Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 353 of 362
Found at i:116782959 original size:26 final size:24
Alignment explanation
Indices: 116782922--116782973 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 24
116782912 CCGTTTTCTA
116782922 CTGATGATAATGATTTTTCTTTCTTC
1 CTGATGATAATGATTTTT-TTT-TTC
*
116782948 CTGAGTGA-AATGCTTTTTTTTTTC
1 CTGA-TGATAATGATTTTTTTTTTC
116782972 CT
1 CT
116782974 TTTACTTGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 5 0.21
25 3 0.12
26 13 0.54
27 3 0.12
ACGTcount: A:0.17, C:0.15, G:0.13, T:0.54
Consensus pattern (24 bp):
CTGATGATAATGATTTTTTTTTTC
Found at i:116786553 original size:23 final size:23
Alignment explanation
Indices: 116786523--116786569 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
116786513 TATGTTTAAC
116786523 ATGAAAACCCCTTTAGCCCAAAG
1 ATGAAAACCCCTTTAGCCCAAAG
*
116786546 ATGAAAACCCCTTTGGCCCAAAG
1 ATGAAAACCCCTTTAGCCCAAAG
116786569 A
1 A
116786570 CAATTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.38, C:0.30, G:0.15, T:0.17
Consensus pattern (23 bp):
ATGAAAACCCCTTTAGCCCAAAG
Found at i:116789014 original size:30 final size:30
Alignment explanation
Indices: 116788980--116789042 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
116788970 ATTTATTTTA
116788980 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
*
116789010 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
116789040 TTG
1 TTG
116789043 ATTGTTAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.27, C:0.03, G:0.13, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:116790569 original size:121 final size:120
Alignment explanation
Indices: 116790355--116790705 Score: 533
Period size: 121 Copynumber: 2.9 Consensus size: 120
116790345 TCCTAAAAAA
* *
116790355 GTTAAAACATCACACACATTGTTAGTACATATTGGTTCC-TGTTTTAACATGTTCCAACTGTTTA
1 GTTAAAACATCACACACATTGTTCGTACATATTGG-TCCTTGTTTTAACATGTTACAACTG-TTA
* *
116790419 ACATGTGGGCGGTAGAGTCGGTAATAAAAGGATTTGGAATAACAACTTTTCCTAAAT
64 ACATGTGGGTGGTAGGGTCGGTAATAAAAGGATTTGGAATAACAACTTTTCCTAAAT
116790476 GTTAAAACATCACACACATTGTTCGTACATATTGGTCCTTGTTTTAACATGTTACAACTGTTCAA
1 GTTAAAACATCACACACATTGTTCGTACATATTGGTCCTTGTTTTAACATGTTACAACTGTT-AA
* *
116790541 CATGTGGGTGGTAGGGTCGGTAATAAAAGGATTTGGAATAACAGCTTTTCCTGAAT
65 CATGTGGGTGGTAGGGTCGGTAATAAAAGGATTTGGAATAACAACTTTTCCTAAAT
* * * * *
116790597 GTTAAAACATCACACACATTGTTCATACATGTTGGTCCTTGTTTTAACATGTTATAATTGTTAAA
1 GTTAAAACATCACACACATTGTTCGTACATATTGGTCCTTGTTTTAACATGTTACAACTGTTAAC
* * * *
116790662 ATGTGGGTGGTTGGGTAGGCAATAAAAAGATTTGGAATAACAAC
66 ATGTGGGTGGTAGGGTCGGTAATAAAAGGATTTGGAATAACAAC
116790706 CGGGTAAAAA
Statistics
Matches: 212, Mismatches: 16, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
120 46 0.22
121 166 0.78
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.34
Consensus pattern (120 bp):
GTTAAAACATCACACACATTGTTCGTACATATTGGTCCTTGTTTTAACATGTTACAACTGTTAAC
ATGTGGGTGGTAGGGTCGGTAATAAAAGGATTTGGAATAACAACTTTTCCTAAAT
Found at i:116794834 original size:24 final size:24
Alignment explanation
Indices: 116794807--116794858 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
116794797 TTAGTAAGTC
*
116794807 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
116794831 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
116794855 AAAT
1 AAAT
116794859 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:116796804 original size:24 final size:24
Alignment explanation
Indices: 116796777--116796828 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
116796767 TTAGTAAGTC
*
116796777 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
116796801 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
116796825 AAAT
1 AAAT
116796829 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:116803131 original size:15 final size:16
Alignment explanation
Indices: 116803103--116803132 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
116803093 ACAAAAGCTT
116803103 CATTTTATATTTTATA
1 CATTTTATATTTTATA
116803119 CATTTTA-ATTTTAT
1 CATTTTATATTTTAT
116803133 TATGCACATT
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:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (16 bp):
CATTTTATATTTTATA
Found at i:116803887 original size:19 final size:20
Alignment explanation
Indices: 116803863--116803903 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
116803853 TGTTTTCATA
116803863 TTTTCTTTCCTT-GATTTTT
1 TTTTCTTTCCTTAGATTTTT
*
116803882 TTTTCTTTCTTTAGATTTTT
1 TTTTCTTTCCTTAGATTTTT
116803902 TT
1 TT
116803904 ATTTTATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.07, C:0.12, G:0.05, T:0.76
Consensus pattern (20 bp):
TTTTCTTTCCTTAGATTTTT
Found at i:116805945 original size:3 final size:3
Alignment explanation
Indices: 116805937--116805972 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
116805927 TGTGTAATTA
116805937 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
116805973 TTGCTCCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:116808089 original size:29 final size:27
Alignment explanation
Indices: 116808056--116808117 Score: 65
Period size: 25 Copynumber: 2.3 Consensus size: 27
116808046 TTAAACATAA
116808056 TTAAAATTATTATATTTATTATTTAT--TT
1 TTAAAATTATT-TA--TATTATTTATAATT
* *
116808084 TTTAAAGTATTTATATTATTTATAATT
1 TTAAAATTATTTATATTATTTATAATT
116808111 TTAAAAT
1 TTAAAAT
116808118 ATGATATCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
25 10 0.36
27 9 0.32
28 9 0.32
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.60
Consensus pattern (27 bp):
TTAAAATTATTTATATTATTTATAATT
Found at i:116812076 original size:31 final size:32
Alignment explanation
Indices: 116812026--116812094 Score: 95
Period size: 31 Copynumber: 2.2 Consensus size: 32
116812016 AATTATGAAA
*
116812026 AAAATTCAAATAACTAATTAAATATTAATACT
1 AAAATTCAAATAACAAATTAAATATTAATACT
* * *
116812058 AAAATT-AAATACCAAATTATATATTAATCCT
1 AAAATTCAAATAACAAATTAAATATTAATACT
116812089 AAAATT
1 AAAATT
116812095 TATTATTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
31 27 0.82
32 6 0.18
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (32 bp):
AAAATTCAAATAACAAATTAAATATTAATACT
Found at i:116820528 original size:17 final size:17
Alignment explanation
Indices: 116820506--116820540 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
116820496 AGCTGTGTGA
116820506 TGAGACTTTATAATGAC
1 TGAGACTTTATAATGAC
116820523 TGAGACTTTATAATGAC
1 TGAGACTTTATAATGAC
116820540 T
1 T
116820541 CGGATTGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.37
Consensus pattern (17 bp):
TGAGACTTTATAATGAC
Found at i:116830640 original size:23 final size:24
Alignment explanation
Indices: 116830595--116830641 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
116830585 TGTTCGCTTA
116830595 ATGTTCACAAACATATAAATGAAC
1 ATGTTCACAAACATATAAATGAAC
116830619 ATGTTCACAAACAT-TAAATGAAC
1 ATGTTCACAAACATATAAATGAAC
116830642 CAAGCCTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 9 0.39
24 14 0.61
ACGTcount: A:0.49, C:0.17, G:0.09, T:0.26
Consensus pattern (24 bp):
ATGTTCACAAACATATAAATGAAC
Found at i:116831796 original size:102 final size:102
Alignment explanation
Indices: 116831620--116831825 Score: 385
Period size: 102 Copynumber: 2.0 Consensus size: 102
116831610 TAGGCCAATG
*
116831620 AAGCATGTCATATATGAAAAATAGAAAGCAGGCTCGTAAAATTCCGGAAATATGATAGTTGTAGT
1 AAGCATGTCATATATGAAAAATAGAAAGCAGACTCGTAAAATTCCGGAAATATGATAGTTGTAGT
116831685 GACTATCTGATCATTCAAGCACTTTTAACAATGTTGC
66 GACTATCTGATCATTCAAGCACTTTTAACAATGTTGC
* *
116831722 AAGCATGTCATATATGAAAAATAGAAAGGAGACTCGTTAAATTCCGGAAATATGATAGTTGTAGT
1 AAGCATGTCATATATGAAAAATAGAAAGCAGACTCGTAAAATTCCGGAAATATGATAGTTGTAGT
116831787 GACTATCTGATCATTCAAGCACTTTTAACAATGTTGC
66 GACTATCTGATCATTCAAGCACTTTTAACAATGTTGC
116831824 AA
1 AA
116831826 CAAAAAAAAA
Statistics
Matches: 101, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
102 101 1.00
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (102 bp):
AAGCATGTCATATATGAAAAATAGAAAGCAGACTCGTAAAATTCCGGAAATATGATAGTTGTAGT
GACTATCTGATCATTCAAGCACTTTTAACAATGTTGC
Found at i:116836395 original size:20 final size:20
Alignment explanation
Indices: 116836372--116836411 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
116836362 AAAAAGATAC
116836372 AGAAATAACATTAAATAATT
1 AGAAATAACATTAAATAATT
116836392 AGAAATAACATTAAATAATT
1 AGAAATAACATTAAATAATT
116836412 GTAAGGAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.30
Consensus pattern (20 bp):
AGAAATAACATTAAATAATT
Found at i:116850683 original size:30 final size:31
Alignment explanation
Indices: 116850633--116850690 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
116850623 ACACTCATTG
* * *
116850633 TCACTGAACTATTAATAAATTTACATTTCAA
1 TCACTCAACTATTAAAAAATTTAAATTTCAA
116850664 TCACTCAACT-TTAAAAAATTTAAATTT
1 TCACTCAACTATTAAAAAATTTAAATTT
116850691 GTTTTGTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 15 0.62
31 9 0.38
ACGTcount: A:0.43, C:0.16, G:0.02, T:0.40
Consensus pattern (31 bp):
TCACTCAACTATTAAAAAATTTAAATTTCAA
Found at i:116851380 original size:18 final size:17
Alignment explanation
Indices: 116851339--116851385 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
116851329 GTACTTCTTC
*
116851339 TTTTTTTCTCTGTTTAA
1 TTTTTTTCTTTGTTTAA
*
116851356 TTCTTTTTCTTTGTTTTAG
1 TT-TTTTTCTTTG-TTTAA
116851375 TTTTTTT-TTTG
1 TTTTTTTCTTTG
116851386 AACTGATTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 6 0.23
18 14 0.54
19 6 0.23
ACGTcount: A:0.06, C:0.09, G:0.09, T:0.77
Consensus pattern (17 bp):
TTTTTTTCTTTGTTTAA
Found at i:116851564 original size:63 final size:63
Alignment explanation
Indices: 116851486--116851685 Score: 373
Period size: 63 Copynumber: 3.2 Consensus size: 63
116851476 ATTGTAGTTT
*
116851486 GAAAGGAAGATCATAAATTTTAGTTGAATTCTGCAAGTATTTACATTTATAATGATGTTGATA
1 GAAAGGAAGATCATAAATTTTAGTTGAATTCTGCAAGTATTTACATTTATAATGTTGTTGATA
*
116851549 GAAAGGAAGATCATAAATTTTAGTTGAATTCTGCCAGTATTTACATTTATAATGTTGTTGATA
1 GAAAGGAAGATCATAAATTTTAGTTGAATTCTGCAAGTATTTACATTTATAATGTTGTTGATA
116851612 GAAAGGAAGATCATAAATTTTAGTTGAATTCTGCAAGTATTTACATTTATAATGTTGTTGATA
1 GAAAGGAAGATCATAAATTTTAGTTGAATTCTGCAAGTATTTACATTTATAATGTTGTTGATA
*
116851675 GGAAGGAAGAT
1 GAAAGGAAGAT
116851686 AATCCCAAAT
Statistics
Matches: 133, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 133 1.00
ACGTcount: A:0.37, C:0.07, G:0.19, T:0.38
Consensus pattern (63 bp):
GAAAGGAAGATCATAAATTTTAGTTGAATTCTGCAAGTATTTACATTTATAATGTTGTTGATA
Found at i:116855177 original size:61 final size:61
Alignment explanation
Indices: 116855113--116855226 Score: 176
Period size: 61 Copynumber: 1.9 Consensus size: 61
116855103 ATAATTTTAA
* *
116855113 AAAAAAAT-TATTTTATTAAATGAAATAATATAAAAATAATTTGTATAAAAATATTCAAAG
1 AAAAAAATATATTTTATTAAATGAAACAATATAAAAATAATTTGTACAAAAATATTCAAAG
** *
116855173 AAAAACTTATATTTTATTAAATGAAACAATATAAAATTAATTTGTACAAAAATA
1 AAAAAAATATATTTTATTAAATGAAACAATATAAAAATAATTTGTACAAAAATA
116855227 AATCAATACA
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
60 6 0.12
61 42 0.88
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.35
Consensus pattern (61 bp):
AAAAAAATATATTTTATTAAATGAAACAATATAAAAATAATTTGTACAAAAATATTCAAAG
Found at i:116857154 original size:18 final size:18
Alignment explanation
Indices: 116857126--116857169 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
116857116 CCGGCTATTA
*
116857126 TAAAAAAATTA-AAAATAT
1 TAAATAAATTATAAAA-AT
*
116857144 TAATTAAATTATAAAAAT
1 TAAATAAATTATAAAAAT
116857162 TAAATAAA
1 TAAATAAA
116857170 AAATTTAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
TAAATAAATTATAAAAAT
Found at i:116857192 original size:32 final size:33
Alignment explanation
Indices: 116857131--116857199 Score: 88
Period size: 32 Copynumber: 2.1 Consensus size: 33
116857121 TATTATAAAA
* * *
116857131 AAATTAAAAATATTAATTAAATTATAAAAATT-
1 AAATAAAAAATATTAAATAAATTAAAAAAATTG
116857163 AAATAAAAAAT-TTAAATAATATTAAAAAAATTG
1 AAATAAAAAATATTAAATAA-ATTAAAAAAATTG
116857196 AAAT
1 AAAT
116857200 TAACCCTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 7 0.22
32 21 0.66
33 4 0.12
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.33
Consensus pattern (33 bp):
AAATAAAAAATATTAAATAAATTAAAAAAATTG
Found at i:116857193 original size:27 final size:30
Alignment explanation
Indices: 116857122--116857193 Score: 71
Period size: 29 Copynumber: 2.5 Consensus size: 30
116857112 TCTACCGGCT
* *
116857122 ATTA-TAAAAAAATTAAAAATATTAATTAA
1 ATTATTAAAAAAATAAAAAATATTAAATAA
*
116857151 ATTATAAAAATTAAATAAAAAAT-TTAAAT-A
1 ATTATTAAAA--AAATAAAAAATATTAAATAA
116857181 A-TATTAAAAAAAT
1 ATTATTAAAAAAAT
116857194 TGAAATTAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
27 4 0.11
29 11 0.31
30 6 0.17
31 5 0.14
32 10 0.28
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (30 bp):
ATTATTAAAAAAATAAAAAATATTAAATAA
Found at i:116860847 original size:16 final size:17
Alignment explanation
Indices: 116860816--116860848 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
116860806 TTCATAAATA
116860816 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
116860833 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
116860849 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:116861196 original size:46 final size:46
Alignment explanation
Indices: 116861134--116861498 Score: 491
Period size: 46 Copynumber: 7.9 Consensus size: 46
116861124 TTTGACATGA
* * * * * *
116861134 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCACGT
* * **
116861180 TACCAGGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGT
** *** *
116861226 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGT
**
116861272 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGT
** *
116861318 TGTTATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGT
*
116861364 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGT
116861410 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA-GAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACG-T
*
116861456 TGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
116861499 GAGAGCACAC
Statistics
Matches: 291, Mismatches: 26, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
45 5 0.02
46 286 0.98
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGT
Found at i:116871642 original size:14 final size:14
Alignment explanation
Indices: 116871623--116871652 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
116871613 CTTGTTTTTC
*
116871623 TTTTTCCTTTTCCT
1 TTTTTCCTTTACCT
116871637 TTTTTCCTTTACCT
1 TTTTTCCTTTACCT
116871651 TT
1 TT
116871653 AATCTTCTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.03, C:0.27, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTTTCCTTTACCT
Found at i:116871968 original size:3 final size:3
Alignment explanation
Indices: 116871953--116872011 Score: 91
Period size: 3 Copynumber: 19.7 Consensus size: 3
116871943 AAAACACCAG
* * *
116871953 TCT TCT GCT TCT TCT TCT TCT TCT TCT TCT GCT TCT TCT TCT TCG TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
116872001 TCT TCT TCT TC
1 TCT TCT TCT TC
116872012 CACTATCTGC
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.00, C:0.34, G:0.05, T:0.61
Consensus pattern (3 bp):
TCT
Found at i:116875395 original size:6 final size:6
Alignment explanation
Indices: 116875384--116875412 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
116875374 CACCATAAGG
116875384 GTAACA GTAACA GTAACA GTAACA GTAAC
1 GTAACA GTAACA GTAACA GTAACA GTAAC
116875413 GGTACACAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.48, C:0.17, G:0.17, T:0.17
Consensus pattern (6 bp):
GTAACA
Found at i:116876314 original size:20 final size:18
Alignment explanation
Indices: 116876276--116876319 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 18
116876266 AAGCCCTAAT
116876276 TTTCCC-TTTTCTTTTTC
1 TTTCCCTTTTTCTTTTTC
116876293 TTTCCCTTTTTCCTTCTTTC
1 TTTCCCTTTTT-CTT-TTTC
116876313 TTTCCCT
1 TTTCCCT
116876320 GCTATTCGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.25
18 4 0.17
19 3 0.12
20 11 0.46
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTCCCTTTTTCTTTTTC
Found at i:116878255 original size:18 final size:19
Alignment explanation
Indices: 116878226--116878281 Score: 69
Period size: 18 Copynumber: 2.9 Consensus size: 19
116878216 TCAAAAATGT
*
116878226 AGAAAACTTTTAAAAATTAT
1 AGAAAA-TTTTAAAAATTAA
*
116878246 TGAAAA-TTTAAAAATTAA
1 AGAAAATTTTAAAAATTAA
116878264 AGAAAATTATTAAAAATT
1 AGAAAATT-TTAAAAATT
116878282 TATAAAATAG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
18 16 0.52
19 1 0.03
20 14 0.45
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (19 bp):
AGAAAATTTTAAAAATTAA
Found at i:116878284 original size:11 final size:9
Alignment explanation
Indices: 116878209--116878390 Score: 88
Period size: 10 Copynumber: 19.1 Consensus size: 9
116878199 AAAAAAATCC
116878209 AAAATTATCA
1 AAAATTAT-A
*
116878219 AAAATGTAGA
1 AAAAT-TATA
* *
116878229 AAACTTTTA
1 AAAATTATA
*
116878238 AAAATTATTG
1 AAAATTA-TA
116878248 AAAATT-TA
1 AAAATTATA
*
116878256 AAAATTAAA
1 AAAATTATA
116878265 GAAAATTATTA
1 -AAAATTA-TA
116878276 AAAATT-TA
1 AAAATTATA
* *
116878284 TAAAATAGAAA
1 -AAAAT-TATA
116878295 AAAATTCATA
1 AAAATT-ATA
116878305 AAAA-TATA
1 AAAATTATA
116878313 AAATATT-TA
1 AAA-ATTATA
116878322 AAAATTATA
1 AAAATTATA
116878331 AAAATATATTTA
1 AAAAT-TA--TA
116878343 AAATTATTATA
1 AAA--ATTATA
116878354 AAATATT-T-
1 AAA-ATTATA
116878362 AAAATTATA
1 AAAATTATA
* * *
116878371 ATAATAGAAA
1 AAAAT-TATA
116878381 AAAATTATA
1 AAAATTATA
116878390 A
1 A
116878391 TTTATAAAAA
Statistics
Matches: 132, Mismatches: 20, Indels: 41
0.68 0.10 0.21
Matches are distributed among these distances:
7 3 0.02
8 22 0.17
9 35 0.27
10 54 0.41
11 9 0.07
12 5 0.04
13 2 0.02
14 2 0.02
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.34
Consensus pattern (9 bp):
AAAATTATA
Found at i:116878316 original size:27 final size:26
Alignment explanation
Indices: 116878266--116878338 Score: 83
Period size: 27 Copynumber: 2.7 Consensus size: 26
116878256 AAAATTAAAG
116878266 AAAATTATTAAAAATTTATAAAATAGAAA
1 AAAATTA-TAAAAA--TATAAAATAGAAA
***
116878295 AAAATTCATAAAAATATAAAATATTTA
1 AAAATT-ATAAAAATATAAAATAGAAA
116878322 AAAATTATAAAAATATA
1 AAAATTATAAAAATATA
116878339 TTTAAAATTA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
26 11 0.28
27 16 0.40
29 12 0.30
30 1 0.03
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.32
Consensus pattern (26 bp):
AAAATTATAAAAATATAAAATAGAAA
Found at i:116882480 original size:46 final size:46
Alignment explanation
Indices: 116882429--116882641 Score: 275
Period size: 46 Copynumber: 4.6 Consensus size: 46
116882419 AAAACCTGAT
** * *
116882429 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
116882475 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * * * *
116882521 GGGAAATTAATAAGATCATGGTTGAAAGATACCATGGCAGCGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
116882567 ATGAAATGAATAAGACCATTGTTGAAAGATACCACGACAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
116882613 A-GAAAATGAGTAAGACCATAGTTGAAAGA
1 ATG-AAATGAATAAGACCATGGTTGAAAGA
116882642 CACTATGACA
Statistics
Matches: 145, Mismatches: 21, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
45 1 0.01
46 144 0.99
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:116886787 original size:31 final size:31
Alignment explanation
Indices: 116886749--116886897 Score: 253
Period size: 31 Copynumber: 4.8 Consensus size: 31
116886739 ATCAATGACA
*
116886749 AGTGAAAAGTGGTAGCTTCGGCTACCTAATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
116886780 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
116886811 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
116886842 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
116886873 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
116886898 AAGTGACAAG
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 110 1.00
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:116886992 original size:47 final size:46
Alignment explanation
Indices: 116886922--116887086 Score: 160
Period size: 47 Copynumber: 3.7 Consensus size: 46
116886912 AAGTGATTTC
* * *
116886922 CGTATAAAACCATATCTGGGATATGGCATCGGTGTGATATATGCTA
1 CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * *
116886968 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATT
1 C-GTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * *
116887015 CGTGTAAGACCATAGCTGGGCTATGGCATC-----GATATATGAATA
1 CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATG-ATA
* * * *
116887057 GGTGTAAGACCATAGCTGGGCTATGGCATC
1 CGTATAAGACCATATCTGGGATATGGCATC
116887087 ATTATGTGAA
Statistics
Matches: 105, Mismatches: 12, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
41 7 0.07
42 31 0.30
46 27 0.26
47 40 0.38
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (46 bp):
CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
Found at i:116887074 original size:42 final size:43
Alignment explanation
Indices: 116887016--116887130 Score: 162
Period size: 42 Copynumber: 2.7 Consensus size: 43
116887006 TATGTGATTC
*
116887016 GTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATAG
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAG
* *
116887058 GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAG
* **
116887100 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA
116887131 GAAAATGAAG
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
41 1 0.02
42 63 0.97
43 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAG
Found at i:116889237 original size:15 final size:14
Alignment explanation
Indices: 116889219--116889254 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
116889209 GCTTAAATTT
116889219 AAAAAAAAAATTCAG
1 AAAAAAAAAA-TCAG
*
116889234 AAAAAGAAAATCAG
1 AAAAAAAAAATCAG
116889248 AAAAAAA
1 AAAAAAA
116889255 TAGAAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.78, C:0.06, G:0.08, T:0.08
Consensus pattern (14 bp):
AAAAAAAAAATCAG
Found at i:116893983 original size:20 final size:22
Alignment explanation
Indices: 116893944--116893985 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
116893934 TATATGAAAA
*
116893944 TTATTTTAAACTCTTTTATTAT
1 TTATTGTAAACTCTTTTATTAT
116893966 TTATTGTAAAC-C-TTTATTAT
1 TTATTGTAAACTCTTTTATTAT
116893986 CATTAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 1 0.05
22 10 0.53
ACGTcount: A:0.29, C:0.10, G:0.02, T:0.60
Consensus pattern (22 bp):
TTATTGTAAACTCTTTTATTAT
Found at i:116894169 original size:7 final size:6
Alignment explanation
Indices: 116894150--116894179 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
116894140 AGTGTTCTTG
116894150 TTATTT TTATTT TTATTT TTATTT TGTATT
1 TTATTT TTATTT TTATTT TTATTT T-TATT
116894180 ATTCATCTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.83
7 4 0.17
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (6 bp):
TTATTT
Found at i:116904493 original size:7 final size:7
Alignment explanation
Indices: 116904481--116904520 Score: 55
Period size: 7 Copynumber: 5.7 Consensus size: 7
116904471 TTTGTGCTCA
116904481 TTTTTTC
1 TTTTTTC
116904488 TTTTTTC
1 TTTTTTC
116904495 TTTTTT-
1 TTTTTTC
116904501 TTTTTTC
1 TTTTTTC
*
116904508 TGATTTTC
1 T-TTTTTC
116904516 TTTTT
1 TTTTT
116904521 CTGAATTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 6 0.21
7 17 0.59
8 6 0.21
ACGTcount: A:0.03, C:0.10, G:0.03, T:0.85
Consensus pattern (7 bp):
TTTTTTC
Found at i:116904528 original size:15 final size:14
Alignment explanation
Indices: 116904483--116904529 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
116904473 TGTGCTCATT
*
116904483 TTTTCTTTTTTCT-T
1 TTTTC-TTTTTCTGA
*
116904497 TTTTTTTTTTCTGA
1 TTTTCTTTTTCTGA
116904511 TTTTCTTTTTCTGAA
1 TTTTCTTTTTCTG-A
116904526 TTTT
1 TTTT
116904530 TATTTTTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 7 0.25
14 16 0.57
15 5 0.18
ACGTcount: A:0.06, C:0.11, G:0.04, T:0.79
Consensus pattern (14 bp):
TTTTCTTTTTCTGA
Found at i:116904535 original size:15 final size:13
Alignment explanation
Indices: 116904488--116904535 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
116904478 TCATTTTTTC
**
116904488 TTTTTTCTTTTTT
1 TTTTTTCTGATTT
116904501 TTTTTTCTGATTT
1 TTTTTTCTGATTT
116904514 TCTTTTTCTGAATTT
1 T-TTTTTCTG-ATTT
116904529 TTATTTT
1 TT-TTTT
116904536 TTAAAATTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 12 0.40
14 9 0.30
15 9 0.30
ACGTcount: A:0.08, C:0.08, G:0.04, T:0.79
Consensus pattern (13 bp):
TTTTTTCTGATTT
Found at i:116904898 original size:18 final size:18
Alignment explanation
Indices: 116904865--116904899 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
116904855 GACTTAATCC
116904865 AAATATATTATATTATAA
1 AAATATATTATATTATAA
116904883 AAATCATATTAT-TTATA
1 AAAT-ATATTATATTATA
116904900 CATGTTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (18 bp):
AAATATATTATATTATAA
Found at i:116905933 original size:13 final size:14
Alignment explanation
Indices: 116905900--116905937 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
116905890 ATATTTAAGT
*
116905900 AGAAAATAACTTCG
1 AGAAAATAATTTCG
*
116905914 AGAAAATAATTTTG
1 AGAAAATAATTTCG
116905928 -GAAAATAATT
1 AGAAAATAATT
116905938 GATTTGTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.53, C:0.05, G:0.13, T:0.29
Consensus pattern (14 bp):
AGAAAATAATTTCG
Found at i:116907186 original size:19 final size:19
Alignment explanation
Indices: 116907118--116907191 Score: 55
Period size: 19 Copynumber: 3.9 Consensus size: 19
116907108 ATATAAAACA
*
116907118 TAAAA-ATATCTGAAATTAT
1 TAAAATATAT-TGAAAATAT
* * *
116907137 T-AAATATGTAGAAAACTTT
1 TAAAATATATTGAAAA-TAT
*
116907156 TAAAAATTTATTGAAAATAT
1 T-AAAATATATTGAAAATAT
116907176 TAAAATATATT-AAAAT
1 TAAAATATATTGAAAAT
116907192 CTAAAAAATA
Statistics
Matches: 42, Mismatches: 9, Indels: 9
0.70 0.15 0.15
Matches are distributed among these distances:
18 12 0.29
19 16 0.38
20 3 0.07
21 11 0.26
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (19 bp):
TAAAATATATTGAAAATAT
Found at i:116907253 original size:7 final size:8
Alignment explanation
Indices: 116907235--116907277 Score: 50
Period size: 9 Copynumber: 5.0 Consensus size: 8
116907225 AAATAGAAAC
116907235 AAAATATA
1 AAAATATA
116907243 AAAATATAA
1 AAAATAT-A
*
116907252 AAACATTTA
1 AAA-ATATA
116907261 AAAATTATA
1 AAAA-TATA
116907270 AAAATATA
1 AAAATATA
116907278 TTTAAAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
8 12 0.40
9 15 0.50
10 3 0.10
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (8 bp):
AAAATATA
Found at i:116907282 original size:21 final size:20
Alignment explanation
Indices: 116907241--116907295 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 20
116907231 AAACAAAATA
116907241 TAAAAA-TAT-AAAAACATT
1 TAAAAATTATAAAAAACATT
*
116907259 TAAAAATTATAAAAATATATT
1 TAAAAATTATAAAAA-ACATT
116907280 TAAAATTATTATAAAA
1 TAAAA--ATTATAAAA
116907296 TACAAATAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
18 6 0.19
19 3 0.10
20 4 0.13
21 9 0.29
23 9 0.29
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (20 bp):
TAAAAATTATAAAAAACATT
Found at i:116907284 original size:20 final size:19
Alignment explanation
Indices: 116907241--116907288 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
116907231 AAACAAAATA
*
116907241 TAAAAATATAAAAACATTT
1 TAAAATTATAAAAACATTT
* *
116907260 AAAAATTATAAAAATATATT
1 TAAAATTATAAAAACAT-TT
116907280 TAAAATTAT
1 TAAAATTAT
116907289 TATAAAATAC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (19 bp):
TAAAATTATAAAAACATTT
Found at i:116907373 original size:17 final size:16
Alignment explanation
Indices: 116907326--116907373 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
116907316 ATTTAAAACT
116907326 ATTATA-ATAGAAAAA
1 ATTATATATAGAAAAA
* *
116907341 ATTATAATTTATAAAAA
1 ATTAT-ATATAGAAAAA
116907358 ATATATATATAGAAAA
1 AT-TATATATAGAAAA
116907374 GTTTTAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
15 5 0.19
16 1 0.04
17 17 0.65
18 3 0.12
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (16 bp):
ATTATATATAGAAAAA
Found at i:116909788 original size:19 final size:20
Alignment explanation
Indices: 116909738--116909788 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 20
116909728 TGAGTGGTTT
*
116909738 AAAAA-CATAACATATTAAA
1 AAAAATCATAAAATATTAAA
* * *
116909757 AAAAGTAAAAAAAT-TTAAA
1 AAAAATCATAAAATATTAAA
116909776 AAAAATCATAAAA
1 AAAAATCATAAAA
116909789 ATTCTAAAAG
Statistics
Matches: 24, Mismatches: 7, Indels: 2
0.73 0.21 0.06
Matches are distributed among these distances:
19 19 0.79
20 5 0.21
ACGTcount: A:0.73, C:0.06, G:0.02, T:0.20
Consensus pattern (20 bp):
AAAAATCATAAAATATTAAA
Found at i:116912221 original size:23 final size:22
Alignment explanation
Indices: 116912178--116912221 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
116912168 ATTCATTTCC
**
116912178 ATAAAAAACAATAAATTTTTTT
1 ATAAAAAACAATAAAAATTTTT
*
116912200 ATAAAAACCAAATAAAAATTTT
1 ATAAAAAAC-AATAAAAATTTT
116912222 AATTAAAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (22 bp):
ATAAAAAACAATAAAAATTTTT
Found at i:116920696 original size:10 final size:10
Alignment explanation
Indices: 116920681--116920710 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
116920671 GTAGATACAA
116920681 AAAAAAAAAG
1 AAAAAAAAAG
*
116920691 AAAAAAAAGG
1 AAAAAAAAAG
116920701 AAAAAAAAAG
1 AAAAAAAAAG
116920711 GAACTCTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:116920710 original size:11 final size:11
Alignment explanation
Indices: 116920680--116920713 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
116920670 TGTAGATACA
*
116920680 AAAAAAAAAAG
1 AAAAAAAAAGG
116920691 -AAAAAAAAGG
1 AAAAAAAAAGG
116920701 AAAAAAAAAGG
1 AAAAAAAAAGG
116920712 AA
1 AA
116920714 CTCTTTTTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAGG
Found at i:116922579 original size:38 final size:38
Alignment explanation
Indices: 116922534--116922607 Score: 121
Period size: 38 Copynumber: 1.9 Consensus size: 38
116922524 GCAAGTGTTG
* *
116922534 GAGAGAAAATCAAAGATGAAATTGTAAAACATCTTTAT
1 GAGAGAAAATCAAAGACGAAACTGTAAAACATCTTTAT
*
116922572 GAGAGAAAATCAAAGACGAAACTGTATAACATCTTT
1 GAGAGAAAATCAAAGACGAAACTGTAAAACATCTTT
116922608 TTGATGTTGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.49, C:0.11, G:0.16, T:0.24
Consensus pattern (38 bp):
GAGAGAAAATCAAAGACGAAACTGTAAAACATCTTTAT
Found at i:116924017 original size:42 final size:42
Alignment explanation
Indices: 116923953--116924121 Score: 241
Period size: 42 Copynumber: 4.0 Consensus size: 42
116923943 TCAGGTGCAA
* **
116923953 CTTCGGAAACAGCAGCATCATTGGT-TCCATCAGCTGCCAATT
1 CTTCAGAAACAGCAGCATCATTGGTCT-CATCAGCCACCAATT
* *
116923995 CTTGAGAAACAGCAGCATCATTGGTCTCATCAGCCATCAATT
1 CTTCAGAAACAGCAGCATCATTGGTCTCATCAGCCACCAATT
* *
116924037 CTTCAGAAACAACAGCATCGTTGGTCTCATCAGCCACCAATT
1 CTTCAGAAACAGCAGCATCATTGGTCTCATCAGCCACCAATT
* *
116924079 CTTCAGATACAGCAGCATCATTGGTCTCATCAGCTACCAATT
1 CTTCAGAAACAGCAGCATCATTGGTCTCATCAGCCACCAATT
116924121 C
1 C
116924122 CTCATTTGGT
Statistics
Matches: 113, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
42 112 0.99
43 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (42 bp):
CTTCAGAAACAGCAGCATCATTGGTCTCATCAGCCACCAATT
Found at i:116924423 original size:149 final size:149
Alignment explanation
Indices: 116924153--116924450 Score: 569
Period size: 149 Copynumber: 2.0 Consensus size: 149
116924143 CTCATATAAG
116924153 TCTTCAAAGACAGCATTATCATCACAACCTGAAGTGTGACAACCATTTGCAAAGGGAACAAAATA
1 TCTTCAAAGACAGCATTATCATCACAACCTGAAGTGTGACAACCATTTGCAAAGGGAACAAAATA
*
116924218 GATGGCTTGAGAAAACAAATTGCACAAATAGGTTGCCATAGTTCAATAAATATTAAAAAAGTTCA
66 GATGGCTTGAGAAAACAAATTGCACAAATAGGTTGCCATAGTTCAATAAATATTAAAAAAGTTAA
116924283 AAACAAATAGCTTCCATAC
131 AAACAAATAGCTTCCATAC
116924302 TCTTCAAAGACAGCATTATCATCACAACCTGAAGTGTGACAACCATTTGCAAAGGGAACAAAATA
1 TCTTCAAAGACAGCATTATCATCACAACCTGAAGTGTGACAACCATTTGCAAAGGGAACAAAATA
* *
116924367 GATGGCTTGAGAAAACAAATTGCACAAATAGGTTGTCATAGTTCAATAAATGTTAAAAAAGTTAA
66 GATGGCTTGAGAAAACAAATTGCACAAATAGGTTGCCATAGTTCAATAAATATTAAAAAAGTTAA
116924432 AAACAAATAGCTTCCATAC
131 AAACAAATAGCTTCCATAC
116924451 CCTTTGGACC
Statistics
Matches: 146, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
149 146 1.00
ACGTcount: A:0.44, C:0.17, G:0.15, T:0.24
Consensus pattern (149 bp):
TCTTCAAAGACAGCATTATCATCACAACCTGAAGTGTGACAACCATTTGCAAAGGGAACAAAATA
GATGGCTTGAGAAAACAAATTGCACAAATAGGTTGCCATAGTTCAATAAATATTAAAAAAGTTAA
AAACAAATAGCTTCCATAC
Found at i:116929538 original size:21 final size:21
Alignment explanation
Indices: 116929512--116929689 Score: 169
Period size: 21 Copynumber: 7.9 Consensus size: 21
116929502 GATTTCCAAC
116929512 TGGTAATGGTCAAAATTGGAA
1 TGGTAATGGTCAAAATTGGAA
116929533 TGGTAATGGTCAAAATTGGCAGGCTAA
1 TGGTAATGGTCAAAATT----GG--AA
* *
116929560 TGGTACTGGTCAAAGTTGGAA
1 TGGTAATGGTCAAAATTGGAA
*
116929581 TGGTACTGGTCAAAATTGGCAGGCTAA
1 TGGTAATGGTCAAAATT----GG--AA
** *
116929608 TTTTAATGGTCAAAATTGGGA
1 TGGTAATGGTCAAAATTGGAA
*
116929629 TGGTAATGGTCAAAATTGGCA
1 TGGTAATGGTCAAAATTGGAA
116929650 -GGCTAATGGTCAAAATTGGAA
1 TGG-TAATGGTCAAAATTGGAA
116929671 TGGTAATGGTCAAAATTGG
1 TGGTAATGGTCAAAATTGG
116929690 GGTGTCTTTT
Statistics
Matches: 132, Mismatches: 11, Indels: 28
0.77 0.06 0.16
Matches are distributed among these distances:
20 2 0.02
21 87 0.66
22 2 0.02
23 4 0.03
25 4 0.03
27 33 0.25
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (21 bp):
TGGTAATGGTCAAAATTGGAA
Found at i:116929542 original size:27 final size:27
Alignment explanation
Indices: 116929531--116929659 Score: 129
Period size: 27 Copynumber: 5.2 Consensus size: 27
116929521 TCAAAATTGG
116929531 AATGGTAATGGTCAAAATTGGCAGGCT
1 AATGGTAATGGTCAAAATTGGCAGGCT
* *
116929558 AATGGTACTGGTCAAAGTT----GG--
1 AATGGTAATGGTCAAAATTGGCAGGCT
*
116929579 AATGGTACTGGTCAAAATTGGCAGGCT
1 AATGGTAATGGTCAAAATTGGCAGGCT
**
116929606 AATTTTAATGGTCAAAATT-G--GG--
1 AATGGTAATGGTCAAAATTGGCAGGCT
116929628 -ATGGTAATGGTCAAAATTGGCAGGCT
1 AATGGTAATGGTCAAAATTGGCAGGCT
116929654 AATGGT
1 AATGGT
116929660 CAAAATTGGA
Statistics
Matches: 82, Mismatches: 8, Indels: 24
0.72 0.07 0.21
Matches are distributed among these distances:
21 34 0.41
22 1 0.01
23 2 0.02
24 4 0.05
25 2 0.02
26 1 0.01
27 38 0.46
ACGTcount: A:0.32, C:0.10, G:0.29, T:0.29
Consensus pattern (27 bp):
AATGGTAATGGTCAAAATTGGCAGGCT
Found at i:116929583 original size:48 final size:48
Alignment explanation
Indices: 116929512--116929689 Score: 260
Period size: 48 Copynumber: 3.8 Consensus size: 48
116929502 GATTTCCAAC
116929512 TGGTAATGGTCAAAATTGGAATGGTAATGGTCAAAATTGGCAGGCTAA
1 TGGTAATGGTCAAAATTGGAATGGTAATGGTCAAAATTGGCAGGCTAA
* * *
116929560 TGGTACTGGTCAAAGTTGGAATGGTACTGGTCAAAATTGGCAGGCTAA
1 TGGTAATGGTCAAAATTGGAATGGTAATGGTCAAAATTGGCAGGCTAA
** *
116929608 TTTTAATGGTCAAAATTGGGATGGTAATGGTCAAAATTGGCAGGC---
1 TGGTAATGGTCAAAATTGGAATGGTAATGGTCAAAATTGGCAGGCTAA
116929653 ---TAATGGTCAAAATTGGAATGGTAATGGTCAAAATTGG
1 TGGTAATGGTCAAAATTGGAATGGTAATGGTCAAAATTGG
116929690 GGTGTCTTTT
Statistics
Matches: 120, Mismatches: 10, Indels: 6
0.88 0.07 0.04
Matches are distributed among these distances:
42 36 0.30
48 84 0.70
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (48 bp):
TGGTAATGGTCAAAATTGGAATGGTAATGGTCAAAATTGGCAGGCTAA
Found at i:116935249 original size:2 final size:2
Alignment explanation
Indices: 116935242--116935268 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
116935232 TTTTATATGA
116935242 AT 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 A
116935269 ACAATTACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:116935898 original size:56 final size:56
Alignment explanation
Indices: 116935812--116935924 Score: 217
Period size: 56 Copynumber: 2.0 Consensus size: 56
116935802 TAAATGAGTT
*
116935812 TGTTTGTCGAGCAATTTGTAAATCGAGAAGCTCTTCTATTTGTATTGCTGAAAGAC
1 TGTTTGTCGAGCAATTTGTAAATCGAGAAGCTCTTCTATTTATATTGCTGAAAGAC
116935868 TGTTTGTCGAGCAATTTGTAAATCGAGAAGCTCTTCTATTTATATTGCTGAAAGAC
1 TGTTTGTCGAGCAATTTGTAAATCGAGAAGCTCTTCTATTTATATTGCTGAAAGAC
116935924 T
1 T
116935925 TGACTGCCCG
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.38
Consensus pattern (56 bp):
TGTTTGTCGAGCAATTTGTAAATCGAGAAGCTCTTCTATTTATATTGCTGAAAGAC
Found at i:116942974 original size:13 final size:13
Alignment explanation
Indices: 116942948--116942985 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
116942938 AAAAAATAAG
*
116942948 TATTTTT-TTAAA
1 TATTTTTATTTAA
116942960 TATTTTTATTTAA
1 TATTTTTATTTAA
*
116942973 TATTTATATTTAA
1 TATTTTTATTTAA
116942986 CATAATTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 7 0.30
13 16 0.70
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
TATTTTTATTTAA
Found at i:116943402 original size:23 final size:23
Alignment explanation
Indices: 116943376--116943428 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
116943366 TTAAAATATA
116943376 AAAATAAATTTAAATT-ATTAAAT
1 AAAATAAA-TTAAATTAATTAAAT
116943399 AAAAT-AATTAAATTAAATTAAAT
1 AAAATAAATTAAATT-AATTAAAT
*
116943422 TAAATAA
1 AAAATAA
116943429 CAAAAAAACC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 7 0.27
22 2 0.08
23 16 0.62
24 1 0.04
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (23 bp):
AAAATAAATTAAATTAATTAAAT
Found at i:116946022 original size:21 final size:21
Alignment explanation
Indices: 116945985--116946086 Score: 100
Period size: 21 Copynumber: 4.8 Consensus size: 21
116945975 ATACACATAT
*
116945985 ATATAAATAATAGTATTAGAA
1 ATATAAATAATAATATTAGAA
116946006 ATATACAAT-ATAATATTAGAA
1 ATATA-AATAATAATATTAGAA
* * *
116946027 ATATATATAATAGTATAAAGAAAA
1 ATATAAATAATAATAT-TAG--AA
*
116946051 ATATAACTAATAATATTA-AA
1 ATATAAATAATAATATTAGAA
*
116946071 ATATATATAATAATAT
1 ATATAAATAATAATAT
116946087 ATGTGAAATA
Statistics
Matches: 66, Mismatches: 10, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
20 18 0.27
21 27 0.41
22 5 0.08
23 1 0.02
24 15 0.23
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (21 bp):
ATATAAATAATAATATTAGAA
Found at i:116946031 original size:42 final size:44
Alignment explanation
Indices: 116945985--116946087 Score: 131
Period size: 44 Copynumber: 2.4 Consensus size: 44
116945975 ATACACATAT
* * *
116945985 ATATAAATAATAGTAT-TAGAAATATACAA-T-ATAATATTAGAA
1 ATATATATAATAGTATAAAGAAAAATACAACTAATAATATTA-AA
*
116946027 ATATATATAATAGTATAAAGAAAAATATAACTAATAATATTAAA
1 ATATATATAATAGTATAAAGAAAAATACAACTAATAATATTAAA
*
116946071 ATATATATAATAATATA
1 ATATATATAATAGTATA
116946088 TGTGAAATAT
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
42 15 0.28
43 10 0.19
44 19 0.36
45 9 0.17
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (44 bp):
ATATATATAATAGTATAAAGAAAAATACAACTAATAATATTAAA
Found at i:116946036 original size:18 final size:19
Alignment explanation
Indices: 116945998--116946102 Score: 61
Period size: 20 Copynumber: 4.9 Consensus size: 19
116945988 TAAATAATAG
116945998 TATTAGAAATATACAATATAA
1 TATTAGAAATAT--AATATAA
116946019 TATTAGAAATAT-ATATAA
1 TATTAGAAATATAATATAA
116946037 TAGTATAAAGAAAAATATAACTAATAA
1 TA-T-T--AG--AAATATAA-T-ATAA
116946064 TATTA-AAATATATATAATAA
1 TATTAGAAATATA-AT-ATAA
*
116946084 TATATGTGAAATATAATAT
1 TAT-T-AGAAATATAATAT
116946103 TAAAACTTAT
Statistics
Matches: 70, Mismatches: 1, Indels: 26
0.72 0.01 0.27
Matches are distributed among these distances:
18 8 0.11
19 1 0.01
20 17 0.24
21 16 0.23
22 4 0.06
23 8 0.11
24 6 0.09
25 2 0.03
26 2 0.03
27 6 0.09
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.35
Consensus pattern (19 bp):
TATTAGAAATATAATATAA
Found at i:116946418 original size:18 final size:20
Alignment explanation
Indices: 116946383--116946424 Score: 61
Period size: 18 Copynumber: 2.1 Consensus size: 20
116946373 AATAGTACCT
116946383 TAAAAATAATTAGTATATTAA
1 TAAAAATAATTAG-ATATTAA
116946404 TAAAAATAA-TA-ATATTAA
1 TAAAAATAATTAGATATTAA
116946422 TAA
1 TAA
116946425 TATGTAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 10 0.48
20 2 0.10
21 9 0.43
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (20 bp):
TAAAAATAATTAGATATTAA
Found at i:116946425 original size:21 final size:21
Alignment explanation
Indices: 116946383--116946426 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
116946373 AATAGTACCT
* *
116946383 TAAAAATAATTAGTATATTAA
1 TAAAAATAATTAATATAATAA
116946404 TAAAAATAA-TAATATTAATAA
1 TAAAAATAATTAATA-TAATAA
116946425 TA
1 TA
116946427 TGTAAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (21 bp):
TAAAAATAATTAATATAATAA
Found at i:116950172 original size:11 final size:11
Alignment explanation
Indices: 116950158--116950183 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
116950148 ATCTTTTTGG
116950158 TATTATGTATA
1 TATTATGTATA
116950169 TATTATGTATA
1 TATTATGTATA
116950180 TATT
1 TATT
116950184 TTTAATGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.58
Consensus pattern (11 bp):
TATTATGTATA
Found at i:116950275 original size:15 final size:15
Alignment explanation
Indices: 116950255--116950283 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
116950245 CTTATGTACG
116950255 TATACAAATACTATA
1 TATACAAATACTATA
116950270 TATACAAATACTAT
1 TATACAAATACTAT
116950284 GTTATATATA
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:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (15 bp):
TATACAAATACTATA
Found at i:116954575 original size:26 final size:26
Alignment explanation
Indices: 116954539--116954648 Score: 193
Period size: 26 Copynumber: 4.2 Consensus size: 26
116954529 CATGAAATTC
*
116954539 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
116954565 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
116954591 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
116954617 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
116954643 TTATCA
1 TTATCA
116954649 ATTTATATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:116955070 original size:3 final size:3
Alignment explanation
Indices: 116955062--116955124 Score: 51
Period size: 3 Copynumber: 21.7 Consensus size: 3
116955052 ATTAACAATG
* * * *
116955062 ATA ATA ATA ATA ATA GTA ATA ATA TTA A-A ATA CAAA AAA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA
*
116955107 A-A A-A ATA ATA AAA ATA AT
1 ATA ATA ATA ATA ATA ATA AT
116955125 GAAGTAATTA
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
2 6 0.12
3 41 0.84
4 2 0.04
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:116959423 original size:23 final size:23
Alignment explanation
Indices: 116959393--116959449 Score: 82
Period size: 21 Copynumber: 2.6 Consensus size: 23
116959383 ATTTTTGGAG
116959393 AGAAGAGATTTTTTTGAGATTCA
1 AGAAGAGATTTTTTTGAGATTCA
116959416 AGAAGAGA--TTTTTGAGATTCA
1 AGAAGAGATTTTTTTGAGATTCA
* *
116959437 AGAGGGGATTTTT
1 AGAAGAGATTTTT
116959450 CTTTTTTCGA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 19 0.63
23 11 0.37
ACGTcount: A:0.33, C:0.04, G:0.26, T:0.37
Consensus pattern (23 bp):
AGAAGAGATTTTTTTGAGATTCA
Found at i:116960155 original size:120 final size:121
Alignment explanation
Indices: 116959925--116960189 Score: 498
Period size: 122 Copynumber: 2.2 Consensus size: 121
116959915 ATTTTAATAA
*
116959925 TATTATTATTATTATTATATATTAGTGTGTATTTTTATGTACATATATGTATGTATATACTTTTA
1 TATTATTATTATTATTATATATTAGTGTATATTTTTATGTACATATATGTATGTATATACTTTTA
116959990 TATATAGTATTGTTTTTTTAAATTTAATATTTTTATTTGCTCTTTGTATTTCTATAT
66 TATATAGTATTG-TTTTTTAAATTTAATATTTTTATTTGCTCTTTGTATTTCTATAT
116960047 TATTATTATTATTATTATATATTAGTGTATATTTTTATGTACATATATGTATGTATATACTTTTA
1 TATTATTATTATTATTATATATTAGTGTATATTTTTATGTACATATATGTATGTATATACTTTTA
116960112 TATATAGTATTG-TTTTTAAATTTAATATTTTTATTTGCTCTTTGTATTTCTATAT
66 TATATAGTATTGTTTTTTAAATTTAATATTTTTATTTGCTCTTTGTATTTCTATAT
116960167 TATTATTATTATTATTAT-TATTA
1 TATTATTATTATTATTATATATTA
116960190 TATGGTAGTG
Statistics
Matches: 142, Mismatches: 1, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
119 5 0.04
120 61 0.43
122 76 0.54
ACGTcount: A:0.29, C:0.04, G:0.07, T:0.60
Consensus pattern (121 bp):
TATTATTATTATTATTATATATTAGTGTATATTTTTATGTACATATATGTATGTATATACTTTTA
TATATAGTATTGTTTTTTAAATTTAATATTTTTATTTGCTCTTTGTATTTCTATAT
Found at i:116960172 original size:3 final size:3
Alignment explanation
Indices: 116960164--116960190 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
116960154 TGTATTTCTA
116960164 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
116960191 ATGGTAGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:116960448 original size:16 final size:16
Alignment explanation
Indices: 116960427--116960458 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
116960417 CTATTGTTAC
116960427 TGTTATTATCATCACT
1 TGTTATTATCATCACT
*
116960443 TGTTATTCTCATCACT
1 TGTTATTATCATCACT
116960459 ATTATTATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.22, G:0.06, T:0.50
Consensus pattern (16 bp):
TGTTATTATCATCACT
Found at i:116960702 original size:3 final size:3
Alignment explanation
Indices: 116960547--116960684 Score: 63
Period size: 3 Copynumber: 47.0 Consensus size: 3
116960537 AACTTAATAG
** *
116960547 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AGC ACT ACTT -TT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT
* * * * * * * *
116960592 ACT ATT ATT -TA ATAT ATT ATT TTT ACT ATT ATC GTC A-T ATT GTT
1 ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * *
116960636 ACT ATT ACT ATT A-T ATT ATT A-T GTT ATT A-T ATCT TTT ACT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT
116960679 ATT ATT
1 ATT ATT
116960685 GTTGTATTTT
Statistics
Matches: 97, Mismatches: 29, Indels: 18
0.67 0.20 0.12
Matches are distributed among these distances:
2 9 0.09
3 83 0.86
4 5 0.05
ACGTcount: A:0.30, C:0.08, G:0.03, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:116960723 original size:21 final size:21
Alignment explanation
Indices: 116960652--116960716 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 21
116960642 ACTATTATAT
116960652 TATTA-TGTTATTATATCTTTTAC
1 TATTATTGTTATTATA--TTTT-C
* * *
116960675 TATTATTATTGTTGTATTTTC
1 TATTATTGTTATTATATTTTC
116960696 TATTATTGTTATTATATTTTC
1 TATTATTGTTATTATATTTTC
116960717 CTTTATTTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 19 0.54
22 4 0.11
23 5 0.14
24 7 0.20
ACGTcount: A:0.23, C:0.06, G:0.06, T:0.65
Consensus pattern (21 bp):
TATTATTGTTATTATATTTTC
Found at i:116970171 original size:21 final size:21
Alignment explanation
Indices: 116970147--116970186 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
116970137 GTATATATTA
* *
116970147 TGTATATTTCTAATACTATAG
1 TGTACATTTCTAACACTATAG
116970168 TGTACATTTCTAACACTAT
1 TGTACATTTCTAACACTAT
116970187 TATTATTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.15, G:0.07, T:0.45
Consensus pattern (21 bp):
TGTACATTTCTAACACTATAG
Found at i:116970578 original size:26 final size:26
Alignment explanation
Indices: 116970540--116970647 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
116970530 TGATACAAAT
* *
116970540 TGATAATGAGTTAGGTAAATGTTCCG
1 TGATAATGGGTTAGGTAAATGTTCCA
*
116970566 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
116970592 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
116970618 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
116970644 TGAT
1 TGAT
116970648 GGGAATTTCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:116973361 original size:23 final size:23
Alignment explanation
Indices: 116973309--116973415 Score: 75
Period size: 23 Copynumber: 4.7 Consensus size: 23
116973299 GGGGTGTTAC
116973309 ATATATA-T-TGTATATA-TTTT
1 ATATATATTATGTATATATTTTT
116973329 ATATATATTATGTATATATTTTT
1 ATATATATTATGTATATATTTTT
*
116973352 A-ATGTCATTA-GTTATATATTTCTT
1 ATATAT-ATTATG-TATATATTT-TT
* *
116973376 ATACTAT-TCCATGTATGTATTTTT
1 ATA-TATAT-TATGTATATATTTTT
*
116973400 -TATTATCTTATGTATA
1 ATA-TATATTATGTATA
116973416 CATTCTTAAA
Statistics
Matches: 69, Mismatches: 7, Indels: 19
0.73 0.07 0.20
Matches are distributed among these distances:
20 7 0.10
21 1 0.01
22 12 0.17
23 29 0.42
24 7 0.10
25 10 0.14
26 3 0.04
ACGTcount: A:0.31, C:0.06, G:0.07, T:0.57
Consensus pattern (23 bp):
ATATATATTATGTATATATTTTT
Found at i:116973491 original size:26 final size:24
Alignment explanation
Indices: 116973317--116973477 Score: 72
Period size: 23 Copynumber: 6.5 Consensus size: 24
116973307 ACATATATAT
116973317 TGTATATA-TTTTATATA--TATTA
1 TGTATATATTTTTA-ATACGTATTA
116973339 TGTATATATTTTTAAT--GTCATTA
1 TGTATATATTTTTAATACGT-ATTA
116973362 -GTTATATATTTCTT-ATAC-TATTCCA
1 TG-TATATATTT-TTAATACGTATT--A
* * *
116973387 TGTATGTATTTTTTATTA--TCTTA
1 TGTATATA-TTTTTAATACGTATTA
* * *
116973410 TGTATACATTCTTAAATACTATGTTATACA
1 TGTATATATT-TTTAATAC---G-TAT-TA
116973440 TGTATATATTTTTAATACCGTATTA
1 TGTATATATTTTTAATA-CGTATTA
116973465 TGTATATATTTTT
1 TGTATATATTTTT
116973478 GTACATAGTA
Statistics
Matches: 106, Mismatches: 12, Indels: 39
0.68 0.08 0.25
Matches are distributed among these distances:
22 14 0.13
23 35 0.33
24 3 0.03
25 25 0.24
26 9 0.08
27 1 0.01
29 8 0.08
30 11 0.10
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.55
Consensus pattern (24 bp):
TGTATATATTTTTAATACGTATTA
Found at i:116973795 original size:26 final size:26
Alignment explanation
Indices: 116973741--116973800 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
116973731 ATATGTATTG
*
116973741 TGTATATTCTTAATATTATATATTGTA
1 TGTATATTCTTAATA-TATATATTATA
*
116973768 TGTATTTTCTTAATA-ACTATATTATA
1 TGTATATTCTTAATATA-TATATTATA
116973794 TGTATAT
1 TGTATAT
116973801 ATATAGTATG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 1 0.03
26 14 0.48
27 14 0.48
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.55
Consensus pattern (26 bp):
TGTATATTCTTAATATATATATTATA
Found at i:116973836 original size:19 final size:18
Alignment explanation
Indices: 116973785--116973854 Score: 63
Period size: 19 Copynumber: 3.8 Consensus size: 18
116973775 TCTTAATAAC
* *
116973785 TATAT-TATATGTATATA
1 TATATATATATGTATTTT
* *
116973802 TATAGTATGTACGTATTTT
1 TATA-TATATATGTATTTT
116973821 TA-ATATTATTATGTATTTT
1 TATATA-TA-TATGTATTTT
116973840 TATATATATATGTAT
1 TATATATATATGTAT
116973855 ATATGTGTGT
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
17 6 0.14
18 10 0.24
19 23 0.55
20 3 0.07
ACGTcount: A:0.34, C:0.01, G:0.09, T:0.56
Consensus pattern (18 bp):
TATATATATATGTATTTT
Found at i:116974109 original size:26 final size:25
Alignment explanation
Indices: 116974079--116974245 Score: 116
Period size: 25 Copynumber: 7.2 Consensus size: 25
116974069 TACGTATATA
116974079 TATATATTTTTAATAGCTATATTATG
1 TATATATTTTTAATA-CTATATTATG
116974105 TATATATTTTTAATACTATATTATG
1 TATATATTTTTAATACTATATTATG
* *
116974130 TACATACTTTTAATA-T-TATTATG
1 TATATATTTTTAATACTATATTATG
*
116974153 TAT-TTTATTTTAATA-TATATGTA-G
1 TATATAT-TTTTAATACTATAT-TATG
*
116974177 CAT-TA---TTAATA-TATA-T-TG
1 TATATATTTTTAATACTATATTATG
* *
116974195 TATATGTTCATTTTATA-TATATTATG
1 TATATATT--TTTAATACTATATTATG
116974221 TATATA--TTTAATA-T-TATTATG
1 TATATATTTTTAATACTATATTATG
116974242 TATA
1 TATA
116974246 CACTTTTCAT
Statistics
Matches: 117, Mismatches: 12, Indels: 29
0.74 0.08 0.18
Matches are distributed among these distances:
18 4 0.03
19 1 0.01
20 10 0.09
21 11 0.09
22 8 0.07
23 18 0.15
24 17 0.15
25 26 0.22
26 22 0.19
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.55
Consensus pattern (25 bp):
TATATATTTTTAATACTATATTATG
Found at i:116974150 original size:48 final size:45
Alignment explanation
Indices: 116974098--116974245 Score: 132
Period size: 47 Copynumber: 3.2 Consensus size: 45
116974088 TTAATAGCTA
116974098 TATTATGTATATATT-TTTAATACTATATTATGTACATACTTTTAATAT
1 TATTATGTATAT-TTATTT-ATA-TATATTATGTACATA-TTTTAATAT
*
116974146 TATTATGTAT-TTTATTT-TA-ATATATATGTAGCAT-TATTAATA-
1 TATTATGTATATTTATTTATATATAT-TATGTA-CATATTTTAATAT
*
116974188 TA-TATTGTATATGTTCATTTTATATATATTATGTATATA-TTTAATAT
1 TATTA-TGTATAT-TT-A-TTTATATATATTATGTACATATTTTAATAT
116974235 TATTATGTATA
1 TATTATGTATA
116974246 CACTTTTCAT
Statistics
Matches: 84, Mismatches: 3, Indels: 27
0.74 0.03 0.24
Matches are distributed among these distances:
41 2 0.02
42 7 0.08
43 12 0.14
44 8 0.10
45 6 0.07
46 13 0.15
47 20 0.24
48 16 0.19
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.55
Consensus pattern (45 bp):
TATTATGTATATTTATTTATATATATTATGTACATATTTTAATAT
Found at i:116981857 original size:5 final size:6
Alignment explanation
Indices: 116981842--116981871 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
116981832 AAATTTGATG
116981842 TTTTTA TTTTTA TTTTTA TTTTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA -TTTTTA TTTTT
116981872 TATGTTTACC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (6 bp):
TTTTTA
Found at i:116981858 original size:7 final size:7
Alignment explanation
Indices: 116981842--116981874 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
116981832 AAATTTGATG
116981842 TTTTTA-
1 TTTTTAT
116981848 TTTTTA-
1 TTTTTAT
116981854 TTTTTAT
1 TTTTTAT
116981861 TTTTTAT
1 TTTTTAT
116981868 TTTTTAT
1 TTTTTAT
116981875 GTTTACCTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 12 0.46
7 14 0.54
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTAT
Found at i:116981879 original size:13 final size:12
Alignment explanation
Indices: 116981842--116981871 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
116981832 AAATTTGATG
116981842 TTTTTATTTTTA
1 TTTTTATTTTTA
116981854 TTTTTATTTTTTA
1 TTTTTA-TTTTTA
116981867 TTTTT
1 TTTTT
116981872 TATGTTTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (12 bp):
TTTTTATTTTTA
Found at i:116982989 original size:18 final size:18
Alignment explanation
Indices: 116982966--116983001 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
116982956 TTAAAATTAG
116982966 TCATTTTACAACTAAATT
1 TCATTTTACAACTAAATT
*
116982984 TCATTTTACGACTAAATT
1 TCATTTTACAACTAAATT
116983002 AAAAAGTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.17, G:0.03, T:0.44
Consensus pattern (18 bp):
TCATTTTACAACTAAATT
Found at i:116984639 original size:26 final size:26
Alignment explanation
Indices: 116984608--116984685 Score: 68
Period size: 26 Copynumber: 2.9 Consensus size: 26
116984598 ATAACTTTCT
*
116984608 ATAATTTTTATTTTTTTTATTTTAGCA
1 ATAATTTTTATTTTTTTTATTTTA-AA
* *
116984635 A-AATTTAAATATTTTTCTATATTTTAAA
1 ATAATTT--TTATTTTT-TTTATTTTAAA
* *
116984663 ATAAGTTTTATTTATTTTATTTT
1 ATAATTTTTATTTTTTTTATTTT
116984686 CCTACCACGT
Statistics
Matches: 40, Mismatches: 7, Indels: 9
0.71 0.12 0.16
Matches are distributed among these distances:
26 12 0.30
27 7 0.17
28 9 0.22
29 12 0.30
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.63
Consensus pattern (26 bp):
ATAATTTTTATTTTTTTTATTTTAAA
Found at i:116987164 original size:22 final size:22
Alignment explanation
Indices: 116987140--116987183 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 22
116987130 TAATTTAAAA
*
116987140 TATAAAAATTTATT-AT-TATG
1 TATATAAATTTATTAATATATG
116987160 TATATAAATTTATTAATATATG
1 TATATAAATTTATTAATATATG
116987182 TA
1 TA
116987184 AAAACAACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 13 0.62
21 2 0.10
22 6 0.29
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (22 bp):
TATATAAATTTATTAATATATG
Found at i:116987270 original size:20 final size:19
Alignment explanation
Indices: 116987245--116987282 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
116987235 ATATTTTCAG
116987245 TAAATCATTTTCCAGAAAAA
1 TAAATCATTTTCCA-AAAAA
116987265 TAAATCATTTTCCAAAAA
1 TAAATCATTTTCCAAAAA
116987283 TCATTTTTCG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.50, C:0.16, G:0.03, T:0.32
Consensus pattern (19 bp):
TAAATCATTTTCCAAAAAA
Found at i:116987285 original size:14 final size:14
Alignment explanation
Indices: 116987266--116987303 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
116987256 CCAGAAAAAT
116987266 AAATCATTTTCCAA
1 AAATCATTTTCCAA
*
116987280 AAATCATTTTTCGAA
1 AAATCA-TTTTCCAA
116987295 AAAT-ATTTT
1 AAATCATTTT
116987304 ACTGGCAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 4 0.18
14 7 0.32
15 11 0.50
ACGTcount: A:0.42, C:0.13, G:0.03, T:0.42
Consensus pattern (14 bp):
AAATCATTTTCCAA
Found at i:116987296 original size:15 final size:15
Alignment explanation
Indices: 116987266--116987303 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
116987256 CCAGAAAAAT
116987266 AAATCA-TTTTCCAA
1 AAATCATTTTTCCAA
*
116987280 AAATCATTTTTCGAA
1 AAATCATTTTTCCAA
116987295 AAAT-ATTTT
1 AAATCATTTT
116987304 ACTGGCAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.42, C:0.13, G:0.03, T:0.42
Consensus pattern (15 bp):
AAATCATTTTTCCAA
Found at i:116987404 original size:2 final size:2
Alignment explanation
Indices: 116987397--116987425 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
116987387 TGATAACACC
116987397 AT AT 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 A
116987426 ACAAAGCCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:116999988 original size:26 final size:26
Alignment explanation
Indices: 116999948--117000001 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
116999938 TAACTCGAAT
* *
116999948 AATTTTATTTGATTCAACTCAATTCG
1 AATTTCATTTCATTCAACTCAATTCG
*
116999974 AATTTCATTTCATTCTACTCAATTCG
1 AATTTCATTTCATTCAACTCAATTCG
117000000 AA
1 AA
117000002 AAAAAAAATC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.31, C:0.19, G:0.06, T:0.44
Consensus pattern (26 bp):
AATTTCATTTCATTCAACTCAATTCG
Found at i:117001778 original size:118 final size:122
Alignment explanation
Indices: 117001563--117001809 Score: 412
Period size: 127 Copynumber: 2.0 Consensus size: 122
117001553 GCTGACATGG
117001563 AATGATATCTCATTTATGCTTTTGTTGATGTGGCATTATAAAAAAATATAAATTCTAAAATTTAT
1 AATGATATCTCATTTATGCTTTTGTTGATGTGGCATTATAAAAAAATATAAATTCTAAAA-TTAT
117001628 TAAAAATTAAAAAAATAAAAAAAATTAAAATTATGATACTTTTTTAAAAATACCAATCATTT
65 T---AATT-AAAAAATAAAAAAAATTAAAATTATGATACTTTTTTAAAAATACCAATCATTT
117001690 AATGATATCTCATTTATGCTTTTGTTGATGTGGCATTATAAAAAAATATAAATTCTAAAA-T-TT
1 AATGATATCTCATTTATGCTTTTGTTGATGTGGCATTATAAAAAAATATAAATTCTAAAATTATT
*
117001753 -ATT-AAAAATGAAAAAAATTAAAATTATGATACTTTTTTAAAAATACCAATCATTT
66 AATTAAAAAATAAAAAAAATTAAAATTATGATACTTTTTTAAAAATACCAATCATTT
117001808 AA
1 AA
117001810 AAAACTTAAA
Statistics
Matches: 119, Mismatches: 1, Indels: 9
0.92 0.01 0.07
Matches are distributed among these distances:
118 53 0.45
120 3 0.03
124 2 0.02
125 1 0.01
127 60 0.50
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.39
Consensus pattern (122 bp):
AATGATATCTCATTTATGCTTTTGTTGATGTGGCATTATAAAAAAATATAAATTCTAAAATTATT
AATTAAAAAATAAAAAAAATTAAAATTATGATACTTTTTTAAAAATACCAATCATTT
Found at i:117005331 original size:28 final size:27
Alignment explanation
Indices: 117005296--117005359 Score: 92
Period size: 28 Copynumber: 2.3 Consensus size: 27
117005286 ACAGGCAAAC
* *
117005296 TAAGTGTTGTTTGATAAATTCGAAAACT
1 TAAGTGTTGTTTGATAAACTAGAAAA-T
*
117005324 TAGGTGTTGTTTGATAAACTAGAAAAT
1 TAAGTGTTGTTTGATAAACTAGAAAAT
117005351 TAAGTGTTG
1 TAAGTGTTG
117005360 AAAATTTATG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 9 0.28
28 23 0.72
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.39
Consensus pattern (27 bp):
TAAGTGTTGTTTGATAAACTAGAAAAT
Found at i:117008968 original size:124 final size:125
Alignment explanation
Indices: 117008518--117008985 Score: 391
Period size: 124 Copynumber: 3.8 Consensus size: 125
117008508 TAAAAAGGAA
* * * * ** * ** *
117008518 CATAAAACTTAGCTTCAATGCATGTAGTCCTTTGAATCTTG-AAATATCGAATGTTACGATCATA
1 CATACAACTTAGCTTCGATGCCTGCAGTCAGTTGAATCTCGAAAATATCGAACATTTCGATCATA
* * * * *
117008582 TAAACATCTACTATTTACTTGGGAAGCAAGAAACAATCAGACATCAATCTAAGAAACCAG
66 TCAACATATACTATTTACTTGGGAAACAAGAAACAATCAGACATCGATCTAAGAAACTAG
* * * * *
117008642 CATACAACTTGGCTTCAATGCCTGCAATCAGTTGATTCTCG-AAATATCGAACATTTCGATCACA
1 CATACAACTTAGCTTCGATGCCTGCAGTCAGTTGAATCTCGAAAATATCGAACATTTCGATCATA
* ** *
117008706 TCAAC--AT-CT-CTTACTTGCTAAACAAGCAAGCATCAATCA-ACCAT-GAATC-AGAAAAACT
66 TCAACATATACTATTTACTTGGGAAACAAG-AA--A-CAATCAGA-CATCG-ATCTA-AGAAACT
*
117008764 CG
124 AG
* * * * * *
117008766 CATACAGCTTAGCTTCGGTGCATGCAGTCAGTTGAATCT-TAAAATATCAAACATTTTGATCATA
1 CATACAACTTAGCTTCGATGCCTGCAGTCAGTTGAATCTCGAAAATATCGAACATTTCGATCATA
* * * * * *
117008830 TTAGCATCTGCTATTTACTTGGGAAACAAGAAACCATCAGACATCGATCTAAGAAAGTAG
66 TCAACATATACTATTTACTTGGGAAACAAGAAACAATCAGACATCGATCTAAGAAACTAG
* * * * *
117008890 CATACAACCTAGCTTCGATGCCTGCTGTCAGTTAAATCTCGAAAAT-TTGAACATTTCAATCATA
1 CATACAACTTAGCTTCGATGCCTGCAGTCAGTTGAATCTCGAAAATATCGAACATTTCGATCATA
* * *
117008954 TCAACAAATACTATTTACTTTGGAAGCAAGAA
66 TCAACATATACTATTTACTTGGGAAACAAGAA
117008986 TCAGCATTAA
Statistics
Matches: 266, Mismatches: 62, Indels: 32
0.74 0.17 0.09
Matches are distributed among these distances:
120 13 0.05
121 4 0.02
122 1 0.00
123 3 0.01
124 217 0.82
125 9 0.03
126 1 0.00
127 4 0.02
128 14 0.05
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.28
Consensus pattern (125 bp):
CATACAACTTAGCTTCGATGCCTGCAGTCAGTTGAATCTCGAAAATATCGAACATTTCGATCATA
TCAACATATACTATTTACTTGGGAAACAAGAAACAATCAGACATCGATCTAAGAAACTAG
Found at i:117015756 original size:219 final size:213
Alignment explanation
Indices: 117015239--117015765 Score: 608
Period size: 215 Copynumber: 2.4 Consensus size: 213
117015229 ATAAATTCGT
* * * * * * *
117015239 TTGAAGCAGTCGATAATCTTCAATATTCGCTTTCTGGGTAATTATTATTCACCCATAATCATTGA
1 TTGAAGCACTTGATAACCATCAATTTTCGCTTTCTGGGTAATTATTATTTA-CCATAATTATTGA
* * * * *
117015304 TTTTTAGTGTGCAAAACTGAAAATTTTGTTCTTGTACTTATTGTTTGAAGTCAGTTATTTACTGA
65 TTTTTAGTGT-CAAAACTGAAAATTCTGTTCTTCTACTTATTGTTCGAAGTCAATTACTTACTGA
** * * ** *
117015369 ATAATTGAATGAGTAAAATTATATATTTTGCTATCTCTTAGTTGCATTTTTGTTCTTCATCGAAT
129 ATAATTGAATGAGTAAAACGATACATTGTGCTATCTCAAAGTTGAATTTTTGTTCTTCATCGAAT
*
117015434 TATGTATAAATAGTTTAGGC
194 TATGTATAAATACTTTAGGC
* *
117015454 TTGAAGCACTTGATAATCATCAATTTTCGCTTTCTGAGTAATTATTATTTACTCATAATTATTGA
1 TTGAAGCACTTGATAACCATCAATTTTCGCTTTCTGGGTAATTATTATTTAC-CATAATTATTGA
* *
117015519 TTTTTAGTGTTCAAAACTGAGAATTCTGTT-TATCTAGTTATTGTTCGAAGTCAATTACTTACTG
65 TTTTTAGTG-TCAAAACTGAAAATTCTGTTCT-TCTACTTATTGTTCGAAGTCAATTACTTACTG
* * * *
117015583 AATAATTGAATTAGTAAACCGATACATTGTGCTGTCTCAAAAGTT-AATTTTTTTTGTTTTTCAT
128 AATAATTGAATGAGTAAAACGATACATTGTGCTATCTC-AAAGTTGAA---TTTTTGTTCTTCAT
* *
117015647 CGAATTGTGTCTAAATACTTTAAGGC
189 CGAATTATGTATAAATACTTT-AGGC
** * *
117015673 TTGAAGCACTTGATAACCATCCGTTTTCGCTTTCTGGGTAATTATTATTTACCATCATTGTTGAT
1 TTGAAGCACTTGATAACCATCAATTTTCGCTTTCTGGGTAATTATTATTTACCATAATTATTGAT
* *
117015738 TTTTTGTGCTCAAAAACTGAAAAATCTG
66 TTTTAGTG-TC-AAAACTGAAAATTCTG
117015766 CTTATTTTAC
Statistics
Matches: 265, Mismatches: 38, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
214 2 0.01
215 141 0.53
216 5 0.02
218 51 0.19
219 66 0.25
ACGTcount: A:0.29, C:0.13, G:0.14, T:0.43
Consensus pattern (213 bp):
TTGAAGCACTTGATAACCATCAATTTTCGCTTTCTGGGTAATTATTATTTACCATAATTATTGAT
TTTTAGTGTCAAAACTGAAAATTCTGTTCTTCTACTTATTGTTCGAAGTCAATTACTTACTGAAT
AATTGAATGAGTAAAACGATACATTGTGCTATCTCAAAGTTGAATTTTTGTTCTTCATCGAATTA
TGTATAAATACTTTAGGC
Found at i:117020750 original size:19 final size:19
Alignment explanation
Indices: 117020726--117020763 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
117020716 CTTGAAAAAA
117020726 AATCAACTCCAATTATGTC
1 AATCAACTCCAATTATGTC
117020745 AATCAACTCCAATTATGTC
1 AATCAACTCCAATTATGTC
117020764 TTTTCACGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.26, G:0.05, T:0.32
Consensus pattern (19 bp):
AATCAACTCCAATTATGTC
Found at i:117032364 original size:90 final size:90
Alignment explanation
Indices: 117032211--117032391 Score: 362
Period size: 90 Copynumber: 2.0 Consensus size: 90
117032201 ACAAAAGCTC
117032211 TGAAGAACATAATCCAAGCAACTAGCTAATATTATGTGCAGAGATAATGACATTCCATCAGGTCC
1 TGAAGAACATAATCCAAGCAACTAGCTAATATTATGTGCAGAGATAATGACATTCCATCAGGTCC
117032276 ATGAATTACAAAAGAAGACTTTTGT
66 ATGAATTACAAAAGAAGACTTTTGT
117032301 TGAAGAACATAATCCAAGCAACTAGCTAATATTATGTGCAGAGATAATGACATTCCATCAGGTCC
1 TGAAGAACATAATCCAAGCAACTAGCTAATATTATGTGCAGAGATAATGACATTCCATCAGGTCC
117032366 ATGAATTACAAAAGAAGACTTTTGT
66 ATGAATTACAAAAGAAGACTTTTGT
117032391 T
1 T
117032392 CAGAAGGGTA
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
90 91 1.00
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.27
Consensus pattern (90 bp):
TGAAGAACATAATCCAAGCAACTAGCTAATATTATGTGCAGAGATAATGACATTCCATCAGGTCC
ATGAATTACAAAAGAAGACTTTTGT
Found at i:117035060 original size:15 final size:15
Alignment explanation
Indices: 117035021--117035064 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
117035011 GATAAACTTA
117035021 TAATATT-AAA-TTG
1 TAATATTAAAATTTG
*
117035034 TATTATTAAAAATTTG
1 TAATATT-AAAATTTG
117035050 TAATATTAAAATTTG
1 TAATATTAAAATTTG
117035065 AAACTTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
13 6 0.23
15 11 0.42
16 9 0.35
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (15 bp):
TAATATTAAAATTTG
Found at i:117035975 original size:8 final size:8
Alignment explanation
Indices: 117035962--117035988 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
117035952 TTCATATATC
117035962 TTTCAAAT
1 TTTCAAAT
117035970 TTTCAAAT
1 TTTCAAAT
117035978 TTTCAAAT
1 TTTCAAAT
117035986 TTT
1 TTT
117035989 AGTCTTGACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.33, C:0.11, G:0.00, T:0.56
Consensus pattern (8 bp):
TTTCAAAT
Found at i:117037308 original size:19 final size:18
Alignment explanation
Indices: 117037284--117037326 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
117037274 AATTACTAAT
117037284 AAATAAATATTAAAATATA
1 AAATAAATA-TAAAATATA
*
117037303 AAATAAA-ATAAATTATA
1 AAATAAATATAAAATATA
117037320 AAA-AAAT
1 AAATAAAT
117037327 TAATAATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 3 0.14
17 11 0.50
18 1 0.05
19 7 0.32
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (18 bp):
AAATAAATATAAAATATA
Found at i:117037816 original size:58 final size:59
Alignment explanation
Indices: 117037699--117038080 Score: 373
Period size: 55 Copynumber: 6.7 Consensus size: 59
117037689 CTTTTTTGAG
* * *
117037699 TTTTTGTTGCCTTTTGACTTGATGGTTACTTTTAATTTCTTTGTTATTTTGTGGGTTTT
1 TTTTTCTTGCCTTTTGACTTGATGGGTAGTTTTAATTTCTTTGTTATTTTGTGGGTTTT
* * * *
117037758 TTTTTCTTGTCTTTTGACTTGATGGGTAGATTTAATTT-TTGGTTATTTTGT-GG-ATT
1 TTTTTCTTGCCTTTTGACTTGATGGGTAGTTTTAATTTCTTTGTTATTTTGTGGGTTTT
* * * * * * *
117037814 TTTTCCTTGCCCTTCGGCTTGAT--GCAGTGTTAATTTCTTTGTTATTTTGCGGG----
1 TTTTTCTTGCCTTTTGACTTGATGGGTAGTTTTAATTTCTTTGTTATTTTGTGGGTTTT
* * *
117037867 TTTTTCTTGCCTTTTGGCTTGATGGGTAGTTTTAATATC-TTGTTTAGTTTGTGGG-TTT
1 TTTTTCTTGCCTTTTGACTTGATGGGTAGTTTTAATTTCTTTG-TTATTTTGTGGGTTTT
* * * *
117037925 TTCTTCTTGCCGTTTGGCTTGATGTGTAGTTTTAATTTCTTTGTTATTTTGTGGGTTTT
1 TTTTTCTTGCCTTTTGACTTGATGGGTAGTTTTAATTTCTTTGTTATTTTGTGGGTTTT
* * * *
117037984 TTCTTTCTTGCCTTTTGATTTGATGTGTAATTTTAATTTCTTTGTTAGTTTGTAGGG----
1 TT-TTTCTTGCCTTTTGACTTGATGGGTAGTTTTAATTTCTTTGTTATTTTGT-GGGTTTT
* * *
117038041 TTTTT-TTGCCTTTTGGCTTGATGGGTACTTTTAGTTTCTT
1 TTTTTCTTGCCTTTTGACTTGATGGGTAGTTTTAATTTCTT
117038081 ATTTAATTTG
Statistics
Matches: 270, Mismatches: 41, Indels: 28
0.80 0.12 0.08
Matches are distributed among these distances:
53 20 0.07
54 13 0.05
55 62 0.23
56 25 0.09
57 4 0.01
58 58 0.21
59 41 0.15
60 44 0.16
61 3 0.01
ACGTcount: A:0.11, C:0.10, G:0.21, T:0.58
Consensus pattern (59 bp):
TTTTTCTTGCCTTTTGACTTGATGGGTAGTTTTAATTTCTTTGTTATTTTGTGGGTTTT
Found at i:117037908 original size:33 final size:31
Alignment explanation
Indices: 117037870--117037961 Score: 79
Period size: 29 Copynumber: 3.1 Consensus size: 31
117037860 TTGCGGGTTT
117037870 TTCTTGCCTTTTGGCTTGATGGGTAGTTTTAA
1 TTCTTGCC-TTTGGCTTGATGGGTAGTTTTAA
* * *
117037902 TATCTTG--TTTAGTTTG-TGGGT--TTTT-C
1 T-TCTTGCCTTTGGCTTGATGGGTAGTTTTAA
*
117037928 TTCTTGCCGTTTGGCTTGATGTGTAGTTTTAA
1 TTCTTGCC-TTTGGCTTGATGGGTAGTTTTAA
117037960 TT
1 TT
117037962 TCTTTGTTAT
Statistics
Matches: 45, Mismatches: 7, Indels: 16
0.66 0.10 0.24
Matches are distributed among these distances:
25 5 0.11
26 1 0.02
27 4 0.09
28 7 0.16
29 9 0.20
30 7 0.16
31 4 0.09
32 3 0.07
33 5 0.11
ACGTcount: A:0.11, C:0.11, G:0.24, T:0.54
Consensus pattern (31 bp):
TTCTTGCCTTTGGCTTGATGGGTAGTTTTAA
Found at i:117037965 original size:33 final size:33
Alignment explanation
Indices: 117037869--117037965 Score: 77
Period size: 33 Copynumber: 3.2 Consensus size: 33
117037859 TTTGCGGGTT
* *
117037869 TTTCTTGCCTTTTGGCTTGATGGGTAGTTTTAA
1 TTTCTTGCCGTTTGGCTTGATGTGTAGTTTTAA
* * *
117037902 TATCTT---GTTTAG-TT--TGTG-GGTTTT--
1 TTTCTTGCCGTTTGGCTTGATGTGTAGTTTTAA
117037926 TCTTCTTGCCGTTTGGCTTGATGTGTAGTTTTAA
1 T-TTCTTGCCGTTTGGCTTGATGTGTAGTTTTAA
117037960 TTTCTT
1 TTTCTT
117037966 TGTTATTTTG
Statistics
Matches: 46, Mismatches: 8, Indels: 20
0.62 0.11 0.27
Matches are distributed among these distances:
24 1 0.02
25 4 0.09
26 5 0.11
27 3 0.07
28 5 0.11
29 4 0.09
30 4 0.09
31 4 0.09
32 5 0.11
33 10 0.22
34 1 0.02
ACGTcount: A:0.10, C:0.11, G:0.23, T:0.56
Consensus pattern (33 bp):
TTTCTTGCCGTTTGGCTTGATGTGTAGTTTTAA
Found at i:117037986 original size:168 final size:170
Alignment explanation
Indices: 117037698--117038073 Score: 456
Period size: 168 Copynumber: 2.2 Consensus size: 170
117037688 TCTTTTTTGA
* * * * *
117037698 GTTTTTGTTGCCTTTTGACTTGATGGTTACTTTTAATTTCTTTGTTATTTTGTGGGTTTTTTTTT
1 GTTTTT-TTGCCTTTTGGCTTGATGGGTACTTTTAATATCTTTGTTAGTTTGTGGGTTTTTTCTT
* *
117037763 CTTGTCTTTTGACTTGATGGGTAGATTTAATTTTTGGTTATTTTGTGGATTTTTTC-CTTGCCCT
65 CTTGCCGTTTGACTTGATGGGTAGATTTAATTTTTGGTTATTTTGTGGATTTTTTCTCTTGCCCT
* * * *
117037827 TCGGCTTGA-TGCAGTGTTAATTTCTTTGTTATTTTG-CGG
130 TCGACTTGAGTGCAATGTTAATTTCTTTGTTAGTTTGTAGG
*
117037866 GTTTTTCTTGCCTTTTGGCTTGATGGGTAGTTTTAATATC-TTGTTTAGTTTGTGGG-TTTTTCT
1 GTTTTT-TTGCCTTTTGGCTTGATGGGTACTTTTAATATCTTTG-TTAGTTTGTGGGTTTTTTCT
* * * * *
117037929 TCTTGCCGTTTGGCTTGATGTGTAGTTTTAATTTCTTTGTTATTTTGTGGGTTTTTTCTTTCTTG
64 TCTTGCCGTTTGACTTGATGGGTAGATTTAATTT-TTGGTTATTTTGTGGATTTTTTC--TCTTG
* * * * *
117037994 CCTTTTGATTTGATGTGTAATTTTAATTTCTTTGTTAGTTTGTAGG
126 CCCTTCGACTTGA-GTGCAATGTTAATTTCTTTGTTAGTTTGTAGG
117038040 GTTTTTTTGCCTTTTGGCTTGATGGGTACTTTTA
1 GTTTTTTTGCCTTTTGGCTTGATGGGTACTTTTA
117038074 GTTTCTTATT
Statistics
Matches: 176, Mismatches: 24, Indels: 11
0.83 0.11 0.05
Matches are distributed among these distances:
167 38 0.22
168 67 0.38
171 13 0.07
173 50 0.28
174 8 0.05
ACGTcount: A:0.11, C:0.10, G:0.22, T:0.57
Consensus pattern (170 bp):
GTTTTTTTGCCTTTTGGCTTGATGGGTACTTTTAATATCTTTGTTAGTTTGTGGGTTTTTTCTTC
TTGCCGTTTGACTTGATGGGTAGATTTAATTTTTGGTTATTTTGTGGATTTTTTCTCTTGCCCTT
CGACTTGAGTGCAATGTTAATTTCTTTGTTAGTTTGTAGG
Found at i:117038062 original size:60 final size:59
Alignment explanation
Indices: 117037728--117038062 Score: 191
Period size: 60 Copynumber: 5.8 Consensus size: 59
117037718 TGATGGTTAC
* * * * *** * *
117037728 TTTTAATTTCTTTGTTATTTTGTGGGTTTTTTTTTCTTGTCTTTTGACTTGATGGGTAG
1 TTTTAATTTCTTTGTTAGTTTGTGGGTTTTTCTTCCTTTTGGCTTGATTTGATGTGTAG
* * * * * ** *
117037787 ATTTAATTT-TTGGTTATTTTGT-GGATTTT-TTCC--TTGCCCTTCGGCTTGA--TGCAG
1 TTTTAATTTCTTTGTTAGTTTGTGGGTTTTTCTTCCTTTTG-GCTT-GATTTGATGTGTAG
* * *
117037841 TGTTAATTTCTTTGTTATTTTGCGGGTTTTTCTTGCCTTTTGGCTTGA--TG--G-GTAG
1 TTTTAATTTCTTTGTTAGTTTGTGGGTTTTTCTT-CCTTTTGGCTTGATTTGATGTGTAG
* *** * **
117037896 TTTTAATATC-TTGTTTAGTTTGTGGGTTTTTCTT-CTTGCCGTTTGGCTTGATGTGTAG
1 TTTTAATTTCTTTG-TTAGTTTGTGGGTTTTTCTTCCTTTTGGCTTGATTTGATGTGTAG
* * * *
117037954 TTTTAATTTCTTTGTTATTTTGTGGGTTTTTTCTT--TCTTGCCTTTTGATTTGATGTGTAA
1 TTTTAATTTCTTTGTTAGTTTGTGGG-TTTTTCTTCCTTTTGGC--TTGATTTGATGTGTAG
117038014 TTTTAATTTCTTTGTTAGTTTGTAGGGTTTTT-TTGCCTTTTGGCTTGAT
1 TTTTAATTTCTTTGTTAGTTTGT-GGGTTTTTCTT-CCTTTTGGCTTGAT
117038063 GGGTACTTTT
Statistics
Matches: 211, Mismatches: 42, Indels: 45
0.71 0.14 0.15
Matches are distributed among these distances:
53 7 0.03
54 14 0.07
55 44 0.21
56 17 0.08
57 9 0.04
58 40 0.19
59 24 0.11
60 48 0.23
61 3 0.01
62 5 0.02
ACGTcount: A:0.11, C:0.10, G:0.21, T:0.58
Consensus pattern (59 bp):
TTTTAATTTCTTTGTTAGTTTGTGGGTTTTTCTTCCTTTTGGCTTGATTTGATGTGTAG
Found at i:117042330 original size:239 final size:240
Alignment explanation
Indices: 117041898--117042434 Score: 1033
Period size: 239 Copynumber: 2.2 Consensus size: 240
117041888 ATATTTAGTC
117041898 ATCAATTTGATCCTAATATTAAATATTTCAATAAATTTAACCCTTCGTATTTACAAA-TGATACA
1 ATCAATTTGATCCTAATATTAAATATTTCAATAAATTTAACCCTTCGTATTTACAAATTGATACA
117041962 AATGGTCATCTAATTATGATCACGTTTTTATTTTGATTACTCAATTTTAATTTTTTTTAATTTAG
66 AATGGTCATCTAATTATGATCACGTTTTTATTTTGATTACTCAATTTTAATTTTTTTTAATTTAG
117042027 GCATTAATATTTGGATTCTTTCCTATTTTGGTCACTCGAGGCTAAATTGATAACTGATTTTTTTT
131 GCATTAATATTTGGATTCTTTCCTATTTTGGTCACTCGAGGCTAAATTGATAACTGATTTTTTTT
117042092 AAACAAATATAATGACATATTTAGTCATCAATGCTTACTTATTCT
196 AAACAAATATAATGACATATTTAGTCATCAATGCTTACTTATTCT
117042137 ATCAATTTGATCCTAATATTAAATATTTCAATAAATTTAACCCTTCGTATTTACAAATTGATACA
1 ATCAATTTGATCCTAATATTAAATATTTCAATAAATTTAACCCTTCGTATTTACAAATTGATACA
* *
117042202 AATGGTCATCTAATTATGATCACGTTTTTATTTTGGTTACTCAATTTTATTTTTTTTTAATTTAG
66 AATGGTCATCTAATTATGATCACGTTTTTATTTTGATTACTCAATTTTAATTTTTTTTAATTTAG
117042267 GCATTAATATTTGGATTCTTTCCTATTTTGGTCACTCGAGGCTAAATTGATAACTGA-TTTTTTT
131 GCATTAATATTTGGATTCTTTCCTATTTTGGTCACTCGAGGCTAAATTGATAACTGATTTTTTTT
*
117042331 AAACAAATATAATGACATATTTAGTCATCAATGGTTACTTATTCT
196 AAACAAATATAATGACATATTTAGTCATCAATGCTTACTTATTCT
117042376 ATCAATTTGATCCTAATATTAAATATTTCAATAAATTTAACCCTTCGTATTTACAAATT
1 ATCAATTTGATCCTAATATTAAATATTTCAATAAATTTAACCCTTCGTATTTACAAATT
117042435 AGATTAATTT
Statistics
Matches: 294, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
239 167 0.57
240 127 0.43
ACGTcount: A:0.33, C:0.13, G:0.09, T:0.45
Consensus pattern (240 bp):
ATCAATTTGATCCTAATATTAAATATTTCAATAAATTTAACCCTTCGTATTTACAAATTGATACA
AATGGTCATCTAATTATGATCACGTTTTTATTTTGATTACTCAATTTTAATTTTTTTTAATTTAG
GCATTAATATTTGGATTCTTTCCTATTTTGGTCACTCGAGGCTAAATTGATAACTGATTTTTTTT
AAACAAATATAATGACATATTTAGTCATCAATGCTTACTTATTCT
Found at i:117042962 original size:28 final size:23
Alignment explanation
Indices: 117042911--117042956 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
117042901 TCTTATGAAA
117042911 AAAATTAAATGTTCATAAGTTTT
1 AAAATTAAATGTTCATAAGTTTT
117042934 AAAATTAAATGTTCATAAGTTTT
1 AAAATTAAATGTTCATAAGTTTT
117042957 CTTTTACAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.43
Consensus pattern (23 bp):
AAAATTAAATGTTCATAAGTTTT
Found at i:117048027 original size:18 final size:16
Alignment explanation
Indices: 117048004--117048038 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
117047994 TTTTGCTGGT
*
117048004 TATATAAAATAATTTC
1 TATATATAATAATTTC
117048020 TATATATAATAATTTC
1 TATATATAATAATTTC
117048036 TAT
1 TAT
117048039 GTATTTTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.49
Consensus pattern (16 bp):
TATATATAATAATTTC
Found at i:117049347 original size:218 final size:217
Alignment explanation
Indices: 117048936--117049495 Score: 789
Period size: 218 Copynumber: 2.6 Consensus size: 217
117048926 TCCTTGTATT
* *
117048936 ACAACTTTACGCAAAAGAATTACAAAAAGCAAACCCTCCAAGGCCGAGGAGCTTACACTAGTTTA
1 ACAACTTTACGCAAAAGAATTACAAAAAGCAAACCCT-CAAGGCCAAGGAGCTTACACTAGTTTG
* *
117049001 CAGTTCTTTTGTGACATAAAACACACTATCCCTACATATAAAATGTACAAGTCATGATGCATTCA
65 CAGGTCTTTTGTGACATAAAACACACTATCCCTACATATAAAATGTACAAATCATGATGCATTCA
* ** * * *
117049066 GCTGGGGATGAAGACGAGATACATGAATGGCGGCTTTTTCCTTTGTAAAATGTTTCAAATGCAAC
130 ACAAGGGATGAAGACGAGATACATGAATGACGGCTTTCTCCTTTATAAAATGTTTCAAATGCAAC
* * *
117049131 TACCATCCATATTGAAGACAAAA
195 TACCATCCACATCGAAAACAAAA
** * * *
117049154 ACAACTTTGTGCAAAAGAATTACAAAAAACAAACCCTGCGAGGCCAAGGAGCTTACACTAATTTG
1 ACAACTTTACGCAAAAGAATTACAAAAAGCAAACCCT-CAAGGCCAAGGAGCTTACACTAGTTTG
* * *
117049219 CAGGTCTATTGTGACATAAAACATACTATCCCTACATATAAAATGTGCAAATCATGATGCATTCA
65 CAGGTCTTTTGTGACATAAAACACACTATCCCTACATATAAAATGTACAAATCATGATGCATTCA
* * *
117049284 ACAAGGGATGAAGACGAGATACATGAATGATGGCCTTTCTCC-TTATAAAGTGTTTCGAATGCAA
130 ACAAGGGATGAAGACGAGATACATGAATGACGG-CTTTCTCCTTTATAAAATGTTTCAAATGCAA
117049348 CTACCATCCACATCGAAAACAAAA
194 CTACCATCCACATCGAAAACAAAA
* * * * *
117049372 ACAACTTTACACAAAAAAAATACAAAAAGCAAACCCTCCAGGGCCAAGGAGCTTAAACTAGTTTG
1 ACAACTTTACGCAAAAGAATTACAAAAAGCAAACCCT-CAAGGCCAAGGAGCTTACACTAGTTTG
* *
117049437 CACGTCTTTTTATGACATAAAACACACTATCCCTACATATAAAATGTACAAATCATGAT
65 CAGGTC-TTTTGTGACATAAAACACACTATCCCTACATATAAAATGTACAAATCATGAT
117049496 CCACCATGCT
Statistics
Matches: 299, Mismatches: 41, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
218 244 0.82
219 55 0.18
ACGTcount: A:0.39, C:0.21, G:0.15, T:0.24
Consensus pattern (217 bp):
ACAACTTTACGCAAAAGAATTACAAAAAGCAAACCCTCAAGGCCAAGGAGCTTACACTAGTTTGC
AGGTCTTTTGTGACATAAAACACACTATCCCTACATATAAAATGTACAAATCATGATGCATTCAA
CAAGGGATGAAGACGAGATACATGAATGACGGCTTTCTCCTTTATAAAATGTTTCAAATGCAACT
ACCATCCACATCGAAAACAAAA
Found at i:117050937 original size:35 final size:35
Alignment explanation
Indices: 117050891--117050961 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
117050881 ACTTCACTAT
*
117050891 ACAAAGCAACCATAAAAATCTCTATATAGTTCAGA
1 ACAAAGCAACCATAAAAATCTCGATATAGTTCAGA
*
117050926 ACAAAGCAACCATAAGAATCTCGATATAGTTCAGA
1 ACAAAGCAACCATAAAAATCTCGATATAGTTCAGA
117050961 A
1 A
117050962 ATTTTTCCCT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.48, C:0.20, G:0.11, T:0.21
Consensus pattern (35 bp):
ACAAAGCAACCATAAAAATCTCGATATAGTTCAGA
Found at i:117055534 original size:15 final size:16
Alignment explanation
Indices: 117055501--117055535 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
117055491 TAAATCACTT
*
117055501 AAATAAACAGTAAATC
1 AAATAAACAGTAAAAC
117055517 AAATAAAC-GTAAAAC
1 AAATAAACAGTAAAAC
117055532 AAAT
1 AAAT
117055536 CCAAAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.66, C:0.11, G:0.06, T:0.17
Consensus pattern (16 bp):
AAATAAACAGTAAAAC
Found at i:117055535 original size:20 final size:21
Alignment explanation
Indices: 117055512--117055551 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
117055502 AATAAACAGT
*
117055512 AAAT-CAAATAAACGTAAAAC
1 AAATCCAAAAAAACGTAAAAC
*
117055532 AAATCCAAAAAAATGTAAAA
1 AAATCCAAAAAAACGTAAAA
117055552 AAAAACCATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.68, C:0.12, G:0.05, T:0.15
Consensus pattern (21 bp):
AAATCCAAAAAAACGTAAAAC
Found at i:117055613 original size:25 final size:24
Alignment explanation
Indices: 117055579--117055626 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
117055569 ATAATCAGCA
* *
117055579 CAATTGGAATCATCTCCGGAAACAT
1 CAATGGGAAT-ATCGCCGGAAACAT
*
117055604 CAATGGGAATATCGCGGGAAACA
1 CAATGGGAATATCGCCGGAAACA
117055627 ACGTTAGTGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.19
Consensus pattern (24 bp):
CAATGGGAATATCGCCGGAAACAT
Found at i:117057082 original size:22 final size:20
Alignment explanation
Indices: 117057043--117057082 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
117057033 AATTTTTTGT
*
117057043 TTAAAATTATAATTTAATGA
1 TTAAAATTATAATGTAATGA
117057063 TTAAAGATTATTAATGTAAT
1 TTAAA-ATTA-TAATGTAAT
117057083 TTAATCTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 4 0.24
22 8 0.47
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
TTAAAATTATAATGTAATGA
Found at i:117057183 original size:38 final size:38
Alignment explanation
Indices: 117057138--117057211 Score: 121
Period size: 38 Copynumber: 1.9 Consensus size: 38
117057128 AATTTGCTAC
* *
117057138 TAGCCTCTATGCCTTTTCAAAGGTCATGTTATATTTGT
1 TAGCCTCTATGCCTCTTCAAAGGTCATATTATATTTGT
*
117057176 TAGCCTCTATGCCTCTTCAAAGGTCGTATTATATTT
1 TAGCCTCTATGCCTCTTCAAAGGTCATATTATATTT
117057212 ATAAGCTCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.22, C:0.20, G:0.15, T:0.43
Consensus pattern (38 bp):
TAGCCTCTATGCCTCTTCAAAGGTCATATTATATTTGT
Done.