATTCTAAGAGATAATCAGTTGTATGGCAAGTT
196 AAACATCCCGAACATTTAAGAACAGTTTTACAGATTCTAAAAGATAATCAGTTGTATGCCAAGTT
* *
38189853 TAGCAAAAGTGAGTTCTGGCTTCGAGAAGTCAGATTCTTTGGACACATTGTGTCAGGTGATGGTA
261 TAGCAAAAGTGAGTTCTGGCTTCGAGAAGTCAGATTCCTTGGACACATTATGTCAGGTGATGGTA
*
38189918 TTAAAGTTGATCCGAGTAAAATTTCAGCAATTGTTGAGTGGAAACCACCCAGAAATGTGTCAGAG
326 TTAAAGTTGATCCGAGTAAAATTTCAGCAATTGTTGAGTGGAAACCACCCAAAAATGTGTCAGAG
38189983 GTTAGAAGTTTTATTGGATTAGCTGGTTATGACAGACAGTTTGTAAAGG
391 GTTAGAAGTTTTATTGGATTAGCTGGTTATGACAGACAGTTTGTAAAGG
38190032 G
1 G
38190033 ATTTTCCATG
Statistics
Matches: 423, Mismatches: 17, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
439 423 1.00
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.36
Consensus pattern (439 bp):
GTTAAAGATTTAGATGTTCCGAAGACTGCTTTCCGGACTAGGTATGGTCACTATGAGTTTCTTGT
GATGCCATTTGGTTTGACTAATGCTCCTGCCATATTCATGGATTTAGTGAACCGAATCTTTCGAC
TTTACTTGGATAAGTTTGTAGTTGTGTTTATTGATGATATTCTGATTTATTCTCCTAATGAGACT
AAACATCCCGAACATTTAAGAACAGTTTTACAGATTCTAAAAGATAATCAGTTGTATGCCAAGTT
TAGCAAAAGTGAGTTCTGGCTTCGAGAAGTCAGATTCCTTGGACACATTATGTCAGGTGATGGTA
TTAAAGTTGATCCGAGTAAAATTTCAGCAATTGTTGAGTGGAAACCACCCAAAAATGTGTCAGAG
GTTAGAAGTTTTATTGGATTAGCTGGTTATGACAGACAGTTTGTAAAGG
Found at i:38192122 original size:50 final size:50
Alignment explanation
Indices: 38192010--38192257 Score: 210
Period size: 50 Copynumber: 4.8 Consensus size: 50
38192000 ATTTGGGTAA
* * * * *
38192010 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAAATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTAGCA-C----CAA-GATG
* * * * *
38192066 AGAGGTCCCATGAAAGACCATGTTTGGGACATGGTGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTAGCACCAAGATG
*
38192116 AGAGGTCCTATGTAAGACCATGTCTGGGACATGGCGTTAGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTAGCACCAAGATG
** * ** * *
38192166 AGAGGTCCCCCGTAAGACCAAGTCTGGGACAT-GCCATAGGCACCTATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTA-GCACCAAGATG
** * * * *
38192216 AGAACTCTCATGTAAGACCATATCTGGGATATGGCATTAGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTAGCA
38192258 GTACAAGAAA
Statistics
Matches: 158, Mismatches: 32, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
49 4 0.03
50 111 0.70
51 5 0.03
55 1 0.01
56 37 0.23
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTAGCACCAAGATG
Found at i:38194928 original size:16 final size:16
Alignment explanation
Indices: 38194903--38194933 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
38194893 ATAAGAATTT
38194903 TTTATAGTTTTTTAAG
1 TTTATAGTTTTTTAAG
*
38194919 TTTATTGTTTTTTAA
1 TTTATAGTTTTTTAA
38194934 AAAATAATAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.68
Consensus pattern (16 bp):
TTTATAGTTTTTTAAG
Found at i:38199754 original size:27 final size:27
Alignment explanation
Indices: 38199723--38199780 Score: 116
Period size: 27 Copynumber: 2.1 Consensus size: 27
38199713 TCAAAACATC
38199723 TAAATATTATGCATAATATAACTTAAT
1 TAAATATTATGCATAATATAACTTAAT
38199750 TAAATATTATGCATAATATAACTTAAT
1 TAAATATTATGCATAATATAACTTAAT
38199777 TAAA
1 TAAA
38199781 AAAACTTCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (27 bp):
TAAATATTATGCATAATATAACTTAAT
Found at i:38209866 original size:3 final size:3
Alignment explanation
Indices: 38209860--38209884 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
38209850 AAGTGTGTTG
38209860 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
38209885 GTGAAGATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:38215161 original size:13 final size:13
Alignment explanation
Indices: 38215124--38215166 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
38215114 ATATATAAAG
38215124 TATTTTATAATAT
1 TATTTTATAATAT
* *
38215137 T-TTTAGAAAATAT
1 TATTT-TATAATAT
38215150 TATTTTATAATAT
1 TATTTTATAATAT
38215163 TATT
1 TATT
38215167 ATATTTAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
12 3 0.12
13 18 0.75
14 3 0.12
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (13 bp):
TATTTTATAATAT
Found at i:38223280 original size:19 final size:19
Alignment explanation
Indices: 38223258--38223300 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
38223248 TAATATTTTG
*
38223258 AAAAA-TATATAAATTTATA
1 AAAAATTAT-TAAAATTATA
*
38223277 AAAAATTATTAAAATTATT
1 AAAAATTATTAAAATTATA
38223296 AAAAA
1 AAAAA
38223301 GCACGTCCAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 18 0.86
20 3 0.14
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAAATTATTAAAATTATA
Found at i:38223281 original size:20 final size:20
Alignment explanation
Indices: 38223258--38223300 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
38223248 TAATATTTTG
*
38223258 AAAAATATATAAATTTA-TAA
1 AAAAATAT-TAAAATTATTAA
*
38223278 AAAATTATTAAAATTATTAA
1 AAAAATATTAAAATTATTAA
38223298 AAA
1 AAA
38223301 GCACGTCCAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAAATATTAAAATTATTAA
Found at i:38223393 original size:25 final size:24
Alignment explanation
Indices: 38223357--38223406 Score: 57
Period size: 24 Copynumber: 2.0 Consensus size: 24
38223347 ATATCAATTG
*
38223357 TTTTATTAATTTATATATTTTAAAA
1 TTTTATTAATTTATA-ATTTCAAAA
*
38223382 TTTTA-TATATTTTTAATTTCAAAA
1 TTTTATTA-ATTTATAATTTCAAAA
38223406 T
1 T
38223407 AATAATATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (24 bp):
TTTTATTAATTTATAATTTCAAAA
Found at i:38223399 original size:16 final size:16
Alignment explanation
Indices: 38223362--38223400 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
38223352 AATTGTTTTA
38223362 TTAA-TTTATATATTT
1 TTAATTTTATATATTT
*
38223377 TAAAATTTTATATATTT
1 T-TAATTTTATATATTT
38223394 TTAATTT
1 TTAATTT
38223401 CAAAATAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
15 1 0.05
16 7 0.35
17 12 0.60
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TTAATTTTATATATTT
Found at i:38223746 original size:10 final size:10
Alignment explanation
Indices: 38223726--38223757 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
38223716 CAGTCCAAAT
38223726 ACATAGGCCCA
1 ACAT-GGCCCA
38223737 ACATGGCCCA
1 ACATGGCCCA
38223747 ACATGGCCCA
1 ACATGGCCCA
38223757 A
1 A
38223758 ATCGTTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 17 0.81
11 4 0.19
ACGTcount: A:0.34, C:0.38, G:0.19, T:0.09
Consensus pattern (10 bp):
ACATGGCCCA
Found at i:38240282 original size:21 final size:21
Alignment explanation
Indices: 38240229--38240283 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
38240219 ACCATTGTTT
* *
38240229 CTAATCTCACCACTAAAGTAT
1 CTAATCTCACCGCTAAAGTAA
* *
38240250 CCAATCTCACCGCTACAGTAA
1 CTAATCTCACCGCTAAAGTAA
38240271 CTAATCTCACCGC
1 CTAATCTCACCGC
38240284 CACTGCTGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.33, C:0.36, G:0.07, T:0.24
Consensus pattern (21 bp):
CTAATCTCACCGCTAAAGTAA
Found at i:38252160 original size:23 final size:23
Alignment explanation
Indices: 38252134--38252177 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
38252124 GTAATTATAA
38252134 ATACATGTGTAATAAATATATGT
1 ATACATGTGTAATAAATATATGT
* *
38252157 ATACATTTGTAATTAATATAT
1 ATACATGTGTAATAAATATAT
38252178 ATACATATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.43, C:0.05, G:0.09, T:0.43
Consensus pattern (23 bp):
ATACATGTGTAATAAATATATGT
Found at i:38253629 original size:23 final size:22
Alignment explanation
Indices: 38253581--38253658 Score: 61
Period size: 23 Copynumber: 3.5 Consensus size: 22
38253571 ACCGATCCGA
* * *
38253581 CACTTTATGTATCGTATATCAAG
1 CACTTTATGTGTC-TATTTCAGG
38253604 CACTTTATGTGTCATATTTCAGG
1 CACTTTATGTGTC-TATTTCAGG
* ** *
38253627 CACCTCGTGTGTC-GTTTCAGG
1 CACTTTATGTGTCTATTTCAGG
38253648 CAC-TTATGTGT
1 CACTTTATGTGT
38253659 TGTATATTGA
Statistics
Matches: 45, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
20 6 0.13
21 10 0.22
23 29 0.64
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.40
Consensus pattern (22 bp):
CACTTTATGTGTCTATTTCAGG
Found at i:38261854 original size:34 final size:35
Alignment explanation
Indices: 38261792--38261864 Score: 121
Period size: 34 Copynumber: 2.1 Consensus size: 35
38261782 GGCCGATAAT
* *
38261792 ACCGACAATAAATGTGCCCAGCATTGGTCGGTAAA
1 ACCGACAATAAATGAGCCCAGCACTGGTCGGTAAA
38261827 ACCGACAAT-AATGAGCCCAGCACTGGTCGGTAAA
1 ACCGACAATAAATGAGCCCAGCACTGGTCGGTAAA
38261861 ACCG
1 ACCG
38261865 TCAAATGGGG
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
34 27 0.75
35 9 0.25
ACGTcount: A:0.34, C:0.26, G:0.23, T:0.16
Consensus pattern (35 bp):
ACCGACAATAAATGAGCCCAGCACTGGTCGGTAAA
Found at i:38264880 original size:20 final size:20
Alignment explanation
Indices: 38264855--38264903 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
38264845 TTTATGCTAG
*
38264855 GTAAATGAAATGGAAAGCAA
1 GTAAATGAAATGGAAAGAAA
* *
38264875 GTAAATGGAATGGTAAGAAA
1 GTAAATGAAATGGAAAGAAA
38264895 GTAAATGAA
1 GTAAATGAA
38264904 GTGGTTCGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.53, C:0.02, G:0.27, T:0.18
Consensus pattern (20 bp):
GTAAATGAAATGGAAAGAAA
Found at i:38266482 original size:38 final size:38
Alignment explanation
Indices: 38266433--38266508 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
38266423 ATTATTTTTG
*
38266433 TTGTATCCACCAAGAAACTTATTGCCCAAAGCGCAGTT
1 TTGTATCCACCAAGAAACTGATTGCCCAAAGCGCAGTT
38266471 TTGTATCCACCAAGAAACTGATTGCCCAAAGCGCAGTT
1 TTGTATCCACCAAGAAACTGATTGCCCAAAGCGCAGTT
38266509 GCCTATATGG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (38 bp):
TTGTATCCACCAAGAAACTGATTGCCCAAAGCGCAGTT
Found at i:38271178 original size:68 final size:68
Alignment explanation
Indices: 38271069--38271202 Score: 241
Period size: 68 Copynumber: 2.0 Consensus size: 68
38271059 AATCCTGTAG
*
38271069 AAAGGTTCAGATGTACTATTAGTAATGTTAAGTATGATTTCTCTTTGGAACTCACTAAGTTTGTA
1 AAAGGTTCAGATGTACTATCAGTAATGTTAAGTATGATTTCTCTTTGGAACTCACTAAGTTTGTA
38271134 TGA
66 TGA
* *
38271137 AAAGGTTTAGATGTACTATCAGTAATGTTATGTATGATTTCTCTTTGGAACTCACTAAGTTTGTA
1 AAAGGTTCAGATGTACTATCAGTAATGTTAAGTATGATTTCTCTTTGGAACTCACTAAGTTTGTA
38271202 T
66 T
38271203 AAACTTACTC
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
68 63 1.00
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.41
Consensus pattern (68 bp):
AAAGGTTCAGATGTACTATCAGTAATGTTAAGTATGATTTCTCTTTGGAACTCACTAAGTTTGTA
TGA
Found at i:38275195 original size:21 final size:20
Alignment explanation
Indices: 38275164--38275232 Score: 66
Period size: 21 Copynumber: 3.3 Consensus size: 20
38275154 TGAAAATTCA
*
38275164 AAATTTAAAATTAGAAATTGG
1 AAATTGAAAATTA-AAATTGG
* * *
38275185 AAATTGGAAATTTAAATTTG
1 AAATTGAAAATTAAAATTGG
*
38275205 AATATTGAAAATATAAATTTGG
1 AA-ATTGAAAAT-TAAAATTGG
38275227 AAATTG
1 AAATTG
38275233 TGGAAAGAAG
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
20 8 0.21
21 22 0.58
22 8 0.21
ACGTcount: A:0.49, C:0.00, G:0.14, T:0.36
Consensus pattern (20 bp):
AAATTGAAAATTAAAATTGG
Found at i:38283344 original size:19 final size:21
Alignment explanation
Indices: 38283320--38283358 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
38283310 AATATTTACA
38283320 TTAATAAAA-T-AAATTATTG
1 TTAATAAAATTGAAATTATTG
38283339 TTAATAAAATTGAAATTATT
1 TTAATAAAATTGAAATTATT
38283359 TGTTCTCCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
20 1 0.06
21 8 0.44
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (21 bp):
TTAATAAAATTGAAATTATTG
Found at i:38285389 original size:6 final size:6
Alignment explanation
Indices: 38285378--38285410 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
38285368 ATTATGTTTA
38285378 AATTAT AATTAT AATTAT AATTAT AATTAT AAT
1 AATTAT AATTAT AATTAT AATTAT AATTAT AAT
38285411 ATTATATGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
AATTAT
Found at i:38290874 original size:22 final size:24
Alignment explanation
Indices: 38290846--38290894 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 24
38290836 CGATACCTAG
*
38290846 TAAAAGGTATCGATA-C-TTTTTT
1 TAAAAGGTATCGAAACCATTTTTT
*
38290868 TAAAAGGTGTCGAAACCATTTTTT
1 TAAAAGGTATCGAAACCATTTTTT
38290892 TAA
1 TAA
38290895 CAAAAATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 13 0.57
23 1 0.04
24 9 0.39
ACGTcount: A:0.35, C:0.10, G:0.14, T:0.41
Consensus pattern (24 bp):
TAAAAGGTATCGAAACCATTTTTT
Found at i:38291683 original size:4 final size:4
Alignment explanation
Indices: 38291664--38291703 Score: 53
Period size: 4 Copynumber: 9.5 Consensus size: 4
38291654 AATTTCATAG
*
38291664 AAAT AATAT GAAT AAAT AAAT AAAT AAAT AAAT AAGAT AA
1 AAAT AA-AT AAAT AAAT AAAT AAAT AAAT AAAT AA-AT AA
38291704 TGACATGCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
4 25 0.78
5 7 0.22
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (4 bp):
AAAT
Done.