Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 253 of 311
Found at i:84487014 original size:22 final size:21
Alignment explanation
Indices: 84486989--84487056 Score: 66
Period size: 21 Copynumber: 3.3 Consensus size: 21
84486979 ATAAAACTTT
84486989 AAAAAATGAAAAAAAATTAAA
1 AAAAAATGAAAAAAAATTAAA
* * *
84487010 GAAAAA-GACAAAAAGTTAAA
1 AAAAAATGAAAAAAAATTAAA
* * * *
84487030 AAGAAGTTAAAAAAAAGTAAA
1 AAAAAATGAAAAAAAATTAAA
84487051 AAAAAA
1 AAAAAA
84487057 ATAGAATCAG
Statistics
Matches: 34, Mismatches: 12, Indels: 2
0.71 0.25 0.04
Matches are distributed among these distances:
20 15 0.44
21 19 0.56
ACGTcount: A:0.76, C:0.01, G:0.10, T:0.12
Consensus pattern (21 bp):
AAAAAATGAAAAAAAATTAAA
Found at i:84487056 original size:11 final size:11
Alignment explanation
Indices: 84487019--84487055 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
84487009 AGAAAAAGAC
84487019 AAAAAGTTAAA
1 AAAAAGTTAAA
*
84487030 AAGAAGTTAAA
1 AAAAAGTTAAA
84487041 AAAAAG-TAAA
1 AAAAAGTTAAA
84487051 AAAAA
1 AAAAA
84487056 AATAGAATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 9 0.38
11 15 0.62
ACGTcount: A:0.76, C:0.00, G:0.11, T:0.14
Consensus pattern (11 bp):
AAAAAGTTAAA
Found at i:84488717 original size:24 final size:25
Alignment explanation
Indices: 84488690--84488737 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
84488680 TCATTTCAAT
* *
84488690 TTGGTTTTTAAA-TTTTAATGGGTA
1 TTGGGTTTTAAAGTTTCAATGGGTA
84488714 TTGGGTTTTAAAGTTTCAATGGGT
1 TTGGGTTTTAAAGTTTCAATGGGT
84488738 TTTGACTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.23, C:0.02, G:0.25, T:0.50
Consensus pattern (25 bp):
TTGGGTTTTAAAGTTTCAATGGGTA
Found at i:84488747 original size:25 final size:24
Alignment explanation
Indices: 84488695--84488750 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 24
84488685 TCAATTTGGT
* **
84488695 TTTTAAATTTTAATGGGTATTGGG
1 TTTTAAATTTCAATGGGTATTGAC
*
84488719 TTTTAAAGTTTCAATGGGTTTTGAC
1 TTTTAAA-TTTCAATGGGTATTGAC
84488744 TTTTAAA
1 TTTTAAA
84488751 AGTATTGAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
24 7 0.26
25 20 0.74
ACGTcount: A:0.27, C:0.04, G:0.20, T:0.50
Consensus pattern (24 bp):
TTTTAAATTTCAATGGGTATTGAC
Found at i:84490948 original size:15 final size:14
Alignment explanation
Indices: 84490920--84490966 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
84490910 ATTATTAGCT
*
84490920 TATAAAAAAAAATA
1 TATAAAATAAAATA
84490934 TATAAACATAAAATA
1 TATAAA-ATAAAATA
* *
84490949 TCTTAAATAAAAT-
1 TATAAAATAAAATA
84490962 TATAA
1 TATAA
84490967 TACAAAAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
13 3 0.11
14 13 0.48
15 11 0.41
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (14 bp):
TATAAAATAAAATA
Found at i:84497604 original size:40 final size:40
Alignment explanation
Indices: 84497549--84497684 Score: 231
Period size: 40 Copynumber: 3.4 Consensus size: 40
84497539 AGATGATAAT
84497549 CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATC
1 CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATC
84497589 CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATC
1 CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATC
* *
84497629 CGGGCTAGGACCCGAAGGCATTTGTGCGAGTTGTTATATC
1 CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATC
84497669 C-GGCTAA-ATCCCGAAG
1 CGGGCTAAGA-CCCGAAG
84497685 ATACTTGGGT
Statistics
Matches: 92, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
38 1 0.01
39 12 0.13
40 79 0.86
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.24
Consensus pattern (40 bp):
CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATC
Found at i:84505789 original size:39 final size:40
Alignment explanation
Indices: 84505668--84505803 Score: 215
Period size: 40 Copynumber: 3.5 Consensus size: 40
84505658 TCGGATGTAA
*
84505668 CCGGGCTAAGACCCAAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
84505708 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* *
84505748 CCGGGCTAGGACCCGAAGGCATTTGT-CGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
84505787 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
84505804 ATACTTGGGT
Statistics
Matches: 91, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
37 1 0.01
38 12 0.13
39 14 0.15
40 64 0.70
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
Found at i:84506072 original size:22 final size:22
Alignment explanation
Indices: 84506030--84506073 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
84506020 AAAATGTGCA
* *
84506030 TATATGAAGTTATTCATTTAGC
1 TATATGAAGTTATACACTTAGC
84506052 TATATGAATGTTATAC-CTTAGC
1 TATATGAA-GTTATACACTTAGC
84506074 CGAAACTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATATGAAGTTATACACTTAGC
Found at i:84507901 original size:127 final size:130
Alignment explanation
Indices: 84507610--84507916 Score: 316
Period size: 130 Copynumber: 2.4 Consensus size: 130
84507600 AAACAAAGAA
* * * * * * * * *
84507610 AATGTTCGATATTTGGCAATTTGGGGAAACGTGCCCTATCATGCTGAGTTGCAATTTCTGTTTGT
1 AATGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTGCAATTTCCGTTTGT
* * * * * * *
84507675 TCAAAACAATCAAATATTCCTTTGGAATTTCACTTATGTCTTTAAAAATTCTTCAAAATGAAGGT
66 TCAAAACAATCAAACATTCATTTGAAATTTCACTCATGTCTTTAAAAATGCTTCAAAACGAAGGC
* * * *
84507740 AATGTTCGATGTTTGGCAATTCGGGGAATTGTGCCCTATCGTGCTGGGTTGCAATTTCCCGTTTG
1 AATGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTGCAATTT-CCGTTTG
* * * * ** *
84507805 TTTAAAATAATCGAACATTCATTTGAAATTTCACTCGTGT-TTTCTAAATGC-T-AAAGCG-AGG
65 TTCAAAACAATCAAACATTCATTTGAAATTTCACTCATGTCTTTAAAAATGCTTCAAAACGAAGG
84507866 C
130 C
* *
84507867 AATGTTTAATGTTTGGAAATTCGAGGAATCGTGCCCTACCGTGCTGGGTT
1 AATGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTT
84507917 TCGGTTTTTC
Statistics
Matches: 149, Mismatches: 27, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
127 47 0.32
128 4 0.03
129 1 0.01
130 59 0.40
131 38 0.26
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.36
Consensus pattern (130 bp):
AATGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTGCAATTTCCGTTTGT
TCAAAACAATCAAACATTCATTTGAAATTTCACTCATGTCTTTAAAAATGCTTCAAAACGAAGGC
Found at i:84511534 original size:9 final size:9
Alignment explanation
Indices: 84511522--84511563 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
84511512 ATAATAAACC
84511522 AAAAAACAA
1 AAAAAACAA
84511531 AAAAAACAA
1 AAAAAACAA
84511540 AAACAAA-AA
1 AAA-AAACAA
*
84511549 AAAATAATAA
1 AAAA-AACAA
84511559 AAAAA
1 AAAAA
84511564 TCGTGGAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
8 1 0.03
9 20 0.67
10 9 0.30
ACGTcount: A:0.88, C:0.07, G:0.00, T:0.05
Consensus pattern (9 bp):
AAAAAACAA
Found at i:84511543 original size:15 final size:15
Alignment explanation
Indices: 84511523--84511551 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
84511513 TAATAAACCA
84511523 AAAAACAAAAAAAAC
1 AAAAACAAAAAAAAC
84511538 AAAAACAAAAAAAA
1 AAAAACAAAAAAAA
84511552 ATAATAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (15 bp):
AAAAACAAAAAAAAC
Found at i:84513586 original size:88 final size:87
Alignment explanation
Indices: 84513437--84514147 Score: 850
Period size: 88 Copynumber: 8.1 Consensus size: 87
84513427 GAATTACAAG
* *
84513437 TCTTGTCTCCCTAAACAGTAGTGGAACAGATCGAAGAAAGCAAGCCTTAACCCCCTAAGTGGTAG
1 TCTTGTCTCCCTAAACAGTAGTGGAACAAATCAAAG-AAGCAAGCCTTAACCCCCTAAGTGGTAG
* *
84513502 GGTAACAGGCTGAAAATTGTAGA
65 GGTAACAGGCTGAAGATTGCAGA
* * * * *
84513525 TCTTGTCTCCCTAAATAGTATTGGAGCAAAATCAAAGAAGCAAGCTTTAACTCCCTAAGTGGTAG
1 TCTTGTCTCCCTAAACAGTAGTGGAAC-AAATCAAAGAAGCAAGCCTTAACCCCCTAAGTGGTAG
84513590 GGTAACAGGCTGAAGATTGCAGA
65 GGTAACAGGCTGAAGATTGCAGA
* * ** *
84513613 TCTTGTCTCCCTAAAGCTA-CAGTGGAACAAATCAAAGACGGTGACCCTTAACCCCCTAAGTGGT
1 TCTTGTCTCCCTAAA-C-AGTAGTGGAACAAATCAAAGA-AGCAAGCCTTAACCCCCTAAGTGGT
* *
84513677 AAGGTAACAGGCTGAAGATTGTAGA
63 AGGGTAACAGGCTGAAGATTGCAGA
* * * * *
84513702 TCTTATCTCCCTAAACAGTAGTGGAGCAAAATCGAAGAAGCAAGCTTTAACTCCCTAAGTGGTAG
1 TCTTGTCTCCCTAAACAGTAGTGGAAC-AAATCAAAGAAGCAAGCCTTAACCCCCTAAGTGGTAG
84513767 GGTAACAGGCTGAAGATTGCAGA
65 GGTAACAGGCTGAAGATTGCAGA
* * * * **
84513790 TCTTGTCTCCCTGAAGCTGTAGTGGAACAGATCAAAGACGGTGAGCCTTAACCCCCTAAGTGGTA
1 TCTTGTCTCCCT-AAACAGTAGTGGAACAAATCAAAGA-AGCAAGCCTTAACCCCCTAAGTGGTA
*
84513855 GGGTAACAGGCTGAAGATTGTAGA
64 GGGTAACAGGCTGAAGATTGCAGA
**
84513879 TCTTGTCTCCCTAAACAGTAGTGGAACAAATCGAAA-AAGCAAGCCTTAACCCTTTAAGTGGTAG
1 TCTTGTCTCCCTAAACAGTAGTGGAACAAATC-AAAGAAGCAAGCCTTAACCCCCTAAGTGGTAG
*
84513943 GGTAATAGGCTGAAGATTGCAGA
65 GGTAACAGGCTGAAGATTGCAGA
* * * * * * * * * ** *
84513966 TCTTGTGTCCTTGAAGCTGCAGTGGAATAGATCAAAGACGGCGAGCCTTAACCCTTTAAGTAGTA
1 TCTTGTCTCCCT-AAACAGTAGTGGAACAAATCAAAGA-AGCAAGCCTTAACCCCCTAAGTGGTA
* *
84514031 GGGTAATAGGCTGAAGATTGTAGA
64 GGGTAACAGGCTGAAGATTGCAGA
* * * * *
84514055 TCTTGTCTTCCTAAACAGTAGTGGAGCAAATCGAAGAAGCAAGTCTTAACCCCCTAAGTAGTAGG
1 TCTTGTCTCCCTAAACAGTAGTGGAACAAATCAAAGAAGCAAGCCTTAACCCCCTAAGTGGTAGG
*
84514120 GTAACGGGCTGAAGATTGCAGA
66 GTAACAGGCTGAAGATTGCAGA
84514142 TCTTGT
1 TCTTGT
84514148 TTCTCAGAAG
Statistics
Matches: 527, Mismatches: 84, Indels: 25
0.83 0.13 0.04
Matches are distributed among these distances:
87 105 0.20
88 217 0.41
89 204 0.39
90 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (87 bp):
TCTTGTCTCCCTAAACAGTAGTGGAACAAATCAAAGAAGCAAGCCTTAACCCCCTAAGTGGTAGG
GTAACAGGCTGAAGATTGCAGA
Found at i:84513752 original size:177 final size:176
Alignment explanation
Indices: 84513437--84514219 Score: 1081
Period size: 177 Copynumber: 4.4 Consensus size: 176
84513427 GAATTACAAG
* * * ** **
84513437 TCTTGTCTCCCTAAA-CAGTAGTGGAACAGATCGAAGAAAGCAAGCCTTAACCCCCTAAGTGGTA
1 TCTTGTCTCCCTAAAGCTGCAGTGGAACAGATCAAAGACGGTGAGCCTTAACCCCCTAAGTGGTA
* * * *
84513501 GGGTAACAGGCTGAAAATTGTAGATCTTGTCTCCCTAAATAGTATTGGAGCAAAATCAAAGAAGC
66 GGGTAACAGGCTGAAGATTGTAGATCTTGTCTCCCTAAACAGTAGTGGAGC-AAATCGAAGAAGC
84513566 AAGCTTTAACTCCCTAAGTGGTAGGGTAACAGGCTGAAGATTGCAGA
130 AAGCTTTAACTCCCTAAGTGGTAGGGTAACAGGCTGAAGATTGCAGA
* * *
84513613 TCTTGTCTCCCTAAAGCTACAGTGGAACAAATCAAAGACGGTGACCCTTAACCCCCTAAGTGGTA
1 TCTTGTCTCCCTAAAGCTGCAGTGGAACAGATCAAAGACGGTGAGCCTTAACCCCCTAAGTGGTA
* *
84513678 AGGTAACAGGCTGAAGATTGTAGATCTTATCTCCCTAAACAGTAGTGGAGCAAAATCGAAGAAGC
66 GGGTAACAGGCTGAAGATTGTAGATCTTGTCTCCCTAAACAGTAGTGGAGC-AAATCGAAGAAGC
84513743 AAGCTTTAACTCCCTAAGTGGTAGGGTAACAGGCTGAAGATTGCAGA
130 AAGCTTTAACTCCCTAAGTGGTAGGGTAACAGGCTGAAGATTGCAGA
* *
84513790 TCTTGTCTCCCTGAAGCTGTAGTGGAACAGATCAAAGACGGTGAGCCTTAACCCCCTAAGTGGTA
1 TCTTGTCTCCCTAAAGCTGCAGTGGAACAGATCAAAGACGGTGAGCCTTAACCCCCTAAGTGGTA
* *
84513855 GGGTAACAGGCTGAAGATTGTAGATCTTGTCTCCCTAAACAGTAGTGGAACAAATCGAAAAAGCA
66 GGGTAACAGGCTGAAGATTGTAGATCTTGTCTCCCTAAACAGTAGTGGAGCAAATCGAAGAAGCA
* * *
84513920 AGCCTTAAC-CCTTTAAGTGGTAGGGTAATAGGCTGAAGATTGCAGA
131 AGCTTTAACTCC-CTAAGTGGTAGGGTAACAGGCTGAAGATTGCAGA
* * * * * ** *
84513966 TCTTGTGTCCTTGAAGCTGCAGTGGAATAGATCAAAGACGGCGAGCCTTAACCCTTTAAGTAGTA
1 TCTTGTCTCCCTAAAGCTGCAGTGGAACAGATCAAAGACGGTGAGCCTTAACCCCCTAAGTGGTA
* *
84514031 GGGTAATAGGCTGAAGATTGTAGATCTTGTCTTCCTAAACAGTAGTGGAGCAAATCGAAGAAGCA
66 GGGTAACAGGCTGAAGATTGTAGATCTTGTCTCCCTAAACAGTAGTGGAGCAAATCGAAGAAGCA
* * *
84514096 AG-TCTTAACCCCCTAAGTAGTAGGGTAACGGGCTGAAGATTGCAGA
131 AGCT-TTAACTCCCTAAGTGGTAGGGTAACAGGCTGAAGATTGCAGA
* * * * * **
84514142 TCTTGTTTCTC-AGAAGTTGTAGTGGAACAGATCAAAGACGGTGAGCCTTGACCCCTCTAAGCAA
1 TCTTGTCTCCCTA-AAGCTGCAGTGGAACAGATCAAAGACGGTGAGCCTTAACCCC-CTAAG-TG
84514206 G-AGGGTAACAGGCT
63 GTAGGGTAACAGGCT
84514220 AAACTATAGA
Statistics
Matches: 542, Mismatches: 58, Indels: 13
0.88 0.09 0.02
Matches are distributed among these distances:
175 2 0.00
176 267 0.49
177 271 0.50
178 2 0.00
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (176 bp):
TCTTGTCTCCCTAAAGCTGCAGTGGAACAGATCAAAGACGGTGAGCCTTAACCCCCTAAGTGGTA
GGGTAACAGGCTGAAGATTGTAGATCTTGTCTCCCTAAACAGTAGTGGAGCAAATCGAAGAAGCA
AGCTTTAACTCCCTAAGTGGTAGGGTAACAGGCTGAAGATTGCAGA
Found at i:84514243 original size:41 final size:41
Alignment explanation
Indices: 84514192--84514291 Score: 130
Period size: 41 Copynumber: 2.4 Consensus size: 41
84514182 GTGAGCCTTG
* *
84514192 ACCCCTCTAAGCAAG-AGGGTAACAGGCTAAACTATAGATCTT
1 ACCCC-CTAAGC-AGTAGGGTAACAGGATAAACTACAGATCTT
*
84514234 ACCCCCTAAGCAGTAGGGTAACAGGATGAACTACAGATCTT
1 ACCCCCTAAGCAGTAGGGTAACAGGATAAACTACAGATCTT
*
84514275 ACCTCCCTAAGTAGTAG
1 ACC-CCCTAAGCAGTAG
84514292 TTGGGCGGAT
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
40 2 0.04
41 33 0.63
42 17 0.33
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.21
Consensus pattern (41 bp):
ACCCCCTAAGCAGTAGGGTAACAGGATAAACTACAGATCTT
Found at i:84517429 original size:127 final size:130
Alignment explanation
Indices: 84517118--84517435 Score: 419
Period size: 130 Copynumber: 2.5 Consensus size: 130
84517108 GAAGATCTTT
** * * *
84517118 AAAACGAAGAAAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCATGCTGGGTTGCAA
1 AAAACGAAGGCAATGTTCAATGTTTGGAAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTGCAA
* * * *
84517183 TTTCCGTTTGTTCAAAACAATCGAATATTCCTTTGGAATTTCACTTATGTCTTCAAAAATTCTTC
66 TTTCCGTTTGTTCAAAACAATCGAACATTCCTTTGAAATTTCACTCATGTCTTCAAAAATGCTTC
* *
84517248 AAAATGAAGGTAATGTTCAATGTTTGGAAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTGCAA
1 AAAACGAAGGCAATGTTCAATGTTTGGAAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTGCAA
* * * * *
84517313 TTTCCCGTTTGTTGAAAATAATCGAACATTCCTTTGAAATTTCACTCGTGTTTTC-TAAATGC-T
66 TTT-CCGTTTGTTCAAAACAATCGAACATTCCTTTGAAATTTCACTCATGTCTTCAAAAATGCTT
84517376 -
130 C
* * * *
84517376 AAAGCG-AGGCAATGTTCAATGTTTGGAAATTCGAGGAATCGTGCCGTACCGTGCTGGGTT
1 AAAACGAAGGCAATGTTCAATGTTTGGAAATTCGGGGAATCGTGCCCTATCGTGCTGGGTT
84517436 TCGGTTTTTC
Statistics
Matches: 166, Mismatches: 21, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
127 50 0.30
128 4 0.02
129 1 0.01
130 67 0.40
131 44 0.27
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (130 bp):
AAAACGAAGGCAATGTTCAATGTTTGGAAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTGCAA
TTTCCGTTTGTTCAAAACAATCGAACATTCCTTTGAAATTTCACTCATGTCTTCAAAAATGCTTC
Found at i:84530247 original size:22 final size:23
Alignment explanation
Indices: 84530222--84530280 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 23
84530212 CAACCAAATC
84530222 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
84530244 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
84530267 ACA-TCATCACATAT
1 A-ATTCAT-ACATAT
84530281 ATAAAACCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
22 6 0.19
23 18 0.58
24 7 0.23
ACGTcount: A:0.44, C:0.15, G:0.05, T:0.36
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:84536729 original size:22 final size:23
Alignment explanation
Indices: 84536704--84536749 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
84536694 CAACCAAATC
84536704 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
84536726 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
84536749 A
1 A
84536750 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:84536755 original size:23 final size:23
Alignment explanation
Indices: 84536711--84536755 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
84536701 ATCAATTCAA
*
84536711 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
84536734 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
84536756 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:84540553 original size:18 final size:18
Alignment explanation
Indices: 84540519--84540553 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
84540509 AATTGTTATA
*
84540519 TTTTTCTTATATGTTTTC
1 TTTTTCTTATATCTTTTC
*
84540537 TTTTTCTTATTTCTTTT
1 TTTTTCTTATATCTTTT
84540554 TTTAGATCTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.09, C:0.11, G:0.03, T:0.77
Consensus pattern (18 bp):
TTTTTCTTATATCTTTTC
Found at i:84540658 original size:16 final size:17
Alignment explanation
Indices: 84540637--84540677 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
84540627 AATAAATCAT
84540637 TAAAAATTCATAAA-A-A
1 TAAAAATTCA-AAATAGA
84540653 TAAAAATTCAAAATAGA
1 TAAAAATTCAAAATAGA
84540670 TAAAAATT
1 TAAAAATT
84540678 AGTTCAATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.13
16 11 0.48
17 9 0.39
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (17 bp):
TAAAAATTCAAAATAGA
Found at i:84542671 original size:11 final size:11
Alignment explanation
Indices: 84542646--84542678 Score: 52
Period size: 10 Copynumber: 3.2 Consensus size: 11
84542636 ATTTTAATCA
84542646 AAATTTTAT-T
1 AAATTTTATAT
84542656 AAATTTTATAT
1 AAATTTTATAT
84542667 AAATTTTA-AT
1 AAATTTTATAT
84542677 AA
1 AA
84542679 TATATGTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
AAATTTTATAT
Found at i:84550605 original size:16 final size:19
Alignment explanation
Indices: 84550568--84550605 Score: 55
Period size: 16 Copynumber: 2.2 Consensus size: 19
84550558 TTATATACTT
84550568 AATAAATTATTTATTCAAA
1 AATAAATTATTTATTCAAA
84550587 AATAAA-TATTT-TT-AAA
1 AATAAATTATTTATTCAAA
84550603 AAT
1 AAT
84550606 TTAACCATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 6 0.32
17 2 0.11
18 5 0.26
19 6 0.32
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (19 bp):
AATAAATTATTTATTCAAA
Found at i:84558060 original size:28 final size:25
Alignment explanation
Indices: 84558028--84558082 Score: 67
Period size: 28 Copynumber: 2.1 Consensus size: 25
84558018 TTCATTCTAG
84558028 AATTATAA-AATATATATAAATCATTAAT
1 AATTATAATAAT-TAT-TAAA--ATTAAT
84558056 AATTATAATAATTATTAAAATTAAT
1 AATTATAATAATTATTAAAATTAAT
84558081 AA
1 AA
84558083 AGAAAAATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
25 8 0.31
27 4 0.15
28 11 0.42
29 3 0.12
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (25 bp):
AATTATAATAATTATTAAAATTAAT
Found at i:84558183 original size:6 final size:6
Alignment explanation
Indices: 84558172--84558198 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
84558162 AGTGTAATAA
84558172 AAAAAT AAAAAT AAAAAT AAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAA
84558199 TAATTATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:84558201 original size:16 final size:16
Alignment explanation
Indices: 84558167--84558216 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
84558157 CATAGAGTGT
*
84558167 AATAAAAA-AATAA-A
1 AATAAAAATAAAAATA
84558181 AATAAAAATAAAAATA
1 AATAAAAATAAAAATA
** *
84558197 AATAATTATATAAATA
1 AATAAAAATAAAAATA
84558213 AATA
1 AATA
84558217 TGACACTTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
14 8 0.27
15 4 0.13
16 18 0.60
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
AATAAAAATAAAAATA
Found at i:84558314 original size:16 final size:15
Alignment explanation
Indices: 84558293--84558353 Score: 61
Period size: 15 Copynumber: 3.9 Consensus size: 15
84558283 AAAATTTTAC
84558293 ATAATTTATAAAGAAA
1 ATAATTTATAAA-AAA
84558309 ATAATTTATTAAAAATA
1 ATAATTTA-TAAAAA-A
** *
84558326 A-AAAATAGAAAAAA
1 ATAATTTATAAAAAA
84558340 ATAATTTATAAAAA
1 ATAATTTATAAAAA
84558354 TATTTAGAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
14 2 0.06
15 14 0.39
16 14 0.39
17 6 0.17
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (15 bp):
ATAATTTATAAAAAA
Found at i:84558353 original size:14 final size:16
Alignment explanation
Indices: 84558293--84558351 Score: 52
Period size: 16 Copynumber: 3.8 Consensus size: 16
84558283 AAAATTTTAC
84558293 ATAATTTATAAAGAAA
1 ATAATTTATAAAGAAA
84558309 ATAATTTATTAAA-AATA
1 ATAATTTA-TAAAGAA-A
** *
84558326 A-AAAATAGAAA-AAA
1 ATAATTTATAAAGAAA
84558340 ATAATTTATAAA
1 ATAATTTATAAA
84558352 AATATTTAGA
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
14 2 0.06
15 12 0.35
16 14 0.41
17 6 0.18
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (16 bp):
ATAATTTATAAAGAAA
Found at i:84558621 original size:9 final size:10
Alignment explanation
Indices: 84558560--84558649 Score: 64
Period size: 9 Copynumber: 9.3 Consensus size: 10
84558550 AAAATAATAC
84558560 TTTTTA-AAT
1 TTTTTATAAT
*
84558569 TTTTTATGAT
1 TTTTTATAAT
* *
84558579 GTTTAATTAAT
1 TTTTTA-TAAT
* *
84558590 TTCTAATAA-
1 TTTTTATAAT
84558599 TTTTTATAA-
1 TTTTTATAAT
*
84558608 ATTTTA-AATT
1 TTTTTATAA-T
84558618 TTTTTATAA-
1 TTTTTATAAT
*
84558627 TTTTTATGAT
1 TTTTTATAAT
84558637 TTTTTATAAT
1 TTTTTATAAT
84558647 TTT
1 TTT
84558650 AGAATGTATC
Statistics
Matches: 63, Mismatches: 12, Indels: 11
0.73 0.14 0.13
Matches are distributed among these distances:
8 2 0.03
9 26 0.41
10 26 0.41
11 9 0.14
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.64
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:84558623 original size:19 final size:19
Alignment explanation
Indices: 84558595--84558650 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
84558585 TTAATTTCTA
84558595 ATAA-TTTTTATAAATTTT
1 ATAATTTTTTATAAATTTT
*
84558613 A-AATTTTTTTATAATTTTT
1 ATAA-TTTTTTATAAATTTT
*
84558632 ATGATTTTTTAT-AATTTT
1 ATAATTTTTTATAAATTTT
84558650 A
1 A
84558651 GAATGTATCT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
17 2 0.06
18 7 0.22
19 22 0.69
20 1 0.03
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
ATAATTTTTTATAAATTTT
Found at i:84562415 original size:21 final size:21
Alignment explanation
Indices: 84562380--84562420 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
84562370 GGTAATTTTA
*
84562380 ACTTGACCTGGGATAATTTCG
1 ACTTGACATGGGATAATTTCG
* *
84562401 ACTTGACATGTGATATTTTC
1 ACTTGACATGGGATAATTTC
84562421 TAATTGATCC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (21 bp):
ACTTGACATGGGATAATTTCG
Found at i:84572215 original size:5 final size:5
Alignment explanation
Indices: 84572196--84572227 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
84572186 CCAAATATAA
84572196 AAAAT -AAAT -AAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
84572228 AGGGAAGGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 8 0.31
5 18 0.69
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:84573455 original size:15 final size:15
Alignment explanation
Indices: 84573432--84573462 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
84573422 TGTTTCAATC
84573432 TCTTCCTTTTTTTTT
1 TCTTCCTTTTTTTTT
*
84573447 TCTTTCTTTTTTTTT
1 TCTTCCTTTTTTTTT
84573462 T
1 T
84573463 ATAATCATGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (15 bp):
TCTTCCTTTTTTTTT
Found at i:84587054 original size:22 final size:22
Alignment explanation
Indices: 84587024--84587073 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
84587014 TCCTTTTCCC
*
84587024 CCCTCCCTTCTCTCTTCTTTCT
1 CCCTTCCTTCTCTCTTCTTTCT
* * *
84587046 CCCTTCCTTTTTTTTTCTTTCT
1 CCCTTCCTTCTCTCTTCTTTCT
*
84587068 CTCTTC
1 CCCTTC
84587074 AAAATGATTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (22 bp):
CCCTTCCTTCTCTCTTCTTTCT
Found at i:84587399 original size:11 final size:11
Alignment explanation
Indices: 84587375--84587417 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
84587365 TTCTAATACG
*
84587375 TATATATATTA
1 TATATATTTTA
*
84587386 TATGTATTTTA
1 TATATATTTTA
* *
84587397 TATATATTATG
1 TATATATTTTA
84587408 TATATATTTT
1 TATATATTTT
84587418 TTTAATGCAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (11 bp):
TATATATTTTA
Found at i:84587626 original size:19 final size:20
Alignment explanation
Indices: 84587602--84587649 Score: 73
Period size: 19 Copynumber: 2.5 Consensus size: 20
84587592 TACATTAGTG
84587602 TATATTTTATGTACATAT-A
1 TATATTTTATGTACATATCA
*
84587621 TATATTTTTTGTACATATCA
1 TATATTTTATGTACATATCA
84587641 T-TATTTTAT
1 TATATTTTAT
84587650 ATTATTGTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 24 0.92
20 2 0.08
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.58
Consensus pattern (20 bp):
TATATTTTATGTACATATCA
Found at i:84590959 original size:25 final size:26
Alignment explanation
Indices: 84590903--84590960 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 26
84590893 CACATGTCGT
* *
84590903 ATCCTCTTTTTACATGAAACTCCTGA
1 ATCCCCTTTTTACATGAAACCCCTGA
84590929 ATCCCCTTTTTACATGAAACCCCTGA
1 ATCCCCTTTTTACATGAAACCCCTGA
84590955 A-CCCCT
1 ATCCCCT
84590961 GAAATGGTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 5 0.17
26 25 0.83
ACGTcount: A:0.26, C:0.34, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCCCCTTTTTACATGAAACCCCTGA
Found at i:84597348 original size:18 final size:18
Alignment explanation
Indices: 84597313--84597346 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
84597303 GTACAAGAGC
84597313 CTCAACGCAAGGACAAAG
1 CTCAACGCAAGGACAAAG
*
84597331 CTCAAC-CAAGGGCAAA
1 CTCAACGCAAGGACAAA
84597347 AGAGTGATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.44, C:0.29, G:0.21, T:0.06
Consensus pattern (18 bp):
CTCAACGCAAGGACAAAG
Found at i:84598148 original size:75 final size:75
Alignment explanation
Indices: 84597940--84598440 Score: 602
Period size: 75 Copynumber: 6.6 Consensus size: 75
84597930 CAATTTCCGT
* * ** * *
84597940 TTTTCAATTTCTGCCTTTCAAAAAAATTAACTCATATTGCGAGAGGTGAGTGGAGCCTCAGGACA
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
84598005 TGCTGAGGTA
66 TGCTGAGGTA
* *
84598015 ATTTCAATTTCTGT-TGTCAAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG
1 TTTTCAATTTCTGTCTTTC---AAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG
84598079 ACATGCTGAGGTA
63 ACATGCTGAGGTA
*
84598092 TTTTCAATTTTTGTCTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
84598157 TGCTGAGGTA
66 TGCTGAGGTA
* ** **
84598167 TTTTCAATTTTTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACA
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
*
84598232 CGCTGAGGTAA
66 TGCTGAGGT-A
* *
84598243 TTTT-AATTTCTGT-TTTC-AAAATA-CAACTCATATTGCGAGAAATGAGTTGAGCCTTAAGACA
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
* *
84598304 CGTTGAGGTA
66 TGCTGAGGTA
* * ** *
84598314 TTTTCAATTTCTAT-TTTCAAAAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-G
1 TTTTCAATTTCTGTCTTTC----AAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAA
*
84598377 GTTCACATGCTAAGGTA
62 G---ACATGCTGAGGTA
84598394 TTTTCAATTTCTGTCTTTCAAAAAAAAAATCAACTCATATTGCGAGA
1 TTTTCAATTTCTGTCTTTC---AAAAAAATCAACTCATATTGCGAGA
84598441 GGTGAGTTAA
Statistics
Matches: 374, Mismatches: 36, Indels: 27
0.86 0.08 0.06
Matches are distributed among these distances:
71 5 0.01
72 53 0.14
73 5 0.01
74 7 0.02
75 145 0.39
76 5 0.01
77 69 0.18
78 31 0.08
80 50 0.13
81 4 0.01
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (75 bp):
TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
TGCTGAGGTA
Found at i:84598201 original size:227 final size:222
Alignment explanation
Indices: 84597940--84598447 Score: 696
Period size: 227 Copynumber: 2.2 Consensus size: 222
84597930 CAATTTCCGT
* *
84597940 TTTTCAATTTCTGCCTTTCAAAAAAATTAACTCATATTGCGAGAGGTGAGTGGAGCCTCAGGACA
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTGGAGCCTCAGGACA
*
84598005 TGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTG
66 CGCTGAGGTAATTTCAATTTCTGTTGTC----AAAAAA-CAACTCATATTGCGAGAAATGAGTTG
* * *
84598070 AGCCTCAAGACATGCTGAGGTATTTTCAATTTTTGTCTTTC-AAAAAAATCAACTCATATTGCGA
126 AGCCTCAAGACACGCTGAGGTATTTTCAATTTCTAT-TTTCAAAAAAAATCAACTCATATTGCGA
*
84598134 GAAATGAGTTGAGCCTCAAG-ACATGCTGAGGTA
190 GAAATGAGTTGAGCCTC-AGTACATGCTAAGGTA
* * *
84598167 TTTTCAATTTTTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACA
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTGGAGCCTCAGGACA
* * *
84598232 CGCTGAGGTAATTTTAATTTCTGTTTTCAAAATACAACTCATATTGCGAGAAATGAGTTGAGCCT
66 CGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAACAACTCATATTGCGAGAAATGAGTTGAGCCT
* * * *
84598297 TAAGACACGTTGAGGTATTTTCAATTTCTATTTTCAAAAAAAAAAATCAACTTATATTGCGAGAG
131 CAAGACACGCTGAGGTATTTTCAATTTCTATTTTC---AAAAAAAATCAACTCATATTGCGAGAA
* *
84598362 GTGAGTTGAGCCTCGGTTCACATGCTAAGGTA
193 ATGAGTTGAGCCTCAG-T-ACATGCTAAGGTA
84598394 TTTTCAATTTCTGTCTTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGT
1 TTTTCAATTTCTGTCTTTC---AAAAAAATCAACTCATATTGCGAGAGGTGAGT
84598448 TAAGCTTCAG
Statistics
Matches: 251, Mismatches: 20, Indels: 17
0.87 0.07 0.06
Matches are distributed among these distances:
221 4 0.02
222 57 0.23
223 5 0.02
224 1 0.00
225 37 0.15
227 115 0.46
230 32 0.13
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (222 bp):
TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTGGAGCCTCAGGACA
CGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAACAACTCATATTGCGAGAAATGAGTTGAGCCT
CAAGACACGCTGAGGTATTTTCAATTTCTATTTTCAAAAAAAATCAACTCATATTGCGAGAAATG
AGTTGAGCCTCAGTACATGCTAAGGTA
Found at i:84598474 original size:80 final size:80
Alignment explanation
Indices: 84598260--84598477 Score: 235
Period size: 80 Copynumber: 2.7 Consensus size: 80
84598250 TTCTGTTTTC
** * * * ** *
84598260 AAAATACAACTCATATTGCGAGAAATGAGTTGAGCCTTA-A-GACACGTTGAGGTATTTTCAATT
1 AAAAT-CAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGATCACACACTAAGGTATTTTCAATT
84598323 TCTATTTTCAAAAAAA
65 TCTATTTTCAAAAAAA
* * * * **
84598339 AAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTAAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGATCACACACTAAGGTATTTTCAATTT
*
84598404 CTGTCTTTC-AAAAAA
66 CTAT-TTTCAAAAAAA
* **
84598419 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCTTCAGATCACACACTGTGGTATTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGATCACACACTAAGGTATTTT
84598478 TTTCAATTTA
Statistics
Matches: 116, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
78 28 0.24
79 5 0.04
80 79 0.68
81 4 0.03
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (80 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGATCACACACTAAGGTATTTTCAATTT
CTATTTTCAAAAAAA
Found at i:84599773 original size:22 final size:22
Alignment explanation
Indices: 84599743--84599792 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
84599733 TCCTTTTCCC
* *
84599743 CCCTCCCTTCTCTCTTCTTTCT
1 CCCTTCCTTATCTCTTCTTTCT
* *
84599765 CCCTTCCTTATTTTTTCTTTCT
1 CCCTTCCTTATCTCTTCTTTCT
*
84599787 CTCTTC
1 CCCTTC
84599793 AAAATGATTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.02, C:0.42, G:0.00, T:0.56
Consensus pattern (22 bp):
CCCTTCCTTATCTCTTCTTTCT
Found at i:84600124 original size:11 final size:11
Alignment explanation
Indices: 84600100--84600142 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
84600090 TTCTAATACG
*
84600100 TATATATATTA
1 TATATATTTTA
*
84600111 TATGTATTTTA
1 TATATATTTTA
* *
84600122 TATATATTATG
1 TATATATTTTA
84600133 TATATATTTT
1 TATATATTTT
84600143 TTTAATGCAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (11 bp):
TATATATTTTA
Found at i:84600255 original size:18 final size:18
Alignment explanation
Indices: 84600206--84600255 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
84600196 TCATCTTATG
* *
84600206 TATATAT-TCTTAAATAT
1 TATATATATATTAAATAA
*
84600223 TAT-TATATAAATAAATAA
1 TATATATAT-ATTAAATAA
84600241 TATATATATATTAAA
1 TATATATATATTAAA
84600256 ATACCATATT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
16 3 0.12
17 4 0.15
18 14 0.54
19 5 0.19
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (18 bp):
TATATATATATTAAATAA
Found at i:84605958 original size:3 final size:3
Alignment explanation
Indices: 84605950--84605975 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
84605940 TTGTCATTTA
84605950 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
84605976 AGGACACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:84607239 original size:8 final size:8
Alignment explanation
Indices: 84607228--84607252 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
84607218 TTTTTTTTTC
84607228 TGTATGTG
1 TGTATGTG
84607236 TGTATGTG
1 TGTATGTG
84607244 TGTATGTG
1 TGTATGTG
84607252 T
1 T
84607253 AATATAGGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.36, T:0.52
Consensus pattern (8 bp):
TGTATGTG
Found at i:84613595 original size:76 final size:76
Alignment explanation
Indices: 84613462--84613605 Score: 200
Period size: 76 Copynumber: 1.9 Consensus size: 76
84613452 AAAACTTTTA
* * * *
84613462 AATTTAATAATTTAAATTCCAACCATTTGATTTTTCACGTGTGAAATATTTAAAAGAGAACATGA
1 AATTTAATAATTTAAATTCAAACCATTTGATTTATCACGTGTCAAATAATTAAAAGAGAACATGA
84613527 AAAGTTTTTCT
66 AAAGTTTTTCT
** * *
84613538 AATTTAATAATTTAAATTCAAACCATTAT-ATTTATCTTGTGTCCAATAATTACAAGAGAACATG
1 AATTTAATAATTTAAATTCAAACCATT-TGATTTATCACGTGTCAAATAATTAAAAGAGAACATG
84613602 AAAA
65 AAAA
84613606 AATTAACGCC
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
76 58 0.98
77 1 0.02
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (76 bp):
AATTTAATAATTTAAATTCAAACCATTTGATTTATCACGTGTCAAATAATTAAAAGAGAACATGA
AAAGTTTTTCT
Found at i:84614513 original size:13 final size:13
Alignment explanation
Indices: 84614497--84614522 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
84614487 TAGCTTTATT
84614497 TATTATATATATA
1 TATTATATATATA
84614510 TATTATATATATA
1 TATTATATATATA
84614523 AAACATGTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TATTATATATATA
Found at i:84616154 original size:10 final size:10
Alignment explanation
Indices: 84616139--84616169 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
84616129 ATATAATGAA
*
84616139 TATTTTAATT
1 TATTTTAAAT
84616149 TATTTTAAAT
1 TATTTTAAAT
84616159 TATTTTAAAT
1 TATTTTAAAT
84616169 T
1 T
84616170 TTTAACTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (10 bp):
TATTTTAAAT
Found at i:84616295 original size:7 final size:7
Alignment explanation
Indices: 84616283--84616323 Score: 82
Period size: 7 Copynumber: 5.9 Consensus size: 7
84616273 ACAGCACTGC
84616283 TCACCAG
1 TCACCAG
84616290 TCACCAG
1 TCACCAG
84616297 TCACCAG
1 TCACCAG
84616304 TCACCAG
1 TCACCAG
84616311 TCACCAG
1 TCACCAG
84616318 TCACCA
1 TCACCA
84616324 CATTCATCTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.29, C:0.44, G:0.12, T:0.15
Consensus pattern (7 bp):
TCACCAG
Found at i:84626262 original size:19 final size:19
Alignment explanation
Indices: 84626238--84626277 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
84626228 CTGAATCAGC
* *
84626238 TTCAGAACATGATTCTGGG
1 TTCAGAACACGATTCTAGG
84626257 TTCAGAACACGATTCTAGG
1 TTCAGAACACGATTCTAGG
84626276 TT
1 TT
84626278 TTGTATAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.33
Consensus pattern (19 bp):
TTCAGAACACGATTCTAGG
Found at i:84632234 original size:71 final size:71
Alignment explanation
Indices: 84632114--84632256 Score: 259
Period size: 71 Copynumber: 2.0 Consensus size: 71
84632104 AATGTTGATG
*
84632114 TATGATTCTGATTGGCTGGGCCAGATCTTAAAGAACTAGAAACTACATTTGGTCATGCTGATTAA
1 TATGATTCTAATTGGCTGGGCCAGATCTTAAAGAACTAGAAACTACATTTGGTCATGCTGATTAA
84632179 TGGAAT
66 TGGAAT
* *
84632185 TATGATTCTAATTGGCTGGGCCAGATCTTTAAGAACTAGAAACTGCATTTGGTCATGCTGATTAA
1 TATGATTCTAATTGGCTGGGCCAGATCTTAAAGAACTAGAAACTACATTTGGTCATGCTGATTAA
84632250 TGGAAT
66 TGGAAT
84632256 T
1 T
84632257 CCACCAATCT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 69 1.00
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (71 bp):
TATGATTCTAATTGGCTGGGCCAGATCTTAAAGAACTAGAAACTACATTTGGTCATGCTGATTAA
TGGAAT
Found at i:84634661 original size:3 final size:3
Alignment explanation
Indices: 84634655--84634809 Score: 93
Period size: 3 Copynumber: 51.3 Consensus size: 3
84634645 TAAATAATAA
* ** * **
84634655 TAT TAT TAT TAT TTT TGC TAT TAT TGTT TAT TAT CGT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT
* * *
84634701 T-T TAT T-T TAC TAT TAT T-T ATAT TCAT TAT TGT TAT TAT TAC TAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT T-AT TAT TAT TAT TAT TAT TAT
* * * * * *
84634745 CAT TAT TAT TTT TAC TAT TAC TAT TAT TTT CTAT AAT TAT TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT
*
84634790 CTAT CAT TAT TAT TAT TAT T
1 -TAT TAT TAT TAT TAT TAT T
84634810 TTCCTATCAT
Statistics
Matches: 112, Mismatches: 31, Indels: 18
0.70 0.19 0.11
Matches are distributed among these distances:
2 6 0.05
3 97 0.87
4 9 0.08
ACGTcount: A:0.27, C:0.07, G:0.03, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:84634821 original size:3 final size:3
Alignment explanation
Indices: 84634815--84634846 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
84634805 TTATTTTCCT
84634815 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
84634847 ATCTTATTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:84635008 original size:20 final size:19
Alignment explanation
Indices: 84634981--84635022 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
84634971 TACTATTTCA
*
84634981 TTTATTA-TTCCTTTATTAT
1 TTTATTATTTCATTT-TTAT
84635000 TTTATTTATTTCATTTTTAT
1 TTTA-TTATTTCATTTTTAT
84635020 TTT
1 TTT
84635023 GTTTTTGTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 4 0.20
20 10 0.50
21 6 0.30
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTATTATTTCATTTTTAT
Found at i:84641315 original size:60 final size:59
Alignment explanation
Indices: 84641244--84641379 Score: 170
Period size: 60 Copynumber: 2.3 Consensus size: 59
84641234 AGTGTTAACT
84641244 GGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCT-TAC-AGTAAC-AGAGTATACTG
1 GGCC-TAGCCCATATCAATATTAATCTGGGCCATAG-CCCTATACAAGT--CGAGA-TATACTG
* * *
84641305 GGCCTAGCCCATATCAGTATTAATCTGGGCCGTAGCCCTATACAAGTCGAGATATATTG
1 GGCCTAGCCCATATCAATATTAATCTGGGCCATAGCCCTATACAAGTCGAGATATACTG
*
84641364 GGCCTTGCCCATATCA
1 GGCCTAGCCCATATCA
84641380 GCACAGTTGG
Statistics
Matches: 68, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
59 26 0.38
60 35 0.51
61 7 0.10
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.26
Consensus pattern (59 bp):
GGCCTAGCCCATATCAATATTAATCTGGGCCATAGCCCTATACAAGTCGAGATATACTG
Found at i:84643870 original size:12 final size:12
Alignment explanation
Indices: 84643855--84643879 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
84643845 ACAATAAATA
84643855 ATAAAAATTTTC
1 ATAAAAATTTTC
84643867 ATAAAAATTTTC
1 ATAAAAATTTTC
84643879 A
1 A
84643880 AACATACATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
ATAAAAATTTTC
Found at i:84649719 original size:21 final size:20
Alignment explanation
Indices: 84649694--84649732 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
84649684 ATTTATTTAT
*
84649694 TTTAATTACCTAAACCCAAAA
1 TTTAACTACC-AAACCCAAAA
*
84649715 TTTAACTACCCAACCCAA
1 TTTAACTACCAAACCCAA
84649733 CCAACAATCT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.26
Consensus pattern (20 bp):
TTTAACTACCAAACCCAAAA
Found at i:84651466 original size:64 final size:64
Alignment explanation
Indices: 84651392--84651513 Score: 208
Period size: 64 Copynumber: 1.9 Consensus size: 64
84651382 TTTTGTGCTT
*
84651392 TTTTTGTTGATTTACTCTACAGAAACTCAAAGAAAAAGCTGCATTCAGAAACCCAGATTCACTC
1 TTTTTGTTGATTTACTCTACAGAAACTCAAAGAAAAACCTGCATTCAGAAACCCAGATTCACTC
* * *
84651456 TTTTTGTTGATTTACTCTACAGAAACTCAAGGACAAACCTGCATTCAGAAACCTAGAT
1 TTTTTGTTGATTTACTCTACAGAAACTCAAAGAAAAACCTGCATTCAGAAACCCAGAT
84651514 GAATTTTACT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 54 1.00
ACGTcount: A:0.35, C:0.21, G:0.13, T:0.30
Consensus pattern (64 bp):
TTTTTGTTGATTTACTCTACAGAAACTCAAAGAAAAACCTGCATTCAGAAACCCAGATTCACTC
Found at i:84653602 original size:24 final size:24
Alignment explanation
Indices: 84653570--84653618 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
84653560 ATTTATCATA
84653570 TTAATTTGTGATACTTCTATAGTG
1 TTAATTTGTGATACTTCTATAGTG
84653594 TTAATTTGTGATACTTCTATAGTG
1 TTAATTTGTGATACTTCTATAGTG
84653618 T
1 T
84653619 CAGAAATGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.08, G:0.16, T:0.51
Consensus pattern (24 bp):
TTAATTTGTGATACTTCTATAGTG
Found at i:84655146 original size:28 final size:27
Alignment explanation
Indices: 84655114--84655185 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 27
84655104 TTAAGATGAC
84655114 TATATAAAAAATTTAATAAATAAAAAAA
1 TATATAAAAAATTTAAT-AATAAAAAAA
* * * *
84655142 TATATAAAATTATTAAATATTAAAATAA
1 TATATAAAA-AATTTAATAATAAAAAAA
84655170 TATAATAAAAATATTT
1 TAT-ATAAAAA-ATTT
84655186 TTTTAAAAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
28 20 0.57
29 15 0.43
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (27 bp):
TATATAAAAAATTTAATAATAAAAAAA
Found at i:84655625 original size:21 final size:20
Alignment explanation
Indices: 84655600--84655638 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
84655590 AATATATAAT
*
84655600 TTTAATTACCTAAACCCAAAA
1 TTTAACTACC-AAACCCAAAA
*
84655621 TTTAACTACCCAACCCAA
1 TTTAACTACCAAACCCAA
84655639 CCAACAATCC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.26
Consensus pattern (20 bp):
TTTAACTACCAAACCCAAAA
Found at i:84658991 original size:17 final size:17
Alignment explanation
Indices: 84658942--84659033 Score: 61
Period size: 17 Copynumber: 5.5 Consensus size: 17
84658932 AGTAAATGAA
*
84658942 AGAAAAAGGAATGAAAT
1 AGAAAAAGGAATGAAAC
* *
84658959 A-AAAGAAAGAAAGAAAC
1 AGAAA-AAGGAATGAAAC
*
84658976 AGAATAAGGAATGAAAC
1 AGAAAAAGGAATGAAAC
84658993 AGAGAAGGAAGGAA-GAAA-
1 AGA-AA--AAGGAATGAAAC
*
84659011 AG--AAAGGAAAGAAA-
1 AGAAAAAGGAATGAAAC
84659025 AGAAAAAGG
1 AGAAAAAGG
84659034 GAAAATTGAG
Statistics
Matches: 60, Mismatches: 7, Indels: 17
0.71 0.08 0.20
Matches are distributed among these distances:
13 6 0.10
14 6 0.10
15 1 0.02
16 8 0.13
17 24 0.40
18 5 0.08
19 4 0.07
20 6 0.10
ACGTcount: A:0.66, C:0.02, G:0.27, T:0.04
Consensus pattern (17 bp):
AGAAAAAGGAATGAAAC
Found at i:84660072 original size:6 final size:6
Alignment explanation
Indices: 84660061--84660093 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
84660051 TGTGTACCGC
*
84660061 TACTGT TACTGT TACTGT TACTGT TACCGT TAC
1 TACTGT TACTGT TACTGT TACTGT TACTGT TAC
84660094 GGTGTATTCC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.18, C:0.21, G:0.15, T:0.45
Consensus pattern (6 bp):
TACTGT
Found at i:84660284 original size:24 final size:22
Alignment explanation
Indices: 84660238--84660284 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 22
84660228 ATTTGACTGT
* *
84660238 TACTGAATAAATGATTGACTGA
1 TACTGAATAAATGATTAAATGA
84660260 TACTGAATAATAATGATTAAATGA
1 TACTGAAT-A-AATGATTAAATGA
84660284 T
1 T
84660285 TGTTATTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 8 0.38
23 1 0.05
24 12 0.57
ACGTcount: A:0.45, C:0.06, G:0.15, T:0.34
Consensus pattern (22 bp):
TACTGAATAAATGATTAAATGA
Found at i:84666481 original size:20 final size:19
Alignment explanation
Indices: 84666454--84666495 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
84666444 TGCTATTTCA
*
84666454 TTTATTA-TTCCTTTATTAT
1 TTTATTATTTCATTT-TTAT
84666473 TTTATTTATTTCATTTTTAT
1 TTTA-TTATTTCATTTTTAT
84666493 TTT
1 TTT
84666496 GTTTTTGTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 4 0.20
20 10 0.50
21 6 0.30
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTATTATTTCATTTTTAT
Found at i:84682323 original size:24 final size:26
Alignment explanation
Indices: 84682291--84682339 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 26
84682281 TATAAAAAAT
84682291 TTTAATAAATA-AAAAAT-ATATAAA
1 TTTAATAAATATAAAAATAATATAAA
* *
84682315 TTTATTAAATATTAAAATAATATAA
1 TTTAATAAATATAAAAATAATATAA
84682340 TATAAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 10 0.48
25 5 0.24
26 6 0.29
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (26 bp):
TTTAATAAATATAAAAATAATATAAA
Found at i:84684568 original size:19 final size:18
Alignment explanation
Indices: 84684535--84684582 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
84684525 ATTTTCCCTT
* *
84684535 TTTCTTTTTCTTTTCTTC-
1 TTTCTTTCTCTTTTC-ACG
84684553 TTTCTTTCTCTCTTTCACG
1 TTTCTTTCTCT-TTTCACG
84684572 TTTCTTTCTCT
1 TTTCTTTCTCT
84684583 GTAACTTTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 11 0.42
19 15 0.58
ACGTcount: A:0.02, C:0.27, G:0.02, T:0.69
Consensus pattern (18 bp):
TTTCTTTCTCTTTTCACG
Found at i:84684602 original size:27 final size:27
Alignment explanation
Indices: 84684572--84684626 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
84684562 CTCTTTCACG
84684572 TTTCTTTCTCTGTAAC-TTTCTATTATT
1 TTTCTTTCT-TGTAACTTTTCTATTATT
* *
84684599 TTTCTTTCTTTTTACTTTTCTATTATT
1 TTTCTTTCTTGTAACTTTTCTATTATT
84684626 T
1 T
84684627 CATTTCTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 4 0.16
27 21 0.84
ACGTcount: A:0.13, C:0.16, G:0.02, T:0.69
Consensus pattern (27 bp):
TTTCTTTCTTGTAACTTTTCTATTATT
Found at i:84686024 original size:17 final size:17
Alignment explanation
Indices: 84686002--84686047 Score: 74
Period size: 17 Copynumber: 2.7 Consensus size: 17
84685992 AGTGTGAACT
*
84686002 GTGAACTGTGAACCACC
1 GTGAACCGTGAACCACC
*
84686019 GTGAACCGTGAACCACT
1 GTGAACCGTGAACCACC
84686036 GTGAACCGTGAA
1 GTGAACCGTGAA
84686048 GCGTGAAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.30, C:0.26, G:0.26, T:0.17
Consensus pattern (17 bp):
GTGAACCGTGAACCACC
Found at i:84687002 original size:24 final size:26
Alignment explanation
Indices: 84686970--84687018 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 26
84686960 TATAAAAAAT
84686970 TTTAATAAATA-AAAAAT-ATATAAA
1 TTTAATAAATATAAAAATAATATAAA
* *
84686994 TTTATTAAATATTAAAATAATATAA
1 TTTAATAAATATAAAAATAATATAA
84687019 TATAAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 10 0.48
25 5 0.24
26 6 0.29
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (26 bp):
TTTAATAAATATAAAAATAATATAAA
Found at i:84690858 original size:26 final size:26
Alignment explanation
Indices: 84690829--84690935 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
84690819 TGATACAAAT
84690829 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
84690855 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
84690881 TTATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
84690907 TGATAATGGTTTAGGTAAATGTT-CA
1 TGATAATGGGTTAGGTAAATGTTCCA
84690932 TGAT
1 TGAT
84690936 GGACATTTCA
Statistics
Matches: 74, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
25 6 0.08
26 68 0.92
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:84698367 original size:21 final size:23
Alignment explanation
Indices: 84698324--84698367 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
84698314 ATAAGTAATG
*
84698324 TATATGAAATAATTCAAATAAGA
1 TATATGAAAAAATTCAAATAAGA
*
84698347 TATATTAAAAAATT-AAA-AAGA
1 TATATGAAAAAATTCAAATAAGA
84698368 ATAATATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 4 0.21
22 3 0.16
23 12 0.63
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.30
Consensus pattern (23 bp):
TATATGAAAAAATTCAAATAAGA
Found at i:84698490 original size:3 final size:3
Alignment explanation
Indices: 84698476--84698623 Score: 117
Period size: 3 Copynumber: 50.0 Consensus size: 3
84698466 TGATACTATG
* * *
84698476 AAT AAGT AAT AAT AAT AA- AAT AAT GAAT AAT AAT AAT AAT CAC AAC
1 AAT AA-T AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT
* * *
84698522 AAT -AT AAAT AAT AAT AAA AAC AAT AAT AGT AAT AA- AAT -AT AAT
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
84698565 AAT AAT AGT AAT -AC AAT AGT AAT AAT AAC AAT AAT ATT AAT AAA AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
84698612 AAA AAT AAT AAT
1 AAT AAT AAT AAT
84698624 TTTAAACAAC
Statistics
Matches: 114, Mismatches: 23, Indels: 16
0.75 0.15 0.10
Matches are distributed among these distances:
2 9 0.08
3 97 0.85
4 8 0.07
ACGTcount: A:0.65, C:0.04, G:0.03, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:84700090 original size:44 final size:44
Alignment explanation
Indices: 84700037--84700959 Score: 396
Period size: 44 Copynumber: 21.1 Consensus size: 44
84700027 CAACTTCAGG
* *
84700037 GAGATAAGATCTGCAATCTTCAGTCTGCTCCTCTACTGCTTCGA
1 GAGATAAGATCTGCAATCTTCAGTCTGCTCCACTACTGCTTAGA
* * * *
84700081 GAGATAAGATCTGCATTCTTCAGCCTGTTCCATTACTGCTTAGA
1 GAGATAAGATCTGCAATCTTCAGTCTGCTCCACTACTGCTTAGA
* * * * * * * * *
84700125 AAGATAAG-GCT--AGTGGCTTAAATCTGCCTCC-CTGCTACCTCGA
1 GAGATAAGATCTGCAAT--CTTCAGTCTG-CTCCACTACTGCTTAGA
* * * * *
84700168 GAAGATAAGATTTACCATCATC-GATCTGCTCCACTACTGCTTAGG
1 G-AGATAAGATCTGCAATCTTCAG-TCTGCTCCACTACTGCTTAGA
* * * * *
84700213 GAGATAAGATCTGTAATTTTCAGCCTGCTCCACTGCTGCTCAGA
1 GAGATAAGATCTGCAATCTTCAGTCTGCTCCACTACTGCTTAGA
* * * * *
84700257 GAGATAAG-GCT-CACCGTCTTCAATCTGCTCTACTACTACTTAGA
1 GAGATAAGATCTGCA--ATCTTCAGTCTGCTCCACTACTGCTTAGA
* * * * * *
84700301 GAGATAAGATCTGTAATTTTCAGACTGCTCCACTACTACTTTGG
1 GAGATAAGATCTGCAATCTTCAGTCTGCTCCACTACTGCTTAGA
* *
84700345 GAGATAAGA-CT-CACGTCTTC-GATCTGCTCCACTACTGCTTAGG
1 GAGATAAGATCTGCA-ATCTTCAG-TCTGCTCCACTACTGCTTAGA
* * * * *
84700388 GAGATAAGATTTGTAATTTTCAGCCTGCTCCACTACTGCTTAGG
1 GAGATAAGATCTGCAATCTTCAGTCTGCTCCACTACTGCTTAGA
* * ** *
84700432 GAGATAAGGGTC-ACCGTCTTC-GATCTACTCCACTACTGCTTA-A
1 GAGATAA-GATCTGCAATCTTCAG-TCTGCTCCACTACTGCTTAGA
* * * * *
84700475 GGAGATAAGATTTGTAATTTTTAG-CTTGCTCCACTACTGCTTAAA
1 -GAGATAAGATCTGCAATCTTCAGTC-TGCTCCACTACTGCTTAGA
* * * * *
84700520 GAGATAAG-GCT-CACCATCTT-TGATCTACTCCACTACTACTTAGG
1 GAGATAAGATCTGCA--ATCTTCAG-TCTGCTCCACTACTGCTTAGA
* ** * * * *
84700564 GAGATAATATCTATAATTTTTAGCCTGCTCCACTACTGCTTAGG
1 GAGATAAGATCTGCAATCTTCAGTCTGCTCCACTACTGCTTAGA
* * * * * * *
84700608 GAGATAAG-GCT-CACCGTTTTC-GACCTGCTCCATTACTACTTAGG
1 GAGATAAGATCTGCA--ATCTTCAG-TCTGCTCCACTACTGCTTAGA
* * ** * * *
84700652 GAGATATGATCTACAATCTTCAACCTACTCCACTATTGCTTAGG
1 GAGATAAGATCTGCAATCTTCAGTCTGCTCCACTACTGCTTAGA
* * * * *
84700696 GAGATATGATTTGCAATCTTCAGCCTACTCCACTACTGCTTAGG
1 GAGATAAGATCTGCAATCTTCAGTCTGCTCCACTACTGCTTAGA
* * * *
84700740 GAGATAGGA--TG--GTCTTC-GATCTGCTCCACCACTGCCTA-A
1 GAGATAAGATCTGCAATCTTCAG-TCTGCTCCACTACTGCTTAGA
* * * * *
84700779 GGAGACAAGA-CTTACAATCTTCAGCCTACTCCACTACTGCTTAGG
1 -GAGATAAGATC-TGCAATCTTCAGTCTGCTCCACTACTGCTTAGA
* * **** * * * * * *
84700824 GACAT-AGA-ATGGTGGCTTAAATTTGTTCCACTACTACTTAGG
1 GAGATAAGATCTGCAATCTTCAGTCTGCTCCACTACTGCTTAGA
* * * * *
84700866 GAGATAAAATTTGCCATCTTC-GATCTACTCCACTACTGCTTAGG
1 GAGATAAGATCTGCAATCTTCAG-TCTGCTCCACTACTGCTTAGA
* * *
84700910 GAGACAAGATCTACAATCTTCA-TCCTACTCCACTACTGCTTAGA
1 GAGATAAGATCTGCAATCTTCAGT-CTGCTCCACTACTGCTTAGA
84700954 GAGATA
1 GAGATA
84700960 GGGTGGTGGC
Statistics
Matches: 649, Mismatches: 178, Indels: 104
0.70 0.19 0.11
Matches are distributed among these distances:
39 1 0.00
40 27 0.04
41 2 0.00
42 33 0.05
43 66 0.10
44 484 0.75
45 31 0.05
46 4 0.01
47 1 0.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.31
Consensus pattern (44 bp):
GAGATAAGATCTGCAATCTTCAGTCTGCTCCACTACTGCTTAGA
Found at i:84700262 original size:88 final size:88
Alignment explanation
Indices: 84700188--84700701 Score: 679
Period size: 88 Copynumber: 5.9 Consensus size: 88
84700178 TTTACCATCA
*
84700188 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGCTCCACTGCTGCT
1 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGCTCCACTACTGCT
* *
84700253 CAGAGAGATAAGGCTCACCGTCT
66 TAGGGAGATAAGGCTCACCGTCT
* * * * * *
84700276 TCAATCTGCTCTACTACTACTTAGAGAGATAAGATCTGTAATTTTCAGACTGCTCCACTACTACT
1 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGCTCCACTACTGCT
* *
84700341 TTGGGAGATAAGACTCA-CGTCT
66 TAGGGAGATAAGGCTCACCGTCT
*
84700363 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGTAATTTTCAGCCTGCTCCACTACTGCT
1 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGCTCCACTACTGCT
*
84700428 TAGGGAGATAAGGGTCACCGTCT
66 TAGGGAGATAAGGCTCACCGTCT
* * * * *
84700451 TCGATCTACTCCACTACTGCTTAAGGAGATAAGATTTGTAATTTTTAGCTTGCTCCACTACTGCT
1 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGCTCCACTACTGCT
** *
84700516 TAAAGAGATAAGGCTCACCATCT
66 TAGGGAGATAAGGCTCACCGTCT
* * * * * *
84700539 TTGATCTACTCCACTACTACTTAGGGAGATAATATCTATAATTTTTAGCCTGCTCCACTACTGCT
1 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGCTCCACTACTGCT
*
84700604 TAGGGAGATAAGGCTCACCGTTT
66 TAGGGAGATAAGGCTCACCGTCT
* * * * ** * * * *
84700627 TCGACCTGCTCCATTACTACTTAGGGAGATATGATCTACAATCTTCAACCTACTCCACTATTGCT
1 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGCTCCACTACTGCT
84700692 TAGGGAGATA
66 TAGGGAGATA
84700702 TGATTTGCAA
Statistics
Matches: 373, Mismatches: 52, Indels: 2
0.87 0.12 0.00
Matches are distributed among these distances:
87 77 0.21
88 296 0.79
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (88 bp):
TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGCTCCACTACTGCT
TAGGGAGATAAGGCTCACCGTCT
Found at i:84700405 original size:175 final size:176
Alignment explanation
Indices: 84700170--84700663 Score: 670
Period size: 175 Copynumber: 2.8 Consensus size: 176
84700160 TACCTCGAGA
* * *
84700170 AGATAAGATTTACCATCATCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCA
1 AGATAAGACTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCA
* * * * *
84700235 GCCTGCTCCACTGCTGCTCAGAGAGATAAGGCTCACCGTCTTCAATCTGCTCTACTACTACTTAG
66 GCCTGCTCCACTACTGCTTAGGGAGATAAGGCTCACCGTCTTCGATCTGCTCCACTACTACTTAG
***
84700300 AGAGATAAGATCTGTAATTTTCAGAC-TGCTCCACTACTACTTTGGG
131 AGAGATAAGATCTGTAATTTTCAG-CTTGCTCCACTACTACTTAAAG
* *
84700346 AGATAAGACTCA-CGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGTAATTTTCA
1 AGATAAGACTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCA
* * *
84700410 GCCTGCTCCACTACTGCTTAGGGAGATAAGGGTCACCGTCTTCGATCTACTCCACTACTGCTTA-
66 GCCTGCTCCACTACTGCTTAGGGAGATAAGGCTCACCGTCTTCGATCTGCTCCACTACTACTTAG
* * *
84700474 AGGAGATAAGATTTGTAATTTTTAGCTTGCTCCACTACTGCTTAAAG
131 A-GAGATAAGATCTGTAATTTTCAGCTTGCTCCACTACTACTTAAAG
* * * * * * *
84700521 AGATAAGGCTCACCATCTTTGATCTACTCCACTACTACTTAGGGAGATAATATCTATAATTTTTA
1 AGATAAGACTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCA
* * *
84700586 GCCTGCTCCACTACTGCTTAGGGAGATAAGGCTCACCGTTTTCGACCTGCTCCATTACTACTTAG
66 GCCTGCTCCACTACTGCTTAGGGAGATAAGGCTCACCGTCTTCGATCTGCTCCACTACTACTTAG
* *
84700651 GGAGATATGATCT
131 AGAGATAAGATCT
84700664 ACAATCTTCA
Statistics
Matches: 277, Mismatches: 37, Indels: 8
0.86 0.11 0.02
Matches are distributed among these distances:
174 2 0.01
175 153 0.55
176 122 0.44
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (176 bp):
AGATAAGACTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCA
GCCTGCTCCACTACTGCTTAGGGAGATAAGGCTCACCGTCTTCGATCTGCTCCACTACTACTTAG
AGAGATAAGATCTGTAATTTTCAGCTTGCTCCACTACTACTTAAAG
Found at i:84700637 original size:132 final size:133
Alignment explanation
Indices: 84700193--84700959 Score: 468
Period size: 132 Copynumber: 5.9 Consensus size: 133
84700183 CATCATCGAT
* * * *
84700193 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTA-ATTTTC-AGCCTGCTCCACTGCTGCTCAG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGCACGTTTTCGA-CCTGCTCCACTACTGCTTAG
** * * * * *
84700256 AGAGATAAGGCTCACCGTCTTCAATCTGCTCTACTACTACTTAGAGAGATAAGATCTGTAATTTT
65 AGAGATAAGGCTCACAATCTTCAACCTACTCCACTACTACTTAGGGAGATAAGATCTATAATTTT
*
84700321 CAGA
130 CAGC
* * * * *
84700325 CTGCTCCACTACTACTTTGGGAGATAAGA-CT-CACGTCTTCGATCTGCTCCACTACTGCTTAGG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGCACGTTTTCGACCTGCTCCACTACTGCTTAGA
** *** * * * * * *** *
84700388 GAGATAAGATTTGTAATTTTCAGCCTGCTCCACTACTGCTTAGGGAGATAAGGGTC-ACCGTCTT
66 GAGATAAGGCTCACAATCTTCAACCTACTCCACTACTACTTAGGGAGATAA-GATCTATAATTTT
*
84700452 C-GAT
130 CAG-C
* * * * ** * * *
84700456 CTACTCCACTACTGCTTAAGGAGATAAGATTTGTAATTTTTAG-CTTGCTCCACTACTGCTTAAA
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGCACGTTTTCGACCTGCTCCACTACTGCTTAGA
* ** * * *
84700520 GAGATAAGGCTCACCATCTTTGATCTACTCCACTACTACTTAGGGAGATAATATCTATAATTTTT
66 GAGATAAGGCTCACAATCTTCAACCTACTCCACTACTACTTAGGGAGATAAGATCTATAATTTTC
84700585 AGC
131 AGC
* * *
84700588 CTGCTCCACTACTGCTTAGGGAGATAAG-GCT-CACCGTTTTCGACCTGCTCCATTACTACTTAG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGCA-CGTTTTCGACCTGCTCCACTACTGCTTAG
* * * * * * * ** *
84700651 GGAGAT-ATGATCTACAATCTTCAACCTACTCCACTATTGCTTAGGGAGATATGATTTGCAATCT
65 AGAGATAAGGCTC-ACAATCTTCAACCTACTCCACTACTACTTAGGGAGATAAGATCTATAATTT
84700715 TCAGC
129 TCAGC
* * * * * *
84700720 CTACTCCACTACTGCTTAGGGAGATAGGA--TG---GTCTTCGATCTGCTCCACCACTGCCTA-A
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGCACGTTTTCGACCTGCTCCACTACTGCTTAGA
* * * * * * *
84700779 GGAGACAAGACTTACAATCTTCAGCCTACTCCACTACTGCTTAGGGACATAGAATGGTGGCT-TA
66 -GAGATAAGGCTCACAATCTTCAACCTACTCCACTACTACTTAGGGAGAT--AA-GAT--CTATA
*
84700843 AATTT--G-
125 ATTTTCAGC
* * * * * * * *
84700849 -T--TCCACTACTACTTAGGGAGATAAAATTTGC-CATCTTCGATCTACTCCACTACTGCTTAGG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGCACGTTTTCGACCTGCTCCACTACTGCTTAGA
* * * * *
84700910 GAGACAA-GATCTACAATCTTCATCCTACTCCACTACTGCTTAGAGAGATA
66 GAGATAAGGCTC-ACAATCTTCAACCTACTCCACTACTACTTAGGGAGATA
84700960 GGGTGGTGGC
Statistics
Matches: 480, Mismatches: 129, Indels: 56
0.72 0.19 0.08
Matches are distributed among these distances:
126 22 0.05
128 63 0.13
129 3 0.01
130 69 0.14
131 105 0.22
132 211 0.44
133 7 0.01
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.31
Consensus pattern (133 bp):
CTGCTCCACTACTGCTTAGGGAGATAAGATCTGCACGTTTTCGACCTGCTCCACTACTGCTTAGA
GAGATAAGGCTCACAATCTTCAACCTACTCCACTACTACTTAGGGAGATAAGATCTATAATTTTC
AGC
Found at i:84700727 original size:88 final size:88
Alignment explanation
Indices: 84700170--84700959 Score: 477
Period size: 88 Copynumber: 9.1 Consensus size: 88
84700160 TACCTCGAGA
* * * * * * ** *
84700170 AGATAAGATTTACCATCATCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCA
1 AGATAAGACTTACAATCTTCGACCTACTCCACTACTGCTTAGGGAGATATGATCTACAATCTTCA
* * * *
84700235 GCCTGCTCCACTGCTGCTCAGAG
66 ACCTGCTCCACTACTGCTTAGGG
* * ** * * * * * * * ** *
84700258 AGATAAGGCTCACCGTCTTCAATCTGCTCTACTACTACTTAGAGAGATAAGATCTGTAATTTTCA
1 AGATAAGACTTACAATCTTCGACCTACTCCACTACTGCTTAGGGAGATATGATCTACAATCTTCA
* *
84700323 GA-CTGCTCCACTACTACTTTGGG
66 -ACCTGCTCCACTACTGCTTAGGG
* * * * * * ** *
84700346 AGATAAGACTCAC-GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGTAATTTTCA
1 AGATAAGACTTACAATCTTCGACCTACTCCACTACTGCTTAGGGAGATATGATCTACAATCTTCA
*
84700410 GCCTGCTCCACTACTGCTTAGGG
66 ACCTGCTCCACTACTGCTTAGGG
** * ** * * * * ** * *
84700433 AGATAAGGGTCACCGTCTTCGATCTACTCCACTACTGCTTAAGGAGATAAGATTTGTAATTTTTA
1 AGATAAGACTTACAATCTTCGACCTACTCCACTACTGCTTAGGGAGATATGATCTACAATCTTCA
* * **
84700498 GCTTGCTCCACTACTGCTTAAAG
66 ACCTGCTCCACTACTGCTTAGGG
* * * * * * * * *
84700521 AGATAAGGCTCACCATCTTTGATCTACTCCACTACTACTTAGGGAGATAAT-ATCTATAATTTTT
1 AGATAAGACTTACAATCTTCGACCTACTCCACTACTGCTTAGGGAGAT-ATGATCTACAATCTTC
*
84700585 AGCCTGCTCCACTACTGCTTAGGG
65 AACCTGCTCCACTACTGCTTAGGG
* * ** * * * *
84700609 AGATAAGGCTCACCGTTTTCGACCTGCTCCATTACTACTTAGGGAGATATGATCTACAATCTTCA
1 AGATAAGACTTACAATCTTCGACCTACTCCACTACTGCTTAGGGAGATATGATCTACAATCTTCA
* *
84700674 ACCTACTCCACTATTGCTTAGGG
66 ACCTGCTCCACTACTGCTTAGGG
* * * * **
84700697 AGATATGATTTGCAATCTTC-AGCCTACTCCACTACTGCTTAGGGAGATAGGA--T--GGTCTTC
1 AGATAAGACTTACAATCTTCGA-CCTACTCCACTACTGCTTAGGGAGATATGATCTACAATCTTC
* * * * *
84700757 GATCTGCTCCACCACTGCCTAAGG
65 AACCTGCTCCACTACTGCTTAGGG
* * * ***** *
84700781 AGACAAGACTTACAATCTTC-AGCCTACTCCACTACTGCTTAGGGACATA-GA-ATGGTGGCTTA
1 AGATAAGACTTACAATCTTCGA-CCTACTCCACTACTGCTTAGGGAGATATGATCTACAATCTTC
** * *
84700843 AATTTGTTCCACTACTACTTAGGG
65 AACCTGCTCCACTACTGCTTAGGG
* * * * * * *
84700867 AGATAAAATTTGCCATCTTCGATCTACTCCACTACTGCTTAGGGAGACAAGATCTACAATCTTCA
1 AGATAAGACTTACAATCTTCGACCTACTCCACTACTGCTTAGGGAGATATGATCTACAATCTTCA
* * *
84700932 TCCTACTCCACTACTGCTTAGAG
66 ACCTGCTCCACTACTGCTTAGGG
84700955 AGATA
1 AGATA
84700960 GGGTGGTGGC
Statistics
Matches: 577, Mismatches: 113, Indels: 24
0.81 0.16 0.03
Matches are distributed among these distances:
83 2 0.00
84 67 0.12
86 61 0.11
87 82 0.14
88 364 0.63
89 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (88 bp):
AGATAAGACTTACAATCTTCGACCTACTCCACTACTGCTTAGGGAGATATGATCTACAATCTTCA
ACCTGCTCCACTACTGCTTAGGG
Found at i:84701092 original size:147 final size:149
Alignment explanation
Indices: 84700850--84701122 Score: 426
Period size: 147 Copynumber: 1.8 Consensus size: 149
84700840 TTAAATTTGT
*
84700850 TCCACTACTACTTAGGGAGATAAAATTTGCCATCTTCGATCTACTCCACTACTGCTTAGGGAGAC
1 TCCACTACTACTTAGGGAGATAAAA-TTG-CATCTTCGATCTACTCCACTACTGCTTAGAGAGAC
*
84700915 AAGATCTACAATCTTCATCCTACTCCACTACTGCTTAGAGAGATAGGGTGGTGGCTTAAATCTAT
64 AAGATCTACAATCTTCATCCTACTCCACTACTGCTTAGAGAGATAGGATGGTGGCTTAAATCTAT
84700980 GATATGCAATCTTCAGCCTAC
129 GATATGCAATCTTCAGCCTAC
* * *
84701001 TCCACTACTACTTAGGTAGATAGAA-TG-ATCTTCGATCTGCTCCACTACTGCTTAGAGAGACAA
1 TCCACTACTACTTAGGGAGATAAAATTGCATCTTCGATCTACTCCACTACTGCTTAGAGAGACAA
* * *
84701064 GATCTACAATCTTCAGT-CTACTCTACTACTGCTTAGGGAGATAGGATGGTTGCTTAAAT
66 GATCTACAATCTTCA-TCCTACTCCACTACTGCTTAGAGAGATAGGATGGTGGCTTAAAT
84701123 TTGCTCCACT
Statistics
Matches: 113, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
147 87 0.77
148 1 0.01
149 2 0.02
151 23 0.20
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (149 bp):
TCCACTACTACTTAGGGAGATAAAATTGCATCTTCGATCTACTCCACTACTGCTTAGAGAGACAA
GATCTACAATCTTCATCCTACTCCACTACTGCTTAGAGAGATAGGATGGTGGCTTAAATCTATGA
TATGCAATCTTCAGCCTAC
Found at i:84701197 original size:130 final size:129
Alignment explanation
Indices: 84701028--84701755 Score: 812
Period size: 130 Copynumber: 5.6 Consensus size: 129
84701018 AGATAGAATG
* * * *
84701028 ATCTTCGATCTGCTCCACTACTGCTTAGAGAGACAAGATCTACAATCTTCAGTCTACTCTACTAC
1 ATCTTCGATCTACTCCACTACTGCTTAGGGAGACAAGATCTACAATCCTCAG-CTACTCCACTAC
* * *
84701093 TGCTTAGGGAGATAGGATGGTTGCTTAAATTTGCTCCACTACTGCTTAGGGAGACAAAATTTTCC
65 TGCTTAGGGAGATAGGGTGGTGGCTTAAATTTACTCCACTACTGCTTAGGGAGACAAAATTTTCC
* * *
84701158 ATCTTTGATCTACTCCACTATTGCTTAGGGAGACAAGATCTACAATCCTCAGCCTACTCCACTAT
1 ATCTTCGATCTACTCCACTACTGCTTAGGGAGACAAGATCTACAATCCTCAG-CTACTCCACTAC
* * * * * *
84701223 TGCTTAGGGAGATTGGGTGATGGCTTAAATCTACTCTACTATTGCTTAGGGACACAAAATTTTCC
65 TGCTTAGGGAGATAGGGTGGTGGCTTAAATTTACTCCACTACTGCTTAGGGAGACAAAATTTTCC
* * * * *
84701288 ATCTTCGATCTACTCCTCTACTGCTCAGGGAGACAAGATCTACAATCCTCAGCCAACTCCGCTAT
1 ATCTTCGATCTACTCCACTACTGCTTAGGGAGACAAGATCTACAATCCTCAG-CTACTCCACTAC
* * * *** *
84701353 TACTTAGGGAGATAGGGTGGTGGCTTAAATTTACTCCACTACTACTTAGGGAGATAAGGCTTACC
65 TGCTTAGGGAGATAGGGTGGTGGCTTAAATTTACTCCACTACTGCTTAGGGAGACAAAATTTTCC
* * * * * * ** * * *
84701418 GTCTTTGATCTGCTCCACTACTACTTAGGGAGATATA-ATATGTAATCTTCAGCGTGCTCCACTG
1 ATCTTCGATCTACTCCACTACTGCTTAGGGAGACA-AGATCTACAATCCTCAGC-TACTCCACTA
* * * *
84701482 CTGCTCAGGGAGATAGGGTGGTGGCTTAAATCTACTCCAATACTGCTTAGGGAGACAAAGTTTGT
64 CTGCTTAGGGAGATAGGGTGGTGGCTTAAATTTACTCCACTACTGCTTAGGGAGACAAAATTT-T
84701547 -C
128 CC
* * * **
84701548 ATCTTCGATCTGCTCCTCTACTGCTTAAGGAGACAAGATCTACAATCCTCAGCTTACTCTGCTAC
1 ATCTTCGATCTACTCCACTACTGCTTAGGGAGACAAGATCTACAATCCTCAGC-TACTCCACTAC
* * * * * * *
84701613 TGCTTAGGGAGTTAGGGTAGTGGCTTAAATTTGCTTCACTAATGCTTAGGGAGACAAGATTTGCC
65 TGCTTAGGGAGATAGGGTGGTGGCTTAAATTTACTCCACTACTGCTTAGGGAGACAAAATTTTCC
* ** * * **
84701678 ATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCATCAATCTGTTCCACTAC
1 ATCTTCGATCTACTCCACTACTGCTTAGGGAGACAAGATCTACAATCCTC-AGCTACTCCACTAC
84701743 TGCTTAGGGAGAT
65 TGCTTAGGGAGAT
84701756 GAGGCTAATC
Statistics
Matches: 492, Mismatches: 100, Indels: 12
0.81 0.17 0.02
Matches are distributed among these distances:
129 2 0.00
130 487 0.99
131 3 0.01
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (129 bp):
ATCTTCGATCTACTCCACTACTGCTTAGGGAGACAAGATCTACAATCCTCAGCTACTCCACTACT
GCTTAGGGAGATAGGGTGGTGGCTTAAATTTACTCCACTACTGCTTAGGGAGACAAAATTTTCC
Found at i:84701201 original size:277 final size:277
Alignment explanation
Indices: 84700700--84701255 Score: 864
Period size: 277 Copynumber: 2.0 Consensus size: 277
84700690 CTTAGGGAGA
* * * *
84700700 TATGATTTGCAATCTTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTCTTCGATCTGCT
1 TATGATATGCAATCTTCAGCCTACTCCACTACTACTTAGGGAGATAGAATGATCTTCGATCTGCT
84700765 CCACCACTGCCTAAGGAGACAAGACTTACAATCTTCAGCCTACTCCACTACTGCTTAGGGACATA
66 CCACCACTGCCTAAGGAGACAAGACTTACAATCTTCAGCCTACTCCACTACTGCTTAGGGACATA
* *
84700830 GAATGGTGGCTTAAATTTGTTCCACTACTACTTAGGGAGATAAAATTTGCCATCTTCGATCTACT
131 GAATGGTGGCTTAAATTTGCTCCACTACTACTTAGGGAGACAAAATTTGCCATCTTCGATCTACT
* *
84700895 CCACTACTGCTTAGGGAGACAAGATCTACAATCTTCATCCTACTCCACTACTGCTTAGAGAGATA
196 CCACTACTGCTTAGGGAGACAAGATCTACAATCCTCAGCCTACTCCACTACTGCTTAGAGAGATA
*
84700960 GGGTGGTGGCTTAAATC
261 GGGTGATGGCTTAAATC
*
84700977 TATGATATGCAATCTTCAGCCTACTCCACTACTACTTAGGTAGATAGAATGATCTTCGATCTGCT
1 TATGATATGCAATCTTCAGCCTACTCCACTACTACTTAGGGAGATAGAATGATCTTCGATCTGCT
* * * * *
84701042 CCACTACTG-CTTAGAGAGACAAGA-TCTACAATCTTCAGTCTACTCTACTACTGCTTAGGGAGA
66 CCACCACTGCCTAAG-GAGACAAGACT-TACAATCTTCAGCCTACTCCACTACTGCTTAGGGACA
* * * * *
84701105 TAGGATGGTTGCTTAAATTTGCTCCACTACTGCTTAGGGAGACAAAATTTTCCATCTTTGATCTA
129 TAGAATGGTGGCTTAAATTTGCTCCACTACTACTTAGGGAGACAAAATTTGCCATCTTCGATCTA
* * *
84701170 CTCCACTATTGCTTAGGGAGACAAGATCTACAATCCTCAGCCTACTCCACTATTGCTTAGGGAGA
194 CTCCACTACTGCTTAGGGAGACAAGATCTACAATCCTCAGCCTACTCCACTACTGCTTAGAGAGA
*
84701235 TTGGGTGATGGCTTAAATC
259 TAGGGTGATGGCTTAAATC
84701254 TA
1 TA
84701256 CTCTACTATT
Statistics
Matches: 253, Mismatches: 24, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
276 5 0.02
277 248 0.98
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (277 bp):
TATGATATGCAATCTTCAGCCTACTCCACTACTACTTAGGGAGATAGAATGATCTTCGATCTGCT
CCACCACTGCCTAAGGAGACAAGACTTACAATCTTCAGCCTACTCCACTACTGCTTAGGGACATA
GAATGGTGGCTTAAATTTGCTCCACTACTACTTAGGGAGACAAAATTTGCCATCTTCGATCTACT
CCACTACTGCTTAGGGAGACAAGATCTACAATCCTCAGCCTACTCCACTACTGCTTAGAGAGATA
GGGTGATGGCTTAAATC
Found at i:84701494 original size:260 final size:259
Alignment explanation
Indices: 84701028--84701755 Score: 938
Period size: 260 Copynumber: 2.8 Consensus size: 259
84701018 AGATAGAATG
* * * * *
84701028 ATCTTCGATCTGCTCCACTACTGCTTAGAGAGACAAGATCTACAATCTTCAGTCTACTCTACTAC
1 ATCTTCGATCTGCTCCTCTACTGCTTAGGGAGACAAGATCTACAATCCTCAGCCTACTCTGCTAC
* * * *
84701093 TGCTTAGGGAGATAGGATGGTTGCTTAAATTTGCTCCACTACTGCTTAGGGAGACAAAATTTTCC
66 TGCTTAGGGAGATAGGGTGGTGGCTTAAATTTGCTCCACTACTGCTTAGGGAGACAAGATTTACC
* * ** * * *
84701158 ATCTTTGATCTACTCCACTATTGCTTAGGGAGACAAGATCTACAATCCTCAGCCTACTCCACTAT
131 ATCTTTGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCATCAG-CTGCTCCACTAC
* * * *
84701223 TGCTTAGGGAGATTGGGTGATGGCTTAAATCTACTCTACTATTGCTTAGGGACACAAAATTT-TC
195 TGCTTAGGGAGATAGGGTGATGGCTTAAATCTACTCCAATACTGCTTAGGGACACAAAATTTGT-
84701287 C
259 C
* * * * *
84701288 ATCTTCGATCTACTCCTCTACTGCTCAGGGAGACAAGATCTACAATCCTCAGCCAACTCCGCTAT
1 ATCTTCGATCTGCTCCTCTACTGCTTAGGGAGACAAGATCTACAATCCTCAGCCTACTCTGCTAC
* * * * **
84701353 TACTTAGGGAGATAGGGTGGTGGCTTAAATTTACTCCACTACTACTTAGGGAGATAAGGCTTACC
66 TGCTTAGGGAGATAGGGTGGTGGCTTAAATTTGCTCCACTACTGCTTAGGGAGACAAGATTTACC
* * * * * *
84701418 GTCTTTGATCTGCTCCACTACTACTTAGGGAGATATA-ATATGTAATCTTCAGCGTGCTCCACTG
131 ATCTTTGATCTACTCCACTACTGCTTAGGGAGATA-AGATCTGTAATCATCAGC-TGCTCCACTA
* * * *
84701482 CTGCTCAGGGAGATAGGGTGGTGGCTTAAATCTACTCCAATACTGCTTAGGGAGACAAAGTTTGT
194 CTGCTTAGGGAGATAGGGTGATGGCTTAAATCTACTCCAATACTGCTTAGGGACACAAAATTTGT
84701547 C
259 C
* *
84701548 ATCTTCGATCTGCTCCTCTACTGCTTAAGGAGACAAGATCTACAATCCTCAGCTTACTCTGCTAC
1 ATCTTCGATCTGCTCCTCTACTGCTTAGGGAGACAAGATCTACAATCCTCAGCCTACTCTGCTAC
* * * * *
84701613 TGCTTAGGGAGTTAGGGTAGTGGCTTAAATTTGCTTCACTAATGCTTAGGGAGACAAGATTTGCC
66 TGCTTAGGGAGATAGGGTGGTGGCTTAAATTTGCTCCACTACTGCTTAGGGAGACAAGATTTACC
* * *
84701678 ATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCATCAATCTGTTCCACTAC
131 ATCTTTGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCATC-AGCTGCTCCACTAC
84701743 TGCTTAGGGAGAT
195 TGCTTAGGGAGAT
84701756 GAGGCTAATC
Statistics
Matches: 395, Mismatches: 68, Indels: 10
0.84 0.14 0.02
Matches are distributed among these distances:
259 2 0.01
260 389 0.98
261 4 0.01
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (259 bp):
ATCTTCGATCTGCTCCTCTACTGCTTAGGGAGACAAGATCTACAATCCTCAGCCTACTCTGCTAC
TGCTTAGGGAGATAGGGTGGTGGCTTAAATTTGCTCCACTACTGCTTAGGGAGACAAGATTTACC
ATCTTTGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCATCAGCTGCTCCACTACT
GCTTAGGGAGATAGGGTGATGGCTTAAATCTACTCCAATACTGCTTAGGGACACAAAATTTGTC
Found at i:84701704 original size:44 final size:44
Alignment explanation
Indices: 84700984--84701754 Score: 226
Period size: 44 Copynumber: 17.8 Consensus size: 44
84700974 ATCTATGATA
** * * * *
84700984 TGCAATCTTCAGCCTACTCCACTACTACTTAGGTAGA-TAGA-A
1 TGCAATCTTCAATCTACTCCACTACTGCTTAGGGAGACAAGATT
* * * *
84701026 TG--ATCTTCGATCTGCTCCACTACTGCTTAGAGAGACAAGATC
1 TGCAATCTTCAATCTACTCCACTACTGCTTAGGGAGACAAGATT
* * * * *
84701068 TACAATCTTCAGTCTACTCTACTACTGCTTAGGGAGATAGGATGGT
1 TGCAATCTTCAATCTACTCCACTACTGCTTAGGGAGACAAGAT--T
* * * *
84701114 TG----CTTAAATTTGCTCCACTACTGCTTAGGGAGACAAAATT
1 TGCAATCTTCAATCTACTCCACTACTGCTTAGGGAGACAAGATT
* * ** * *
84701154 TTCCATCTTTGATCTACTCCACTATTGCTTAGGGAGACAAGATC
1 TGCAATCTTCAATCTACTCCACTACTGCTTAGGGAGACAAGATT
* * ** * ** **
84701198 TACAATCCTCAGCCTACTCCACTATTGCTTAGGGAGA-TTG-GG
1 TGCAATCTTCAATCTACTCCACTACTGCTTAGGGAGACAAGATT
* * * * *
84701240 TG--ATGGCTTAAATCTACTCTACTATTGCTTAGGGACACAAAATT
1 TGCAAT--CTTCAATCTACTCCACTACTGCTTAGGGAGACAAGATT
* * * * * *
84701284 TTCCATCTTCGATCTACTCCTCTACTGCTCAGGGAGACAAGATC
1 TGCAATCTTCAATCTACTCCACTACTGCTTAGGGAGACAAGATT
* * ** * * * * * * * *
84701328 TACAATCCTCAGCCAACTCCGCTATTACTTAGGGAGATAGGGTGG
1 TGCAATCTTCAATCTACTCCACTACTGCTTAGGGAGACAAGAT-T
* * * * * **
84701373 TG---GCTTAAATTTACTCCACTACTACTTAGGGAGATAAGGCT
1 TGCAATCTTCAATCTACTCCACTACTGCTTAGGGAGACAAGATT
* ** ** * * * *
84701414 TACCGTCTTTGATCTGCTCCACTACTACTTAGGGAGATATA-ATA
1 TGCAATCTTCAATCTACTCCACTACTGCTTAGGGAGACA-AGATT
* * * * * * * * *
84701458 TGTAATCTTC-AGCGTGCTCCACTGCTGCTCAGGGAGATAGGGTGG
1 TGCAATCTTCAATC-TACTCCACTACTGCTTAGGGAGACAAGAT-T
* * *
84701503 TG---GCTTAAATCTACTCCAATACTGCTTAGGGAGACAA-AGTT
1 TGCAATCTTCAATCTACTCCACTACTGCTTAGGGAGACAAGA-TT
* * * * *
84701544 TGTC-ATCTTCGATCTGCTCCTCTACTGCTTAAGGAGACAAGATC
1 TG-CAATCTTCAATCTACTCCACTACTGCTTAGGGAGACAAGATT
* * * ** ** * * *
84701588 TACAATCCTC-AGCTTACTCTGCTACTGCTTAGGGAGTTAGGGTAG
1 TGCAATCTTCAATC-TACTCCACTACTGCTTAGGGAGACAAGAT-T
* * * * * *
84701633 TG---GCTTAAATTTGCTTCACTAATGCTTAGGGAGACAAGATT
1 TGCAATCTTCAATCTACTCCACTACTGCTTAGGGAGACAAGATT
* * * *
84701674 TGCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATC
1 TGCAATCTTCAATCTACTCCACTACTGCTTAGGGAGACAAGATT
* * **
84701718 TGTAATCATCAATCTGTTCCACTACTGCTTAGGGAGA
1 TGCAATCTTCAATCTACTCCACTACTGCTTAGGGAGA
84701755 TGAGGCTAAT
Statistics
Matches: 513, Mismatches: 179, Indels: 72
0.67 0.23 0.09
Matches are distributed among these distances:
40 30 0.06
41 8 0.02
42 131 0.26
43 9 0.02
44 326 0.64
45 6 0.01
46 3 0.01
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (44 bp):
TGCAATCTTCAATCTACTCCACTACTGCTTAGGGAGACAAGATT
Found at i:84701753 original size:390 final size:390
Alignment explanation
Indices: 84701029--84701755 Score: 944
Period size: 390 Copynumber: 1.9 Consensus size: 390
84701019 GATAGAATGA
* * *
84701029 TCTTCGATCTGCTCCACTACTGCTTAGAGAGACAAGATCTACAATCTTCAGTCTACTCTACTACT
1 TCTTCGATCTGCTCCACTACTACTTAGAGAGACAAGATATACAATCTTCAGTCTACTCCACTACT
* * * * *
84701094 GCTTAGGGAGATAGGATGGTTGCTTAAATTTGCTCCACTACTGCTTAGGGAGACAAAATTTTCCA
66 GCTCAGGGAGATAGGATGGTGGCTTAAATCTACTCCAATACTGCTTAGGGAGACAAAATTTTCCA
* * * *
84701159 TCTTTGATCTACTCCACTATTGCTTAGGGAGACAAGATCTACAATCCTCAGCCTACTCCACTATT
131 TCTTCGATCTACTCCACTACTGCTTAAGGAGACAAGATCTACAATCCTCAGCCTACTCCACTACT
* *
84701224 GCTTAGGGAGATTGGGTGATGGCTTAAATCTACTCTACTATTGCTTAGGGACACAAAATTTTCCA
196 GCTTAGGGAGATTGGGTGATGGCTTAAATCTACTCTACTAATGCTTAGGGACACAAAATTTGCCA
* * * * *
84701289 TCTTCGATCTACTCCTCTACTGCTCAGGGAGACAAGATCTACAATCCTCAGCCAACTCCGCTATT
261 TCTTCGATCTACTCCACTACTGCTCAGGGAGACAAGATCTACAATCATCAACCAACTCCACTACT
84701354 ACTTAGGGAGATAGGGTGGTGGCTTAAATTTACTCCACTACTACTTAGGGAGATAAGGCTTACCG
326 ACTTAGGGAGATAGGGTGGTGGCTTAAATTTACTCCACTACTACTTAGGGAGATAAGGCTTACCG
* * * ** * *
84701419 TCTTTGATCTGCTCCACTACTACTTAGGGAGATATA-ATATGTAATCTTCAG-CGTGCTCCACTG
1 TCTTCGATCTGCTCCACTACTACTTAGAGAGACA-AGATATACAATCTTCAGTC-TACTCCACTA
* *
84701482 CTGCTCAGGGAGATAGGGTGGTGGCTTAAATCTACTCCAATACTGCTTAGGGAGACAAAGTTTGT
64 CTGCTCAGGGAGATAGGATGGTGGCTTAAATCTACTCCAATACTGCTTAGGGAGACAAAATTT-T
* * * **
84701547 -CATCTTCGATCTGCTCCTCTACTGCTTAAGGAGACAAGATCTACAATCCTCAGCTTACTCTGCT
128 CCATCTTCGATCTACTCCACTACTGCTTAAGGAGACAAGATCTACAATCCTCAGCCTACTCCACT
* * * *
84701611 ACTGCTTAGGGAG-TTAGGGT-AGTGGCTTAAATTTGCT-TCACTAATGCTTAGGGAGACAAGAT
193 ACTGCTTAGGGAGATT-GGGTGA-TGGCTTAAATCTACTCT-ACTAATGCTTAGGGACACAAAAT
* * ** * ***
84701673 TTGCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCATCAATCTGTTCC
255 TTGCCATCTTCGATCTACTCCACTACTGCTCAGGGAGACAAGATCTACAATCATCAACCAACTCC
*
84701738 ACTACTGCTTAGGGAGAT
320 ACTACTACTTAGGGAGAT
84701756 GAGGCTAATC
Statistics
Matches: 285, Mismatches: 46, Indels: 12
0.83 0.13 0.03
Matches are distributed among these distances:
389 5 0.02
390 278 0.98
391 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (390 bp):
TCTTCGATCTGCTCCACTACTACTTAGAGAGACAAGATATACAATCTTCAGTCTACTCCACTACT
GCTCAGGGAGATAGGATGGTGGCTTAAATCTACTCCAATACTGCTTAGGGAGACAAAATTTTCCA
TCTTCGATCTACTCCACTACTGCTTAAGGAGACAAGATCTACAATCCTCAGCCTACTCCACTACT
GCTTAGGGAGATTGGGTGATGGCTTAAATCTACTCTACTAATGCTTAGGGACACAAAATTTGCCA
TCTTCGATCTACTCCACTACTGCTCAGGGAGACAAGATCTACAATCATCAACCAACTCCACTACT
ACTTAGGGAGATAGGGTGGTGGCTTAAATTTACTCCACTACTACTTAGGGAGATAAGGCTTACCG
Found at i:84703704 original size:16 final size:16
Alignment explanation
Indices: 84703676--84703708 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
84703666 GAGATGAACG
84703676 AAAGATCCAAAGAATA
1 AAAGATCCAAAGAATA
84703692 AAAGAATCC-AAGAATA
1 AAAG-ATCCAAAGAATA
84703708 A
1 A
84703709 TTATTTGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.64, C:0.12, G:0.12, T:0.12
Consensus pattern (16 bp):
AAAGATCCAAAGAATA
Found at i:84712153 original size:20 final size:20
Alignment explanation
Indices: 84712128--84712168 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
84712118 ATGCAATTCT
84712128 AATTTTTAAAATAACTTTCC
1 AATTTTTAAAATAACTTTCC
*
84712148 AATTTTTAAAATAATTTTCC
1 AATTTTTAAAATAACTTTCC
84712168 A
1 A
84712169 TTATTTCAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.46
Consensus pattern (20 bp):
AATTTTTAAAATAACTTTCC
Found at i:84712333 original size:12 final size:13
Alignment explanation
Indices: 84712308--84712336 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
84712298 TTGATTTCTT
84712308 TTTTTTAAATATA
1 TTTTTTAAATATA
84712321 TTTTTTAAA-ATA
1 TTTTTTAAATATA
84712333 TTTT
1 TTTT
84712337 ACTATACTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
TTTTTTAAATATA
Found at i:84713995 original size:11 final size:11
Alignment explanation
Indices: 84713981--84714021 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
84713971 TATTTTCTCC
84713981 CTATTTTGCTA
1 CTATTTTGCTA
*
84713992 CTATTTTACTA
1 CTATTTTGCTA
* *
84714003 TTATGTTGCTA
1 CTATTTTGCTA
84714014 CTATTTTG
1 CTATTTTG
84714022 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:84717123 original size:2 final size:2
Alignment explanation
Indices: 84717081--84717106 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
84717071 CTGAGTATTA
84717081 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
84717107 TACCTTTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:84718587 original size:2 final size:2
Alignment explanation
Indices: 84718575--84718604 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
84718565 TTAAATACCA
84718575 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
84718605 ATTTAAGTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:84721996 original size:133 final size:133
Alignment explanation
Indices: 84721757--84721999 Score: 294
Period size: 133 Copynumber: 1.8 Consensus size: 133
84721747 CTCCATTAAT
** * * *
84721757 TATATATATACTTACTATTATTTAAGCGTCTAATTGAGTTAATGTCAAGAGTCAACGGGGCACCA
1 TATATATATACTTACTATTATTTAAGCCCCTAACTAAGTTAATGTCAAGAGTCAACGGGACACCA
* * * *
84721822 ACTTGATTAGGAAACTAACAAAAATATTCTTTTGTAATTATATTAAGTTAAATTATTCGATTGTA
66 ACTCGATTAAGAAACTAACAAAAATATCCTTTTATAATTATATTAAGTTAAATTATTCGATTGTA
84721887 CTC
131 CTC
* ** * *
84721890 TATATATTTACTTACTATTATTTAAGCCCCTAACTAAGTTGGTGTCATA-AGTCAATC-GGATAT
1 TATATATATACTTACTATTATTTAAGCCCCTAACTAAGTTAATGTCA-AGAGTCAA-CGGGACAC
* *
84721953 CAACTCGGTTAAGAAACTTAA-AAAAATATCCTTTTATAGTTATATTA
64 CAACTCGATTAAGAAAC-TAACAAAAATATCCTTTTATAATTATATTA
84722000 TTTAATGATA
Statistics
Matches: 91, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
133 86 0.95
134 5 0.05
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (133 bp):
TATATATATACTTACTATTATTTAAGCCCCTAACTAAGTTAATGTCAAGAGTCAACGGGACACCA
ACTCGATTAAGAAACTAACAAAAATATCCTTTTATAATTATATTAAGTTAAATTATTCGATTGTA
CTC
Found at i:84724331 original size:51 final size:50
Alignment explanation
Indices: 84724269--84724403 Score: 139
Period size: 51 Copynumber: 2.6 Consensus size: 50
84724259 TGAAATCTTA
*
84724269 AAATGAATAATAAAAGGGTTTAAAATAAATAATAT-AGAAAAGACTTAAAAGT
1 AAAT-AATAATAAAA-GGTTTGAAATAAATAATATAAGAAAAGACTTAAAA-T
* ** * * *
84724321 ATATAATAATAAAAAAATTTGAAAT-AATAATATAATAAAAGGCTTGAAAT
1 AAATAATAAT-AAAAGGTTTGAAATAAATAATATAAGAAAAGACTTAAAAT
*
84724371 AAATAATAAATAAAAGGTTTGCAATAAATAATA
1 AAATAAT-AATAAAAGGTTTGAAATAAATAATA
84724404 AAAGTATTTG
Statistics
Matches: 68, Mismatches: 11, Indels: 9
0.77 0.12 0.10
Matches are distributed among these distances:
50 26 0.38
51 35 0.51
52 7 0.10
ACGTcount: A:0.60, C:0.02, G:0.10, T:0.27
Consensus pattern (50 bp):
AAATAATAATAAAAGGTTTGAAATAAATAATATAAGAAAAGACTTAAAAT
Found at i:84724382 original size:25 final size:25
Alignment explanation
Indices: 84724269--84724405 Score: 109
Period size: 25 Copynumber: 5.4 Consensus size: 25
84724259 TGAAATCTTA
*
84724269 AAATGAAT-AATAAAAGGGTTTAAAAT
1 AAAT-AATAAATAAAA-GGTTTGAAAT
* * ** *
84724295 AAATAATATAGAAAAGACTTAAAAGT
1 AAATAATAAATAAAAGGTTTGAAA-T
* **
84724321 ATATAAT-AATAAAAAAATTTGAAAT
1 AAATAATAAAT-AAAAGGTTTGAAAT
*
84724346 -AATAATATAATAAAAGGCTTGAAAT
1 AAATAATA-AATAAAAGGTTTGAAAT
*
84724371 AAATAATAAATAAAAGGTTTGCAAT
1 AAATAATAAATAAAAGGTTTGAAAT
84724396 AAATAATAAA
1 AAATAATAAA
84724406 AGTATTTGAA
Statistics
Matches: 89, Mismatches: 16, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
24 5 0.06
25 48 0.54
26 36 0.40
ACGTcount: A:0.61, C:0.02, G:0.10, T:0.27
Consensus pattern (25 bp):
AAATAATAAATAAAAGGTTTGAAAT
Found at i:84724486 original size:27 final size:25
Alignment explanation
Indices: 84724454--84724521 Score: 73
Period size: 30 Copynumber: 2.5 Consensus size: 25
84724444 AGTAACATGT
*
84724454 AAAAATTTAAAATAGATAACATATATA
1 AAAAATTTAAAATAAATAACATA-A-A
84724481 AAAAATAGTTAGAAATAAATAACATAAA
1 AAAAAT--TTA-AAATAAATAACATAAA
84724509 AAAATATTTAAAA
1 AAAA-ATTTAAAA
84724522 CAAAAAATGT
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
26 3 0.08
27 9 0.25
28 5 0.14
29 6 0.17
30 13 0.36
ACGTcount: A:0.66, C:0.03, G:0.04, T:0.26
Consensus pattern (25 bp):
AAAAATTTAAAATAAATAACATAAA
Found at i:84724597 original size:48 final size:48
Alignment explanation
Indices: 84724545--84724674 Score: 131
Period size: 48 Copynumber: 2.6 Consensus size: 48
84724535 AAACAGTTTT
* *
84724545 AAATAACTAATATAAAATAATTTAAACTACATAATGTATAT-AAA-TGTA
1 AAATAA-TAATATAAAATAATTTAAAATAAATAATGTATATAAAACT-TA
* *
84724593 AAATATATAATATGTAAAT-GTTTAAAATAAATAATGTATATGAAAACTTA
1 AAATA-ATAATAT-AAAATAATTTAAAATAAATAATGTATAT-AAAACTTA
84724643 AAATAAATAATATGTAAAATAATTTAAAATAA
1 AAAT-AATAATA--TAAAATAATTTAAAATAA
84724675 TATATAATAA
Statistics
Matches: 67, Mismatches: 6, Indels: 14
0.77 0.07 0.16
Matches are distributed among these distances:
48 30 0.45
49 5 0.07
50 15 0.22
51 6 0.09
52 11 0.16
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (48 bp):
AAATAATAATATAAAATAATTTAAAATAAATAATGTATATAAAACTTA
Found at i:84724601 original size:15 final size:16
Alignment explanation
Indices: 84724581--84724610 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
84724571 CTACATAATG
84724581 TATATAA-ATGTAAAA
1 TATATAATATGTAAAA
84724596 TATATAATATGTAAA
1 TATATAATATGTAAA
84724611 TGTTTAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.37
Consensus pattern (16 bp):
TATATAATATGTAAAA
Found at i:84724669 original size:26 final size:26
Alignment explanation
Indices: 84724509--84724674 Score: 98
Period size: 26 Copynumber: 6.7 Consensus size: 26
84724499 ATAACATAAA
* * *
84724509 AAAAT-ATTTAAAACAAAAAATGTGT
1 AAAATAATTTAAAATAAATAATATGT
* * * *
84724534 AAAACAGTTTTAAATAACTAATA--T
1 AAAATAATTTAAAATAAATAATATGT
* *
84724558 AAAATAATTTAAACTACAT-A-ATGT
1 AAAATAATTTAAAATAAATAATATGT
* * *
84724582 -ATATAAATGTAAAATATATAATATGT
1 AAAAT-AATTTAAAATAAATAATATGT
* * *
84724608 -AAAT-GTTTAAAATAAATAATGTAT
1 AAAATAATTTAAAATAAATAATATGT
* *
84724632 ATGAA-AACTTAAAATAAATAATATGT
1 A-AAATAATTTAAAATAAATAATATGT
84724658 AAAATAATTTAAAATAA
1 AAAATAATTTAAAATAA
84724675 TATATAATAA
Statistics
Matches: 101, Mismatches: 30, Indels: 19
0.67 0.20 0.13
Matches are distributed among these distances:
22 1 0.01
23 4 0.04
24 41 0.41
25 7 0.07
26 48 0.48
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (26 bp):
AAAATAATTTAAAATAAATAATATGT
Found at i:84724685 original size:25 final size:26
Alignment explanation
Indices: 84724457--84724694 Score: 102
Period size: 24 Copynumber: 9.3 Consensus size: 26
84724447 AACATGTAAA
*
84724457 AATTTAAAATAGATAACATATATAAAA-
1 AATTTAAAATAAAT-A-ATATATAAAAC
* *
84724484 AATAGTTAGAAATAAATAACATA-AAAAA
1 AAT--TTA-AAATAAATAATATATAAAAC
* * * *
84724512 ATATTTAAAACAAAAAATGTGTAAAAC
1 A-ATTTAAAATAAATAATATATAAAAC
* * * *
84724539 AGTTTTAAATAACT-A-ATATAAAAT
1 AATTTAAAATAAATAATATATAAAAC
* * * *
84724563 AATTTAAACTACATAATGTAT-ATA-
1 AATTTAAAATAAATAATATATAAAAC
* * *
84724587 AATGTAAAATATATAATATGT-AAA-
1 AATTTAAAATAAATAATATATAAAAC
** * *
84724611 TGTTTAAAATAAATAATGTATATGAA-
1 AATTTAAAATAAATAATATATA-AAAC
* * *
84724637 AACTTAAAATAAATAATATGTAAAAT
1 AATTTAAAATAAATAATATATAAAAC
84724663 AATTTAAAAT-AAT-ATATAATAAAAC
1 AATTTAAAATAAATAATAT-ATAAAAC
84724688 AATTTAA
1 AATTTAA
84724695 TGTAAAAGGT
Statistics
Matches: 154, Mismatches: 45, Indels: 26
0.68 0.20 0.12
Matches are distributed among these distances:
24 52 0.34
25 21 0.14
26 48 0.31
27 15 0.10
28 5 0.03
29 6 0.04
30 7 0.05
ACGTcount: A:0.59, C:0.04, G:0.05, T:0.32
Consensus pattern (26 bp):
AATTTAAAATAAATAATATATAAAAC
Found at i:84725255 original size:11 final size:11
Alignment explanation
Indices: 84725241--84725292 Score: 72
Period size: 11 Copynumber: 4.9 Consensus size: 11
84725231 TCTTTCAATA
84725241 TTCTCTCAAAT
1 TTCTCTCAAAT
84725252 TTCTCTCAAA-
1 TTCTCTCAAAT
84725262 -TCTCTCAAAT
1 TTCTCTCAAAT
*
84725272 TTCTCTTAAAT
1 TTCTCTCAAAT
*
84725283 TCCTCTCAAA
1 TTCTCTCAAA
84725293 ACTCTAGTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
9 9 0.25
11 27 0.75
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.42
Consensus pattern (11 bp):
TTCTCTCAAAT
Found at i:84725267 original size:20 final size:21
Alignment explanation
Indices: 84725235--84725292 Score: 82
Period size: 20 Copynumber: 2.7 Consensus size: 21
84725225 TTTCAATCTT
84725235 TCAATATTCTCTCAAATTTCTC
1 TCAA-ATTCTCTCAAATTTCTC
84725257 TCAAA-TCTCTCAAATTTCTC
1 TCAAATTCTCTCAAATTTCTC
*
84725277 TTAAATTCCTCTCAAA
1 TCAAATT-CTCTCAAA
84725293 ACTCTAGTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 19 0.58
21 2 0.06
22 12 0.36
ACGTcount: A:0.31, C:0.28, G:0.00, T:0.41
Consensus pattern (21 bp):
TCAAATTCTCTCAAATTTCTC
Found at i:84725348 original size:16 final size:15
Alignment explanation
Indices: 84725319--84725349 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
84725309 TCAAAAAAGC
*
84725319 TCTAATTTTATTTTT
1 TCTAAATTTATTTTT
84725334 TCTAAATTTATTTTT
1 TCTAAATTTATTTTT
84725349 T
1 T
84725350 AAAATAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (15 bp):
TCTAAATTTATTTTT
Found at i:84727826 original size:116 final size:116
Alignment explanation
Indices: 84727496--84727877 Score: 635
Period size: 116 Copynumber: 3.3 Consensus size: 116
84727486 TATTTGTACA
* * *
84727496 AACATTTTGAATCTTTTTATATTATTTCATGTTATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATAAGATAAAAGGTTGTTTTAAATAAAGTAAT
84727561 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
66 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
* *
84727612 AACATTTTG---ATTTTTATATTATTTCATGTAATTAGATAAAATGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATAAGATAAAAGGTTGTTTTAAATAAAGTAAT
84727674 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
66 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
* *
84727725 AACATTTTGAATATTTTTATATTATTTCATGTGATAATATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATAAGATAAAAGGTTGTTTTAAATAAAGTAAT
* * * *
84727790 TATAATTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAAGT
66 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
*
84727841 AATATTTTGAATATTTTTATATTATTTCATGTAATAA
1 AACATTTTGAATATTTTTATATTATTTCATGTAATAA
84727878 AATATAAATA
Statistics
Matches: 250, Mismatches: 13, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
113 110 0.44
116 140 0.56
ACGTcount: A:0.40, C:0.03, G:0.09, T:0.48
Consensus pattern (116 bp):
AACATTTTGAATATTTTTATATTATTTCATGTAATAAGATAAAAGGTTGTTTTAAATAAAGTAAT
TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
Found at i:84731124 original size:126 final size:126
Alignment explanation
Indices: 84730892--84731430 Score: 787
Period size: 126 Copynumber: 4.3 Consensus size: 126
84730882 GCCCAAGTTA
* * *
84730892 TTTCAGAAACCACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
1 TTTCAGAGACTACTATAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
**
84730957 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTATACAGACACGTCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCACAGACACGTCTTCTCAAAATTATTT
* * * * * *
84731018 TTTCAGAGACCACTGTAGCAAAAAAGCATCCACGTGGGAGCTTCTTCCAGTAATTTTGCTGAAAA
1 TTTCAGAGACTACTATAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
**
84731083 TGCATCCTGCTTGAAGCGTTTTT-ACCACTATTTGCGTAGACACGTCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGA-CACTATTTGCACAGACACGTCTTCTCAAAATTATTT
* * * * *
84731144 TTTCAGAGACTACTATAGCAAAAGAGCGTCCACGTGGAAACTTCTTTCAGTATTTTTACTGACAA
1 TTTCAGAGACTACTATAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
*
84731209 TGCATCCTGCTTAAAGCGTTTTTTG-CACTATTTGCACAGACACGTCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCG-TTTTTGACACTATTTGCACAGACACGTCTTCTCAAAATTATTT
* * *
84731270 TTTCAGATACTACTATAGCAAGAA-AACGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACA
1 TTTCAGAGACTACTATAGCAA-AAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAA
* * * *
84731334 ATGCTTCCTGTTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAATTTATTT
65 ATGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCACAGACACGTCTTCTCAAAATTATTT
*
84731396 TTTTAGAGACTACTATAGCAAAAGAGCGTCCACGT
1 TTTCAGAGACTACTATAGCAAAAGAGCGTCCACGT
84731431 AGAAGCTCTT
Statistics
Matches: 371, Mismatches: 36, Indels: 12
0.89 0.09 0.03
Matches are distributed among these distances:
125 9 0.02
126 355 0.96
127 7 0.02
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.34
Consensus pattern (126 bp):
TTTCAGAGACTACTATAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCACAGACACGTCTTCTCAAAATTATTT
Found at i:84731714 original size:96 final size:95
Alignment explanation
Indices: 84731517--84731720 Score: 250
Period size: 96 Copynumber: 2.1 Consensus size: 95
84731507 TTAAATACCC
* * * * * ***
84731517 TAAAACCCTAAACCCTAAAATCTTAATCTATTTTTTAAAATTTATAATTAATTTACTCAAGTTAC
1 TAAAACCCTAAACACTAAAACCATAATCTATTTTTTAAAATTTATAATTAATTGAATCAACAAAC
* *
84731582 CCTAAACCCTAATTTATTTGATTTTTTCCT
66 ACTAAACCCTAATTTATTTAATTTTTTCCT
* *
84731612 TAAAAACCATAAACACT-AAACCATAATCTAATTTTTTAAAA-TTAGTAATTAATTGAATGAACA
1 T-AAAACCCTAAACACTAAAACCATAATCT-ATTTTTTAAAATTTA-TAATTAATTGAATCAACA
84731675 AACACTAAACCCTAATTTATTTAATTTTTTTCCT
63 AACACTAAACCCTAATTTATTTAA-TTTTTTCCT
84731709 TAAAACCCTAAA
1 TAAAACCCTAAA
84731721 ATTTAAAAAC
Statistics
Matches: 92, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
95 14 0.15
96 68 0.74
97 10 0.11
ACGTcount: A:0.41, C:0.18, G:0.02, T:0.39
Consensus pattern (95 bp):
TAAAACCCTAAACACTAAAACCATAATCTATTTTTTAAAATTTATAATTAATTGAATCAACAAAC
ACTAAACCCTAATTTATTTAATTTTTTCCT
Found at i:84734956 original size:20 final size:20
Alignment explanation
Indices: 84734931--84734970 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
84734921 ATTGAGTTAG
*
84734931 GTAGATGTTGAATGCTGCCC
1 GTAGATGTTGAATACTGCCC
84734951 GTAGATGTTGAATACTGCCC
1 GTAGATGTTGAATACTGCCC
84734971 ATTGGAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.30
Consensus pattern (20 bp):
GTAGATGTTGAATACTGCCC
Found at i:84736274 original size:18 final size:18
Alignment explanation
Indices: 84736253--84736337 Score: 89
Period size: 18 Copynumber: 4.7 Consensus size: 18
84736243 TAACATTCAA
*
84736253 TTATTCAGTAGCAATTAG
1 TTATTCAGTAACAATTAG
* *
84736271 TTATTCAGTAACAATCAT
1 TTATTCAGTAACAATTAG
** *
84736289 TTGCTCAGTAGCAATTAG
1 TTATTCAGTAACAATTAG
* *
84736307 TTATTCAGTAACAATCAA
1 TTATTCAGTAACAATTAG
*
84736325 TTAGTCAGTAACA
1 TTATTCAGTAACA
84736338 GTCAGTCGTT
Statistics
Matches: 53, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 53 1.00
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.35
Consensus pattern (18 bp):
TTATTCAGTAACAATTAG
Found at i:84736333 original size:36 final size:36
Alignment explanation
Indices: 84736241--84736334 Score: 145
Period size: 36 Copynumber: 2.6 Consensus size: 36
84736231 AGTTTCATTT
* *
84736241 AGTAACATTCAATTATTCAGTAGCAATTAGTTATTC
1 AGTAACAATCAATTAGTCAGTAGCAATTAGTTATTC
*
84736277 AGTAACAATC-ATTTGCTCAGTAGCAATTAGTTATTC
1 AGTAACAATCAATTAG-TCAGTAGCAATTAGTTATTC
84736313 AGTAACAATCAATTAGTCAGTA
1 AGTAACAATCAATTAGTCAGTA
84736335 ACAGTCAGTC
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
35 3 0.06
36 45 0.87
37 4 0.08
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (36 bp):
AGTAACAATCAATTAGTCAGTAGCAATTAGTTATTC
Found at i:84737744 original size:5 final size:5
Alignment explanation
Indices: 84737729--84737761 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
84737719 AATCTCCAAT
84737729 TTTTCC TTTTC TTTTC TTTTC TTTTC -TTTC TTT
1 TTTT-C TTTTC TTTTC TTTTC TTTTC TTTTC TTT
84737762 CCTTCCTTCC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 4 0.15
5 18 0.69
6 4 0.15
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTC
Found at i:84737754 original size:15 final size:15
Alignment explanation
Indices: 84737729--84737765 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
84737719 AATCTCCAAT
84737729 TTTTCCTTTTCTTTTC
1 TTTTCCTTTTC-TTTC
84737745 TTTT-CTTTTCTTTC
1 TTTTCCTTTTCTTTC
84737759 -TTTCCTT
1 TTTTCCTT
84737766 CCTTCCTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 3 0.15
14 7 0.35
15 6 0.30
16 4 0.20
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTCCTTTTCTTTC
Found at i:84743639 original size:19 final size:19
Alignment explanation
Indices: 84743617--84743727 Score: 52
Period size: 19 Copynumber: 5.8 Consensus size: 19
84743607 AAAAATTACA
*
84743617 AAAATTTAAAATAATTTTT
1 AAAATTTAAAATAATTTAT
**
84743636 AAAATCCAAAAT-ATTTAT
1 AAAATTTAAAATAATTTAT
* *
84743654 AAAAATTATAAA-AATTTCAAAA
1 AAAATTTA-AAATAATTT---AT
* * *
84743676 AAAAATTAAAA-AATATAA
1 AAAATTTAAAATAATTTAT
84743694 AGAAAGTTTAAAA-AATTTA-
1 A-AAA-TTTAAAATAATTTAT
*
84743713 AAAATTTAGAATAAT
1 AAAATTTAAAATAAT
84743728 AATTTTAGAA
Statistics
Matches: 73, Mismatches: 11, Indels: 17
0.72 0.11 0.17
Matches are distributed among these distances:
17 6 0.08
18 19 0.26
19 21 0.29
20 11 0.15
21 7 0.10
22 9 0.12
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (19 bp):
AAAATTTAAAATAATTTAT
Found at i:84743932 original size:16 final size:16
Alignment explanation
Indices: 84743908--84743946 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
84743898 AACTCGATCA
*
84743908 ATTTCACTCAAATTTG
1 ATTTCACTCAAATTTC
* *
84743924 ATTTGACTCGAATTTC
1 ATTTCACTCAAATTTC
84743940 ATTTCAC
1 ATTTCAC
84743947 CCATCTTTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.28, C:0.21, G:0.08, T:0.44
Consensus pattern (16 bp):
ATTTCACTCAAATTTC
Found at i:84745295 original size:27 final size:27
Alignment explanation
Indices: 84745257--84745309 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
84745247 TAAAATATGG
*
84745257 GTGGAGGGTACCCCACAGGCGGCACCA
1 GTGGAGGGTACCCCACAGGCGACACCA
84745284 GTGGAGGGTACCCCACAGGCGACACC
1 GTGGAGGGTACCCCACAGGCGACACC
84745310 GCTGACTCCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.23, C:0.34, G:0.36, T:0.08
Consensus pattern (27 bp):
GTGGAGGGTACCCCACAGGCGACACCA
Found at i:84746542 original size:145 final size:145
Alignment explanation
Indices: 84745927--84746982 Score: 1326
Period size: 144 Copynumber: 7.3 Consensus size: 145
84745917 AGAATAACTT
** * * * *
84745927 AATAGTATATTTTAAAAAATATATTTTAAGAAATTCGAAAATAAAAAAAGGTCAAAATCAGAGTT
1 AATAGTATATTTTAAAAAATA-AAATTCAGAAAAT--AAAAAAAAAAAAGGCCAAAATCAGAGTT
* * * *
84745992 TTTTTACTAAATTAATATAAATATACTAAAATAATACATATAAAACATTATGTACTAAAAT-A-A
63 TTTTT-CTAAATTAATATAAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATA
84746055 TAAAAAAATAAAATACGAA
127 TAAAAAAATAAAATACGAA
* * *
84746074 AATAGTATATTTTGAAAAACAAAATTC-GAAAATAAAATAAAAAACAAACGGCCAAAATCAGAAT
1 AATAGTATATTTTAAAAAATAAAATTCAGAAAAT-AAA-AAAAAA-AAA-GGCCAAAATCAGAGT
*
84746138 TTTTTACTAAATTAATATAAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATA
62 TTTTTTCTAAATTAATATAAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATA
84746203 TAAAAAAATAAAATACGAA
127 TAAAAAAATAAAATACGAA
* * *
84746222 AATAGTATATTTTAAAATAA-AAAA-TCGGAAAA-AAAATAAAAAAAAGGCCAAAACCACA-TAT
1 AATAGTATATTTTAAAA-AATAAAATTCAGAAAATAAAA-AAAAAAAAGGCCAAAATCAGAGT-T
*
84746283 TTTTACTAAATTAATATAAAAAAACTAAAATAATACA--TGAAACATTATGTACTAAAATAATAT
63 TTTTTCTAAATTAATATAAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATAT
*
84746346 -AAAAAACAAAATACGAA
128 AAAAAAATAAAATACGAA
* * * * *
84746363 AATAATATATCTTAAAAAATAAAA-CCTGAAAATAAAAATAAAAAAGGCCAAAATCAGAGTTTTT
1 AATAGTATATTTTAAAAAATAAAATTCAGAAAATAAAAAAAAAAAAGGCCAAAATCAGAGTTTTT
*
84746427 TTCTAAATTAATATAAAAAAAACTAAAATAATACATTTGAAACATTATATACTAAAATAATATAA
66 TTCTAAATTAATAT-AAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAA
84746492 AAAAATAAAATACGAA
130 AAAAATAAAATACGAA
*
84746508 AATAGTATATTTTAAAAAATAAAATTC-GAAAAT-AAAAAATAAAAGGACCAAAATCAGAGTTTT
1 AATAGTATATTTTAAAAAATAAAATTCAGAAAATAAAAAAAAAAAAGG-CCAAAATCAGAGTTTT
* * * * *
84746571 TTTCTATATTTATATAAAAAAACTAAAATAAAACATTTTAAATATTATGTACTAAAATAATATAA
65 TTTCTAAATTAATATAAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAA
*
84746636 AAACATAAAATACGAA
130 AAAAATAAAATACGAA
*
84746652 AATAGTATATTTTAAAAAAATAAAATCCA-AAAATAAAATAAAAATAAACGGCCAAAATCAGAGT
1 AATAGTATATTTT-AAAAAATAAAATTCAGAAAATAAAA-AAAAA-AAA-GGCCAAAATCAGAGT
* * * *
84746716 TTTTAT-TAAATTAATAT-AAAAAACTAAAATAACAAATTTGGAACATTATGTACTAAAATAATA
62 TTTTTTCTAAATTAATATAAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATA
*
84746779 T-AAAAAATAAAATATGAA
127 TAAAAAAATAAAATACGAA
* * * *
84746797 AATAGTTTATTTTAAAAAGTAAAATCCAAGAATAA-AATAAAAAAACAAACGGTCAAAATCAGAG
1 AATAGTATATTTTAAAAAATAAAATTC-AGAA-AATAA-AAAAAAA-AAA-GGCCAAAATCAGAG
* **
84746861 TTTTTTTATTAAATTAATATAAAAAATAAAAAAATAATACATTTGAAACATTATGTACTAAAATA
61 TTTTTTT-CTAAATTAATATAAAAAA-ACTAAAATAATACATTTGAAACATTATGTACTAAAATA
84746926 ATAT--AAAAATAAAATACGAA
124 ATATAAAAAAATAAAATACGAA
* *
84746946 AATAATATATTTTAAAAAATAAAA-TCTGAAAATAAAA
1 AATAGTATATTTTAAAAAATAAAATTCAGAAAATAAAA
84746983 TAAATACCAA
Statistics
Matches: 807, Mismatches: 69, Indels: 67
0.86 0.07 0.07
Matches are distributed among these distances:
140 2 0.00
141 76 0.09
142 51 0.06
143 1 0.00
144 175 0.22
145 133 0.16
146 147 0.18
147 62 0.08
148 78 0.10
149 45 0.06
150 37 0.05
ACGTcount: A:0.59, C:0.07, G:0.06, T:0.28
Consensus pattern (145 bp):
AATAGTATATTTTAAAAAATAAAATTCAGAAAATAAAAAAAAAAAAGGCCAAAATCAGAGTTTTT
TTCTAAATTAATATAAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAA
AAAATAAAATACGAA
Found at i:84757666 original size:30 final size:30
Alignment explanation
Indices: 84757632--84757694 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
84757622 ACTTATTTTA
*
84757632 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
*
84757662 TTGTTAATTTTATTATTATTTTAGAGACAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
84757692 TTG
1 TTG
84757695 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.29, C:0.03, G:0.11, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTATTATTATTTTAAAGACAT
Found at i:84758791 original size:17 final size:17
Alignment explanation
Indices: 84758771--84758808 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
84758761 AACTCTTTGT
*
84758771 TTTGGCATATTTTGTAG
1 TTTGGCATATTCTGTAG
84758788 TTTGGCATATTCTGTAG
1 TTTGGCATATTCTGTAG
84758805 TTTG
1 TTTG
84758809 CGGACTCTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.16, C:0.08, G:0.24, T:0.53
Consensus pattern (17 bp):
TTTGGCATATTCTGTAG
Found at i:84766178 original size:10 final size:10
Alignment explanation
Indices: 84766159--84766208 Score: 66
Period size: 10 Copynumber: 5.0 Consensus size: 10
84766149 TTAAATTCTA
84766159 AAAGATAAAT
1 AAAGATAAAT
84766169 ACAA-ATAAAT
1 A-AAGATAAAT
*
84766179 AAAGATAATT
1 AAAGATAAAT
84766189 AAAGATAAAT
1 AAAGATAAAT
*
84766199 AAAAATAAAT
1 AAAGATAAAT
84766209 CCTAAATTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 2 0.06
10 31 0.89
11 2 0.06
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:84766258 original size:14 final size:13
Alignment explanation
Indices: 84766222--84766259 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
84766212 AAATTTAAAT
84766222 CTAAATAATTATC
1 CTAAATAATTATC
*
84766235 CTTAATAATTATC
1 CTAAATAATTATC
84766248 CTAATATAATTA
1 CTAA-ATAATTA
84766260 AACATTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (13 bp):
CTAAATAATTATC
Found at i:84777161 original size:21 final size:22
Alignment explanation
Indices: 84777134--84777175 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
84777124 AAAAAAACAA
*
84777134 AAAAAAAATAGATTTTTAAAGT
1 AAAAAAAACAGATTTTTAAAGT
84777156 AAAAAAAACAGATTTTTAAA
1 AAAAAAAACAGATTTTTAAA
84777176 TTTTTGATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (22 bp):
AAAAAAAACAGATTTTTAAAGT
Found at i:84777965 original size:10 final size:10
Alignment explanation
Indices: 84777946--84777995 Score: 66
Period size: 10 Copynumber: 5.0 Consensus size: 10
84777936 TTAAATTCTA
84777946 AAAGATAAAT
1 AAAGATAAAT
84777956 ACAA-ATAAAT
1 A-AAGATAAAT
*
84777966 AAAGATAATT
1 AAAGATAAAT
84777976 AAAGATAAAT
1 AAAGATAAAT
*
84777986 AAAAATAAAT
1 AAAGATAAAT
84777996 CCTAAATTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 2 0.06
10 31 0.89
11 2 0.06
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:84778201 original size:18 final size:17
Alignment explanation
Indices: 84778174--84778207 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
84778164 AATTCACGCT
84778174 TTTTGACTTTAAATTTAC
1 TTTTGACTTT-AATTTAC
*
84778192 TTTTGCCTTTAATTTA
1 TTTTGACTTTAATTTA
84778208 GTTCTTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.24, C:0.12, G:0.06, T:0.59
Consensus pattern (17 bp):
TTTTGACTTTAATTTAC
Done.