Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 7 of 349
Found at i:2135679 original size:131 final size:131
Alignment explanation
Indices: 2135380--2135777 Score: 388
Period size: 131 Copynumber: 3.0 Consensus size: 131
2135370 TTGCCTCGCC
* ** * *** * **
2135380 TTAGAAAACACGAGTGAAATTCTGAAGGGATAC-TCGATTATTTTGAACAAACGGGAGATTGCAA
1 TTAGAAAACATGAGTGAAATTCCAAAGGAAT-CTTCGATTATTTTGAACAAACAAAAAAGCGCAA
* * * * *
2135444 CCCAGCACGATAGGGCACTATTCCCCGAATTGCCAAACATCGAACATTTCTTTCGTTTTAAATAG
65 CCCAGCACGATAGGGCACTATT-CCCAAATCGCCAAACATCGAACATTTCCTTCGTTTCAAAGAG
2135509 TTT
129 TTT
* * *
2135512 TTAGAAAACGTGAGTGAAATTCCGAAGGAATCTTCGATTGTTTTGAACAAACAAAAAAGCGCAAC
1 TTAGAAAACATGAGTGAAATTCCAAAGGAATCTTCGATTATTTTGAACAAACAAAAAAGCGCAAC
* * * *
2135577 CCAGCACGATAAGGCACGATTCTCAAATCGCCAAACATCGAACATTTCCTTCGTTTCAAAGATTT
66 CCAGCACGATAGGGCACTATTCCCAAATCGCCAAACATCGAACATTTCCTTCGTTTCAAAGAGTT
2135642 T
131 T
* * * * * * * **
2135643 TTAGGAACCATGAGTGAAATTCTAAAGGGA-CGTTCGATTATTTTGAGCAAACGAGAAATTGCAA
1 TTAGAAAACATGAGTGAAATTCCAAAGGAATC-TTCGATTATTTTGAACAAACAAAAAAGCGCAA
** * * ** *
2135707 CCCAGCACGATAGGGCACTATTCCGCGGATTGCCAAACATCAAACATCGCCTTCGTTTTGAAAG-
65 CCCAGCACGATAGGGCACTATTCC-CAAATCGCCAAACATCGAACATTTCCTTCG-TTTCAAAGA
2135771 GTTT
128 GTTT
2135775 TTA
1 TTA
2135778 AATGAATAAT
Statistics
Matches: 219, Mismatches: 43, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
130 1 0.00
131 110 0.50
132 101 0.46
133 7 0.03
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (131 bp):
TTAGAAAACATGAGTGAAATTCCAAAGGAATCTTCGATTATTTTGAACAAACAAAAAAGCGCAAC
CCAGCACGATAGGGCACTATTCCCAAATCGCCAAACATCGAACATTTCCTTCGTTTCAAAGAGTT
T
Found at i:2136804 original size:2 final size:2
Alignment explanation
Indices: 2136797--2136825 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2136787 AGAAATCTTA
2136797 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
2136826 GAAGAGATCA
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:2140420 original size:21 final size:21
Alignment explanation
Indices: 2140395--2140434 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2140385 AATTTATAAA
*
2140395 AGATTGTTCAAAA-AAATTTCG
1 AGATT-TTAAAAATAAATTTCG
2140416 AGATTTTAAAAATAAATTT
1 AGATTTTAAAAATAAATTT
2140435 TATTTCATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.38
Consensus pattern (21 bp):
AGATTTTAAAAATAAATTTCG
Found at i:2140700 original size:18 final size:18
Alignment explanation
Indices: 2140677--2140711 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2140667 CAGCGCAACC
*
2140677 AACTTTTTTTTATATTAA
1 AACTTTTTTTTAAATTAA
2140695 AACTTTTTTTTAAATTA
1 AACTTTTTTTTAAATTA
2140712 TTATTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (18 bp):
AACTTTTTTTTAAATTAA
Found at i:2140793 original size:13 final size:13
Alignment explanation
Indices: 2140775--2140799 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2140765 CCGTGTAGAG
2140775 ATACAAAAATGGT
1 ATACAAAAATGGT
2140788 ATACAAAAATGG
1 ATACAAAAATGG
2140800 CAATTTATAA
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:0.56, C:0.08, G:0.16, T:0.20
Consensus pattern (13 bp):
ATACAAAAATGGT
Found at i:2140923 original size:34 final size:33
Alignment explanation
Indices: 2140885--2140983 Score: 88
Period size: 34 Copynumber: 3.2 Consensus size: 33
2140875 TGAACACAAC
*
2140885 AATTTATAACATTATCCTAAATTACTAATAAATT
1 AATTTATAACA-TATCCTAAATTACTAACAAATT
* *
2140919 AATTT-TAA-A-A---T-AATTACAAACACAA-C
1 AATTTATAACATATCCTAAATTACTAACA-AATT
2140945 AATTTATAACATAATCCTAAATTACTAACAAATT
1 AATTTATAACAT-ATCCTAAATTACTAACAAATT
2140979 AATTT
1 AATTT
2140984 TAAAATAATT
Statistics
Matches: 50, Mismatches: 5, Indels: 20
0.67 0.07 0.27
Matches are distributed among these distances:
26 14 0.28
27 6 0.12
28 1 0.02
30 2 0.04
32 1 0.02
33 6 0.12
34 20 0.40
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (33 bp):
AATTTATAACATATCCTAAATTACTAACAAATT
Found at i:2140944 original size:60 final size:60
Alignment explanation
Indices: 2140877--2140994 Score: 218
Period size: 60 Copynumber: 2.0 Consensus size: 60
2140867 TACTAAACTG
* *
2140877 AACACAACAATTTATAACATTATCCTAAATTACTAATAAATTAATTTTAAAATAATTACA
1 AACACAACAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTACA
2140937 AACACAACAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
1 AACACAACAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
2140995 TAAAAAAATT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.34
Consensus pattern (60 bp):
AACACAACAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTACA
Found at i:2142688 original size:45 final size:46
Alignment explanation
Indices: 2142634--2142744 Score: 197
Period size: 46 Copynumber: 2.4 Consensus size: 46
2142624 ATCACTTGTC
*
2142634 CTTGATCAGATAAGTGTAGCT-AGGCTACCACTTATCACTTTACCA
1 CTTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCACTTTACCA
*
2142679 CTTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCACTTTATCA
1 CTTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCACTTTACCA
2142725 CTTGATCAGATAAGTGTAGC
1 CTTGATCAGATAAGTGTAGC
2142745 CACTTATCAC
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
45 21 0.33
46 42 0.67
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.32
Consensus pattern (46 bp):
CTTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCACTTTACCA
Found at i:2142727 original size:46 final size:45
Alignment explanation
Indices: 2142621--2142854 Score: 243
Period size: 37 Copynumber: 5.6 Consensus size: 45
2142611 CATATGACCT
*
2142621 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
2142664 CTTATCACTTTACCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
*
2142710 CTTATCACTTTATCACTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
2142747 CTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
** *
2142784 CTTATCACTTTGTTTCTTGATCAGATAAGTGTAGCTAAAACTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
2142830 CTTATCACTTTGTCACTTGATCAGA
1 CTTATCACTTTGTCACTTGATCAGA
2142855 AGTACTCAAA
Statistics
Matches: 169, Mismatches: 9, Indels: 23
0.84 0.04 0.11
Matches are distributed among these distances:
37 64 0.38
39 2 0.01
40 3 0.02
41 1 0.01
42 1 0.01
43 10 0.06
44 5 0.03
45 21 0.12
46 62 0.37
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (45 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
Found at i:2146546 original size:20 final size:20
Alignment explanation
Indices: 2146521--2146561 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
2146511 GTTACGTGAT
2146521 TTATTTTTAAATTATAAATA
1 TTATTTTTAAATTATAAATA
2146541 TTATTTTTAAATTATAAATA
1 TTATTTTTAAATTATAAATA
2146561 T
1 T
2146562 GTTTTAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TTATTTTTAAATTATAAATA
Found at i:2146568 original size:18 final size:20
Alignment explanation
Indices: 2146525--2146570 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
2146515 CGTGATTTAT
*
2146525 TTTTAAATTATAAATATTAT
1 TTTTAAATTATAAATATTAG
2146545 TTTTAAATTATAAATA-T-G
1 TTTTAAATTATAAATATTAG
2146563 TTTTAAAT
1 TTTTAAAT
2146571 AGTGATTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 8 0.32
19 1 0.04
20 16 0.64
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
TTTTAAATTATAAATATTAG
Found at i:2153312 original size:112 final size:112
Alignment explanation
Indices: 2153110--2153339 Score: 442
Period size: 112 Copynumber: 2.0 Consensus size: 112
2153100 AAGTGCCATG
*
2153110 GAGGCCCTTCTATTATGAGCCAGATTATATTTTACCCCTCTATTGAAAAAAGTAGAAATGGATGA
1 GAGG-CCTTCTATTATGAGCCAGATTATATTTTACCCCTCTACTGAAAAAAGTAGAAATGGATGA
2153175 AAATTTTAATTGAAAGAATCAGGATTAATTTGCTCAATTTTGAGTAAA
65 AAATTTTAATTGAAAGAATCAGGATTAATTTGCTCAATTTTGAGTAAA
2153223 GAGGCCTTCTATTATGAGCCAGATTATATTTTACCCCTCTACTGAAAAAAGTAGAAATGGATGAA
1 GAGGCCTTCTATTATGAGCCAGATTATATTTTACCCCTCTACTGAAAAAAGTAGAAATGGATGAA
2153288 AATTTTAATTGAAAGAATCAGGATTAATTTGCTCAATTTTGAGTAAA
66 AATTTTAATTGAAAGAATCAGGATTAATTTGCTCAATTTTGAGTAAA
2153335 GAGGC
1 GAGGC
2153340 AAAATACAAT
Statistics
Matches: 116, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
112 112 0.97
113 4 0.03
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.33
Consensus pattern (112 bp):
GAGGCCTTCTATTATGAGCCAGATTATATTTTACCCCTCTACTGAAAAAAGTAGAAATGGATGAA
AATTTTAATTGAAAGAATCAGGATTAATTTGCTCAATTTTGAGTAAA
Found at i:2155126 original size:14 final size:14
Alignment explanation
Indices: 2155107--2155134 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2155097 TTCAATTTGG
2155107 TACCTATATTTTTT
1 TACCTATATTTTTT
2155121 TACCTATATTTTTT
1 TACCTATATTTTTT
2155135 CTTTGTCTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.14, G:0.00, T:0.64
Consensus pattern (14 bp):
TACCTATATTTTTT
Found at i:2156898 original size:31 final size:30
Alignment explanation
Indices: 2156861--2156940 Score: 76
Period size: 31 Copynumber: 2.7 Consensus size: 30
2156851 GTCTAAAATT
*
2156861 TTTTTTTTTTAACTTTTAA-AGGCCAAGAAGA
1 TTTTTTTTTTAACTTTTAAGAGACCAA-AA-A
** *
2156892 TTTTTTTACTAAC--TTAAGAGACCTAAAA
1 TTTTTTTTTTAACTTTTAAGAGACCAAAAA
2156920 TTTTTTTTTTCAACTTTTAAG
1 TTTTTTTTTT-AACTTTTAAG
2156941 GAATCTAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
28 9 0.23
29 9 0.23
30 5 0.13
31 16 0.41
ACGTcount: A:0.31, C:0.11, G:0.09, T:0.49
Consensus pattern (30 bp):
TTTTTTTTTTAACTTTTAAGAGACCAAAAA
Found at i:2157611 original size:16 final size:16
Alignment explanation
Indices: 2157592--2157626 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
2157582 ATAATAAAAC
2157592 TGTAATGAAATAGAGT
1 TGTAATGAAATAGAGT
*
2157608 TGTAATGTAATAGAGT
1 TGTAATGAAATAGAGT
2157624 TGT
1 TGT
2157627 GATCAGTAAT
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:0.37, C:0.00, G:0.26, T:0.37
Consensus pattern (16 bp):
TGTAATGAAATAGAGT
Found at i:2158865 original size:24 final size:26
Alignment explanation
Indices: 2158818--2158866 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 26
2158808 ATATTAAAAG
*
2158818 ATATATATATATAAAATGTATACATA
1 ATATATATATATAAAATATATACATA
*
2158844 ATATA-ATAT-TAAAATATTTACAT
1 ATATATATATATAAAATATATACAT
2158867 GGCATATACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 12 0.57
25 4 0.19
26 5 0.24
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (26 bp):
ATATATATATATAAAATATATACATA
Found at i:2159417 original size:39 final size:39
Alignment explanation
Indices: 2159374--2159524 Score: 169
Period size: 39 Copynumber: 3.9 Consensus size: 39
2159364 GATTCCACTC
* *
2159374 CCCCCATGCTACTTTGTTTTATTATTAATCAAAAAC-ACT
1 CCCCCATACTATTTTGTTTTATTATTAAT-AAAAACTACT
* * * *
2159413 CCCCCATGCTATTTTGTTTTATTGTTAATTAAAACTATT
1 CCCCCATACTATTTTGTTTTATTATTAATAAAAACTACT
* * *
2159452 TCCCCATACTATTTTGTTTTATTGTTAATTAAAACTACT
1 CCCCCATACTATTTTGTTTTATTATTAATAAAAACTACT
* * * *
2159491 TCCTCATATTATTTTGTTTTATTATTAATTAAAA
1 CCCCCATACTATTTTGTTTTATTATTAATAAAAA
2159525 TCATACTTTA
Statistics
Matches: 101, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
38 5 0.05
39 96 0.95
ACGTcount: A:0.29, C:0.18, G:0.05, T:0.48
Consensus pattern (39 bp):
CCCCCATACTATTTTGTTTTATTATTAATAAAAACTACT
Found at i:2159474 original size:78 final size:78
Alignment explanation
Indices: 2159375--2159524 Score: 203
Period size: 78 Copynumber: 1.9 Consensus size: 78
2159365 ATTCCACTCC
* * *
2159375 CCCCATGCTACTTTGTTTTATTATTAATCAAAAAC-ACTCCCCCATGCTATTTTGTTTTATTGTT
1 CCCCATACTACTTTGTTTTATTATTAAT-AAAAACTACTCCCCCATACTATTTTGTTTTATTATT
2159439 AATTAAAACTATTT
65 AATTAAAACTATTT
* * * * * *
2159453 CCCCATACTATTTTGTTTTATTGTTAATTAAAACTACTTCCTCATATTATTTTGTTTTATTATTA
1 CCCCATACTACTTTGTTTTATTATTAATAAAAACTACTCCCCCATACTATTTTGTTTTATTATTA
2159518 ATTAAAA
66 ATTAAAA
2159525 TCATACTTTA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
77 5 0.08
78 57 0.92
ACGTcount: A:0.29, C:0.17, G:0.05, T:0.48
Consensus pattern (78 bp):
CCCCATACTACTTTGTTTTATTATTAATAAAAACTACTCCCCCATACTATTTTGTTTTATTATTA
ATTAAAACTATTT
Found at i:2167459 original size:38 final size:38
Alignment explanation
Indices: 2167408--2167497 Score: 153
Period size: 38 Copynumber: 2.4 Consensus size: 38
2167398 AAAAAAAAAA
2167408 ACCTTGGCCACCTACTCCACCACCCTTGTTGGCCACCC
1 ACCTTGGCCACCTACTCCACCACCCTTGTTGGCCACCC
* * *
2167446 ACCTTGGCCACCTACTCCACCGCGCTTGTTGGCCACTC
1 ACCTTGGCCACCTACTCCACCACCCTTGTTGGCCACCC
2167484 ACCTTGGCCACCTA
1 ACCTTGGCCACCTA
2167498 AATCACCCCA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 49 1.00
ACGTcount: A:0.16, C:0.47, G:0.16, T:0.22
Consensus pattern (38 bp):
ACCTTGGCCACCTACTCCACCACCCTTGTTGGCCACCC
Found at i:2167622 original size:25 final size:25
Alignment explanation
Indices: 2167582--2167692 Score: 121
Period size: 25 Copynumber: 4.7 Consensus size: 25
2167572 TGTTTTTTAG
2167582 GGGTTGTTTTTTGTTTTTTGGAAGA
1 GGGTTGTTTTTTGTTTTTTGGAAGA
2167607 GGTGTT-TTTTTTGTTTTTTGG-AG-
1 GG-GTTGTTTTTTGTTTTTTGGAAGA
* *
2167630 GAG--G---TTTGTTTTTTGGAGGA
1 GGGTTGTTTTTTGTTTTTTGGAAGA
*
2167650 GGGTTGTTTTTTGTTTTTTGGAATA
1 GGGTTGTTTTTTGTTTTTTGGAAGA
2167675 GGGGTTGTTTTTTGTTTT
1 -GGGTTGTTTTTTGTTTT
2167693 GGAAAGGCTA
Statistics
Matches: 71, Mismatches: 5, Indels: 19
0.75 0.05 0.20
Matches are distributed among these distances:
18 12 0.17
19 1 0.01
20 2 0.03
22 2 0.03
23 1 0.01
24 2 0.03
25 31 0.44
26 20 0.28
ACGTcount: A:0.09, C:0.00, G:0.32, T:0.59
Consensus pattern (25 bp):
GGGTTGTTTTTTGTTTTTTGGAAGA
Found at i:2167637 original size:18 final size:18
Alignment explanation
Indices: 2167616--2167662 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
2167606 AGGTGTTTTT
2167616 TTTGTTTTTTGGAGGAGG
1 TTTGTTTTTTGGAGGAGG
2167634 TTTGTTTTTTGGAGGAGG
1 TTTGTTTTTTGGAGGAGG
*
2167652 GTTGTTTTTTG
1 TTTGTTTTTTG
2167663 TTTTTTGGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.09, C:0.00, G:0.36, T:0.55
Consensus pattern (18 bp):
TTTGTTTTTTGGAGGAGG
Found at i:2167667 original size:26 final size:26
Alignment explanation
Indices: 2167634--2167692 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
2167624 TTGGAGGAGG
*
2167634 TTTGTTTTTTGGAGGA-GGGTTGTTT
1 TTTGTTTTTTGGAAGAGGGGTTGTTT
*
2167659 TTTGTTTTTTGGAATAGGGGTTGTTT
1 TTTGTTTTTTGGAAGAGGGGTTGTTT
2167685 TTTGTTTT
1 TTTGTTTT
2167693 GGAAAGGCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 14 0.45
26 17 0.55
ACGTcount: A:0.08, C:0.00, G:0.31, T:0.61
Consensus pattern (26 bp):
TTTGTTTTTTGGAAGAGGGGTTGTTT
Found at i:2167686 original size:43 final size:43
Alignment explanation
Indices: 2167592--2167688 Score: 133
Period size: 43 Copynumber: 2.2 Consensus size: 43
2167582 GGGTTGTTTT
* *
2167592 TTGTTTTTTGGAAGAGGTGTTTTTTTTGTTTTTTGGAGGAGGT
1 TTGTTTTTTGGAAGAGGTGTTTTTTTTGTTTTTTGGAAGAGGG
* *
2167635 TTGTTTTTTGGAGGAGG-GTTGTTTTTTGTTTTTTGGAATAGGGG
1 TTGTTTTTTGGAAGAGGTGTT-TTTTTTGTTTTTTGGAAGA-GGG
2167679 TTGTTTTTTG
1 TTGTTTTTTG
2167689 TTTTGGAAAG
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
42 3 0.06
43 33 0.69
44 12 0.25
ACGTcount: A:0.10, C:0.00, G:0.33, T:0.57
Consensus pattern (43 bp):
TTGTTTTTTGGAAGAGGTGTTTTTTTTGTTTTTTGGAAGAGGG
Found at i:2168024 original size:3 final size:3
Alignment explanation
Indices: 2168013--2168092 Score: 53
Period size: 3 Copynumber: 26.3 Consensus size: 3
2168003 TTTATTTTTT
* *
2168013 TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
2168056 TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA -TA TTA T
1 T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA T
2168093 ATATGCCTTC
Statistics
Matches: 62, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
2 7 0.11
3 46 0.74
4 7 0.11
5 2 0.03
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:2168070 original size:21 final size:18
Alignment explanation
Indices: 2168017--2168092 Score: 82
Period size: 18 Copynumber: 4.1 Consensus size: 18
2168007 TTTTTTTTAT
* *
2168017 TTTATTATTTTTACTATTA
1 TTTA-TATTATTATTATTA
2168036 TTTATATTATTATTATTA
1 TTTATATTATTATTATTA
*
2168054 TTTCTCATGTATATATTATTA
1 TTTAT-AT-TAT-TATTATTA
2168075 TTTATATTATTA-TATTA
1 TTTATATTATTATTATTA
2168092 T
1 T
2168093 ATATGCCTTC
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
17 6 0.12
18 18 0.36
19 9 0.18
20 5 0.10
21 12 0.24
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.64
Consensus pattern (18 bp):
TTTATATTATTATTATTA
Found at i:2168093 original size:27 final size:26
Alignment explanation
Indices: 2168004--2168096 Score: 82
Period size: 26 Copynumber: 3.6 Consensus size: 26
2167994 GAGCTTTGTT
* * * *
2168004 TTATTTTTTTTATTTTATTATTTTTA
1 TTATTATTTATATATTATTATTTATA
*
2168030 CTATTATTTATATTATTATTA-TTAT-
1 TTATTATTTATA-TATTATTATTTATA
* * *
2168055 TTCTCATGTATATATTATTATTTATA
1 TTATTATTTATATATTATTATTTATA
2168081 TTATTATATTATATAT
1 TTATTAT-TTATATAT
2168097 GCCTTCTCCA
Statistics
Matches: 51, Mismatches: 12, Indels: 7
0.73 0.17 0.10
Matches are distributed among these distances:
24 8 0.16
25 12 0.24
26 17 0.33
27 14 0.27
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (26 bp):
TTATTATTTATATATTATTATTTATA
Found at i:2168412 original size:3 final size:3
Alignment explanation
Indices: 2168404--2168442 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
2168394 TGTATTTCTA
* *
2168404 TAT TAT TAT TAT TAT TAT TGT TAT TAT TAT TAT TTT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2168443 CATTGTTTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:2179876 original size:132 final size:132
Alignment explanation
Indices: 2179634--2179877 Score: 330
Period size: 132 Copynumber: 1.8 Consensus size: 132
2179624 ATTGTCTCGC
* * * * **
2179634 TTTAAAAAACGTGAATGAAATTCCAAAGGGATATTCGATTATTTTGCAGAAACGAAAAATTGTAA
1 TTTAAAAAACATGAATGAAATTCCAAAGAGACATCCGATTATTTTGCAGAAACGAAAAATTACAA
* * * *
2179699 CCCAGCACGATAGGGCACGATTTCCCGAATTGCCGAACGTCGAACATTTCCTTCGTTTTAAAAGG
66 CCCAACACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTTCCTTCGTTTTAAAAGG
2179764 TT
131 TT
* * *
2179766 TTTAGAAAACATGAATGAAATTCTAAAGAGACATCCGATTATTTTG-GGCAAAC-AAGAAATTAC
1 TTTAAAAAACATGAATGAAATTCCAAAGAGACATCCGATTATTTTGCAG-AAACGAA-AAATTAC
*
2179829 AACCCAACACGATAGGGCACGATTCCCCGAATTGCTAAACATCGAACAT
64 AACCCAACACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACAT
2179878 CGTCTCCGTT
Statistics
Matches: 96, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
131 3 0.03
132 93 0.97
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (132 bp):
TTTAAAAAACATGAATGAAATTCCAAAGAGACATCCGATTATTTTGCAGAAACGAAAAATTACAA
CCCAACACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTTCCTTCGTTTTAAAAGG
TT
Found at i:2180507 original size:38 final size:38
Alignment explanation
Indices: 2180464--2180590 Score: 158
Period size: 38 Copynumber: 3.4 Consensus size: 38
2180454 ATAATGATAG
2180464 TAATAATATAAATAAATATGGAGAGGGCATATGTAATA
1 TAATAATATAAATAAATATGGAGAGGGCATATGTAATA
* *
2180502 TAATAATATAAATAATAATAT--ATA---CATGA-GAAATAA
1 TAATAATATAAAT-A-AATATGGAGAGGGCAT-ATGTAAT-A
2180538 TAATAATATAAATAAATATGGAGAGGGCATATGTAATA
1 TAATAATATAAATAAATATGGAGAGGGCATATGTAATA
2180576 TAATAATATAAATAA
1 TAATAATATAAATAA
2180591 TAATATATAC
Statistics
Matches: 75, Mismatches: 4, Indels: 20
0.76 0.04 0.20
Matches are distributed among these distances:
34 5 0.07
35 8 0.11
36 17 0.23
38 32 0.43
39 8 0.11
40 5 0.07
ACGTcount: A:0.55, C:0.02, G:0.13, T:0.30
Consensus pattern (38 bp):
TAATAATATAAATAAATATGGAGAGGGCATATGTAATA
Found at i:2180543 original size:74 final size:74
Alignment explanation
Indices: 2180464--2180626 Score: 326
Period size: 74 Copynumber: 2.2 Consensus size: 74
2180454 ATAATGATAG
2180464 TAATAATATAAATAAATATGGAGAGGGCATATGTAATATAATAATATAAATAATAATATATACAT
1 TAATAATATAAATAAATATGGAGAGGGCATATGTAATATAATAATATAAATAATAATATATACAT
2180529 GAGAAATAA
66 GAGAAATAA
2180538 TAATAATATAAATAAATATGGAGAGGGCATATGTAATATAATAATATAAATAATAATATATACAT
1 TAATAATATAAATAAATATGGAGAGGGCATATGTAATATAATAATATAAATAATAATATATACAT
2180603 GAGAAATAA
66 GAGAAATAA
2180612 TAATAATATAAATAA
1 TAATAATATAAATAA
2180627 TAGTAAAAAT
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 89 1.00
ACGTcount: A:0.56, C:0.02, G:0.11, T:0.30
Consensus pattern (74 bp):
TAATAATATAAATAAATATGGAGAGGGCATATGTAATATAATAATATAAATAATAATATATACAT
GAGAAATAA
Found at i:2180548 original size:36 final size:36
Alignment explanation
Indices: 2180501--2180628 Score: 156
Period size: 36 Copynumber: 3.5 Consensus size: 36
2180491 CATATGTAAT
2180501 ATAATAATATAAATAATAATATATACATGAGAAATA
1 ATAATAATATAAATAATAATATATACATGAGAAATA
* *
2180537 ATAATAATATAAAT-A-AATATGGAGAGGGCAT-ATGTAAT-
1 ATAATAATATAAATAATAATAT--ATA---CATGA-GAAATA
2180575 ATAATAATATAAATAATAATATATACATGAGAAATA
1 ATAATAATATAAATAATAATATATACATGAGAAATA
2180611 ATAATAATATAAATAATA
1 ATAATAATATAAATAATA
2180629 GTAAAAATAA
Statistics
Matches: 78, Mismatches: 4, Indels: 20
0.76 0.04 0.20
Matches are distributed among these distances:
34 5 0.06
35 8 0.10
36 35 0.45
38 17 0.22
39 8 0.10
40 5 0.06
ACGTcount: A:0.59, C:0.02, G:0.09, T:0.30
Consensus pattern (36 bp):
ATAATAATATAAATAATAATATATACATGAGAAATA
Found at i:2180592 original size:12 final size:12
Alignment explanation
Indices: 2180575--2180647 Score: 69
Period size: 12 Copynumber: 6.1 Consensus size: 12
2180565 CATATGTAAT
2180575 ATAATAATATAA
1 ATAATAATATAA
2180587 ATAATAATATATA
1 ATAATAATATA-A
* *
2180600 CATGAGAA-AT-A
1 -ATAATAATATAA
2180611 ATAATAATATAA
1 ATAATAATATAA
* *
2180623 ATAATAGTAAAA
1 ATAATAATATAA
*
2180635 ATAATAAAATAA
1 ATAATAATATAA
2180647 A
1 A
2180648 ACAAATATCT
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
10 5 0.10
11 3 0.06
12 32 0.67
13 3 0.06
14 5 0.10
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (12 bp):
ATAATAATATAA
Found at i:2180614 original size:33 final size:33
Alignment explanation
Indices: 2180501--2180616 Score: 110
Period size: 33 Copynumber: 3.3 Consensus size: 33
2180491 CATATGTAAT
2180501 ATAATAATATAAATAATAATATATACATGAGAA
1 ATAATAATATAAATAATAATATATACATGAGAA
* *
2180534 ATAATAATA-ATATAAATAAATATGGAGAGGGCAT-ATGTAA
1 ATAATAATATAAAT-AAT-AATAT--ATA---CATGA-G-AA
2180574 TATAATAATATAAATAATAATATATACATGAGAA
1 -ATAATAATATAAATAATAATATATACATGAGAA
2180608 ATAATAATA
1 ATAATAATA
2180617 ATATAAATAA
Statistics
Matches: 67, Mismatches: 4, Indels: 24
0.71 0.04 0.25
Matches are distributed among these distances:
32 3 0.04
33 21 0.31
34 7 0.10
35 4 0.06
36 3 0.04
38 3 0.04
39 4 0.06
40 7 0.10
41 12 0.18
42 3 0.04
ACGTcount: A:0.58, C:0.03, G:0.09, T:0.30
Consensus pattern (33 bp):
ATAATAATATAAATAATAATATATACATGAGAA
Found at i:2180980 original size:15 final size:16
Alignment explanation
Indices: 2180939--2180971 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
2180929 CTTTGATTAA
2180939 TCTCCAAAAACTAGCC
1 TCTCCAAAAACTAGCC
2180955 TCTCCAAAAACTAGCC
1 TCTCCAAAAACTAGCC
2180971 T
1 T
2180972 TTCTAAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.36, G:0.06, T:0.21
Consensus pattern (16 bp):
TCTCCAAAAACTAGCC
Found at i:2181019 original size:25 final size:26
Alignment explanation
Indices: 2180976--2181034 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 26
2180966 TAGCCTTTCT
* *
2180976 AAAACAAAAGACAACCCCTATTCCAA
1 AAAACAAAAAACAACCCCTACTCCAA
* *
2181002 AAAACAAAAAACCA-CCCTCCTCCAA
1 AAAACAAAAAACAACCCCTACTCCAA
2181027 AAAACAAA
1 AAAACAAA
2181035 CCTCCTCCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 17 0.59
26 12 0.41
ACGTcount: A:0.58, C:0.32, G:0.02, T:0.08
Consensus pattern (26 bp):
AAAACAAAAAACAACCCCTACTCCAA
Found at i:2181029 original size:18 final size:18
Alignment explanation
Indices: 2181006--2181048 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
2180996 TTCCAAAAAA
* *
2181006 CAAAAAACCACCCTCCTC
1 CAAAAAACAAACCTCCTC
2181024 CAAAAAACAAACCTCCTC
1 CAAAAAACAAACCTCCTC
2181042 CAAAAAA
1 CAAAAAA
2181049 AAAAAAACAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.51, C:0.40, G:0.00, T:0.09
Consensus pattern (18 bp):
CAAAAAACAAACCTCCTC
Found at i:2181189 original size:38 final size:38
Alignment explanation
Indices: 2181147--2181236 Score: 162
Period size: 38 Copynumber: 2.4 Consensus size: 38
2181137 TGGGGTGGTT
2181147 TAGGTGGCCAAGGTGGGTGGCCAACAAAGGTGGTGGAG
1 TAGGTGGCCAAGGTGGGTGGCCAACAAAGGTGGTGGAG
*
2181185 TAGGTGGCCAAGGTGGGTGGCCAACAAGGGTGGTGGAG
1 TAGGTGGCCAAGGTGGGTGGCCAACAAAGGTGGTGGAG
*
2181223 AAGGTGGCCAAGGT
1 TAGGTGGCCAAGGT
2181237 TTTTATTTAT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 50 1.00
ACGTcount: A:0.23, C:0.13, G:0.48, T:0.16
Consensus pattern (38 bp):
TAGGTGGCCAAGGTGGGTGGCCAACAAAGGTGGTGGAG
Found at i:2181641 original size:44 final size:44
Alignment explanation
Indices: 2181576--2182323 Score: 1007
Period size: 44 Copynumber: 17.2 Consensus size: 44
2181566 AGAAACATTG
* * * * *
2181576 ATCTGTTATTTTCGATTTGCTCTCTGCCGCCACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
* * * *
2181620 ATCTGTTATCTTCGATCTGCTCTCTGCCGTTACGGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
* * *
2181664 ATCTGTTATCTTCGATCTGTTCTCTGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
* * * *
2181708 ATCTGTTATCCTCGATCTGCTCTCTGTCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
*
2181752 ATCTGTTATCTTCGATCTGCTTTCCGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
* * **
2181796 ATC----ATCTTCAATCTGCTCTCCGCCGCTACAGAGACGCTGA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
* *
2181836 ATCTTGTTACCTTCGATCTGCTCTCCGCCGCTATAGAGATGCCAA
1 ATC-TGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
* * * *
2181881 ATTTGTTATCTTCGATCTCCTCTCCGCCGTTACAGAGATACCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
*
2181925 ATCTGTTATCTTTGATCTGCTCTCCGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
* *
2181969 ATCTGTTATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
2182013 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
* * * * * *
2182057 ATTTGTTATCTTTGATCTGCTCTCCGCTGCTATATAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
*
2182101 ATCTATTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
* * * * *
2182145 ATCTGTTATCTTCGATCTGCTATCTGCCGCTATAGAGACGTCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
* *
2182189 ATCTGTTATCTTCGATCTACTCTCTGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
2182233 ATC----ATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
2182273 ATC----ATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
2182313 ATCTGTTATCT
1 ATCTGTTATCT
2182324 GTTTCAAGGA
Statistics
Matches: 626, Mismatches: 69, Indels: 18
0.88 0.10 0.03
Matches are distributed among these distances:
40 113 0.18
44 480 0.77
45 33 0.05
ACGTcount: A:0.21, C:0.30, G:0.17, T:0.31
Consensus pattern (44 bp):
ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
Found at i:2190406 original size:19 final size:20
Alignment explanation
Indices: 2190367--2190408 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 20
2190357 TTATGGCCTT
2190367 TAATGCATAATGATATGATG
1 TAATGCATAATGATATGATG
2190387 TAATGCA-AATG-TATGAATG
1 TAATGCATAATGATATG-ATG
2190406 TAA
1 TAA
2190409 AGGAGGCATC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 4 0.19
19 10 0.48
20 7 0.33
ACGTcount: A:0.43, C:0.05, G:0.19, T:0.33
Consensus pattern (20 bp):
TAATGCATAATGATATGATG
Found at i:2193364 original size:20 final size:20
Alignment explanation
Indices: 2193327--2193373 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
2193317 ATCGGATCAC
*
2193327 ATAAAA-ATTTAGTTATTTTA
1 ATAAAACATTTAGTGA-TTTA
2193347 ATAAAACATTTA-TGATTTA
1 ATAAAACATTTAGTGATTTA
*
2193366 CTAAAACA
1 ATAAAACA
2193374 ACAATTTTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 11 0.46
20 8 0.33
21 5 0.21
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.40
Consensus pattern (20 bp):
ATAAAACATTTAGTGATTTA
Found at i:2194020 original size:132 final size:132
Alignment explanation
Indices: 2193783--2194020 Score: 323
Period size: 132 Copynumber: 1.8 Consensus size: 132
2193773 TCTCGCTTTG
* * * * * * *
2193783 GAAAACGTGAATGAAATTCCAAAGGGATATTCGATTATTTTACACAAACGAGAAATTGCAACCCA
1 GAAAACATGAACGAAATTCCAAAGAGACATCCGATTATTTTACACAAACAAGAAATTACAACCCA
* * *
2193848 GCACGATAGGGCACGATTCCCCGAATTGCCGAACGTCGAACATTTCCTTTGTTTTAAAAGGTTTT
66 ACACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTTCCTTTGTTTTAAAAGGTTTT
2193913 TA
131 TA
* ***
2193915 GAAAACATGAACGAAATTCTAAAGAGACATCCGATTATTTTGGGCAAACAAGAAATTACAACCCA
1 GAAAACATGAACGAAATTCCAAAGAGACATCCGATTATTTTACACAAACAAGAAATTACAACCCA
* * *
2193980 ACATGATAGGGCACGATTCCCCGAATTGCTAAATATCGAAC
66 ACACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAAC
2194021 CTCGTCTCCG
Statistics
Matches: 89, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
132 89 1.00
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.24
Consensus pattern (132 bp):
GAAAACATGAACGAAATTCCAAAGAGACATCCGATTATTTTACACAAACAAGAAATTACAACCCA
ACACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTTCCTTTGTTTTAAAAGGTTTT
TA
Found at i:2194341 original size:5 final size:6
Alignment explanation
Indices: 2194324--2194356 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
2194314 ACACAAACAT
*
2194324 ATAAAA ATAAAA ATAAAA ATAAAA ATAATA ATA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATA
2194357 TAGAAATACA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (6 bp):
ATAAAA
Found at i:2194356 original size:24 final size:25
Alignment explanation
Indices: 2194324--2194410 Score: 65
Period size: 24 Copynumber: 3.5 Consensus size: 25
2194314 ACACAAACAT
*
2194324 ATAAAAATAAAAATA-AAAATAAAA
1 ATAATAATAAAAATACAAAATAAAA
*
2194348 ATAATAATATAGAAATACAAAA-AGCAA
1 ATAATAATA-A-AAATACAAAATA-AAA
** *
2194375 AT-ATAATAAAAATATTAAATTAAA
1 ATAATAATAAAAATACAAAATAAAA
*
2194399 GTAATAA-AAAAA
1 ATAATAATAAAAA
2194411 CAATACTATA
Statistics
Matches: 50, Mismatches: 7, Indels: 12
0.72 0.10 0.17
Matches are distributed among these distances:
24 24 0.48
25 6 0.12
26 12 0.24
27 8 0.16
ACGTcount: A:0.72, C:0.02, G:0.03, T:0.22
Consensus pattern (25 bp):
ATAATAATAAAAATACAAAATAAAA
Found at i:2194698 original size:12 final size:12
Alignment explanation
Indices: 2194674--2194717 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
2194664 GAGAGGGCAT
2194674 ATATAATATAATA
1 ATATAA-ATAATA
2194687 ATATAAATAATA
1 ATATAAATAATA
* *
2194699 GTAAAAATAATA
1 ATATAAATAATA
*
2194711 AAATAAA
1 ATATAAA
2194718 AAAATAAAAC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
12 20 0.77
13 6 0.23
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (12 bp):
ATATAAATAATA
Found at i:2195056 original size:18 final size:18
Alignment explanation
Indices: 2195033--2195079 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
2195023 CTTTCCAAAA
*
2195033 CAAAAAACAACCCTCCTC
1 CAAAAAACAAACCTCCTC
2195051 CAAAAAACAAACCTCCTC
1 CAAAAAACAAACCTCCTC
2195069 CAAAAAACAAA
1 CAAAAAACAAA
2195080 AAAAAACCCC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.55, C:0.36, G:0.00, T:0.09
Consensus pattern (18 bp):
CAAAAAACAAACCTCCTC
Found at i:2195086 original size:24 final size:24
Alignment explanation
Indices: 2195051--2195102 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
2195041 AACCCTCCTC
2195051 CAAAAAACAAACCTCCTCCA-AAAAA
1 CAAAAAACAAACC-CC-CCACAAAAA
2195076 CAAAAAA-AAACCCCCCACAAAAA
1 CAAAAAACAAACCCCCCACAAAAA
2195099 CAAA
1 CAAA
2195103 GTCTTGAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
22 3 0.12
23 11 0.42
24 5 0.19
25 7 0.27
ACGTcount: A:0.63, C:0.33, G:0.00, T:0.04
Consensus pattern (24 bp):
CAAAAAACAAACCCCCCACAAAAA
Found at i:2195219 original size:38 final size:38
Alignment explanation
Indices: 2195176--2195265 Score: 153
Period size: 38 Copynumber: 2.4 Consensus size: 38
2195166 TGCGGTGGTT
*
2195176 TAGGTGGCTAAGGTGGATGGCCAACAAGGGTGGTGAAG
1 TAGGTGGCCAAGGTGGATGGCCAACAAGGGTGGTGAAG
* *
2195214 TAGGTGGCCAAGGTGGGTGGCCAACAAGGGTGGTGGAG
1 TAGGTGGCCAAGGTGGATGGCCAACAAGGGTGGTGAAG
2195252 TAGGTGGCCAAGGT
1 TAGGTGGCCAAGGT
2195266 TTATTTATTT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 49 1.00
ACGTcount: A:0.23, C:0.12, G:0.47, T:0.18
Consensus pattern (38 bp):
TAGGTGGCCAAGGTGGATGGCCAACAAGGGTGGTGAAG
Found at i:2197084 original size:44 final size:44
Alignment explanation
Indices: 2196930--2197895 Score: 1457
Period size: 44 Copynumber: 22.2 Consensus size: 44
2196920 TCCTTGAAAC
**
2196930 AGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAATAGATCGA
1 AGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGA
*
2196974 AGAT----GATTTGGCATCTCTATAGCGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGA
* * *
2197014 AGAT----GATTTGGCATCTCTGTAACGGCGAAGAGCAGATCAA
1 AGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGA
*
2197054 AGATAATAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGA
* *
2197098 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAACAGATCGA
1 AGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGA
* * *
2197142 AGATAACAGATTTGACATCTCTGTAGCGACGGAGAGTAGATCGA
1 AGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGA
* * *
2197186 AGGTAACAATATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
1 AGATAAC-AGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGA
*
2197231 AGAT----GATTTGGCATCTCTGTAGCGGTGGAGAGCAGATCGA
1 AGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGA
* *
2197271 AGATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATC-A
1 AGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGA
* *
2197314 AGGATAACAAATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
1 A-GATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGA
*
2197359 AGATAACAGATTTAGCATCTCTGTAGCGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGA
*
2197403 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGA
2197447 AGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGA
2197491 AGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGA
*
2197535 A-AGTAACAAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
1 AGA-TAAC-AGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGA
2197580 AGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGA
*
2197624 A-AGTAACAAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
1 AGA-TAAC-AGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGA
2197669 AGAT----GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGA
* *
2197709 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAACAGATCGA
1 AGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGA
*
2197753 AGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAAATCGA
1 AGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGA
*
2197797 AGATAACAGATTTGGCATCTCCGTAGCGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGA
* * *
2197841 AGATAATAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGA
1 AGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGA
*
2197885 AAATAACAGAT
1 AGATAACAGAT
2197896 CGGTGTCCCT
Statistics
Matches: 845, Mismatches: 56, Indels: 42
0.90 0.06 0.04
Matches are distributed among these distances:
40 149 0.18
43 4 0.00
44 574 0.68
45 116 0.14
46 2 0.00
ACGTcount: A:0.30, C:0.17, G:0.31, T:0.21
Consensus pattern (44 bp):
AGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGA
Found at i:2197832 original size:438 final size:436
Alignment explanation
Indices: 2196930--2197895 Score: 1608
Period size: 438 Copynumber: 2.2 Consensus size: 436
2196920 TCCTTGAAAC
** *
2196930 AGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAATAGATCGAAGAT---GATTTGGCATCTCT
1 AGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAAAGATTTGGCGTCTCT
*
2196992 ATAGCGGCGGAGAGCAGATCGAAGAT----GATTTGGCATCTCTGTAACGGCGAAGAGCAGATCA
66 GTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTAACGGCGAAGAGCAGATCA
*
2197053 AAGATAATAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCT
131 AAGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCT
*
2197118 CTGTAGCGGCGGAGAACAGATCGAAGATAACAGATTTGACATCTCTGTAGCGACGGAGAGTAGAT
196 CTGTAGCGGCGGAGAACAGATCGAAGATAACAGATTTGACATCTCTGTAGCGACGGAGAGCAGAT
* *
2197183 CGAAGGTAACAATATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATGATTTGGCATCTC
261 CGAAAGTAACAAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATGATTTGGCATCTC
* *
2197248 TGTAGCGGTGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATC
326 TGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAACAGATC
* *
2197313 AAGGATAACAAATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
391 AAGGATAACAAATTTGGCATCTCTGTAGCGGCGGAGAGCAAATCGA
*
2197359 AGATAACAGATTTAGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTC
1 AGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAA-AGATTTGGCGTCTC
* *
2197424 TGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATC
65 TGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTAACGGCGAAGAGCAGATC
*
2197489 GAAGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAA-AGTAACAAGATTTGGCG
130 AAAGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGA-TAAC-AGATTTGGCG
* * *
2197553 TCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCA
193 TCTCTGTAGCGGCGGAGAACAGATCGAAGATAACAGATTTGACATCTCTGTAGCGACGGAGAGCA
2197618 GATCGAAAGTAACAAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATGATTTGGCAT
258 GATCGAAAGTAACAAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATGATTTGGCAT
*
2197683 CTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAACAG
323 CTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAACAG
*
2197748 ATCGAA-GATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAAATCGA
388 ATC-AAGGATAACAAATTTGGCATCTCTGTAGCGGCGGAGAGCAAATCGA
*
2197797 AGATAACAGATTTGGCATCTCCGTAGCGGCGGAGAGCAGATCGAAGATAATAGATTTGGCGTCTC
1 AGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAA-AGATTTGGCGTCTC
* *
2197862 TGTAGCGGCAGAGAGCAGATCGAAAATAACAGAT
65 TGTAGCGGCGGAGAGCAGATCGAAGATAACAGAT
2197896 CGGTGTCCCT
Statistics
Matches: 500, Mismatches: 26, Indels: 13
0.93 0.05 0.02
Matches are distributed among these distances:
429 45 0.09
433 38 0.08
436 1 0.00
437 81 0.16
438 333 0.67
439 2 0.00
ACGTcount: A:0.30, C:0.17, G:0.31, T:0.21
Consensus pattern (436 bp):
AGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAAAGATTTGGCGTCTCT
GTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTAACGGCGAAGAGCAGATCA
AAGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCT
CTGTAGCGGCGGAGAACAGATCGAAGATAACAGATTTGACATCTCTGTAGCGACGGAGAGCAGAT
CGAAAGTAACAAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATGATTTGGCATCTC
TGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAACAGATC
AAGGATAACAAATTTGGCATCTCTGTAGCGGCGGAGAGCAAATCGA
Found at i:2198332 original size:38 final size:38
Alignment explanation
Indices: 2198236--2198322 Score: 174
Period size: 38 Copynumber: 2.3 Consensus size: 38
2198226 ATAAATAAAA
2198236 ACCTTGGCCACCTACTCCACCACCCTTGTTGGCCACCC
1 ACCTTGGCCACCTACTCCACCACCCTTGTTGGCCACCC
2198274 ACCTTGGCCACCTACTCCACCACCCTTGTTGGCCACCC
1 ACCTTGGCCACCTACTCCACCACCCTTGTTGGCCACCC
2198312 ACCTTGGCCAC
1 ACCTTGGCCAC
2198323 TTAAACCACC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 49 1.00
ACGTcount: A:0.16, C:0.49, G:0.14, T:0.21
Consensus pattern (38 bp):
ACCTTGGCCACCTACTCCACCACCCTTGTTGGCCACCC
Found at i:2198443 original size:25 final size:25
Alignment explanation
Indices: 2198414--2198522 Score: 99
Period size: 25 Copynumber: 4.5 Consensus size: 25
2198404 TTTTAGGGGT
2198414 TGTTTTTTGTTTTTTGGAAGAGAGG
1 TGTTTTTTGTTTTTTGGAAGAGAGG
2198439 TGTTTTTTTTGTTTTTTGG-AG-GA-G
1 TG--TTTTTTGTTTTTTGGAAGAGAGG
*
2198463 -G---TTTGTTTTTTGGAGGAG-GG
1 TGTTTTTTGTTTTTTGGAAGAGAGG
* *
2198483 TAGTTTTTTGTTTTTTGGAATAGGGG
1 T-GTTTTTTGTTTTTTGGAAGAGAGG
2198509 TTGTTTTTTGTTTT
1 -TGTTTTTTGTTTT
2198523 GGAAAGGCTA
Statistics
Matches: 69, Mismatches: 3, Indels: 23
0.73 0.03 0.24
Matches are distributed among these distances:
18 12 0.17
19 1 0.01
20 2 0.03
22 1 0.01
23 1 0.01
24 1 0.01
25 19 0.28
26 16 0.23
27 16 0.23
ACGTcount: A:0.11, C:0.00, G:0.31, T:0.58
Consensus pattern (25 bp):
TGTTTTTTGTTTTTTGGAAGAGAGG
Found at i:2198452 original size:27 final size:25
Alignment explanation
Indices: 2198413--2198474 Score: 90
Period size: 27 Copynumber: 2.4 Consensus size: 25
2198403 TTTTTAGGGG
2198413 TTGTTTTTTGTTTTTTGGAAGAGAGGT
1 TTGTTTTTTGTTTTTTGG-AG-GAGGT
2198440 GTT-TTTTTTGTTTTTTGGAGGAGGT
1 -TTGTTTTTTGTTTTTTGGAGGAGGT
2198465 TTGTTTTTTG
1 TTGTTTTTTG
2198475 GAGGAGGGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
24 2 0.06
25 12 0.36
26 2 0.06
27 15 0.45
28 2 0.06
ACGTcount: A:0.10, C:0.00, G:0.29, T:0.61
Consensus pattern (25 bp):
TTGTTTTTTGTTTTTTGGAGGAGGT
Found at i:2198469 original size:18 final size:18
Alignment explanation
Indices: 2198446--2198492 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
2198436 AGGTGTTTTT
2198446 TTTGTTTTTTGGAGGAGG
1 TTTGTTTTTTGGAGGAGG
2198464 TTTGTTTTTTGGAGGAGG
1 TTTGTTTTTTGGAGGAGG
* *
2198482 GTAGTTTTTTG
1 TTTGTTTTTTG
2198493 TTTTTTGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.11, C:0.00, G:0.36, T:0.53
Consensus pattern (18 bp):
TTTGTTTTTTGGAGGAGG
Found at i:2198497 original size:26 final size:26
Alignment explanation
Indices: 2198464--2198522 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
2198454 TTGGAGGAGG
*
2198464 TTTGTTTTTTGGAGGA-GGGTAGTTT
1 TTTGTTTTTTGGAAGAGGGGTAGTTT
* *
2198489 TTTGTTTTTTGGAATAGGGGTTGTTT
1 TTTGTTTTTTGGAAGAGGGGTAGTTT
2198515 TTTGTTTT
1 TTTGTTTT
2198523 GGAAAGGCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 14 0.47
26 16 0.53
ACGTcount: A:0.10, C:0.00, G:0.31, T:0.59
Consensus pattern (26 bp):
TTTGTTTTTTGGAAGAGGGGTAGTTT
Found at i:2198853 original size:3 final size:3
Alignment explanation
Indices: 2198842--2198921 Score: 53
Period size: 3 Copynumber: 26.3 Consensus size: 3
2198832 TTTTATTTTT
* *
2198842 TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
2198885 TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA -TA TTA T
1 T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA T
2198922 ATATGCCCTC
Statistics
Matches: 62, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
2 7 0.11
3 46 0.74
4 7 0.11
5 2 0.03
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:2198899 original size:21 final size:18
Alignment explanation
Indices: 2198846--2198921 Score: 82
Period size: 18 Copynumber: 4.1 Consensus size: 18
2198836 ATTTTTTTAT
* *
2198846 TTTATTATTTTTACTATTA
1 TTTA-TATTATTATTATTA
2198865 TTTATATTATTATTATTA
1 TTTATATTATTATTATTA
*
2198883 TTTCTCATGTATATATTATTA
1 TTTAT-AT-TAT-TATTATTA
2198904 TTTATATTATTA-TATTA
1 TTTATATTATTATTATTA
2198921 T
1 T
2198922 ATATGCCCTC
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
17 6 0.12
18 18 0.36
19 9 0.18
20 5 0.10
21 12 0.24
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.64
Consensus pattern (18 bp):
TTTATATTATTATTATTA
Found at i:2198922 original size:27 final size:26
Alignment explanation
Indices: 2198834--2198925 Score: 82
Period size: 25 Copynumber: 3.6 Consensus size: 26
2198824 GAGCTTTGTT
* * *
2198834 TTATT-TTTTTATTTTATTATTTTTA
1 TTATTATTTATATATTATTATTTATA
*
2198859 CTATTATTTATATTATTATTA-TTAT-
1 TTATTATTTATA-TATTATTATTTATA
* * *
2198884 TTCTCATGTATATATTATTATTTATA
1 TTATTATTTATATATTATTATTTATA
2198910 TTATTATATTATATAT
1 TTATTAT-TTATATAT
2198926 GCCCTCTCCA
Statistics
Matches: 51, Mismatches: 11, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
24 8 0.16
25 16 0.31
26 13 0.25
27 14 0.27
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.66
Consensus pattern (26 bp):
TTATTATTTATATATTATTATTTATA
Found at i:2199243 original size:3 final size:3
Alignment explanation
Indices: 2199235--2199267 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
2199225 TGTATTTCTA
*
2199235 TAT TAT TAT TAT TAT TAT TAT TAT TAT TTT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2199268 CATTGTTTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:2202308 original size:19 final size:19
Alignment explanation
Indices: 2202246--2202308 Score: 62
Period size: 18 Copynumber: 3.4 Consensus size: 19
2202236 AACAATTTAA
*
2202246 TTTTTTTAT-TTCTTTAT-
1 TTTTTTTCTCTTCTTTATC
*
2202263 TTTTCTTCTCTTCTTT-TC
1 TTTTTTTCTCTTCTTTATC
2202281 TTTTATTTCTC-TCTTTATC
1 TTTT-TTTCTCTTCTTTATC
2202300 TTATTTTTC
1 TT-TTTTTC
2202309 ACTACAAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
17 8 0.21
18 15 0.39
19 13 0.34
20 2 0.05
ACGTcount: A:0.08, C:0.17, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTTTTTCTCTTCTTTATC
Found at i:2204889 original size:32 final size:32
Alignment explanation
Indices: 2204848--2204909 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 32
2204838 TGGATCCTTC
2204848 GTTCAATCA-TTGCAAATGTAAATTCTCTTTTT
1 GTTCAATCATTTGC-AATGTAAATTCTCTTTTT
*
2204880 GTTCAATCATTTTCAATGTAAATTCTCTTT
1 GTTCAATCATTTGCAATGTAAATTCTCTTT
2204910 CTCTTGCTGG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
32 25 0.89
33 3 0.11
ACGTcount: A:0.27, C:0.16, G:0.08, T:0.48
Consensus pattern (32 bp):
GTTCAATCATTTGCAATGTAAATTCTCTTTTT
Found at i:2208383 original size:26 final size:27
Alignment explanation
Indices: 2208354--2208404 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
2208344 ATTACTCCGA
*
2208354 TCAATTTTAAAA-AAAAATTAATTTAC
1 TCAATTTCAAAATAAAAATTAATTTAC
*
2208380 TCAATTTCAAAATTAAAATTAATTT
1 TCAATTTCAAAATAAAAATTAATTT
2208405 TATTTTCAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 11 0.50
27 11 0.50
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (27 bp):
TCAATTTCAAAATAAAAATTAATTTAC
Found at i:2209247 original size:19 final size:19
Alignment explanation
Indices: 2209223--2209265 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
2209213 TAATAAGAAA
*
2209223 AAAAATTAAAAAAAACTC-T
1 AAAAATGAAAAAAAA-TCGT
*
2209242 AAAAATGAAAAGAAATCGT
1 AAAAATGAAAAAAAATCGT
2209261 AAAAA
1 AAAAA
2209266 AGAAGGAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 2 0.10
19 19 0.90
ACGTcount: A:0.70, C:0.07, G:0.07, T:0.16
Consensus pattern (19 bp):
AAAAATGAAAAAAAATCGT
Found at i:2218848 original size:3 final size:3
Alignment explanation
Indices: 2218840--2218866 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
2218830 AGAAACGAAA
2218840 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
2218867 TTATCCACTA
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:2224527 original size:20 final size:20
Alignment explanation
Indices: 2224502--2224539 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2224492 TTGTCTAAAT
2224502 TTTCTTTCACTTTCTCTCAC
1 TTTCTTTCACTTTCTCTCAC
*
2224522 TTTCTTTCATTTTCTCTC
1 TTTCTTTCACTTTCTCTC
2224540 TCTGCTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.08, C:0.32, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTCTTTCACTTTCTCTCAC
Found at i:2234964 original size:9 final size:10
Alignment explanation
Indices: 2234933--2234962 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
2234923 AATTACTTTT
2234933 TTAAAAAATA
1 TTAAAAAATA
2234943 TTAAAAAATA
1 TTAAAAAATA
2234953 TTAGAAAAAT
1 TTA-AAAAAT
2234963 TATGACAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 13 0.68
11 6 0.32
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (10 bp):
TTAAAAAATA
Found at i:2235293 original size:38 final size:38
Alignment explanation
Indices: 2235237--2235328 Score: 125
Period size: 38 Copynumber: 2.4 Consensus size: 38
2235227 ATGTAAAACT
*
2235237 TAAATGATTTT-AC-ATCATTTCATAACTCTATATACAA
1 TAAAT-ATTTTAACAATCATTTCACAACTCTATATACAA
* * *
2235274 TGAATATTTTAACAATCATTTCACAGCTTTATATACAA
1 TAAATATTTTAACAATCATTTCACAACTCTATATACAA
2235312 TAAATATTTTAACAATC
1 TAAATATTTTAACAATC
2235329 CAACATCATA
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
36 5 0.10
37 6 0.12
38 37 0.77
ACGTcount: A:0.41, C:0.15, G:0.03, T:0.40
Consensus pattern (38 bp):
TAAATATTTTAACAATCATTTCACAACTCTATATACAA
Found at i:2238319 original size:19 final size:19
Alignment explanation
Indices: 2238295--2238351 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
2238285 AATCACTTTT
2238295 TTAAAAATAATAAAAATTA
1 TTAAAAATAATAAAAATTA
*
2238314 TTAAAAATTAT-AAAATT-
1 TTAAAAATAATAAAAATTA
**
2238331 TTATTTAATAATAAAAATTA
1 TTA-AAAATAATAAAAATTA
2238351 T
1 T
2238352 AATAATATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
17 3 0.10
18 11 0.35
19 16 0.52
20 1 0.03
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
TTAAAAATAATAAAAATTA
Found at i:2238366 original size:25 final size:25
Alignment explanation
Indices: 2238315--2238366 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 25
2238305 TAAAAATTAT
2238315 TAAAAATTATAAAATTTTATTTAATAA
1 TAAAAATTATAAAA--TTATTTAATAA
*
2238342 TAAAAATTATAATAA-TATTTTATAA
1 TAAAAATTATAA-AATTATTTAATAA
2238367 CTTGCAGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 9 0.39
27 12 0.52
28 2 0.09
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (25 bp):
TAAAAATTATAAAATTATTTAATAA
Found at i:2246389 original size:21 final size:20
Alignment explanation
Indices: 2246357--2246395 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
2246347 TTGAGAGTGA
2246357 GCAAATGTTAATATTATTAG
1 GCAAATGTTAATATTATTAG
* *
2246377 GCAATTGTATAATTTTATT
1 GCAAATGT-TAATATTATT
2246396 GGTATAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.36, C:0.05, G:0.13, T:0.46
Consensus pattern (20 bp):
GCAAATGTTAATATTATTAG
Found at i:2246486 original size:51 final size:50
Alignment explanation
Indices: 2246431--2246537 Score: 119
Period size: 52 Copynumber: 2.1 Consensus size: 50
2246421 AAATTTATAA
* *
2246431 ATTTTAACAATCT-GATCTTGATTTAATAAATTTAGC-CAGCAACAGTTACAC
1 ATTTTAACAATCTGGATC-TAATTTAATAAATTTAGCTCA-CAACAATT-CAC
** *
2246482 ATTTTTGTCAATTTGGATCTAATTTAATAAATTTAGCTCACAACAATTCAC
1 A-TTTTAACAATCTGGATCTAATTTAATAAATTTAGCTCACAACAATTCAC
2246533 ATTTT
1 ATTTT
2246538 TTCTACATTT
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
50 4 0.08
51 5 0.10
52 33 0.69
53 6 0.12
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (50 bp):
ATTTTAACAATCTGGATCTAATTTAATAAATTTAGCTCACAACAATTCAC
Found at i:2256290 original size:39 final size:40
Alignment explanation
Indices: 2256216--2256293 Score: 113
Period size: 39 Copynumber: 1.9 Consensus size: 40
2256206 TAAAAATTAT
2256216 TTATATTAAAAAACACTACCATAAATATAACAAATATTTTA
1 TTATATTAAAAAACACTA-CATAAATATAACAAATATTTTA
* * *
2256257 TTATATTAAAAAACATTA-ATAAATATGATAAATATTT
1 TTATATTAAAAAACACTACATAAATATAACAAATATTT
2256294 ATTGCATTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
39 17 0.50
41 17 0.50
ACGTcount: A:0.54, C:0.08, G:0.01, T:0.37
Consensus pattern (40 bp):
TTATATTAAAAAACACTACATAAATATAACAAATATTTTA
Found at i:2256304 original size:38 final size:40
Alignment explanation
Indices: 2256220--2256305 Score: 104
Period size: 39 Copynumber: 2.2 Consensus size: 40
2256210 AATTATTTAT
*
2256220 ATTAAAAAACACTACCATAAATATAACAAATATTTTATTAT
1 ATTAAAAAACACTA-CATAAATATAACAAATATTTTATTAC
* * * *
2256261 ATTAAAAAACATTA-ATAAATATGATAAATA-TTTATTGC
1 ATTAAAAAACACTACATAAATATAACAAATATTTTATTAC
2256299 ATTAAAA
1 ATTAAAA
2256306 TTTTATATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
38 13 0.32
39 14 0.35
41 13 0.32
ACGTcount: A:0.55, C:0.08, G:0.02, T:0.35
Consensus pattern (40 bp):
ATTAAAAAACACTACATAAATATAACAAATATTTTATTAC
Found at i:2263425 original size:28 final size:30
Alignment explanation
Indices: 2263383--2263440 Score: 84
Period size: 28 Copynumber: 2.0 Consensus size: 30
2263373 GACTCAATCG
* *
2263383 ACATTTTTATTAAAACTAATA-A-TATATT
1 ACATTTTTATAAAAAATAATATATTATATT
2263411 ACATTTTTATAAAAAATAATATATTATATT
1 ACATTTTTATAAAAAATAATATATTATATT
2263441 GCATCATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 19 0.73
29 1 0.04
30 6 0.23
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.47
Consensus pattern (30 bp):
ACATTTTTATAAAAAATAATATATTATATT
Found at i:2263434 original size:25 final size:27
Alignment explanation
Indices: 2263383--2263436 Score: 85
Period size: 25 Copynumber: 2.0 Consensus size: 27
2263373 GACTCAATCG
2263383 ACATTTTTATTAAAACTAATAATATATT
1 ACATTTTTATTAAAAC-AATAATATATT
2263411 ACATTTTTA-TAAAA-AATAATATATT
1 ACATTTTTATTAAAACAATAATATATT
2263436 A
1 A
2263437 TATTGCATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
25 12 0.46
27 5 0.19
28 9 0.35
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (27 bp):
ACATTTTTATTAAAACAATAATATATT
Found at i:2268193 original size:15 final size:15
Alignment explanation
Indices: 2268173--2268209 Score: 65
Period size: 15 Copynumber: 2.4 Consensus size: 15
2268163 TCTAAGTACT
2268173 AAATTTGAATCATAG
1 AAATTTGAATCATAG
2268188 AAATTTGAATCATAG
1 AAATTTGAATCATAG
2268203 AATATTT
1 AA-ATTT
2268210 TTAATAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.46, C:0.05, G:0.11, T:0.38
Consensus pattern (15 bp):
AAATTTGAATCATAG
Found at i:2273562 original size:30 final size:30
Alignment explanation
Indices: 2273522--2273579 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
2273512 TATTAAGGTT
2273522 AAAATGTGCAATAAGTCCCTGTACTCTTTG
1 AAAATGTGCAATAAGTCCCTGTACTCTTTG
* * *
2273552 AAAATTTGCAATAAGTCTCTTTACTCTT
1 AAAATGTGCAATAAGTCCCTGTACTCTT
2273580 CATATTTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (30 bp):
AAAATGTGCAATAAGTCCCTGTACTCTTTG
Found at i:2279689 original size:17 final size:17
Alignment explanation
Indices: 2279659--2279692 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2279649 TTGGGTGAAC
*
2279659 TTATATTATAATTTTAT
1 TTATAATATAATTTTAT
*
2279676 TTATAATATTATTTTAT
1 TTATAATATAATTTTAT
2279693 ATCTTGCATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATAATATAATTTTAT
Found at i:2280196 original size:19 final size:20
Alignment explanation
Indices: 2280172--2280209 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
2280162 CTAATAATGT
2280172 TAAAA-TTTTAATTTTAACC
1 TAAAATTTTTAATTTTAACC
2280191 TAAAATTTTTAATTTTAAC
1 TAAAATTTTTAATTTTAAC
2280210 TTAATTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (20 bp):
TAAAATTTTTAATTTTAACC
Found at i:2285904 original size:76 final size:76
Alignment explanation
Indices: 2285822--2285968 Score: 226
Period size: 76 Copynumber: 1.9 Consensus size: 76
2285812 TAACCGAATT
* *
2285822 GAAATATTTCAATTAAATCAGTCAGTTAATTGA-ATTAA-CTGAAATTTAAATGTTTTTATCTTT
1 GAAATATTTCAATTAAATCAGTCAGTTAACT-ACATTAATC-GAAATTTAAATATTTTTATCTTT
*
2285885 TGGTTTTTGAACC
64 TGATTTTTGAACC
*
2285898 GAAATATTTCAATTAAATCAGTCAGTTAACTACATTAATCGAAATTTATATATTTTTATCTTTTG
1 GAAATATTTCAATTAAATCAGTCAGTTAACTACATTAATCGAAATTTAAATATTTTTATCTTTTG
2285963 ATTTTT
66 ATTTTT
2285969 AAATAAGAAC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
75 1 0.02
76 63 0.97
77 1 0.02
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.46
Consensus pattern (76 bp):
GAAATATTTCAATTAAATCAGTCAGTTAACTACATTAATCGAAATTTAAATATTTTTATCTTTTG
ATTTTTGAACC
Found at i:2292216 original size:12 final size:13
Alignment explanation
Indices: 2292186--2292218 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
2292176 AATATTTCCC
2292186 ACAAAAAAAAGTG
1 ACAAAAAAAAGTG
*
2292199 ATAAAAAAAAGT-
1 ACAAAAAAAAGTG
2292211 ACAAAAAA
1 ACAAAAAA
2292219 TAAAATACGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 7 0.39
13 11 0.61
ACGTcount: A:0.76, C:0.06, G:0.09, T:0.09
Consensus pattern (13 bp):
ACAAAAAAAAGTG
Found at i:2302742 original size:14 final size:14
Alignment explanation
Indices: 2302725--2302759 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
2302715 ATACATAAAT
2302725 TATAATTTTATTAA
1 TATAATTTTATTAA
2302739 TATAATTTTATTAA
1 TATAATTTTATTAA
2302753 TA-AATTT
1 TATAATTT
2302760 AACAGTTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 5 0.24
14 16 0.76
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TATAATTTTATTAA
Found at i:2303972 original size:25 final size:23
Alignment explanation
Indices: 2303941--2304010 Score: 61
Period size: 25 Copynumber: 2.9 Consensus size: 23
2303931 AGGCCCGCCC
2303941 ATTTTATTTTTAATTTTTTTAAAA
1 ATTTTATTTTTAATTTTTTT-AAA
* * *
2303965 ATATTTA-TATTATATTATTTTAAT
1 AT-TTTATTTTTA-ATTTTTTTAAA
2303989 ATTTTATATTTTAATATTTTTT
1 ATTTTAT-TTTTAAT-TTTTTT
2304011 TATTTATTGA
Statistics
Matches: 36, Mismatches: 5, Indels: 9
0.72 0.10 0.18
Matches are distributed among these distances:
23 4 0.11
24 12 0.33
25 20 0.56
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (23 bp):
ATTTTATTTTTAATTTTTTTAAA
Found at i:2303991 original size:8 final size:8
Alignment explanation
Indices: 2303980--2304008 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
2303970 TATATTATAT
2303980 TATTTTAA
1 TATTTTAA
2303988 TATTTT-A
1 TATTTTAA
2303995 TATTTTAA
1 TATTTTAA
2304003 TATTTT
1 TATTTT
2304009 TTTATTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (8 bp):
TATTTTAA
Found at i:2303997 original size:23 final size:22
Alignment explanation
Indices: 2303964--2304017 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
2303954 TTTTTTTAAA
*
2303964 AATATTTATATTATATTATTTT
1 AATATTTATATTATAATATTTT
*
2303986 AATATTTTATATTTTAATATTTT
1 AATA-TTTATATTATAATATTTT
**
2304009 TTTATTTAT
1 AATATTTAT
2304018 TGAATTTTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 9 0.33
23 18 0.67
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (22 bp):
AATATTTATATTATAATATTTT
Found at i:2304016 original size:15 final size:15
Alignment explanation
Indices: 2303980--2304008 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2303970 TATATTATAT
2303980 TATTTTAATATTTTA
1 TATTTTAATATTTTA
2303995 TATTTTAATATTTT
1 TATTTTAATATTTT
2304009 TTTATTTATT
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:2311170 original size:21 final size:21
Alignment explanation
Indices: 2311145--2311186 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2311135 ATATTTGATG
*
2311145 ATATTATATATTA-TTATTATT
1 ATATTA-ATAATATTTATTATT
2311166 ATATTAATAATATTTATTATT
1 ATATTAATAATATTTATTATT
2311187 GTTAGTTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
ATATTAATAATATTTATTATT
Found at i:2312914 original size:29 final size:30
Alignment explanation
Indices: 2312868--2312924 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
2312858 TTTTAGAATT
2312868 AAATTTTGAAGGTCTAAT-AAAATTTTTAA
1 AAATTTTGAAGGTCTAATGAAAATTTTTAA
* *
2312897 AAATTTT-AAGAGTTTAATGATAATTTTT
1 AAATTTTGAAG-GTCTAATGAAAATTTTT
2312925 TTTAAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 3 0.12
29 13 0.54
30 8 0.33
ACGTcount: A:0.42, C:0.02, G:0.11, T:0.46
Consensus pattern (30 bp):
AAATTTTGAAGGTCTAATGAAAATTTTTAA
Found at i:2315203 original size:23 final size:24
Alignment explanation
Indices: 2315159--2315207 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 24
2315149 GTCCTTATAC
2315159 TTTTTGAATTTCAAAATTTTAATCT
1 TTTTTGAATTTCAAAA-TTTAATCT
2315184 TTTTTGAATTTCAAAA-TTAATCT
1 TTTTTGAATTTCAAAATTTAATCT
2315207 T
1 T
2315208 AGTCTAAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 8 0.33
25 16 0.67
ACGTcount: A:0.33, C:0.08, G:0.04, T:0.55
Consensus pattern (24 bp):
TTTTTGAATTTCAAAATTTAATCT
Found at i:2317444 original size:22 final size:21
Alignment explanation
Indices: 2317411--2317458 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
2317401 AACCAAAACT
2317411 AAAATTAAAAAAATAT-AAAAA
1 AAAATTAAAAAAAT-TCAAAAA
*
2317432 AAAATTCATAAAAATTCAAAAA
1 AAAATT-AAAAAAATTCAAAAA
2317454 AAAAT
1 AAAAT
2317459 AGCACAGAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.21
Consensus pattern (21 bp):
AAAATTAAAAAAATTCAAAAA
Found at i:2318454 original size:23 final size:22
Alignment explanation
Indices: 2318407--2318454 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
2318397 AATTTTTTTA
*
2318407 AAATTTTAAAAATAAAAAGATT
1 AAATTTTAAAAATAAAAAGAAT
2318429 AAATTCTTAAAAATAAATAA-AAT
1 AAATT-TTAAAAATAAA-AAGAAT
2318452 AAA
1 AAA
2318455 CTAAAATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 5 0.22
23 16 0.70
24 2 0.09
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (22 bp):
AAATTTTAAAAATAAAAAGAAT
Found at i:2318811 original size:109 final size:109
Alignment explanation
Indices: 2318672--2318883 Score: 329
Period size: 109 Copynumber: 1.9 Consensus size: 109
2318662 TGCACAAAAA
* * *
2318672 TCCACCCAACATGTTTCCCACATCTTTTTTTCATTAATTTATTTTGTTTTTATTTTATTAATTAA
1 TCCACCCAACATGTCTACCACATCTTTTTTTCATTAATTTATTTTGTTTTTATCTTATTAATTAA
* *
2318737 T-AATGTTAAATTTTA-TAAAAATAATTCATTTACCACTAGATGTG
66 TAAAAGTTAAATTTTATTAAAAA-AAATCATTTA-CACTAGATGTG
* *
2318781 TCCACCCAACATGTCTATCACATCTTTTTTTCATTCATTTATTTTGTTTTTATCTTATTAATTAA
1 TCCACCCAACATGTCTACCACATCTTTTTTTCATTAATTTATTTTGTTTTTATCTTATTAATTAA
2318846 TAAAAGTTAAATTTTATTAAAAAAAATCATTTACACTA
66 TAAAAGTTAAATTTTATTAAAAAAAATCATTTACACTA
2318884 AAGGTGTCAA
Statistics
Matches: 94, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
109 66 0.70
110 22 0.23
111 6 0.06
ACGTcount: A:0.33, C:0.15, G:0.04, T:0.48
Consensus pattern (109 bp):
TCCACCCAACATGTCTACCACATCTTTTTTTCATTAATTTATTTTGTTTTTATCTTATTAATTAA
TAAAAGTTAAATTTTATTAAAAAAAATCATTTACACTAGATGTG
Found at i:2320816 original size:20 final size:20
Alignment explanation
Indices: 2320791--2320829 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
2320781 TACAAACAAG
*
2320791 TTAGTTTTTAGCTTTATTAT
1 TTAGTTTTTAGCTTCATTAT
2320811 TTAGTTTTTAGCTTCATTA
1 TTAGTTTTTAGCTTCATTA
2320830 CTCAATTAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.08, G:0.10, T:0.62
Consensus pattern (20 bp):
TTAGTTTTTAGCTTCATTAT
Found at i:2321486 original size:11 final size:12
Alignment explanation
Indices: 2321463--2321492 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
2321453 GAGCTTTTCG
2321463 TTTTTTAATATA
1 TTTTTTAATATA
2321475 TTTTTTAA-ATA
1 TTTTTTAATATA
2321486 TTTTTTA
1 TTTTTTA
2321493 TATTATTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.56
12 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TTTTTTAATATA
Found at i:2324420 original size:3 final size:3
Alignment explanation
Indices: 2324412--2324440 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
2324402 TACGTTTTCA
2324412 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
2324441 TTTATAAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:2329883 original size:15 final size:16
Alignment explanation
Indices: 2329863--2329904 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
2329853 TCCTAAAAAT
2329863 ATAATTTTATTTAA-A
1 ATAATTTTATTTAATA
*
2329878 ATAATTTTTTTTAATA
1 ATAATTTTATTTAATA
*
2329894 A-AATTATATTT
1 ATAATTTTATTT
2329905 TTAATTTCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 21 0.91
16 2 0.09
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATAATTTTATTTAATA
Found at i:2329950 original size:30 final size:31
Alignment explanation
Indices: 2329889--2329964 Score: 77
Period size: 30 Copynumber: 2.5 Consensus size: 31
2329879 TAATTTTTTT
* *
2329889 TAATAAAATTATATTTTTAATTTCTTTAAAA
1 TAATAAAATTATATATTTAATTTCTTAAAAA
*
2329920 TAATAAAATTTTA-ATTTAATCTT-TTAAAAA
1 TAATAAAATTATATATTTAAT-TTCTTAAAAA
*
2329950 TTAT-AAATGTATATA
1 TAATAAAAT-TATATA
2329965 CTATTAAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
29 4 0.11
30 18 0.49
31 15 0.41
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (31 bp):
TAATAAAATTATATATTTAATTTCTTAAAAA
Found at i:2341998 original size:31 final size:31
Alignment explanation
Indices: 2341963--2342037 Score: 105
Period size: 31 Copynumber: 2.4 Consensus size: 31
2341953 TTAGTATAAT
*
2341963 ATTTGGTATTTAAACTTAACACTTTTTCCTA
1 ATTTGGTACTTAAACTTAACACTTTTTCCTA
* * *
2341994 ATTTGGTACCTAAACTTGACACTTTTTCTTA
1 ATTTGGTACTTAAACTTAACACTTTTTCCTA
*
2342025 AGTTGGTACTTAA
1 ATTTGGTACTTAA
2342038 TCTTTTTTGC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.28, C:0.16, G:0.11, T:0.45
Consensus pattern (31 bp):
ATTTGGTACTTAAACTTAACACTTTTTCCTA
Found at i:2342247 original size:23 final size:20
Alignment explanation
Indices: 2342221--2342277 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 20
2342211 ATATAATTTT
2342221 TTTTATTTTATATATTCAATTA
1 TTTTATTTTATA-ATT-AATTA
*
2342243 CTTTTAGTTT-TAATTAATTA
1 -TTTTATTTTATAATTAATTA
2342263 -TTTATTTTATTAATT
1 TTTTATTTTA-TAATT
2342278 GAAAATTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
18 7 0.23
20 10 0.33
21 3 0.10
22 2 0.07
23 8 0.27
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.65
Consensus pattern (20 bp):
TTTTATTTTATAATTAATTA
Found at i:2342274 original size:16 final size:18
Alignment explanation
Indices: 2342245--2342277 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
2342235 TTCAATTACT
2342245 TTTAGTTTTAATTAATTA
1 TTTAGTTTTAATTAATTA
2342263 TTTA-TTTT-ATTAATT
1 TTTAGTTTTAATTAATT
2342278 GAAAATTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (18 bp):
TTTAGTTTTAATTAATTA
Found at i:2344540 original size:17 final size:19
Alignment explanation
Indices: 2344505--2344541 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
2344495 TGTAATTATA
*
2344505 AAAATATATAAATATTAGT
1 AAAATATATAAATAATAGT
2344524 AAAATA-AT-AATAATAGT
1 AAAATATATAAATAATAGT
2344541 A
1 A
2344542 GAGTGATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 9 0.53
18 2 0.12
19 6 0.35
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.32
Consensus pattern (19 bp):
AAAATATATAAATAATAGT
Found at i:2350871 original size:17 final size:17
Alignment explanation
Indices: 2350846--2350878 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2350836 CTGAATATTG
2350846 TTTTAAAATTATAAGTT
1 TTTTAAAATTATAAGTT
*
2350863 TTTTTAAATTATAAGT
1 TTTTAAAATTATAAGT
2350879 AATATATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (17 bp):
TTTTAAAATTATAAGTT
Found at i:2352123 original size:15 final size:15
Alignment explanation
Indices: 2352082--2352126 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
2352072 TTAATTGTTT
* *
2352082 ATTTTTATATATAAA
1 ATTTTTATAAATTAA
*
2352097 ATTTTTATTAAATTTA
1 ATTTTTA-TAAATTAA
2352113 ATTTTTATAAATTA
1 ATTTTTATAAATTA
2352127 TTAATATAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
15 13 0.52
16 12 0.48
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
ATTTTTATAAATTAA
Found at i:2359892 original size:14 final size:14
Alignment explanation
Indices: 2359833--2359883 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
2359823 CTTTTGTTTC
*
2359833 TTTTA-TTCTTTTA
1 TTTTATTTCCTTTA
* *
2359846 TTTTAACTTACTTTA
1 TTTT-ATTTCCTTTA
*
2359861 CTTTATTTCCTTTA
1 TTTTATTTCCTTTA
2359875 TTTTATTTC
1 TTTTATTTC
2359884 TTTTGTTTTC
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
13 4 0.13
14 17 0.57
15 9 0.30
ACGTcount: A:0.18, C:0.14, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTATTTCCTTTA
Found at i:2360052 original size:14 final size:17
Alignment explanation
Indices: 2360033--2360069 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 17
2360023 ATTTATTTCT
2360033 TAATATAA-T-ATTT-A
1 TAATATAATTAATTTAA
2360047 TAATATAATTAATTTAA
1 TAATATAATTAATTTAA
2360064 TAATAT
1 TAATAT
2360070 CCTTTATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 8 0.40
15 1 0.05
16 4 0.20
17 7 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TAATATAATTAATTTAA
Found at i:2361445 original size:36 final size:35
Alignment explanation
Indices: 2361369--2361448 Score: 90
Period size: 36 Copynumber: 2.2 Consensus size: 35
2361359 AATATTTACG
* * **
2361369 TATTTTATTAATTTAATTTATAATATTTAGAAAATT
1 TATTTT-TTAATTTAATTTAAAAAATTTAGAAAAAA
2361405 TATTTTTTAATTTAAATTTTAAAAAATTTA-AAAAAA
1 TATTTTTTAATTT-AA-TTTAAAAAATTTAGAAAAAA
2361441 TATTTTTT
1 TATTTTTT
2361449 TAAAAACAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
35 7 0.18
36 20 0.53
37 11 0.29
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (35 bp):
TATTTTTTAATTTAATTTAAAAAATTTAGAAAAAA
Found at i:2361448 original size:37 final size:34
Alignment explanation
Indices: 2361369--2361451 Score: 85
Period size: 37 Copynumber: 2.3 Consensus size: 34
2361359 AATATTTACG
* * * *
2361369 TATTTTATTAATTTAATTTATAATATTTAGAAAA
1 TATTTTTTTAATTTAATTTAAAAAATTTAAAAAA
*
2361403 TTTATTTTTTAATTTAAATTTTAAAAAATTTAAAAAAA
1 TAT-TTTTTTAATTT-AA-TTTAAAAAATTT-AAAAAA
2361441 TATTTTTTTAA
1 TATTTTTTTAA
2361452 AAACAATTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
34 2 0.05
35 10 0.26
36 2 0.05
37 18 0.46
38 7 0.18
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (34 bp):
TATTTTTTTAATTTAATTTAAAAAATTTAAAAAA
Found at i:2361460 original size:15 final size:16
Alignment explanation
Indices: 2361431--2361465 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
2361421 TTTTAAAAAA
2361431 TTTAAAAAAATATTTT
1 TTTAAAAAAATATTTT
*
2361447 TTTAAAAACA-ATTTT
1 TTTAAAAAAATATTTT
2361462 TTTA
1 TTTA
2361466 CTTTAACAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (16 bp):
TTTAAAAAAATATTTT
Found at i:2364821 original size:21 final size:20
Alignment explanation
Indices: 2364797--2364853 Score: 51
Period size: 23 Copynumber: 2.6 Consensus size: 20
2364787 AATGTTTTTA
*
2364797 CCAAACAAAATAAATTTAATC
1 CCAAA-AAAATAAATATAATC
*
2364818 CCAAAAAAGAAGAAAATATAATC
1 CC-AAAAA-AA-TAAATATAATC
*
2364841 CCAAAAATATAAA
1 CCAAAAAAATAAA
2364854 CTACTGCTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
20 3 0.10
21 5 0.17
22 10 0.34
23 11 0.38
ACGTcount: A:0.63, C:0.16, G:0.04, T:0.18
Consensus pattern (20 bp):
CCAAAAAAATAAATATAATC
Found at i:2365855 original size:29 final size:29
Alignment explanation
Indices: 2365816--2365883 Score: 136
Period size: 29 Copynumber: 2.3 Consensus size: 29
2365806 GGAGCTGAAG
2365816 AAGAAATGAAAGTAAAAATTTTCTATGGA
1 AAGAAATGAAAGTAAAAATTTTCTATGGA
2365845 AAGAAATGAAAGTAAAAATTTTCTATGGA
1 AAGAAATGAAAGTAAAAATTTTCTATGGA
2365874 AAGAAATGAA
1 AAGAAATGAA
2365884 GGAAAGAGGG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.54, C:0.03, G:0.18, T:0.25
Consensus pattern (29 bp):
AAGAAATGAAAGTAAAAATTTTCTATGGA
Found at i:2378517 original size:46 final size:44
Alignment explanation
Indices: 2378458--2378572 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
2378448 ACAGGACAGA
* *
2378458 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
2378504 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
2378548 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
2378573 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:2378553 original size:44 final size:45
Alignment explanation
Indices: 2378458--2378591 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
2378448 ACAGGACAGA
* *
2378458 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
2378504 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
2378548 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
2378592 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:2384538 original size:17 final size:18
Alignment explanation
Indices: 2384506--2384539 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2384496 TTTCACTTAT
2384506 ATTATTAAATAAATACAA
1 ATTATTAAATAAATACAA
2384524 ATTATTAAA-AAATACA
1 ATTATTAAATAAATACA
2384540 TGGAAAAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (18 bp):
ATTATTAAATAAATACAA
Found at i:2393198 original size:26 final size:26
Alignment explanation
Indices: 2393122--2393191 Score: 95
Period size: 27 Copynumber: 2.7 Consensus size: 26
2393112 AAAGTAAACA
*
2393122 ATAAAACAATTTAAAATGAATAATAC
1 ATAAAACAATTTAAAATAAATAATAC
**
2393148 ATAAAACAAGTTTAAAATAAATAATGT
1 ATAAAACAA-TTTAAAATAAATAATAC
*
2393175 ATAAAACATTTTAAAAT
1 ATAAAACAATTTAAAAT
2393192 CTATAATTCA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 17 0.44
27 22 0.56
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.30
Consensus pattern (26 bp):
ATAAAACAATTTAAAATAAATAATAC
Found at i:2393284 original size:26 final size:26
Alignment explanation
Indices: 2393236--2393285 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
2393226 TATGAATAGT
*
2393236 TTTAAAATAAATAATATATAAGTTAA
1 TTTAAAATAAATAATATAGAAGTTAA
*
2393262 TTTAAAAGTAATTAATA-AGAAGTT
1 TTTAAAA-TAAATAATATAGAAGTT
2393286 TAGAATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 13 0.62
27 8 0.38
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (26 bp):
TTTAAAATAAATAATATAGAAGTTAA
Found at i:2395200 original size:21 final size:21
Alignment explanation
Indices: 2395144--2395201 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 21
2395134 TGCGATGAAA
2395144 ATTTTGTTTTGTA-TTTTTAAGCC
1 ATTTT-TTTT-TATTTTTTAA-CC
*
2395167 ATTTATTTTTATTTTTTAA-C
1 ATTTTTTTTTATTTTTTAACC
2395187 ATTTTTTTTCTATTT
1 ATTTTTTTT-TATTT
2395202 ATAATGGAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
20 9 0.29
21 7 0.23
22 11 0.35
23 4 0.13
ACGTcount: A:0.19, C:0.07, G:0.05, T:0.69
Consensus pattern (21 bp):
ATTTTTTTTTATTTTTTAACC
Found at i:2402529 original size:24 final size:21
Alignment explanation
Indices: 2402491--2402542 Score: 59
Period size: 24 Copynumber: 2.3 Consensus size: 21
2402481 TGATTTAATT
*
2402491 TTTTAAAAATTATAAAGATATAAA
1 TTTT-AAAATAATAAA-AT-TAAA
2402515 TTATTAAAATAATAAAATTAAA
1 TT-TTAAAATAATAAAATTAAA
2402537 TTTTAA
1 TTTTAA
2402543 CTATGATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 4 0.15
22 6 0.23
23 2 0.08
24 12 0.46
25 2 0.08
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (21 bp):
TTTTAAAATAATAAAATTAAA
Found at i:2407297 original size:17 final size:18
Alignment explanation
Indices: 2407283--2407371 Score: 77
Period size: 17 Copynumber: 5.3 Consensus size: 18
2407273 TAAATATTAG
2407283 ATTAAATTTAATATTAAT
1 ATTAAATTTAATATTAAT
*
2407301 ATTTAATTTAAT-TTAAT
1 ATTAAATTTAATATTAAT
*
2407318 ATTAAA-TTAATA-AAAT
1 ATTAAATTTAATATTAAT
* *
2407334 ACT--A-TTAAGA-TAATT
1 ATTAAATTTAATATTAA-T
2407349 ATTAAATTTAAT-TTAAT
1 ATTAAATTTAATATTAAT
2407366 ATTAAA
1 ATTAAA
2407372 CTATTATAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 13
0.73 0.10 0.17
Matches are distributed among these distances:
14 8 0.14
15 3 0.05
16 10 0.18
17 18 0.32
18 18 0.32
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (18 bp):
ATTAAATTTAATATTAAT
Found at i:2407298 original size:12 final size:12
Alignment explanation
Indices: 2407283--2407329 Score: 64
Period size: 11 Copynumber: 4.1 Consensus size: 12
2407273 TAAATATTAG
2407283 ATTAAATTTAAT
1 ATTAAATTTAAT
2407295 ATTAATATTTAAT
1 ATTAA-ATTTAAT
2407308 -TT-AATTTAAT
1 ATTAAATTTAAT
2407318 ATTAAA-TTAAT
1 ATTAAATTTAAT
2407329 A
1 A
2407330 AAATACTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
10 7 0.22
11 9 0.28
12 9 0.28
13 7 0.22
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (12 bp):
ATTAAATTTAAT
Found at i:2407301 original size:23 final size:22
Alignment explanation
Indices: 2407275--2407370 Score: 85
Period size: 23 Copynumber: 4.4 Consensus size: 22
2407265 TATTTTCATA
2407275 AATATTAGATTAAATTTAATATT
1 AATATTA-ATTAAATTTAATATT
*
2407298 AATATTTAATTTAATTTAATATT
1 AATA-TTAATTAAATTTAATATT
* *
2407321 AA-ATTAA-TAAA-ATACTATT
1 AATATTAATTAAATTTAATATT
2407340 AAGATAATT-ATTAAATTTAAT-TT
1 -A-AT-ATTAATTAAATTTAATATT
2407363 AATATTAA
1 AATATTAA
2407371 ACTATTATAA
Statistics
Matches: 59, Mismatches: 6, Indels: 18
0.71 0.07 0.22
Matches are distributed among these distances:
19 6 0.10
20 7 0.12
21 8 0.14
22 3 0.05
23 29 0.49
24 6 0.10
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.47
Consensus pattern (22 bp):
AATATTAATTAAATTTAATATT
Found at i:2413106 original size:19 final size:19
Alignment explanation
Indices: 2413082--2413118 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
2413072 GCATGACCTC
2413082 TATATGCACCTGAACGATG
1 TATATGCACCTGAACGATG
*
2413101 TATATGTACCTGAACGAT
1 TATATGCACCTGAACGAT
2413119 AATATTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (19 bp):
TATATGCACCTGAACGATG
Done.