Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 17 of 284
Found at i:5770409 original size:5 final size:5
Alignment explanation
Indices: 5770382--5770465 Score: 55
Period size: 5 Copynumber: 15.6 Consensus size: 5
5770372 TTTTTTATTA
* *
5770382 TTTAT TCTTATT TTTAGT TTTAT TTTAT TTTGTT TTTAT TTTCT TTTGATT
1 TTTAT T-TTA-T TTTA-T TTTAT TTTAT TTT-AT TTTAT TTTAT TTT-A-T
*
5770433 TTTAT TTTCAT TTCAAT TTTA- -TTAT TTTAT TTT
1 TTTAT TTT-AT TT-TAT TTTAT TTTAT TTTAT TTT
5770466 GAAAGACATG
Statistics
Matches: 63, Mismatches: 7, Indels: 18
0.72 0.08 0.20
Matches are distributed among these distances:
3 3 0.05
5 30 0.48
6 24 0.38
7 6 0.10
ACGTcount: A:0.17, C:0.05, G:0.04, T:0.75
Consensus pattern (5 bp):
TTTAT
Found at i:5770411 original size:17 final size:17
Alignment explanation
Indices: 5770382--5770445 Score: 60
Period size: 17 Copynumber: 3.7 Consensus size: 17
5770372 TTTTTTATTA
5770382 TTTATTCTTATTTTTAGT
1 TTTATT-TTATTTTTAGT
5770400 TTTATTTTA-TTTT-GTT
1 TTTATTTTATTTTTAG-T
* * *
5770416 TTTATTTTCTTTTGATT
1 TTTATTTTATTTTTAGT
5770433 TTTATTTTCATTT
1 TTTATTTT-ATTT
5770446 CAATTTTATT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
15 1 0.03
16 13 0.34
17 15 0.39
18 9 0.24
ACGTcount: A:0.14, C:0.05, G:0.05, T:0.77
Consensus pattern (17 bp):
TTTATTTTATTTTTAGT
Found at i:5770452 original size:17 final size:17
Alignment explanation
Indices: 5770415--5770455 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
5770405 TTTATTTTGT
* * *
5770415 TTTTATTTTCTTTTGAT
1 TTTTATTTTCATTTCAA
5770432 TTTTATTTTCATTTCAA
1 TTTTATTTTCATTTCAA
5770449 TTTTATT
1 TTTTATT
5770456 ATTTTATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.17, C:0.07, G:0.02, T:0.73
Consensus pattern (17 bp):
TTTTATTTTCATTTCAA
Found at i:5778244 original size:9 final size:9
Alignment explanation
Indices: 5778230--5778254 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
5778220 GTTCAGAATT
5778230 GAGCTTACG
1 GAGCTTACG
5778239 GAGCTTACG
1 GAGCTTACG
5778248 GAGCTTA
1 GAGCTTA
5778255 AGGCTCAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (9 bp):
GAGCTTACG
Found at i:5780843 original size:30 final size:29
Alignment explanation
Indices: 5780807--5780867 Score: 104
Period size: 30 Copynumber: 2.1 Consensus size: 29
5780797 AATCATAAGT
5780807 TTTGGCACTAAGTGTGCGATTTAAACTAGC
1 TTTGGCACTAAGTGTGCGATTT-AACTAGC
*
5780837 TTTGGCACTAAGTTTGCGATTTAACTAGC
1 TTTGGCACTAAGTGTGCGATTTAACTAGC
5780866 TT
1 TT
5780868 CGGCTACTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 9 0.30
30 21 0.70
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.38
Consensus pattern (29 bp):
TTTGGCACTAAGTGTGCGATTTAACTAGC
Found at i:5787154 original size:132 final size:132
Alignment explanation
Indices: 5787006--5787251 Score: 397
Period size: 132 Copynumber: 1.9 Consensus size: 132
5786996 ATGGAATCTC
* *
5787006 GAAGGGATATTTGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGTTAGGGCACGATTCT
1 GAAGGGATATTCGATTATTTCGAGCAAACGAGAAATTGCAACCCAACACGTTAGGGCACGATTCT
* * *
5787071 GCGAATTGCTAGATATCAAA-CT-TTGCTTTCGTTTTAAAGAATTTTTAAAAGGCATGAGTGAAA
66 GCGAATTGCCAAATATCAAATCTCGT-C-TTCGTTTTAAAGAATTTTTAAAAGGCATGAGTGAAA
5787134 GTTT
129 GTTT
* *
5787138 GAAGGGATATTCGATTATTTCGAGCAAACGCGAAATTGCAACCCAACACGTTAGGGCACTATTCT
1 GAAGGGATATTCGATTATTTCGAGCAAACGAGAAATTGCAACCCAACACGTTAGGGCACGATTCT
5787203 GCGAATTGCCAAATATCAAATCTCGTCTTCGTTTTAAAGAATTTTTAAA
66 GCGAATTGCCAAATATCAAATCTCGTCTTCGTTTTAAAGAATTTTTAAA
5787252 TGAATACTTG
Statistics
Matches: 105, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
132 101 0.96
133 3 0.03
134 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (132 bp):
GAAGGGATATTCGATTATTTCGAGCAAACGAGAAATTGCAACCCAACACGTTAGGGCACGATTCT
GCGAATTGCCAAATATCAAATCTCGTCTTCGTTTTAAAGAATTTTTAAAAGGCATGAGTGAAAGT
TT
Found at i:5791687 original size:11 final size:10
Alignment explanation
Indices: 5791653--5791703 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
5791643 ATCTTTTCGA
5791653 TTTGG-TCTAT
1 TTTGGCTCT-T
*
5791663 TTTGTCTCTT
1 TTTGGCTCTT
5791673 TTTGGCTCGTT
1 TTTGGCTC-TT
*
5791684 TTTGGCTCCT
1 TTTGGCTCTT
*
5791694 TTTGACTCTT
1 TTTGGCTCTT
5791704 GGTGCTCTCC
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
10 21 0.62
11 13 0.38
ACGTcount: A:0.04, C:0.20, G:0.18, T:0.59
Consensus pattern (10 bp):
TTTGGCTCTT
Found at i:5793574 original size:17 final size:17
Alignment explanation
Indices: 5793552--5793599 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
5793542 AAAAGAAGAT
** *
5793552 AATAAAATTGAAATGAA
1 AATAAAATAAAAATAAA
5793569 AATAAAATAAAAATAAA
1 AATAAAATAAAAATAAA
5793586 AATAAAAATAAAAA
1 AAT-AAAATAAAAA
5793600 GATAAGAGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 17 0.63
18 10 0.37
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (17 bp):
AATAAAATAAAAATAAA
Found at i:5793575 original size:5 final size:6
Alignment explanation
Indices: 5793562--5793599 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
5793552 AATAAAATTG
*
5793562 AAATGA AAAT-A AAATAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAA
5793600 GATAAGAGGA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 5 0.16
6 26 0.84
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:5798790 original size:22 final size:21
Alignment explanation
Indices: 5798737--5798791 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 21
5798727 CCAAAATAAG
5798737 GAAAAAGTAAATTAATAATTAA
1 GAAAAA-TAAATTAATAATTAA
* *
5798759 TAAAATTAAATTAA-AATTTCAA
1 GAAAAATAAATTAATAA-TT-AA
5798781 GAAAAATAAAT
1 GAAAAATAAAT
5798792 GGCTAAAGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
20 2 0.07
21 10 0.37
22 15 0.56
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (21 bp):
GAAAAATAAATTAATAATTAA
Found at i:5813565 original size:29 final size:28
Alignment explanation
Indices: 5813517--5813631 Score: 122
Period size: 29 Copynumber: 4.0 Consensus size: 28
5813507 GTGAGCATGA
* * *
5813517 ATATGAATGTGACTGGGCCTAACGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
*
5813545 ACATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* * *
5813574 ATATACAGGTGATTTGGGCCTAATAGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* * *
5813603 ATATGAATATGATTGGGCTTAATGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
5813631 A
1 A
5813632 GATACAGGTA
Statistics
Matches: 72, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
28 25 0.35
29 47 0.65
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.27
Consensus pattern (28 bp):
ATATAAATGTGATTGGGCCTAATGGGCC
Found at i:5813637 original size:57 final size:58
Alignment explanation
Indices: 5813530--5813640 Score: 152
Period size: 57 Copynumber: 1.9 Consensus size: 58
5813520 TGAATGTGAC
* * *
5813530 TGGGCCTAACGGGCCACATAAATGTGATTTGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAACAGGCCACATAAATATGATTTGGGCCTAATGGGCCAGATACAGGTGATT
* * * *
5813588 TGGGCCTAATAGGCCATATGAATATGA-TTGGGCTTAATGGGCCAGATACAGGT
1 TGGGCCTAACAGGCCACATAAATATGATTTGGGCCTAATGGGCCAGATACAGGT
5813641 ATGTGAAATT
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 24 0.52
58 22 0.48
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (58 bp):
TGGGCCTAACAGGCCACATAAATATGATTTGGGCCTAATGGGCCAGATACAGGTGATT
Found at i:5819612 original size:17 final size:16
Alignment explanation
Indices: 5819575--5819612 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
5819565 TTGTAACGCC
5819575 CCAAAAATCTCGAAAT
1 CCAAAAATCTCGAAAT
5819591 CCAAAAATC-CTGAAAT
1 CCAAAAATCTC-GAAAT
5819607 CTCAAA
1 C-CAAA
5819613 TTCTAGAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 1 0.05
16 15 0.75
17 4 0.20
ACGTcount: A:0.50, C:0.26, G:0.05, T:0.18
Consensus pattern (16 bp):
CCAAAAATCTCGAAAT
Found at i:5821220 original size:28 final size:28
Alignment explanation
Indices: 5821112--5821226 Score: 133
Period size: 29 Copynumber: 4.0 Consensus size: 28
5821102 GTGAGCATGA
* *
5821112 ATATGAATGTGACTGGGCCTAACGGGCC
1 ATATGAATGTGATTGGGCCTAATGGGCC
* *
5821140 ATATAAATGTGATTTGGGCCTAATGGGGC
1 ATATGAATGTGA-TTGGGCCTAATGGGCC
*
5821169 ATAT-ACAGGTGATTCGGGCCTAATGGGCC
1 ATATGA-ATGTGATT-GGGCCTAATGGGCC
* *
5821198 ATATGAATATGATTGGGCTTAATGGGCC
1 ATATGAATGTGATTGGGCCTAATGGGCC
5821226 A
1 A
5821227 GATATAGGTA
Statistics
Matches: 74, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
28 28 0.38
29 45 0.61
30 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (28 bp):
ATATGAATGTGATTGGGCCTAATGGGCC
Found at i:5827456 original size:93 final size:93
Alignment explanation
Indices: 5827328--5827499 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
5827318 GCCCATAAGT
* * * *
5827328 GAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
5827393 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
5827421 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
* *
5827486 TGAGTTCGGATGCC
66 CGAGCTCGGATGCC
5827500 CAAACATCCT
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:5827495 original size:46 final size:46
Alignment explanation
Indices: 5827320--5827495 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
5827310 TGTAACCCGC
* * *
5827320 CCATAAGTGAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* * *
5827366 CCATAAATGAACTTGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
5827412 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
5827459 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
5827496 TGCCCAAACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 68 0.63
47 31 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:5827514 original size:46 final size:46
Alignment explanation
Indices: 5827373--5827514 Score: 121
Period size: 46 Copynumber: 3.1 Consensus size: 46
5827363 CATCCATAAA
* * *
5827373 TGAACTTGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT--
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TACATC-CTAG
* * * * *
5827420 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--AAG
1 TGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCATACATCCTAG
* *
5827466 TGAACTCGGACTCAACTCAATGAGTTCGGATGCCCAAACATCCTAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCTAG
5827512 TGA
1 TGA
5827515 CATGTCACTT
Statistics
Matches: 74, Mismatches: 15, Indels: 13
0.73 0.15 0.13
Matches are distributed among these distances:
44 8 0.11
46 32 0.43
47 30 0.41
49 4 0.05
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCTAG
Found at i:5832749 original size:40 final size:40
Alignment explanation
Indices: 5832682--5832815 Score: 209
Period size: 40 Copynumber: 3.4 Consensus size: 40
5832672 ACCCAAGTAT
*
5832682 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
5832721 CTTCGGGTCCTAGCCCGGATACAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
5832761 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
*
5832801 CTTCGAGTCTTAGCC
1 CTTCGGGTCTTAGCC
5832816 AGGTTATCAT
Statistics
Matches: 87, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
38 1 0.01
39 10 0.11
40 76 0.87
ACGTcount: A:0.25, C:0.31, G:0.22, T:0.22
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:5835335 original size:46 final size:46
Alignment explanation
Indices: 5835263--5835350 Score: 158
Period size: 46 Copynumber: 1.9 Consensus size: 46
5835253 TTTTAATTTT
* *
5835263 ACCGAGCTCGGTCCAAAACAATGGTGTATGGCATTTACGACCTTTC
1 ACCGAGCTCGGTCCAAAACAACGGTGTACGGCATTTACGACCTTTC
5835309 ACCGAGCTCGGTCCAAAACAACGGTGTACGGCATTTACGACC
1 ACCGAGCTCGGTCCAAAACAACGGTGTACGGCATTTACGACC
5835351 GTACAAAGCC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.22
Consensus pattern (46 bp):
ACCGAGCTCGGTCCAAAACAACGGTGTACGGCATTTACGACCTTTC
Found at i:5841158 original size:27 final size:27
Alignment explanation
Indices: 5841127--5841304 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
5841117 TAAATTGTAC
5841127 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
5841154 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
5841180 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
5841208 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
5841236 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
5841263 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
5841290 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
5841305 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:5841241 original size:82 final size:81
Alignment explanation
Indices: 5841128--5841283 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
5841118 AAATTGTACA
* *
5841128 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
5841192 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
5841209 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
5841274 TGCGAGTTGA
65 TGCGAATTGA
5841284 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:5841295 original size:82 final size:81
Alignment explanation
Indices: 5841124--5841304 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
5841114 GATTAAATTG
* *
5841124 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
5841189 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
5841205 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
5841269 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
5841287 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
5841305 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:5844555 original size:13 final size:13
Alignment explanation
Indices: 5844537--5844561 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5844527 GCTCGACAGG
5844537 GACACGCCCGTGT
1 GACACGCCCGTGT
5844550 GACACGCCCGTG
1 GACACGCCCGTG
5844562 AGCAATTACT
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:0.16, C:0.40, G:0.32, T:0.12
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:5852330 original size:93 final size:94
Alignment explanation
Indices: 5852140--5852353 Score: 251
Period size: 93 Copynumber: 2.3 Consensus size: 94
5852130 AAGCTGACGC
*
5852140 CATGTCCCAGAC-TGGTCTTACACTAGCTTGTATCTCGCGAGGCCGATGCATGTCCCAGACATGT
1 CATGTCCCAGACAT-GTCTTACACTAGCTTATATCTCGCGAGGCCGATGCATGTCCCAGACATGT
*
5852204 CTTACACTAGCTCTTGCTTCAATGCCGAAG
65 CTTACACTAGCTCTTGCTACAATGCCGAAG
* *
5852234 CATGTCCCAGACATGTCTTACACTGGCTTAAATATCTCG-G-GG-CGATGCATGTCCCAGATATG
1 CATGTCCCAGACATGTCTTACACTAGCTT--ATATCTCGCGAGGCCGATGCATGTCCCAGACATG
* ** * *
5852296 TCTTACACTGGCTC-T-CATACTGTGGCTGATG
64 TCTTACACTAGCTCTTGC-TACAAT-GCCGAAG
*
5852327 CATGTCACAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
5852354 ACATAAATGA
Statistics
Matches: 104, Mismatches: 11, Indels: 11
0.83 0.09 0.09
Matches are distributed among these distances:
91 1 0.01
92 4 0.04
93 62 0.60
94 28 0.27
95 2 0.02
96 7 0.07
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (94 bp):
CATGTCCCAGACATGTCTTACACTAGCTTATATCTCGCGAGGCCGATGCATGTCCCAGACATGTC
TTACACTAGCTCTTGCTACAATGCCGAAG
Found at i:5852344 original size:46 final size:46
Alignment explanation
Indices: 5852183--5852350 Score: 180
Period size: 46 Copynumber: 3.6 Consensus size: 46
5852173 CTCGCGAGGC
* * * ** *
5852183 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTTGC-TTCAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTC-TACATACTGTGG
* * *
5852229 CGAAGCATGTCCCAGACATGTCTTACACTGGCT-TAAATATCTCGGGG
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCTACATA-CT-GTGG
*
5852276 CGATGCATGTCCCAGATATGTCTTACACTGGCTCT-CATACTGTGG
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCTACATACTGTGG
*
5852321 CTGATGCATGTCACAGACATGTCTTACACT
1 C-GATGCATGTCCCAGACATGTCTTACACT
5852351 AGCACATAAA
Statistics
Matches: 102, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
44 1 0.01
45 5 0.05
46 60 0.59
47 35 0.34
48 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.29
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTCTACATACTGTGG
Found at i:5858273 original size:44 final size:44
Alignment explanation
Indices: 5858075--5858326 Score: 163
Period size: 46 Copynumber: 5.5 Consensus size: 44
5858065 TATGTGGGCC
* * * * * * *
5858075 AGTGTTAGACATGTCTGAGACATGCATCAGCCACAAAATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAAAT--GTGCT
* * *
5858121 AATGTAAGAACATGTTTGGGACATGGCATCGGCATTGA-GACGA-GTGCT
1 AGTGTAAG-ACATGTCTGGGACAT-GCATCGGC--T-ACGA-AATGTGCT
* * *
5858169 AGTGTAAGACTTGTCTGGGACATGCATCGACCT-CGAAATGTTAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCG-GCTACGAAATG-T-GCT
* * *
5858215 AGTGTCAGACATGTCTGGGACATGCGTCGGCTACGAGATGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAAATGTGCT
* *
5858259 AGTGTAAGACATGTCTGGGACATGCATCAGC-ACGGTTACATGTG-T
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTAC-G--AAATGTGCT
*
5858304 CAGTGTAAGACCTGTCTGGGACA
1 -AGTGTAAGACATGTCTGGGACA
5858327 CGGCATCGAC
Statistics
Matches: 163, Mismatches: 27, Indels: 32
0.73 0.12 0.14
Matches are distributed among these distances:
43 3 0.02
44 34 0.21
45 6 0.04
46 73 0.45
47 27 0.17
48 17 0.10
50 1 0.01
51 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAAATGTGCT
Found at i:5858279 original size:90 final size:93
Alignment explanation
Indices: 5858075--5858289 Score: 253
Period size: 94 Copynumber: 2.3 Consensus size: 93
5858065 TATGTGGGCC
* * *
5858075 AGTGTTAGACATGTCTGAGACATGCATCAGCCACAAAATGAGAGCCAATGTAAGAACATGTTTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAAAATGAGAGCCAATGTAAGAACATGTCTGG
5858140 GACATGGCATCGGCATTGAGACGAGTGCT
66 GACATGGCATCGGCA-TGAGACGAGTGCT
* * * ** * *
5858169 AGTGTAAGACTTGTCTGGGACATGCATC-GACCTCGAAATGTTAGCCAGTGTCAG-ACATGTCTG
1 AGTGTAAGACATGTCTGGGACATGCATCAG-CCACAAAATGAGAGCCAATGTAAGAACATGTCTG
*
5858232 GGACAT-GCGTCGGC-T-ACGA-GATGTGCT
65 GGACATGGCATCGGCATGA-GACGA-GTGCT
5858259 AGTGTAAGACATGTCTGGGACATGCATCAGC
1 AGTGTAAGACATGTCTGGGACATGCATCAGC
5858290 ACGGTTACAT
Statistics
Matches: 105, Mismatches: 12, Indels: 12
0.81 0.09 0.09
Matches are distributed among these distances:
89 3 0.03
90 36 0.34
91 1 0.01
92 7 0.07
93 15 0.14
94 43 0.41
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (93 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACAAAATGAGAGCCAATGTAAGAACATGTCTGG
GACATGGCATCGGCATGAGACGAGTGCT
Found at i:5863278 original size:34 final size:34
Alignment explanation
Indices: 5863239--5863332 Score: 97
Period size: 34 Copynumber: 2.8 Consensus size: 34
5863229 TCAAGCCCAT
* *
5863239 TGGGCCTAAGCCCTATTCAGATAATAGCGGGT-AC
1 TGGGCCTAAGCCCTTTTCAGATAATAGC-AGTAAC
*
5863273 TGGGCCGAAGCCCTTTTCA-A-AATA-CAGTAAAC
1 TGGGCCTAAGCCCTTTTCAGATAATAGCAGT-AAC
*
5863305 TGGGCCTTAGCCCCTTTTCAGATAATAG
1 TGGGCCTAAG-CCCTTTTCAGATAATAG
5863333 TATGGCCCAT
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
30 2 0.04
31 1 0.02
32 14 0.29
33 10 0.20
34 18 0.37
35 4 0.08
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (34 bp):
TGGGCCTAAGCCCTTTTCAGATAATAGCAGTAAC
Found at i:5863686 original size:65 final size:65
Alignment explanation
Indices: 5863582--5863711 Score: 242
Period size: 65 Copynumber: 2.0 Consensus size: 65
5863572 AGTCCCATGC
*
5863582 ATCAGATAATAATAACATGGCATACAGTAAATAGTAACAGTCAAACATGCATTTAGGTCAACCTT
1 ATCAGATAATAATAACATGGCATACAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
*
5863647 ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
1 ATCAGATAATAATAACATGGCATACAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
5863712 TTTGCCGAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 63 1.00
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.25
Consensus pattern (65 bp):
ATCAGATAATAATAACATGGCATACAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
Found at i:5868057 original size:21 final size:21
Alignment explanation
Indices: 5868014--5868058 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
5868004 ACTGATTTAA
* *
5868014 AACAACCCTCTAACAGAATCT
1 AACAACACTCTAACAGAACCT
* *
5868035 AACAACACTCTAATAGAGCCT
1 AACAACACTCTAACAGAACCT
5868056 AAC
1 AAC
5868059 TGAGACAGTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.31, G:0.07, T:0.18
Consensus pattern (21 bp):
AACAACACTCTAACAGAACCT
Found at i:5878527 original size:213 final size:213
Alignment explanation
Indices: 5878140--5878639 Score: 628
Period size: 213 Copynumber: 2.3 Consensus size: 213
5878130 ATCAGATCAG
* * * ** *
5878140 ATATACAAGTGATGAAAATAATAAAATGTGCACGATAAATTGAAATGTATAAAAAAAATCAAAAT
1 ATATACAATTGATGGAAGTAATAAAATGTGCATAATAAATTAAAATGTATAAAAAAAATCAAAAT
* * * *
5878205 GAAGCTTTGATGCAATACTAAAGTACTCTTAAACAATATAATTTATTTTAAATACGAAAGCATAT
66 GAAGCTTTGATACAATACTAAAGTACTCTCAAACAATATAACTTATTTTAAATACGAAAGAATAT
* *
5878270 CAAAGTAATTTTCCTAACCAAGTTGGTGCCTGGTTCACTTGTGACACCAACTCAGTCAGGGGTTT
131 CAAAGTAATTTTCCTAACCAAGTTGGTGCCTGGTTAAATTGTGACACCAACTCAGTCAGGGGTTT
* *
5878335 AAATAATAGTAAATATAG
196 AAACAATAGTAAATATAA
** *
5878353 ATATGTAATTGATGGAAGTAATAAAATGTGCATAATAGATTAAAATGTATAAAAAAAATCAAAAT
1 ATATACAATTGATGGAAGTAATAAAATGTGCATAATAAATTAAAATGTATAAAAAAAATCAAAAT
* * *
5878418 TAGGCTTTGATACAATACTAAAGTA-TCCTCAAATAATATAACTTATTTTAAATACGAAAGAATA
66 GAAGCTTTGATACAATACTAAAGTACT-CTCAAACAATATAACTTATTTTAAATACGAAAGAATA
* ** * * *
5878482 TCAAAGTAATTTTCTTAACCGCGTTGGTAG-CTTGTTAAATTGTGACACCAACTTAGTTAGGGGT
130 TCAAAGTAATTTTCCTAACCAAGTTGGT-GCCTGGTTAAATTGTGACACCAACTCAGTCAGGGGT
*
5878546 TTAAACAATAGTAAGTATAA
194 TTAAACAATAGTAAATATAA
* * * * ** *
5878566 ATATACAATTGATGGAGGTAATAAAATGTACATATAATAAATTCAAATAT-TTTAAAAAATTAAA
1 ATATACAATTGATGGAAGTAATAAAATGTGC--ATAATAAATTAAAATGTATAAAAAAAATCAAA
*
5878630 TTGAAGCTTT
64 ATGAAGCTTT
5878640 AATTGAGTGG
Statistics
Matches: 243, Mismatches: 40, Indels: 7
0.84 0.14 0.02
Matches are distributed among these distances:
212 1 0.00
213 209 0.86
214 19 0.08
215 14 0.06
ACGTcount: A:0.44, C:0.10, G:0.14, T:0.32
Consensus pattern (213 bp):
ATATACAATTGATGGAAGTAATAAAATGTGCATAATAAATTAAAATGTATAAAAAAAATCAAAAT
GAAGCTTTGATACAATACTAAAGTACTCTCAAACAATATAACTTATTTTAAATACGAAAGAATAT
CAAAGTAATTTTCCTAACCAAGTTGGTGCCTGGTTAAATTGTGACACCAACTCAGTCAGGGGTTT
AAACAATAGTAAATATAA
Found at i:5882345 original size:18 final size:19
Alignment explanation
Indices: 5882305--5882345 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
5882295 TCAATTTTAA
*
5882305 ATTTTATCTATAAAATAAC
1 ATTTTATCTAAAAAATAAC
*
5882324 -TTTTAT-TAAAAAATCAC
1 ATTTTATCTAAAAAATAAC
5882341 ATTTT
1 ATTTT
5882346 TACATTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (19 bp):
ATTTTATCTAAAAAATAAC
Found at i:5882909 original size:8 final size:8
Alignment explanation
Indices: 5882896--5882931 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
5882886 CAATTATTTT
5882896 TAAAATTA
1 TAAAATTA
*
5882904 TAAAATAA
1 TAAAATTA
5882912 TAAAATTA
1 TAAAATTA
5882920 TAAAATTA
1 TAAAATTA
5882928 TAAA
1 TAAA
5882932 CCAACAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (8 bp):
TAAAATTA
Found at i:5886188 original size:105 final size:105
Alignment explanation
Indices: 5885950--5886171 Score: 322
Period size: 105 Copynumber: 2.1 Consensus size: 105
5885940 CATTCACAAC
* * * * *
5885950 TGATTTAAGATCGCAACCTAAATTTATTCAAGTTAGTTGATTTAAGTTCGCAACTCTTACACAGC
1 TGATTTAAGATCGCAACCTAAATTTATTTAAGTTACTTGATTTAAGTTCGCAAATCCTACACAAC
* *
5886015 TCGCTGACCTACGTTCACAGTTAATTTTATTAAGGTTAGT
66 TCGCTAACCTACGTTCACAGCTAATTTTATTAAGGTTAGT
*
5886055 TGATTTAAGATCGCAACCTAAATTTATTTGAGTTAACTTG-TTTAAGATT-GCAAATCCTACACA
1 TGATTTAAGATCGCAACCTAAATTTATTTAAGTT-ACTTGATTTAAG-TTCGCAAATCCTACACA
* *
5886118 ACTCGCTAACCTACGTTCATAGCTGATTTTATTAAGGTTAGT
64 ACTCGCTAACCTACGTTCACAGCTAATTTTATTAAGGTTAGT
5886160 TGATTTAAGATC
1 TGATTTAAGATC
5886172 ATAACATAAG
Statistics
Matches: 105, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
105 99 0.94
106 6 0.06
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (105 bp):
TGATTTAAGATCGCAACCTAAATTTATTTAAGTTACTTGATTTAAGTTCGCAAATCCTACACAAC
TCGCTAACCTACGTTCACAGCTAATTTTATTAAGGTTAGT
Found at i:5886464 original size:106 final size:106
Alignment explanation
Indices: 5886335--5886681 Score: 295
Period size: 106 Copynumber: 3.3 Consensus size: 106
5886325 ATCGGATCTA
* * * * * * * *
5886335 ATTTTATT-AAGGTTAGTTTATTTAAGATTGTAACTTAAATTTATTTGAGTTAGTTGATTTAAGA
1 ATTTTATTAAAGGTTAGTTGATTTAAGATCGCAACCTAAATCTATTCGAGTTAGCTAATTTAAGA
* ** *
5886399 TCATAACTCCTCCACAGCTCGTTGACCTACATTTACAGTTG
66 TCACAACTCCTCCACAGCTCACTGACCTACATTCACAGTTG
5886440 ATTTTATTAAAGGTTAGTTGATTTAAGATCGCAACCTAAATCTATTCGAGTTAGCTAATTTAAGA
1 ATTTTATTAAAGGTTAGTTGATTTAAGATCGCAACCTAAATCTATTCGAGTTAGCTAATTTAAGA
** * * * * *
5886505 TTGCAACTTCTGCACAGCTCACTGACTTACGTTCATAGTTG
66 TCACAACTCCTCCACAGCTCACTGACCTACATTCACAGTTG
* * * * * * * * * *
5886546 ATTTTATT-AAGGGTAGCTAATTTAATATAGCAAACCTAATTTTTTTCAAGTTAGCTTATTTAAG
1 ATTTTATTAAAGGTTAGTTGATTTAAGATCGC-AACCTAAATCTATTCGAGTTAGCTAATTTAAG
* * * * * ** * *
5886610 ATTACAATTTCTACATAGCTCACTGACCTACGCTCATAGCTG
65 ATCACAACTCCTCCACAGCTCACTGACCTACATTCACAGTTG
** *
5886652 ATAATACT-AAGGTTAGTTGATTTAAGATCG
1 ATTTTATTAAAGGTTAGTTGATTTAAGATCG
5886682 TAGCCTCCGA
Statistics
Matches: 196, Mismatches: 44, Indels: 3
0.81 0.18 0.01
Matches are distributed among these distances:
105 26 0.13
106 170 0.87
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (106 bp):
ATTTTATTAAAGGTTAGTTGATTTAAGATCGCAACCTAAATCTATTCGAGTTAGCTAATTTAAGA
TCACAACTCCTCCACAGCTCACTGACCTACATTCACAGTTG
Found at i:5890534 original size:30 final size:30
Alignment explanation
Indices: 5890493--5890551 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
5890483 TCCATCCCAA
* **
5890493 ATTACTCAATTATGAGTTTGTTTCTTTTTG
1 ATTACTCAATTATAAAATTGTTTCTTTTTG
*
5890523 ATTACTTAATTATAAAATTGTTTCTTTTT
1 ATTACTCAATTATAAAATTGTTTCTTTTT
5890552 TTTCACCAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.25, C:0.08, G:0.08, T:0.58
Consensus pattern (30 bp):
ATTACTCAATTATAAAATTGTTTCTTTTTG
Found at i:5890877 original size:25 final size:23
Alignment explanation
Indices: 5890841--5890891 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 23
5890831 GGAGGGATTT
* *
5890841 TTTTTATTTAATATTATTATAAATA
1 TTTTTATATAATA-TAATATAAA-A
5890866 TTTTTATATAATATAATATAAAA
1 TTTTTATATAATATAATATAAAA
5890889 TTT
1 TTT
5890892 AAATTTATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 4 0.17
24 8 0.33
25 12 0.50
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
TTTTTATATAATATAATATAAAA
Found at i:5890878 original size:13 final size:13
Alignment explanation
Indices: 5890841--5890879 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
5890831 GGAGGGATTT
*
5890841 TTTTTATTTAATA
1 TTTTTATATAATA
*
5890854 TTATTATA-AATA
1 TTTTTATATAATA
5890866 TTTTTATATAATA
1 TTTTTATATAATA
5890879 T
1 T
5890880 AATATAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTTTATATAATA
Found at i:5890936 original size:30 final size:28
Alignment explanation
Indices: 5890897--5890961 Score: 80
Period size: 30 Copynumber: 2.3 Consensus size: 28
5890887 AATTTAAATT
*
5890897 TATTATTATATTTTTCTGAAAATATTTATG
1 TATTATTATATTTTT-T-AAAAAATTTATG
*
5890927 TATTTTTATATTTTTTAAAAAATTTA--
1 TATTATTATATTTTTTAAAAAATTTATG
5890953 TATTATTAT
1 TATTATTAT
5890962 TTCTTGTGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 8 0.25
28 9 0.28
29 1 0.03
30 14 0.44
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.60
Consensus pattern (28 bp):
TATTATTATATTTTTTAAAAAATTTATG
Found at i:5891006 original size:21 final size:20
Alignment explanation
Indices: 5890977--5891016 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
5890967 GTGAACAATC
*
5890977 TTTTTATTTTATTTTATATA
1 TTTTTATTTTATTATATATA
5890997 TTTTTAATTTTATTATATAT
1 TTTTT-ATTTTATTATATAT
5891017 CTTTATATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTTATTTTATTATATATA
Found at i:5891012 original size:19 final size:20
Alignment explanation
Indices: 5890977--5891021 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
5890967 GTGAACAATC
5890977 TTTTT-ATTTTATTTTATATA
1 TTTTTAATTTTA-TTTATATA
5890997 TTTTTAATTTTA-TTATATA
1 TTTTTAATTTTATTTATATA
*
5891016 TCTTTA
1 TTTTTA
5891022 TATAATTCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 12 0.52
20 5 0.22
21 6 0.26
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTTTAATTTTATTTATATA
Found at i:5891290 original size:31 final size:31
Alignment explanation
Indices: 5891255--5891360 Score: 83
Period size: 31 Copynumber: 3.5 Consensus size: 31
5891245 AAAAAAAAAT
5891255 CATAGTTGGGTGACCAAAAAAGTAACAAACC
1 CATAGTTGGGTGACCAAAAAAGTAACAAACC
*** * **
5891286 CATAGTAT-GGTGA-C-AAATTTTAAAAAATT
1 CATAGT-TGGGTGACCAAAAAAGTAACAAACC
* * * *
5891315 GATAGTTGAGTGGCCAAAAAAGAAACAAACC
1 CATAGTTGGGTGACCAAAAAAGTAACAAACC
*
5891346 AATAGTTGGGTGACC
1 CATAGTTGGGTGACC
5891361 TATGGTATAG
Statistics
Matches: 52, Mismatches: 19, Indels: 8
0.66 0.24 0.10
Matches are distributed among these distances:
28 1 0.02
29 17 0.33
30 2 0.04
31 31 0.60
32 1 0.02
ACGTcount: A:0.43, C:0.14, G:0.21, T:0.22
Consensus pattern (31 bp):
CATAGTTGGGTGACCAAAAAAGTAACAAACC
Found at i:5891332 original size:60 final size:60
Alignment explanation
Indices: 5891247--5891359 Score: 156
Period size: 60 Copynumber: 1.9 Consensus size: 60
5891237 CCGATTTAAA
* * *
5891247 AAAAAAATCATAGTTGGGTGACCAAAAAAGTAACAAACCCATAGTAT-GGTGACAAATTTT
1 AAAAAAATCATAGTTGAGTGACCAAAAAAGAAACAAACCAATAGT-TGGGTGACAAATTTT
* * *
5891307 AAAAAATTGATAGTTGAGTGGCCAAAAAAGAAACAAACCAATAGTTGGGTGAC
1 AAAAAAATCATAGTTGAGTGACCAAAAAAGAAACAAACCAATAGTTGGGTGAC
5891360 CTATGGTATA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
59 1 0.02
60 45 0.98
ACGTcount: A:0.47, C:0.12, G:0.19, T:0.21
Consensus pattern (60 bp):
AAAAAAATCATAGTTGAGTGACCAAAAAAGAAACAAACCAATAGTTGGGTGACAAATTTT
Found at i:5894662 original size:6 final size:6
Alignment explanation
Indices: 5894644--5894709 Score: 64
Period size: 6 Copynumber: 10.8 Consensus size: 6
5894634 AAGAAACATT
* *
5894644 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTA-A GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
*
5894693 ATCAGA ATCAGT ATCAG
1 ATCAGA ATCAGA ATCAG
5894710 GTAACATAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
5 3 0.06
6 43 0.86
7 2 0.04
8 2 0.04
ACGTcount: A:0.47, C:0.15, G:0.18, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:5894899 original size:27 final size:26
Alignment explanation
Indices: 5894869--5894970 Score: 105
Period size: 27 Copynumber: 3.8 Consensus size: 26
5894859 GCTCAGTTAT
* *
5894869 CAGATATTGTGACAGAGTCGCCAGATA
1 CAGATATTGTGACAGAGCCACCAGA-A
*
5894896 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGACAGAGCCACCAGAA
* *
5894922 CAGATATTAGTGGCATAGCCACCAGAAA
1 CAGATATT-GTGACAGAGCCACCAG-AA
* * *
5894950 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGACAGAGCCAC
5894971 TTAACAGAAT
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
26 9 0.13
27 49 0.73
28 9 0.13
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.18
Consensus pattern (26 bp):
CAGATATTGTGACAGAGCCACCAGAA
Found at i:5895157 original size:22 final size:22
Alignment explanation
Indices: 5895129--5895194 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
5895119 GCAAATACGT
* *
5895129 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGA
* *
5895151 TTGGCACAGAGCCAT-ATGTAGA
1 TTGGCACAAAGCCATAAT-CAGA
*
5895173 TTGACACAAAGCCATAATCAGA
1 TTGGCACAAAGCCATAATCAGA
5895195 AGGCTTTAAG
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGA
Found at i:5895677 original size:27 final size:27
Alignment explanation
Indices: 5895620--5895860 Score: 353
Period size: 27 Copynumber: 9.0 Consensus size: 27
5895610 GGGGCAAAAT
* * *
5895620 GGTAATTTTACCCTACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
5895646 GGTAATTCCACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
5895673 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
5895700 GGTAATTCTACCCTACA-GGGTATTAC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
5895726 GATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
5895753 GGTAATTTTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
5895780 GGTAATTCTACCCTACAGGGG-ATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
5895806 AGTAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
5895833 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
5895860 G
1 G
5895861 ATATTTTTCA
Statistics
Matches: 191, Mismatches: 21, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
26 63 0.33
27 128 0.67
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.33
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:5895678 original size:53 final size:54
Alignment explanation
Indices: 5895621--5895860 Score: 335
Period size: 53 Copynumber: 4.5 Consensus size: 54
5895611 GGGCAAAATG
* * * * *
5895621 GTAATTTTACCCTACA-AGGTATCTCGGTAATTCCACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
*
5895674 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACA-GGGTATTAC-
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
* * *
5895726 GATAATTCTACCCTATAGGGGTATTTCGGTAATTTTACCCTACAGGGGTATTTCG
1 G-TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
* * *
5895781 GTAATTCTACCCTACAGGGG-ATTTCAGTAATTCTACCCTACAGGGGTATTCCG
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
5895834 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
5895861 ATATTTTTCA
Statistics
Matches: 168, Mismatches: 14, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
52 1 0.01
53 112 0.67
54 54 0.32
55 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (54 bp):
GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
Found at i:5895746 original size:80 final size:79
Alignment explanation
Indices: 5895620--5895860 Score: 349
Period size: 80 Copynumber: 3.0 Consensus size: 79
5895610 GGGGCAAAAT
* * * * **
5895620 GGTAATTTTACCCTACAAGGTATCTCGGTAATTCCACCCTACAGGGGTATTTTAGTAATTCTACC
1 GGTAATTCTACCCTACAGGGTAT-TCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACC
5895685 CTACAGGGGTATTTC
65 CTACAGGGGTATTTC
* *
5895700 GGTAATTCTACCCTACAGGGTATTACGATAATTCTACCCTATAGGGGTATTTCGGTAATTTTACC
1 GGTAATTCTACCCTACAGGGTATT-CGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACC
5895765 CTACAGGGGTATTTC
65 CTACAGGGGTATTTC
* *
5895780 GGTAATTCTACCCTACAGGGGATTTC-AGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTAC
1 GGTAATTCTACCCTACAGGGTA-TTCGA-TAATTCTACCCTACAGGGGTATTTCGGTAATTCTAC
5895844 CCTACAGGGGTATTTC
64 CCTACAGGGGTATTTC
5895860 G
1 G
5895861 ATATTTTTCA
Statistics
Matches: 146, Mismatches: 12, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
79 2 0.01
80 142 0.97
81 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.33
Consensus pattern (79 bp):
GGTAATTCTACCCTACAGGGTATTCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCC
TACAGGGGTATTTC
Found at i:5895909 original size:27 final size:27
Alignment explanation
Indices: 5895879--5896029 Score: 151
Period size: 27 Copynumber: 5.6 Consensus size: 27
5895869 CAAATCGTGA
* * **
5895879 GTATTTTGATAATTTCACAAATTAGGG
1 GTATTTTGGTAATTTTACAAACCAGGG
** **
5895906 GTATTTTGGTAATTTTACAAGTCAATG
1 GTATTTTGGTAATTTTACAAACCAGGG
* *
5895933 ATATTTTGGTAATTTTAGAAACCAGGG
1 GTATTTTGGTAATTTTACAAACCAGGG
* *
5895960 GTATTTTAGTAATTTTACAAACTAGGG
1 GTATTTTGGTAATTTTACAAACCAGGG
** *
5895987 GTATTTTGGTAATTTTACTGATC-GAGG
1 GTATTTTGGTAATTTTACAAACCAG-GG
5896014 GTATTTTGGTAATTTT
1 GTATTTTGGTAATTTT
5896030 GTTAACTAAG
Statistics
Matches: 102, Mismatches: 21, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
26 1 0.01
27 101 0.99
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.44
Consensus pattern (27 bp):
GTATTTTGGTAATTTTACAAACCAGGG
Found at i:5896019 original size:81 final size:81
Alignment explanation
Indices: 5895879--5896029 Score: 216
Period size: 81 Copynumber: 1.9 Consensus size: 81
5895869 CAAATCGTGA
* *
5895879 GTATTTTGATAATTTCACAAATTAGGGGTATTTTGGTAATTTTACAAGTCAATGATATTTTGGTA
1 GTATTTTGATAATTTCACAAACTAGGGGTATTTTGGTAATTTTACAAGTCAAGGATATTTTGGTA
5895944 ATTTTAGAAACCAGGG
66 ATTTTAGAAACCAGGG
* * * *
5895960 GTATTTT-AGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTAC-TGATCGAGGGTATTTTGG
1 GTATTTTGA-TAATTTCACAAACTAGGGGTATTTTGGTAATTTTACAAG-TCAAGGATATTTTGG
5896023 TAATTTT
64 TAATTTT
5896030 GTTAACTAAG
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
80 2 0.03
81 60 0.97
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.44
Consensus pattern (81 bp):
GTATTTTGATAATTTCACAAACTAGGGGTATTTTGGTAATTTTACAAGTCAAGGATATTTTGGTA
ATTTTAGAAACCAGGG
Found at i:5896041 original size:27 final size:27
Alignment explanation
Indices: 5895879--5896046 Score: 142
Period size: 27 Copynumber: 6.2 Consensus size: 27
5895869 CAAATCGTGA
* * * *
5895879 GTATTTTGATAATTTCACAAATTAGGG
1 GTATTTTGGTAATTTTACAAACTAAGG
* *
5895906 GTATTTTGGTAATTTTAC-AAGTCAATG
1 GTATTTTGGTAATTTTACAAACT-AAGG
* * * *
5895933 ATATTTTGGTAATTTTAGAAACCAGGG
1 GTATTTTGGTAATTTTACAAACTAAGG
* *
5895960 GTATTTTAGTAATTTTACAAACTAGGG
1 GTATTTTGGTAATTTTACAAACTAAGG
** *
5895987 GTATTTTGGTAATTTTACTGA-TCGAGG
1 GTATTTTGGTAATTTTACAAACT-AAGG
***
5896014 GTATTTTGGTAATTTTGTTAACTAAGG
1 GTATTTTGGTAATTTTACAAACTAAGG
5896041 GTATTT
1 GTATTT
5896047 CAATAATTTT
Statistics
Matches: 113, Mismatches: 24, Indels: 8
0.78 0.17 0.06
Matches are distributed among these distances:
26 4 0.04
27 106 0.94
28 3 0.03
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.43
Consensus pattern (27 bp):
GTATTTTGGTAATTTTACAAACTAAGG
Found at i:5896043 original size:81 final size:81
Alignment explanation
Indices: 5895879--5896056 Score: 209
Period size: 81 Copynumber: 2.2 Consensus size: 81
5895869 CAAATCGTGA
* * *
5895879 GTATTTT-GATAATTTCACAAATTAGGGGTATTTTGGTAATTTTACAAGTCAATGATATTTTGGT
1 GTATTTTAG-TAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAGTCAAGGATATTTTGGT
*
5895943 AATTTTAGAAACCAGGG
65 AATTTTAGAAACCAAGG
* * *
5895960 GTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTAC-TGATCGAGGGTATTTTGGT
1 GTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAG-TCAAGGATATTTTGGT
* *
5896024 AATTTT-GTTAACTAAGG
65 AATTTTAG-AAACCAAGG
* *
5896041 GTATTTCAATAATTTT
1 GTATTTTAGTAATTTT
5896057 GTAAATCGAG
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
80 2 0.02
81 80 0.96
82 1 0.01
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.44
Consensus pattern (81 bp):
GTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAGTCAAGGATATTTTGGTA
ATTTTAGAAACCAAGG
Found at i:5896080 original size:27 final size:27
Alignment explanation
Indices: 5896050--5896191 Score: 203
Period size: 27 Copynumber: 5.3 Consensus size: 27
5896040 GGTATTTCAA
* *
5896050 TAATTTTGTAAATCGAGGATAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAATGG
* *
5896077 TAATTTTGTAAATCGAGGGTAAAACGG
1 TAATTCTGTAAATCGAGGGTAAAATGG
* *
5896104 TAATTCTATAAATCGAGGGTAAAATAG
1 TAATTCTGTAAATCGAGGGTAAAATGG
* *
5896131 TAATTCTGTAAATCGAGGGTAAAACGA
1 TAATTCTGTAAATCGAGGGTAAAATGG
*
5896158 TAATTCTATAAATCGAGGGTAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAATGG
5896185 TAATTCT
1 TAATTCT
5896192 CTCTTATTTT
Statistics
Matches: 102, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 102 1.00
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.31
Consensus pattern (27 bp):
TAATTCTGTAAATCGAGGGTAAAATGG
Found at i:5896190 original size:54 final size:54
Alignment explanation
Indices: 5896049--5896191 Score: 232
Period size: 54 Copynumber: 2.6 Consensus size: 54
5896039 GGGTATTTCA
* * * *
5896049 ATAATTTTGTAAATCGAGGATAAAATGGTAATTTTGTAAATCGAGGGTAAAACG
1 ATAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACG
* *
5896103 GTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACG
1 ATAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACG
5896157 ATAATTCTATAAATCGAGGGTAAAATGGTAATTCT
1 ATAATTCTATAAATCGAGGGTAAAATGGTAATTCT
5896192 CTCTTATTTT
Statistics
Matches: 81, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 81 1.00
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.31
Consensus pattern (54 bp):
ATAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACG
Found at i:5896236 original size:27 final size:26
Alignment explanation
Indices: 5896206--5896290 Score: 98
Period size: 27 Copynumber: 3.2 Consensus size: 26
5896196 TATTTTAGTG
*
5896206 ATTTTACAAATCGAGGATATTTGGGTA
1 ATTTTACAAATCGAGGGTATTT-GGTA
* *
5896233 ATTTTATAAATCGGGGGTACTTTGGTA
1 ATTTTACAAATCGAGGGTA-TTTGGTA
* *
5896260 ATTTTACAAGTCGAGGGTATTTCAGTA
1 ATTTTACAAATCGAGGGTATTT-GGTA
5896287 ATTT
1 ATTT
5896291 GGTAAACTAA
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
26 3 0.06
27 43 0.88
28 3 0.06
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.40
Consensus pattern (26 bp):
ATTTTACAAATCGAGGGTATTTGGTA
Found at i:5909592 original size:38 final size:38
Alignment explanation
Indices: 5909537--5909747 Score: 205
Period size: 38 Copynumber: 5.5 Consensus size: 38
5909527 GGCTTAAAGA
* *
5909537 CCCGCAGGCTATATGCTGGAATTATATCCGGATTAAAT
1 CCCGCAGGCTTTGTGCTGGAATTATATCCGGATTAAAT
*
5909575 CCCGCAGGCTTTGTGCTGGTAA-TATATCCGGGTTAAAT
1 CCCGCAGGCTTTGTGCTGG-AATTATATCCGGATTAAAT
*
5909613 CCCACAGGCTTTGTGCTGGTAA-TATATCCAGG-TTAAAT
1 CCCGCAGGCTTTGTGCTGG-AATTATATCC-GGATTAAAT
* * *
5909651 CCCGCAGGCATCGTGCTGGTATTATATCC-GAGTTAAAT
1 CCCGCAGGCTTTGTGCTGGAATTATATCCGGA-TTAAAT
* * * * * *
5909689 CCCGCAAGCCTAGTGCTGGTATTATATCTGAGTTTAAAGT
1 CCCGCAGGCTTTGTGCTGGAATTATATCCG-GATTAAA-T
* *
5909729 CCCGTAGGCTTCGTGCTGG
1 CCCGCAGGCTTTGTGCTGG
5909748 TGTTATGTTT
Statistics
Matches: 148, Mismatches: 17, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
36 1 0.01
37 1 0.01
38 120 0.81
39 9 0.06
40 17 0.11
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.30
Consensus pattern (38 bp):
CCCGCAGGCTTTGTGCTGGAATTATATCCGGATTAAAT
Found at i:5909639 original size:76 final size:75
Alignment explanation
Indices: 5909521--5909748 Score: 251
Period size: 76 Copynumber: 2.9 Consensus size: 75
5909511 GCTGAGATTG
* * *
5909521 TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGG-AATTATATCCGGATTAAATCCCGCAGGCT
1 TATCCGGG-TTAAA-TCCCGCAGGCTTTGTGCTGGTAA-TATATCCGG-TTAAATCCCGCAGGCT
*
5909585 TTGTGCTGGTAATA
62 TCGTGCTGGTAATA
* *
5909599 TATCCGGGTTAAATCCCACAGGCTTTGTGCTGGTAATATATCCAGGTTAAATCCCGCAGGCATCG
1 TATCCGGGTTAAATCCCGCAGGCTTTGTGCTGGTAATATATCC-GGTTAAATCCCGCAGGCTTCG
*
5909664 TGCTGGTATTA
65 TGCTGGTAATA
* * * * * * *
5909675 TATCCGAGTTAAATCCCGCAAGCCTAGTGCTGGTATTATATCTGAGTTTAAAGTCCCGTAGGCTT
1 TATCCGGGTTAAATCCCGCAGGCTTTGTGCTGGTAATATATCCG-G-TTAAA-TCCCGCAGGCTT
5909740 CGTGCTGGT
63 CGTGCTGGT
5909749 GTTATGTTTG
Statistics
Matches: 129, Mismatches: 16, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
75 1 0.01
76 87 0.67
77 14 0.11
78 27 0.21
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (75 bp):
TATCCGGGTTAAATCCCGCAGGCTTTGTGCTGGTAATATATCCGGTTAAATCCCGCAGGCTTCGT
GCTGGTAATA
Found at i:5914756 original size:23 final size:24
Alignment explanation
Indices: 5914733--5914808 Score: 77
Period size: 24 Copynumber: 3.2 Consensus size: 24
5914723 ATAATTCGAA
*
5914733 TTTAATTATTATTAATTGTTGAAT
1 TTTAATTATTATTAATTGTTGAAG
* *
5914757 TTTAATTAATA-TACA-TGGT-AAG
1 TTTAATTATTATTA-ATTGTTGAAG
*
5914779 TATTAATTATTATTAATTGTTGAAT
1 T-TTAATTATTATTAATTGTTGAAG
5914804 TTTAA
1 TTTAA
5914809 GTTAATATAC
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
22 3 0.07
23 15 0.37
24 20 0.49
25 3 0.07
ACGTcount: A:0.37, C:0.01, G:0.09, T:0.53
Consensus pattern (24 bp):
TTTAATTATTATTAATTGTTGAAG
Found at i:5914803 original size:47 final size:48
Alignment explanation
Indices: 5914734--5914831 Score: 189
Period size: 47 Copynumber: 2.1 Consensus size: 48
5914724 TAATTCGAAT
5914734 TTAATTATTATTAATTGTTGAATTTTAA-TTAATATACATGGTAAGTA
1 TTAATTATTATTAATTGTTGAATTTTAAGTTAATATACATGGTAAGTA
5914781 TTAATTATTATTAATTGTTGAATTTTAAGTTAATATACATGGTAAGTA
1 TTAATTATTATTAATTGTTGAATTTTAAGTTAATATACATGGTAAGTA
5914829 TTA
1 TTA
5914832 GTATTAAATT
Statistics
Matches: 50, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
47 28 0.56
48 22 0.44
ACGTcount: A:0.38, C:0.02, G:0.11, T:0.49
Consensus pattern (48 bp):
TTAATTATTATTAATTGTTGAATTTTAAGTTAATATACATGGTAAGTA
Found at i:5917719 original size:30 final size:30
Alignment explanation
Indices: 5917683--5917743 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
5917673 TTATGCTTTG
5917683 ATTGATCCTAGATCTTCATATTCTTATATT
1 ATTGATCCTAGATCTTCATATTCTTATATT
*
5917713 ATTGATCCTGGATCTTCATATTCTTATATT
1 ATTGATCCTAGATCTTCATATTCTTATATT
5917743 A
1 A
5917744 ATTCAAAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.26, C:0.16, G:0.08, T:0.49
Consensus pattern (30 bp):
ATTGATCCTAGATCTTCATATTCTTATATT
Found at i:5924237 original size:21 final size:21
Alignment explanation
Indices: 5924206--5924292 Score: 77
Period size: 21 Copynumber: 4.2 Consensus size: 21
5924196 AGTTAACTCA
*
5924206 TATGAGTTTCCGTTCAACCCT
1 TATGGGTTTCCGTTCAACCCT
* * *
5924227 AATGGGTTTCCGTTC-AGCTT
1 TATGGGTTTCCGTTCAACCCT
* * *
5924247 TATGAGCTTCCATTCAACCCT
1 TATGGGTTTCCGTTCAACCCT
* * *
5924268 TATGGGTTTCTGTTCAGCACT
1 TATGGGTTTCCGTTCAACCCT
5924289 TATG
1 TATG
5924293 TGCTTCTGTT
Statistics
Matches: 49, Mismatches: 16, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
20 14 0.29
21 35 0.71
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.39
Consensus pattern (21 bp):
TATGGGTTTCCGTTCAACCCT
Found at i:5924263 original size:41 final size:41
Alignment explanation
Indices: 5924206--5924285 Score: 124
Period size: 41 Copynumber: 2.0 Consensus size: 41
5924196 AGTTAACTCA
* *
5924206 TATGAGTTTCCGTTCAACCCTAATGGGTTTCCGTTCAGCTT
1 TATGAGCTTCCATTCAACCCTAATGGGTTTCCGTTCAGCTT
* *
5924247 TATGAGCTTCCATTCAACCCTTATGGGTTTCTGTTCAGC
1 TATGAGCTTCCATTCAACCCTAATGGGTTTCCGTTCAGC
5924286 ACTTATGTGC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.17, C:0.25, G:0.19, T:0.39
Consensus pattern (41 bp):
TATGAGCTTCCATTCAACCCTAATGGGTTTCCGTTCAGCTT
Found at i:5932257 original size:27 final size:27
Alignment explanation
Indices: 5932227--5932404 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
5932217 ATATTGAGTC
* *
5932227 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
5932254 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
5932281 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** * *
5932309 CGCACACTTAGTGCCGCATGGTCGATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
5932336 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
5932363 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
5932390 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
5932405 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:5932366 original size:82 final size:81
Alignment explanation
Indices: 5932253--5932403 Score: 232
Period size: 82 Copynumber: 1.9 Consensus size: 81
5932243 TATAATCAAC
* *
5932253 TCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCACACTT
5932318 AGTGCCGCATGGTCGAT
65 AGTGCCGCATGGTCGAT
* **
5932335 TCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
1 TCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
5932399 AGTGC
65 AGTGC
5932404 TGTACAATTT
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.25
82 47 0.75
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTTA
GTGCCGCATGGTCGAT
Found at i:5936326 original size:276 final size:276
Alignment explanation
Indices: 5935828--5936378 Score: 922
Period size: 276 Copynumber: 2.0 Consensus size: 276
5935818 TTGTGATCCG
* *
5935828 AAAACACATGGCACTTCTCACCAAACAAATAATGTCGCCATATTTTCAATGCAAACACAATGGCG
1 AAAACACATGGCACTTCTCACCAAACAAATAATGTCGCCATATTTTCAAAGCAAACACAATGGCA
* *
5935893 GCTAGTTCGAGATCATGGGTCGGATAATTTCTCTCGTGTGGCTTCAATTGTCTCGACGCATAGGC
66 GCTAGTTCAAGATCATGGGTCGGATAATTTCTCTCATGTGGCTTCAATTGTCTCGACGCATAGGC
5935958 CACAACTCGACCTTCTTGCATCAATACGCAACCCAACCCAAGTAGGGATGCGTCACTATAAATGA
131 CACAACTCGACCTTCTTGCATCAATACGCAACCCAACCCAAGTAGGGATGCGTCACTATAAATGA
* *
5936023 CAAACTCTTTACCCGATTCGGGTTGCACCAAAATTGGAGCTTCAGTCAAATGAGTTTTCAGTTGA
196 CAAACTCTTTACCAGATTCGGGTTGCACCAAAATTGGAGCTTCAGTCAAATAAGTTTTCAGTTGA
* *
5936088 TCGAAGCTTTTCTGAA
261 TCAAAACTTTTCTGAA
* * * * * *
5936104 AAAATACATGGCACTTCTCACCAAATAAGTAATGTCGCCATATTTTTAAAGCAAATACGATGGCA
1 AAAACACATGGCACTTCTCACCAAACAAATAATGTCGCCATATTTTCAAAGCAAACACAATGGCA
* *
5936169 GCTAGTTCAAGATCATGGGTCGGATAATTTTTCTCATGTGGCTTTAATTGTCTCGACGCATAGGC
66 GCTAGTTCAAGATCATGGGTCGGATAATTTCTCTCATGTGGCTTCAATTGTCTCGACGCATAGGC
*
5936234 CACCACTCGACCTTCTTGCATCAATACGCAACCCAACCCAAGTAGGGATGCGTCACTATAAATGA
131 CACAACTCGACCTTCTTGCATCAATACGCAACCCAACCCAAGTAGGGATGCGTCACTATAAATGA
* * *
5936299 CAAACTCTTTGCCAGATTCGGGTTGCACTAAAATTGGAGCTTCAGTCAAATAAGTTTTTAGTTGA
196 CAAACTCTTTACCAGATTCGGGTTGCACCAAAATTGGAGCTTCAGTCAAATAAGTTTTCAGTTGA
5936364 TCAAAACTTTTCTGA
261 TCAAAACTTTTCTGA
5936379 CATTTCTCCG
Statistics
Matches: 255, Mismatches: 20, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
276 255 1.00
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.28
Consensus pattern (276 bp):
AAAACACATGGCACTTCTCACCAAACAAATAATGTCGCCATATTTTCAAAGCAAACACAATGGCA
GCTAGTTCAAGATCATGGGTCGGATAATTTCTCTCATGTGGCTTCAATTGTCTCGACGCATAGGC
CACAACTCGACCTTCTTGCATCAATACGCAACCCAACCCAAGTAGGGATGCGTCACTATAAATGA
CAAACTCTTTACCAGATTCGGGTTGCACCAAAATTGGAGCTTCAGTCAAATAAGTTTTCAGTTGA
TCAAAACTTTTCTGAA
Found at i:5946910 original size:40 final size:40
Alignment explanation
Indices: 5946671--5946903 Score: 276
Period size: 40 Copynumber: 5.8 Consensus size: 40
5946661 TTGAATGATG
* * * * *
5946671 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTAC-GAGTTACTAAA
*
5946711 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTACGAGTTACTAAA
* *
5946751 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTACGAGTTACTAAA
*
5946791 TCCGGGTTAAGTCCCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAA
* * *
5946831 TCCAGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTA-AA
* *
5946872 -CCGGGCTATGTCCCGAAGGCATTTGAACGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGT
5946904 AGCTATATCT
Statistics
Matches: 172, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
39 1 0.01
40 162 0.94
41 9 0.05
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAA
Found at i:5953657 original size:21 final size:21
Alignment explanation
Indices: 5953628--5953704 Score: 73
Period size: 21 Copynumber: 3.7 Consensus size: 21
5953618 ATTTAACTCA
*
5953628 TATGAGTTTCTGTTCAACCCT
1 TATGGGTTTCTGTTCAACCCT
* * * *
5953649 AATGGGTTTCCGTTCAGCGCT
1 TATGGGTTTCTGTTCAACCCT
* * * *
5953670 TATGAGCTTCAGCTCAACCCT
1 TATGGGTTTCTGTTCAACCCT
5953691 TATGGGTTTCTGTT
1 TATGGGTTTCTGTT
5953705 TAGCACTTAT
Statistics
Matches: 40, Mismatches: 16, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.17, C:0.23, G:0.21, T:0.39
Consensus pattern (21 bp):
TATGGGTTTCTGTTCAACCCT
Found at i:5953687 original size:42 final size:42
Alignment explanation
Indices: 5953641--5953721 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
5953631 GAGTTTCTGT
*
5953641 TCAACCCTAATGGGTTTCCGTTCAGCGCTTATGAGCTTCAGC
1 TCAACCCTAATGGGTTTCCGTTCAGCACTTATGAGCTTCAGC
* * * *
5953683 TCAACCCTTATGGGTTTCTGTTTAGCACTTATGTGCTTC
1 TCAACCCTAATGGGTTTCCGTTCAGCACTTATGAGCTTC
5953722 TGTTTAGCCT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.17, C:0.26, G:0.20, T:0.37
Consensus pattern (42 bp):
TCAACCCTAATGGGTTTCCGTTCAGCACTTATGAGCTTCAGC
Found at i:5953742 original size:19 final size:21
Alignment explanation
Indices: 5953689--5953729 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
5953679 CAGCTCAACC
* *
5953689 CTTATGGGTTTCTGTTTAGCA
1 CTTATGTGCTTCTGTTTAGCA
5953710 CTTATGTGCTTCTGTTTAGC
1 CTTATGTGCTTCTGTTTAGC
5953730 CTTCAGGCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.12, C:0.17, G:0.22, T:0.49
Consensus pattern (21 bp):
CTTATGTGCTTCTGTTTAGCA
Found at i:5959452 original size:8 final size:8
Alignment explanation
Indices: 5959439--5959467 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
5959429 TTATGTTTAG
5959439 TATATTAT
1 TATATTAT
5959447 TATATTAT
1 TATATTAT
5959455 TATATTAT
1 TATATTAT
5959463 TATAT
1 TATAT
5959468 AATAAAGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATATTAT
Found at i:5959500 original size:5 final size:5
Alignment explanation
Indices: 5959490--5959520 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
5959480 TTATGTTTTA
5959490 ATTAT ATTAT ATTAT ATTAT ATTAT A-TAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
5959521 AAACTAAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATTAT
Found at i:5960805 original size:15 final size:15
Alignment explanation
Indices: 5960785--5960841 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
5960775 CGATGAATTT
5960785 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
5960800 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
5960815 ATTGAATTTATATTG
1 ATTGAATTTATATTG
5960830 ATTGAA-TTATAT
1 ATTGAATTTATAT
5960842 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:5961243 original size:23 final size:23
Alignment explanation
Indices: 5961213--5961295 Score: 66
Period size: 21 Copynumber: 3.8 Consensus size: 23
5961203 GCTTTATCGA
* *
5961213 TCAGGCACTTTATGTGTCATATT
1 TCAGGCACCTCATGTGTCATATT
* *
5961236 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCATATT
* *
5961257 TCAGCCACCTCGTGTGTCAT-TT
1 TCAGGCACCTCATGTGTCATATT
* *
5961279 T-AGGCACTTTATGTGTC
1 TCAGGCACCTCATGTGTC
5961296 GTACTCTGAT
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
21 30 0.62
22 1 0.02
23 17 0.35
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCATATT
Found at i:5965428 original size:44 final size:44
Alignment explanation
Indices: 5965271--5965486 Score: 159
Period size: 46 Copynumber: 4.7 Consensus size: 44
5965261 TATGTGAGCC
* * *
5965271 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGAAATGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGA-GATG---TGCT
* * *
5965318 AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATGT--GCT
* * *
5965364 AGTGTAAGACATGTTTGGGACATGCATTAG-CTACGTGATGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCT-CGAGATGTGCT
* * * * * * *
5965408 AGTGTAGGATATGTCTGGGACATGCATCGGCAC-GGATATAAGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGC-CTCGAGAT----GTGCT
5965456 AGTGTAAGACATGTCTGGGACATGCATCAGC
1 AGTGTAAGACATGTCTGGGACATGCATCAGC
5965487 ACGGATATAT
Statistics
Matches: 136, Mismatches: 23, Indels: 19
0.76 0.13 0.11
Matches are distributed among these distances:
44 31 0.23
45 2 0.01
46 36 0.26
47 35 0.26
48 32 0.24
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.25
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATGTGCT
Found at i:5965437 original size:90 final size:91
Alignment explanation
Indices: 5965262--5965486 Score: 276
Period size: 93 Copynumber: 2.4 Consensus size: 91
5965252 CACTGCTGTT
* * *
5965262 ATGTGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAAATGCTAGTGTAAGA
1 ATGTAAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATG--ATGCTAGTGTAAGA
*
5965327 CATGTCTGGGACATGCATCGGC-CTTGAG
64 CATGTCTGGGACATGCATCGGCAC-GGAG
* * * * * *
5965355 ATGTAAGCCAGTGTAAGACATGTTTGGGACATGCATTAGCTACGTGATG-TGCTAGTGTAGGATA
1 ATGTAAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGATGCTAGTGTAAGACA
*
5965419 TGTCTGGGACATGCATCGGCACGGAT
66 TGTCTGGGACATGCATCGGCACGGAG
5965445 ATAAG-AGAGCCAGTGTAAGACATGTCTGGGACATGCATCAGC
1 AT--GTA-AGCCAGTGTAAGACATGTCTGGGACATGCATCAGC
5965487 ACGGATATAT
Statistics
Matches: 115, Mismatches: 13, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
90 37 0.32
91 2 0.02
92 34 0.30
93 42 0.37
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.25
Consensus pattern (91 bp):
ATGTAAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGATGCTAGTGTAAGACA
TGTCTGGGACATGCATCGGCACGGAG
Found at i:5965471 original size:48 final size:46
Alignment explanation
Indices: 5965266--5965515 Score: 212
Period size: 48 Copynumber: 5.4 Consensus size: 46
5965256 GCTGTTATGT
5965266 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-AT-TATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CACGATATA-GA
* * *
5965312 AATGCTAGTGTAAGACATGTCTGGGACATGCATCGGC-CTTGAGAT-GTA
1 GA-GCCAGTGTAAGACATGTCTGGGACATGCATCGGCAC--GATATAG-A
* **
5965360 -AGCCAGTGTAAGACATGTTTGGGACATGCATTAGCTACG---T-GA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGC-ACGATATAGA
* * * *
5965402 TGTGCTAGTGTAGGATATGTCTGGGACATGCATCGGCACGGATATAAGA
1 -GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCAC-GATAT-AGA
* *
5965451 GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCACGGATATATGG
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCAC-GATATA-GA
*
5965499 GAGCCGGTGTAAGACAT
1 GAGCCAGTGTAAGACAT
5965516 AACTGGGATA
Statistics
Matches: 166, Mismatches: 21, Indels: 32
0.76 0.10 0.15
Matches are distributed among these distances:
42 1 0.01
43 4 0.02
44 29 0.17
45 1 0.01
46 33 0.20
47 36 0.22
48 59 0.36
49 3 0.02
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCACGATATAGA
Found at i:5965522 original size:48 final size:48
Alignment explanation
Indices: 5965422--5965532 Score: 150
Period size: 48 Copynumber: 2.3 Consensus size: 48
5965412 TAGGATATGT
* **
5965422 CTGGGACATGCATCGGCACGGATATAAGAGAGCCAGTGTAAGACATGT
1 CTGGGACATGCATCAGCACGGATATAAGAGAGCCAGTGTAAGACATAA
* * *
5965470 CTGGGACATGCATCAGCACGGATATATGGGAGCCGGTGTAAGACATAA
1 CTGGGACATGCATCAGCACGGATATAAGAGAGCCAGTGTAAGACATAA
*
5965518 CTGGGATATGGCATC
1 CTGGGACAT-GCATC
5965533 TGTATCGATA
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
48 50 0.91
49 5 0.09
ACGTcount: A:0.30, C:0.19, G:0.32, T:0.20
Consensus pattern (48 bp):
CTGGGACATGCATCAGCACGGATATAAGAGAGCCAGTGTAAGACATAA
Found at i:5971525 original size:46 final size:45
Alignment explanation
Indices: 5971460--5971652 Score: 185
Period size: 46 Copynumber: 4.2 Consensus size: 45
5971450 ATGAAATGCT
* * * *
5971460 GGACATGCATCGGCATTGAGACGAAAGCTAGTGTAAGATATCTCTG
1 GGACATGCATCGGCCTTGAGATG-AAGCTAGTGTAAGACATGTCTG
* * *
5971506 GAACATGCATCGGCCTTGAGATGTAAGCCAGTGTAAGACATGTTTG
1 GGACATGCATCGGCCTTGAGATG-AAGCTAGTGTAAGACATGTCTG
* * *
5971552 GGACTTGCATCGG-CTACGAGATG-TGCTAGTGTAAGACATGTCTG
1 GGACATGCATCGGCCT-TGAGATGAAGCTAGTGTAAGACATGTCTG
* * *
5971596 GGACATGCATCGGCAC-GGATATAAGAGAGCCAGTGTAAGACATGTCTG
1 GGACATGCATCGGC-CTTGAGAT--GA-AGCTAGTGTAAGACATGTCTG
5971644 GGACATGCA
1 GGACATGCA
5971653 CCGGTACAGA
Statistics
Matches: 121, Mismatches: 19, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
44 34 0.28
45 2 0.02
46 57 0.47
48 28 0.23
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.23
Consensus pattern (45 bp):
GGACATGCATCGGCCTTGAGATGAAGCTAGTGTAAGACATGTCTG
Found at i:5971596 original size:90 final size:91
Alignment explanation
Indices: 5971486--5971652 Score: 223
Period size: 90 Copynumber: 1.8 Consensus size: 91
5971476 TGAGACGAAA
* *
5971486 GCTAGTGTAAGATATCTCTGGAACATGCATCGGC-CTTGAGAT-GTA-AGCCAGTGTAAGACATG
1 GCTAGTGTAAGACATCTCTGGAACATGCATCGGCAC-GGAGATAG-AGAGCCAGTGTAAGACATG
* *
5971548 TTTGGGACTTGCATCGGCTACGAGATGT
64 TCTGGGACATGCATCGGCTACGAGATGT
* * *
5971576 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCACGGATATAAGAGAGCCAGTGTAAGACATGT
1 GCTAGTGTAAGACATCTCTGGAACATGCATCGGCACGGAGAT-AGAGAGCCAGTGTAAGACATGT
5971641 CTGGGACATGCA
65 CTGGGACATGCA
5971653 CCGGTACAGA
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
90 35 0.53
91 2 0.03
92 29 0.44
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.25
Consensus pattern (91 bp):
GCTAGTGTAAGACATCTCTGGAACATGCATCGGCACGGAGATAGAGAGCCAGTGTAAGACATGTC
TGGGACATGCATCGGCTACGAGATGT
Found at i:5971716 original size:48 final size:46
Alignment explanation
Indices: 5971460--5971716 Score: 193
Period size: 48 Copynumber: 5.5 Consensus size: 46
5971450 ATGAAATGCT
** * * * * *
5971460 GGACATGCATCGGCATTGAGACGAAAGCTAGTGTAAGATATCTCTG
1 GGACATGCATCGGCACAGATATGAGAGCTAGTGTAAGACATGTCTG
* * * * *
5971506 GAACATGCATCGGC-CTTGAGATGTA-AGCCAGTGTAAGACATGTTTG
1 GGACATGCATCGGCAC-AGATATG-AGAGCTAGTGTAAGACATGTCTG
* * *
5971552 GGACTTGCATCGGCTAC-GAGAT--GTGCTAGTGTAAGACATGTCTG
1 GGACATGCATCGGC-ACAGATATGAGAGCTAGTGTAAGACATGTCTG
* *
5971596 GGACATGCATCGGCACGGATATAAGAGAGCCAGTGTAAGACATGTCTG
1 GGACATGCATCGGCACAGATAT--GAGAGCTAGTGTAAGACATGTCTG
* * *
5971644 GGACATGCACCGGTACAGATATATGAGAGCTAGTGTAAGACCATATCTG
1 GGACATGCATCGGCACAG--ATATGAGAGCTAGTGTAAGA-CATGTCTG
*
5971693 GGATATGGCATCGGCATC-GATATG
1 GGACAT-GCATCGGCA-CAGATATG
5971717 TGTAAGATTT
Statistics
Matches: 172, Mismatches: 24, Indels: 28
0.77 0.11 0.12
Matches are distributed among these distances:
43 2 0.01
44 35 0.20
46 53 0.31
47 1 0.01
48 56 0.33
49 12 0.07
50 12 0.07
51 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.24
Consensus pattern (46 bp):
GGACATGCATCGGCACAGATATGAGAGCTAGTGTAAGACATGTCTG
Found at i:5972208 original size:147 final size:147
Alignment explanation
Indices: 5971941--5972234 Score: 552
Period size: 147 Copynumber: 2.0 Consensus size: 147
5971931 GTGATTATGG
5971941 TTTTATGTTTATAATGTACATTTATGTATTCTTACCATGATGGTTGAGATGTGATTGATGATTAT
1 TTTTATGTTTATAATGTACATTTATGTATTCTTACCATGATGGTTGAGATGTGATTGATGATTAT
5972006 GTGTGAGACTTCGAGGCCACATTAAACTGAGACATGAAATGTATATTCCTTTACTTGGTGGCCTA
66 GTGTGAGACTTCGAGGCCACATTAAACTGAGACATGAAATGTATATTCCTTTACTTGGTGGCCTA
5972071 ATGAACATGAAAGGAGA
131 ATGAACATGAAAGGAGA
5972088 TTTTATGTTTATAATGTACATTTATGTATTCTTACCATGATGGTTGAGATGTGATTGATGATTAT
1 TTTTATGTTTATAATGTACATTTATGTATTCTTACCATGATGGTTGAGATGTGATTGATGATTAT
* ** *
5972153 GTGTGAGACTTTGAGGCTGCATTAAATTGAGACATGAAATGTATATTCCTTTACTTGGTGGCCTA
66 GTGTGAGACTTCGAGGCCACATTAAACTGAGACATGAAATGTATATTCCTTTACTTGGTGGCCTA
5972218 ATGAACATGAAAGGAGA
131 ATGAACATGAAAGGAGA
5972235 AATGGATTGG
Statistics
Matches: 143, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
147 143 1.00
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.38
Consensus pattern (147 bp):
TTTTATGTTTATAATGTACATTTATGTATTCTTACCATGATGGTTGAGATGTGATTGATGATTAT
GTGTGAGACTTCGAGGCCACATTAAACTGAGACATGAAATGTATATTCCTTTACTTGGTGGCCTA
ATGAACATGAAAGGAGA
Found at i:5972567 original size:63 final size:63
Alignment explanation
Indices: 5972464--5972585 Score: 183
Period size: 63 Copynumber: 1.9 Consensus size: 63
5972454 TGAGACATAG
* *
5972464 TCAGAACGATTTCGAAATCCCCTATTCTAATTTGGTAAAATCATAAAAAAATT-TACACATATA
1 TCAGAACGATTTCGAAATCCCCTATTCTAATTGGGGAAAATCAT-AAAAAATTGTACACATATA
* * *
5972527 TCAGAACGATTTTGAAATCCCCTGTTCTAATTGGGGAAAATCATCAAAAATTGTACACA
1 TCAGAACGATTTCGAAATCCCCTATTCTAATTGGGGAAAATCATAAAAAATTGTACACA
5972586 AATAATTATG
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
62 7 0.13
63 46 0.87
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.30
Consensus pattern (63 bp):
TCAGAACGATTTCGAAATCCCCTATTCTAATTGGGGAAAATCATAAAAAATTGTACACATATA
Found at i:5974734 original size:50 final size:50
Alignment explanation
Indices: 5974675--5974774 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
5974665 TTTAGATTTT
5974675 TATTTGTATCTTGTTAACACAAGAATGCACCTGAAAATTCTAAGATAATA
1 TATTTGTATCTTGTTAACACAAGAATGCACCTGAAAATTCTAAGATAATA
5974725 TATTTGTATCTTGTTAACACAAGAATGCACCTGAAAATTCTAAGATAATA
1 TATTTGTATCTTGTTAACACAAGAATGCACCTGAAAATTCTAAGATAATA
5974775 CAAACTATAC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (50 bp):
TATTTGTATCTTGTTAACACAAGAATGCACCTGAAAATTCTAAGATAATA
Found at i:5975702 original size:26 final size:26
Alignment explanation
Indices: 5975673--5975832 Score: 266
Period size: 26 Copynumber: 6.2 Consensus size: 26
5975663 TGGTACAAAT
5975673 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
5975699 TGATAATGGATTAGGTAAATATTCCG
1 TGATAATGGGTTAGGTAAATGTTCCA
5975725 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
5975751 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
5975777 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
5975803 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
5975829 TGAT
1 TGAT
5975833 GGGAATTTCA
Statistics
Matches: 123, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 123 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:5975735 original size:52 final size:52
Alignment explanation
Indices: 5975673--5975832 Score: 293
Period size: 52 Copynumber: 3.1 Consensus size: 52
5975663 TGGTACAAAT
*
5975673 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCG
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
5975725 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
* *
5975777 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
5975829 TGAT
1 TGAT
5975833 GGGAATTTCA
Statistics
Matches: 105, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 105 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
Found at i:5977865 original size:137 final size:137
Alignment explanation
Indices: 5977619--5977905 Score: 520
Period size: 137 Copynumber: 2.1 Consensus size: 137
5977609 GAGTAGTCTC
* *
5977619 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGATATAGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATAGGCCTATGAGCCATAC
5977684 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
*
5977749 GCTGTTA
131 ACTGTTA
*
5977756 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGAGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATAGGCCTATGAGCCATAC
5977821 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
5977886 ACTGTTA
131 ACTGTTA
**
5977893 CCTGAATGGGCTT
1 CCCAAATGGGCTT
5977906 AGGCCCAATG
Statistics
Matches: 144, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
137 144 1.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATAGGCCTATGAGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:5980996 original size:44 final size:43
Alignment explanation
Indices: 5980928--5981020 Score: 159
Period size: 44 Copynumber: 2.1 Consensus size: 43
5980918 TAAACTTTGG
*
5980928 TTATACCTTTTCTTATTACTATTATTAATAATTGACTATCATCT
1 TTATCCCTTTTCTTATTACTATTATTAATAATTGAC-ATCATCT
*
5980972 TTATCCCTTTTCTTCTTACTATTATTAATAATTGACATCATCT
1 TTATCCCTTTTCTTATTACTATTATTAATAATTGACATCATCT
5981015 TTATCC
1 TTATCC
5981021 GGTAGTCTAT
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
43 13 0.28
44 34 0.72
ACGTcount: A:0.27, C:0.19, G:0.02, T:0.52
Consensus pattern (43 bp):
TTATCCCTTTTCTTATTACTATTATTAATAATTGACATCATCT
Found at i:5996142 original size:54 final size:54
Alignment explanation
Indices: 5996053--5996421 Score: 402
Period size: 54 Copynumber: 6.8 Consensus size: 54
5996043 TTTACCTTCA
* * *
5996053 AGATTTTATGAATCTCGC-GATCTGCTAATTTACGATCATGACCTTCTACTTTCG
1 AGATTTTACGAATCTCACAG-TCTGCTGATTTACGATCATGACCTTCTACTTTCG
* * * * * *
5996107 AGATTTTACGAATCTCGCGGT-TCGCTGATTCACGATCACGACCTTCTGCTTTTG
1 AGATTTTACGAATCTCACAGTCT-GCTGATTTACGATCATGACCTTCTACTTTCG
* * **
5996161 AGATTTTACGAATTTCACAGTCTGTTGATTTACGATCACCACCTTCTACTTTCG
1 AGATTTTACGAATCTCACAGTCTGCTGATTTACGATCATGACCTTCTACTTTCG
* ** * * * *
5996215 AGATTTTACGAATCTTATGGTTTGCCGATTTATGATCATGACCTTCCACTTTCG
1 AGATTTTACGAATCTCACAGTCTGCTGATTTACGATCATGACCTTCTACTTTCG
* * *
5996269 AGATTTTACGAATTTCACAGTCTGCTGATTTCCAATCATGACCTTCTACTTTCG
1 AGATTTTACGAATCTCACAGTCTGCTGATTTACGATCATGACCTTCTACTTTCG
* * * *
5996323 AGATTTTACGAATTTCACAGTCTGCTAATTTACAATCATGACCTTCTACTTTCA
1 AGATTTTACGAATCTCACAGTCTGCTGATTTACGATCATGACCTTCTACTTTCG
* ** * *
5996377 AGATTTTAC-AATTCTCACGGTCCACTGATTGACGATCACGACCTT
1 AGATTTTACGAA-TCTCACAGTCTGCTGATTTACGATCATGACCTT
5996422 TGTAACACTC
Statistics
Matches: 265, Mismatches: 46, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
53 3 0.01
54 260 0.98
55 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.38
Consensus pattern (54 bp):
AGATTTTACGAATCTCACAGTCTGCTGATTTACGATCATGACCTTCTACTTTCG
Found at i:5996328 original size:162 final size:162
Alignment explanation
Indices: 5996080--5996385 Score: 445
Period size: 162 Copynumber: 1.9 Consensus size: 162
5996070 CGATCTGCTA
* * * *
5996080 ATTTACGATCATGACCTTCTACTTTCGAGATTTTACGAATCTCGCGGTTCGCTGATTCACGATCA
1 ATTTACGATCATGACCTTCCACTTTCGAGATTTTACGAATCTCACAGTTCGCTGATTCACAATCA
* * * * *
5996145 CGACCTTCTGCTTTTGAGATTTTACGAATTTCACAGTCTGTTGATTTACGATCACCACCTTCTAC
66 CGACCTTCTACTTTCGAGATTTTACGAATTTCACAGTCTGCTAATTTACAATCACCACCTTCTAC
*
5996210 TTTCGAGATTTTACGAATCTTATGGTTTGCCG
131 TTTCAAGATTTTACGAATCTTATGGTTTGCCG
* *
5996242 ATTTATGATCATGACCTTCCACTTTCGAGATTTTACGAATTTCACAG-TCTGCTGATTTC-CAAT
1 ATTTACGATCATGACCTTCCACTTTCGAGATTTTACGAATCTCACAGTTC-GCTGA-TTCACAAT
* **
5996305 CATGACCTTCTACTTTCGAGATTTTACGAATTTCACAGTCTGCTAATTTACAATCATGACCTTCT
64 CACGACCTTCTACTTTCGAGATTTTACGAATTTCACAGTCTGCTAATTTACAATCACCACCTTCT
5996370 ACTTTCAAGATTTTAC
129 ACTTTCAAGATTTTAC
5996386 AATTCTCACG
Statistics
Matches: 127, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
161 2 0.02
162 122 0.96
163 3 0.02
ACGTcount: A:0.24, C:0.23, G:0.14, T:0.39
Consensus pattern (162 bp):
ATTTACGATCATGACCTTCCACTTTCGAGATTTTACGAATCTCACAGTTCGCTGATTCACAATCA
CGACCTTCTACTTTCGAGATTTTACGAATTTCACAGTCTGCTAATTTACAATCACCACCTTCTAC
TTTCAAGATTTTACGAATCTTATGGTTTGCCG
Found at i:6011937 original size:34 final size:34
Alignment explanation
Indices: 6011899--6011963 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
6011889 GTACTAAATT
6011899 GGGCTAAGGCCCAAACTGATACTGCTACTGTAGC
1 GGGCTAAGGCCCAAACTGATACTGCTACTGTAGC
* *
6011933 GGGCTAAGGCCCACACTGATATTGCTACTGT
1 GGGCTAAGGCCCAAACTGATACTGCTACTGT
6011964 TAAGGGCATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.25, C:0.26, G:0.26, T:0.23
Consensus pattern (34 bp):
GGGCTAAGGCCCAAACTGATACTGCTACTGTAGC
Found at i:6011977 original size:34 final size:34
Alignment explanation
Indices: 6011899--6011984 Score: 104
Period size: 34 Copynumber: 2.5 Consensus size: 34
6011889 GTACTAAATT
*
6011899 GGGCTAAGGCCCAAACTGATACTGCTACTGTAGC
1 GGGCTAAGGCCCAAACTGATACTGCTACTGTAGA
* *
6011933 GGGCTAAGGCCCACACTGATATTGCTACTGTTA-A
1 GGGCTAAGGCCCAAACTGATACTGCTACTG-TAGA
*
6011967 GGGC-ATAGGCCCAGACTG
1 GGGCTA-AGGCCCAAACTG
6011985 TTTACACTGC
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
33 1 0.02
34 43 0.93
35 2 0.04
ACGTcount: A:0.26, C:0.26, G:0.28, T:0.21
Consensus pattern (34 bp):
GGGCTAAGGCCCAAACTGATACTGCTACTGTAGA
Found at i:6016886 original size:27 final size:26
Alignment explanation
Indices: 6016838--6017162 Score: 287
Period size: 27 Copynumber: 12.2 Consensus size: 26
6016828 GGTCGTTAAG
*
6016838 ACCCCAGTTT-TTAAATTACCGAAAT
1 ACCCCAGTTTGTAAAATTACCGAAAT
6016863 ACCCTCAGTTTGTAAAATTACCGAAAT
1 ACCC-CAGTTTGTAAAATTACCGAAAT
*
6016890 ACCCCCGATTTGTAAAATTACCGAAAT
1 ACCCCAG-TTTGTAAAATTACCGAAAT
***
6016917 A-CCCAGTTTGTAAAATTATTAAAAT
1 ACCCCAGTTTGTAAAATTACCGAAAT
*
6016942 ACCCCCAGTTTGTAAAATTACCAAAAT
1 A-CCCCAGTTTGTAAAATTACCGAAAT
*
6016969 ACCCCTAGTTTATAAAATTACCGAAAT
1 ACCCC-AGTTTGTAAAATTACCGAAAT
* *
6016996 ACCCCTAATTTGTAAAATTACCAAAAT
1 ACCCC-AGTTTGTAAAATTACCGAAAT
* * *
6017023 ACCCCTGTGGTGTAAAATTACCAAAAT
1 ACCCCAGT-TTGTAAAATTACCGAAAT
* * *
6017050 ACCCCTGTAATGTAAAATTATCGAAAT
1 ACCCCAGT-TTGTAAAATTACCGAAAT
*** * *
6017077 ACCGTTGTAGTGTAAAATTATCGAAAT
1 ACCCCAGT-TTGTAAAATTACCGAAAT
* * *
6017104 ACCCCCTGTAGTGTAAAATTATCGAAAT
1 A-CCCCAGT-TTGTAAAATTACCGAAAT
* * *
6017132 ACCCTTA-TAGTGTAAAATTAACGAAAT
1 ACCC-CAGT-TTGTAAAATTACCGAAAT
6017159 ACCC
1 ACCC
6017163 TTGTAAGGCA
Statistics
Matches: 263, Mismatches: 28, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
25 21 0.08
26 17 0.06
27 200 0.76
28 25 0.10
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.29
Consensus pattern (26 bp):
ACCCCAGTTTGTAAAATTACCGAAAT
Found at i:6017042 original size:81 final size:81
Alignment explanation
Indices: 6016850--6017163 Score: 318
Period size: 81 Copynumber: 3.9 Consensus size: 81
6016840 CCCAGTTTTT
* * * * *
6016850 AAATTACCGAAATACCCTCAGTTTGTAAAATTACCGAAATACCCC-CG-ATTTGTAAAATTACCG
1 AAATTACCAAAATACCCCCAGTGTGTAAAATTACCAAAATACCCCTAGTA-TTGTAAAATTACCG
6016913 AAATACCC-AGTTTGTA
65 AAATACCCTAGTTTGTA
** * *
6016929 AAATTATTAAAATACCCCCAGTTTGTAAAATTACCAAAATACCCCTAGT-TTATAAAATTACCGA
1 AAATTACCAAAATACCCCCAGTGTGTAAAATTACCAAAATACCCCTAGTATTGTAAAATTACCGA
*
6016993 AATACCCCTAATTTGTA
66 AATA-CCCTAGTTTGTA
* * *
6017010 AAATTACCAAAATA-CCCCTGTGGTGTAAAATTACCAAAATACCCCT-GTAATGTAAAATTATCG
1 AAATTACCAAAATACCCCCAGT-GTGTAAAATTACCAAAATACCCCTAGTATTGTAAAATTACCG
* * *
6017073 AAATACCGTTGTAGTGTA
65 AAATACCCTAGT-TTGTA
* * * * * * * *
6017091 AAATTATCGAAATACCCCCTGTAGTGTAAAATTATCGAAATACCCTTA-TAGTGTAAAATTAACG
1 AAATTACCAAAATACCCCCAGT-GTGTAAAATTACCAAAATACCCCTAGTATTGTAAAATTACCG
6017155 AAATACCCT
65 AAATACCCT
6017164 TGTAAGGCAA
Statistics
Matches: 198, Mismatches: 28, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
79 58 0.29
80 16 0.08
81 74 0.37
82 50 0.25
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (81 bp):
AAATTACCAAAATACCCCCAGTGTGTAAAATTACCAAAATACCCCTAGTATTGTAAAATTACCGA
AATACCCTAGTTTGTA
Found at i:6017628 original size:32 final size:32
Alignment explanation
Indices: 6017585--6017656 Score: 108
Period size: 32 Copynumber: 2.2 Consensus size: 32
6017575 ATATTTACCC
* *
6017585 ATGGCTGTGTGCCGATCATATTACAGCTACTG
1 ATGGCTGTGTGCCAATCAAATTACAGCTACTG
* *
6017617 ATGGCTTTGTGCCAATCAAATTACTGCTACTG
1 ATGGCTGTGTGCCAATCAAATTACAGCTACTG
6017649 ATGGCTGT
1 ATGGCTGT
6017657 AAGCTGTGTA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (32 bp):
ATGGCTGTGTGCCAATCAAATTACAGCTACTG
Found at i:6022981 original size:6 final size:6
Alignment explanation
Indices: 6022966--6023004 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
6022956 ATCTTTTGGC
*
6022966 AAAAAT AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAA
6023005 GAGATGGTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.03
Consensus pattern (6 bp):
AAAAAG
Found at i:6025299 original size:43 final size:43
Alignment explanation
Indices: 6025245--6025352 Score: 123
Period size: 42 Copynumber: 2.5 Consensus size: 43
6025235 CCGACGTCCT
* * *
6025245 AGACGTGGTCTTACATGTAATTCA-ATATCAATGCCTCTGTCCC
1 AGACATGGTCTTACATGTAAATCAGATAT-AATGCCTCTATCCC
* * *
6025288 AGACA-GAGTCTTACACG-AAATCAGATATGATGCCTGTATCCC
1 AGACATG-GTCTTACATGTAAATCAGATATAATGCCTCTATCCC
6025330 AGACATGGTCTTACATGTAAATC
1 AGACATGGTCTTACATGTAAATC
6025353 TCAAATCGAG
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
42 31 0.57
43 23 0.43
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.29
Consensus pattern (43 bp):
AGACATGGTCTTACATGTAAATCAGATATAATGCCTCTATCCC
Found at i:6039784 original size:32 final size:32
Alignment explanation
Indices: 6039746--6039870 Score: 180
Period size: 32 Copynumber: 3.9 Consensus size: 32
6039736 CTCAATTGAA
*
6039746 TTTCTGTACATACCTGTACCATCTTGTACGAA-
1 TTTC-GTACATACCTATACCATCTTGTACGAAT
6039778 TTTCTGTACATACCTATACCATCTTGTACGAAT
1 TTTC-GTACATACCTATACCATCTTGTACGAAT
* *
6039811 TTTCGTACATACCTGTACCATCTTGTGCGAAT
1 TTTCGTACATACCTATACCATCTTGTACGAAT
* *
6039843 TTTCATACATACCTATACTATCTTGTAC
1 TTTCGTACATACCTATACCATCTTGTAC
6039871 CAATCTCATA
Statistics
Matches: 85, Mismatches: 7, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
32 81 0.95
33 4 0.05
ACGTcount: A:0.26, C:0.25, G:0.10, T:0.39
Consensus pattern (32 bp):
TTTCGTACATACCTATACCATCTTGTACGAAT
Found at i:6039823 original size:64 final size:65
Alignment explanation
Indices: 6039746--6039870 Score: 200
Period size: 64 Copynumber: 1.9 Consensus size: 65
6039736 CTCAATTGAA
*
6039746 TTTCTGTACATACCTGTACCATCTTGTACGAA-TTTCTGTACATACCTATACCATCTTGTACGAA
1 TTTCTGTACATACCTGTACCATCTTGTACGAATTTTC-ATACATACCTATACCATCTTGTACGAA
6039810 T
65 T
* *
6039811 TTTC-GTACATACCTGTACCATCTTGTGCGAATTTTCATACATACCTATACTATCTTGTAC
1 TTTCTGTACATACCTGTACCATCTTGTACGAATTTTCATACATACCTATACCATCTTGTAC
6039871 CAATCTCATA
Statistics
Matches: 56, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
64 48 0.86
65 8 0.14
ACGTcount: A:0.26, C:0.25, G:0.10, T:0.39
Consensus pattern (65 bp):
TTTCTGTACATACCTGTACCATCTTGTACGAATTTTCATACATACCTATACCATCTTGTACGAAT
Found at i:6039952 original size:28 final size:28
Alignment explanation
Indices: 6039920--6040050 Score: 140
Period size: 28 Copynumber: 4.7 Consensus size: 28
6039910 TATTCAATGT
* *
6039920 CTCGCACACTAGGTGCCATTCCCGATAC
1 CTCGCACACTAAGTGCCATTCTCGATAC
* **
6039948 CTCGCACACTAAGT-CCATTCTGGATGT
1 CTCGCACACTAAGTGCCATTCTCGATAC
*
6039975 TTCGCACACTAAGTGCCA-TCATCGATAC
1 CTCGCACACTAAGTGCCATTC-TCGATAC
* * **
6040003 TTCGCACACTAAGTGCCATTCTGGATGT
1 CTCGCACACTAAGTGCCATTCTCGATAC
*
6040031 ATCGCACACTAAGTGCCATT
1 CTCGCACACTAAGTGCCATT
6040051 TATATGGTCA
Statistics
Matches: 87, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
27 24 0.28
28 61 0.70
29 2 0.02
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (28 bp):
CTCGCACACTAAGTGCCATTCTCGATAC
Found at i:6040008 original size:55 final size:55
Alignment explanation
Indices: 6039916--6040049 Score: 198
Period size: 55 Copynumber: 2.4 Consensus size: 55
6039906 TGAATATTCA
* *
6039916 ATGTCTCGCACACTAGGTGCCATTCCCGATACCTCGCACACTAAGT-CCATTCTGG
1 ATGTATCGCACACTAAGTGCCA-TCCCGATACCTCGCACACTAAGTGCCATTCTGG
* * *
6039971 ATGTTTCGCACACTAAGTGCCATCATCGATACTTCGCACACTAAGTGCCATTCTGG
1 ATGTATCGCACACTAAGTGCCATC-CCGATACCTCGCACACTAAGTGCCATTCTGG
6040027 ATGTATCGCACACTAAGTGCCAT
1 ATGTATCGCACACTAAGTGCCAT
6040050 TTATATGGTC
Statistics
Matches: 72, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
54 2 0.03
55 39 0.54
56 31 0.43
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.27
Consensus pattern (55 bp):
ATGTATCGCACACTAAGTGCCATCCCGATACCTCGCACACTAAGTGCCATTCTGG
Found at i:6053597 original size:28 final size:30
Alignment explanation
Indices: 6053557--6053623 Score: 111
Period size: 29 Copynumber: 2.3 Consensus size: 30
6053547 GCCTCAAGTA
6053557 GCCGAAGCTAG-TTAAATCGCACACTT-GT
1 GCCGAAGCTAGTTTAAATCGCACACTTAGT
6053585 GCCGAAGCTAGTTTAAATCGCACACTTAGT
1 GCCGAAGCTAGTTTAAATCGCACACTTAGT
*
6053615 GCCAAAGCT
1 GCCGAAGCT
6053624 TCTGATTCAT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
28 11 0.31
29 15 0.42
30 10 0.28
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (30 bp):
GCCGAAGCTAGTTTAAATCGCACACTTAGT
Found at i:6061142 original size:27 final size:27
Alignment explanation
Indices: 6061111--6061288 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
6061101 TAAATTGTAC
6061111 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
6061138 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
6061164 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
6061192 GGCACTAAGTGTGCGAGTTTGACTATAT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
6061220 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
6061247 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
6061274 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
6061289 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 105 0.83
28 22 0.17
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:6061226 original size:82 final size:81
Alignment explanation
Indices: 6061112--6061267 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
6061102 AAATTGTACA
* * *
6061112 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATATAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
6061176 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
6061193 GCACTAAGTGTGCGAGTTTGACTATATAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATATAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
6061258 TGCGAGTTGA
65 TGCGAATTGA
6061268 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATATAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:6061279 original size:82 final size:81
Alignment explanation
Indices: 6061108--6061288 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
6061098 GATTAAATTG
* * *
6061108 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATATAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
6061173 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
6061189 TGCGGCACTAAGTGTGCGAGTTTGACTATATAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATATAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
6061253 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
6061271 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
6061289 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATATAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:6061642 original size:69 final size:69
Alignment explanation
Indices: 6061553--6061690 Score: 222
Period size: 69 Copynumber: 2.0 Consensus size: 69
6061543 GCTTCAATGT
* * * *
6061553 CCTATTGATGAGTATATGGAATGTGAATGCATGAATTGATATGAAATTGAATCGATAGGTTGGAG
1 CCTATTGATGAGTATATGGAATGTGAATGCATAAATTGATATGAAATTAAACCGATAGGTCGGAG
6061618 GAAC
66 GAAC
* *
6061622 CCTATTGATGAGTATGTGGAATGTGAATGCATAAATTGGTATGAAATTAAACCGATAGGTCGGAG
1 CCTATTGATGAGTATATGGAATGTGAATGCATAAATTGATATGAAATTAAACCGATAGGTCGGAG
6061687 GAAC
66 GAAC
6061691 TATGGTATGG
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
69 63 1.00
ACGTcount: A:0.35, C:0.09, G:0.28, T:0.29
Consensus pattern (69 bp):
CCTATTGATGAGTATATGGAATGTGAATGCATAAATTGATATGAAATTAAACCGATAGGTCGGAG
GAAC
Found at i:6068699 original size:27 final size:27
Alignment explanation
Indices: 6068668--6068845 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
6068658 TAAATTGTAC
6068668 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
6068695 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
6068721 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
6068749 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
6068777 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
6068804 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
6068831 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
6068846 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:6068782 original size:82 final size:81
Alignment explanation
Indices: 6068669--6068824 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
6068659 AAATTGTACA
* *
6068669 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
6068733 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
6068750 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
6068815 TGCGAGTTGA
65 TGCGAATTGA
6068825 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:6068836 original size:82 final size:81
Alignment explanation
Indices: 6068665--6068845 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
6068655 GATTAAATTG
* *
6068665 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
6068730 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
6068746 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
6068810 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
6068828 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
6068846 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:6074407 original size:28 final size:28
Alignment explanation
Indices: 6074375--6074436 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
6074365 GCCTGGCCCA
* * * *
6074375 TGTCCTTCACACTGCCATGACACGCTCG
1 TGTCCTTCACACGGCCATGAAACACCCG
6074403 TGTCCTTCACACGGCCATGAAACACCCG
1 TGTCCTTCACACGGCCATGAAACACCCG
6074431 TGTCCT
1 TGTCCT
6074437 AGCCCGTGTG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.19, C:0.39, G:0.18, T:0.24
Consensus pattern (28 bp):
TGTCCTTCACACGGCCATGAAACACCCG
Found at i:6075551 original size:46 final size:45
Alignment explanation
Indices: 6075410--6075573 Score: 161
Period size: 47 Copynumber: 3.5 Consensus size: 45
6075400 GTACCGACGT
* * * *
6075410 CATGTCCCAGACACAGTCTTACACTAACTCATATCTCATGTCGATG
1 CATGTCCCAGACA-TGTCTTACACTGACTTATATCTCAAGTCGATG
*
6075456 CCATGTCCCAGACATAGTCTTACACTGACTT-TCATCTCATAGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGACTTAT-ATCTCA-AGTCGATG
* * * *
6075504 CATGTCCCAGACATGTCTTACACTGGCTTATATATCGAGGTCAATG
1 CATGTCCCAGACATGTCTTACACTGACTTATATCTC-AAGTCGATG
*
6075550 CATGTCCTTA-ACATGTCTTACACT
1 CATGTCC-CAGACATGTCTTACACT
6075574 AGCACTCGTC
Statistics
Matches: 100, Mismatches: 11, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
46 45 0.45
47 49 0.49
48 6 0.06
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.30
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTGACTTATATCTCAAGTCGATG
Found at i:6075645 original size:94 final size:92
Alignment explanation
Indices: 6075497--6075670 Score: 223
Period size: 94 Copynumber: 1.9 Consensus size: 92
6075487 TCATCTCATA
*
6075497 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTATATATCGAGGTCAATGCATGTC-CTTA-
1 GCCGATGCAGGTCCCAGACATGTCTTACACTGGCTTATATATCGAGGTCAATGCATGTCGC--AG
6075560 ACATGTCTTACACTAGCACTCGTCTTAAT
64 ACATGTCTTACACTAGCACTCGTCTTAAT
* *
6075589 GCCGATGCTAGGTCCCAGACATGGTCTTACACTGGCTCTCATA-AT-GTGG-CTGATGCATGTCG
1 GCCGATGC-AGGTCCCAGACAT-GTCTTACACTGGCT-T-ATATATCGAGGTC-AATGCATGTCG
6075651 CAGACATGTCTTACACTAGC
61 CAGACATGTCTTACACTAGC
6075671 CCACAAATAC
Statistics
Matches: 72, Mismatches: 3, Indels: 12
0.83 0.03 0.14
Matches are distributed among these distances:
92 8 0.11
93 14 0.19
94 43 0.60
95 4 0.06
96 3 0.04
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (92 bp):
GCCGATGCAGGTCCCAGACATGTCTTACACTGGCTTATATATCGAGGTCAATGCATGTCGCAGAC
ATGTCTTACACTAGCACTCGTCTTAAT
Found at i:6079247 original size:43 final size:42
Alignment explanation
Indices: 6079200--6079294 Score: 109
Period size: 42 Copynumber: 2.2 Consensus size: 42
6079190 AGACGTGCTC
* * *
6079200 TTACATGTAATCAAGTATCGATGCCACTATCCCAGACAGGGTG
1 TTACACGTAATCAAATAT-GATGCCAATATCCCAGACAGGGTG
** * * *
6079243 TTACACAAAATCAAATATGATGCCAATGTCCCAGACATGGTT
1 TTACACGTAATCAAATATGATGCCAATATCCCAGACAGGGTG
6079285 TTACACGTAA
1 TTACACGTAA
6079295 ATTTCAAATC
Statistics
Matches: 42, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
42 28 0.67
43 14 0.33
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (42 bp):
TTACACGTAATCAAATATGATGCCAATATCCCAGACAGGGTG
Found at i:6079278 original size:42 final size:43
Alignment explanation
Indices: 6079208--6079290 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 43
6079198 TCTTACATGT
* *
6079208 AATCAAGTATCGATGCCACTATCCCAGACAGGGTGTTACACAA
1 AATCAAATATCGATGCCAATATCCCAGACAGGGTGTTACACAA
* * *
6079251 AATCAAATAT-GATGCCAATGTCCCAGACATGGTTTTACAC
1 AATCAAATATCGATGCCAATATCCCAGACAGGGTGTTACAC
6079291 GTAAATTTCA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
42 26 0.74
43 9 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (43 bp):
AATCAAATATCGATGCCAATATCCCAGACAGGGTGTTACACAA
Found at i:6079958 original size:164 final size:164
Alignment explanation
Indices: 6079708--6080021 Score: 592
Period size: 164 Copynumber: 1.9 Consensus size: 164
6079698 TTAGGGCATG
*
6079708 TTACAAATTAGCTCTCATATTTTCACATTTTAACACTTTAGTCCCTAATTCATAAAATCACAAAA
1 TTACAAATTAGCTCTCACATTTTCACATTTTAACACTTTAGTCCCTAATTCATAAAATCACAAAA
* *
6079773 TACACAAAATTTCCTTTTTCACATGCTTAGCCGAGTTTTCATGAAGTTCATATAAGTCCATATAT
66 TACACAAAATTTCCATTTTCACATGCTTAGCCGAATTTTCATGAAGTTCATATAAGTCCATATAT
6079838 TTCATTTATTTTATATTTTACCAAAAACACATAT
131 TTCATTTATTTTATATTTTACCAAAAACACATAT
*
6079872 TTACAGATTAGCTCTCACATTTTCACATTTTAACACTTTAGTCCCTAATTCATAAAATCACAAAA
1 TTACAAATTAGCTCTCACATTTTCACATTTTAACACTTTAGTCCCTAATTCATAAAATCACAAAA
6079937 TACACAAAATTTCCATTTTCACATGCTTAGCCGAATTTTCATGAAGTTCATATAAGTCCATATAT
66 TACACAAAATTTCCATTTTCACATGCTTAGCCGAATTTTCATGAAGTTCATATAAGTCCATATAT
6080002 TTCATTTATTTTATATTTTA
131 TTCATTTATTTTATATTTTA
6080022 GTCCCTTAAA
Statistics
Matches: 146, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
164 146 1.00
ACGTcount: A:0.35, C:0.19, G:0.06, T:0.40
Consensus pattern (164 bp):
TTACAAATTAGCTCTCACATTTTCACATTTTAACACTTTAGTCCCTAATTCATAAAATCACAAAA
TACACAAAATTTCCATTTTCACATGCTTAGCCGAATTTTCATGAAGTTCATATAAGTCCATATAT
TTCATTTATTTTATATTTTACCAAAAACACATAT
Found at i:6080553 original size:16 final size:16
Alignment explanation
Indices: 6080529--6080564 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
6080519 ATAGAAAATA
*
6080529 ATATTATGCAATTTTT
1 ATATCATGCAATTTTT
6080545 ATATCATGCAATTTTT
1 ATATCATGCAATTTTT
6080561 ATAT
1 ATAT
6080565 TTTACGTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.33, C:0.08, G:0.06, T:0.53
Consensus pattern (16 bp):
ATATCATGCAATTTTT
Found at i:6081424 original size:50 final size:50
Alignment explanation
Indices: 6081315--6081591 Score: 212
Period size: 50 Copynumber: 5.7 Consensus size: 50
6081305 GGGTAAGATG
* * * * *
6081315 CCGACGCCATATCCCAGACATGGTCTTATACT--GTCTCATACATCGA-A
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAACTCTCATATATCGAGA
** * * *
6081362 GTTGATGTCATGTCCCAAACATGGTCTTATACTAACTCTCATATATCGAGA
1 -CCGATGCCATGTCCCAGACATGGTCTTACACTAACTCTCATATATCGAGA
* ** * * *
6081413 CCGATGCCATGTCCCAGACATGGTTTTACACTGGCTCTCATCTAT-TAGTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAACTCTCATATATCGAG-A
* * ** * * *
6081463 CCGATGCCATGTCCCAAACATGGTCTTACACTAGA-TTTCAGGTCTTGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTA-ACTCTCATATATCGAGA
* * *
6081513 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATA-AT-GTGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAACTCTCATATATCGAGA
* *
6081561 CCGATG-CATGTCCTAGATAT-GTCTTACACTA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTA
6081592 GCACACATAT
Statistics
Matches: 185, Mismatches: 37, Indels: 16
0.78 0.16 0.07
Matches are distributed among these distances:
46 11 0.06
47 12 0.06
48 35 0.19
49 3 0.02
50 121 0.65
51 3 0.02
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (50 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAACTCTCATATATCGAGA
Found at i:6081517 original size:100 final size:100
Alignment explanation
Indices: 6081365--6081553 Score: 272
Period size: 100 Copynumber: 1.9 Consensus size: 100
6081355 CATCGAAGTT
* * *
6081365 GATGTCATGTCCCAAACATGGTCTTATACTAACTCTCATATATCGAGACCGATGCCATGTCCCAG
1 GATGCCATGTCCCAAACATGGTCTTACACTAACTCTCAGATATCGAGACCGATGCCATGTCCCAG
* *
6081430 ACATGGTTTTACACTGGCTCTCATCTATTAGTGCC
66 ACATGGTCTTACACTAGCTCTCATCTATTAGTGCC
* * * * *
6081465 GATGCCATGTCCCAAACATGGTCTTACACTAGA-TTTCAGGTCTTGAGGCCGATGCCATGTCCCA
1 GATGCCATGTCCCAAACATGGTCTTACACTA-ACTCTCAGATATCGAGACCGATGCCATGTCCCA
6081529 GACATGGTCTTACACTAGCTCTCAT
65 GACATGGTCTTACACTAGCTCTCAT
6081554 AATGTGGCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
100 77 0.99
101 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.30
Consensus pattern (100 bp):
GATGCCATGTCCCAAACATGGTCTTACACTAACTCTCAGATATCGAGACCGATGCCATGTCCCAG
ACATGGTCTTACACTAGCTCTCATCTATTAGTGCC
Found at i:6086086 original size:20 final size:19
Alignment explanation
Indices: 6086061--6086110 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
6086051 TTAGATGACA
*
6086061 AAAAATCGAATGTTTGATC
1 AAAAATCGAACGTTTGATC
*
6086080 GAAAAATTGAACGTTTGATC
1 -AAAAATCGAACGTTTGATC
6086100 AAAAACTCGAA
1 AAAAA-TCGAA
6086111 AGACCTAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.46, C:0.12, G:0.16, T:0.26
Consensus pattern (19 bp):
AAAAATCGAACGTTTGATC
Found at i:6092626 original size:94 final size:94
Alignment explanation
Indices: 6092528--6092772 Score: 337
Period size: 94 Copynumber: 2.6 Consensus size: 94
6092518 TTAGGATTTT
* ** * * * *
6092528 ATGTGATGGATGTGAATGTGTATACATGAGCTAAGGCCGAATGGCAAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGTATACATGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACA
* * *
6092593 TGCATTTGTGTGGTAAGACCGAATGGCCA
66 TGCATATATGTGATAAGACCGAATGGCCA
* *
6092622 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGAAGAATATGAACA
1 ATGTGATGAATGTGAACATGTATACATGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACA
* *
6092687 TGCATATATGTGATGAGGCCGAATGGCCA
66 TGCATATATGTGATAAGACCGAATGGCCA
* * *
6092716 ATGTGATAAATGTGAACATGCATACATGTGATAAGGCAGAATGGCCAATGTGATGAA
1 ATGTGATGAATGTGAACATGTATACATGTGATAAGGCCGAATGGCCAATGTGATGAA
6092773 CGTGGATGTG
Statistics
Matches: 132, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
94 132 1.00
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (94 bp):
ATGTGATGAATGTGAACATGTATACATGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACA
TGCATATATGTGATAAGACCGAATGGCCA
Done.