Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: 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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 190 of 320
Found at i:62965272 original size:12 final size:11
Alignment explanation
Indices: 62965175--62965281 Score: 60
Period size: 12 Copynumber: 9.3 Consensus size: 11
62965165 CATCATCATC
62965175 ATTATTATTGAT
1 ATTATTATT-AT
62965187 ATTATTATTATT
1 ATTATTATTA-T
62965199 ATTATTATTATT
1 ATTATTATTA-T
*
62965211 ATTATTGTTACT
1 ATTATTATTA-T
* *
62965223 -TT-TTGTCACT
1 ATTATTATTA-T
* *
62965233 ATTGTCATTAT
1 ATTATTATTAT
62965244 -TATATTATTACT
1 AT-TATTATTA-T
62965256 ATTATTATTAT
1 ATTATTATTAT
62965267 ACTTA-TATTCAT
1 A-TTATTATT-AT
62965279 ATT
1 ATT
62965282 TATTCTATTT
Statistics
Matches: 79, Mismatches: 8, Indels: 17
0.76 0.08 0.16
Matches are distributed among these distances:
10 8 0.10
11 20 0.25
12 50 0.63
13 1 0.01
ACGTcount: A:0.30, C:0.07, G:0.04, T:0.60
Consensus pattern (11 bp):
ATTATTATTAT
Found at i:62974787 original size:31 final size:31
Alignment explanation
Indices: 62974746--62974808 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
62974736 GTCTAGTATC
*
62974746 AGTGTAGGCCTTAGCCCATTACAGTATCAGT
1 AGTGTAGGCCTTAGCCCATTACAGTAACAGT
*
62974777 AGTGTGGGCCTTAGCCCATTACAGTAACAGT
1 AGTGTAGGCCTTAGCCCATTACAGTAACAGT
62974808 A
1 A
62974809 ACAGAAATGC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (31 bp):
AGTGTAGGCCTTAGCCCATTACAGTAACAGT
Found at i:62977712 original size:46 final size:46
Alignment explanation
Indices: 62977662--62977834 Score: 197
Period size: 46 Copynumber: 3.7 Consensus size: 46
62977652 TGGTTGAGCA
** *
62977662 TCCGAACTCGTTGAGTTGAGTTTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * * * *
62977708 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAGATGTA-GCTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATGCGA-ACG
*
62977755 TCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
62977801 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
62977835 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 19, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
45 1 0.01
46 66 0.64
47 35 0.34
48 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:62977818 original size:93 final size:93
Alignment explanation
Indices: 62977659--62977829 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
62977649 GGATGGTTGA
* ** * *
62977659 GCATCCGAACTCGTTGAGTTGAGTTTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
62977724 TGAGTCCGAGTTCGTGAGATGTAGCTAG
66 TGAGTCCGAGTTCGTGAGATGTAGCTAG
*
62977752 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
62977817 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
62977830 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAGCTAG
Found at i:62981643 original size:18 final size:18
Alignment explanation
Indices: 62981620--62981655 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
62981610 ATGTACTAGT
62981620 CAAGCAATAACTTAAGAA
1 CAAGCAATAACTTAAGAA
62981638 CAAGCAATAACTTAAGAA
1 CAAGCAATAACTTAAGAA
62981656 AATTTTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.56, C:0.17, G:0.11, T:0.17
Consensus pattern (18 bp):
CAAGCAATAACTTAAGAA
Found at i:62982604 original size:28 final size:27
Alignment explanation
Indices: 62982561--62982633 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 27
62982551 CACATACATA
* * *
62982561 AGATAGCCATAGAGGCGTCCA-TATAGAT
1 AGATAGCCACAAAGGCATCCACT-TA-AT
62982589 AGATAGCCACAAAGGCATCCACTTAAT
1 AGATAGCCACAAAGGCATCCACTTAAT
62982616 AGATATAGCCACAAAGGC
1 AG--ATAGCCACAAAGGC
62982634 TCTTATATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
27 4 0.10
28 20 0.51
29 15 0.38
ACGTcount: A:0.40, C:0.22, G:0.21, T:0.18
Consensus pattern (27 bp):
AGATAGCCACAAAGGCATCCACTTAAT
Found at i:62986673 original size:12 final size:14
Alignment explanation
Indices: 62986654--62986689 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 14
62986644 AGCTAAAGAT
62986654 ATTTATTATAA-TA
1 ATTTATTATAATTA
62986667 A-TTATTA-AATTA
1 ATTTATTATAATTA
62986679 ATTTATTATAA
1 ATTTATTATAA
62986690 ATATCATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
11 2 0.10
12 9 0.45
13 7 0.35
14 2 0.10
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
ATTTATTATAATTA
Found at i:62986822 original size:3 final size:3
Alignment explanation
Indices: 62986814--62986861 Score: 62
Period size: 3 Copynumber: 16.0 Consensus size: 3
62986804 AAATAGATGT
* *
62986814 TTA TTA TTA TTA -TA TTA TTA TAA TGTA TTA TTA TTA TTA ATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
62986859 TTA
1 TTA
62986862 ACTAACATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
2 2 0.05
3 35 0.90
4 2 0.05
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:62987762 original size:70 final size:74
Alignment explanation
Indices: 62987686--62987861 Score: 191
Period size: 70 Copynumber: 2.4 Consensus size: 74
62987676 ATGTGAACAA
* *
62987686 ATTGGAAATTAAAAGTGATTTAAATT-AAGT-AATTGAATT-ATGAAT-TATGTGAATATTTGAA
1 ATTGGAAACTAAAAGTGATTTGAATTGAA-TAAATTGAATTAATGAATATATGTGAATATTTGAA
62987747 A-GTATATTG
65 ATGTATATTG
* *
62987756 ATTGGAAACTAAGAGTGATTTGAATTGAATCAAATTGAATTGAATGAATAAAATATGTGAGTATT
1 ATTGGAAACTAAAAGTGATTTGAATTGAAT-AAATTGAATT-AATGAAT---ATATGTGAATATT
62987821 TGAAATGTATATTG
61 TGAAATGTATATTG
* * *
62987835 ATTGAAAAGTAATTAGTGATTTGAATT
1 ATTGGAAACTAA-AAGTGATTTGAATT
62987862 TGATTGGAAA
Statistics
Matches: 88, Mismatches: 7, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
70 24 0.27
71 2 0.02
72 9 0.10
74 6 0.07
78 16 0.18
79 18 0.20
80 13 0.15
ACGTcount: A:0.42, C:0.01, G:0.19, T:0.38
Consensus pattern (74 bp):
ATTGGAAACTAAAAGTGATTTGAATTGAATAAATTGAATTAATGAATATATGTGAATATTTGAAA
TGTATATTG
Found at i:62987896 original size:86 final size:78
Alignment explanation
Indices: 62987731--62987881 Score: 194
Period size: 79 Copynumber: 1.9 Consensus size: 78
62987721 AATTATGAAT
* *
62987731 TATGTGAATATTTGAAAGTATATTGATTGGAAACTAAGAGTGATTTGAATTGAATCAAATTGAAT
1 TATGTGAATATTTGAAAGTATATTGATTGAAAACTAAGAGTGATTTGAATTGAATCAAAATGAAT
*
62987796 TGAATGAATAAAA
66 TAAATGAATAAAA
* * * * *
62987809 TATGTGAGTATTTGAAATGTATATTGATTGAAAAGTAATTAGTGATTTGAATTTGATTGGAAAAT
1 TATGTGAATATTTGAAA-GTATATTGATTGAAAACTAA-GAGTGATTTGAA-TTGAAT-CAAAAT
62987874 GAATTAAA
62 GAATTAAA
62987882 AATATGAATT
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
78 16 0.26
79 18 0.30
80 11 0.18
81 5 0.08
82 11 0.18
ACGTcount: A:0.42, C:0.01, G:0.20, T:0.37
Consensus pattern (78 bp):
TATGTGAATATTTGAAAGTATATTGATTGAAAACTAAGAGTGATTTGAATTGAATCAAAATGAAT
TAAATGAATAAAA
Found at i:62988044 original size:17 final size:17
Alignment explanation
Indices: 62988022--62988069 Score: 71
Period size: 17 Copynumber: 2.8 Consensus size: 17
62988012 AGAAAGTGGA
62988022 AAAGTGAATTTGAATTG
1 AAAGTGAATTTGAATTG
*
62988039 AAAGTGAAATTGACATTG
1 AAAGTGAATTTGA-ATTG
62988057 AAAGTG-ATTTGAA
1 AAAGTGAATTTGAA
62988070 ATGTCAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 1 0.04
17 17 0.61
18 10 0.36
ACGTcount: A:0.44, C:0.02, G:0.23, T:0.31
Consensus pattern (17 bp):
AAAGTGAATTTGAATTG
Found at i:62988269 original size:38 final size:38
Alignment explanation
Indices: 62988217--62988299 Score: 107
Period size: 38 Copynumber: 2.2 Consensus size: 38
62988207 TATATGAGGT
* * *
62988217 ACTGGGT-TCCACTTTGCTTCG-GCTCTGCCGATGAGAC
1 ACTGGGTGTCAACTTTGCTTCGAACTAT-CCGATGAGAC
*
62988254 ACTGGGTGTCAACTTTGCTTCGAACTATCCGATGAGGC
1 ACTGGGTGTCAACTTTGCTTCGAACTATCCGATGAGAC
62988292 ACTGGGTG
1 ACTGGGTG
62988300 CCAATCTGGT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
37 7 0.17
38 30 0.75
39 3 0.08
ACGTcount: A:0.17, C:0.25, G:0.29, T:0.29
Consensus pattern (38 bp):
ACTGGGTGTCAACTTTGCTTCGAACTATCCGATGAGAC
Found at i:62997264 original size:27 final size:28
Alignment explanation
Indices: 62997234--62997712 Score: 125
Period size: 27 Copynumber: 17.6 Consensus size: 28
62997224 TTTAATTTAC
*
62997234 TAAAATTACCGAAATACCCTTAG-TTTG
1 TAAAATTACCGAAATACCCTTCGATTTG
* *
62997261 TAAAAATACTGAAATACCC-TCGATTTG
1 TAAAATTACCGAAATACCCTTCGATTTG
* *
62997288 TAAAATTACTGAAATA-CCTTCGACTTG
1 TAAAATTACCGAAATACCCTTCGATTTG
* *
62997315 TAAAATTACC-AAAGTACCC-CCGATTTA
1 TAAAATTACCGAAA-TACCCTTCGATTTG
* * *** * *
62997342 CAGAATTACCGTTTTACCCCT-GATTTA
1 TAAAATTACCGAAATACCCTTCGATTTG
* * * ** * *
62997369 CATAATTATC-ATTTTACCC-TCGACTTA
1 TAAAATTACCGA-AATACCCTTCGATTTG
* * *** *
62997396 CAGAATTACCGTTTTACCCTT-GATTTA
1 TAAAATTACCGAAATACCCTTCGATTTG
* * *** *
62997423 CAGAATTACCGTTTTACCC-TCGATTTA
1 TAAAATTACCGAAATACCCTTCGATTTG
* * *** *
62997450 TAGAATTACTGTTTTACCCTT-GATTTA
1 TAAAATTACCGAAATACCCTTCGATTTG
* * * ** *
62997477 CAGAATTA-CTATTTTACCC-TCGATTTA
1 TAAAATTACCGA-AATACCCTTCGATTTG
* * ** * *
62997504 CAAAATTTCTAAAATACCATT-GGTTTG
1 TAAAATTACCGAAATACCCTTCGATTTG
* * *
62997531 TAAAATTACCAAAATACCCCTAG-TTTG
1 TAAAATTACCGAAATACCCTTCGATTTG
* *
62997558 TAAAATTACCAAAATACCCTT-GGTTTG
1 TAAAATTACCGAAATACCCTTCGATTTG
* *
62997585 TGAAATTACCGAAATACCC-TCAATTTG
1 TAAAATTACCGAAATACCCTTCGATTTG
* * *
62997612 TAAAATTACCAAAATACCCCT-GATTTA
1 TAAAATTACCGAAATACCCTTCGATTTG
* * * *
62997639 CAAAGTTACAGAAATACCCTT-GACTTTC
1 TAAAATTACCGAAATACCCTTCGA-TTTG
** * * *
62997667 TAAAAATTATAGAAATACCATT-GGTTTA
1 T-AAAATTACCGAAATACCCTTCGATTTG
* *
62997695 CAAAATTACTGAAATACC
1 TAAAATTACCGAAATACC
62997713 TTTGGTTTGT
Statistics
Matches: 363, Mismatches: 67, Indels: 44
0.77 0.14 0.09
Matches are distributed among these distances:
26 12 0.03
27 319 0.88
28 14 0.04
29 18 0.05
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (28 bp):
TAAAATTACCGAAATACCCTTCGATTTG
Found at i:62997376 original size:54 final size:54
Alignment explanation
Indices: 62997329--62997510 Score: 274
Period size: 54 Copynumber: 3.4 Consensus size: 54
62997319 ATTACCAAAG
* * * *
62997329 TACCCCCGATTTACAGAATTACCGTTTTACCCCTGATTTACATAATTATCATTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTTGATTTACAGAATTACCATTT
* *
62997383 TACCCTCGACTTACAGAATTACCGTTTTACCCTTGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTTGATTTACAGAATTACCATTT
* * *
62997437 TACCCTCGATTTATAGAATTACTGTTTTACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTTGATTTACAGAATTACCATTT
*
62997491 TACCCTCGATTTACAAAATT
1 TACCCTCGATTTACAGAATT
62997511 TCTAAAATAC
Statistics
Matches: 115, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 115 1.00
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.40
Consensus pattern (54 bp):
TACCCTCGATTTACAGAATTACCGTTTTACCCTTGATTTACAGAATTACCATTT
Found at i:62997376 original size:81 final size:82
Alignment explanation
Indices: 62997275--62997460 Score: 180
Period size: 81 Copynumber: 2.3 Consensus size: 82
62997265 AATACTGAAA
** * * **
62997275 TACCCTCGATTTGTAAAATTACTGA-AATACCTTCGACTTGTAAAATTACCAAAGTACCCCCGAT
1 TACCCTCGATTTACAGAATTACTGATAATACCCTCGACTTACAAAATTACCAAAGTACCCCCGAT
62997339 TTACAGAATTACCGTTT
66 TTACAGAATTACCGTTT
* * ** * **** **
62997356 TACCC-CTGATTTACATAATTA-TCATTTTACCCTCGACTTACAGAATTACCGTTTTACCCTTGA
1 TACCCTC-GATTTACAGAATTACTGATAATACCCTCGACTTACAAAATTACCAAAGTACCCCCGA
62997419 TTTACAGAATTACCGTTT
65 TTTACAGAATTACCGTTT
*
62997437 TACCCTCGATTTATAGAATTACTG
1 TACCCTCGATTTACAGAATTACTG
62997461 TTTTACCCTT
Statistics
Matches: 82, Mismatches: 19, Indels: 7
0.76 0.18 0.06
Matches are distributed among these distances:
80 3 0.04
81 77 0.94
82 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.10, T:0.36
Consensus pattern (82 bp):
TACCCTCGATTTACAGAATTACTGATAATACCCTCGACTTACAAAATTACCAAAGTACCCCCGAT
TTACAGAATTACCGTTT
Found at i:62997465 original size:81 final size:81
Alignment explanation
Indices: 62997329--62997510 Score: 242
Period size: 81 Copynumber: 2.2 Consensus size: 81
62997319 ATTACCAAAG
* *
62997329 TACCCCCGATTTACAGAATTACCGTTTTACCCCTGATTTACATAATTATCATTTTACCCTCGACT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCCTGATTTACAGAATTATCATTTTACCCTCGACT
*
62997394 TACAGAATTACCGTTT
66 TACAGAATTACCATTT
* * * *
62997410 TACCCTTGATTTACAGAATTACCGTTTTA-CCCTCGATTTATAGAATTA-CTGTTTTACCCTTGA
1 TACCCTCGATTTACAGAATTACCGTTTTACCCCT-GATTTACAGAATTATC-ATTTTACCCTCGA
* *
62997473 TTTACAGAATTACTATTT
64 CTTACAGAATTACCATTT
*
62997491 TACCCTCGATTTACAAAATT
1 TACCCTCGATTTACAGAATT
62997511 TCTAAAATAC
Statistics
Matches: 88, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
80 5 0.06
81 83 0.94
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.40
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACCGTTTTACCCCTGATTTACAGAATTATCATTTTACCCTCGACT
TACAGAATTACCATTT
Found at i:62997576 original size:81 final size:79
Alignment explanation
Indices: 62997491--62997740 Score: 189
Period size: 81 Copynumber: 3.1 Consensus size: 79
62997481 ATTACTATTT
*
62997491 TACCCTCGATTTACAAAATTTCTAAAATACCATTGGTTTGTAAAATTACCAAAATACCCCTAGTT
1 TACCCTTGATTT-CAAAATTTCTAAAATACCATTGGTTTGTAAAATTACCAAAATACCCCT-GTT
62997556 TGTAAAATTACCAAAA
64 TGTAAAATTACCAAAA
* ** * ** * *** *
62997572 TACCCTTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATT
1 TACCCTTGATTT-CAAAATTTCTAAAATACCATTGGTTTGTAAAATTACCAAAATACCCCTGTTT
62997637 -TACAAAGTTA-CAGAAA
65 GTA-AAA-TTACCA-AAA
* * ** ** **
62997653 TACCCTTGACTTTCTAAAAATTATAGAAATACCATTGGTTTACAAAATTACTGAAATACCTTTGG
1 TACCCTTGA-TTTC-AAAATTTCTA-AAATACCATTGGTTTGTAAAATTACCAAAATACCCCT-G
* *
62997718 TTTGTAGATTTACCAAAA
62 TTTGTAAAATTACCAAAA
*
62997736 CACCC
1 TACCC
62997741 CTGTAGGGTA
Statistics
Matches: 125, Mismatches: 35, Indels: 16
0.71 0.20 0.09
Matches are distributed among these distances:
79 2 0.02
80 8 0.06
81 63 0.50
82 7 0.06
83 37 0.30
84 6 0.05
85 2 0.02
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (79 bp):
TACCCTTGATTTCAAAATTTCTAAAATACCATTGGTTTGTAAAATTACCAAAATACCCCTGTTTG
TAAAATTACCAAAA
Found at i:62997630 original size:54 final size:54
Alignment explanation
Indices: 62997491--62997630 Score: 183
Period size: 54 Copynumber: 2.6 Consensus size: 54
62997481 ATTACTATTT
* ** * * *
62997491 TACCCTCGATTTACAAAATTTCTAAAATACCATTGGTTTGTAAAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
* * *
62997545 TACCC-CTAGTTTGTAAAATTACCAAAATACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTC-AATTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
62997599 TACCCTCAATTTGTAAAATTACCAAAATACCC
1 TACCCTCAATTTGTAAAATTACCAAAATACCC
62997631 CTGATTTACA
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
53 1 0.01
54 72 0.97
55 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (54 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
Found at i:62997653 original size:54 final size:54
Alignment explanation
Indices: 62997533--62997658 Score: 150
Period size: 54 Copynumber: 2.3 Consensus size: 54
62997523 TTGGTTTGTA
* * * **
62997533 AAATTACCA-AAATACCC-CTAGTTTGTAAAATTACCAAAATACCCTTGGTTTGTG
1 AAATTA-CAGAAATACCCTC-AATTTGTAAAATTACCAAAATACCCCTGATTTGAC
*
62997587 AAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTT-AC
1 AAATTACAGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTGAC
62997640 AAAGTTACAGAAATACCCT
1 AAA-TTACAGAAATACCCT
62997659 TGACTTTCTA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
53 4 0.06
54 57 0.92
55 1 0.02
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (54 bp):
AAATTACAGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTGAC
Found at i:62997717 original size:27 final size:27
Alignment explanation
Indices: 62997669--62997720 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
62997659 TGACTTTCTA
62997669 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
*
62997696 AAAATTACT-GAAATACCTTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
62997721 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.37
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:62998973 original size:25 final size:25
Alignment explanation
Indices: 62998944--62998991 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
62998934 TTATAACATG
* * *
62998944 AAAATGACCGTTTTTCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
62998969 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
62998992 GTTTGTGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:62999075 original size:11 final size:11
Alignment explanation
Indices: 62999039--62999094 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
62999029 CATGGTATGT
62999039 ATGATATGCAC
1 ATGATATGCAC
* *
62999050 ATGACATG--T
1 ATGATATGCAC
62999059 ATGATATGCAC
1 ATGATATGCAC
*
62999070 ATGATATG--T
1 ATGATATGCAC
62999079 ATGATATGCAC
1 ATGATATGCAC
62999090 ATGAT
1 ATGAT
62999095 GTAATCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:62999094 original size:20 final size:20
Alignment explanation
Indices: 62999028--62999094 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
62999018 ATTTTAATAA
*
62999028 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
62999048 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
62999068 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
62999088 ACATGAT
1 ACATGAT
62999095 GTAATCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:62999171 original size:24 final size:24
Alignment explanation
Indices: 62999144--62999286 Score: 191
Period size: 24 Copynumber: 6.0 Consensus size: 24
62999134 GAGGAAGTGA
62999144 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
62999168 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
62999192 AAAAGGGCTTACGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
62999215 TAAAGGGCTTATGCCCCAATTATA
1 AAAAGGGCTTATGCCCCAGTTATC
* *
62999239 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
62999263 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
62999287 ATGATAAAGC
Statistics
Matches: 106, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
23 20 0.19
24 75 0.71
25 11 0.10
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:62999243 original size:47 final size:47
Alignment explanation
Indices: 62999143--62999265 Score: 192
Period size: 47 Copynumber: 2.6 Consensus size: 47
62999133 GGAGGAAGTG
* *
62999143 AAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAATTAT
* *
62999191 CAAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAATTAT
1 AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAATTAT
*
62999238 AAAAAGGGCTTTTGCCCCAGTTATTAAA
1 AAAAAGGGCTTATGCCCCAGTTATTAAA
62999266 AGAGGCTAGG
Statistics
Matches: 68, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
47 46 0.68
48 22 0.32
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.26
Consensus pattern (47 bp):
AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAATTAT
Found at i:62999261 original size:71 final size:72
Alignment explanation
Indices: 62999145--62999286 Score: 216
Period size: 71 Copynumber: 2.0 Consensus size: 72
62999135 AGGAAGTGAA
* *
62999145 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTACGCC-C
1 AAAGGGCTTATGCCCCAATTATAAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TACGCCTC
62999208 CAGTTATT
65 CAGTTATT
* * *
62999216 AAAGGGCTTATGCCCCAATTATAAAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTCC
1 AAAGGGCTTATGCCCCAATTATAAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTACGCCTCC
62999281 AGTTAT
66 AGTTAT
62999287 ATGATAAAGC
Statistics
Matches: 64, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 53 0.83
72 11 0.17
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (72 bp):
AAAGGGCTTATGCCCCAATTATAAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTACGCCTCC
AGTTATT
Found at i:62999515 original size:31 final size:31
Alignment explanation
Indices: 62999480--62999543 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
62999470 CATTTACAGT
*
62999480 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAAAATGA
**
62999511 AAAGGCTTCGGCCCAGTGTTATGAAAAATGA
1 AAAGGCTTCGGCCCAGTAATATGAAAAATGA
62999542 AA
1 AA
62999544 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.22
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAAAATGA
Found at i:63003322 original size:28 final size:28
Alignment explanation
Indices: 63003259--63003370 Score: 199
Period size: 28 Copynumber: 4.0 Consensus size: 28
63003249 ATATTAAGTC
*
63003259 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
63003286 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
63003314 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
63003342 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
63003370 C
1 C
63003371 AATCAAACTC
Statistics
Matches: 81, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
27 22 0.27
28 59 0.73
ACGTcount: A:0.35, C:0.28, G:0.11, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:63003384 original size:38 final size:38
Alignment explanation
Indices: 63003333--63003408 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
63003323 AGTGCTACAT
*
63003333 AATCAAACTCGCACACTTAGTGCTATATAATCAAACTC
1 AATCAAACTCGCACACTTAGTGCTACATAATCAAACTC
63003371 AATCAAACTCGCACACTTAGTGCTACATAATCAAACTC
1 AATCAAACTCGCACACTTAGTGCTACATAATCAAACTC
63003409 GCACACTTAG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.39, C:0.28, G:0.08, T:0.25
Consensus pattern (38 bp):
AATCAAACTCGCACACTTAGTGCTACATAATCAAACTC
Found at i:63003411 original size:28 final size:28
Alignment explanation
Indices: 63003371--63003432 Score: 115
Period size: 28 Copynumber: 2.2 Consensus size: 28
63003361 AATCAAACTC
63003371 AATCAAACTCGCACACTTAGTGCTACAT
1 AATCAAACTCGCACACTTAGTGCTACAT
*
63003399 AATCAAACTCGCACACTTAGTGCTATAT
1 AATCAAACTCGCACACTTAGTGCTACAT
63003427 AATCAA
1 AATCAA
63003433 TAACTCAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.39, C:0.26, G:0.10, T:0.26
Consensus pattern (28 bp):
AATCAAACTCGCACACTTAGTGCTACAT
Found at i:63003411 original size:66 final size:68
Alignment explanation
Indices: 63003305--63003441 Score: 260
Period size: 66 Copynumber: 2.0 Consensus size: 68
63003295 AGTGCTATAT
63003305 AATCAAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTATATAATC-A-AA
1 AATCAAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTATATAATCAATAA
63003368 CTC
66 CTC
63003371 AATCAAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTATATAATCAATAA
1 AATCAAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTATATAATCAATAA
63003436 CTC
66 CTC
63003439 AAT
1 AAT
63003442 ACATCTCACC
Statistics
Matches: 69, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
66 60 0.87
67 1 0.01
68 8 0.12
ACGTcount: A:0.39, C:0.26, G:0.09, T:0.26
Consensus pattern (68 bp):
AATCAAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTATATAATCAATAA
CTC
Found at i:63006835 original size:14 final size:13
Alignment explanation
Indices: 63006807--63006843 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
63006797 ATCCTGGAGT
63006807 ATTAA-AACAATA
1 ATTAAGAACAATA
63006819 ATTAAGAACACATA
1 ATTAAGAACA-ATA
63006833 ATTAAGAACAA
1 ATTAAGAACAA
63006844 GTCAAATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.22
13 5 0.22
14 13 0.57
ACGTcount: A:0.62, C:0.11, G:0.05, T:0.22
Consensus pattern (13 bp):
ATTAAGAACAATA
Found at i:63015424 original size:28 final size:29
Alignment explanation
Indices: 63015383--63015440 Score: 100
Period size: 28 Copynumber: 2.0 Consensus size: 29
63015373 CATAGAGTCT
*
63015383 GCCTTGTGATGAACATG-AAAGACAACCC
1 GCCTTGTGACGAACATGAAAAGACAACCC
63015411 GCCTTGTGACGAACATGAAAAGACAACCC
1 GCCTTGTGACGAACATGAAAAGACAACCC
63015440 G
1 G
63015441 AACCTTAGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 16 0.57
29 12 0.43
ACGTcount: A:0.36, C:0.26, G:0.22, T:0.16
Consensus pattern (29 bp):
GCCTTGTGACGAACATGAAAAGACAACCC
Found at i:63028422 original size:13 final size:13
Alignment explanation
Indices: 63028404--63028429 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
63028394 TACGATAAAA
63028404 CGACATGGCCATG
1 CGACATGGCCATG
63028417 CGACATGGCCATG
1 CGACATGGCCATG
63028430 GTTGAATCTG
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:0.23, C:0.31, G:0.31, T:0.15
Consensus pattern (13 bp):
CGACATGGCCATG
Found at i:63036820 original size:40 final size:40
Alignment explanation
Indices: 63036776--63036959 Score: 225
Period size: 39 Copynumber: 4.7 Consensus size: 40
63036766 GCTCCTCGTT
* * *
63036776 CAAATGCCTTCGGGACTTAACCCGGATTTACTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
63036816 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
63036855 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * * *
63036894 CAAATGCCTTC-GGATCTTAGTCCGG-ATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCA
63036935 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
63036960 CAACATTCAA
Statistics
Matches: 128, Mismatches: 10, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
38 2 0.02
39 73 0.57
40 42 0.33
41 11 0.09
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:63044775 original size:37 final size:39
Alignment explanation
Indices: 63044693--63044950 Score: 341
Period size: 39 Copynumber: 6.6 Consensus size: 39
63044683 GCTCCTCATT
* * *
63044693 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
*
63044733 C-AATGCCTTC-GGCTTAGCCCGG-ATTAGTATCTCGTA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
63044769 CAAATGCCTTC-GGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
63044807 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
63044846 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
* * * *
63044885 CAAATGCCTTCGGATCTTAGTCCGG-ATATGGTCA-CTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGAAT-TAGT-ATC-TCGCA
63044926 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
63044951 CAACATTCAA
Statistics
Matches: 198, Mismatches: 11, Indels: 17
0.88 0.05 0.08
Matches are distributed among these distances:
36 12 0.06
37 30 0.15
38 26 0.13
39 90 0.45
40 31 0.16
41 9 0.05
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:63053473 original size:15 final size:15
Alignment explanation
Indices: 63053434--63053513 Score: 76
Period size: 15 Copynumber: 5.4 Consensus size: 15
63053424 GTATCTTGGG
*
63053434 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
63053449 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
63053464 TTTCTTTATTCCAGG-
1 TTTCTTTATT-CTGGA
*
63053479 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
63053494 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
63053508 TTTCTT
1 TTTCTT
63053514 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
13 1 0.02
14 11 0.21
15 36 0.68
16 5 0.09
ACGTcount: A:0.11, C:0.19, G:0.12, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:63053503 original size:30 final size:31
Alignment explanation
Indices: 63053425--63053504 Score: 94
Period size: 30 Copynumber: 2.6 Consensus size: 31
63053415 CATAGTATCG
* * *
63053425 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCCAGGATCTCTC
*
63053455 TAT-TCTGGATTTCTTTATTCCAGG-TTTCTC
1 TATCT-TGGATTTCTTTATTCCAGGATCTCTC
63053485 TATCTTGGATTTCTTTATTC
1 TATCTTGGATTTCTTTATTC
63053505 GGTTTTCTTG
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
29 1 0.02
30 36 0.84
31 6 0.14
ACGTcount: A:0.12, C:0.19, G:0.14, T:0.55
Consensus pattern (31 bp):
TATCTTGGATTTCTTTATTCCAGGATCTCTC
Found at i:63055126 original size:46 final size:46
Alignment explanation
Indices: 63055076--63055247 Score: 191
Period size: 46 Copynumber: 3.7 Consensus size: 46
63055066 TGGTTGAGCA
*
63055076 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* **** * ** ** *
63055122 TCCGAACTCGTTGAGTTGATTCCGAGTTCTGAGATGTAACCAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
63055168 TCCGAACTCGTTGAGTTGAGTCTGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
63055214 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
63055248 GGGGCGGGTT
Statistics
Matches: 97, Mismatches: 29, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
46 97 1.00
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:63055230 original size:92 final size:92
Alignment explanation
Indices: 63055073--63055242 Score: 277
Period size: 92 Copynumber: 1.8 Consensus size: 92
63055063 GGATGGTTGA
* *
63055073 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
*
63055138 TGATTCCGAGTTCTGAGATGTAACCAG
66 TGAGTCCGAGTTCTGAGATGTAACCAG
* * * *
63055165 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
63055230 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
63055243 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
92 71 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCTGAGATGTAACCAG
Found at i:63065331 original size:50 final size:50
Alignment explanation
Indices: 63065277--63065375 Score: 148
Period size: 50 Copynumber: 2.0 Consensus size: 50
63065267 ATGATTAATC
63065277 AAGATGCAAACTAAATAAACA-AATGAGTTACATAATGCATA-ACATAATTT
1 AAGATGCAAACTAAATAAACATAA-GAGTTACATAATGCA-AGACATAATTT
* *
63065327 AAGATGCAAACTTAATTAACATAAGAGTTACATAATGCAAGACATAATT
1 AAGATGCAAACTAAATAAACATAAGAGTTACATAATGCAAGACATAATT
63065376 AAAACACAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
49 1 0.02
50 42 0.93
51 2 0.04
ACGTcount: A:0.51, C:0.12, G:0.11, T:0.26
Consensus pattern (50 bp):
AAGATGCAAACTAAATAAACATAAGAGTTACATAATGCAAGACATAATTT
Found at i:63068553 original size:26 final size:26
Alignment explanation
Indices: 63068516--63068582 Score: 98
Period size: 26 Copynumber: 2.6 Consensus size: 26
63068506 TATAACATTG
63068516 CTCACACGAGCTGTGAAATGAGTCTA
1 CTCACACGAGCTGTGAAATGAGTCTA
* *
63068542 CTCACACTAGCTGTGAAATGGGTCTA
1 CTCACACGAGCTGTGAAATGAGTCTA
* *
63068568 CTCACTCGAGTTGTG
1 CTCACACGAGCTGTG
63068583 GGTTGGAATG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (26 bp):
CTCACACGAGCTGTGAAATGAGTCTA
Found at i:63072011 original size:19 final size:20
Alignment explanation
Indices: 63071987--63072024 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
63071977 GGTACCACCA
63071987 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
63072006 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
63072025 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:63072320 original size:46 final size:45
Alignment explanation
Indices: 63072253--63072418 Score: 163
Period size: 46 Copynumber: 3.6 Consensus size: 45
63072243 CGCCCCTAAG
* * *
63072253 TGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGTATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGGC-TTAGTATCCATAAA
* * **
63072299 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGT-TACATCTCA
1 TGAACTCGGACTCAACTCAACGAGTTCGG--GCTTAGTATCCAT-AAA
* * * * * *
63072346 CGAACTCGGACTCAACTCAACGAGTTTGGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGGC-TTAGTATCCATAAA
63072392 TGAACTCGGACTCAACTCAACGAGTTC
1 TGAACTCGGACTCAACTCAACGAGTTC
63072419 AGATGCTAAA
Statistics
Matches: 96, Mismatches: 19, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
45 1 0.01
46 58 0.60
47 35 0.36
48 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGGCTTAGTATCCATAAA
Found at i:63072365 original size:93 final size:93
Alignment explanation
Indices: 63072254--63072424 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
63072244 GCCCCTAAGT
* * *
63072254 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGTATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
*
63072319 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCAGATGCCTAGTTACATCTCAC
* * * * *
63072347 GAACTCGGACTCAACTCAACGAGTTTGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
63072412 CGAGTTCAGATGC
66 CGAGTTCAGATGC
63072425 TAAACCATCC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCAGATGCCTAGTTACATCTCAC
Found at i:63072878 original size:30 final size:30
Alignment explanation
Indices: 63072844--63072903 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
63072834 ATTTAATATG
63072844 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
63072874 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
63072904 GTCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:63076592 original size:17 final size:19
Alignment explanation
Indices: 63076570--63076613 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
63076560 CAGTTATTAA
63076570 CCAAAA-GAAA-TAAAAAT
1 CCAAAATGAAAGTAAAAAT
*
63076587 CCAAAATTAAAGTAAAAAT
1 CCAAAATGAAAGTAAAAAT
*
63076606 CCATAATG
1 CCAAAATG
63076614 GCTTTATTAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 6 0.27
18 3 0.14
19 13 0.59
ACGTcount: A:0.61, C:0.14, G:0.07, T:0.18
Consensus pattern (19 bp):
CCAAAATGAAAGTAAAAAT
Found at i:63077335 original size:17 final size:17
Alignment explanation
Indices: 63077306--63077339 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
63077296 ATATTGCGGG
63077306 ACCATGTGAGCCCACAC
1 ACCATGTGAGCCCACAC
63077323 ACCAGTGTG-GCCCACAC
1 ACCA-TGTGAGCCCACAC
63077340 GGCCCAGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.26, C:0.41, G:0.21, T:0.12
Consensus pattern (17 bp):
ACCATGTGAGCCCACAC
Found at i:63077503 original size:15 final size:15
Alignment explanation
Indices: 63077483--63077515 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
63077473 TGTCGACTAT
63077483 ACGCCCATGTCCTAC
1 ACGCCCATGTCCTAC
63077498 ACGCCCATGTCCTAC
1 ACGCCCATGTCCTAC
63077513 ACG
1 ACG
63077516 GCCGTGAGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.21, C:0.45, G:0.15, T:0.18
Consensus pattern (15 bp):
ACGCCCATGTCCTAC
Found at i:63083287 original size:28 final size:28
Alignment explanation
Indices: 63083256--63083339 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
63083246 AACTGTGATC
63083256 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
63083284 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
63083306 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
63083334 ACGTGT
1 ACGTGT
63083340 ACCGGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:63083384 original size:49 final size:49
Alignment explanation
Indices: 63083208--63083432 Score: 306
Period size: 49 Copynumber: 4.5 Consensus size: 49
63083198 TGAGGTCGCA
* * * *
63083208 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCACG
* * **
63083259 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCACG
63083309 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
* * * *
63083358 TGTGTAGTACTAAGTGTAGGCAACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
*
63083407 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
63083433 TGCGTACCAG
Statistics
Matches: 155, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
49 76 0.49
50 45 0.29
51 34 0.22
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
Found at i:63086462 original size:15 final size:15
Alignment explanation
Indices: 63086442--63086480 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
63086432 TATCGTATCT
63086442 TGGGTTTCTTTACTC
1 TGGGTTTCTTTACTC
*
63086457 TGGGTTTCTTTATTC
1 TGGGTTTCTTTACTC
63086472 TGGGTTTCT
1 TGGGTTTCT
63086481 CTATGTTGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.05, C:0.15, G:0.23, T:0.56
Consensus pattern (15 bp):
TGGGTTTCTTTACTC
Found at i:63088730 original size:28 final size:28
Alignment explanation
Indices: 63088698--63088781 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
63088688 AACTGTGATC
63088698 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
63088726 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
63088748 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
63088776 ACGTGT
1 ACGTGT
63088782 ACCGGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:63088816 original size:49 final size:49
Alignment explanation
Indices: 63088650--63088887 Score: 314
Period size: 49 Copynumber: 4.8 Consensus size: 49
63088640 TGATGTCGCA
* * * * *
63088650 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCACG
* **
63088701 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACG
*
63088751 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
* * *
63088800 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
* * *
63088849 TGTGTAGTACTATGTGCAGTCTACTACGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
63088888 GCTTTGGCTA
Statistics
Matches: 166, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
49 88 0.53
50 45 0.27
51 33 0.20
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
Found at i:63088825 original size:99 final size:100
Alignment explanation
Indices: 63088648--63088887 Score: 331
Period size: 99 Copynumber: 2.4 Consensus size: 100
63088638 TGTGATGTCG
* * *
63088648 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAGTACTA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAACTGTGATCACGTGTGTAGTACTA
* * **
63088713 AGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCA
66 AGTGCAGGCTACTACATGTACCAGATAATT-GGTCA
* * * *
63088749 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCACGTGTGTAGTACTA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAACTGTGATCACGTGTGTAGTACTA
*
63088812 AGTGCAGGCTACTACATGTACCAGATAATTGGTCG
66 AGTGCAGGCTACTACATGTACCAGATAATTGGTCA
* *
63088847 CATGTGTAGTACTATGTGCAGTCTACTACGCGTACCAGATA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
63088888 GCTTTGGCTA
Statistics
Matches: 123, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
98 40 0.33
99 45 0.37
100 1 0.01
101 37 0.30
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.28
Consensus pattern (100 bp):
CATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAACTGTGATCACGTGTGTAGTACTA
AGTGCAGGCTACTACATGTACCAGATAATTGGTCA
Found at i:63092796 original size:42 final size:42
Alignment explanation
Indices: 63092737--63092823 Score: 174
Period size: 42 Copynumber: 2.1 Consensus size: 42
63092727 TTAGGGTTAG
63092737 ATGAGATTTCGTGTAAGATCTTATCTAGGATACGGCATCGAT
1 ATGAGATTTCGTGTAAGATCTTATCTAGGATACGGCATCGAT
63092779 ATGAGATTTCGTGTAAGATCTTATCTAGGATACGGCATCGAT
1 ATGAGATTTCGTGTAAGATCTTATCTAGGATACGGCATCGAT
63092821 ATG
1 ATG
63092824 TAAGACCATA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (42 bp):
ATGAGATTTCGTGTAAGATCTTATCTAGGATACGGCATCGAT
Found at i:63093946 original size:40 final size:40
Alignment explanation
Indices: 63093899--63093992 Score: 125
Period size: 40 Copynumber: 2.4 Consensus size: 40
63093889 CGGCTATTTG
*
63093899 TGGCACTTAGTGTGCGATTCGACATAGCTTCAGCTATATA
1 TGGCACTTAGTGTGCAATTCGACATAGCTTCAGCTATATA
* * * *
63093939 TGGCACTTAGTGTGCAATTTGAGATAGCTTCGGCTATGTA
1 TGGCACTTAGTGTGCAATTCGACATAGCTTCAGCTATATA
* *
63093979 CGGCACTTGGTGTG
1 TGGCACTTAGTGTG
63093993 TGAGATATTG
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.21, C:0.18, G:0.28, T:0.33
Consensus pattern (40 bp):
TGGCACTTAGTGTGCAATTCGACATAGCTTCAGCTATATA
Found at i:63094020 original size:28 final size:28
Alignment explanation
Indices: 63093980--63094063 Score: 114
Period size: 28 Copynumber: 3.0 Consensus size: 28
63093970 GGCTATGTAC
* * * *
63093980 GGCACTTGGTGTGTGAGATATTGAGTGT
1 GGCACTTAGTGTGCGAGATATCGAGTAT
63094008 GGCACTTAGTGTGCGAGATATCGAGTAT
1 GGCACTTAGTGTGCGAGATATCGAGTAT
* *
63094036 GGCGCTTAGTGTGCGAGACATCGAGTAT
1 GGCACTTAGTGTGCGAGATATCGAGTAT
63094064 TCAACGGTGT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 50 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (28 bp):
GGCACTTAGTGTGCGAGATATCGAGTAT
Found at i:63096812 original size:44 final size:43
Alignment explanation
Indices: 63096749--63096907 Score: 173
Period size: 43 Copynumber: 3.7 Consensus size: 43
63096739 TATGTGATAT
63096749 CGTGTAAGACCATGTCTGGGACGTTGGCATCGACT-TTTGTTTTA
1 CGTGTAAGACCATGTCTGGGACGTTGGCATCGA-TATTTG-TTTA
* * *
63096793 CGTGTAAGACCATGTCTGGGACATTGGTATCG-TATCTGATTT-
1 CGTGTAAGACCATGTCTGGGACGTTGGCATCGATATTTG-TTTA
* * *
63096835 CGTGTAAGACCCTGTCTGGGACAG-TGGCATCGATGTTTGATTA
1 CGTGTAAGACCATGTCTGGGAC-GTTGGCATCGATATTTGTTTA
* * *
63096878 CATGTAAGACCACGTATGGGACGTTGGCAT
1 CGTGTAAGACCATGTCTGGGACGTTGGCAT
63096908 TGTATATGCT
Statistics
Matches: 96, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
42 32 0.33
43 34 0.35
44 30 0.31
ACGTcount: A:0.21, C:0.18, G:0.28, T:0.32
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGACGTTGGCATCGATATTTGTTTA
Found at i:63107306 original size:26 final size:26
Alignment explanation
Indices: 63107276--63107336 Score: 113
Period size: 26 Copynumber: 2.3 Consensus size: 26
63107266 ACACATGGGT
63107276 CATCAAATTTCATTCCAAATTAAAAC
1 CATCAAATTTCATTCCAAATTAAAAC
63107302 CATCAAATTTCATTCCAAATTAAAAC
1 CATCAAATTTCATTCCAAATTAAAAC
63107328 CAATCAAAT
1 C-ATCAAAT
63107337 AGAATCATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 27 0.79
27 7 0.21
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.30
Consensus pattern (26 bp):
CATCAAATTTCATTCCAAATTAAAAC
Found at i:63109030 original size:43 final size:43
Alignment explanation
Indices: 63108962--63109045 Score: 132
Period size: 43 Copynumber: 2.0 Consensus size: 43
63108952 CATGAATCAT
* **
63108962 ATCCATCATGAACTCGGACCACTCAACGAGCTCGGATGCTCGC
1 ATCCATAATGAACTCAAACCACTCAACGAGCTCGGATGCTCGC
*
63109005 ATCCATAATGAACTCAAACCTCTCAACGAGCTCGGATGCTC
1 ATCCATAATGAACTCAAACCACTCAACGAGCTCGGATGCTC
63109046 CATATCTCAC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.29, C:0.33, G:0.18, T:0.20
Consensus pattern (43 bp):
ATCCATAATGAACTCAAACCACTCAACGAGCTCGGATGCTCGC
Found at i:63111060 original size:22 final size:22
Alignment explanation
Indices: 63111029--63111096 Score: 109
Period size: 22 Copynumber: 3.1 Consensus size: 22
63111019 AAACATGTCT
*
63111029 AACCAGGTATTCCATTTGACCA
1 AACCATGTATTCCATTTGACCA
63111051 AACCATGTATTCCATTTGACCA
1 AACCATGTATTCCATTTGACCA
* *
63111073 AACCATATATTTCATTTGACCA
1 AACCATGTATTCCATTTGACCA
63111095 AA
1 AA
63111097 TAATCAACTA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.35, C:0.25, G:0.09, T:0.31
Consensus pattern (22 bp):
AACCATGTATTCCATTTGACCA
Found at i:63113326 original size:3 final size:3
Alignment explanation
Indices: 63113313--63113378 Score: 87
Period size: 3 Copynumber: 22.0 Consensus size: 3
63113303 ATGTTAGATG
* * *
63113313 TAT TGT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TTT TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
63113361 TAC TAT TAT TAT TGT TAT
1 TAT TAT TAT TAT TAT TAT
63113379 CATACTATTA
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:63115268 original size:37 final size:37
Alignment explanation
Indices: 63115218--63115296 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
63115208 TTATTACGAA
* * *
63115218 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCTCCACACGAAGTCATCAG
*
63115255 GTCTTACCCGGACAAAATCTCCACACGTAGTCATCAG
1 GTCTTACCCGGACAAAATCTCCACACGAAGTCATCAG
63115292 GTCTT
1 GTCTT
63115297 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCTCCACACGAAGTCATCAG
Found at i:63115541 original size:47 final size:47
Alignment explanation
Indices: 63115417--63115571 Score: 211
Period size: 47 Copynumber: 3.3 Consensus size: 47
63115407 CTTCGGGACT
* * * * * *
63115417 TATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* * *
63115464 TGTCACATATATATACACTTCCACATTCATCACATCGGCCATTAGGCCT
1 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
63115513 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
63115560 TATCACATATAT
1 TATCACATATAT
63115572 CGGCCATTGG
Statistics
Matches: 94, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
47 56 0.60
49 38 0.40
ACGTcount: A:0.28, C:0.32, G:0.09, T:0.31
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
Found at i:63115576 original size:73 final size:74
Alignment explanation
Indices: 63115497--63115646 Score: 257
Period size: 75 Copynumber: 2.0 Consensus size: 74
63115487 CATTCATCAC
*
63115497 ATCGGCCATTAGGCCTTATCAC-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCT
1 ATCGGCCATTAGGCCCTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCT
63115561 ATCACATAT
66 ATCACATAT
* *
63115570 ATCGGCCATTGGGCCCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 ATCGGCCATTAGGCCCTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
63115635 TATCACATAT
65 TATCACATAT
63115645 AT
1 AT
63115647 ATACACTTTC
Statistics
Matches: 72, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
73 20 0.28
75 52 0.72
ACGTcount: A:0.29, C:0.29, G:0.11, T:0.31
Consensus pattern (74 bp):
ATCGGCCATTAGGCCCTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCT
ATCACATAT
Found at i:63115584 original size:26 final size:26
Alignment explanation
Indices: 63115544--63115597 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
63115534 CATTCATCAC
63115544 ATCGGCCATTAGGCCCTATCACATAT
1 ATCGGCCATTAGGCCCTATCACATAT
*
63115570 ATCGGCCATTGGGCCCTATCACATAT
1 ATCGGCCATTAGGCCCTATCACATAT
63115596 AT
1 AT
63115598 ATACACTTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.28
Consensus pattern (26 bp):
ATCGGCCATTAGGCCCTATCACATAT
Found at i:63115625 original size:49 final size:49
Alignment explanation
Indices: 63115570--63115735 Score: 300
Period size: 49 Copynumber: 3.4 Consensus size: 49
63115560 TATCACATAT
* *
63115570 ATCGGCCATTGGGCCCTATCACATATATATACACTTTCACATTCATCAC
1 ATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCAC
63115619 ATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCAC
1 ATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCAC
63115668 ATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCAC
1 ATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCAC
63115715 ATCGGCCATTAGGCCTTATCA
1 ATCGGCCATTAGGCCTTATCA
63115736 TCATTTCATA
Statistics
Matches: 115, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
47 46 0.40
49 69 0.60
ACGTcount: A:0.29, C:0.30, G:0.10, T:0.31
Consensus pattern (49 bp):
ATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCAC
Found at i:63115711 original size:171 final size:169
Alignment explanation
Indices: 63115417--63115735 Score: 539
Period size: 171 Copynumber: 1.9 Consensus size: 169
63115407 CTTCGGGACT
* * * *
63115417 TATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATATACAC
1 TATCACATTTATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATATACAC
63115482 TTCCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTCCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
63115547 GGCCATTAGGCCCTATCACATATATCGGCCATTGGGCCC
131 GGCCATTAGGCCCTATCACATATATCGGCCATTGGGCCC
* * *
63115586 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 TATCACAT-T-TATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATATAC
*
63115651 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTCCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
63115716 TCGGCCATTAGGCCTTATCA
129 TCGGCCATTAGGCCCTATCA
63115736 TCATTTCATA
Statistics
Matches: 139, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
169 8 0.06
170 1 0.01
171 130 0.94
ACGTcount: A:0.29, C:0.31, G:0.10, T:0.31
Consensus pattern (169 bp):
TATCACATTTATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATATACAC
TTCCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGCCCTATCACATATATCGGCCATTGGGCCC
Found at i:63118796 original size:25 final size:25
Alignment explanation
Indices: 63118768--63118821 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
63118758 ATACATGTAT
*
63118768 GCTCACTCAAGCTGTAAATCGGTAC
1 GCTCACACAAGCTGTAAATCGGTAC
* * *
63118793 GCTCTCACGAGCTGTAAATCGGTAT
1 GCTCACACAAGCTGTAAATCGGTAC
63118818 GCTC
1 GCTC
63118822 TCACGAGTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (25 bp):
GCTCACACAAGCTGTAAATCGGTAC
Found at i:63118822 original size:25 final size:25
Alignment explanation
Indices: 63118777--63118828 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
63118767 TGCTCACTCA
63118777 AGCTGTAAATCGGTACGCTCTCACG
1 AGCTGTAAATCGGTACGCTCTCACG
*
63118802 AGCTGTAAATCGGTATGCTCTCACG
1 AGCTGTAAATCGGTACGCTCTCACG
63118827 AG
1 AG
63118829 TTATGGGTCG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (25 bp):
AGCTGTAAATCGGTACGCTCTCACG
Found at i:63121227 original size:25 final size:25
Alignment explanation
Indices: 63121174--63121230 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
63121164 CAGCTAAGAG
* **
63121174 AGTGATTCGGTATGTCAAAGACATG
1 AGTGATTCAGTATGTCAAAGACACA
*
63121199 AGTGATTCAGTATGTCAAAGGCACA
1 AGTGATTCAGTATGTCAAAGACACA
63121224 AGTGATT
1 AGTGATT
63121231 TTGATGTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.28
Consensus pattern (25 bp):
AGTGATTCAGTATGTCAAAGACACA
Found at i:63138004 original size:42 final size:42
Alignment explanation
Indices: 63137908--63137986 Score: 126
Period size: 42 Copynumber: 1.9 Consensus size: 42
63137898 ACGACCTTGC
*
63137908 GCAC-AGG-CGTGTGTGGCTCTTTCGAGAGTTACATGGCCCG
1 GCACAAGGACGTGTGTGGCTATTTCGAGAGTTACATGGCCCG
*
63137948 GCACAAGGGCGTGTGTGGCTATTTCGAGAGTTACATGGC
1 GCACAAGGACGTGTGTGGCTATTTCGAGAGTTACATGGC
63137987 TTTGCACACG
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
40 4 0.11
41 3 0.08
42 29 0.81
ACGTcount: A:0.18, C:0.22, G:0.35, T:0.25
Consensus pattern (42 bp):
GCACAAGGACGTGTGTGGCTATTTCGAGAGTTACATGGCCCG
Found at i:63141815 original size:12 final size:12
Alignment explanation
Indices: 63141795--63141888 Score: 57
Period size: 12 Copynumber: 7.8 Consensus size: 12
63141785 CTGCTCCTTG
*
63141795 ATCAGCTCCTAA
1 ATCATCTCCTAA
* **
63141807 ATCTTCTCCTTT
1 ATCATCTCCTAA
63141819 ATCATCTCCTAA
1 ATCATCTCCTAA
* *
63141831 ATCCTCTCCCT-T
1 ATCATCT-CCTAA
*
63141843 ATCAGCTCCTAA
1 ATCATCTCCTAA
* *
63141855 ATCCTCTCCCT-T
1 ATCATCT-CCTAA
*
63141867 ATCAGCTCCTAA
1 ATCATCTCCTAA
*
63141879 ATCTTCTCCT
1 ATCATCTCCT
63141889 GACAGCCTTT
Statistics
Matches: 58, Mismatches: 20, Indels: 8
0.67 0.23 0.09
Matches are distributed among these distances:
11 6 0.10
12 46 0.79
13 6 0.10
ACGTcount: A:0.21, C:0.38, G:0.03, T:0.37
Consensus pattern (12 bp):
ATCATCTCCTAA
Found at i:63141822 original size:24 final size:24
Alignment explanation
Indices: 63141783--63141888 Score: 149
Period size: 24 Copynumber: 4.4 Consensus size: 24
63141773 ACCGGCCAAC
*
63141783 TCCTGCTCCTTGATCAGCTCCTAAA
1 TCCT-CTCCTTTATCAGCTCCTAAA
* *
63141808 TCTTCTCCTTTATCATCTCCTAAA
1 TCCTCTCCTTTATCAGCTCCTAAA
*
63141832 TCCTCTCCCTTATCAGCTCCTAAA
1 TCCTCTCCTTTATCAGCTCCTAAA
*
63141856 TCCTCTCCCTTATCAGCTCCTAAA
1 TCCTCTCCTTTATCAGCTCCTAAA
*
63141880 TCTTCTCCT
1 TCCTCTCCT
63141889 GACAGCCTTT
Statistics
Matches: 73, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
24 70 0.96
25 3 0.04
ACGTcount: A:0.19, C:0.39, G:0.05, T:0.38
Consensus pattern (24 bp):
TCCTCTCCTTTATCAGCTCCTAAA
Found at i:63146900 original size:15 final size:15
Alignment explanation
Indices: 63146880--63146909 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
63146870 AATATGAAAA
63146880 ATATGTTTTGGATTG
1 ATATGTTTTGGATTG
*
63146895 ATATGTTTTGTATTG
1 ATATGTTTTGGATTG
63146910 GAATTTTTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.00, G:0.23, T:0.57
Consensus pattern (15 bp):
ATATGTTTTGGATTG
Found at i:63147537 original size:45 final size:44
Alignment explanation
Indices: 63147488--63147621 Score: 143
Period size: 45 Copynumber: 3.1 Consensus size: 44
63147478 TAGGATTTCC
63147488 TATATGTGTTCTCGTGTAAGACCACGTCTGGGACATTGGCATCGA
1 TATATGTGTT-TCGTGTAAGACCACGTCTGGGACATTGGCATCGA
* * * * *
63147533 TATATGTGGTTACGTGTAAGACCATGTCTAGAACATCGGCATCG-
1 TATATGT-GTTTCGTGTAAGACCACGTCTGGGACATTGGCATCGA
*
63147577 TAT-T-TGATTT-GTGTAAGACC-CTGTCTGGGACAGTGGCATCGA
1 TATATGTG-TTTCGTGTAAGACCAC-GTCTGGGACATTGGCATCGA
63147619 TAT
1 TAT
63147622 GTGATAGCAT
Statistics
Matches: 74, Mismatches: 11, Indels: 11
0.77 0.11 0.11
Matches are distributed among these distances:
41 26 0.35
42 6 0.08
43 1 0.01
44 3 0.04
45 35 0.47
46 3 0.04
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (44 bp):
TATATGTGTTTCGTGTAAGACCACGTCTGGGACATTGGCATCGA
Found at i:63147615 original size:41 final size:42
Alignment explanation
Indices: 63147500--63147639 Score: 126
Period size: 41 Copynumber: 3.3 Consensus size: 42
63147490 TATGTGTTCT
*
63147500 CGTGTAAGACCAC-GTCTGGGACATTGGCATCGATATATGTGGTTA
1 CGTGTAAGACC-CTGTCTGGGACA-TGGCATCGATAT-T-TGATTA
* * *
63147545 CGTGTAAGACCATGTCTAGAACATCGGCATCG-TATTTGATT-
1 CGTGTAAGACCCTGTCTGGGACAT-GGCATCGATATTTGATTA
* *
63147586 TGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATGTGA-TA
1 CGTGTAAGACCCTGTCTGGGACA-TGGCATCGATATTTGATTA
*
63147628 GCATGTAAGACC
1 -CGTGTAAGACC
63147640 ACGTTTGGGA
Statistics
Matches: 78, Mismatches: 11, Indels: 14
0.76 0.11 0.14
Matches are distributed among these distances:
41 27 0.35
42 11 0.14
43 10 0.13
44 4 0.05
45 26 0.33
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.29
Consensus pattern (42 bp):
CGTGTAAGACCCTGTCTGGGACATGGCATCGATATTTGATTA
Found at i:63149885 original size:19 final size:20
Alignment explanation
Indices: 63149839--63149885 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
63149829 GGGATTTGCT
* **
63149839 CTTCGGTGCCCTTGTTTGGA
1 CTTCGGTGCCCTTGTATACA
*
63149859 CTTTGGTGCCC-TGTATACA
1 CTTCGGTGCCCTTGTATACA
63149878 CTTCGGTG
1 CTTCGGTG
63149886 TCTCTATTCG
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.09, C:0.26, G:0.28, T:0.38
Consensus pattern (20 bp):
CTTCGGTGCCCTTGTATACA
Found at i:63149946 original size:20 final size:20
Alignment explanation
Indices: 63149839--63149947 Score: 64
Period size: 20 Copynumber: 5.5 Consensus size: 20
63149829 GGGATTTGCT
* *
63149839 CTTCGGTGCCCTTGTTTGGA
1 CTTCGGTGCCCTTGTCTGCA
* * *
63149859 CTTTGGTGCCC-TGTATACA
1 CTTCGGTGCCCTTGTCTGCA
* *
63149878 CTTCGGTGTCTCTAT-TC-GTA
1 CTTCGGTG-CCCT-TGTCTGCA
* * *
63149898 CTACGGTGCCCCTGTTTGCA
1 CTTCGGTGCCCTTGTCTGCA
*
63149918 CATT-TGTGCCCTTGTCTGCA
1 C-TTCGGTGCCCTTGTCTGCA
63149938 CTTCGGTGCC
1 CTTCGGTGCC
63149948 ACTTTTATGC
Statistics
Matches: 63, Mismatches: 19, Indels: 14
0.66 0.20 0.15
Matches are distributed among these distances:
18 1 0.02
19 17 0.27
20 42 0.67
21 2 0.03
22 1 0.02
ACGTcount: A:0.09, C:0.29, G:0.24, T:0.38
Consensus pattern (20 bp):
CTTCGGTGCCCTTGTCTGCA
Found at i:63166618 original size:40 final size:40
Alignment explanation
Indices: 63166572--63166653 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
63166562 GGCGTGTTAT
63166572 TGTTACCTGAGGTCTAAAGTTTGAGTCCTGGTATGCGCAA
1 TGTTACCTGAGGTCTAAAGTTTGAGTCCTGGTATGCGCAA
63166612 TGTTACCTGAGGTCTAAAGTTTGAGTCCTGGTATGCGCAA
1 TGTTACCTGAGGTCTAAAGTTTGAGTCCTGGTATGCGCAA
63166652 TG
1 TG
63166654 GAGTGTTTTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (40 bp):
TGTTACCTGAGGTCTAAAGTTTGAGTCCTGGTATGCGCAA
Found at i:63170569 original size:42 final size:43
Alignment explanation
Indices: 63170461--63170625 Score: 165
Period size: 43 Copynumber: 3.8 Consensus size: 43
63170451 TTCTAGTATG
** * * *
63170461 TGATTTCGTGTAAGACCACATCTGGGACGTTAGCATCGATTTGA
1 TGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGATAT-A
* *
63170505 -GATTTATGTGTAAGACTATGTCTGGGACATTGGCATC-ATATA
1 TGATTT-CGTGTAAGACCATGTCTGGGACATTGGCATCGATATA
* * *
63170547 TGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATT
1 TGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATA
* * *
63170590 TGATTACATGTAAG-GCATCGTCTGGGACATTGGCAT
1 TGATTTCGTGTAAGACCAT-GTCTGGGACATTGGCAT
63170626 TGTACGATGA
Statistics
Matches: 100, Mismatches: 17, Indels: 9
0.79 0.13 0.07
Matches are distributed among these distances:
42 30 0.30
43 45 0.45
44 25 0.25
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (43 bp):
TGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATA
Found at i:63175062 original size:42 final size:41
Alignment explanation
Indices: 63174953--63175065 Score: 113
Period size: 44 Copynumber: 2.7 Consensus size: 41
63174943 TTCCGCTATG
***
63174953 TGATTTTGTGTAAGACCAC-GTCTGGGACATTGGCATCGACT
1 TGATTTTGTGTAAGACC-CTGTCTGGGACATCAACATCGACT
* *
63174994 TGAGATTTACGTGTAAGACCATGTCTGGGACATCAACATCGTA-T
1 T--GATTT-TGTGTAAGACCCTGTCTGGGACATCAACATCG-ACT
63175038 ATGATTTTGTGTAAGACCCTGTCTGGGA
1 -TGATTTTGTGTAAGACCCTGTCTGGGA
63175066 TAGTGGCATC
Statistics
Matches: 59, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
41 1 0.02
42 19 0.32
43 10 0.17
44 27 0.46
45 2 0.03
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.32
Consensus pattern (41 bp):
TGATTTTGTGTAAGACCCTGTCTGGGACATCAACATCGACT
Found at i:63181855 original size:13 final size:13
Alignment explanation
Indices: 63181837--63181861 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
63181827 TATGTGATAT
63181837 GTGTGAAAATTTC
1 GTGTGAAAATTTC
63181850 GTGTGAAAATTT
1 GTGTGAAAATTT
63181862 TATCATTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:63183064 original size:42 final size:44
Alignment explanation
Indices: 63182970--63183070 Score: 136
Period size: 42 Copynumber: 2.3 Consensus size: 44
63182960 TAAAACCACA
* *
63182970 TCTGGGACATTGGCATCGATTTGAGATTTACGTGTAAGACCATG
1 TCTGGGACATTGGCATCGATATGAGATTTACGTGCAAGACCATG
*
63183014 TCTGGGACATTGGCATC-ATAT-ATGATTT-CGTGCAAGACCCTG
1 TCTGGGACATTGGCATCGATATGA-GATTTACGTGCAAGACCATG
*
63183056 TCTGGGACAGTGGCA
1 TCTGGGACATTGGCA
63183071 ACAAAATTTG
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
42 27 0.52
43 8 0.15
44 17 0.33
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.30
Consensus pattern (44 bp):
TCTGGGACATTGGCATCGATATGAGATTTACGTGCAAGACCATG
Found at i:63183187 original size:32 final size:32
Alignment explanation
Indices: 63183150--63183214 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
63183140 GTATCCTTAT
63183150 TGATTCCGAATAGTTCAACGTGAAATATTGAG
1 TGATTCCGAATAGTTCAACGTGAAATATTGAG
63183182 TGATTCCGAATAGTTCAACGTGAAATATTGAG
1 TGATTCCGAATAGTTCAACGTGAAATATTGAG
63183214 T
1 T
63183215 TAAGATCGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.32
Consensus pattern (32 bp):
TGATTCCGAATAGTTCAACGTGAAATATTGAG
Found at i:63187177 original size:24 final size:24
Alignment explanation
Indices: 63187150--63187195 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
63187140 GAATTTCACA
63187150 TTCAAAT-CAGCACACATAGTGCCT
1 TTCAAATAC-GCACACATAGTGCCT
* *
63187174 TTCAACTACGCACACGTAGTGC
1 TTCAAATACGCACACATAGTGC
63187196 TAGTATCGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 18 0.95
25 1 0.05
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.24
Consensus pattern (24 bp):
TTCAAATACGCACACATAGTGCCT
Found at i:63193843 original size:49 final size:47
Alignment explanation
Indices: 63193644--63193916 Score: 236
Period size: 49 Copynumber: 5.7 Consensus size: 47
63193634 TGATATGTGT
63193644 GCTAGTGTAAGACATGTCTGGGACATGCATCGA-CCACAT-TATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCCA-ATATATGAGA
* * * * * *
63193690 GCTAGTGTAAGACATGTTTGGTACATGCATCG--GCATTGAGACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCCAAT-ATATGAGA
* * * *
63193736 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATATGCA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACC-CAATATATG-AGA
*
63193784 GCTAGTGTAAGACATGTCTGGGACATAGCATCGACACCAATAGATGAGA
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGAC-CCAATATATGAGA
* * * * *
63193833 GCCAGTGTAAGACCTGTCTGGGACACGGCATC-AGCCTCGATATATGAAA
1 GCTAGTGTAAGACATGTCTGGGACA-TGCATCGA-CC-CAATATATGAGA
* *
63193882 G-TCAGTGTAAGACCTGTCTGGGACAAGGCATCGAC
1 GCT-AGTGTAAGACATGTCTGGGAC-ATGCATCGAC
63193917 TTTGATATGC
Statistics
Matches: 185, Mismatches: 27, Indels: 27
0.77 0.11 0.11
Matches are distributed among these distances:
44 1 0.01
45 2 0.01
46 64 0.35
48 32 0.17
49 83 0.45
50 3 0.02
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGACCCAATATATGAGA
Found at i:63193893 original size:98 final size:97
Alignment explanation
Indices: 63193647--63193916 Score: 261
Period size: 98 Copynumber: 2.8 Consensus size: 97
63193637 TATGTGTGCT
* * * * * *
63193647 AGTGTAAGACATGTCTGGGACATGCATC-GACCAC-A-TTATGAGAGCTAGTGTAAGACATGTTT
1 AGTGTAAGACATGTCTAGGACAGGCATCAG-CCTCGAGATATGAAAGCTAGTGTAAGACATGTCT
* * * * * *
63193709 GGTAC-ATGCATCG---GCATTGAGACGAGAGCT
65 GGGACAAGGCATCGACACCAAT-AGATGAGAGCC
* * *
63193739 AGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATATGCAAGCTAGTGTAAGACATGTCTG
1 AGTGTAAGACATGTCTAGGACAGGCATCAGCCTCGAGATATGAAAGCTAGTGTAAGACATGTCTG
63193804 GGACATA-GCATCGACACCAATAGATGAGAGCC
66 GGACA-AGGCATCGACACCAATAGATGAGAGCC
* * * *
63193836 AGTGTAAGACCTGTCTGGGACACGGCATCAGCCTCGATATATGAAAG-TCAGTGTAAGACCTGTC
1 AGTGTAAGACATGTCTAGGACA-GGCATCAGCCTCGAGATATGAAAGCT-AGTGTAAGACATGTC
63193900 TGGGACAAGGCATCGAC
64 TGGGACAAGGCATCGAC
63193917 TTTGATATGC
Statistics
Matches: 149, Mismatches: 18, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
92 30 0.20
93 2 0.01
94 27 0.18
95 6 0.04
96 1 0.01
97 31 0.21
98 52 0.35
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (97 bp):
AGTGTAAGACATGTCTAGGACAGGCATCAGCCTCGAGATATGAAAGCTAGTGTAAGACATGTCTG
GGACAAGGCATCGACACCAATAGATGAGAGCC
Found at i:63193924 original size:49 final size:49
Alignment explanation
Indices: 63193739--63193954 Score: 192
Period size: 49 Copynumber: 4.4 Consensus size: 49
63193729 GACGAGAGCT
* * * * * * *
63193739 AGTGTAAGACATGTCTAGGAC-ATGCATCGGCCTCGAGATATGCAAGCT
1 AGTGTAAGACCTGTCTGGGACAAGGCATCGACCTCGATATATGAAAGCC
* * * *
63193787 AGTGTAAGACATGTCTGGGACATA-GCATCGACAC-CAATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACA-AGGCATCGAC-CTCGATATATGAAAGCC
* *
63193836 AGTGTAAGACCTGTCTGGGACACGGCATC-AGCCTCGATATATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACAAGGCATCGA-CCTCGATATATGAAAGCC
* * **
63193885 AGTGTAAGACCTGTCTGGGACAAGGCATCGACTTTG--ATATGCTAGCC
1 AGTGTAAGACCTGTCTGGGACAAGGCATCGACCTCGATATATGAAAGCC
*
63193932 AGTGTAAGACCATGTTTGGGACA
1 AGTGTAAGACC-TGTCTGGGACA
63193955 TGGCGTCGGC
Statistics
Matches: 139, Mismatches: 21, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
47 19 0.14
48 32 0.23
49 85 0.61
50 3 0.02
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACAAGGCATCGACCTCGATATATGAAAGCC
Found at i:63197884 original size:41 final size:41
Alignment explanation
Indices: 63197780--63197887 Score: 146
Period size: 41 Copynumber: 2.6 Consensus size: 41
63197770 CTTTATGCTT
* * * * *
63197780 AGCAGGCTTTGTGCCGGTGTATAATTTCAGGCCTATTGCCT
1 AGCAGGCTTTATGCCGGTGTATTATATCAAGCCTATTGCCC
*
63197821 AGTAGGCTTTATGCCGGTGTATTATATCAAGCCTATTGCCC
1 AGCAGGCTTTATGCCGGTGTATTATATCAAGCCTATTGCCC
63197862 AGCAGGCTCTT-TGCCGGTGTATTATA
1 AGCAGGCT-TTATGCCGGTGTATTATA
63197888 GTAGGCTTTA
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
41 57 0.97
42 2 0.03
ACGTcount: A:0.19, C:0.21, G:0.25, T:0.34
Consensus pattern (41 bp):
AGCAGGCTTTATGCCGGTGTATTATATCAAGCCTATTGCCC
Found at i:63200234 original size:15 final size:15
Alignment explanation
Indices: 63200206--63200249 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
63200196 TACAGTATTG
63200206 TATCTTGAGATTTCTC
1 TATCTTG-GATTTCTC
*
63200222 TATCTTGGATTTCTT
1 TATCTTGGATTTCTC
*
63200237 TA-CTTGGTTTTCT
1 TATCTTGGATTTCT
63200250 TGTTATCTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
14 10 0.38
15 9 0.35
16 7 0.27
ACGTcount: A:0.14, C:0.16, G:0.14, T:0.57
Consensus pattern (15 bp):
TATCTTGGATTTCTC
Found at i:63202880 original size:48 final size:47
Alignment explanation
Indices: 63202721--63202884 Score: 181
Period size: 46 Copynumber: 3.5 Consensus size: 47
63202711 TATGTGTGCG
** * * * * *
63202721 AGTGTAAGAGTTGTCTGTGACATGCATCAGCCACA-TTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAGATATGAGAGCT
* * *
63202767 AGTGTAAGACATGTCTGGGACATGCATCGACATTTAGATA--AGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGC-CTCAGATATGAGAGCT
*
63202813 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATGAAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTC-AGATATGAGAGCT
*
63202861 AGTGTAAGACCTGTCTGGGACATG
1 AGTGTAAGACATGTCTGGGACATG
63202885 GCGTCAGCTT
Statistics
Matches: 98, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
45 1 0.01
46 66 0.67
47 1 0.01
48 30 0.31
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAGATATGAGAGCT
Found at i:63202918 original size:44 final size:46
Alignment explanation
Indices: 63202861--63203074 Score: 231
Period size: 44 Copynumber: 4.6 Consensus size: 46
63202851 TATGAAAGCT
*
63202861 AGTGTAAGACCTGTCTGGGACATGGCGTCAGC-TTGATGTG-TGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCAGCGTTGATGTGATGTC
*
63202905 AGTGTAAGACCTGTCTGGGACATGGCGTCAGC-TTGATGTG-TGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCAGCGTTGATGTGATGTC
* * * * *
63202949 AGTGTAAGACCTATCTGGGACACGGCATCGGCGTTGGTATATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCAGCGTT-G-ATGTG-ATGTC
* * * *
63202998 AGTGTAAGACCTGTCTGGGATATGGCATC-GACTTTGATGTGCTAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCAG-CGTTGATGTGAT-GTC
*
63203045 AGTGTAAGACCTTCTCTGGGACATGGCATC
1 AGTGTAAGACC-TGTCTGGGACATGGCATC
63203075 GACATTTTAC
Statistics
Matches: 146, Mismatches: 16, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
44 72 0.49
45 2 0.01
46 1 0.01
47 21 0.14
48 18 0.12
49 32 0.22
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.28
Consensus pattern (46 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCAGCGTTGATGTGATGTC
Found at i:63203004 original size:137 final size:140
Alignment explanation
Indices: 63202813--63203071 Score: 352
Period size: 137 Copynumber: 1.9 Consensus size: 140
63202803 GATAAGAGCT
* *
63202813 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATGAAAGCTAGTGTAAGACCTGTCTG
1 AGTGTAAGACATATCTGGGACAGGCATCGGCCTCGAGATATGAAAGCTAGTGTAAGACCTGTCTG
* * *
63202878 GGACATGGCGTC-AGC-TTGATGTG-T-GTCAGTGTAAGACC-TGTCTGGGACATGGCGTCAGCT
66 GGACATGGCATCGA-CTTTGATGTGCTAGCCAGTGTAAGACCTTCTCTGGGACATGGCGTCAGCT
63202938 TGATGTGTGTC
130 TGATGTGTGTC
* * *
63202949 AGTGTAAGACCTATCTGGGACACGGCATCGGCGTTG-GTATATGAAAG-TCAGTGTAAGACCTGT
1 AGTGTAAGACATATCTGGGACA-GGCATCGGCCTCGAG-ATATGAAAGCT-AGTGTAAGACCTGT
*
63203012 CTGGGATATGGCATCGACTTTGATGTGCTAGCCAGTGTAAGACCTTCTCTGGGACATGGC
63 CTGGGACATGGCATCGACTTTGATGTGCTAGCCAGTGTAAGACCTTCTCTGGGACATGGC
63203072 ATCGACATTT
Statistics
Matches: 106, Mismatches: 9, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
136 22 0.21
137 47 0.44
138 9 0.08
139 1 0.01
140 13 0.12
141 14 0.13
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (140 bp):
AGTGTAAGACATATCTGGGACAGGCATCGGCCTCGAGATATGAAAGCTAGTGTAAGACCTGTCTG
GGACATGGCATCGACTTTGATGTGCTAGCCAGTGTAAGACCTTCTCTGGGACATGGCGTCAGCTT
GATGTGTGTC
Found at i:63203015 original size:93 final size:97
Alignment explanation
Indices: 63202902--63203075 Score: 259
Period size: 93 Copynumber: 1.8 Consensus size: 97
63202892 CTTGATGTGT
* *
63202902 GTCAGTGTAAGACCTGTCTGGGACATGGCGTC-AGC-TTGATGTG-T-GTCAGTGTAAGACC-TA
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGA-CTTTGATGTGCTAGCCAGTGTAAGACCTTA
63202962 TCTGGGACACGGCATCGGCGTTGGTATATGAAA
65 TCTGGGACACGGCATCGGCGTTGGTATATGAAA
* *
63202995 GTCAGTGTAAGACCTGTCTGGGATATGGCATCGACTTTGATGTGCTAGCCAGTGTAAGACCTTCT
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGACTTTGATGTGCTAGCCAGTGTAAGACCTTAT
*
63203060 CTGGGACATGGCATCG
66 CTGGGACACGGCATCG
63203076 ACATTTTACC
Statistics
Matches: 71, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
93 31 0.44
94 9 0.13
95 1 0.01
96 13 0.18
97 17 0.24
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.28
Consensus pattern (97 bp):
GTCAGTGTAAGACCTGTCTGGGACATGGCATCGACTTTGATGTGCTAGCCAGTGTAAGACCTTAT
CTGGGACACGGCATCGGCGTTGGTATATGAAA
Found at i:63212039 original size:20 final size:20
Alignment explanation
Indices: 63211998--63212040 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
63211988 AATAGGAGGA
* *
63211998 AAGGGAAAGAAAGGGGAAAG
1 AAGGGAAAGAAAAGAGAAAG
63212018 AAGGG-AAGAAAAGAGAAGAG
1 AAGGGAAAGAAAAGAGAA-AG
63212038 AAG
1 AAG
63212041 AAGAGAAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (20 bp):
AAGGGAAAGAAAAGAGAAAG
Found at i:63212350 original size:12 final size:12
Alignment explanation
Indices: 63212333--63212357 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
63212323 AGTGTTCCCA
63212333 GGCCGTGTGCAC
1 GGCCGTGTGCAC
63212345 GGCCGTGTGCAC
1 GGCCGTGTGCAC
63212357 G
1 G
63212358 TTCGTTCGCT
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:0.08, C:0.32, G:0.44, T:0.16
Consensus pattern (12 bp):
GGCCGTGTGCAC
Found at i:63220929 original size:34 final size:33
Alignment explanation
Indices: 63220865--63220946 Score: 92
Period size: 34 Copynumber: 2.4 Consensus size: 33
63220855 ATTTGCATCT
*
63220865 CTGATACTGTACTGAATTAGGCTAAAGCCCACA
1 CTGATACTGTACTGAACTAGGCTAAAGCCCACA
* * * *
63220898 CTGATACTGTCACTGTACTGGGCTAAGGCCCAGA
1 CTGATACTGT-ACTGAACTAGGCTAAAGCCCACA
*
63220932 CTGATATTGCTACTG
1 CTGATACTG-TACTG
63220947 TTAAGGGCCT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
33 10 0.24
34 30 0.73
35 1 0.02
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (33 bp):
CTGATACTGTACTGAACTAGGCTAAAGCCCACA
Found at i:63220947 original size:34 final size:34
Alignment explanation
Indices: 63220884--63220968 Score: 86
Period size: 34 Copynumber: 2.5 Consensus size: 34
63220874 TACTGAATTA
* * *
63220884 GGCTAAAGCCCACACTGATACTGTCACTG-TACTG
1 GGCTAAGGCCCAGACTGATACTGTCACTGTTA-AG
*
63220918 GGCTAAGGCCCAGACTGATATTG-CTACTGTTAAG
1 GGCTAAGGCCCAGACTGATACTGTC-ACTGTTAAG
63220952 GGCCT-AGGCCCAGACTG
1 GG-CTAAGGCCCAGACTG
63220969 TTTGCACTGC
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
33 1 0.02
34 39 0.89
35 4 0.09
ACGTcount: A:0.25, C:0.27, G:0.26, T:0.22
Consensus pattern (34 bp):
GGCTAAGGCCCAGACTGATACTGTCACTGTTAAG
Found at i:63239968 original size:30 final size:29
Alignment explanation
Indices: 63239934--63239997 Score: 110
Period size: 30 Copynumber: 2.2 Consensus size: 29
63239924 ATGAATCGGA
*
63239934 AGCTTTGGCACTATGTGTGCGATTTAAACT
1 AGCTTTGGCACTAAGTGTGCGATTT-AACT
63239964 AGCTTTGGCACTAAGTGTGCGATTTAACT
1 AGCTTTGGCACTAAGTGTGCGATTTAACT
63239993 AGCTT
1 AGCTT
63239998 CGGCTACTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 9 0.27
30 24 0.73
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.36
Consensus pattern (29 bp):
AGCTTTGGCACTAAGTGTGCGATTTAACT
Found at i:63243912 original size:39 final size:39
Alignment explanation
Indices: 63243858--63243944 Score: 138
Period size: 39 Copynumber: 2.2 Consensus size: 39
63243848 CCGGCAATTT
63243858 GCCTGCTAGGTATAAACCCGAACTTAACACCAGCACGAG
1 GCCTGCTAGGTATAAACCCGAACTTAACACCAGCACGAG
* * * *
63243897 GCCTGCTAGGTATAAACCTGAATTTATCACCGGCACGAG
1 GCCTGCTAGGTATAAACCCGAACTTAACACCAGCACGAG
63243936 GCCTGCTAG
1 GCCTGCTAG
63243945 ACATTAAGTC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.20
Consensus pattern (39 bp):
GCCTGCTAGGTATAAACCCGAACTTAACACCAGCACGAG
Found at i:63252135 original size:39 final size:39
Alignment explanation
Indices: 63252081--63252206 Score: 209
Period size: 39 Copynumber: 3.2 Consensus size: 39
63252071 CCGGTAATTT
* *
63252081 GCCTGCTAGGTATAAA-CTCGAACTTAACACCAGCACGAG
1 GCCTGCTAGGTATAAACCT-GAATTTATCACCAGCACGAG
*
63252120 GCCTGCTAGGTATAAACCTGAATTTATCACCGGCACGAG
1 GCCTGCTAGGTATAAACCTGAATTTATCACCAGCACGAG
63252159 GCCTGCTAGGTATAAACCTGAATTTATCACCAGCACGAG
1 GCCTGCTAGGTATAAACCTGAATTTATCACCAGCACGAG
63252198 GCCTGCTAG
1 GCCTGCTAG
63252207 ACATTACGTC
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
39 80 0.98
40 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.21
Consensus pattern (39 bp):
GCCTGCTAGGTATAAACCTGAATTTATCACCAGCACGAG
Found at i:63265186 original size:43 final size:42
Alignment explanation
Indices: 63265115--63265235 Score: 136
Period size: 43 Copynumber: 2.9 Consensus size: 42
63265105 CGGAAAGCTC
* ** * *
63265115 ATACAATGCCAACGTCCTAGACGTGGTCTTACATGTAATCAA
1 ATACGATGCCAATATCCCAGACGTGGTCTTACATGAAATCAA
* * *
63265157 ATATTGATGCCACTGTCCCAGACAG-GGTCTTACATGAAATCAA
1 ATA-CGATGCCAATATCCCAGAC-GTGGTCTTACATGAAATCAA
*
63265200 ATACGATGCCAATATTCCAGACGTGGTCTTACATGA
1 ATACGATGCCAATATCCCAGACGTGGTCTTACATGA
63265236 GAACACATAT
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
41 1 0.02
42 30 0.45
43 34 0.52
44 1 0.02
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.26
Consensus pattern (42 bp):
ATACGATGCCAATATCCCAGACGTGGTCTTACATGAAATCAA
Found at i:63265221 original size:42 final size:43
Alignment explanation
Indices: 63265133--63265235 Score: 138
Period size: 42 Copynumber: 2.4 Consensus size: 43
63265123 CCAACGTCCT
* * * *
63265133 AGACGTGGTCTTACATGTAATCAAATATTGATGCCACTGTCCC
1 AGACGTGGTCTTACATGAAATCAAATATCGATGCCAATATCCC
*
63265176 AGACAG-GGTCTTACATGAAATCAAATA-CGATGCCAATATTCC
1 AGAC-GTGGTCTTACATGAAATCAAATATCGATGCCAATATCCC
63265218 AGACGTGGTCTTACATGA
1 AGACGTGGTCTTACATGA
63265236 GAACACATAT
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
41 1 0.02
42 27 0.51
43 24 0.45
44 1 0.02
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.27
Consensus pattern (43 bp):
AGACGTGGTCTTACATGAAATCAAATATCGATGCCAATATCCC
Found at i:63275417 original size:39 final size:40
Alignment explanation
Indices: 63275362--63275458 Score: 126
Period size: 39 Copynumber: 2.5 Consensus size: 40
63275352 TGGATGATAA
* *
63275362 CCGGGCTAAGTCCCGAAGGCATCTGCGCTAGTGACT-AGT
1 CCGGGCTAAGTCCCGAAGGCATCTGCGCGAGTGACTAAAT
* * *
63275401 CCCGGGC-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 -CCGGGCTAAGTCCCGAAGGCATCTGCGCGAGTGACTAAAT
63275441 CCGGGCTAAGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
63275459 TGTGACATCC
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
39 31 0.62
40 19 0.38
ACGTcount: A:0.23, C:0.28, G:0.30, T:0.20
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATCTGCGCGAGTGACTAAAT
Found at i:63278213 original size:47 final size:47
Alignment explanation
Indices: 63278160--63278897 Score: 1165
Period size: 47 Copynumber: 15.6 Consensus size: 47
63278150 TAATTGAATA
*
63278160 AATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
* *
63278207 AATGTGATGAAAGTGAACATGTATATGTGTGATAGGGCCGAATGGCC
1 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
63278254 AATGTGATGAATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
1 AA--TG-TG-A--TGA--AA-GTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
*
63278310 AATGTGATGAAAGTGAACATGTGTATGTGTGATAGGGCCGAATGGCC
1 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
*
63278357 AATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
*
63278404 AATGTGATGAAAGTGAACATGTATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
*
63278451 AATGTGATGAAAGTGAACATGTGTATGTGTGATAGGGCCGAATGGCC
1 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
*
63278498 AATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
*
63278545 AATGTGATGAAAGTGAACATGTGTATGTGTGATAGGGCCGAATGGCC
1 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
* *
63278592 AATGTGATGAATGTGAACATGTGTATGTGTGATAAGGTCGAATGGCC
1 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
* *
63278639 AATGTGATGAAAGTGAACATGTATATGTGTGATAGGGCCGAATGGCC
1 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
63278686 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
*
63278733 AATGTGATGAAAGTGAACATGTATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
* *
63278780 AATGTGATGAAAGTGAACAGGTGTATGTGTGATAAGGCCGAGTGGCC
1 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
* * * * *
63278827 AATGTGATGAATGTGAGCATGTGTATGTGAGGTAAGGCCTAATGGCC
1 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
* * *
63278874 GATGTAATGAATGTGAA-A-GTGTAT
1 AATGTGATGAAAGTGAACATGTGTAT
63278898 AAATGTGATA
Statistics
Matches: 643, Mismatches: 39, Indels: 20
0.92 0.06 0.03
Matches are distributed among these distances:
45 6 0.01
46 1 0.00
47 581 0.90
48 2 0.00
49 2 0.00
50 5 0.01
51 1 0.00
52 1 0.00
53 5 0.01
54 2 0.00
55 2 0.00
56 35 0.05
ACGTcount: A:0.31, C:0.10, G:0.32, T:0.27
Consensus pattern (47 bp):
AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
Found at i:63278268 original size:9 final size:9
Alignment explanation
Indices: 63278254--63278278 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
63278244 CCGAATGGCC
63278254 AATGTGATG
1 AATGTGATG
63278263 AATGTGATG
1 AATGTGATG
63278272 AATGTGA
1 AATGTGA
63278279 ACATGTGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (9 bp):
AATGTGATG
Found at i:63279084 original size:37 final size:37
Alignment explanation
Indices: 63279028--63279107 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
63279018 CCGGGCTCTA
* * *
63279028 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACTCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
63279065 AAGACTCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACTCGATAACTACGTGTGGAGATTATGTCCGGGT
63279102 AAGACT
1 AAGACT
63279108 TCGTAATAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (37 bp):
AAGACTCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:63280505 original size:40 final size:40
Alignment explanation
Indices: 63280447--63280545 Score: 128
Period size: 40 Copynumber: 2.5 Consensus size: 40
63280437 GGGTGTTACA
*
63280447 CGAAGGCATTTGTGCGAGTTACT-AAATCCGGGCTAAGTCC
1 CGAAGGCAATTGTGCGAGTTACTCAAAT-CGGGCTAAGTCC
* * *
63280487 CGAAGGCAATTGTTCGAGTTACTCTAATCGGGCTATGTCC
1 CGAAGGCAATTGTGCGAGTTACTCAAATCGGGCTAAGTCC
* *
63280527 CGAAGGCATTTGAGCGAGT
1 CGAAGGCAATTGTGCGAGT
63280546 AGCTATATCC
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
40 48 0.94
41 3 0.06
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CGAAGGCAATTGTGCGAGTTACTCAAATCGGGCTAAGTCC
Found at i:63288496 original size:40 final size:40
Alignment explanation
Indices: 63288397--63288587 Score: 269
Period size: 40 Copynumber: 4.8 Consensus size: 40
63288387 TGGATGATAA
* * * * **
63288397 CCGGGCTAAGTCCCGAAGGCATCTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
63288437 CCGGGC-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
63288476 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
63288516 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAAT
* *
63288556 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
63288588 AGCTATATCC
Statistics
Matches: 138, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
39 33 0.24
40 103 0.75
41 2 0.01
ACGTcount: A:0.23, C:0.25, G:0.29, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:63301324 original size:28 final size:28
Alignment explanation
Indices: 63301288--63301378 Score: 146
Period size: 28 Copynumber: 3.2 Consensus size: 28
63301278 TGACATACGT
*
63301288 CCGTGTCTATCACACGGCCATGACATGC
1 CCGTGTCTATCACATGGCCATGACATGC
*
63301316 CCGTGTCTATCACATGGCCATGACACGC
1 CCGTGTCTATCACATGGCCATGACATGC
*
63301344 CCGTGTCTATCACATGGCCATGAGATGC
1 CCGTGTCTATCACATGGCCATGACATGC
*
63301372 CCATGTC
1 CCGTGTC
63301379 CTAGCCCGTG
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 58 1.00
ACGTcount: A:0.21, C:0.34, G:0.22, T:0.23
Consensus pattern (28 bp):
CCGTGTCTATCACATGGCCATGACATGC
Found at i:63302707 original size:47 final size:48
Alignment explanation
Indices: 63302556--63302729 Score: 159
Period size: 46 Copynumber: 3.7 Consensus size: 48
63302546 ACATCTCGTA
* * * * * *
63302556 GCCGATGCATGTTCCAGACATGTCTTACATTGGCT-TATG-TC-ACGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT-CGATCAATGTG
* *
63302602 GCCGATGCATGTCCCAGACATGTCTCACACTAGCTCTCGTCTCAATGT-
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCG-ATCAATGTG
*
63302650 --CGATGCCATGTCCCA-AGCATGGTCTTACACTGGCTCTC-AT-AATGTG
1 GCCGATG-CATGTCCCAGA-CAT-GTCTTACACTAGCTCTCGATCAATGTG
63302696 GCCGATGCATGTCCCAGACATGTCTTACACTAGC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC
63302730 ACACAAATGA
Statistics
Matches: 106, Mismatches: 11, Indels: 22
0.76 0.08 0.16
Matches are distributed among these distances:
45 5 0.05
46 51 0.48
47 25 0.24
48 23 0.22
49 2 0.02
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (48 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGATCAATGTG
Found at i:63305101 original size:43 final size:43
Alignment explanation
Indices: 63305040--63305166 Score: 182
Period size: 43 Copynumber: 3.0 Consensus size: 43
63305030 GAGATATGTG
*
63305040 GCATCCAAGGTCATTGAGTGGTCCGAGTTCATTATGGATGCAA
1 GCATCCAAGCTCATTGAGTGGTCCGAGTTCATTATGGATGCAA
** **
63305083 GCATCTGAGCTCATTGAGTGGTCCGAGTTCATTATGGATGTGA
1 GCATCCAAGCTCATTGAGTGGTCCGAGTTCATTATGGATGCAA
* * *
63305126 GCATCCAAGCTCGTTGAGTGGTCTGAGTTCATTGTGGATGC
1 GCATCCAAGCTCATTGAGTGGTCCGAGTTCATTATGGATGC
63305167 GATGCCTGTG
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 73 1.00
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (43 bp):
GCATCCAAGCTCATTGAGTGGTCCGAGTTCATTATGGATGCAA
Found at i:63314274 original size:42 final size:43
Alignment explanation
Indices: 63314193--63314295 Score: 129
Period size: 42 Copynumber: 2.4 Consensus size: 43
63314183 TCCCAGATGT
* * * * *
63314193 GGTCTTACATGT-AATCAAATTTCGATGCCACTGTCCCAGACAG
1 GGTCTTACACGTAAATCATA-TACGATGCAAATGTCCCAGACAG
*
63314236 GGTCTTACACG-AAATCATATACGATGCAAATGTCCCAGACAT
1 GGTCTTACACGTAAATCATATACGATGCAAATGTCCCAGACAG
63314278 GGTCTTACACGTAAATCA
1 GGTCTTACACGTAAATCA
63314296 CAAATTGATG
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
42 30 0.58
43 22 0.42
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.26
Consensus pattern (43 bp):
GGTCTTACACGTAAATCATATACGATGCAAATGTCCCAGACAG
Found at i:63314828 original size:9 final size:9
Alignment explanation
Indices: 63314807--63314841 Score: 61
Period size: 9 Copynumber: 3.8 Consensus size: 9
63314797 GTCCATATTT
63314807 CAAAATAACA
1 CAAAAT-ACA
63314817 CAAAATACA
1 CAAAATACA
63314826 CAAAATACA
1 CAAAATACA
63314835 CAAAATA
1 CAAAATA
63314842 TCATCTAGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 19 0.76
10 6 0.24
ACGTcount: A:0.69, C:0.20, G:0.00, T:0.11
Consensus pattern (9 bp):
CAAAATACA
Found at i:63318079 original size:46 final size:46
Alignment explanation
Indices: 63317978--63318065 Score: 122
Period size: 46 Copynumber: 1.9 Consensus size: 46
63317968 TGTAACCCGC
* * * *
63317978 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
* *
63318024 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTC
63318066 AACCATCCTA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.27, C:0.31, G:0.23, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
Found at i:63324297 original size:43 final size:42
Alignment explanation
Indices: 63324153--63324297 Score: 118
Period size: 44 Copynumber: 3.4 Consensus size: 42
63324143 TGTGTTATCG
* **
63324153 TGTAAGACCACGTCTGGGACGTTGGCATCGAT-TTGTGATTTATG
1 TGTAAGACCACGTCTGGGAAG-TGGCATCGATATT-TGA-TTACA
* * * * *
63324197 TGTAATACCATGTCTGGGACATTGACATCG-TATATGA-TATCA
1 TGTAAGACCACGTCTGGGA-AGTGGCATCGATATTTGATTA-CA
*
63324239 TGTAAGACC-CTGTCTGGGATAGAGGCATCGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGA-AGTGGCATCGATATTTGATTACA
63324282 TGTAAGACCACGTCTG
1 TGTAAGACCACGTCTG
63324298 AGATGTTGGC
Statistics
Matches: 79, Mismatches: 15, Indels: 15
0.72 0.14 0.14
Matches are distributed among these distances:
41 2 0.03
42 23 0.29
43 26 0.33
44 28 0.35
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGAAGTGGCATCGATATTTGATTACA
Found at i:63324309 original size:43 final size:43
Alignment explanation
Indices: 63324153--63324309 Score: 135
Period size: 43 Copynumber: 3.7 Consensus size: 43
63324143 TGTGTTATCG
**
63324153 TGTAAGACCACGTCTGGGACGTTGGCATCGAT-TTGTGATTTATG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATT-TGA-TTACA
* * * * *
63324197 TGTAATACCATGTCTGGGACATTGACATCG-TATATGA-TATCA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTA-CA
* *
63324239 TGTAAGACC-CTGTCTGGGATAG-AGGCATCGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGA-CGTTGGCATCGATATTTGATTACA
* *
63324282 TGTAAGACCACGTCTGAGATGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
63324310 TGTACAAGCT
Statistics
Matches: 88, Mismatches: 17, Indels: 17
0.72 0.14 0.14
Matches are distributed among these distances:
41 2 0.02
42 23 0.26
43 33 0.38
44 30 0.34
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTACA
Found at i:63326478 original size:11 final size:11
Alignment explanation
Indices: 63326462--63326488 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
63326452 ATTAAAAGCA
63326462 AATGTTTTGAT
1 AATGTTTTGAT
63326473 AATGTTTTGAT
1 AATGTTTTGAT
63326484 AATGT
1 AATGT
63326489 GAAATTAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.19, T:0.52
Consensus pattern (11 bp):
AATGTTTTGAT
Done.