Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 151 of 187
Found at i:45452234 original size:23 final size:23
Alignment explanation
Indices: 45452203--45452251 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 23
45452193 CCATTGAGTC
45452203 TTTTTGTTT-TGTTTTATT-TTAT
1 TTTTTGTTTATG-TTTATTGTTAT
45452225 TTTTATGTTTATGTTTATTGTTAT
1 TTTT-TGTTTATGTTTATTGTTAT
45452249 TTT
1 TTT
45452252 CTTAAACTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 4 0.17
23 11 0.46
24 9 0.38
ACGTcount: A:0.12, C:0.00, G:0.10, T:0.78
Consensus pattern (23 bp):
TTTTTGTTTATGTTTATTGTTAT
Found at i:45452241 original size:18 final size:17
Alignment explanation
Indices: 45452215--45452248 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
45452205 TTTGTTTTGT
*
45452215 TTTATTTTATTTTTATG
1 TTTATTTTATTGTTATG
45452232 TTTATGTTTATTGTTAT
1 TTTAT-TTTATTGTTAT
45452249 TTTCTTAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.74
Consensus pattern (17 bp):
TTTATTTTATTGTTATG
Found at i:45456786 original size:30 final size:30
Alignment explanation
Indices: 45456729--45456813 Score: 82
Period size: 30 Copynumber: 2.9 Consensus size: 30
45456719 GGGTAAATAA
* **
45456729 GTTGCTCACACAAGTTGGCATTATATCAGG
1 GTTGCTCACACAAGCTAACATTATATCAGG
* **
45456759 GTTGCTCACACAAGCTAACATTTTATCAAA
1 GTTGCTCACACAAGCTAACATTATATCAGG
** *
45456789 GTTTTTTACACAAGCTAAC-TTATAT
1 GTTGCTCACACAAGCTAACATTATAT
45456814 TAGGTTACCC
Statistics
Matches: 45, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
29 5 0.11
30 40 0.89
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (30 bp):
GTTGCTCACACAAGCTAACATTATATCAGG
Found at i:45459503 original size:18 final size:18
Alignment explanation
Indices: 45459464--45459675 Score: 203
Period size: 18 Copynumber: 11.8 Consensus size: 18
45459454 TTTCGGTGGT
* *
45459464 GGTTCTTTTGG-TTTCTCA
1 GGTTCTTTAGGCTTT-TCG
*
45459482 GGTTCCTTAGGCTTTTCG
1 GGTTCTTTAGGCTTTTCG
* *
45459500 GGTTCTTTCGGTTTTTCG
1 GGTTCTTTAGGCTTTTCG
*
45459518 GGTTGTTTAGG-TTTCTCG
1 GGTTCTTTAGGCTTT-TCG
* *
45459536 GGTTCTTTGGGTTTTTCG
1 GGTTCTTTAGGCTTTTCG
* *
45459554 GGTTCTTTTGGTTTTTCG
1 GGTTCTTTAGGCTTTTCG
*
45459572 GGTGCTTTAGGCTTTTCG
1 GGTTCTTTAGGCTTTTCG
* * *
45459590 GGTTCTTTTGGTTTTTCT
1 GGTTCTTTAGGCTTTTCG
* * *
45459608 GGTACTTTAGGCTTCTCT
1 GGTTCTTTAGGCTTTTCG
* * *
45459626 GGTTCTTTGGGTTTTTCA
1 GGTTCTTTAGGCTTTTCG
*
45459644 GGTTCTTTGGGCTTTTCG
1 GGTTCTTTAGGCTTTTCG
45459662 GGTTCTTTAGGCTT
1 GGTTCTTTAGGCTT
45459676 CTCAGGCTCC
Statistics
Matches: 161, Mismatches: 30, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
17 3 0.02
18 152 0.94
19 6 0.04
ACGTcount: A:0.04, C:0.15, G:0.28, T:0.53
Consensus pattern (18 bp):
GGTTCTTTAGGCTTTTCG
Found at i:45459540 original size:54 final size:54
Alignment explanation
Indices: 45459464--45459672 Score: 231
Period size: 54 Copynumber: 3.9 Consensus size: 54
45459454 TTTCGGTGGT
* * * *
45459464 GGTTCTTTTGGTTTCTCAGGTTCCTTAGGCTTTTCGGGTTCTTTCGGTTTTTCG
1 GGTTCTTTAGGTTTCTCAGGTTCTTTGGGCTTTTCGGGTTCTTTAGGTTTTTCG
* * * *
45459518 GGTTGTTTAGGTTTCTCGGGTTCTTTGGGTTTTTCGGGTTCTTTTGGTTTTTCG
1 GGTTCTTTAGGTTTCTCAGGTTCTTTGGGCTTTTCGGGTTCTTTAGGTTTTTCG
* * * * * * * * *
45459572 GGTGCTTTAGGCTTT-TCGGGTTCTTTTGGTTTTTCTGGTACTTTAGGCTTCTCT
1 GGTTCTTTAGG-TTTCTCAGGTTCTTTGGGCTTTTCGGGTTCTTTAGGTTTTTCG
* *
45459626 GGTTCTTTGGGTTTTTCAGGTTCTTTGGGCTTTTCGGGTTCTTTAGG
1 GGTTCTTTAGGTTTCTCAGGTTCTTTGGGCTTTTCGGGTTCTTTAGG
45459673 CTTCTCAGGC
Statistics
Matches: 130, Mismatches: 23, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
53 3 0.02
54 124 0.95
55 3 0.02
ACGTcount: A:0.04, C:0.15, G:0.29, T:0.53
Consensus pattern (54 bp):
GGTTCTTTAGGTTTCTCAGGTTCTTTGGGCTTTTCGGGTTCTTTAGGTTTTTCG
Found at i:45464138 original size:28 final size:29
Alignment explanation
Indices: 45464102--45464162 Score: 72
Period size: 28 Copynumber: 2.1 Consensus size: 29
45464092 AATAGAATTT
*
45464102 TTTTTAAAATT-TTTATAAATATTTTG-AA
1 TTTTAAAAATTATTT-TAAATATTTTGTAA
* *
45464130 TTTTAAAAATTATTTTGATTATTTTGTAA
1 TTTTAAAAATTATTTTAAATATTTTGTAA
45464159 TTTT
1 TTTT
45464163 TGTTAAGAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 19 0.68
29 9 0.32
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (29 bp):
TTTTAAAAATTATTTTAAATATTTTGTAA
Found at i:45464139 original size:18 final size:19
Alignment explanation
Indices: 45464112--45464147 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
45464102 TTTTTAAAAT
*
45464112 TTTTATAAA-TATTTTGAA
1 TTTTAAAAATTATTTTGAA
45464130 TTTTAAAAATTATTTTGA
1 TTTTAAAAATTATTTTGA
45464148 TTATTTTGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.56
Consensus pattern (19 bp):
TTTTAAAAATTATTTTGAA
Found at i:45464246 original size:9 final size:9
Alignment explanation
Indices: 45464232--45464261 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
45464222 ATACTAATCT
45464232 ATTATTCGA
1 ATTATTCGA
45464241 ATTATTCGA
1 ATTATTCGA
*
45464250 GTTATTCGA
1 ATTATTCGA
45464259 ATT
1 ATT
45464262 GTAAAAATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.30, C:0.10, G:0.13, T:0.47
Consensus pattern (9 bp):
ATTATTCGA
Found at i:45465954 original size:3 final size:3
Alignment explanation
Indices: 45465928--45465979 Score: 59
Period size: 3 Copynumber: 17.3 Consensus size: 3
45465918 ATTAATAAAT
* * * * *
45465928 TTA TTC TTA TTG TTA TCA TCA TTA TTA TTA TTA TTA TTA TTA TTG TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
45465976 TTA T
1 TTA T
45465980 ATGCTCATTT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.27, C:0.06, G:0.04, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:45466303 original size:43 final size:43
Alignment explanation
Indices: 45466242--45466339 Score: 178
Period size: 43 Copynumber: 2.3 Consensus size: 43
45466232 ACCGATCTTT
*
45466242 AACGCCGCTAAAGAACATGATCTTTAACGGTGCTTTTATCACA
1 AACGCCGCTAAAGAACATGATCTTTAACGGCGCTTTTATCACA
*
45466285 AACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTTATCACA
1 AACGCCGCTAAAGAACATGATCTTTAACGGCGCTTTTATCACA
45466328 AACGCCGCTAAA
1 AACGCCGCTAAA
45466340 AGTACGATTC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 53 1.00
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (43 bp):
AACGCCGCTAAAGAACATGATCTTTAACGGCGCTTTTATCACA
Found at i:45472171 original size:16 final size:17
Alignment explanation
Indices: 45472150--45472182 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
45472140 ATGTCTAGGT
45472150 AAATT-ATTAATTGAGA
1 AAATTAATTAATTGAGA
45472166 AAATTAGATTAATTGAG
1 AAATTA-ATTAATTGAG
45472183 GGGTTAATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
18 10 0.67
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
AAATTAATTAATTGAGA
Found at i:45474126 original size:46 final size:46
Alignment explanation
Indices: 45474049--45474153 Score: 167
Period size: 46 Copynumber: 2.3 Consensus size: 46
45474039 TGACAAGTGA
* *
45474049 AAAGTGATAAGTGATAGCTTCGGCTATACTTATAC-GATCAAGAGAC
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTAT-CTGATCAAGAGAC
*
45474095 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGAC
45474141 AAAGTGATAAGTG
1 AAAGTGATAAGTG
45474154 GCTACACTTA
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
45 1 0.02
46 54 0.98
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.27
Consensus pattern (46 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGAC
Found at i:45474153 original size:151 final size:151
Alignment explanation
Indices: 45473186--45474143 Score: 1770
Period size: 151 Copynumber: 6.4 Consensus size: 151
45473176 AGTACTTCTA
* * *
45473186 ATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGTGGAA
1 ATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAAATGGAA
* * *
45473250 AGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTG---A---AAAAGTGATAAGTGAT
66 AGTGATAAGTGATAGCTTCGGTTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTGAT
45473309 AGCTTCGGCTATACTTATCTG
131 AGCTTCGGCTATACTTATCTG
45473330 ATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAAATGGAA
1 ATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAAATGGAA
45473395 AGTGATAAGTGATAGCTTCGGTTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTGAT
66 AGTGATAAGTGATAGCTTCGGTTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTGAT
45473460 AGCTTCGGCTATACTTATCTG
131 AGCTTCGGCTATACTTATCTG
45473481 ATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAAATGGAA
1 ATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAAATGGAA
45473546 AGTGATAAGTGATAGCTTCGGTTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTGAT
66 AGTGATAAGTGATAGCTTCGGTTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTGAT
45473611 AGCTTCGGCTATACTTATCTG
131 AGCTTCGGCTATACTTATCTG
45473632 ATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAAATGGAA
1 ATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAAATGGAA
45473697 AGTGATAAGTGATAGCTTCGGTTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTGAT
66 AGTGATAAGTGATAGCTTCGGTTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTGAT
45473762 AGCTTCGGCTATACTTATCTG
131 AGCTTCGGCTATACTTATCTG
45473783 ATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAAATGGAA
1 ATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAAATGGAA
45473848 AGTGATAAGTGATAGCTTCGGTTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTGAT
66 AGTGATAAGTGATAGCTTCGGTTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTGAT
45473913 AGCTTCGGCTATACTTATCTG
131 AGCTTCGGCTATACTTATCTG
45473934 ATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAAATGGAA
1 ATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAAATGGAA
45473999 AGTGATAAGTGATAGCTTCGGTTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTGAT
66 AGTGATAAGTGATAGCTTCGGTTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTGAT
45474064 AGCTTCGGCTATACTTATAC-G
131 AGCTTCGGCTATACTTAT-CTG
* * *
45474085 ATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAA
1 ATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAA
45474144 GTGATAAGTG
Statistics
Matches: 797, Mismatches: 9, Indels: 9
0.98 0.01 0.01
Matches are distributed among these distances:
144 54 0.07
145 46 0.06
148 1 0.00
151 695 0.87
152 1 0.00
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (151 bp):
ATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAAATGGAA
AGTGATAAGTGATAGCTTCGGTTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTGAT
AGCTTCGGCTATACTTATCTG
Found at i:45474188 original size:35 final size:37
Alignment explanation
Indices: 45474117--45474188 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
45474107 GATAGCTTTA
45474117 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
45474154 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
45474189 ATCATACGTA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
35 12 0.35
36 5 0.15
37 17 0.50
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:45476821 original size:110 final size:110
Alignment explanation
Indices: 45476628--45477082 Score: 596
Period size: 110 Copynumber: 4.1 Consensus size: 110
45476618 TATGCATACT
* * *
45476628 AATATCCTTTTAAAAAATTTCAAAATAAGGCAATGCTCTGGGTTTGGAAATTCGAGAAAACGTGC
1 AATATCCTTTTAAAAAATTTCAAAATAAGGCAATGTTTTGTGTTTGGAAATTCGAGAAAACGTGC
45476693 CCTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
66 CCTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
* *
45476738 AATATCCTTTTAAAAAATTTCAAAATAAGGCAATGTTTTATGTTTGGAAATTCGAGAAATCGTGC
1 AATATCCTTTTAAAAAATTTCAAAATAAGGCAATGTTTTGTGTTTGGAAATTCGAGAAAACGTGC
* *
45476803 CCTAATGTGCTGGGTTTCGATCTTTC-CTGTTCGGCCAAATAGCCA
66 CCTAATGTGCTGGGTTTCGATTTTTCTC-GTTCGACCAAATAGCCA
* **** * *
45476848 AATATCCTCTTCAATTTTTTTTTTCAAAATGAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAAC
1 AATATCCT-TTTAA---AAAATTTCAAAATAAGGCAATGTTTTGTGTTTGGAAATTCGAGAAAAC
*
45476913 ATGCCCTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAAT-GACCA
62 GTGCCCTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAG-CCA
* * *
45476962 AATATCCTTTT-AAAAACTTCAAAATAAAGCAATGTTTTGTGTTTGAAAATTCGAGAAAACGTGC
1 AATATCCTTTTAAAAAATTTCAAAATAAGGCAATGTTTTGTGTTTGGAAATTCGAGAAAACGTGC
*** * * *
45477026 CCTAATGCATTGGATTTCGA--TTTCTCGTTGGACCAAATAGCCG
66 CCTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
*
45477069 AATATCCTCTTAAA
1 AATATCCTTTTAAA
45477083 TCTTAATCCA
Statistics
Matches: 299, Mismatches: 37, Indels: 20
0.84 0.10 0.06
Matches are distributed among these distances:
107 29 0.10
108 3 0.01
109 59 0.20
110 109 0.36
111 4 0.01
112 1 0.00
113 3 0.01
114 90 0.30
115 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (110 bp):
AATATCCTTTTAAAAAATTTCAAAATAAGGCAATGTTTTGTGTTTGGAAATTCGAGAAAACGTGC
CCTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
Found at i:45477888 original size:3 final size:3
Alignment explanation
Indices: 45477880--45477904 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
45477870 ACCACATGAT
45477880 CCA CCA CCA CCA CCA CCA CCA CCA C
1 CCA CCA CCA CCA CCA CCA CCA CCA C
45477905 AACCCTTGCA
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:0.68, G:0.00, T:0.00
Consensus pattern (3 bp):
CCA
Found at i:45478434 original size:6 final size:6
Alignment explanation
Indices: 45478423--45478458 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
45478413 CTTAGGAGGC
45478423 TTATCT TTATCT TTATCT TTATCT TTATCT TTATCT
1 TTATCT TTATCT TTATCT TTATCT TTATCT TTATCT
45478459 GTTGTTTTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.67
Consensus pattern (6 bp):
TTATCT
Found at i:45478885 original size:16 final size:17
Alignment explanation
Indices: 45478864--45478927 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 17
45478854 AAAAGCATAT
45478864 ATATATATATAT-ACAC
1 ATATATATATATCACAC
45478880 ATATATAT-TATCACAC
1 ATATATATATATCACAC
* *
45478896 TACTATAAATTTATCACAC
1 -A-TATATATATATCACAC
*
45478915 AGATATCATATAT
1 ATATAT-ATATAT
45478928 TTAAATTAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
15 3 0.08
16 12 0.31
17 4 0.10
18 12 0.31
19 8 0.21
ACGTcount: A:0.45, C:0.16, G:0.02, T:0.38
Consensus pattern (17 bp):
ATATATATATATCACAC
Found at i:45479996 original size:18 final size:18
Alignment explanation
Indices: 45479973--45480009 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
45479963 TGAAAAAATT
45479973 TGTATAATAAA-ATTAAAA
1 TGTATAA-AAATATTAAAA
45479991 TGTATAAAAATATTAAAA
1 TGTATAAAAATATTAAAA
45480009 T
1 T
45480010 TAAAGCTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.35
Consensus pattern (18 bp):
TGTATAAAAATATTAAAA
Found at i:45488725 original size:152 final size:148
Alignment explanation
Indices: 45488459--45488776 Score: 399
Period size: 152 Copynumber: 2.1 Consensus size: 148
45488449 AGAAAAGTTC
* * ** * *
45488459 TGATTTTTTTT--AAAAAGAGAAAATTTAGATTTTTAAAAATAAAATTTGTTTTTTAGTCATTTT
1 TGATTTTTTTTAAAAAAATAGAAAATTTAGATTCTTAAAAATAAAAAATGTTTTTTAGCCATTTC
* * * * *
45488522 AAAGGAAATTTTAAATTTTTAAAATAAAGTTTTGATTTTTTTCAACTATTTCGGAATAAAAGCTT
66 AAAGGAAATTTTAAA-TTTTAAAAAAAAGTTTTAATTTTTTTCAACCATTTCGAAATAAAACCTT
*
45488587 TGATATTTAAGAAAAACAG
130 TCATATTTAAGAAAAACAG
*
45488606 TGATTTTTTTTAAAAAAATAGAAAGTTTAGATTCTTAAAAATAAAAAAAAATGTTTTTTAGCCAT
1 TGATTTTTTTTAAAAAAATAGAAAATTTAGATTCTTAAAAAT---AAAAAATGTTTTTTAGCCAT
45488671 TTCAAAGGAAATTTTAAA-TTTAAAAAAGAAGTTTTAATTTTTTTTCAACCATTTCGAAATAAAA
63 TTCAAAGGAAATTTTAAATTTTAAAAAA-AAGTTTTAA-TTTTTTTCAACCATTTCGAAATAAAA
* **
45488735 CCTTTCATCTTTAAGAAAAGTAG
126 CCTTTCATATTTAAGAAAAACAG
**
45488758 TGATTTTTTAAAAAAAAAT
1 TGATTTTTTTTAAAAAAAT
45488777 CACATATCCG
Statistics
Matches: 146, Mismatches: 18, Indels: 9
0.84 0.10 0.05
Matches are distributed among these distances:
147 11 0.08
149 26 0.18
150 8 0.05
151 8 0.05
152 93 0.64
ACGTcount: A:0.43, C:0.06, G:0.10, T:0.42
Consensus pattern (148 bp):
TGATTTTTTTTAAAAAAATAGAAAATTTAGATTCTTAAAAATAAAAAATGTTTTTTAGCCATTTC
AAAGGAAATTTTAAATTTTAAAAAAAAGTTTTAATTTTTTTCAACCATTTCGAAATAAAACCTTT
CATATTTAAGAAAAACAG
Found at i:45489090 original size:25 final size:25
Alignment explanation
Indices: 45489021--45489099 Score: 88
Period size: 27 Copynumber: 3.1 Consensus size: 25
45489011 AGATATATGA
* *
45489021 CTCTTCGGAGCTTCCCGATTAAAGG
1 CTCTTCGGAGCTTCTCGATTAATGG
*
45489046 CTCTTTCATGAGCTTCTCGATTAATGG
1 CTC-TTC-GGAGCTTCTCGATTAATGG
* *
45489073 CTCTTCGGAGCTTTTCGA-TATTGG
1 CTCTTCGGAGCTTCTCGATTAATGG
45489097 CTC
1 CTC
45489100 GCTTGAACTT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
24 8 0.17
25 13 0.28
26 6 0.13
27 19 0.41
ACGTcount: A:0.16, C:0.25, G:0.22, T:0.37
Consensus pattern (25 bp):
CTCTTCGGAGCTTCTCGATTAATGG
Found at i:45489181 original size:25 final size:25
Alignment explanation
Indices: 45489128--45489182 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 25
45489118 TGGCTTGTAT
*
45489128 GAGCTTCCCATTAATGGCTCTTCAA
1 GAGCTTCCCATTAATGGCTCTACAA
* *
45489153 -AGCTTCTCTTTACATGGCTC-ACAA
1 GAGCTTCCCATTA-ATGGCTCTACAA
45489177 GAGCTT
1 GAGCTT
45489183 TCCGTTTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
24 13 0.52
25 12 0.48
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.33
Consensus pattern (25 bp):
GAGCTTCCCATTAATGGCTCTACAA
Found at i:45496496 original size:24 final size:24
Alignment explanation
Indices: 45496468--45496526 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
45496458 ACAGCTCAAT
*
45496468 AGAGCATCCCGTTATTAGCTC-TC
1 AGAGCATCCCGTTAATAGCTCTTC
*
45496491 ATGAGCTTCCCGTTAATAGCTCTTC
1 A-GAGCATCCCGTTAATAGCTCTTC
45496516 AGAGCATCCCG
1 AGAGCATCCCG
45496527 ATTTGGTTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
23 1 0.03
24 27 0.87
25 3 0.10
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.29
Consensus pattern (24 bp):
AGAGCATCCCGTTAATAGCTCTTC
Found at i:45496752 original size:25 final size:24
Alignment explanation
Indices: 45496699--45496757 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 24
45496689 TAGCTCGTAT
*
45496699 GAGCTTCCCGTTAATGGATCTTCGA
1 GAGCTTCCCGTTAATGGA-CTTAGA
45496724 -AGCTTCCCGTTACATGG-CTTAGAA
1 GAGCTTCCCGTTA-ATGGACTTAG-A
45496748 GAGCTTCCCG
1 GAGCTTCCCG
45496758 ATTATATGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
23 4 0.13
24 13 0.43
25 13 0.43
ACGTcount: A:0.20, C:0.27, G:0.24, T:0.29
Consensus pattern (24 bp):
GAGCTTCCCGTTAATGGACTTAGA
Found at i:45497251 original size:11 final size:11
Alignment explanation
Indices: 45497237--45497307 Score: 73
Period size: 11 Copynumber: 6.8 Consensus size: 11
45497227 TTTAAAATAC
45497237 TTTTTTTAAAA
1 TTTTTTTAAAA
45497248 TTTTTTT--AA
1 TTTTTTTAAAA
45497257 ---TTTTAAAA
1 TTTTTTTAAAA
45497265 TTTTTTTAAAA
1 TTTTTTTAAAA
45497276 TTTTTTTAAAA
1 TTTTTTTAAAA
*
45497287 TACTTTTTT-TAA
1 T--TTTTTTAAAA
45497299 TTTTTTTAA
1 TTTTTTTAA
45497308 TTTTAAAATA
Statistics
Matches: 50, Mismatches: 2, Indels: 16
0.74 0.03 0.24
Matches are distributed among these distances:
6 4 0.08
8 2 0.04
9 2 0.04
10 6 0.12
11 27 0.54
12 3 0.06
13 6 0.12
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.66
Consensus pattern (11 bp):
TTTTTTTAAAA
Found at i:45497300 original size:23 final size:22
Alignment explanation
Indices: 45497237--45497307 Score: 73
Period size: 17 Copynumber: 3.4 Consensus size: 22
45497227 TTTAAAATAC
45497237 TTTTTTTAAAATTTTTTT--AA
1 TTTTTTTAAAATTTTTTTAAAA
45497257 ---TTTTAAAATTTTTTTAAAA
1 TTTTTTTAAAATTTTTTTAAAA
*
45497276 TTTTTTTAAAATACTTTTTT-TAA
1 TTTTTTTAAAAT--TTTTTTAAAA
45497299 TTTTTTTAA
1 TTTTTTTAA
45497308 TTTTAAAATA
Statistics
Matches: 43, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
17 15 0.35
19 2 0.05
22 9 0.21
23 11 0.26
24 6 0.14
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.66
Consensus pattern (22 bp):
TTTTTTTAAAATTTTTTTAAAA
Found at i:45497312 original size:51 final size:52
Alignment explanation
Indices: 45497226--45497327 Score: 179
Period size: 51 Copynumber: 2.0 Consensus size: 52
45497216 TTTATTTTTA
*
45497226 TTTTAAAATACTTTTTTTAAAATTTTTTTAATTTTAAAATTTTTTTAAAATTT
1 TTTTAAAATACTTTTTTT-AAATTTTTTTAATTTTAAAATATTTTTAAAATTT
45497279 TTTTAAAATACTTTTTTT-AATTTTTTTAATTTTAAAATATTTTTAAAAT
1 TTTTAAAATACTTTTTTTAAATTTTTTTAATTTTAAAATATTTTTAAAAT
45497328 ACTTTTTTTA
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
51 30 0.62
53 18 0.38
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (52 bp):
TTTTAAAATACTTTTTTTAAATTTTTTTAATTTTAAAATATTTTTAAAATTT
Found at i:45497368 original size:33 final size:31
Alignment explanation
Indices: 45497300--45497368 Score: 84
Period size: 33 Copynumber: 2.2 Consensus size: 31
45497290 TTTTTTTAAT
**
45497300 TTTTTTAATTTTAAAATATTTTTAAAATACT
1 TTTTTTAATTTTAAAATATTTTTAAAATAAA
**
45497331 TTTTTTAATTTTAATTTTAATTTTTAAAATAAA
1 TTTTTTAATTTTAA-AAT-ATTTTTAAAATAAA
45497364 TTTTT
1 TTTTT
45497369 GGTATTTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 14 0.44
32 1 0.03
33 17 0.53
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.62
Consensus pattern (31 bp):
TTTTTTAATTTTAAAATATTTTTAAAATAAA
Found at i:45499075 original size:24 final size:24
Alignment explanation
Indices: 45499030--45499076 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
45499020 TATATATACC
45499030 AATTCAATCAATATAAATTCAATA
1 AATTCAATCAATATAAATTCAATA
45499054 AATTC-ATCACATACTAAA-TCAAT
1 AATTCAATCA-ATA-TAAATTCAAT
45499077 CCATTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (24 bp):
AATTCAATCAATATAAATTCAATA
Found at i:45499799 original size:15 final size:14
Alignment explanation
Indices: 45499775--45499804 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
45499765 TCTCTGTTTC
45499775 TTTCTCTATTTCTT
1 TTTCTCTATTTCTT
45499789 TTTCTTCTATTTCTT
1 TTTC-TCTATTTCTT
45499804 T
1 T
45499805 GTTTTATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.07, C:0.20, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTCTCTATTTCTT
Found at i:45505330 original size:41 final size:41
Alignment explanation
Indices: 45505261--45505405 Score: 200
Period size: 41 Copynumber: 3.5 Consensus size: 41
45505251 TTTAACATAT
* *
45505261 TCACCGGCACTTAACCTGCTAAGCTTATAGCCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGA
* * * *
45505302 TCACTGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAAA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGA
* * * *
45505343 TCACCAGCACTTAGCCTGGTAGACTTATAGCCTGTTTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGA
45505384 TCACCGGCACTTAGCCTGCTAG
1 TCACCGGCACTTAGCCTGCTAG
45505406 ACGTAAAGTC
Statistics
Matches: 88, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 88 1.00
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGA
Found at i:45505991 original size:114 final size:113
Alignment explanation
Indices: 45505873--45506341 Score: 814
Period size: 114 Copynumber: 4.1 Consensus size: 113
45505863 CTCAAGATCT
*
45505873 TATACATATTCATATATAC-ATATTCGAACTTCATTTATGCATATATATAACATTCATACTTAAC
1 TATACATA-T-ATATTTACAATATTCGAACTTCATTTATGCATATATATAACATTCATACTTAAC
* * * *
45505937 TAATTTCAATTTATATACTTTCAATTATAGCTCATCAAGTATACAATAGA
64 TAATTTCAATTCATATATTTTTAATTATAGCTCATCAAATATACAATAGA
45505987 TATACATATATATTTACATATATTCGAACTTCATTTATGCATATATATAACATTCATACTTAACT
1 TATACATATATATTTACA-ATATTCGAACTTCATTTATGCATATATATAACATTCATACTTAACT
45506052 AATTTCAATTCATATATTTTTAATTATAGCTCATCAAATATACAATAGA
65 AATTTCAATTCATATATTTTTAATTATAGCTCATCAAATATACAATAGA
*
45506101 TATACATATATATTTACATATATTCGAACTTCATTTATGCATATATATAGCATTCATACTTAACT
1 TATACATATATATTTACA-ATATTCGAACTTCATTTATGCATATATATAACATTCATACTTAACT
*
45506166 ACTTTCAATTCATATATTTTTAATTATAGCTCATCAAATATACAATAGA
65 AATTTCAATTCATATATTTTTAATTATAGCTCATCAAATATACAATAGA
*
45506215 TATACATATATATTTACATATATTCGAACTTCATTTATGCATATATATAGCATTCATACTTAACT
1 TATACATATATATTTACA-ATATTCGAACTTCATTTATGCATATATATAACATTCATACTTAACT
45506280 AATTTCAATTCATATATTTTTAATTATAGCTCATCAAATATACAATAGA
65 AATTTCAATTCATATATTTTTAATTATAGCTCATCAAATATACAATAGA
45506329 TATACATATATAT
1 TATACATATATAT
45506342 ATGCTGATTT
Statistics
Matches: 345, Mismatches: 8, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
112 7 0.02
113 1 0.00
114 337 0.98
ACGTcount: A:0.40, C:0.14, G:0.04, T:0.42
Consensus pattern (113 bp):
TATACATATATATTTACAATATTCGAACTTCATTTATGCATATATATAACATTCATACTTAACTA
ATTTCAATTCATATATTTTTAATTATAGCTCATCAAATATACAATAGA
Found at i:45507336 original size:13 final size:13
Alignment explanation
Indices: 45507318--45507342 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45507308 CAATCAAATG
45507318 CACACAAAATAAA
1 CACACAAAATAAA
45507331 CACACAAAATAA
1 CACACAAAATAA
45507343 TATTAAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:45508686 original size:21 final size:20
Alignment explanation
Indices: 45508660--45508711 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
45508650 TATACGAATG
*
45508660 AATTTAACATCAATTTAATAC
1 AATTT-ACATCAATTCAATAC
*
45508681 AATTTACATTCAATTCAATCC
1 AATTTACA-TCAATTCAATAC
45508702 AATTTACATC
1 AATTTACATC
45508712 TTAGGTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 5 0.18
21 23 0.82
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.38
Consensus pattern (20 bp):
AATTTACATCAATTCAATAC
Found at i:45511565 original size:24 final size:23
Alignment explanation
Indices: 45511513--45511566 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
45511503 CCTTACTGGT
*
45511513 AGTCACCACCGTCCGACGTCCACC
1 AGTCA-CACCGTCCGACGTACACC
* *
45511537 AGTCACACCGTTCGATGTACACC
1 AGTCACACCGTCCGACGTACACC
45511560 AGGTCAC
1 A-GTCAC
45511567 CATCATTGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 16 0.62
24 10 0.38
ACGTcount: A:0.24, C:0.41, G:0.19, T:0.17
Consensus pattern (23 bp):
AGTCACACCGTCCGACGTACACC
Found at i:45513613 original size:25 final size:25
Alignment explanation
Indices: 45513546--45513621 Score: 66
Period size: 25 Copynumber: 3.0 Consensus size: 25
45513536 ATTCATATTG
**
45513546 GGGAATGCTCATACAAGCACATA-AAC
1 GGGAA-GCTCATATGAGC-CATATAAC
* *
45513572 GGAAAGCTC-TTTCGAGCCATATAAC
1 GGGAAGCTCATAT-GAGCCATATAAC
*
45513597 GGGAAGCTCATATGAGCCATGTAAC
1 GGGAAGCTCATATGAGCCATATAAC
45513622 AGAAATTTCA
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
24 5 0.12
25 29 0.73
26 6 0.15
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (25 bp):
GGGAAGCTCATATGAGCCATATAAC
Found at i:45513686 original size:25 final size:25
Alignment explanation
Indices: 45513658--45513754 Score: 80
Period size: 25 Copynumber: 3.9 Consensus size: 25
45513648 GAAGCTCTGG
*
45513658 AGAGCCATTAATTAGGAAGCTCATA
1 AGAGCCATTAATCAGGAAGCTCATA
*
45513683 AGAGCCAGTT-ATCGGGAAG-TACATA
1 AGAGCCA-TTAATCAGGAAGCT-CATA
*
45513708 AGAGCCA-TAAACAGGAAGCTC--A
1 AGAGCCATTAATCAGGAAGCTCATA
45513730 AGAGCGTCATTAATC-GAGAAGCTCA
1 AGAGC--CATTAATCAG-GAAGCTCA
45513755 CGAGAACCAT
Statistics
Matches: 58, Mismatches: 5, Indels: 17
0.73 0.06 0.21
Matches are distributed among these distances:
22 6 0.10
23 1 0.02
24 12 0.21
25 37 0.64
26 2 0.03
ACGTcount: A:0.39, C:0.19, G:0.24, T:0.19
Consensus pattern (25 bp):
AGAGCCATTAATCAGGAAGCTCATA
Found at i:45514114 original size:40 final size:40
Alignment explanation
Indices: 45514059--45514140 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
45514049 TTCATGTGCA
45514059 AAAAAGCTACTAATCCGCTACTTTCTCTTTTCCTCGATTT
1 AAAAAGCTACTAATCCGCTACTTTCTCTTTTCCTCGATTT
45514099 AAAAAGCTACTAATCCGCTACTTTCTCTTTTCCTCGATTT
1 AAAAAGCTACTAATCCGCTACTTTCTCTTTTCCTCGATTT
45514139 AA
1 AA
45514141 CTTTGTATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.27, C:0.27, G:0.07, T:0.39
Consensus pattern (40 bp):
AAAAAGCTACTAATCCGCTACTTTCTCTTTTCCTCGATTT
Found at i:45518991 original size:21 final size:21
Alignment explanation
Indices: 45518959--45519135 Score: 122
Period size: 21 Copynumber: 8.4 Consensus size: 21
45518949 GAAGCCCGAA
* *
45518959 AGCTTAACAGAAGCTCATGAG
1 AGCTAAACAGAAGCTCATAAG
*
45518980 AGCTAAATAGAAGCTCATAAG
1 AGCTAAACAGAAGCTCATAAG
* *
45519001 AGCTAAACAGAAACCCATAAG
1 AGCTAAACAGAAGCTCATAAG
* * * * ** *
45519022 GGTTGATCAGAAGCTCGCAAA
1 AGCTAAACAGAAGCTCATAAG
* *
45519043 AGCTTAACAGAAACTCATAAG
1 AGCTAAACAGAAGCTCATAAG
* * *
45519064 AGTTTAACAAAAGCT-AGTAAG
1 AGCTAAACAGAAGCTCA-TAAG
* * * *
45519085 AGCTGAACAGAAACTCGTATG
1 AGCTAAACAGAAGCTCATAAG
* *
45519106 AGTTAAACAGAAGCTCGTAAG
1 AGCTAAACAGAAGCTCATAAG
*
45519127 AGCTGAACA
1 AGCTAAACA
45519136 AAAAGTAAAA
Statistics
Matches: 116, Mismatches: 38, Indels: 4
0.73 0.24 0.03
Matches are distributed among these distances:
20 1 0.01
21 115 0.99
ACGTcount: A:0.44, C:0.18, G:0.21, T:0.18
Consensus pattern (21 bp):
AGCTAAACAGAAGCTCATAAG
Found at i:45519034 original size:42 final size:42
Alignment explanation
Indices: 45518959--45519135 Score: 167
Period size: 42 Copynumber: 4.2 Consensus size: 42
45518949 GAAGCCCGAA
* * * * *
45518959 AGCTTAACAGAAGCTCATGAGAGCTAAATAGAAGCTCATAAG
1 AGCTGAACAGAAACTCATAAGAGTTAAACAGAAGCTCATAAG
* * * * * ** *
45519001 AGCTAAACAGAAACCCATAAGGGTTGATCAGAAGCTCGCAAA
1 AGCTGAACAGAAACTCATAAGAGTTAAACAGAAGCTCATAAG
* * *
45519043 AGCTTAACAGAAACTCATAAGAGTTTAACAAAAGCT-AGTAAG
1 AGCTGAACAGAAACTCATAAGAGTTAAACAGAAGCTCA-TAAG
* * *
45519085 AGCTGAACAGAAACTCGTATGAGTTAAACAGAAGCTCGTAAG
1 AGCTGAACAGAAACTCATAAGAGTTAAACAGAAGCTCATAAG
45519127 AGCTGAACA
1 AGCTGAACA
45519136 AAAAGTAAAA
Statistics
Matches: 106, Mismatches: 27, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
42 106 1.00
ACGTcount: A:0.44, C:0.18, G:0.21, T:0.18
Consensus pattern (42 bp):
AGCTGAACAGAAACTCATAAGAGTTAAACAGAAGCTCATAAG
Found at i:45519117 original size:84 final size:84
Alignment explanation
Indices: 45518957--45519122 Score: 199
Period size: 84 Copynumber: 2.0 Consensus size: 84
45518947 CAGAAGCCCG
* * * *
45518957 AAAGCTTAACAGAAGCTCATGAGAGCTAAATAGAAGCTCATAAGAGCTAAACAGAAACCCATAAG
1 AAAGCTTAACAGAAACTCATAAGAGCTAAACAAAAGCTCATAAGAGCTAAACAGAAACCCATAAG
* * *
45519022 GGTTGATCAGAAGCTCGCA
66 AGTTAAACAGAAGCTCGCA
* * * * * *
45519041 AAAGCTTAACAGAAACTCATAAGAGTTTAACAAAAGCT-AGTAAGAGCTGAACAGAAACTCGTAT
1 AAAGCTTAACAGAAACTCATAAGAGCTAAACAAAAGCTCA-TAAGAGCTAAACAGAAACCCATAA
45519105 GAGTTAAACAGAAGCTCG
65 GAGTTAAACAGAAGCTCG
45519123 TAAGAGCTGA
Statistics
Matches: 68, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
83 1 0.01
84 67 0.99
ACGTcount: A:0.44, C:0.17, G:0.20, T:0.18
Consensus pattern (84 bp):
AAAGCTTAACAGAAACTCATAAGAGCTAAACAAAAGCTCATAAGAGCTAAACAGAAACCCATAAG
AGTTAAACAGAAGCTCGCA
Found at i:45519613 original size:21 final size:20
Alignment explanation
Indices: 45519587--45519640 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 20
45519577 ATTTAATCTT
45519587 TTAACTAATTTATCTATCAAA
1 TTAACTAATTTATCTATC-AA
*
45519608 TTAACTAATTT-TC-CTCAA
1 TTAACTAATTTATCTATCAA
45519626 TTAA-TAATTTATCTA
1 TTAACTAATTTATCTA
45519641 AATACTCTAG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
17 6 0.21
18 8 0.28
19 2 0.07
20 2 0.07
21 11 0.38
ACGTcount: A:0.39, C:0.15, G:0.00, T:0.46
Consensus pattern (20 bp):
TTAACTAATTTATCTATCAA
Found at i:45523918 original size:27 final size:28
Alignment explanation
Indices: 45523882--45523940 Score: 84
Period size: 27 Copynumber: 2.1 Consensus size: 28
45523872 ATTTTATATT
*
45523882 TTTAATTTTTAAAAAATATAT-TTTTAA
1 TTTAAATTTTAAAAAATATATATTTTAA
* *
45523909 TTTAAATTTTAATAATTATATATTTTAA
1 TTTAAATTTTAAAAAATATATATTTTAA
45523937 TTTA
1 TTTA
45523941 TTAAATTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 18 0.64
28 10 0.36
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (28 bp):
TTTAAATTTTAAAAAATATATATTTTAA
Found at i:45523924 original size:15 final size:15
Alignment explanation
Indices: 45523906--45523953 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
45523896 AATATATTTT
45523906 TAATTTAAATTTTAA
1 TAATTTAAATTTTAA
*
45523921 TAATTATATATTTTAA
1 TAATT-TAAATTTTAA
*
45523937 T-TTATTAAATTTTAA
1 TAAT-TTAAATTTTAA
45523952 TA
1 TA
45523954 TATAATTAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
15 16 0.59
16 11 0.41
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TAATTTAAATTTTAA
Found at i:45523968 original size:31 final size:31
Alignment explanation
Indices: 45523910--45523968 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
45523900 TATTTTTAAT
* **
45523910 TTAAATTTTAATAATTATATATTTTAATTTA
1 TTAAATTTTAATAATAATATAACTTAATTTA
45523941 TTAAATTTTAATATATAAT-TAACTTAAT
1 TTAAATTTTAATA-ATAATATAACTTAAT
45523969 ATTTTTTATG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 20 0.83
32 4 0.17
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (31 bp):
TTAAATTTTAATAATAATATAACTTAATTTA
Found at i:45527290 original size:73 final size:71
Alignment explanation
Indices: 45527137--45527307 Score: 270
Period size: 73 Copynumber: 2.4 Consensus size: 71
45527127 AAAATAGGCA
45527137 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCGTTTCCCGAGCTTTC
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCGTTTCCCGAGCTTTC
*
45527202 GGGGAT
66 GAGGAT
* * *
45527208 TTAGCGGCGTTTCTGAGAAAGCGCCGCAAAAAACCATAAGCCCAACGACGCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACC-TAAGCCCAACGACG-CGTTTCCCGAGCTT
45527273 TCGAGGAT
64 TCGAGGAT
* *
45527281 TTAGCGGCGTTTTTAAGGAAGCGCCGC
1 TTAGCGGCGTTTTTGAGAAAGCGCCGC
45527308 TAATGCTCAG
Statistics
Matches: 91, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
71 34 0.37
72 14 0.15
73 43 0.47
ACGTcount: A:0.25, C:0.26, G:0.27, T:0.22
Consensus pattern (71 bp):
TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCGTTTCCCGAGCTTTC
GAGGAT
Found at i:45527362 original size:114 final size:114
Alignment explanation
Indices: 45527207--45527575 Score: 605
Period size: 114 Copynumber: 3.2 Consensus size: 114
45527197 CTTTCGGGGA
45527207 TTTAGCGGCGTTTCTGAGAAAGCGCCGC-AAAAAACCATAAGCCCAACGACGCCGTTTTCTGAGC
1 TTTAGCGGCGTTTCTGAGAAAGCGCCGCAAAAAAACC-TAAGCCCAACGACGCCGTTTTCTGAGC
* *
45527271 TTTCGAGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGC
65 TTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
* * *
45527321 TTTAGCGGTGTTTCTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCGGTTTTCTAAGCT
1 TTTAGCGGCGTTTCTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
*
45527386 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGTCGCTAATGCTCAGGGC
66 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
* * * * * *
45527435 TTTAGTGGCGTTTTTGGGAAAGTGCCGCAAAAAAACCTAAGCCCAACGATGCCGTTTTCTGAACT
1 TTTAGCGGCGTTTCTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
45527500 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
66 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
*
45527549 TTTAGCGGCGTTTTTGAGAAAGCGCCG
1 TTTAGCGGCGTTTCTGAGAAAGCGCCG
45527576 TTAACAATAT
Statistics
Matches: 235, Mismatches: 19, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
114 227 0.97
115 8 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (114 bp):
TTTAGCGGCGTTTCTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
Found at i:45527846 original size:22 final size:22
Alignment explanation
Indices: 45527821--45527866 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
45527811 GAGTTCATAT
*
45527821 TTTAATGTTTAGGGAGTATGGA
1 TTTAATGATTAGGGAGTATGGA
* * *
45527843 TTTAGTGATTATGGATTATGGA
1 TTTAATGATTAGGGAGTATGGA
45527865 TT
1 TT
45527867 AGGGGTTGGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (22 bp):
TTTAATGATTAGGGAGTATGGA
Found at i:45527906 original size:15 final size:15
Alignment explanation
Indices: 45527869--45527919 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
45527859 TATGGATTAG
*
45527869 GGGTT-GGGATTTAA
1 GGGTTAGGGGTTTAA
*
45527883 GGTTTAGGGG-TTAGA
1 GGGTTAGGGGTTTA-A
45527898 GGGTTAGGGGTTTAA
1 GGGTTAGGGGTTTAA
45527913 GGGTTAG
1 GGGTTAG
45527920 ACGTGCTAGG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
14 7 0.23
15 21 0.68
16 3 0.10
ACGTcount: A:0.20, C:0.00, G:0.47, T:0.33
Consensus pattern (15 bp):
GGGTTAGGGGTTTAA
Found at i:45528208 original size:14 final size:14
Alignment explanation
Indices: 45528189--45528223 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
45528179 AAGTTGAGGG
45528189 GTTAGGGGTT-AGA
1 GTTAGGGGTTAAGA
45528202 TGTTAGGGGTTAAGA
1 -GTTAGGGGTTAAGA
45528217 GTTAGGG
1 GTTAGGG
45528224 ATTTAAGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 17 0.85
15 3 0.15
ACGTcount: A:0.23, C:0.00, G:0.46, T:0.31
Consensus pattern (14 bp):
GTTAGGGGTTAAGA
Found at i:45531468 original size:254 final size:243
Alignment explanation
Indices: 45531011--45531582 Score: 797
Period size: 254 Copynumber: 2.3 Consensus size: 243
45531001 TTATTATAAA
* * **
45531011 AAATCAATTTAT-AAAAAACAAAATAAAAAAATTTTAGCATAGCAAAACATCGTCATTTTGTTCA
1 AAATCAATTTATAAAAAAATAAAATAAAAAATTTTTAGCATAGCAAAACGGCGTCATTTTGTTCA
*
45531075 AAATGAAATAGAGGCGTTTTTGATATAAACGCCGCAAAAAATAAATCAATTAATAAAAACCAAAA
66 AAATGAAATAGAGGCGTTTTTGATAAAAACGCCGCAAAAAATAAATCAATTAATAAAAACCAAAA
* ** * *
45531140 TAGCAAAACGATGTCATTTTGTTCAAAATGAAAACTTTTTTGTGGAGTTTTTATTAAAAACGCCT
131 TAGCAAAACGACGTCATTTTGTTCAAAATGAAAAAATTTTTGTGGAGTTTTTATGAAAAACGCCA
* *
45531205 CCAAAGATAAGCAATAGTGGC-GTTTTTATAAAAAGCGCCGCAAAAAAT
196 CAAAAGATAAGCAATAGCGGCAGTTTTTATAAAAA-CGCCGCAAAAAAT
*
45531253 AAATCAATTTATAAAAAAATAAAATAAAAAATTTTTAGCATAGTAAAACGGCGTCATTTTGTTCA
1 AAATCAATTTATAAAAAAATAAAATAAAAAATTTTTAGCATAGCAAAACGGCGTCATTTTGTTCA
* * *
45531318 AAATGAAATAGCGGCGTCTTTATCGCGCTTTTGATAAAAACGCCGCAAATAATAAATCAATTATT
66 AAATGAAATAGAGGCG------T-----TTTTGATAAAAACGCCGCAAAAAATAAATCAATTAAT
* *
45531383 AAAAACCAAAATAGCAAAACGGCGTCATTTTGTTCAAAATGAAAAAATTTTTGTGGCGTTTTTAT
120 AAAAACCAAAATAGCAAAACGACGTCATTTTGTTCAAAATGAAAAAATTTTTGTGGAGTTTTTAT
* *
45531448 GGAAAACGCCACAAAAGATAAGCAATAGCGGCATTTTTTATAAAAACGCCGCAAAAAAT
185 GAAAAACGCCACAAAAGATAAGCAATAGCGGCAGTTTTTATAAAAACGCCGCAAAAAAT
* * * *
45531507 AAAACAATTTATAAAAAAATAAAATAAAAAATTTTTAACATAACAAAACGGTGTCATTTTGTTCA
1 AAATCAATTTATAAAAAAATAAAATAAAAAATTTTTAGCATAGCAAAACGGCGTCATTTTGTTCA
*
45531572 AAATGATATAG
66 AAATGAAATAG
45531583 GAATATAATT
Statistics
Matches: 291, Mismatches: 26, Indels: 14
0.88 0.08 0.04
Matches are distributed among these distances:
242 12 0.04
243 62 0.21
249 1 0.00
254 204 0.70
255 12 0.04
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.28
Consensus pattern (243 bp):
AAATCAATTTATAAAAAAATAAAATAAAAAATTTTTAGCATAGCAAAACGGCGTCATTTTGTTCA
AAATGAAATAGAGGCGTTTTTGATAAAAACGCCGCAAAAAATAAATCAATTAATAAAAACCAAAA
TAGCAAAACGACGTCATTTTGTTCAAAATGAAAAAATTTTTGTGGAGTTTTTATGAAAAACGCCA
CAAAAGATAAGCAATAGCGGCAGTTTTTATAAAAACGCCGCAAAAAAT
Found at i:45531554 original size:24 final size:25
Alignment explanation
Indices: 45531502--45531554 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 25
45531492 AACGCCGCAA
*
45531502 AAAATAAAACAATTTATAAAAAAAT
1 AAAATAAAACAATTTATAAAAAAAC
* * *
45531527 AAAATAAAA-AATTTTTAACATAAC
1 AAAATAAAACAATTTATAAAAAAAC
45531551 AAAA
1 AAAA
45531555 CGGTGTCATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 15 0.62
25 9 0.38
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.25
Consensus pattern (25 bp):
AAAATAAAACAATTTATAAAAAAAC
Found at i:45534172 original size:95 final size:94
Alignment explanation
Indices: 45533988--45534172 Score: 271
Period size: 95 Copynumber: 2.0 Consensus size: 94
45533978 TTAGCCTGAG
45533988 TGCTTCCTCTTTCATTGCCTCTACGCGCTTCCCTTTTTGTTTTTGAAGTTCTAGAGCTGGCAATA
1 TGCTTCCTCTTTCATTGCCTCTACGCGCTTCCCTTTTTGTTTTTGAAGTTCTAGAGCTGGCAATA
** *
45534053 CCATTCTTGCAGTAGGTACCTTTTTCTCA
66 CCATTCTTGCAACACGTACCTTTTTCTCA
* ** * **
45534082 TGCTTCCTCTTTCATTGCCTTTGTGCGCTTCCCTTTTTTGTTTTTGAAGTTCTAGAGTTGGTGAT
1 TGCTTCCTCTTTCATTGCCTCTACGCGCTTCCC-TTTTTGTTTTTGAAGTTCTAGAGCTGGCAAT
*
45534147 ACCATTCTTGCAACACGTACTTTTTT
65 ACCATTCTTGCAACACGTACCTTTTT
45534173 TTTCTCAATT
Statistics
Matches: 80, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
94 30 0.38
95 50 0.62
ACGTcount: A:0.14, C:0.24, G:0.16, T:0.45
Consensus pattern (94 bp):
TGCTTCCTCTTTCATTGCCTCTACGCGCTTCCCTTTTTGTTTTTGAAGTTCTAGAGCTGGCAATA
CCATTCTTGCAACACGTACCTTTTTCTCA
Found at i:45535411 original size:43 final size:43
Alignment explanation
Indices: 45535335--45535541 Score: 254
Period size: 43 Copynumber: 4.8 Consensus size: 43
45535325 TTTTTTCGAG
* * * *
45535335 AAGCGTCGCTAAAGG-CTTGTTCTATAGTGGCGTTTGTAGAAA
1 AAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAA
* *
45535377 AAGTGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGAAAA
1 AAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAA
* * * *
45535420 AATCGCCGCTAAAGGTCTTGAGCTATAGCAGCGTTTGTGGGAA
1 AAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAA
* * * *
45535463 AGGCGCTGCTAAAGGCCTTGATCTATAGCGGCGTTTGTGGGAA
1 AAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAA
* * *
45535506 AAGCGCCGCTAAATGTCATGATCAATAGCGGCGTTT
1 AAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTT
45535542 ATTTTTAAAA
Statistics
Matches: 140, Mismatches: 24, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
42 13 0.09
43 127 0.91
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (43 bp):
AAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAA
Found at i:45537486 original size:42 final size:42
Alignment explanation
Indices: 45537376--45537488 Score: 147
Period size: 42 Copynumber: 2.7 Consensus size: 42
45537366 CAACAAAAAA
* * *
45537376 CGCCGCTAAAGATCATGTTCTTTAGCAGCGTTTTTCCATAAG
1 CGCCGCTAGAGATCATGTTCTTTAGCGGCATTTTTCCATAAG
* *
45537418 CGCCGCT-GAAGAACATGTTCTTTAGCGGCATTTTTCTATAAG
1 CGCCGCTAG-AGATCATGTTCTTTAGCGGCATTTTTCCATAAG
**
45537460 CGCCGCTAGAGATCATAATCTTTAGCGGC
1 CGCCGCTAGAGATCATGTTCTTTAGCGGC
45537489 GCTTTTTTTA
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
42 60 0.98
43 1 0.02
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (42 bp):
CGCCGCTAGAGATCATGTTCTTTAGCGGCATTTTTCCATAAG
Found at i:45537942 original size:21 final size:21
Alignment explanation
Indices: 45537918--45537968 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
45537908 TTCTTTTGAA
45537918 CCTCTGCTTCTCTCGCTGCAG
1 CCTCTGCTTCTCTCGCTGCAG
* *
45537939 CCTCTGCTTCTTTCGCTGCCG
1 CCTCTGCTTCTCTCGCTGCAG
*
45537960 CGTCTGCTT
1 CCTCTGCTT
45537969 TAAGTTGTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.02, C:0.41, G:0.20, T:0.37
Consensus pattern (21 bp):
CCTCTGCTTCTCTCGCTGCAG
Found at i:45542364 original size:9 final size:9
Alignment explanation
Indices: 45542329--45542369 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
45542319 ATTATGTATT
45542329 ATGTAAGT-
1 ATGTAAGTC
*
45542337 ACTGTAAGTA
1 A-TGTAAGTC
45542347 ATGTAAGTC
1 ATGTAAGTC
45542356 ATGTAAGTC
1 ATGTAAGTC
45542365 ATGTA
1 ATGTA
45542370 TTATGTAAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
8 1 0.03
9 28 0.93
10 1 0.03
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.34
Consensus pattern (9 bp):
ATGTAAGTC
Found at i:45565721 original size:175 final size:175
Alignment explanation
Indices: 45565500--45566622 Score: 2062
Period size: 175 Copynumber: 6.4 Consensus size: 175
45565490 GTTTTAATCC
* * *
45565500 GCTCCACTGTAACTTCAGGGGGATAAGATCTGCAATTCTTCGGTCTACTCCACTGTAACCTCAGA
1 GCTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTACTCCACTGTAACCTCAGA
45565565 GAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTTAAT
66 GAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTTAAT
45565630 CCGCTCCACTGTAACTTCAGGGAGATAGGATTATATCTTCGATCT
131 CCGCTCCACTGTAACTTCAGGGAGATAGGATTATATCTTCGATCT
45565675 GCTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTACTCCACTGTAACCTCAGA
1 GCTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTACTCCACTGTAACCTCAGA
45565740 GAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTTAAT
66 GAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTTAAT
45565805 CCGCTCCACTGTAACTTCAGGGAGATAGGATTATATCTTCGATCT
131 CCGCTCCACTGTAACTTCAGGGAGATAGGATTATATCTTCGATCT
45565850 GCTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTACTCCACTGTAACCTCAGA
1 GCTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTACTCCACTGTAACCTCAGA
45565915 GAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTTAAT
66 GAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTTAAT
45565980 CCGCTCCACTGTAACTTCAGGGAGATAGGATTATATCTTCGATCT
131 CCGCTCCACTGTAACTTCAGGGAGATAGGATTATATCTTCGATCT
45566025 GCTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTACTCCACTGTAACCTCAGA
1 GCTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTACTCCACTGTAACCTCAGA
45566090 GAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTTAAT
66 GAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTTAAT
45566155 CCGCTCCACTGTAACTTCAGGGAGATAGGATTATATCTTCGATCT
131 CCGCTCCACTGTAACTTCAGGGAGATAGGATTATATCTTCGATCT
45566200 GCTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTACTCCACTGTAACCTCAGA
1 GCTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTACTCCACTGTAACCTCAGA
45566265 GAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTTAAT
66 GAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTTAAT
45566330 CCGCTCCACTGTAACTTCAGGGAGATAGGATTATATCTTCGATCT
131 CCGCTCCACTGTAACTTCAGGGAGATAGGATTATATCTTCGATCT
45566375 GCTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTACTCCACTGTAACCTCAGA
1 GCTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTACTCCACTGTAACCTCAGA
45566440 GAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCC--TA----TAAT
66 GAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTTAAT
* * *
45566499 CCGCTCCATTGTAA-TCTCAAGGAGATAGGATTACTATCTTTGATCT
131 CCGCTCCACTGTAACT-TCAGGGAGATAGGATTA-TATCTTCGATCT
* * * ** * *
45566545 GCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTGTTCCACTGTAATCTCAGG
1 GCTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTACTCCACTGTAACCTCAGA
45566610 GAGATAAGACCTG
66 GAGATAAGACCTG
45566623 TATTATGAAC
Statistics
Matches: 933, Mismatches: 13, Indels: 9
0.98 0.01 0.01
Matches are distributed among these distances:
168 1 0.00
169 33 0.04
170 82 0.09
173 2 0.00
175 815 0.87
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (175 bp):
GCTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTACTCCACTGTAACCTCAGA
GAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTTAAT
CCGCTCCACTGTAACTTCAGGGAGATAGGATTATATCTTCGATCT
Found at i:45574952 original size:72 final size:72
Alignment explanation
Indices: 45574863--45575006 Score: 270
Period size: 72 Copynumber: 2.0 Consensus size: 72
45574853 TGAATCTTTT
* *
45574863 CTATTTGCTCTTTCATTTGCGCCTGCAACTGGTCTTGCATTTCTTTTTGAAGTCGTTCTAGCTTC
1 CTATTTGCTCTTTCATTTGCGCCTGCAACTGGTCTTGCATTTCTCTTTGAAGTCGCTCTAGCTTC
45574928 TCCAACC
66 TCCAACC
45574935 CTATTTGCTCTTTCATTTGCGCCTGCAACTGGTCTTGCATTTCTCTTTGAAGTCGCTCTAGCTTC
1 CTATTTGCTCTTTCATTTGCGCCTGCAACTGGTCTTGCATTTCTCTTTGAAGTCGCTCTAGCTTC
45575000 TCCAACC
66 TCCAACC
45575007 TTTGGTCCAT
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 70 1.00
ACGTcount: A:0.14, C:0.29, G:0.15, T:0.42
Consensus pattern (72 bp):
CTATTTGCTCTTTCATTTGCGCCTGCAACTGGTCTTGCATTTCTCTTTGAAGTCGCTCTAGCTTC
TCCAACC
Found at i:45575782 original size:84 final size:84
Alignment explanation
Indices: 45575641--45575810 Score: 331
Period size: 84 Copynumber: 2.0 Consensus size: 84
45575631 TTCAACTCCG
45575641 TATTCTCGTCTTGGCAATCTAGTAGACTCTTTCCCAAGGCGACCTCTCGAGCCCGAGTATCCTGG
1 TATTCTCGTCTTGGCAATCTAGTAGACTCTTTCCCAAGGCGACCTCTCGAGCCCGAGTATCCTGG
45575706 AATTTCTTTTCCCATTGAT
66 AATTTCTTTTCCCATTGAT
*
45575725 TATTCTCGTCTTGGCAATCTAGTAGACTTTTTCCCAAGGCGACCTCTCGAGCCCGAGTATCCTGG
1 TATTCTCGTCTTGGCAATCTAGTAGACTCTTTCCCAAGGCGACCTCTCGAGCCCGAGTATCCTGG
45575790 AATTTCTTTTCCCATTGAT
66 AATTTCTTTTCCCATTGAT
45575809 TA
1 TA
45575811 GCTTTCGTCT
Statistics
Matches: 85, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 85 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (84 bp):
TATTCTCGTCTTGGCAATCTAGTAGACTCTTTCCCAAGGCGACCTCTCGAGCCCGAGTATCCTGG
AATTTCTTTTCCCATTGAT
Found at i:45578701 original size:35 final size:32
Alignment explanation
Indices: 45578532--45578691 Score: 239
Period size: 32 Copynumber: 4.9 Consensus size: 32
45578522 AGAAATGACA
* *
45578532 CATTTCTTACAGGGAATCTTTCCTGTTCACGT
1 CATTTCTTGCAGGGAATCTCTCCTGTTCACGT
45578564 CATTTCTTGCAGGGAATCTCTCCTGTTCACGT
1 CATTTCTTGCAGGGAATCTCTCCTGTTCACGT
*
45578596 CATTTCTTGCAGGGAATCTCTCATGTTCACGT
1 CATTTCTTGCAGGGAATCTCTCCTGTTCACGT
45578628 CATTTCTTGCAGGGAATCTCTCCTGTTCACGCAT
1 CATTTCTTGCAGGGAATCTCTCCTGTTCACG--T
* * *
45578662 TATTTTGTTGCAGGGAATCTTTCCTGTTCA
1 CA-TTTCTTGCAGGGAATCTCTCCTGTTCA
45578692 TGTATTATTT
Statistics
Matches: 118, Mismatches: 7, Indels: 3
0.92 0.05 0.02
Matches are distributed among these distances:
32 91 0.77
34 2 0.02
35 25 0.21
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.39
Consensus pattern (32 bp):
CATTTCTTGCAGGGAATCTCTCCTGTTCACGT
Found at i:45580699 original size:20 final size:18
Alignment explanation
Indices: 45580649--45580700 Score: 54
Period size: 20 Copynumber: 2.8 Consensus size: 18
45580639 CTACAAGATA
45580649 AACATTAAATTAA-ATTT
1 AACATTAAATTAATATTT
45580666 AACATTAAGA-TAATCACTTT
1 AACATTAA-ATTAAT-A-TTT
*
45580686 AATATTAAATTAATA
1 AACATTAAATTAATA
45580701 AAATACTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
17 11 0.38
18 1 0.03
19 3 0.10
20 14 0.48
ACGTcount: A:0.52, C:0.08, G:0.02, T:0.38
Consensus pattern (18 bp):
AACATTAAATTAATATTT
Found at i:45587656 original size:12 final size:12
Alignment explanation
Indices: 45587641--45587680 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
45587631 AGTAAATAAA
45587641 TAAATAAAATAT
1 TAAATAAAATAT
*
45587653 TAAATGAAATAT
1 TAAATAAAATAT
*
45587665 TAAATAAAATAG
1 TAAATAAAATAT
45587677 TAAA
1 TAAA
45587681 AAATGATGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (12 bp):
TAAATAAAATAT
Found at i:45602517 original size:25 final size:26
Alignment explanation
Indices: 45602480--45602540 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 26
45602470 GTTGTAAATC
* * *
45602480 AAAAAAATATCTTTAGA-AATTTTCT
1 AAAATAATCTCTTCAGAGAATTTTCT
45602505 AAAATAATCTCTTCAGAGAATTTTCT
1 AAAATAATCTCTTCAGAGAATTTTCT
*
45602531 GAAATAATCT
1 AAAATAATCT
45602541 TTCTCTTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 14 0.45
26 17 0.55
ACGTcount: A:0.44, C:0.11, G:0.07, T:0.38
Consensus pattern (26 bp):
AAAATAATCTCTTCAGAGAATTTTCT
Found at i:45602750 original size:25 final size:25
Alignment explanation
Indices: 45602696--45602750 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
45602686 TAAATATTAA
*
45602696 TTTAATTTAATATTAAGATAATCAC
1 TTTAATTTAATATTAAGAAAATCAC
*
45602721 TTTAATATTAA-ATTAATAAAAT-AC
1 TTTAAT-TTAATATTAAGAAAATCAC
45602745 TATTAA
1 T-TTAA
45602751 AATAGTATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 3 0.12
25 19 0.73
26 4 0.15
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (25 bp):
TTTAATTTAATATTAAGAAAATCAC
Found at i:45605463 original size:16 final size:16
Alignment explanation
Indices: 45605443--45605477 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
45605433 AGTAAACCAT
*
45605443 AAAAACCCTAAACCTA
1 AAAAACCATAAACCTA
*
45605459 AAAAATCATAAACCTA
1 AAAAACCATAAACCTA
45605475 AAA
1 AAA
45605478 CAAAAAAACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.63, C:0.23, G:0.00, T:0.14
Consensus pattern (16 bp):
AAAAACCATAAACCTA
Found at i:45605492 original size:22 final size:22
Alignment explanation
Indices: 45605449--45605492 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
45605439 CCATAAAAAC
* * *
45605449 CCTAAACCTAAAAAATCATAAA
1 CCTAAAACAAAAAAACCATAAA
*
45605471 CCTAAAACAAAAAAACCCTAAA
1 CCTAAAACAAAAAAACCATAAA
45605493 AAATGGTCGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.61, C:0.25, G:0.00, T:0.14
Consensus pattern (22 bp):
CCTAAAACAAAAAAACCATAAA
Found at i:45607364 original size:21 final size:21
Alignment explanation
Indices: 45607340--45607392 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 21
45607330 CATTGTTTCT
45607340 AATCTCACCGCTACAGT-ATCC
1 AATCTCACCGCTACAGTAAT-C
*
45607361 AATCTCACCGCTACAGTAATT
1 AATCTCACCGCTACAGTAATC
45607382 AATCTCACCGC
1 AATCTCACCGC
45607393 CACCGCTGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 28 0.93
22 2 0.07
ACGTcount: A:0.30, C:0.36, G:0.09, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAATC
Found at i:45608636 original size:31 final size:29
Alignment explanation
Indices: 45608601--45608665 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
45608591 GTGACCACTT
*
45608601 CGTAACAAAACAATAATATAAGTGACTAAAA
1 CGTAACAAAAC-A-AACATAAGTGACTAAAA
* *
45608632 CGTAACATATCAAACATAAGTGACTAAAA
1 CGTAACAAAACAAACATAAGTGACTAAAA
*
45608661 TGTAA
1 CGTAA
45608666 TATGAGACAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 20 0.67
30 1 0.03
31 9 0.30
ACGTcount: A:0.54, C:0.14, G:0.11, T:0.22
Consensus pattern (29 bp):
CGTAACAAAACAAACATAAGTGACTAAAA
Found at i:45608687 original size:31 final size:29
Alignment explanation
Indices: 45608601--45608688 Score: 86
Period size: 31 Copynumber: 2.9 Consensus size: 29
45608591 GTGACCACTT
*
45608601 CGTAACAAAACAATAATATAAGTGACTAAAA
1 CGTAACATAAC-A-AATATAAGTGACTAAAA
* *
45608632 CGTAACATATCAAACATAAGTGACTAAAA
1 CGTAACATAACAAATATAAGTGACTAAAA
* * *
45608661 TGTAATATGAGACAAATAAAAGTGACTA
1 CGTAACAT-A-ACAAATATAAGTGACTA
45608689 TTTTTAAAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
29 22 0.47
30 2 0.04
31 23 0.49
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.22
Consensus pattern (29 bp):
CGTAACATAACAAATATAAGTGACTAAAA
Found at i:45610475 original size:20 final size:20
Alignment explanation
Indices: 45610442--45610488 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
45610432 AAAATAAATA
45610442 AAAAATATTAAAATTTAATG
1 AAAAATATTAAAATTTAATG
* *
45610462 AAAAATATTAAAATTTCATT
1 AAAAATATTAAAATTTAATG
45610482 AAAAATA
1 AAAAATA
45610489 GAAAAGAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (20 bp):
AAAAATATTAAAATTTAATG
Found at i:45610527 original size:10 final size:10
Alignment explanation
Indices: 45610514--45610566 Score: 54
Period size: 11 Copynumber: 5.2 Consensus size: 10
45610504 AAATAGTAAC
45610514 AAAATTATAA
1 AAAATTATAA
45610524 AAAATTAT-A
1 AAAATTATAA
** *
45610533 AATTTTTTATA
1 AAAATTATA-A
45610544 AAAATTATAAA
1 AAAATTAT-AA
45610555 AAAATTATAA
1 AAAATTATAA
45610565 AA
1 AA
45610567 TGCATCAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
9 6 0.18
10 12 0.35
11 15 0.44
12 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (10 bp):
AAAATTATAA
Found at i:45610562 original size:20 final size:19
Alignment explanation
Indices: 45610414--45610566 Score: 73
Period size: 20 Copynumber: 7.7 Consensus size: 19
45610404 GACATGTGAC
45610414 AAAAAATTATAAAAAGTA-A
1 AAAAAATTATAAAAA-TATA
45610433 AAATAAA-TA-AAAAATAT-
1 AAA-AAATTATAAAAATATA
* *
45610450 TAAAATTTAATGAAAAATAT-
1 AAAAAATT-AT-AAAAATATA
* * *
45610470 TAAAATTTCATTAAAAATAGA
1 AAAAAATT-A-TAAAAATATA
*
45610491 AAAGAAATTATACAAATAGTA
1 AAA-AAATTATAAAAATA-TA
*
45610512 ACAAAATTATAAAAAATTATA
1 AAAAAATTAT-AAAAA-TATA
****
45610533 AATTTTTTATAAAAATTATA
1 AAAAAATTATAAAAA-TATA
45610553 AAAAAATTATAAAA
1 AAAAAATTATAAAA
45610567 TGCATCAAAA
Statistics
Matches: 103, Mismatches: 19, Indels: 23
0.71 0.13 0.16
Matches are distributed among these distances:
16 2 0.02
17 5 0.05
18 6 0.06
19 5 0.05
20 61 0.59
21 18 0.17
22 6 0.06
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (19 bp):
AAAAAATTATAAAAATATA
Found at i:45610803 original size:21 final size:20
Alignment explanation
Indices: 45610747--45610819 Score: 62
Period size: 21 Copynumber: 3.6 Consensus size: 20
45610737 TTTGGTACGC
45610747 TTTTATAATCTTT-TTACAAT
1 TTTTATAAT-TTTCTTACAAT
*
45610767 TTTTAT-A-TTTCTTTACATTT
1 TTTTATAATTTTC-TTACA-AT
45610787 TTTTATAATTTTCTTACAACT
1 TTTTATAATTTTCTTACAA-T
* *
45610808 TTATAAAATTTT
1 TTTTATAATTTT
45610820 ATATATCTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
17 3 0.07
19 6 0.14
20 13 0.30
21 17 0.40
22 4 0.09
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTTATAATTTTCTTACAAT
Found at i:45610839 original size:20 final size:19
Alignment explanation
Indices: 45610748--45610839 Score: 71
Period size: 20 Copynumber: 4.7 Consensus size: 19
45610738 TTGGTACGCT
*
45610748 TTTATAATCTTTTTACAATT
1 TTTATAAT-TTTTTACAATC
* *
45610768 TTTAT-ATTTCTTTACATTTT
1 TTTATAATTT-TTTACA-ATC
45610788 TTTATAATTTTCTTACAA-C
1 TTTATAATTTT-TTACAATC
** *
45610807 TTTATAAAATTTTATATATC
1 TTTATAATTTTTTACA-ATC
45610827 TTTATAATTTTTT
1 TTTATAATTTTTT
45610840 TCTAATTTTT
Statistics
Matches: 58, Mismatches: 8, Indels: 12
0.74 0.10 0.15
Matches are distributed among these distances:
18 6 0.10
19 18 0.31
20 25 0.43
21 9 0.16
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTATAATTTTTTACAATC
Found at i:45611629 original size:11 final size:11
Alignment explanation
Indices: 45611613--45611643 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
45611603 AACACTATAA
45611613 TATATTATTTT
1 TATATTATTTT
45611624 TATATTATTTT
1 TATATTATTTT
45611635 TATA-TATTT
1 TATATTATTT
45611644 ACATTTCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.25
11 15 0.75
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TATATTATTTT
Found at i:45615864 original size:25 final size:25
Alignment explanation
Indices: 45615836--45615885 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
45615826 GTGTGACACA
*
45615836 TGGCTATGTGACACGGTCATGTGTC
1 TGGCCATGTGACACGGTCATGTGTC
45615861 TGGCCATGTGACACGGTCATGTGTC
1 TGGCCATGTGACACGGTCATGTGTC
45615886 CCCTGTAGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.16, C:0.22, G:0.32, T:0.30
Consensus pattern (25 bp):
TGGCCATGTGACACGGTCATGTGTC
Found at i:45615883 original size:13 final size:13
Alignment explanation
Indices: 45615841--45615883 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
45615831 ACACATGGCT
45615841 ATGTGACACGGTC
1 ATGTGACACGGTC
* * *
45615854 ATGTGTC-TGGCC
1 ATGTGACACGGTC
45615866 ATGTGACACGGTC
1 ATGTGACACGGTC
45615879 ATGTG
1 ATGTG
45615884 TCCCCTGTAG
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
12 9 0.39
13 14 0.61
ACGTcount: A:0.19, C:0.21, G:0.33, T:0.28
Consensus pattern (13 bp):
ATGTGACACGGTC
Found at i:45620960 original size:10 final size:10
Alignment explanation
Indices: 45620945--45620973 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
45620935 ATTGCGTGTT
45620945 TGAATAGAAA
1 TGAATAGAAA
45620955 TGAATAG-AA
1 TGAATAGAAA
45620964 TGAATAGAAA
1 TGAATAGAAA
45620974 AAGAGAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.59, C:0.00, G:0.21, T:0.21
Consensus pattern (10 bp):
TGAATAGAAA
Found at i:45621272 original size:26 final size:26
Alignment explanation
Indices: 45621235--45621303 Score: 97
Period size: 26 Copynumber: 2.7 Consensus size: 26
45621225 TTCTCGAAAC
45621235 TTTATT-GAGGGTAAAATCGTCAAAAT
1 TTTATTAG-GGGTAAAATCGTCAAAAT
45621261 TTTATTAGGGGTAAAATCGTCAAAAT
1 TTTATTAGGGGTAAAATCGTCAAAAT
*
45621287 TTT-TCCAGGGGTAAAAT
1 TTTAT-TAGGGGTAAAAT
45621304 TGAGATGAGA
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
25 1 0.03
26 38 0.95
27 1 0.03
ACGTcount: A:0.36, C:0.09, G:0.20, T:0.35
Consensus pattern (26 bp):
TTTATTAGGGGTAAAATCGTCAAAAT
Found at i:45630054 original size:19 final size:19
Alignment explanation
Indices: 45630030--45630072 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
45630020 GTTTAATTTT
*
45630030 TATTTTTAT-AATTTTTATA
1 TATTTTT-TGAATCTTTATA
45630049 TATTTTTTGAATCTTTATA
1 TATTTTTTGAATCTTTATA
45630068 TATTT
1 TATTT
45630073 ATTTTTCATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 1 0.05
19 21 0.95
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (19 bp):
TATTTTTTGAATCTTTATA
Found at i:45630077 original size:21 final size:21
Alignment explanation
Indices: 45630043--45630095 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
45630033 TTTTATAATT
45630043 TTTATATA-TT-TTTTGAATC
1 TTTATATATTTATTTTGAATC
** *
45630062 TTTATATATTTATTTTTCATT
1 TTTATATATTTATTTTGAATC
45630083 TTTATATTATTTA
1 TTTATA-TATTTA
45630096 ATGTGTATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 8 0.29
20 2 0.07
21 12 0.43
22 6 0.21
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (21 bp):
TTTATATATTTATTTTGAATC
Found at i:45634313 original size:13 final size:13
Alignment explanation
Indices: 45634290--45634381 Score: 114
Period size: 13 Copynumber: 7.0 Consensus size: 13
45634280 TGAGTTCGGT
45634290 TATATTGTTTTAA
1 TATATTGTTTTAA
45634303 TATACTT-TTTTAA
1 TATA-TTGTTTTAA
45634316 TATATTGTTTTAA
1 TATATTGTTTTAA
*
45634329 TATATTGTTATAA
1 TATATTGTTTTAA
* *
45634342 TATACTGTTATAA
1 TATATTGTTTTAA
*
45634355 TTGTATTGTTTTAA
1 -TATATTGTTTTAA
*
45634369 TATAATGTTTTAA
1 TATATTGTTTTAA
45634382 CTTTTAAATT
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
12 2 0.03
13 55 0.80
14 12 0.17
ACGTcount: A:0.33, C:0.02, G:0.08, T:0.58
Consensus pattern (13 bp):
TATATTGTTTTAA
Found at i:45634369 original size:27 final size:27
Alignment explanation
Indices: 45634310--45634413 Score: 86
Period size: 27 Copynumber: 3.9 Consensus size: 27
45634300 TAATATACTT
* *
45634310 TTTTAATATATTGTTTTAA-TATATTG
1 TTTTAATATACTGTTATAATTATATTG
* *
45634336 TTATAATATACTGTTATAATTGTATTG
1 TTTTAATATACTGTTATAATTATATTG
* * * **
45634363 TTTTAATATAATGTTTTAACTTTTA-AA
1 TTTTAATATACTGTTATAA-TTATATTG
* *
45634390 TTTTAGTATACTGTTATAAATATA
1 TTTTAATATACTGTTATAATTATA
45634414 CATTTAATTT
Statistics
Matches: 61, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
26 19 0.31
27 38 0.62
28 4 0.07
ACGTcount: A:0.35, C:0.03, G:0.08, T:0.55
Consensus pattern (27 bp):
TTTTAATATACTGTTATAATTATATTG
Found at i:45634437 original size:15 final size:15
Alignment explanation
Indices: 45634417--45634450 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
45634407 AAATATACAT
*
45634417 TTAATTTGTAACACA
1 TTAATTTCTAACACA
45634432 TTAATTTCTAACACA
1 TTAATTTCTAACACA
45634447 TTAA
1 TTAA
45634451 ATTTTAGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.41, C:0.15, G:0.03, T:0.41
Consensus pattern (15 bp):
TTAATTTCTAACACA
Found at i:45634656 original size:40 final size:40
Alignment explanation
Indices: 45634601--45634696 Score: 149
Period size: 40 Copynumber: 2.4 Consensus size: 40
45634591 ATAAAATTTA
*
45634601 TAATATACTGTTTTAATATACTATTATAAATATACTT-TTT
1 TAATATAATGTTTTAATATACTATTATAAATATA-TTGTTT
* *
45634641 TAATATATTGTTTTAATATACTATTATAATTATATTGTTT
1 TAATATAATGTTTTAATATACTATTATAAATATATTGTTT
45634681 TAATATAATGTTTTAA
1 TAATATAATGTTTTAA
45634697 CTTTTAAATT
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
39 2 0.04
40 50 0.96
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (40 bp):
TAATATAATGTTTTAATATACTATTATAAATATATTGTTT
Found at i:45634682 original size:27 final size:26
Alignment explanation
Indices: 45634601--45634687 Score: 93
Period size: 27 Copynumber: 3.3 Consensus size: 26
45634591 ATAAAATTTA
* * * *
45634601 TAATATACTGTTTTAATATACTATTAT
1 TAATATACTATTATAATATATTGTT-T
* * *
45634628 AAATATACTTTTTTAATATATTGTTT
1 TAATATACTATTATAATATATTGTTT
45634654 TAATATACTATTATAATTATATTGTTT
1 TAATATACTATTATAA-TATATTGTTT
45634681 TAATATA
1 TAATATA
45634688 ATGTTTTAAC
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
26 14 0.27
27 38 0.73
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (26 bp):
TAATATACTATTATAATATATTGTTT
Found at i:45634693 original size:13 final size:13
Alignment explanation
Indices: 45634563--45634696 Score: 103
Period size: 13 Copynumber: 10.2 Consensus size: 13
45634553 ATTTTTAATG
45634563 TAATATACTGTTT
1 TAATATACTGTTT
*
45634576 TAATAATA-TATTGT
1 TAAT-ATACTGTT-T
* * *
45634590 T-ATAAAAT-TTA
1 TAATATACTGTTT
45634601 TAATATACTGTTT
1 TAATATACTGTTT
*
45634614 TAATATACTATTAT
1 TAATATACTGTT-T
* *
45634628 AAATATACTTTTT
1 TAATATACTGTTT
*
45634641 TAATATATTGTTT
1 TAATATACTGTTT
* *
45634654 TAATATACTATTA
1 TAATATACTGTTT
*
45634667 TAATTATATTGTTT
1 TAA-TATACTGTTT
*
45634681 TAATATAATGTTT
1 TAATATACTGTTT
45634694 TAA
1 TAA
45634697 CTTTTAAATT
Statistics
Matches: 95, Mismatches: 19, Indels: 14
0.74 0.15 0.11
Matches are distributed among these distances:
11 1 0.01
12 9 0.09
13 59 0.62
14 26 0.27
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.53
Consensus pattern (13 bp):
TAATATACTGTTT
Found at i:45637728 original size:25 final size:25
Alignment explanation
Indices: 45637694--45637741 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
45637684 TTAGGACTTG
45637694 ATTGTTTGTAATTAAATTCAAATTA
1 ATTGTTTGTAATTAAATTCAAATTA
45637719 ATTGTTTGTAATTAAATTCAAAT
1 ATTGTTTGTAATTAAATTCAAAT
45637742 AAGTAATCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (25 bp):
ATTGTTTGTAATTAAATTCAAATTA
Found at i:45637834 original size:16 final size:16
Alignment explanation
Indices: 45637813--45637846 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
45637803 ATATAAATTC
45637813 AATAACAATTAATTTT
1 AATAACAATTAATTTT
*
45637829 AATAACAATTAGTTTT
1 AATAACAATTAATTTT
45637845 AA
1 AA
45637847 CTTTTAAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (16 bp):
AATAACAATTAATTTT
Found at i:45642784 original size:12 final size:13
Alignment explanation
Indices: 45642767--45642795 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
45642757 GCATTACTCT
45642767 TTTTATTT-TTTA
1 TTTTATTTGTTTA
45642779 TTTTATTTGTTTA
1 TTTTATTTGTTTA
45642792 TTTT
1 TTTT
45642796 TAGTTATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.83
Consensus pattern (13 bp):
TTTTATTTGTTTA
Found at i:45643013 original size:29 final size:30
Alignment explanation
Indices: 45642980--45643040 Score: 79
Period size: 32 Copynumber: 2.0 Consensus size: 30
45642970 TGCATATTTC
* *
45642980 TATACTTTATATAC-TTTATAATTTATATA
1 TATACGTTATATACTTTTATAATATATATA
45643009 TATACGTTATATACATTTTTATAATATATATA
1 TATACGTTATATAC--TTTTATAATATATATA
45643041 CATATATAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 13 0.48
32 14 0.52
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (30 bp):
TATACGTTATATACTTTTATAATATATATA
Found at i:45643728 original size:109 final size:109
Alignment explanation
Indices: 45643537--45643864 Score: 543
Period size: 109 Copynumber: 3.0 Consensus size: 109
45643527 TCAAAAAGGA
* * * * *
45643537 AAAAATTTCTAAGTAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCTTAATGTGCTA
1 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTG
45643602 GGTTTCGATTTTTCTCGTTCGACCAAATGGCCAAATATCCTTTT
66 GGTTTCGATTTTTCTCGTTCGACCAAATGGCCAAATATCCTTTT
45643646 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTG
1 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTG
*
45643711 GGTTTCGATTTTTCTCGTTCGACCAAATGACCAAATATCCTTTT
66 GGTTTCGATTTTTCTCGTTCGACCAAATGGCCAAATATCCTTTT
* *
45643755 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTAGAAATTCGAGAAAACGTGCCCTAACGTGCTG
1 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTG
* * *
45643820 GGTTTCGA--TTTCTCGTTGGACCAAATAGCCAAATATCCTCTT
66 GGTTTCGATTTTTCTCGTTCGACCAAATGGCCAAATATCCTTTT
45643862 AAA
1 AAA
45643865 TCTTAATCCA
Statistics
Matches: 207, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
107 33 0.16
109 174 0.84
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.33
Consensus pattern (109 bp):
AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTG
GGTTTCGATTTTTCTCGTTCGACCAAATGGCCAAATATCCTTTT
Found at i:45649618 original size:16 final size:16
Alignment explanation
Indices: 45649597--45649627 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45649587 CATTACAACC
45649597 CGTTGCAAGGGGTATA
1 CGTTGCAAGGGGTATA
*
45649613 CGTTGCCAGGGGTAT
1 CGTTGCAAGGGGTAT
45649628 TAATTGATAA
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:0.19, C:0.16, G:0.39, T:0.26
Consensus pattern (16 bp):
CGTTGCAAGGGGTATA
Found at i:45655472 original size:44 final size:44
Alignment explanation
Indices: 45655162--45655763 Score: 173
Period size: 44 Copynumber: 13.8 Consensus size: 44
45655152 TAACAAGTCC
* *
45655162 TATCTCCCTGAGTAGCAGTGGAGTAGGTTGAAGATTGTAGATCT
1 TATCTCCCTGAGTAGTAGTGGAGTAGATTGAAGATTGTAGATCT
* * ** * * ** *
45655206 TATTTCCCTAAACAGTAGTGAAGCAGATCAAAGA-CG-ACGAATCT
1 TATCTCCCTGAGTAGTAGTGGAGTAGATTGAAGATTGTA-G-ATCT
* * * * *****
45655250 TATCT-TCTCGAGATAGTAG-GAAGTATATTTAAGCCACCAG-TC-
1 TATCTCCCT-GAG-TAGTAGTGGAGTAGATTGAAGATTGTAGATCT
* * * *
45655292 TATCTCCCTGAGCAGCAGTGCAGTAGGTTGAAGATTGTAGATCT
1 TATCTCCCTGAGTAGTAGTGGAGTAGATTGAAGATTGTAGATCT
* * * * * * ** *
45655336 TATCTCCTTAAGCAGTAGTAGAGCAGATCGAAGACAG-CGAATCT
1 TATCTCCCTGAGTAGTAGTGGAGTAGATTGAAGATTGTAG-ATCT
* * * * ***** *
45655380 TATCT-TCTCGAGATAGTAG-GAAGCAGATTTAAGCCACCAG-TCC
1 TATCTCCCT-GAG-TAGTAGTGGAGTAGATTGAAGATTGTAGATCT
*
45655423 TATCTCCCTGAGTAGTAGTGGAGTAGGTTGAAGATTGTAGATCT
1 TATCTCCCTGAGTAGTAGTGGAGTAGATTGAAGATTGTAGATCT
* * * *
45655467 TATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGA-CG-ATGAATCT
1 TATCTCCCTGAGTAGTAGTGGAGTAGATTGAAGATTGTA-G-ATCT
* * * ***** *
45655511 TATCTTCCC-GAGATAGTAG-GAAGCAGATTTAAGCCACCAG-TCC
1 TATC-TCCCTGAG-TAGTAGTGGAGTAGATTGAAGATTGTAGATCT
*
45655554 TATCTCCCTGAGTAGTAGTGGAGTAGGTTGAAGATTGTAGATCT
1 TATCTCCCTGAGTAGTAGTGGAGTAGATTGAAGATTGTAGATCT
* * * * * * *
45655598 TATCTTCCTAAGCAGTAGTGGAGCAGATCGAAGA-CG-ATGAATTT
1 TATCTCCCTGAGTAGTAGTGGAGTAGATTGAAGATTGTA-G-ATCT
* ** * * ***** *
45655642 TATCT-TCTAGAGATAGTAG-AAAGCAGATTTAAGCCACCAG-TCC
1 TATCTCCCT-GAG-TAGTAGTGGAGTAGATTGAAGATTGTAGATCT
* * * * *
45655685 TATCTCCCAGAGCAGCATTGGAGTAGGTTGAAGATTGTAGATCT
1 TATCTCCCTGAGTAGTAGTGGAGTAGATTGAAGATTGTAGATCT
* * *
45655729 TATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGAT
1 TATCTCCCTGAGTAGTAGTGGAGTAGATTGAAGAT
45655764 GACGAATCTT
Statistics
Matches: 387, Mismatches: 136, Indels: 70
0.65 0.23 0.12
Matches are distributed among these distances:
41 4 0.01
42 42 0.11
43 81 0.21
44 229 0.59
45 28 0.07
46 3 0.01
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (44 bp):
TATCTCCCTGAGTAGTAGTGGAGTAGATTGAAGATTGTAGATCT
Found at i:45655495 original size:131 final size:131
Alignment explanation
Indices: 45655157--45655848 Score: 1084
Period size: 131 Copynumber: 5.3 Consensus size: 131
45655147 CATCATAACA
* *
45655157 AGTCCTATCTCCCTGAGTAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATTTCCCTAAACAGT
1 AGTCCTATCTCCCTGAGTAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGT
* * * *
45655222 AGTGAAGCAGATCAAAGACGACGAATCTTATCTTCTCGAGATAGTAGGAAGTATATTTAAGCCAC
66 AGTGGAGCAGATCGAAGACGACGAATCTTATCTTCTCGAGATAGTAGGAAGCAGATTTAAGCCAC
45655287 C
131 C
* * *
45655288 AGT-CTATCTCCCTGAGCAGCAGTGCAGTAGGTTGAAGATTGTAGATCTTATCTCCTTAAGCAGT
1 AGTCCTATCTCCCTGAGTAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGT
*
45655352 AGTAGAGCAGATCGAAGAC-AGCGAATCTTATCTTCTCGAGATAGTAGGAAGCAGATTTAAGCCA
66 AGTGGAGCAGATCGAAGACGA-CGAATCTTATCTTCTCGAGATAGTAGGAAGCAGATTTAAGCCA
45655416 CC
130 CC
*
45655418 AGTCCTATCTCCCTGAGTAGTAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGT
1 AGTCCTATCTCCCTGAGTAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGT
* * *
45655483 AGTGGAGTAGATCGAAGACGATGAATCTTATCTTCCCGAGATAGTAGGAAGCAGATTTAAGCCAC
66 AGTGGAGCAGATCGAAGACGACGAATCTTATCTTCTCGAGATAGTAGGAAGCAGATTTAAGCCAC
45655548 C
131 C
* *
45655549 AGTCCTATCTCCCTGAGTAGTAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTTCCTAAGCAGT
1 AGTCCTATCTCCCTGAGTAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGT
* * * *
45655614 AGTGGAGCAGATCGAAGACGATGAATTTTATCTTCTAGAGATAGTAGAAAGCAGATTTAAGCCAC
66 AGTGGAGCAGATCGAAGACGACGAATCTTATCTTCTCGAGATAGTAGGAAGCAGATTTAAGCCAC
45655679 C
131 C
* * *
45655680 AGTCCTATCTCCCAGAGCAGCATTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGT
1 AGTCCTATCTCCCTGAGTAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGT
* * *
45655745 AGTGGAGCAGATTGAAGATGACGAATCTTATCTTCCCGAGATAGTAGGAAGCAGATTTAAGCCAC
66 AGTGGAGCAGATCGAAGACGACGAATCTTATCTTCTCGAGATAGTAGGAAGCAGATTTAAGCCAC
45655810 C
131 C
* * *
45655811 AGTCCTATGTCCCTGAGTTGCAGTAGAGT-GGATTGAAG
1 AGTCCTATCTCCCTGAGTAGCAGTGGAGTAGG-TTGAAG
45655849 CTACAAGTCG
Statistics
Matches: 515, Mismatches: 42, Indels: 8
0.91 0.07 0.01
Matches are distributed among these distances:
129 1 0.00
130 120 0.23
131 393 0.76
132 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.27
Consensus pattern (131 bp):
AGTCCTATCTCCCTGAGTAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGT
AGTGGAGCAGATCGAAGACGACGAATCTTATCTTCTCGAGATAGTAGGAAGCAGATTTAAGCCAC
C
Found at i:45655623 original size:87 final size:87
Alignment explanation
Indices: 45655284--45655632 Score: 205
Period size: 87 Copynumber: 4.0 Consensus size: 87
45655274 ATATTTAAGC
* * *
45655284 CACCAGT-CTATCTCCCTGAGCAGCAGTGCAGTAGGTTGAAGATTGTAGATCTTATC-TCCTTAA
1 CACCAGTCCTATCTCCCTGAGCAGTAGTGGAGTAGATTGAAGATTGTAGATCTTATCTTCC-TAA
* *
45655347 GCAGTAGTAGAGCAGATCGAAGA
65 GCAGTAGTGGAGCAGATTGAAGA
* * * * * * ***** * *
45655370 CAGCGAATCTTATCT-TCTCGAG-A-TAGTAGGAAGCAGATTTAAGCCACCAG-TCCTATCTCCC
1 CA-CCAGTCCTATCTCCCT-GAGCAGTAGT-GG-AGTAGATTGAAGATTGTAGATCTTATCTTCC
* * * *
45655431 TGAGTAGTAGTGGAGTAGGTTGAAGA
62 TAAGCAGTAGTGGAGCAGATTGAAGA
**** * * * * *
45655457 TTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGA-CG-ATGAATCTTATCTTCCC
1 CACCAG-TCCTATCTCCCTGAGCAGTAGTGGAGTAGATTGAAGATTGTA-G-ATCTTATCTTCCT
* * *
45655520 GAG-A-TAGTAGGAAGCAGATTTAAGC
63 AAGCAGTAGT-GG-AGCAGATTGAAGA
* *
45655545 CACCAGTCCTATCTCCCTGAGTAGTAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTTCCTAAG
1 CACCAGTCCTATCTCCCTGAGCAGTAGTGGAGTAGATTGAAGATTGTAGATCTTATCTTCCTAAG
*
45655610 CAGTAGTGGAGCAGATCGAAGA
66 CAGTAGTGGAGCAGATTGAAGA
45655632 C
1 C
45655633 GATGAATTTT
Statistics
Matches: 187, Mismatches: 57, Indels: 37
0.67 0.20 0.13
Matches are distributed among these distances:
85 1 0.01
86 11 0.06
87 112 0.60
88 54 0.29
89 9 0.05
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (87 bp):
CACCAGTCCTATCTCCCTGAGCAGTAGTGGAGTAGATTGAAGATTGTAGATCTTATCTTCCTAAG
CAGTAGTGGAGCAGATTGAAGA
Found at i:45655773 original size:44 final size:44
Alignment explanation
Indices: 45655332--45655777 Score: 185
Period size: 44 Copynumber: 10.2 Consensus size: 44
45655322 AAGATTGTAG
* * *
45655332 ATCTTATCTCCTTAAGCAGTAGTAGAGCAGATCGAAGAC-AGCGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGA-CGA
* * * * *
45655376 ATCTTATCT-TCT-CG-AGATAGTAGGAAGCAGATTTAAG-CCACCA
1 ATCTTATCTCCCTAAGCAG-TAGT-GG-AGCAGATTGAAGACGACGA
* * * * * * *
45655419 GTCCTATCTCCCTGAGTAGTAGTGGAGTAGGTTGAAGATTGTA-G-
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA-CG-ACGA
* * *
45655463 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGATGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACGA
* * * *
45655507 ATCTTATCTTCCC-GAG-A-TAGTAGGAAGCAGATTTAAG-CCACCA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACGACGA
* * * * * * *
45655550 GTCCTATCTCCCTGAGTAGTAGTGGAGTAGGTTGAAGATTGTA-G-
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA-CG-ACGA
* * *
45655594 ATCTTATCTTCCTAAGCAGTAGTGGAGCAGATCGAAGACGATGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACGA
* * * * * *
45655638 ATTTTATCT-TCT-AG-AGATAGTAGAAAGCAGATTTAAG-CCACCA
1 ATCTTATCTCCCTAAGCAG-TAGT-G-GAGCAGATTGAAGACGACGA
* * * * * * *
45655681 GTCCTATCTCCC-AGAGCAGCATTGGAGTAGGTTGAAGATTGTA-G-
1 ATCTTATCTCCCTA-AGCAGTAGTGGAGCAGATTGAAGA-CG-ACGA
*
45655725 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATGACGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACGA
45655769 ATCTTATCT
1 ATCTTATCT
45655778 TCCCGAGATA
Statistics
Matches: 291, Mismatches: 75, Indels: 72
0.66 0.17 0.16
Matches are distributed among these distances:
41 4 0.01
42 22 0.08
43 73 0.25
44 167 0.57
45 18 0.06
46 7 0.02
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACGA
Found at i:45657479 original size:12 final size:13
Alignment explanation
Indices: 45657464--45657492 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
45657454 TTGCATTACT
45657464 TTTTATTT-TTTA
1 TTTTATTTGTTTA
45657476 TTTTATTTGTTTA
1 TTTTATTTGTTTA
45657489 TTTT
1 TTTT
45657493 TTAGTTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.83
Consensus pattern (13 bp):
TTTTATTTGTTTA
Found at i:45657690 original size:16 final size:17
Alignment explanation
Indices: 45657664--45657699 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
45657654 ATATATATGC
*
45657664 ATACTTCTATACTTTAT
1 ATACTTCTATAATTTAT
45657681 ATACTT-TATAATTTAT
1 ATACTTCTATAATTTAT
45657697 ATA
1 ATA
45657700 TATACGTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.36, C:0.11, G:0.00, T:0.53
Consensus pattern (17 bp):
ATACTTCTATAATTTAT
Found at i:45657709 original size:29 final size:30
Alignment explanation
Indices: 45657671--45657731 Score: 79
Period size: 32 Copynumber: 2.0 Consensus size: 30
45657661 TGCATACTTC
* *
45657671 TATACTTTATATAC-TTTATAATTTATATA
1 TATACGTTATATACTTTTATAATATATATA
45657700 TATACGTTATATACATTTTTATAATATATATA
1 TATACGTTATATAC--TTTTATAATATATATA
45657732 CATATATAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 13 0.48
32 14 0.52
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (30 bp):
TATACGTTATATACTTTTATAATATATATA
Found at i:45657831 original size:16 final size:15
Alignment explanation
Indices: 45657799--45657832 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
45657789 TACCTACTTG
45657799 TATTTTATATATATA
1 TATTTTATATATATA
*
45657814 TATTTTATAATCTATA
1 TATTTTAT-ATATATA
45657830 TAT
1 TAT
45657833 ATCTACATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (15 bp):
TATTTTATATATATA
Found at i:45662067 original size:29 final size:29
Alignment explanation
Indices: 45662025--45662082 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
45662015 ATGAATTATG
*
45662025 AAGTTTTATGGTAGAAATGGAAAGGTTGT
1 AAGTTTTATGGTAGAAATAGAAAGGTTGT
45662054 AAGTTTTATGGTAGAAATAGAAAGGTTGT
1 AAGTTTTATGGTAGAAATAGAAAGGTTGT
45662083 TGATAGATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.36, C:0.00, G:0.29, T:0.34
Consensus pattern (29 bp):
AAGTTTTATGGTAGAAATAGAAAGGTTGT
Found at i:45662782 original size:24 final size:25
Alignment explanation
Indices: 45662736--45662782 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
45662726 TGGCCCTCTT
*
45662736 GAGCTTCCTGTTATATAGTTCTTGC
1 GAGCTTCCTGTTATATAGCTCTTGC
45662761 GAGCTT-CTCGTTA-ATAGCTCTT
1 GAGCTTCCT-GTTATATAGCTCTT
45662783 CGGAGCATCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.17, C:0.21, G:0.19, T:0.43
Consensus pattern (25 bp):
GAGCTTCCTGTTATATAGCTCTTGC
Found at i:45662788 original size:24 final size:25
Alignment explanation
Indices: 45662736--45662782 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
45662726 TGGCCCTCTT
*
45662736 GAGCTTC-CTGTTATATAGTTCTTGC
1 GAGCTTCTC-GTTATATAGCTCTTGC
45662761 GAGCTTCTCGTTA-ATAGCTCTT
1 GAGCTTCTCGTTATATAGCTCTT
45662783 CGGAGCATCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 8 0.40
25 11 0.55
26 1 0.05
ACGTcount: A:0.17, C:0.21, G:0.19, T:0.43
Consensus pattern (25 bp):
GAGCTTCTCGTTATATAGCTCTTGC
Found at i:45662875 original size:26 final size:25
Alignment explanation
Indices: 45662840--45662940 Score: 112
Period size: 26 Copynumber: 3.9 Consensus size: 25
45662830 GTAGCTCTTA
* *
45662840 TGAGCATCCCATTATATGGCTCTTTG
1 TGAGCTTCCCATTA-ATGGCTCTTTT
*
45662866 TGAGCTTCCCGATTAAAGGCTCTTTT
1 TGAGCTTCCC-ATTAATGGCTCTTTT
*
45662892 TGAGCTTCCTGATTAATGGCTCTTTT
1 TGAGCTTCC-CATTAATGGCTCTTTT
**
45662918 TGAGCTTCCTGTTTAATGGCTCT
1 TGAGCTTCC-CATTAATGGCTCT
45662941 CCGAAGCTTC
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
26 63 0.94
27 4 0.06
ACGTcount: A:0.17, C:0.22, G:0.20, T:0.42
Consensus pattern (25 bp):
TGAGCTTCCCATTAATGGCTCTTTT
Found at i:45663037 original size:24 final size:24
Alignment explanation
Indices: 45663010--45663071 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
45663000 TGGCTATTTA
*
45663010 GAGCTACCTGTTATTGGCTCGCAT
1 GAGCTTCCTGTTATTGGCTCGCAT
* **
45663034 GAGCTTCTTGATTA-TGGCTCTTAT
1 GAGCTTCCTG-TTATTGGCTCGCAT
45663058 GAGCTTCCTGTTAT
1 GAGCTTCCTGTTAT
45663072 ATAGCCTGGA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
23 3 0.10
24 25 0.81
25 3 0.10
ACGTcount: A:0.16, C:0.21, G:0.23, T:0.40
Consensus pattern (24 bp):
GAGCTTCCTGTTATTGGCTCGCAT
Found at i:45663125 original size:25 final size:24
Alignment explanation
Indices: 45663018--45663128 Score: 84
Period size: 25 Copynumber: 4.5 Consensus size: 24
45663008 TAGAGCTACC
*
45663018 TGTTAT-TGGCTCGCATGAGCTTCT
1 TGTTATATGGCTC-TATGAGCTTCT
* *
45663042 TGAT-TATGGCTCTTATGAGCTTCC
1 TGTTATATGGCTC-TATGAGCTTCT
* *
45663066 TGTTATATAGC-CTGGATAAGCTTCT
1 TGTTATATGGCTCT--ATGAGCTTCT
** *
45663091 CATTACATGGCTCATATGAGCTTCT
1 TGTTATATGGCTC-TATGAGCTTCT
45663116 TGTTATATGGCTC
1 TGTTATATGGCTC
45663129 GAGAGAGGAT
Statistics
Matches: 65, Mismatches: 16, Indels: 11
0.71 0.17 0.12
Matches are distributed among these distances:
23 2 0.03
24 22 0.34
25 39 0.60
26 1 0.02
27 1 0.02
ACGTcount: A:0.19, C:0.20, G:0.21, T:0.41
Consensus pattern (24 bp):
TGTTATATGGCTCTATGAGCTTCT
Found at i:45671376 original size:81 final size:82
Alignment explanation
Indices: 45671257--45671444 Score: 267
Period size: 81 Copynumber: 2.3 Consensus size: 82
45671247 ACCGAAGTGT
* *
45671257 AAACAGGGGCAC-AAGTGTGC-ATTCAGGGGTATCGAAGTACAAACAGGGGCATGTATGTGCAAT
1 AAACAGGGGCACGAA-TGTGCAATTCAGGGGTATCAAAGTACAAACAGGGGCACGTATGTGCAAT
*
45671320 TC-AGGGTACAAAAGTAC
65 TCAAGGGTACAAAAGTAA
* *
45671337 AAACAGGGGCACGCATGTGCAATTCAGGGGTA-CAAAAGTACAAACAGGGGCACGTATGTGTAAT
1 AAACAGGGGCACGAATGTGCAATTCAGGGGTATC-AAAGTACAAACAGGGGCACGTATGTGCAAT
45671401 TCAAGGGTACAAAAGTAA
65 TCAAGGGTACAAAAGTAA
* *
45671419 AAACAGTGGCACGTATGTGCAATTCA
1 AAACAGGGGCACGAATGTGCAATTCA
45671445 TACAACAATT
Statistics
Matches: 97, Mismatches: 7, Indels: 6
0.88 0.06 0.05
Matches are distributed among these distances:
80 18 0.19
81 41 0.42
82 38 0.39
ACGTcount: A:0.37, C:0.16, G:0.28, T:0.19
Consensus pattern (82 bp):
AAACAGGGGCACGAATGTGCAATTCAGGGGTATCAAAGTACAAACAGGGGCACGTATGTGCAATT
CAAGGGTACAAAAGTAA
Found at i:45671380 original size:41 final size:41
Alignment explanation
Indices: 45671257--45671444 Score: 258
Period size: 41 Copynumber: 4.6 Consensus size: 41
45671247 ACCGAAGTGT
* *
45671257 AAACAGGGGCAC-AAGTGTGC-ATTCAGGGGTATC-GAAGTAC
1 AAACAGGGGCACGTA-TGTGCAATTCAGGGGTA-CAAAAGTAC
*
45671297 AAACAGGGGCATGTATGTGCAATTCA-GGGTACAAAAGTAC
1 AAACAGGGGCACGTATGTGCAATTCAGGGGTACAAAAGTAC
*
45671337 AAACAGGGGCACGCATGTGCAATTCAGGGGTACAAAAGTAC
1 AAACAGGGGCACGTATGTGCAATTCAGGGGTACAAAAGTAC
* * *
45671378 AAACAGGGGCACGTATGTGTAATTCAAGGGTACAAAAGTAA
1 AAACAGGGGCACGTATGTGCAATTCAGGGGTACAAAAGTAC
*
45671419 AAACAGTGGCACGTATGTGCAATTCA
1 AAACAGGGGCACGTATGTGCAATTCA
45671445 TACAACAATT
Statistics
Matches: 133, Mismatches: 11, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 51 0.38
41 81 0.61
ACGTcount: A:0.37, C:0.16, G:0.28, T:0.19
Consensus pattern (41 bp):
AAACAGGGGCACGTATGTGCAATTCAGGGGTACAAAAGTAC
Found at i:45671386 original size:20 final size:20
Alignment explanation
Indices: 45671323--45671386 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
45671313 GTGCAATTCA
45671323 GGGTACAAAAGTACAAACAG
1 GGGTACAAAAGTACAAACAG
* ** * * *
45671343 GGGCACGCATGTGCAATTCAG
1 GGGTACAAAAGTACAA-ACAG
45671364 GGGTACAAAAGTACAAACAG
1 GGGTACAAAAGTACAAACAG
45671384 GGG
1 GGG
45671387 CACGTATGTG
Statistics
Matches: 31, Mismatches: 12, Indels: 2
0.69 0.27 0.04
Matches are distributed among these distances:
20 17 0.55
21 14 0.45
ACGTcount: A:0.39, C:0.17, G:0.31, T:0.12
Consensus pattern (20 bp):
GGGTACAAAAGTACAAACAG
Found at i:45683686 original size:14 final size:13
Alignment explanation
Indices: 45683667--45683697 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
45683657 TAGATTTGGC
45683667 ATTAATTAATCTTA
1 ATTAATTAA-CTTA
45683681 ATTAATTAACTTA
1 ATTAATTAACTTA
45683694 ATTA
1 ATTA
45683698 TGGCTTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTAATTAACTTA
Found at i:45684229 original size:215 final size:216
Alignment explanation
Indices: 45683811--45684214 Score: 605
Period size: 215 Copynumber: 1.9 Consensus size: 216
45683801 TTGGATAATT
* * * *
45683811 GTTATTTAACTCCTTAATCCCTACCTTAATTAAAACTCTACAATGGTTAGACATTTACAATTTAG
1 GTTATTTAACTCCTTAAGCCATACCTTAATTAAAACTCTACAACGATTAGACATTTACAATTTAG
* *** * *
45683876 TCCTTAAGCTTTAATAACTAGTTTATTGGCTCAATTACTTGACCACTCTTTATTATATTCACATA
66 TCCTTAAGCTTTAATAACTAGCTTATCAACTAAATTACTTGACCACTCTTTATTATATTCACAGA
* * * *
45683941 TTAACTATGTAAATATTCATATTTTATATTTATGGACTCGGTTTACGGAAATGAGGTTTCAAAAT
131 TTAACTACGTAAATATTCATAATTTATATTTACGGACTCGGTTTAAGGAAATGAGGTTTCAAAAT
45684006 CGTATTTTCCAATATCACTGA
196 CGTATTTTCCAATATCACTGA
* * *
45684027 GTTATTTAACT-C-TAAGCCATACCTTAATTAAAACTCTATAGCGATTAGACTTTTACAATTTAG
1 GTTATTTAACTCCTTAAGCCATACCTTAATTAAAACTCTACAACGATTAGACATTTACAATTTAG
*
45684090 TCCTTAAGCTTTAATTAACTAGCTTATCAACTAAATTACTTGACCACTCTTTATTATATTCATAG
66 TCCTTAAGCTTTAA-TAACTAGCTTATCAACTAAATTACTTGACCACTCTTTATTATATTCACAG
* *
45684155 ATTAACTCCGTAAATATTCATAATTTATATTTACGGACTTGGTTTAAGGAAATGAGGTTT
130 ATTAACTACGTAAATATTCATAATTTATATTTACGGACTCGGTTTAAGGAAATGAGGTTT
45684215 TGAAACTGTA
Statistics
Matches: 167, Mismatches: 20, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
214 58 0.35
215 98 0.59
216 11 0.07
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (216 bp):
GTTATTTAACTCCTTAAGCCATACCTTAATTAAAACTCTACAACGATTAGACATTTACAATTTAG
TCCTTAAGCTTTAATAACTAGCTTATCAACTAAATTACTTGACCACTCTTTATTATATTCACAGA
TTAACTACGTAAATATTCATAATTTATATTTACGGACTCGGTTTAAGGAAATGAGGTTTCAAAAT
CGTATTTTCCAATATCACTGA
Found at i:45686777 original size:17 final size:17
Alignment explanation
Indices: 45686733--45686777 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 17
45686723 ATTTAGTCCA
*
45686733 AATCACTAGTACTCGAT
1 AATCACTAGTACTCAAT
45686750 --TCAC-A-TACTCAAT
1 AATCACTAGTACTCAAT
45686763 AATCACTAGTACTCA
1 AATCACTAGTACTCA
45686778 TTAGTACGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 8
0.72 0.03 0.25
Matches are distributed among these distances:
13 7 0.30
14 1 0.04
15 8 0.35
16 1 0.04
17 6 0.26
ACGTcount: A:0.38, C:0.27, G:0.07, T:0.29
Consensus pattern (17 bp):
AATCACTAGTACTCAAT
Found at i:45691189 original size:28 final size:28
Alignment explanation
Indices: 45691152--45691208 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
45691142 CCTGGTTGGT
45691152 TTATTGATTT-TTATCTTT-TTTATTTTTA
1 TTATTGATTTATT-T-TTTGTTTATTTTTA
*
45691180 TTATTTATTTATTTTTTGTTTATTTTTA
1 TTATTGATTTATTTTTTGTTTATTTTTA
45691208 T
1 T
45691209 CCCAATTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 3 0.12
28 21 0.81
29 2 0.08
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.77
Consensus pattern (28 bp):
TTATTGATTTATTTTTTGTTTATTTTTA
Found at i:45691192 original size:17 final size:16
Alignment explanation
Indices: 45691151--45691204 Score: 58
Period size: 15 Copynumber: 3.4 Consensus size: 16
45691141 TCCTGGTTGG
* *
45691151 TTTATTGATTTTTATC
1 TTTATTTATTTTTATA
45691167 TTT-TTTATTTTTATTA
1 TTTATTTATTTTTA-TA
*
45691183 TTTATTTATTTTT-TG
1 TTTATTTATTTTTATA
45691198 TTTATTT
1 TTTATTT
45691205 TTATCCCAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
15 17 0.52
16 7 0.21
17 9 0.27
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.78
Consensus pattern (16 bp):
TTTATTTATTTTTATA
Found at i:45698034 original size:5 final size:5
Alignment explanation
Indices: 45698026--45698051 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
45698016 GAGATGGAAT
45698026 TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA T
45698052 ATATTTGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:45698051 original size:26 final size:26
Alignment explanation
Indices: 45698000--45698051 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
45697990 TGAAGTTTTC
* * *
45698000 TCGAATCGAGTCGAGTGAGATGGAAT
1 TCGAATCGAATCGAATGAGATCGAAT
45698026 TCGAATCGAATCGAATCGA-ATCGAAT
1 TCGAATCGAATCGAAT-GAGATCGAAT
45698052 ATATTTGTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (26 bp):
TCGAATCGAATCGAATGAGATCGAAT
Found at i:45698735 original size:30 final size:31
Alignment explanation
Indices: 45698696--45698755 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
45698686 GGAGGTGGGA
*
45698696 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
45698727 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
45698756 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:45698925 original size:21 final size:21
Alignment explanation
Indices: 45698891--45698931 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
45698881 GGGGGAAAGT
*
45698891 GGGAAGAAGTAAAAGTTTTGA
1 GGGAAGAAGTAAAAGGTTTGA
45698912 GGGAA-AAGTAAAAAGGTTTG
1 GGGAAGAAGT-AAAAGGTTTG
45698932 GGAGTTTGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.44, C:0.00, G:0.34, T:0.22
Consensus pattern (21 bp):
GGGAAGAAGTAAAAGGTTTGA
Done.