Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 92 of 163
Found at i:26173728 original size:52 final size:52
Alignment explanation
Indices: 26173643--26173820 Score: 284
Period size: 52 Copynumber: 3.4 Consensus size: 52
26173633 GCCATAAACG
* * * *
26173643 AAGAGGTTCAATGACTAAGCGTCATCATTAGTATATGAATCCTTTACGGATT
1 AAGAGGTCCAATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATT
*
26173695 AAGAGGTCCGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATT
1 AAGAGGTCCAATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATT
* *
26173747 AAGAAGTCCAATGACTACGTGTCATCGTGAGTATATGAATCCTTTACGGATT
1 AAGAGGTCCAATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATT
*
26173799 AAGAGGTCCGATGACTAAGTGT
1 AAGAGGTCCAATGACTAAGTGT
26173821 AAGAGGTCCG
Statistics
Matches: 115, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 115 1.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (52 bp):
AAGAGGTCCAATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATT
Found at i:26173826 original size:22 final size:22
Alignment explanation
Indices: 26173798--26173842 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
26173788 CTTTACGGAT
26173798 TAAGAGGTCCGATGACTAAGTG
1 TAAGAGGTCCGATGACTAAGTG
26173820 TAAGAGGTCCGATGACTAAGTG
1 TAAGAGGTCCGATGACTAAGTG
26173842 T
1 T
26173843 CATCGTGAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.31, C:0.13, G:0.31, T:0.24
Consensus pattern (22 bp):
TAAGAGGTCCGATGACTAAGTG
Found at i:26177492 original size:18 final size:18
Alignment explanation
Indices: 26177469--26177507 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
26177459 TTATTATTGT
*
26177469 TAAAATT-TACTATTGAAA
1 TAAAATTGTAATATT-AAA
26177487 TAAAATTGTAATATTAAA
1 TAAAATTGTAATATTAAA
26177505 TAA
1 TAA
26177508 TTTATTACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (18 bp):
TAAAATTGTAATATTAAA
Found at i:26177543 original size:24 final size:24
Alignment explanation
Indices: 26177516--26177568 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
26177506 AATTTATTAC
* *
26177516 AATAATAAATTATATTATTATATT
1 AATAATAAATTATATTATTAAATA
***
26177540 AATAATTTTTTATATTATTAAATA
1 AATAATAAATTATATTATTAAATA
26177564 AATAA
1 AATAA
26177569 CAAAATATGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
AATAATAAATTATATTATTAAATA
Found at i:26177544 original size:21 final size:20
Alignment explanation
Indices: 26177496--26177535 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
26177486 ATAAAATTGT
*
26177496 AATATTAAATAATTTATTAC
1 AATAATAAATAATTTATTAC
*
26177516 AATAATAAATTATATTATTA
1 AATAATAAATAAT-TTATTA
26177536 TATTAATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (20 bp):
AATAATAAATAATTTATTAC
Found at i:26182470 original size:12 final size:12
Alignment explanation
Indices: 26182453--26182534 Score: 58
Period size: 12 Copynumber: 6.8 Consensus size: 12
26182443 ATAATATCCA
*
26182453 AACAACCAAAAT
1 AACAACAAAAAT
* *
26182465 AACAACTAAAAC
1 AACAACAAAAAT
*
26182477 AACAGCAAAAAT
1 AACAACAAAAAT
*
26182489 AATAGA-AAAAAT
1 AACA-ACAAAAAT
**
26182501 AGTAACAAAAAT
1 AACAACAAAAAT
* *
26182513 AACAATAAAAAC
1 AACAACAAAAAT
*
26182525 AACACCAAAA
1 AACAACAAAA
26182535 TAGTAAAAAA
Statistics
Matches: 54, Mismatches: 14, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
11 1 0.02
12 53 0.98
ACGTcount: A:0.70, C:0.17, G:0.04, T:0.10
Consensus pattern (12 bp):
AACAACAAAAAT
Found at i:26182499 original size:24 final size:24
Alignment explanation
Indices: 26182453--26182534 Score: 69
Period size: 24 Copynumber: 3.4 Consensus size: 24
26182443 ATAATATCCA
*
26182453 AACAACCAAAATAACAACT-AAAAC
1 AACAACAAAAATAACAA-TAAAAAC
* * *
26182477 AACAGCAAAAATAATAGA-AAAAAT
1 AACAACAAAAATAACA-ATAAAAAC
**
26182501 AGTAACAAAAATAACAATAAAAAC
1 AACAACAAAAATAACAATAAAAAC
*
26182525 AACACCAAAA
1 AACAACAAAA
26182535 TAGTAAAAAA
Statistics
Matches: 43, Mismatches: 12, Indels: 6
0.70 0.20 0.10
Matches are distributed among these distances:
23 1 0.02
24 41 0.95
25 1 0.02
ACGTcount: A:0.70, C:0.17, G:0.04, T:0.10
Consensus pattern (24 bp):
AACAACAAAAATAACAATAAAAAC
Found at i:26182524 original size:48 final size:45
Alignment explanation
Indices: 26182460--26182571 Score: 125
Period size: 47 Copynumber: 2.4 Consensus size: 45
26182450 CCAAACAACC
*
26182460 AAAATAACAACTAAAACAACAGCAAAAATAATAGAAAAAATAGTAACA
1 AAAATAACAA-TAAAACAACA-CAAAAATAATAAAAAAAATAG-AACA
* * * *
26182508 AAAATAACAATAAAAACAACACCAAAATAGTAAAAAAAATAGCACC
1 AAAATAACAAT-AAAACAACACAAAAATAATAAAAAAAATAGAACA
*
26182554 AAAACAACAATCAAAACA
1 AAAATAACAAT-AAAACA
26182572 GTAAAAAAGC
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
46 18 0.32
47 19 0.34
48 19 0.34
ACGTcount: A:0.69, C:0.16, G:0.04, T:0.11
Consensus pattern (45 bp):
AAAATAACAATAAAACAACACAAAAATAATAAAAAAAATAGAACA
Found at i:26182534 original size:23 final size:23
Alignment explanation
Indices: 26182457--26182571 Score: 65
Period size: 23 Copynumber: 4.9 Consensus size: 23
26182447 TATCCAAACA
26182457 ACCAAAATAACAACT-AAAACAAC
1 ACCAAAATAACAA-TAAAAACAAC
* * *
26182480 AGCAAAAATAATAGA-AAAAATAGTA-
1 A-CCAAAATAACA-ATAAAAACA--AC
*
26182505 ACAAAAATAACAATAAAAACAAC
1 ACCAAAATAACAATAAAAACAAC
** * * *
26182528 ACCAAAATAGTAAAAAAAATAGC
1 ACCAAAATAACAATAAAAACAAC
* *
26182551 ACCAAAACAACAATCAAAACA
1 ACCAAAATAACAATAAAAACA
26182572 GTAAAAAAGC
Statistics
Matches: 68, Mismatches: 17, Indels: 14
0.69 0.17 0.14
Matches are distributed among these distances:
22 1 0.01
23 34 0.50
24 30 0.44
25 2 0.03
26 1 0.01
ACGTcount: A:0.68, C:0.17, G:0.04, T:0.10
Consensus pattern (23 bp):
ACCAAAATAACAATAAAAACAAC
Found at i:26182546 original size:35 final size:35
Alignment explanation
Indices: 26182496--26182620 Score: 99
Period size: 35 Copynumber: 3.4 Consensus size: 35
26182486 AATAATAGAA
* *
26182496 AAAATAGTAACAAAAATAACAATAAAAACAACACC
1 AAAACAGTAAAAAAAATAACAATAAAAACAACACC
* * ** *
26182531 AAAATAGTAAAAAAAATAGC-ACCAAAACAACAATC
1 AAAACAGTAAAAAAAATAACAATAAAAACAAC-ACC
* *
26182566 AAAACAGTAAAAAAGCACCAAAACAGTAAAAACACAACACC
1 AAAACAGTAAAAAA--A--ATAACAAT-AAAA-ACAACACC
26182607 AAAACAGTAAAAAA
1 AAAACAGTAAAAAA
26182621 TAGCAACCAA
Statistics
Matches: 70, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
34 9 0.13
35 33 0.47
37 1 0.01
39 3 0.04
41 19 0.27
42 5 0.07
ACGTcount: A:0.67, C:0.18, G:0.06, T:0.09
Consensus pattern (35 bp):
AAAACAGTAAAAAAAATAACAATAAAAACAACACC
Found at i:26182609 original size:22 final size:20
Alignment explanation
Indices: 26182565--26182654 Score: 119
Period size: 22 Copynumber: 4.3 Consensus size: 20
26182555 AAACAACAAT
26182565 CAAAACAGT-AAAAAAGCAC
1 CAAAACAGTAAAAAAAGCAC
*
26182584 CAAAACAGTAAAAACACAACAC
1 CAAAACAGTAAAAA-A-AGCAC
26182606 CAAAACAGTAAAAAATAGCAAC
1 CAAAACAGTAAAAAA-AGC-AC
*
26182628 CAAAACAGCAAAAAAAGCAC
1 CAAAACAGTAAAAAAAGCAC
26182648 CAAAACA
1 CAAAACA
26182655 ACAATGTAAT
Statistics
Matches: 63, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
19 9 0.14
20 13 0.21
21 7 0.11
22 34 0.54
ACGTcount: A:0.64, C:0.23, G:0.08, T:0.04
Consensus pattern (20 bp):
CAAAACAGTAAAAAAAGCAC
Found at i:26191504 original size:17 final size:17
Alignment explanation
Indices: 26191482--26191515 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
26191472 TTCATAAAAC
26191482 TTTTTAAGAAAATAATA
1 TTTTTAAGAAAATAATA
*
26191499 TTTTTAAGATAATAATA
1 TTTTTAAGAAAATAATA
26191516 ACTTTTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
TTTTTAAGAAAATAATA
Found at i:26191521 original size:18 final size:17
Alignment explanation
Indices: 26191483--26191523 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
26191473 TCATAAAACT
*
26191483 TTTTAAGAAAATAATAT
1 TTTTAAGAAAATAATAC
*
26191500 TTTTAAGATAATAATAAC
1 TTTTAAGAAAATAAT-AC
26191518 TTTTAA
1 TTTTAA
26191524 AAGGAAAAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (17 bp):
TTTTAAGAAAATAATAC
Found at i:26191587 original size:19 final size:20
Alignment explanation
Indices: 26191559--26191600 Score: 77
Period size: 19 Copynumber: 2.1 Consensus size: 20
26191549 AGTTTTCGAG
26191559 AGAAAGAGAAGTTTTTTTTA
1 AGAAAGAGAAGTTTTTTTTA
26191579 AGAAA-AGAAGTTTTTTTTA
1 AGAAAGAGAAGTTTTTTTTA
26191598 AGA
1 AGA
26191601 GTGGGTGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.43, C:0.00, G:0.19, T:0.38
Consensus pattern (20 bp):
AGAAAGAGAAGTTTTTTTTA
Found at i:26191677 original size:3 final size:3
Alignment explanation
Indices: 26191659--26191699 Score: 66
Period size: 3 Copynumber: 13.7 Consensus size: 3
26191649 TAATTACCTT
26191659 TTA TTGA TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
26191700 TAAGAGTAGG
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.06
3 31 0.86
4 3 0.08
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:26194400 original size:3 final size:3
Alignment explanation
Indices: 26194394--26194453 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
26194384 TAACAACAAC
26194394 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
26194442 AAT AAT AAT AAT
1 AAT AAT AAT AAT
26194454 TACAGCATTA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:26195490 original size:162 final size:162
Alignment explanation
Indices: 26195290--26195639 Score: 571
Period size: 162 Copynumber: 2.2 Consensus size: 162
26195280 TTTTAATTGG
* * *
26195290 TTTTCAAATTAGTCCTTTGACTGTTTGACTGTACCAGAGGCTGCCACGTGTCATTTTTTGGTTTA
1 TTTTCAAATTAGTCCTTTGACTGTTTGACTGCACCAGAGGCTGCCACGTGTCACTTTTTAGTTTA
26195355 TTTATGTATCTAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTCAAATCAACTTTTGCTT
66 TTTATGTATCTAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTCAAATCAACTTTTGCTT
* * *
26195420 AATTACAATATTGACCCAGGAATCTTTT-GAGA
131 AATTACAAAATTGACCCAAGAAT-TTTTCAAGA
*
26195452 TTTTTAAATTAG-CCTTTTGACTGTTTGACTGCACCAGAGGCTGCCACGTGTCACTTTTTAGTTT
1 TTTTCAAATTAGTCC-TTTGACTGTTTGACTGCACCAGAGGCTGCCACGTGTCACTTTTTAGTTT
*
26195516 ATTTATGTATCTAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTCAAATCAACTTTTGTT
65 ATTTATGTATCTAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTCAAATCAACTTTTGCT
*
26195581 TAATTACAAAATTGGCCCAAGAATTTTTCAAGA
130 TAATTACAAAATTGACCCAAGAATTTTTCAAGA
*
26195614 TTTACAAATTAGTCCTTTGACT-TTTG
1 TTTTCAAATTAGTCCTTTGACTGTTTG
26195640 GATGCTTGTG
Statistics
Matches: 174, Mismatches: 11, Indels: 7
0.91 0.06 0.04
Matches are distributed among these distances:
161 10 0.06
162 162 0.93
163 2 0.01
ACGTcount: A:0.25, C:0.17, G:0.13, T:0.45
Consensus pattern (162 bp):
TTTTCAAATTAGTCCTTTGACTGTTTGACTGCACCAGAGGCTGCCACGTGTCACTTTTTAGTTTA
TTTATGTATCTAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTCAAATCAACTTTTGCTT
AATTACAAAATTGACCCAAGAATTTTTCAAGA
Found at i:26195737 original size:29 final size:28
Alignment explanation
Indices: 26195709--26196032 Score: 142
Period size: 29 Copynumber: 11.2 Consensus size: 28
26195699 AGATGGTCCA
26195709 AAAATTACCA-TTTACCCCTAAACTTTCC
1 AAAATT-CCATTTTACCCCTAAACTTTCC
* ***
26195737 AAAATTCCATTTTTA-ACCT-CGGTTTCACC
1 AAAATTCCA-TTTTACCCCTAAACTTT--CC
26195766 AAAAATTACCA-TTTACCCCTAAACTTTCC
1 -AAAATT-CCATTTTACCCCTAAACTTTCC
*
26195795 AAAATTCCATTTTCAGCCCC--GA-TTTCACC
1 AAAATTCCATTTT-A-CCCCTAAACTTT--CC
26195824 AAAAATTACCATTTTACCCCTAAACTTTCC
1 -AAAATT-CCATTTTACCCCTAAACTTTCC
* **
26195854 AAAATTCCATTTTCAACCCT--GGTTTCACC
1 AAAATTCCATTTT-ACCCCTAAACTTT--CC
** *
26195883 AAAAATTACCATTTTACCCCCGAACTTCCC
1 -AAAATT-CCATTTTACCCCTAAACTTTCC
*
26195913 AAAATTCCATTTT-----TAATTCCGTTTCACC
1 AAAATTCCATTTTACCCCTAA--AC-TTT--CC
*
26195941 AAAAATTACCATTTTACCCCTAAACTTTCT
1 -AAAATT-CCATTTTACCCCTAAACTTTCC
*
26195971 AAAATTCCATTTTAACCCC---AGTTTCAC
1 AAAATTCCATTTT-ACCCCTAAACTTTC-C
* *
26195998 CAAATTACCATCTTACCCCTAAACTTTCC
1 AAAATT-CCATTTTACCCCTAAACTTTCC
26196027 AAAATT
1 AAAATT
26196033 TTATTTCAAC
Statistics
Matches: 223, Mismatches: 30, Indels: 85
0.66 0.09 0.25
Matches are distributed among these distances:
23 1 0.00
25 1 0.00
26 7 0.03
27 25 0.11
28 48 0.22
29 61 0.27
30 47 0.21
31 21 0.09
32 8 0.04
33 1 0.00
35 3 0.01
ACGTcount: A:0.33, C:0.31, G:0.03, T:0.34
Consensus pattern (28 bp):
AAAATTCCATTTTACCCCTAAACTTTCC
Found at i:26195865 original size:59 final size:59
Alignment explanation
Indices: 26195706--26196132 Score: 534
Period size: 58 Copynumber: 7.4 Consensus size: 59
26195696 CCTAGATGGT
* * *
26195706 CCAAAAATTACCA-TTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCTCGGTTTCA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTCAACCCCGATTTCA
*
26195764 CCAAAAATTACCA-TTTACCCCTAAACTTTCCAAAATTCCATTTTCAGCCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTCAACCCCGATTTCA
* *
26195822 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTCAACCCTGGTTTCA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTCAACCCCGATTTCA
** * * **
26195881 CCAAAAATTACCATTTTACCCCCGAACTTCCCAAAATTCCATTTTTAATTCCG-TTTCA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTCAACCCCGATTTCA
*
26195939 CCAAAAATTACCATTTTACCCCTAAACTTTCTAAAATTCCATTTT-AACCCC-AGTTTCA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTCAACCCCGA-TTTCA
* ** * *
26195997 CC--AAATTACCATCTTACCCCTAAACTTTCCAAAATTTTA-TTTCAACCTCGATTTAA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTCAACCCCGATTTCA
* * *
26196053 CCAAAAATTACTATTTTA-CCCTCAAATTTTCCAAAATTCTC-TTTT-GACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCT-AAACTTTCCAAAATTC-CATTTTCAACCCCGATTTCA
* * *
26196111 TCGAAAATTACCATTTTGCCCC
1 CCAAAAATTACCATTTTACCCC
26196133 CGCGAGTCCA
Statistics
Matches: 320, Mismatches: 38, Indels: 21
0.84 0.10 0.06
Matches are distributed among these distances:
55 3 0.01
56 44 0.14
57 9 0.03
58 170 0.53
59 94 0.29
ACGTcount: A:0.32, C:0.30, G:0.03, T:0.34
Consensus pattern (59 bp):
CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTCAACCCCGATTTCA
Found at i:26195938 original size:117 final size:116
Alignment explanation
Indices: 26195706--26196133 Score: 539
Period size: 117 Copynumber: 3.7 Consensus size: 116
26195696 CCTAGATGGT
*
26195706 CCAAAAATTACCA-TTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCTCGGTTTCACCAAAA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCA-TTTTAACCCCGGTTTCACCAAAA
* *
26195770 ATTACCA-TTTACCCCTAAACTTTCCAAAATTCCATTTTCAGCCCCGATTTCA
65 ATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTCA-ACCCGATTTCA
*
26195822 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTCAACCCTGGTTTCACCAAAA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTT-AACCCCGGTTTCACCAAAA
* * * *
26195887 ATTACCATTTTACCCCCGAACTTCCCAAAATTCCATTTTTAATTCCG-TTTCA
65 ATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTCAA-CCCGATTTCA
* *
26195939 CCAAAAATTACCATTTTACCCCTAAACTTTCTAAAATTCCATTTTAACCCCAGTTTCACC--AAA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTAACCCCGGTTTCACCAAAAA
* * ** *
26196002 TTACCATCTTACCCCTAAACTTTCCAAAATTTTA-TTTCAACCTCGATTTAA
66 TTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTCAACC-CGATTTCA
* * * * * *
26196053 CCAAAAATTACTATTTTA-CCCTCAAATTTTCCAAAATTCTC-TTTTGACCCCGATTTCATCGAA
1 CCAAAAATTACCATTTTACCCCT-AAACTTTCCAAAATTC-CATTTTAACCCCGGTTTCACCAAA
*
26196116 AATTACCATTTTGCCCCC
64 AATTACCATTTTACCCCC
26196134 GCGAGTCCAA
Statistics
Matches: 272, Mismatches: 30, Indels: 20
0.84 0.09 0.06
Matches are distributed among these distances:
112 1 0.00
113 11 0.04
114 81 0.30
115 1 0.00
116 46 0.17
117 100 0.37
118 32 0.12
ACGTcount: A:0.32, C:0.30, G:0.03, T:0.34
Consensus pattern (116 bp):
CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTAACCCCGGTTTCACCAAAAA
TTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTCAACCCGATTTCA
Found at i:26196029 original size:28 final size:28
Alignment explanation
Indices: 26195943--26196029 Score: 83
Period size: 28 Copynumber: 3.1 Consensus size: 28
26195933 GTTTCACCAA
*
26195943 AAATTACCATTTTACCCCTAAACTTTCTA
1 AAATTACCATTTTACCCCTAAACTTTC-C
*
26195972 AAATT-CCATTTTAACCCC---AGTTTCACC
1 AAATTACCATTTT-ACCCCTAAACTTT--CC
*
26195999 AAATTACCATCTTACCCCTAAACTTTCC
1 AAATTACCATTTTACCCCTAAACTTTCC
26196027 AAA
1 AAA
26196030 ATTTTATTTC
Statistics
Matches: 47, Mismatches: 4, Indels: 15
0.71 0.06 0.23
Matches are distributed among these distances:
26 4 0.09
27 10 0.21
28 19 0.40
29 10 0.21
30 4 0.09
ACGTcount: A:0.34, C:0.31, G:0.01, T:0.33
Consensus pattern (28 bp):
AAATTACCATTTTACCCCTAAACTTTCC
Found at i:26201542 original size:55 final size:53
Alignment explanation
Indices: 26201482--26201625 Score: 146
Period size: 55 Copynumber: 2.6 Consensus size: 53
26201472 TCCCTACATT
* *
26201482 AGATAGTCCTCATGAACTTCCACAAAACATAGTCCTGGCGGACCTTT-CACATATC
1 AGATAGT-CT-ATGAACTTCCACATAAGATAGTCCTGGCGGA-CTTTCCACATATC
* * * *
26201537 AGATAGTCTTTGCAGACTTCCACATAAGATAATCTTGGTGGACTTTCCACATATC
1 AGATAGTCTATG-A-ACTTCCACATAAGATAGTCCTGGCGGACTTTCCACATATC
**
26201592 AGATAGTTCTTACAAACTTCCACATAAGATAGTC
1 AGATAG-TC-TATGAACTTCCACATAAGATAGTC
26201626 TTAGCAAACT
Statistics
Matches: 74, Mismatches: 10, Indels: 10
0.79 0.11 0.11
Matches are distributed among these distances:
53 2 0.03
54 7 0.09
55 61 0.82
56 3 0.04
57 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (53 bp):
AGATAGTCTATGAACTTCCACATAAGATAGTCCTGGCGGACTTTCCACATATC
Found at i:26201543 original size:29 final size:28
Alignment explanation
Indices: 26201510--26201598 Score: 92
Period size: 29 Copynumber: 3.2 Consensus size: 28
26201500 TCCACAAAAC
*
26201510 ATAGTCCTGGCGGACCTTTCACATATCAG
1 ATAGTCTTGGCGGA-CTTTCACATATCAG
* * *
26201539 ATAGTCTTTGCAGACTTCCACATA--AG
1 ATAGTCTTGGCGGACTTTCACATATCAG
* *
26201565 ATAATCTTGGTGGACTTTCCACATATCAG
1 ATAGTCTTGGCGGACTTT-CACATATCAG
26201594 ATAGT
1 ATAGT
26201599 TCTTACAAAC
Statistics
Matches: 47, Mismatches: 10, Indels: 6
0.75 0.16 0.10
Matches are distributed among these distances:
26 15 0.32
27 6 0.13
28 9 0.19
29 17 0.36
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.31
Consensus pattern (28 bp):
ATAGTCTTGGCGGACTTTCACATATCAG
Found at i:26201572 original size:26 final size:26
Alignment explanation
Indices: 26201537--26201644 Score: 92
Period size: 26 Copynumber: 4.0 Consensus size: 26
26201527 TTCACATATC
*
26201537 AGATAGTCTTTGCAGACTTCCACATA
1 AGATAGTCTTTGCAAACTTCCACATA
* * ***
26201563 AGATAATCTTGGTGGACTTTCCACATA
1 AGATAGTCTTTGCAAAC-TTCCACATA
*
26201590 TCAGATAGT-TCTTACAAACTTCCACATA
1 --AGATAGTCT-TTGCAAACTTCCACATA
*
26201618 AGATAGTCTTAGCAAACTTCTCACATA
1 AGATAGTCTTTGCAAACTTC-CACATA
26201645 TATGGTATTG
Statistics
Matches: 64, Mismatches: 12, Indels: 11
0.74 0.14 0.13
Matches are distributed among these distances:
26 29 0.45
27 16 0.25
28 10 0.16
29 9 0.14
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.31
Consensus pattern (26 bp):
AGATAGTCTTTGCAAACTTCCACATA
Found at i:26201643 original size:55 final size:54
Alignment explanation
Indices: 26201525--26201645 Score: 145
Period size: 55 Copynumber: 2.2 Consensus size: 54
26201515 CCTGGCGGAC
* * * ***
26201525 CTTTCACATATCAGATAGTCTTTGCAGACTTCCACATAAGATAATCTTGGTGGA
1 CTTTCACATATCAGATAGTCTTTACAAACTTCCACATAAGATAATCTTAGCAAA
*
26201579 CTTTCCACATATCAGATAGT-TCTTACAAACTTCCACATAAGATAGTCTTAGCAAA
1 CTTT-CACATATCAGATAGTCT-TTACAAACTTCCACATAAGATAATCTTAGCAAA
26201634 CTTCTCACATAT
1 CTT-TCACATAT
26201646 ATGGTATTGC
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
54 5 0.09
55 51 0.89
56 1 0.02
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.33
Consensus pattern (54 bp):
CTTTCACATATCAGATAGTCTTTACAAACTTCCACATAAGATAATCTTAGCAAA
Found at i:26205552 original size:18 final size:18
Alignment explanation
Indices: 26205521--26205571 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
26205511 TAAATGATAT
26205521 TTTTATTAAATAATAATA
1 TTTTATTAAATAATAATA
* *
26205539 TTTTAATAAGTAATAATA
1 TTTTATTAAATAATAATA
*
26205557 TTTTATTAATTAATA
1 TTTTATTAAATAATA
26205572 TTATAAAACA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
TTTTATTAAATAATAATA
Found at i:26208337 original size:19 final size:20
Alignment explanation
Indices: 26208283--26208337 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 20
26208273 TATAAAATTT
* * *
26208283 TACAAGAAAATATTGATAAA
1 TACAAGAATATAGTGAAAAA
*
26208303 TA-AAGCATATAGTGAAAAA
1 TACAAGAATATAGTGAAAAA
26208322 TACAAGAATATA-TGAA
1 TACAAGAATATAGTGAA
26208338 TTTTGTAGTC
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 19 0.66
20 10 0.34
ACGTcount: A:0.58, C:0.05, G:0.13, T:0.24
Consensus pattern (20 bp):
TACAAGAATATAGTGAAAAA
Found at i:26210052 original size:24 final size:24
Alignment explanation
Indices: 26209998--26210053 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
26209988 ATAATAGAAT
*
26209998 TTTTTAATTATAATGTTATTAATGA
1 TTTTT-ATAATAATGTTATTAATGA
* *
26210023 TATTTATAATAATGTT-TTAATTTA
1 TTTTTATAATAATGTTATTAA-TGA
26210047 TTTTTAT
1 TTTTTAT
26210054 CAATTAATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 4 0.15
24 18 0.69
25 4 0.15
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (24 bp):
TTTTTATAATAATGTTATTAATGA
Found at i:26214670 original size:44 final size:44
Alignment explanation
Indices: 26214620--26214734 Score: 167
Period size: 44 Copynumber: 2.6 Consensus size: 44
26214610 GGTATGCGGT
* * *
26214620 GTAAGACCATAGATGAAAGACGCTATGACAGCCAGATATAATGA
1 GTAAGACCATGGATGAAAGACACTATGACAGCCAAATATAATGA
* * *
26214664 GTAAGACCATGGATGAAAGACATTATAACAGCCAAATATGATGA
1 GTAAGACCATGGATGAAAGACACTATGACAGCCAAATATAATGA
*
26214708 GTAAGACCATGGATGAAAGACTCTATG
1 GTAAGACCATGGATGAAAGACACTATG
26214735 GCATCCACAT
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 62 1.00
ACGTcount: A:0.43, C:0.15, G:0.23, T:0.20
Consensus pattern (44 bp):
GTAAGACCATGGATGAAAGACACTATGACAGCCAAATATAATGA
Found at i:26216751 original size:30 final size:29
Alignment explanation
Indices: 26216713--26216772 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 29
26216703 GTTACACGAG
* *
26216713 AATAAGTTGCTCGCACAAGCTAACATTAT
1 AATAAGTTGCTCACACAAGATAACATTAT
26216742 AATAGAGTTGCTCACACAAGATAACATTAT
1 AATA-AGTTGCTCACACAAGATAACATTAT
26216772 A
1 A
26216773 TCGAGGTTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
29 4 0.14
30 24 0.86
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.27
Consensus pattern (29 bp):
AATAAGTTGCTCACACAAGATAACATTAT
Found at i:26228708 original size:12 final size:12
Alignment explanation
Indices: 26228693--26228727 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
26228683 GACTTTTTGT
*
26228693 TTTTATTTTCTA
1 TTTTATTTTATA
*
26228705 TTTTATTTTATC
1 TTTTATTTTATA
26228717 TTTTATTTTAT
1 TTTTATTTTAT
26228728 GCTCTCAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTATTTTATA
Found at i:26228715 original size:17 final size:17
Alignment explanation
Indices: 26228693--26228727 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
26228683 GACTTTTTGT
26228693 TTTTAT-TTTCTATTTTA
1 TTTTATCTTT-TATTTTA
26228710 TTTTATCTTTTATTTTA
1 TTTTATCTTTTATTTTA
26228727 T
1 T
26228728 GCTCTCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.82
18 3 0.18
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTATCTTTTATTTTA
Found at i:26229031 original size:13 final size:13
Alignment explanation
Indices: 26229015--26229053 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
26229005 GTGTGAAGGA
26229015 TATTAATCTAAAG
1 TATTAATCTAAAG
*
26229028 TATTAATCTAAAT
1 TATTAATCTAAAG
26229041 TAAATTAATCTAA
1 T--ATTAATCTAA
26229054 GTTAAAGCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 13 0.57
15 10 0.43
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.41
Consensus pattern (13 bp):
TATTAATCTAAAG
Found at i:26229049 original size:15 final size:15
Alignment explanation
Indices: 26229016--26229059 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
26229006 TGTGAAGGAT
*
26229016 ATTAATCTAAAGT--
1 ATTAATCTAAATTAA
26229029 ATTAATCTAAATTAA
1 ATTAATCTAAATTAA
*
26229044 ATTAATCTAAGTTAA
1 ATTAATCTAAATTAA
26229059 A
1 A
26229060 GCTAAAACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
13 12 0.44
15 15 0.56
ACGTcount: A:0.50, C:0.07, G:0.05, T:0.39
Consensus pattern (15 bp):
ATTAATCTAAATTAA
Found at i:26233488 original size:8 final size:7
Alignment explanation
Indices: 26233474--26233524 Score: 50
Period size: 7 Copynumber: 6.7 Consensus size: 7
26233464 AATTTAAAAT
26233474 AAATTAA
1 AAATTAA
26233481 AAAGTTAA
1 AAA-TTAA
26233489 TAAATTAAA
1 -AAATT-AA
26233498 TAAATTAA
1 -AAATTAA
26233506 AAATTAGA
1 AAATTA-A
26233514 AAA-TAA
1 AAATTAA
26233520 AAATT
1 AAATT
26233525 TCTTACCACC
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
6 4 0.10
7 12 0.31
8 12 0.31
9 11 0.28
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (7 bp):
AAATTAA
Found at i:26233490 original size:16 final size:16
Alignment explanation
Indices: 26233471--26233517 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
26233461 AATAATTTAA
*
26233471 AATAAATTAAAAAGTT
1 AATAAATTAAAAAATT
26233487 AATAAATTAAATAAATT
1 AATAAATTAAA-AAATT
*
26233504 AA-AAATTAGAAAAT
1 AATAAATTAAAAAAT
26233518 AAAAATTTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 4 0.14
16 18 0.64
17 6 0.21
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (16 bp):
AATAAATTAAAAAATT
Found at i:26233501 original size:9 final size:9
Alignment explanation
Indices: 26233470--26233506 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
26233460 TAATAATTTA
26233470 AAATAAATT
1 AAATAAATT
*
26233479 AAA-AAGTT
1 AAATAAATT
26233487 -AATAAATT
1 AAATAAATT
26233495 AAATAAATT
1 AAATAAATT
26233504 AAA
1 AAA
26233507 AATTAGAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
7 2 0.08
8 8 0.33
9 14 0.58
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (9 bp):
AAATAAATT
Found at i:26233504 original size:25 final size:26
Alignment explanation
Indices: 26233459--26233508 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 26
26233449 GTATGAAATA
*
26233459 TTAATAATTTAAAATAAATTAAAAAG
1 TTAATAAATTAAAATAAATTAAAAAG
26233485 TTAATAAATT-AAATAAATTAAAAA
1 TTAATAAATTAAAATAAATTAAAAA
26233509 TTAGAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 14 0.61
26 9 0.39
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (26 bp):
TTAATAAATTAAAATAAATTAAAAAG
Found at i:26233523 original size:25 final size:25
Alignment explanation
Indices: 26233459--26233521 Score: 76
Period size: 25 Copynumber: 2.5 Consensus size: 25
26233449 GTATGAAATA
*
26233459 TTAATAATTTAAAATAAATTAAAAAG
1 TTAATAA-ATAAAATAAATTAAAAAG
*
26233485 TTAATAAATTAAATAAATTAAAAA-
1 TTAATAAATAAAATAAATTAAAAAG
26233509 TTAGA-AAATAAAA
1 TTA-ATAAATAAAA
26233522 ATTTCTTACC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
24 10 0.30
25 16 0.48
26 7 0.21
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (25 bp):
TTAATAAATAAAATAAATTAAAAAG
Found at i:26238120 original size:15 final size:16
Alignment explanation
Indices: 26238095--26238126 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
26238085 AGTACATATG
26238095 CTCTCTTTTTCTTTTT
1 CTCTCTTTTTCTTTTT
26238111 CTCT-TTTTTCTTTTT
1 CTCTCTTTTTCTTTTT
26238126 C
1 C
26238127 ATTTCTCTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (16 bp):
CTCTCTTTTTCTTTTT
Found at i:26238122 original size:21 final size:22
Alignment explanation
Indices: 26238098--26238140 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
26238088 ACATATGCTC
* *
26238098 TCTTTTTC-TTTTTCTCTTTTT
1 TCTTTTTCATTTCTCTCCTTTT
26238119 TCTTTTTCATTTCTCTCCTTTT
1 TCTTTTTCATTTCTCTCCTTTT
26238141 GAGCATCATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.74
Consensus pattern (22 bp):
TCTTTTTCATTTCTCTCCTTTT
Found at i:26242788 original size:18 final size:18
Alignment explanation
Indices: 26242745--26242805 Score: 95
Period size: 18 Copynumber: 3.2 Consensus size: 18
26242735 TCCTTACGCC
26242745 TTTTTGATCTTTTTAATTTCA
1 TTTTT-ATC-TTTTAATTT-A
26242766 TTTTTATCTTTTAATTTA
1 TTTTTATCTTTTAATTTA
26242784 TTTTTATCTTTTAATTTA
1 TTTTTATCTTTTAATTTA
26242802 TTTT
1 TTTT
26242806 AATTTTACCC
Statistics
Matches: 40, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
18 23 0.57
19 9 0.22
20 3 0.08
21 5 0.12
ACGTcount: A:0.20, C:0.07, G:0.02, T:0.72
Consensus pattern (18 bp):
TTTTTATCTTTTAATTTA
Found at i:26243049 original size:20 final size:18
Alignment explanation
Indices: 26243017--26243067 Score: 66
Period size: 20 Copynumber: 2.7 Consensus size: 18
26243007 TTATTTACCT
26243017 TTTTTTATTTTTATTTTA
1 TTTTTTATTTTTATTTTA
*
26243035 TTTTTTACTTATTTATTTTG
1 TTTTTTA-TT-TTTATTTTA
*
26243055 TTGTTTATTTTTA
1 TTTTTTATTTTTA
26243068 GCATTTTTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 11 0.38
19 4 0.14
20 14 0.48
ACGTcount: A:0.16, C:0.02, G:0.04, T:0.78
Consensus pattern (18 bp):
TTTTTTATTTTTATTTTA
Found at i:26243192 original size:15 final size:16
Alignment explanation
Indices: 26243174--26243211 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
26243164 TTTTATATTA
*
26243174 TTATTTTTA-TTGCAT
1 TTATTTATATTTGCAT
26243189 TTA-TTATATTTGCAT
1 TTATTTATATTTGCAT
26243204 TTATTTAT
1 TTATTTAT
26243212 TGTTATTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 4 0.20
15 12 0.60
16 4 0.20
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.66
Consensus pattern (16 bp):
TTATTTATATTTGCAT
Found at i:26243223 original size:14 final size:13
Alignment explanation
Indices: 26243149--26243225 Score: 61
Period size: 14 Copynumber: 5.8 Consensus size: 13
26243139 TATATACATA
26243149 TATTTATTTATTT
1 TATTTATTTATTT
*
26243162 TATTT-TATATTAT
1 TATTTATTTATT-T
*
26243175 TA-TT-TTTATTG
1 TATTTATTTATTT
*
26243186 CATTTATTATATTT
1 TATTTATT-TATTT
*
26243200 GCATTTATTTATTGT
1 -TATTTATTTATT-T
26243215 TATTTATTTAT
1 TATTTATTTAT
26243226 CTTACCATTT
Statistics
Matches: 52, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
11 1 0.02
12 14 0.27
13 10 0.19
14 18 0.35
15 9 0.17
ACGTcount: A:0.25, C:0.03, G:0.04, T:0.69
Consensus pattern (13 bp):
TATTTATTTATTT
Found at i:26243224 original size:33 final size:32
Alignment explanation
Indices: 26243149--26243225 Score: 84
Period size: 33 Copynumber: 2.3 Consensus size: 32
26243139 TATATACATA
* * *
26243149 TATTTATTTATTTTATTTTATATTATTATTTT
1 TATTTATTTATTATATTTCATATTATTATTGT
*
26243181 TATTGCATTTATTATATTTGCAT-TTATTTATTGT
1 TATT-TATTTATTATATTT-CATATTA-TTATTGT
26243215 TATTTATTTAT
1 TATTTATTTAT
26243226 CTTACCATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
32 4 0.11
33 21 0.57
34 12 0.32
ACGTcount: A:0.25, C:0.03, G:0.04, T:0.69
Consensus pattern (32 bp):
TATTTATTTATTATATTTCATATTATTATTGT
Found at i:26245804 original size:40 final size:40
Alignment explanation
Indices: 26245759--26245846 Score: 176
Period size: 40 Copynumber: 2.2 Consensus size: 40
26245749 TGTCAATAAT
26245759 GATCAGCTGCTAACCCTCTGTTTCTAGGATAGTCTGACAA
1 GATCAGCTGCTAACCCTCTGTTTCTAGGATAGTCTGACAA
26245799 GATCAGCTGCTAACCCTCTGTTTCTAGGATAGTCTGACAA
1 GATCAGCTGCTAACCCTCTGTTTCTAGGATAGTCTGACAA
26245839 GATCAGCT
1 GATCAGCT
26245847 ACAAAGTGGT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (40 bp):
GATCAGCTGCTAACCCTCTGTTTCTAGGATAGTCTGACAA
Found at i:26248097 original size:1 final size:1
Alignment explanation
Indices: 26248091--26248174 Score: 69
Period size: 1 Copynumber: 84.0 Consensus size: 1
26248081 AAGCTATTTT
* * * * * * * * * *
26248091 AAAAAAAAAAAAAGAAAAAAGAAAAAAGAAAAAAGAAAAAAAGAAAAAAGAGAAAAGAGAAAAGA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
26248156 AAAAAAAAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAA
26248175 GGAGAGGTCG
Statistics
Matches: 61, Mismatches: 22, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 61 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (1 bp):
A
Found at i:26248133 original size:29 final size:29
Alignment explanation
Indices: 26248091--26248174 Score: 134
Period size: 29 Copynumber: 2.9 Consensus size: 29
26248081 AAGCTATTTT
26248091 AAAAAA-AAAAAAAGAAAAAAGAAAAAAG
1 AAAAAAGAAAAAAAGAAAAAAGAAAAAAG
*
26248119 AAAAAAGAAAAAAAGAAAAAAGAGAAAAG
1 AAAAAAGAAAAAAAGAAAAAAGAAAAAAG
* *
26248148 AGAAAAGAAAAAAAAAAAAAAGAAAAA
1 AAAAAAGAAAAAAAGAAAAAAGAAAAA
26248175 GGAGAGGTCG
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 6 0.12
29 45 0.88
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (29 bp):
AAAAAAGAAAAAAAGAAAAAAGAAAAAAG
Found at i:26248138 original size:36 final size:36
Alignment explanation
Indices: 26248091--26248174 Score: 134
Period size: 36 Copynumber: 2.4 Consensus size: 36
26248081 AAGCTATTTT
*
26248091 AAAAAAA-AAAAAAGAAAAAAGAAAAAAGAAAAAAG
1 AAAAAAAGAAAAAAGAAAAAAGAAAAAAGAAAAAAA
* *
26248126 AAAAAAAGAAAAAAGAGAAAAGAGAAAAGAAAAAAA
1 AAAAAAAGAAAAAAGAAAAAAGAAAAAAGAAAAAAA
26248162 AAAAAAAGAAAAA
1 AAAAAAAGAAAAA
26248175 GGAGAGGTCG
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
35 7 0.16
36 38 0.84
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (36 bp):
AAAAAAAGAAAAAAGAAAAAAGAAAAAAGAAAAAAA
Found at i:26248480 original size:21 final size:20
Alignment explanation
Indices: 26248456--26248510 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
26248446 GTTTACCTTT
*
26248456 TGTTTAGCAATTTTTGACCGA
1 TGTTT-GCAATTTTTGACCAA
*
26248477 TGTTTGCCATTTTTGACCAA
1 TGTTTGCAATTTTTGACCAA
*
26248497 TGTTTGCTATTTTT
1 TGTTTGCAATTTTT
26248511 AATCCTTTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
20 26 0.84
21 5 0.16
ACGTcount: A:0.18, C:0.15, G:0.16, T:0.51
Consensus pattern (20 bp):
TGTTTGCAATTTTTGACCAA
Found at i:26249734 original size:28 final size:28
Alignment explanation
Indices: 26249693--26249747 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
26249683 GATATCCGAT
26249693 TTACTCCCTATTGACCCAAAGGTCATGC
1 TTACTCCCTATTGACCCAAAGGTCATGC
*
26249721 TTACTCCCTGTTGACCCAAAGGTCATG
1 TTACTCCCTATTGACCCAAAGGTCATG
26249748 TCTATTACTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.29
Consensus pattern (28 bp):
TTACTCCCTATTGACCCAAAGGTCATGC
Found at i:26252402 original size:50 final size:49
Alignment explanation
Indices: 26252246--26252722 Score: 244
Period size: 50 Copynumber: 9.5 Consensus size: 49
26252236 GAATTATGGT
* * ** * *
26252246 AGCAAATCTTTATCTCTCTGAAGTTACAGTAAAGCAAGAAGAGGCTACAAA
1 AGCAAATC-TTATCCCT-TGAAGTTGCAGTGGAGCAAGATGAAGCTACAAA
* * * ** *
26252297 ACCAAATCCTATACCCTTGAAGTTGTAGTGG-G-TTGAATAAAGCTACAAA
1 AGCAAATCTTAT-CCCTTGAAGTTGCAGTGGAGCAAG-ATGAAGCTACAAA
*
26252346 AGCAAATCTTATCTCCTTGAAGTTGCAATGGAGCAAGATGAAGCTACAAA
1 AGCAAATCTTATC-CCTTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAA
* * * *** * *
26252396 ATCAAATTCTATAACCC-TGAAGTTGTAGTGG-GTTGGAT-AGATCTACAGA
1 AGCAAA-TCT-TATCCCTTGAAGTTGCAGTGGAGCAAGATGA-AGCTACAAA
* *
26252445 AGCAAATCTTTATCTCCTTGAAGTTGTAGTGGAGCAAGATGAAGCTATAAA
1 AGCAAATC-TTATC-CCTTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAA
* * * *
26252496 ATCAAAT-TCTATACCAC-TGAAGTTGCAGTGG-GTCGAA-TTAAAGCTACGAA
1 AGCAAATCT-TAT-CC-CTTGAAGTTGCAGTGGAG-C-AAGATGAAGCTACAAA
* * * *
26252546 AGAAAATCTTATCCCTCTGAAGTTGCAGTAGAGAAATATGAAGCTACAAA
1 AGCAAATCTTATCCCT-TGAAGTTGCAGTGGAGCAAGATGAAGCTACAAA
* * * * * * *
26252596 ATCAAATCCTATACCCTTAAAGTTGTAGT--AGTCGAA-TTGAAGCTATAGA
1 AGCAAATCTTAT-CCCTTGAAGTTGCAGTGGAG-C-AAGATGAAGCTACAAA
* * * *
26252645 AGCAAATCTTTATCTCCCTAAAGTTACAGTGGAGCAAGATG-AGACTACAAC
1 AGCAAATC-TTATC-CCTTGAAGTTGCAGTGGAGCAAGATGAAG-CTACAAA
* *
26252696 ACCAAATCCTATATCTC-TGAAGTTGCA
1 AGCAAAT-CT-TATCCCTTGAAGTTGCA
26252723 ATGGGTCGGA
Statistics
Matches: 321, Mismatches: 71, Indels: 69
0.70 0.15 0.15
Matches are distributed among these distances:
48 11 0.03
49 79 0.25
50 163 0.51
51 57 0.18
52 11 0.03
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.27
Consensus pattern (49 bp):
AGCAAATCTTATCCCTTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAA
Found at i:26252490 original size:100 final size:99
Alignment explanation
Indices: 26252246--26252782 Score: 532
Period size: 100 Copynumber: 5.4 Consensus size: 99
26252236 GAATTATGGT
* ** * * *
26252246 AGCAAATCTTTATCT-CTCTGAAGTTACAGTAAAGCAAGAAGAGGCTACAAAACCAAATCCTATA
1 AGCAAATCTTTATCTCCT-TGAAGTTGCAGTGGAGCAAGATGAAGCTACAAAATCAAATCCTATA
* * *
26252310 CCCTTGAAGTTGTAGTGGGTTGAATAAAGCTACAAA
65 CCC-TGAAGTTGTAGTGGGTCGAATAGAGCTACAGA
* *
26252346 AGCAAATC-TTATCTCCTTGAAGTTGCAATGGAGCAAGATGAAGCTACAAAATCAAATTCTATAA
1 AGCAAATCTTTATCTCCTTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAAATCAAATCCTAT-A
* * *
26252410 CCCTGAAGTTGTAGTGGGTTGGATAGATCTACAGA
65 CCCTGAAGTTGTAGTGGGTCGAATAGAGCTACAGA
* * *
26252445 AGCAAATCTTTATCTCCTTGAAGTTGTAGTGGAGCAAGATGAAGCTATAAAATCAAATTCTATAC
1 AGCAAATCTTTATCTCCTTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAAATCAAATCCTATAC
* *
26252510 CACTGAAGTTGCAGTGGGTCGAATTAAAGCTAC-GAA
66 C-CTGAAGTTGTAGTGGGTCGAA-TAGAGCTACAG-A
* * * *
26252546 AGAAAATC-TTATC-CCTCTGAAGTTGCAGTAGAGAAATATGAAGCTACAAAATCAAATCCTATA
1 AGCAAATCTTTATCTCCT-TGAAGTTGCAGTGGAGCAAGATGAAGCTACAAAATCAAATCCTATA
* * * *
26252609 CCCTTAAAGTTGTAGT-AGTCGAATTGAAGCTATAGA
65 CCC-TGAAGTTGTAGTGGGTCGAATAG-AGCTACAGA
* * * * *
26252645 AGCAAATCTTTATCTCCCTAAAGTTACAGTGGAGCAAGATG-AGACTACAACACCAAATCCTATA
1 AGCAAATCTTTATCTCCTTGAAGTTGCAGTGGAGCAAGATGAAG-CTACAAAATCAAATCCTATA
* * * * * * *
26252709 TCTCTGAAGTTGCAATGGGTCGGATTGAAGTTATAGA
65 -CCCTGAAGTTGTAGTGGGTCGAATAG-AGCTACAGA
* * *
26252746 AGCAAAT-TTTATCTCCCTGAAGATGCAGTGGGGCAAG
1 AGCAAATCTTTATCTCCTTGAAGTTGCAGTGGAGCAAG
26252783 TTCTATATCC
Statistics
Matches: 369, Mismatches: 53, Indels: 30
0.82 0.12 0.07
Matches are distributed among these distances:
98 1 0.00
99 107 0.29
100 218 0.59
101 43 0.12
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (99 bp):
AGCAAATCTTTATCTCCTTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAAATCAAATCCTATAC
CCTGAAGTTGTAGTGGGTCGAATAGAGCTACAGA
Found at i:26252621 original size:200 final size:199
Alignment explanation
Indices: 26252189--26252730 Score: 612
Period size: 200 Copynumber: 2.7 Consensus size: 199
26252179 GAAGGATCAA
* * * * * * *
26252189 TACAACATCAAATCCTATATCCTTAAAGTTGCAGTGGATTAGATTGAGAAT-TATGGTAGCAAAT
1 TACAAAATCAAATCCTATACCCTTAAAGTTGTAGTGGGTTGGA-T-AGAATCTATAGAAGCAAAT
** * *
26252253 CTTTATCT-CTCTGAAGTTACAGTAAAGCAAGAAGAGGCTACAAAACCAAATCCTATACCCTTGA
64 CTTTATCTCCT-TGAAGTTACAGTGGAGCAAGATGAAGCTACAAAACCAAATCCTATACCC-TGA
* * * * *
26252317 AGTTGTAGTGGGTTGAATAAAGCTACAAAAGCAAATCTTATCTCCTTGAAGTTGCAATGGAGCAA
127 AGTTGCAGTGGGTCGAATAAAGCTACAAAAGAAAATCTTATCTCCTTGAAGTTGCAATAGAGAAA
26252382 GATGAAGC
192 GATGAAGC
* * *
26252390 TACAAAATCAAATTCTATAACCC-TGAAGTTGTAGTGGGTTGGATAG-ATCTACAGAAGCAAATC
1 TACAAAATCAAATCCTAT-ACCCTTAAAGTTGTAGTGGGTTGGATAGAATCTATAGAAGCAAATC
** * * *
26252453 TTTATCTCCTTGAAGTTGTAGTGGAGCAAGATGAAGCTATAAAATCAAATTCTATACCACTGAAG
65 TTTATCTCCTTGAAGTTACAGTGGAGCAAGATGAAGCTACAAAACCAAATCCTATACC-CTGAAG
* *
26252518 TTGCAGTGGGTCGAATTAAAGCTACGAAAGAAAATCTTATC-CCTCTGAAGTTGCAGTAGAGAAA
129 TTGCAGTGGGTCGAA-TAAAGCTACAAAAGAAAATCTTATCTCCT-TGAAGTTGCAATAGAGAAA
*
26252582 TATGAAGC
192 GATGAAGC
* * * * *
26252590 TACAAAATCAAATCCTATACCCTTAAAGTTGTAGT-AGTCGAATTGAAGCTATAGAAGCAAATCT
1 TACAAAATCAAATCCTATACCCTTAAAGTTGTAGTGGGTTGGATAGAATCTATAGAAGCAAATCT
* * * *
26252654 TTATCTCCCTAAAGTTACAGTGGAGCAAGATG-AGACTACAACACCAAATCCTATATCTCTGAAG
66 TTATCTCCTTGAAGTTACAGTGGAGCAAGATGAAG-CTACAAAACCAAATCCTATA-CCCTGAAG
*
26252718 TTGCAATGGGTCG
129 TTGCAGTGGGTCG
26252731 GATTGAAGTT
Statistics
Matches: 286, Mismatches: 45, Indels: 21
0.81 0.13 0.06
Matches are distributed among these distances:
198 2 0.01
199 92 0.32
200 156 0.55
201 33 0.12
202 3 0.01
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (199 bp):
TACAAAATCAAATCCTATACCCTTAAAGTTGTAGTGGGTTGGATAGAATCTATAGAAGCAAATCT
TTATCTCCTTGAAGTTACAGTGGAGCAAGATGAAGCTACAAAACCAAATCCTATACCCTGAAGTT
GCAGTGGGTCGAATAAAGCTACAAAAGAAAATCTTATCTCCTTGAAGTTGCAATAGAGAAAGATG
AAGC
Found at i:26254393 original size:21 final size:21
Alignment explanation
Indices: 26254355--26254399 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
26254345 TCCTTTCGCC
26254355 TTTTTGATATTTTGAATTTCAT
1 TTTTTGATATTTTGAATTT-AT
* *
26254377 TTTTTTATCTTTT-AATTTAT
1 TTTTTGATATTTTGAATTTAT
26254397 TTT
1 TTT
26254400 AATTTTATCC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 5 0.24
22 11 0.52
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.71
Consensus pattern (21 bp):
TTTTTGATATTTTGAATTTAT
Found at i:26254659 original size:17 final size:16
Alignment explanation
Indices: 26254614--26254661 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
26254604 ATTTACCATT
26254614 TTTTATT-TTTATTTTA
1 TTTTATTATTTA-TTTA
*
26254630 TTTTATTACTTATTTA
1 TTTTATTATTTATTTA
*
26254646 TTTTGTTAATTTATTT
1 TTTTATT-ATTTATTT
26254662 TTAGCAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 17 0.63
17 10 0.37
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.75
Consensus pattern (16 bp):
TTTTATTATTTATTTA
Found at i:26254793 original size:19 final size:19
Alignment explanation
Indices: 26254749--26254800 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
26254739 ATACATAATG
**
26254749 TTATTTATTTTATTTTATA
1 TTATTTATTTTATTGCATA
26254768 TTA-TTATTTGTATTGCAT-
1 TTATTTATTT-TATTGCATA
26254786 TTATTTATTGTTATT
1 TTATTTATT-TTATT
26254801 TATTTATCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
18 9 0.32
19 18 0.64
20 1 0.04
ACGTcount: A:0.23, C:0.02, G:0.06, T:0.69
Consensus pattern (19 bp):
TTATTTATTTTATTGCATA
Found at i:26254805 original size:18 final size:17
Alignment explanation
Indices: 26254749--26254807 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 17
26254739 ATACATAATG
26254749 TTATTTATTTTATTTTAT
1 TTATTTATTTTA-TTTAT
*
26254767 ATTA-TTATTTGTATTGCAT
1 -TTATTTATTT-TATT-TAT
26254786 TTATTTATTGTTATTTAT
1 TTATTTATT-TTATTTAT
26254804 TTAT
1 TTAT
26254808 CTTACCATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
18 17 0.50
19 16 0.47
20 1 0.03
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.69
Consensus pattern (17 bp):
TTATTTATTTTATTTAT
Found at i:26254848 original size:16 final size:16
Alignment explanation
Indices: 26254799--26254837 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
26254789 TTTATTGTTA
** *
26254799 TTTATTTATCTTACCA
1 TTTATTTATCTTTTCT
26254815 TTTATTTATCTTTTCT
1 TTTATTTATCTTTTCT
26254831 TTTATTT
1 TTTATTT
26254838 TGTTTTACTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.18, C:0.13, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTATTTATCTTTTCT
Found at i:26256445 original size:44 final size:44
Alignment explanation
Indices: 26256395--26256556 Score: 234
Period size: 44 Copynumber: 3.7 Consensus size: 44
26256385 ATATGTCGAC
*
26256395 GAAGCCACCAAATTCGCATACAAGCTGCCATGTAGGTTGTGGAT
1 GAAGCCACCAAATTTGCATACAAGCTGCCATGTAGGTTGTGGAT
* * *
26256439 GAAGCCACCAAATTTGTAGACAAGCTGCCATGTAGGTTGTGGAC
1 GAAGCCACCAAATTTGCATACAAGCTGCCATGTAGGTTGTGGAT
* * * *
26256483 GAAGCCACCAAATTTGTAAACAAGCTACCATGTAAGTTGTGGAT
1 GAAGCCACCAAATTTGCATACAAGCTGCCATGTAGGTTGTGGAT
* *
26256527 GAAGCCACCAAATTTGCATTCAAGATGCCA
1 GAAGCCACCAAATTTGCATACAAGCTGCCA
26256557 AATCTTGCTC
Statistics
Matches: 105, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 105 1.00
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.23
Consensus pattern (44 bp):
GAAGCCACCAAATTTGCATACAAGCTGCCATGTAGGTTGTGGAT
Found at i:26259535 original size:9 final size:9
Alignment explanation
Indices: 26259521--26259545 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
26259511 GGTAAGCTAC
26259521 TGAAAATTT
1 TGAAAATTT
26259530 TGAAAATTT
1 TGAAAATTT
26259539 TGAAAAT
1 TGAAAAT
26259546 GCCTTAGGAT
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:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (9 bp):
TGAAAATTT
Found at i:26264352 original size:28 final size:30
Alignment explanation
Indices: 26264311--26264371 Score: 74
Period size: 28 Copynumber: 2.1 Consensus size: 30
26264301 TAATATTGTG
26264311 ATTAAATTCTCTAA-ATAAA-AAAACTAAA
1 ATTAAATTCTCTAACATAAAGAAAACTAAA
*
26264339 ATTAAATT-TCCTAATCTTAAAGAAAACTAAA
1 ATTAAATTCT-CTAA-CATAAAGAAAACTAAA
26264370 AT
1 AT
26264372 ACAGATTCCT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
27 1 0.04
28 12 0.43
30 4 0.14
31 11 0.39
ACGTcount: A:0.56, C:0.11, G:0.02, T:0.31
Consensus pattern (30 bp):
ATTAAATTCTCTAACATAAAGAAAACTAAA
Found at i:26268657 original size:17 final size:17
Alignment explanation
Indices: 26268635--26268693 Score: 68
Period size: 18 Copynumber: 3.4 Consensus size: 17
26268625 ATATATATAT
26268635 ATATATAAGTATTAGAAA
1 ATATATAAGTATTAG-AA
*
26268653 TATATATAAG-A-TAAAA
1 -ATATATAAGTATTAGAA
26268669 ATATAATAAGTATTAGAA
1 ATAT-ATAAGTATTAGAA
26268687 ATATATA
1 ATATATA
26268694 TTGATGCTGG
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
15 4 0.11
16 7 0.20
17 6 0.17
18 9 0.26
19 9 0.26
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (17 bp):
ATATATAAGTATTAGAA
Found at i:26268660 original size:2 final size:2
Alignment explanation
Indices: 26268599--26268641 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
26268589 TATGGCAAAG
26268599 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
26268641 A
1 A
26268642 AGTATTAGAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:26268678 original size:35 final size:37
Alignment explanation
Indices: 26268615--26268694 Score: 119
Period size: 35 Copynumber: 2.2 Consensus size: 37
26268605 ATATATATAT
* * *
26268615 ATATATATATATATATATATATATATAAGTATTAGAA
1 ATATATATATAGATAAAAATATATATAAGTATTAGAA
26268652 ATATATATA-AGATAAAAATATA-ATAAGTATTAGAA
1 ATATATATATAGATAAAAATATATATAAGTATTAGAA
26268687 ATATATAT
1 ATATATAT
26268695 TGATGCTGGA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
35 21 0.52
36 10 0.25
37 9 0.22
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (37 bp):
ATATATATATAGATAAAAATATATATAAGTATTAGAA
Found at i:26271956 original size:25 final size:25
Alignment explanation
Indices: 26271927--26271974 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
26271917 TAGGATTATT
26271927 ATTATATTGTTTAG-ATTTAATTTTA
1 ATTATATT-TTTAGAATTTAATTTTA
*
26271952 ATTATCTTTTTAGAATTTAATTT
1 ATTATATTTTTAGAATTTAATTT
26271975 GGATCAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.60
Consensus pattern (25 bp):
ATTATATTTTTAGAATTTAATTTTA
Found at i:26275441 original size:26 final size:26
Alignment explanation
Indices: 26275393--26275457 Score: 114
Period size: 26 Copynumber: 2.5 Consensus size: 26
26275383 GACCCTTGGC
26275393 CTTTCACCTACT-AAAAACTCTTGAT
1 CTTTCACCTACTAAAAAACTCTTGAT
*
26275418 CTTTCATCTACTAAAAAACTCTTGAT
1 CTTTCACCTACTAAAAAACTCTTGAT
26275444 CTTTCACCTACTAA
1 CTTTCACCTACTAA
26275458 CTACTAAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
25 11 0.30
26 26 0.70
ACGTcount: A:0.32, C:0.28, G:0.03, T:0.37
Consensus pattern (26 bp):
CTTTCACCTACTAAAAAACTCTTGAT
Found at i:26278912 original size:26 final size:26
Alignment explanation
Indices: 26278864--26278928 Score: 114
Period size: 26 Copynumber: 2.5 Consensus size: 26
26278854 GACCTTTGGC
26278864 CTTTCACCTACT-AAAAACTCTTGAT
1 CTTTCACCTACTAAAAAACTCTTGAT
*
26278889 CTTTCATCTACTAAAAAACTCTTGAT
1 CTTTCACCTACTAAAAAACTCTTGAT
26278915 CTTTCACCTACTAA
1 CTTTCACCTACTAA
26278929 CTACTAAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
25 11 0.30
26 26 0.70
ACGTcount: A:0.32, C:0.28, G:0.03, T:0.37
Consensus pattern (26 bp):
CTTTCACCTACTAAAAAACTCTTGAT
Found at i:26284014 original size:319 final size:318
Alignment explanation
Indices: 26283431--26284061 Score: 1046
Period size: 319 Copynumber: 2.0 Consensus size: 318
26283421 TCCAATCTGA
* * *
26283431 TATAACCAATTGGTATGGACAGAGACAACATGATTCTTATGAAAGTACACCTGTACAATTTGGAA
1 TATAACCAACTAGTATGGACAGAGACAACATGATTCTTATGAAAGGACACCTGTACAATTTGGAA
*
26283496 GAATATAAATATTCACAAGGAAAGAGAAAAAAGGGAGTATTTTTTGTACATTATCTTCTTCAACT
66 GAATATAAATATTCACAAGGAAAGAGAAAAAAGGGAGTATTTTTCGTACATTATCTTCTTCAACT
*
26283561 TATCCTTTGAAGCTTTTAGCTATGGCGGCTTAAGTCTCCTACGGGTGAACCGACGTGAAAGGGAT
131 TATCCTTTGAAGCTTTTAGCTATGGCGGCTTAAGTCTCCTACGGGTGAACCAACGTGAAAGGGAT
* **
26283626 ACAGATTAGCTCTTGATGAGGAGCCCTGAGTGCGACACAAGAAGGAATTGAGAGATCAAGTCAAG
196 ACAGATAAGCTCTTGAAAAGGAGCCCTGAGTGCGACACAAGAAGGAATTGAGAGATCAAGTCAAG
26283691 ATTGTCTAGGAATAGTATTCTCCACTTGTTTCTTTTATATTTCTTTTCTAAATGCTGG
261 ATTGTCTAGGAATAGTATTCTCCACTTGTTTCTTTTATATTTCTTTTCTAAATGCTGG
* *
26283749 TATAACCAACTAGTATGGACAGAGACAGCTTGATTCTTATGAAAGGACACCTGTACAATTTGGAA
1 TATAACCAACTAGTATGGACAGAGACAACATGATTCTTATGAAAGGACACCTGTACAATTTGGAA
* ** * * *
26283814 GAATTTAAATATTCTTAAGGAAAGAGAAAAAGAGGGAGTCTTTTTCGTGCATTATCTTCTTTAAC
66 GAATATAAATATTCACAAGGAAAGAGAAAAA-AGGGAGTATTTTTCGTACATTATCTTCTTCAAC
*
26283879 TTATCCTTTGAAGCTTTTGGCTATGGCGGCTTAAGTCTCCTACGGGTGAACCAACGTGAAAGGGA
130 TTATCCTTTGAAGCTTTTAGCTATGGCGGCTTAAGTCTCCTACGGGTGAACCAACGTGAAAGGGA
* * * * *
26283944 TGCAGATAAGCTCTTGAAAAGGAGCCTTGAGTGTGACACAAGAGGGAATTGAGAGATCAAGTCGA
195 TACAGATAAGCTCTTGAAAAGGAGCCCTGAGTGCGACACAAGAAGGAATTGAGAGATCAAGTCAA
*
26284009 GATTGTTTAGGAATAGTATTCTCCACTTGTTTCTTTTATATTTCTTTTCTAAA
260 GATTGTCTAGGAATAGTATTCTCCACTTGTTTCTTTTATATTTCTTTTCTAAA
26284062 AGTTGGTGAT
Statistics
Matches: 289, Mismatches: 23, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
318 88 0.30
319 201 0.70
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.32
Consensus pattern (318 bp):
TATAACCAACTAGTATGGACAGAGACAACATGATTCTTATGAAAGGACACCTGTACAATTTGGAA
GAATATAAATATTCACAAGGAAAGAGAAAAAAGGGAGTATTTTTCGTACATTATCTTCTTCAACT
TATCCTTTGAAGCTTTTAGCTATGGCGGCTTAAGTCTCCTACGGGTGAACCAACGTGAAAGGGAT
ACAGATAAGCTCTTGAAAAGGAGCCCTGAGTGCGACACAAGAAGGAATTGAGAGATCAAGTCAAG
ATTGTCTAGGAATAGTATTCTCCACTTGTTTCTTTTATATTTCTTTTCTAAATGCTGG
Found at i:26292112 original size:21 final size:21
Alignment explanation
Indices: 26292074--26292113 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
26292064 ATCTACTATT
**
26292074 GAGGAGGAAGTTGATGTTGGA
1 GAGGAGGAAGTCCATGTTGGA
*
26292095 GAGGAGGAAGTCCTTGTTG
1 GAGGAGGAAGTCCATGTTG
26292114 AAGATGTGAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.25, C:0.05, G:0.45, T:0.25
Consensus pattern (21 bp):
GAGGAGGAAGTCCATGTTGGA
Found at i:26297317 original size:24 final size:23
Alignment explanation
Indices: 26297271--26297317 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
26297261 AGTTCAAAGC
* *
26297271 TCAAATATTCAGAATTTGAAATT
1 TCAAATATTCAGAACTTCAAATT
*
26297294 TCAACATATTCAGAACTTCCAATT
1 TCAA-ATATTCAGAACTTCAAATT
26297318 GGAACACTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.36
Consensus pattern (23 bp):
TCAAATATTCAGAACTTCAAATT
Found at i:26298888 original size:34 final size:34
Alignment explanation
Indices: 26298845--26298915 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
26298835 TCCATTCGAT
26298845 TCTTCAAGCTACTCAACTCTCTATAAGATTACCC
1 TCTTCAAGCTACTCAACTCTCTATAAGATTACCC
26298879 TCTTCAAGCTACTCAACTCTCTATAAGATTACCC
1 TCTTCAAGCTACTCAACTCTCTATAAGATTACCC
26298913 TCT
1 TCT
26298916 AGTCGGACTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.28, C:0.32, G:0.06, T:0.34
Consensus pattern (34 bp):
TCTTCAAGCTACTCAACTCTCTATAAGATTACCC
Found at i:26306379 original size:28 final size:28
Alignment explanation
Indices: 26306245--26306388 Score: 87
Period size: 28 Copynumber: 5.1 Consensus size: 28
26306235 GAAGATCACT
** *
26306245 TTTAATAGAATT-AGCCATGAAGGCTTTC
1 TTTAATAG-ATTCAGCCACAAAGGCTTCC
* * ** *
26306273 TTTAACAGATTTAGGTACAAATGC-TCAC
1 TTTAATAGATTCAGCCACAAAGGCTTC-C
* * * *
26306301 TTGTAATAAAATCAGCCACTAAGGCTTCA
1 TT-TAATAGATTCAGCCACAAAGGCTTCC
* * * *
26306330 TTTAACAGATTTAGCGATAAAGGCTTCC
1 TTTAATAGATTCAGCCACAAAGGCTTCC
26306358 TTTAATAGATTCAGCCACAAAGG-TTCAC
1 TTTAATAGATTCAGCCACAAAGGCTTC-C
26306386 TTT
1 TTT
26306389 TGTAAACTAT
Statistics
Matches: 83, Mismatches: 28, Indels: 10
0.69 0.23 0.08
Matches are distributed among these distances:
27 7 0.08
28 58 0.70
29 16 0.19
30 2 0.02
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (28 bp):
TTTAATAGATTCAGCCACAAAGGCTTCC
Found at i:26308202 original size:28 final size:27
Alignment explanation
Indices: 26308171--26308273 Score: 89
Period size: 28 Copynumber: 3.7 Consensus size: 27
26308161 GTGTACTTGC
*
26308171 ACAAAGATAGCCACAAAGGCGTCATTGA
1 ACAAAGATAGCCACAAAGGCGTCCTT-A
* * * *
26308199 ACAATAGAAAGCCATAGAGGAGTCCTTAA
1 ACAA-AGATAGCCACAAAGGCGTCCTT-A
* * *
26308228 ACAAAGATGGTCAGAAAGGCGTCCTTA
1 ACAAAGATAGCCACAAAGGCGTCCTTA
*
26308255 AGAAAAGATAGCCACAAAG
1 A-CAAAGATAGCCACAAAG
26308274 CCATTTCCAT
Statistics
Matches: 57, Mismatches: 16, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
27 2 0.04
28 33 0.58
29 22 0.39
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.15
Consensus pattern (27 bp):
ACAAAGATAGCCACAAAGGCGTCCTTA
Found at i:26308545 original size:56 final size:56
Alignment explanation
Indices: 26308480--26308628 Score: 201
Period size: 56 Copynumber: 2.7 Consensus size: 56
26308470 CATACGATAT
*
26308480 CATACCCACCATGACTAGATCTTACACTATATGGTCTCCATTTCCCCATATGATGC
1 CATAGCCACCATGACTAGATCTTACACTATATGGTCTCCATTTCCCCATATGATGC
* * * *
26308536 CATTGCCACCATGACTA-AGTCTTACACTATATGGTTTTCATTTCCCCATATGATGT
1 CATAGCCACCATGACTAGA-TCTTACACTATATGGTCTCCATTTCCCCATATGATGC
* * * *
26308592 CATAGTCACCATGAATTGTTCTTACACTATATGGTCT
1 CATAGCCACCATGACTAGATCTTACACTATATGGTCT
26308629 TGGATTGTCA
Statistics
Matches: 80, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
55 1 0.01
56 79 0.99
ACGTcount: A:0.26, C:0.27, G:0.12, T:0.35
Consensus pattern (56 bp):
CATAGCCACCATGACTAGATCTTACACTATATGGTCTCCATTTCCCCATATGATGC
Found at i:26337430 original size:17 final size:18
Alignment explanation
Indices: 26337392--26337430 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
26337382 CGTATTTTTA
*
26337392 TTGTCTTTGCATTTCATT
1 TTGTCTCTGCATTTCATT
26337410 TTGTCTCTGCATTTC-TT
1 TTGTCTCTGCATTTCATT
26337427 TTGT
1 TTGT
26337431 TAGCTTAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.08, C:0.18, G:0.13, T:0.62
Consensus pattern (18 bp):
TTGTCTCTGCATTTCATT
Found at i:26354546 original size:15 final size:16
Alignment explanation
Indices: 26354526--26354569 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
26354516 ATATCTCCCA
26354526 ATCTTCATAATATA-C
1 ATCTTCATAATATATC
26354541 ATCTTCATAA-ATATC
1 ATCTTCATAATATATC
*
26354556 ATCATCATAGATAT
1 ATCTTCATA-ATAT
26354570 TGTCATCATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 3 0.12
15 19 0.76
16 1 0.04
17 2 0.08
ACGTcount: A:0.41, C:0.18, G:0.02, T:0.39
Consensus pattern (16 bp):
ATCTTCATAATATATC
Found at i:26361766 original size:43 final size:43
Alignment explanation
Indices: 26361690--26361957 Score: 317
Period size: 43 Copynumber: 6.3 Consensus size: 43
26361680 TTATTTGAAA
* * *
26361690 AAACACCGCTATAGAACATGGTCTTTAGTGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCAC
* *
26361733 AAACGCAC-CTAAAGAACAAGGTCTTTAGCGGCGCTTTCCCCAC
1 AAACGC-CGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCAC
* * *
26361776 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCACTTTCCCCAT
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCAC
* * *
26361819 AAATGCCGCTAAAGAACAT-ATCTTTAGTGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCAC
* * * *
26361861 AAACGCCGCTAAAGAACATGATCTTTAACGGCACTTTTCTCAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCAC
* * * * *
26361904 AAATGCCGCTAAAGGATATGATCTTTAGCGACGC-TTTCCCAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCAC
*
26361946 AAACGCCACTAA
1 AAACGCCGCTAA
26361958 CATTAAGAAA
Statistics
Matches: 194, Mismatches: 28, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
42 54 0.28
43 139 0.72
44 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCAC
Found at i:26361868 original size:85 final size:85
Alignment explanation
Indices: 26361690--26361957 Score: 335
Period size: 85 Copynumber: 3.1 Consensus size: 85
26361680 TTATTTGAAA
* * * * *
26361690 AAACACCGCTATAGAACATGGTCTTTAGTGGCGCTTTTCCCACAAACGCAC-CTAAAGAACA-AG
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCACTTTTCCCACAAATGC-CGCTAAAGAACATA-
*
26361753 GTCTTTAGCGGCGCTTTCCCCAC
64 -TCTTTAGCGGCGCTTTTCCCAC
* *
26361776 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCACTTTCCCCATAAATGCCGCTAAAGAACATATC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCACTTTTCCCACAAATGCCGCTAAAGAACATATC
*
26361841 TTTAGTGGCGCTTTTCCCAC
66 TTTAGCGGCGCTTTTCCCAC
* * * * *
26361861 AAACGCCGCTAAAGAACATGATCTTTAACGGCACTTTTCTCACAAATGCCGCTAAAGGATATGAT
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCACTTTTCCCACAAATGCCGCTAAAGAACAT-AT
*
26361926 CTTTAGCGACGC-TTTCCCAC
65 CTTTAGCGGCGCTTTTCCCAC
*
26361946 AAACGCCACTAA
1 AAACGCCGCTAA
26361958 CATTAAGAAA
Statistics
Matches: 160, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
85 95 0.59
86 64 0.40
87 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (85 bp):
AAACGCCGCTAAAGAACATGGTCTTTAGCGGCACTTTTCCCACAAATGCCGCTAAAGAACATATC
TTTAGCGGCGCTTTTCCCAC
Found at i:26361886 original size:128 final size:129
Alignment explanation
Indices: 26361695--26361943 Score: 349
Period size: 128 Copynumber: 1.9 Consensus size: 129
26361685 TGAAAAAACA
* * *
26361695 CCGCTATAGAACATGGTCTTTAGTGGCGCTTTTCCCACAAACGCACCTAAAGAACAAGGTCTTTA
1 CCGCTAAAGAACATGATCTTTAGTGGCGCTTTTCCCACAAACGCACCTAAAGAACAAGATCTTTA
* * * *
26361760 GCGGCGCTTTCCCCACAAACGCCGCTAAAGAACATGGTCTTTAGCGGCACTTTCCCCATAAATG
66 ACGGCACTTTCCCCACAAACGCCGCTAAAGAACATGATCTTTAGCGACACTTTCCCCATAAATG
*
26361824 CCGCTAAAGAACAT-ATCTTTAGTGGCGCTTTTCCCACAAACGC-CGCTAAAGAACATGATCTTT
1 CCGCTAAAGAACATGATCTTTAGTGGCGCTTTTCCCACAAACGCAC-CTAAAGAACAAGATCTTT
* * * * * *
26361887 AACGGCACTTTTCTCACAAATGCCGCTAAAGGATATGATCTTTAGCGACGCTTTCCC
65 AACGGCACTTTCCCCACAAACGCCGCTAAAGAACATGATCTTTAGCGACACTTTCCC
26361944 ACAAACGCCA
Statistics
Matches: 105, Mismatches: 14, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
127 1 0.01
128 91 0.87
129 13 0.12
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.26
Consensus pattern (129 bp):
CCGCTAAAGAACATGATCTTTAGTGGCGCTTTTCCCACAAACGCACCTAAAGAACAAGATCTTTA
ACGGCACTTTCCCCACAAACGCCGCTAAAGAACATGATCTTTAGCGACACTTTCCCCATAAATG
Found at i:26365361 original size:41 final size:41
Alignment explanation
Indices: 26365299--26365670 Score: 451
Period size: 41 Copynumber: 9.1 Consensus size: 41
26365289 AAAATCCACT
* *
26365299 TTTAGTGGCGC-TTCCCTACAAGCGCCGCTAATGCTTTGACC
1 TTTAGCGGCGCTTTCCC-ACAAGCGCCGCTAATGCTCTGACC
* *
26365340 TTTAGCGGCGCTTTCCCACAAGCGCCGCTATTTCTCTGACC
1 TTTAGCGGCGCTTTCCCACAAGCGCCGCTAATGCTCTGACC
* *
26365381 TTTAGCGGCGCTTTACTACAAGCGCCGCTAATGCTCTGACC
1 TTTAGCGGCGCTTTCCCACAAGCGCCGCTAATGCTCTGACC
* * * *
26365422 TTTAACGGTGCTTTCCTATAAGCGCCGCTAATGCTCTGACC
1 TTTAGCGGCGCTTTCCCACAAGCGCCGCTAATGCTCTGACC
* * * *
26365463 TTTAGCTGCGCTTTACCACAAGCGTCGCTAATGCTTTGACC
1 TTTAGCGGCGCTTTCCCACAAGCGCCGCTAATGCTCTGACC
* ** *
26365504 TTTAACGGCGCTTTCCTGCAAGCGCCGCTAATTCTCTGACC
1 TTTAGCGGCGCTTTCCCACAAGCGCCGCTAATGCTCTGACC
* * * *
26365545 TTTAGCGACGCTTTTCCACAAGTGCCGCTAATGCTCTAACC
1 TTTAGCGGCGCTTTCCCACAAGCGCCGCTAATGCTCTGACC
* * *
26365586 TTTAGCGGTGCTTTCCCATAAGCGCCGCTAATGCTCTAACC
1 TTTAGCGGCGCTTTCCCACAAGCGCCGCTAATGCTCTGACC
** * *
26365627 TTTTATTGGCGCTTTCCCATAAGCGCCGCTAATGCT-TTACC
1 -TTTAGCGGCGCTTTCCCACAAGCGCCGCTAATGCTCTGACC
26365668 TTT
1 TTT
26365671 TGTGGCGTTT
Statistics
Matches: 284, Mismatches: 45, Indels: 5
0.85 0.13 0.01
Matches are distributed among these distances:
40 3 0.01
41 244 0.86
42 37 0.13
ACGTcount: A:0.18, C:0.31, G:0.19, T:0.31
Consensus pattern (41 bp):
TTTAGCGGCGCTTTCCCACAAGCGCCGCTAATGCTCTGACC
Found at i:26369381 original size:12 final size:12
Alignment explanation
Indices: 26369344--26369399 Score: 51
Period size: 13 Copynumber: 4.5 Consensus size: 12
26369334 TGATTTTGTT
*
26369344 TTTCTTTATATA
1 TTTCTTTATTTA
26369356 TTT-TTTATTATA
1 TTTCTTTATT-TA
*
26369368 TTTCTTTGTTTA
1 TTTCTTTATTTA
*
26369380 TTCTCATTATTTA
1 TT-TCTTTATTTA
26369393 TGTTCTT
1 T-TTCTT
26369400 ATTATTAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
11 5 0.14
12 12 0.34
13 17 0.49
14 1 0.03
ACGTcount: A:0.18, C:0.09, G:0.04, T:0.70
Consensus pattern (12 bp):
TTTCTTTATTTA
Found at i:26372551 original size:17 final size:18
Alignment explanation
Indices: 26372529--26372566 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
26372519 AACTAAATTA
26372529 ACAAAAT-AAATGCAATG
1 ACAAAATAAAATGCAATG
26372546 ACAAAATAAAATGCAATG
1 ACAAAATAAAATGCAATG
26372564 ACA
1 ACA
26372567 GTAAAAACGC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.61, C:0.13, G:0.11, T:0.16
Consensus pattern (18 bp):
ACAAAATAAAATGCAATG
Found at i:26374876 original size:15 final size:15
Alignment explanation
Indices: 26374856--26374884 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
26374846 AAATTAAAAC
26374856 GAAACAAGTAAAAGT
1 GAAACAAGTAAAAGT
26374871 GAAACAAGTAAAAG
1 GAAACAAGTAAAAG
26374885 AAAATGTAAA
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:0.62, C:0.07, G:0.21, T:0.10
Consensus pattern (15 bp):
GAAACAAGTAAAAGT
Found at i:26381619 original size:26 final size:26
Alignment explanation
Indices: 26381590--26381645 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
26381580 AATTTAATTC
26381590 CTTCAGCTCTTGATGATTTCTTCCAT
1 CTTCAGCTCTTGATGATTTCTTCCAT
**
26381616 CTTCTTCTCTTGATGATTTCTTCCAT
1 CTTCAGCTCTTGATGATTTCTTCCAT
26381642 CTTC
1 CTTC
26381646 TTTCTTCTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.12, C:0.29, G:0.09, T:0.50
Consensus pattern (26 bp):
CTTCAGCTCTTGATGATTTCTTCCAT
Found at i:26381646 original size:26 final size:26
Alignment explanation
Indices: 26381596--26381651 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
26381586 ATTCCTTCAG
26381596 CTCTTGATGATTTCTTCCATCTTCTT
1 CTCTTGATGATTTCTTCCATCTTCTT
26381622 CTCTTGATGATTTCTTCCATCTTCTT
1 CTCTTGATGATTTCTTCCATCTTCTT
26381648 -TCTT
1 CTCTT
26381652 CTATTTATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 4 0.13
26 26 0.87
ACGTcount: A:0.11, C:0.27, G:0.07, T:0.55
Consensus pattern (26 bp):
CTCTTGATGATTTCTTCCATCTTCTT
Found at i:26384040 original size:18 final size:18
Alignment explanation
Indices: 26384014--26384049 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
26384004 AGAACATTTG
26384014 ATTGAAAAAAAAAAGAAA
1 ATTGAAAAAAAAAAGAAA
* *
26384032 ATTGGAAAAAAGAAGAAA
1 ATTGAAAAAAAAAAGAAA
26384050 GAAAAAAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.17, T:0.11
Consensus pattern (18 bp):
ATTGAAAAAAAAAAGAAA
Found at i:26387253 original size:39 final size:39
Alignment explanation
Indices: 26387077--26387255 Score: 148
Period size: 38 Copynumber: 4.6 Consensus size: 39
26387067 AGAGAAATAT
* * *
26387077 TGATTGTACTGAATGTTTGCTCAAATAAGAGATAACTAC
1 TGATTATACTGAATGCTTGCTCAAATGAGAGATAACTAC
* * * *
26387116 TGATTATACTGAATGCTTGCTCAAGTGAGTGA-ATCCAC
1 TGATTATACTGAATGCTTGCTCAAATGAGAGATAACTAC
* * * * *
26387154 TGATTATACTAAATTCTTGCTCAAGTGAGCA-A-ATCCAC
1 TGATTATACTGAATGCTTGCTCAAATGAG-AGATAACTAC
* * * * *
26387192 TAATTTTACTGAATGTTTGCTCAAATGAGTGATAACTAT
1 TGATTATACTGAATGCTTGCTCAAATGAGAGATAACTAC
* * *
26387231 TGGTTCTACTAAATGCTTGCTCAAA
1 TGATTATACTGAATGCTTGCTCAAA
26387256 CGAGCATTAG
Statistics
Matches: 112, Mismatches: 25, Indels: 6
0.78 0.17 0.04
Matches are distributed among these distances:
38 62 0.55
39 50 0.45
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (39 bp):
TGATTATACTGAATGCTTGCTCAAATGAGAGATAACTAC
Found at i:26399377 original size:28 final size:28
Alignment explanation
Indices: 26399346--26399423 Score: 84
Period size: 29 Copynumber: 2.8 Consensus size: 28
26399336 CGAATATCTG
26399346 AAAGGAAAGCCTTTGTGGCAAACCTCTA
1 AAAGGAAAGCCTTTGTGGCAAACCTCTA
** * **
26399374 AAAGGAAAAGTTTTTATGGTGAACCTCTA
1 AAAGG-AAAGCCTTTGTGGCAAACCTCTA
* *
26399403 AAAAGAAAGCCCTTGTGGCAA
1 AAAGGAAAGCCTTTGTGGCAA
26399424 TTTCAAAAAA
Statistics
Matches: 37, Mismatches: 12, Indels: 2
0.73 0.24 0.04
Matches are distributed among these distances:
28 15 0.41
29 22 0.59
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (28 bp):
AAAGGAAAGCCTTTGTGGCAAACCTCTA
Found at i:26414098 original size:137 final size:138
Alignment explanation
Indices: 26413851--26414129 Score: 465
Period size: 137 Copynumber: 2.0 Consensus size: 138
26413841 TTTTCAAAGG
26413851 GTTAAGAAAGTATGAACAGATACTACCATGTAATCACATCAGTATATTAAAAAAAAATGAATACA
1 GTTAAGAAAGTATGAACAGATACTA-CATGTAATCACATCAGTATATTAAAAAAAAATGAATACA
* * *
26413916 TTGAATCCAACAAGTGTGGCTCCAGTGGAAAAGAGTATGTTATTCATCCTAAAGGTTC-CGGGTT
65 TTGAATCCAACAAG-GTGGCTCCAGTGGAAAAGAGGATGTTATTCATCCT-AAGGATCTCAGGTT
*
26413980 CGAGCACCTGT
128 CAAGCACCTGT
26413991 GTTAAGAAAGTATGAACAGATACT-CATGTAATCACATCAGTATATTCAAAAAAAAATGAATACA
1 GTTAAGAAAGTATGAACAGATACTACATGTAATCACATCAGTATATT-AAAAAAAAATGAATACA
26414055 TTGAATCCAACAA-GTGGCTCCAGTGGAAAAGAGGATGTTATTCATCCTAAGGATCTCAGGTTCA
65 TTGAATCCAACAAGGTGGCTCCAGTGGAAAAGAGGATGTTATTCATCCTAAGGATCTCAGGTTCA
26414119 AGCACCTGT
130 AGCACCTGT
26414128 GT
1 GT
26414130 GTGCAAGGTG
Statistics
Matches: 133, Mismatches: 4, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
136 6 0.05
137 51 0.38
138 22 0.17
139 30 0.23
140 24 0.18
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.26
Consensus pattern (138 bp):
GTTAAGAAAGTATGAACAGATACTACATGTAATCACATCAGTATATTAAAAAAAAATGAATACAT
TGAATCCAACAAGGTGGCTCCAGTGGAAAAGAGGATGTTATTCATCCTAAGGATCTCAGGTTCAA
GCACCTGT
Found at i:26415996 original size:29 final size:29
Alignment explanation
Indices: 26415929--26416000 Score: 74
Period size: 29 Copynumber: 2.5 Consensus size: 29
26415919 TTATAATTTG
* * * * *
26415929 AATTTATTTAAT-TTTTTAATAGTATAAT
1 AATTAATTTAATCTATTTAATAATAAAAA
* *
26415957 AACTAAATTAATCTATTTAATAATAAAAA
1 AATTAATTTAATCTATTTAATAATAAAAA
26415986 AATTAATTTAATCTA
1 AATTAATTTAATCTA
26416001 ATTTTTCCAA
Statistics
Matches: 34, Mismatches: 9, Indels: 1
0.77 0.20 0.02
Matches are distributed among these distances:
28 9 0.26
29 25 0.74
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.46
Consensus pattern (29 bp):
AATTAATTTAATCTATTTAATAATAAAAA
Found at i:26420302 original size:136 final size:136
Alignment explanation
Indices: 26419957--26420360 Score: 735
Period size: 136 Copynumber: 3.0 Consensus size: 136
26419947 TTATATTGTT
* *
26419957 TTCCTCTGTTGGTCTGCCATTAGAAGGTTAGGAATTTCTCATCAGTGGCAATTCCATGCATTTCT
1 TTCCTCTGTTGGTCTGCTATTAGAAGGTTAGGAATTTCTCATCAGCGGCAATTCCATGCATTTCT
26420022 CGCTTCAAAGTTTTACATGGTGCATTAATTTAACTCCAATGAAATCCATATATTGA-T-T-G-TG
66 CGCTTCAAAGTTTTACATGGTGCATTAATTTAACTCCAATGAAATCCATATATTGATTGTGGATG
26420083 GACATA
131 GACATA
*
26420089 TTCCTCTGTTGGTCTGCTATTAGAAGGTTAGGAATTTCTCATCAGCAGCAATTCCATGCATTTCT
1 TTCCTCTGTTGGTCTGCTATTAGAAGGTTAGGAATTTCTCATCAGCGGCAATTCCATGCATTTCT
*
26420154 CGCTTCAAAGTTTTACATGGTGCATTAATTTAACTCCAATGAAATCCATTTATTGATTGTGGATG
66 CGCTTCAAAGTTTTACATGGTGCATTAATTTAACTCCAATGAAATCCATATATTGATTGTGGATG
26420219 GACATA
131 GACATA
*
26420225 TTCCTCTGTTGGTCTGCTATTAGAAGGTTAGGAATTTCTCACCAGCGGCAATTCCATGCATTTCT
1 TTCCTCTGTTGGTCTGCTATTAGAAGGTTAGGAATTTCTCATCAGCGGCAATTCCATGCATTTCT
26420290 CGCTTCAAAGTTTTACATGGTGCATTAATTTAACTCCAATGAAATCCATATATTGATTGTGGATG
66 CGCTTCAAAGTTTTACATGGTGCATTAATTTAACTCCAATGAAATCCATATATTGATTGTGGATG
26420355 GACATA
131 GACATA
26420361 ATTCACTTAT
Statistics
Matches: 261, Mismatches: 7, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
132 117 0.45
133 1 0.00
134 1 0.00
135 1 0.00
136 141 0.54
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (136 bp):
TTCCTCTGTTGGTCTGCTATTAGAAGGTTAGGAATTTCTCATCAGCGGCAATTCCATGCATTTCT
CGCTTCAAAGTTTTACATGGTGCATTAATTTAACTCCAATGAAATCCATATATTGATTGTGGATG
GACATA
Found at i:26422278 original size:3 final size:3
Alignment explanation
Indices: 26422221--26422259 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
26422211 GAACATTTCT
26422221 TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
26422260 GACATCATGG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:26426625 original size:23 final size:22
Alignment explanation
Indices: 26426595--26426640 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
26426585 ATCTGCAAAA
* *
26426595 AGAGGAAACAGAGAGCCAAGAC
1 AGAGGAAACAAAGAACCAAGAC
*
26426617 AGAGAGAAATAAAGAACCAAGAC
1 AGAG-GAAACAAAGAACCAAGAC
26426640 A
1 A
26426641 AAGACAATAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.57, C:0.15, G:0.26, T:0.02
Consensus pattern (22 bp):
AGAGGAAACAAAGAACCAAGAC
Found at i:26428272 original size:107 final size:106
Alignment explanation
Indices: 26428080--26428285 Score: 315
Period size: 107 Copynumber: 1.9 Consensus size: 106
26428070 GGTAATGTTC
*
26428080 TTTTATTTAGGGAATTCGAGAAATTGTGCTCAAACATACTGTGTATGATTTTTCTTTGAACCTAA
1 TTTTATTTAGGGAATTCGAGAAATTGTGCTCAAACATACTGGGTATGATTTTTCTTTGAACCTAA
*
26428145 ATAATCGAGTATCTTATTTAAAATCAATAAATGTTTGATTTT
66 ATAATCGAGTATCCTATTT-AAATCAATAAATGTTTGATTTT
* * **
26428187 TTTTATTTAGGGAATTCGAGAAATTGTGCTCAAACGTACTGGGTATGATTTTT-TTTTAATTTAA
1 TTTTATTTAGGGAATTCGAGAAATTGTGCTCAAACATACTGGGTATGATTTTTCTTTGAACCTAA
* *
26428251 ATATTTGAGTATCCTATTTTAAATCAATAAATGTT
66 ATAATCGAGTATCCTA-TTTAAATCAATAAATGTT
26428286 CTTTATTTTC
Statistics
Matches: 90, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
106 36 0.40
107 54 0.60
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.44
Consensus pattern (106 bp):
TTTTATTTAGGGAATTCGAGAAATTGTGCTCAAACATACTGGGTATGATTTTTCTTTGAACCTAA
ATAATCGAGTATCCTATTTAAATCAATAAATGTTTGATTTT
Found at i:26431082 original size:21 final size:21
Alignment explanation
Indices: 26431049--26431089 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
26431039 GTTGAGAAGG
* *
26431049 CTGATCTAAAAGCTCGAATAA
1 CTGAGCTAAAAGCCCGAATAA
*
26431070 CTGAGCTAGAAGCCCGAATA
1 CTGAGCTAAAAGCCCGAATA
26431090 GTCAAGCTAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.20
Consensus pattern (21 bp):
CTGAGCTAAAAGCCCGAATAA
Found at i:26439777 original size:42 final size:42
Alignment explanation
Indices: 26439726--26440454 Score: 731
Period size: 42 Copynumber: 17.9 Consensus size: 42
26439716 GCGAAGCTAC
* *
26439726 CATCCAATCTCTTACCCCGATCATGTGGCAGATTAAAGACAT
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
* * * * *
26439768 TATTCAATCTCTTACCTCGATCATGAGGCAAATTGAAGACAT
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
*
26439810 CATCCAATCTCTTACCCCGACCATGGGGCAGATTG-A-A-AT
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
* * * **
26439849 -ATCCGATTTTTTACCCTAATCA-GAGGGCAGATTGAAGACA-
1 CATCCAATCTCTTACCCCGATCATG-GGGCAGATTGAAGACAT
* * *
26439889 CA-CTAATCTCTTACCCCCGACCATGGGGCATATTGAAG-C--
1 CATCCAATCTCTTA-CCCCGATCATGGGGCAGATTGAAGACAT
* * * * *
26439928 CATCCAATCTCTTACCTCGATCATAGGGTAGATTAAAGTCAT
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
* * * * *
26439970 CATTCAATCTCTTACCCTGATAATGGGGTAGATTGAAGTCAT
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
*
26440012 CATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAG----
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
* * *** * *
26440050 CGTCCAATCTTTTACCGTAATCA-GAAGGTAGATTGAAGACA-
1 CATCCAATCTCTTACCCCGATCATG-GGGCAGATTGAAGACAT
* *
26440091 CA-CTAATCTCTTACCCCGACCATGGGGCAGATTGAAG---T
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
* * * * * *
26440129 CATCCAATCTCTTATCCCGATCGTAGGGCAGATTAAAAATAT
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
* * *
26440171 CATCCAATCTTTTACCCCGATCATGAGGTAGATTGAAGACAT
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
*
26440213 CATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAG-C--
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
* * *
26440252 CATCCAATCTCTTACCTCGATCATGGGGTAGATTAAAGACAT
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
*
26440294 CATCCAATCTCTTACCCCGATCATGGGGTAGATTGAAGACAT
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
*
26440336 CATCCAATCTCTTACCCCGATCATAGGGCAGATTGAAGACAT
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
* *
26440378 CATCCAATCTCTTA-CCCGATCATGGAGAAGATTGAAG--A-
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
**
26440416 CATCCAATCTCTTACCCTAATCA-GAGGGCAGATTGAAGA
1 CATCCAATCTCTTACCCCGATCATG-GGGCAGATTGAAGA
26440455 AAGGTTACGA
Statistics
Matches: 564, Mismatches: 96, Indels: 56
0.79 0.13 0.08
Matches are distributed among these distances:
37 2 0.00
38 71 0.13
39 103 0.18
40 47 0.08
41 44 0.08
42 297 0.53
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (42 bp):
CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
Found at i:26440073 original size:202 final size:200
Alignment explanation
Indices: 26439725--26440432 Score: 928
Period size: 202 Copynumber: 3.5 Consensus size: 200
26439715 AGCGAAGCTA
* *
26439725 CCATCCAATCTCTTACCCCGATCAT-GTGGCAGATTAAAGACATTATTCAATCTCTTA-CCTCGA
1 CCATCCAATCTCTTACCCCGATCATAG-GGCAGATTAAAGACATCATCCAATCTCTTACCCT-GA
* * **
26439788 TCATGAGGCAAATTGAAGACATCATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAATATCC
64 TCATGAGGTAGATTGAAGACATCATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGCATCC
* * *
26439853 GATTTTTTACCCTAATCAGAGGGCAGATTGAAGACACACTAATCTCTTACCCCCGACCATGGGGC
129 AATCTTTTA-CCTAATCAGAGGGTAGATTGAAGACACACTAATCTCTTA-CCCCGACCATGGGGC
*
26439918 ATATTGAAG
192 AGATTGAAG
* * * * *
26439927 CCATCCAATCTCTTACCTCGATCATAGGGTAGATTAAAGTCATCATTCAATCTCTTACCCTGATA
1 CCATCCAATCTCTTACCCCGATCATAGGGCAGATTAAAGACATCATCCAATCTCTTACCCTGATC
* * *
26439992 ATGGGGTAGATTGAAGTCATCATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGCGTCCAA
66 ATGAGGTAGATTGAAGACATCATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGCATCCAA
*
26440057 TCTTTTACCGTAATCAGAAGGTAGATTGAAGACACACTAATCTCTTACCCCGACCATGGGGCAGA
131 TCTTTTACC-TAATCAGAGGGTAGATTGAAGACACACTAATCTCTTACCCCGACCATGGGGCAGA
26440122 TTGAAG
195 TTGAAG
* * * * * * *
26440128 TCATCCAATCTCTTATCCCGATCGTAGGGCAGATTAAAAATATCATCCAATCTTTTACCCCGATC
1 CCATCCAATCTCTTACCCCGATCATAGGGCAGATTAAAGACATCATCCAATCTCTTACCCTGATC
26440193 ATGAGGTAGATTGAAGACATCATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGCCATCCA
66 ATGAGGTAGATTGAAGACATCATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAG-CATCCA
* * * * *
26440258 ATCTCTTACCTCGATCATG-GGGTAGATTAAAGACATCATCCAATCTCTTACCCCGATCATGGGG
130 ATCTTTTACCT-AATCA-GAGGGTAGATTGAAGACA-CA-CTAATCTCTTACCCCGACCATGGGG
*
26440322 TAGATTGAAG
191 CAGATTGAAG
*
26440332 ACATCATCCAATCTCTTACCCCGATCATAGGGCAGATTGAAGACATCATCCAATCTCTTACCC-G
1 -C--CATCCAATCTCTTACCCCGATCATAGGGCAGATTAAAGACATCATCCAATCTCTTACCCTG
*
26440396 ATCATG-GAGAAGATTGAAG--A-CATCCAATCTCTTACCC
63 ATCATGAG-GTAGATTGAAGACATCATCCAATCTCTTACCC
26440433 TAATCAGAGG
Statistics
Matches: 447, Mismatches: 47, Indels: 23
0.86 0.09 0.04
Matches are distributed among these distances:
201 135 0.30
202 184 0.41
203 24 0.05
204 33 0.07
205 1 0.00
206 17 0.04
207 53 0.12
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.26
Consensus pattern (200 bp):
CCATCCAATCTCTTACCCCGATCATAGGGCAGATTAAAGACATCATCCAATCTCTTACCCTGATC
ATGAGGTAGATTGAAGACATCATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGCATCCAA
TCTTTTACCTAATCAGAGGGTAGATTGAAGACACACTAATCTCTTACCCCGACCATGGGGCAGAT
TGAAG
Found at i:26441010 original size:23 final size:22
Alignment explanation
Indices: 26440980--26441023 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
26440970 ATTTGCAAAA
26440980 AGAGGAAACAAAGAACCAAGAT
1 AGAGGAAACAAAGAACCAAGAT
* *
26441002 AGAGAGAAATAGAGAACCAAGA
1 AGAG-GAAACAAAGAACCAAGA
26441024 CAAAGACAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.59, C:0.11, G:0.25, T:0.05
Consensus pattern (22 bp):
AGAGGAAACAAAGAACCAAGAT
Found at i:26442646 original size:106 final size:105
Alignment explanation
Indices: 26442452--26442660 Score: 294
Period size: 106 Copynumber: 2.0 Consensus size: 105
26442442 AAAAAGGTAT
* * * * *
26442452 TGTTTTTTTATTTAGGGAATTCGAGAAATTATGCTCAAGCGTATTAGATATGAATTTTTTGAATC
1 TGTTCTTTTATTTAGGAAATTCGAGAAATTATCCTCAAACGTATTAGATATGAATTTTTTGAACC
*
26442517 TAAATAATCGAGTATCCTATTTAAAATCAATAAATGTTCGA
66 TAAATAATCGAGTATCCTATTT-AAACCAATAAATGTTCGA
* * * *
26442558 TGTTCTTTTATTTAGGAAATTCGAGAAATTTTCCTCAAACGTATTGGGTATG-ATTTTTTTAACC
1 TGTTCTTTTATTTAGGAAATTCGAGAAATTATCCTCAAACGTATTAGATATGAATTTTTTGAACC
*
26442622 TAAATAATTGAGTATCCTATTTTAAACCAATAAATGTTC
66 TAAATAATCGAGTATCCTA-TTTAAACCAATAAATGTTC
26442661 TTTATTTTCG
Statistics
Matches: 91, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
105 43 0.47
106 48 0.53
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.42
Consensus pattern (105 bp):
TGTTCTTTTATTTAGGAAATTCGAGAAATTATCCTCAAACGTATTAGATATGAATTTTTTGAACC
TAAATAATCGAGTATCCTATTTAAACCAATAAATGTTCGA
Found at i:26445096 original size:3 final size:3
Alignment explanation
Indices: 26445088--26445119 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
26445078 CCTAATATAC
26445088 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
26445120 TTCCTCACAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:26445712 original size:19 final size:19
Alignment explanation
Indices: 26445690--26445739 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
26445680 GTAACCACTG
26445690 TCAAATTTGTTAACCGTAA
1 TCAAATTTGTTAACCGTAA
*
26445709 TCAAATTTGTTCACCGTAA
1 TCAAATTTGTTAACCGTAA
26445728 TCAAATTTGTTA
1 TCAAATTTGTTA
26445740 TTAACTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.40
Consensus pattern (19 bp):
TCAAATTTGTTAACCGTAA
Found at i:26446021 original size:17 final size:18
Alignment explanation
Indices: 26445966--26446023 Score: 57
Period size: 17 Copynumber: 3.2 Consensus size: 18
26445956 TGACATCATT
26445966 AATAATTCAATATTAATATA
1 AATAATTC-ATA-TAATATA
* * *
26445986 AATATTTGATATGAT-TA
1 AATAATTCATATAATATA
26446003 AATAATTCA-ATAATATA
1 AATAATTCATATAATATA
26446020 AATA
1 AATA
26446024 GTACAAAATG
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
16 4 0.13
17 15 0.48
18 3 0.10
19 3 0.10
20 6 0.19
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.40
Consensus pattern (18 bp):
AATAATTCATATAATATA
Found at i:26447129 original size:57 final size:56
Alignment explanation
Indices: 26447019--26447387 Score: 409
Period size: 57 Copynumber: 6.5 Consensus size: 56
26447009 AACCACAACT
* * * * *
26447019 ATTTTATAGTTTTGCCACTAGTTTTCCTAGTTTTACAGTTTTTCCATTGTTTTCAAG
1 ATTTTACAGTTTTGCCACTA-TTTTCCAAATTTTACAGTTTTACCATTGTTTTCCAG
* * * * *
26447076 ATTGTACAGTTTTGCCACTGTTTTCCAGATTTTACAGTTTCACCATTGGTTTTCTAG
1 ATTTTACAGTTTTGCCACTATTTTCCAAATTTTACAGTTTTACCATT-GTTTTCCAG
* * * *
26447133 ATTTCACAATTTTGCCACTATTTCCCAAATTTTACAGTTTTATCATTGCTTTT-CAG
1 ATTTTACAGTTTTGCCACTATTTTCCAAATTTTACAGTTTTACCATTG-TTTTCCAG
** * * *
26447189 ATTTTACAGTTTTATCACTATATTTTCAAATTTTACAATTTTGCCATTGTTTTCCAG
1 ATTTTACAGTTTTGCCACTAT-TTTCCAAATTTTACAGTTTTACCATTGTTTTCCAG
* * *
26447246 ATTTTTACAGTTTTGCCATTATTTTTCAAATTTTACAGTTTTACCACTGTTTTCCAG
1 A-TTTTACAGTTTTGCCACTATTTTCCAAATTTTACAGTTTTACCATTGTTTTCCAG
* * * *
26447303 ATTTTACAATTTTGCCACTATTTTTCAAATTTTATAGTTTTGCCACTT-TTTTCCAG
1 ATTTTACAGTTTTGCCACTATTTTCCAAATTTTACAGTTTTACCA-TTGTTTTCCAG
* * *
26447359 ATTTTACAATTTTACCACTATTTTTCAAA
1 ATTTTACAGTTTTGCCACTATTTTCCAAA
26447388 AAAAATGTTT
Statistics
Matches: 267, Mismatches: 39, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
56 122 0.46
57 128 0.48
58 17 0.06
ACGTcount: A:0.24, C:0.18, G:0.09, T:0.50
Consensus pattern (56 bp):
ATTTTACAGTTTTGCCACTATTTTCCAAATTTTACAGTTTTACCATTGTTTTCCAG
Found at i:26447382 original size:28 final size:28
Alignment explanation
Indices: 26447019--26447382 Score: 309
Period size: 28 Copynumber: 12.9 Consensus size: 28
26447009 AACCACAACT
*
26447019 ATTTTATAGTTTTGCCACTAGTTTTCCTAG
1 ATTTTACAGTTTTGCCACTA-TTTTCC-AG
* * * *
26447049 -TTTTACAGTTTTTCCATTGTTTTCAAG
1 ATTTTACAGTTTTGCCACTATTTTCCAG
* *
26447076 ATTGTACAGTTTTGCCACTGTTTTCCAG
1 ATTTTACAGTTTTGCCACTATTTTCCAG
** * * *
26447104 ATTTTACAGTTTCACCATTGGTTTTCTAG
1 ATTTTACAGTTTTGCCACT-ATTTTCCAG
* * * *
26447133 ATTTCACAATTTTGCCACTATTTCCCAA
1 ATTTTACAGTTTTGCCACTATTTTCCAG
** * *
26447161 ATTTTACAGTTTTATCATTGCTTTT-CAG
1 ATTTTACAGTTTTGCCACT-ATTTTCCAG
** * *
26447189 ATTTTACAGTTTTATCACTATATTTTCAA
1 ATTTTACAGTTTTGCCACTAT-TTTCCAG
* * *
26447218 ATTTTACAATTTTGCCATTGTTTTCCAG
1 ATTTTACAGTTTTGCCACTATTTTCCAG
* * *
26447246 ATTTTTACAGTTTTGCCATTATTTTTCAA
1 A-TTTTACAGTTTTGCCACTATTTTCCAG
* *
26447275 ATTTTACAGTTTTACCACTGTTTTCCAG
1 ATTTTACAGTTTTGCCACTATTTTCCAG
* * *
26447303 ATTTTACAATTTTGCCACTATTTTTCAA
1 ATTTTACAGTTTTGCCACTATTTTCCAG
* *
26447331 ATTTTATAGTTTTGCCACTTTTTTCCAG
1 ATTTTACAGTTTTGCCACTATTTTCCAG
* *
26447359 ATTTTACAATTTTACCACTATTTT
1 ATTTTACAGTTTTGCCACTATTTT
26447383 TCAAAAAAAA
Statistics
Matches: 264, Mismatches: 64, Indels: 14
0.77 0.19 0.04
Matches are distributed among these distances:
27 3 0.01
28 179 0.68
29 82 0.31
ACGTcount: A:0.23, C:0.18, G:0.09, T:0.50
Consensus pattern (28 bp):
ATTTTACAGTTTTGCCACTATTTTCCAG
Found at i:26450323 original size:19 final size:20
Alignment explanation
Indices: 26450287--26450324 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
26450277 GTTGAATGGG
**
26450287 AAAAGACTATACCTCCAGCA
1 AAAAGACTATACAGCCAGCA
26450307 AAAAGA-TATACAGCCAGC
1 AAAAGACTATACAGCCAGC
26450325 TCTAGTTCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.47, C:0.26, G:0.13, T:0.13
Consensus pattern (20 bp):
AAAAGACTATACAGCCAGCA
Found at i:26454869 original size:28 final size:28
Alignment explanation
Indices: 26454806--26455036 Score: 273
Period size: 28 Copynumber: 8.2 Consensus size: 28
26454796 AACTACAACT
* *
26454806 ATTTTACAGTTTTACCACTGGTTTTCTAG
1 ATTTTACAGTTTTGCCACT-GTTTTCCAG
* * *
26454835 ATTTTACAGTTTTGCCACTATTTTTCAA
1 ATTTTACAGTTTTGCCACTGTTTTCCAG
* *
26454863 AATTTACAATTTTGCCACTGTTTTCCAG
1 ATTTTACAGTTTTGCCACTGTTTTCCAG
* *
26454891 ATTTTACAGTTTTGCTAATGGTTTTCCAG
1 ATTTTACAGTTTTGCCACT-GTTTTCCAG
* * *
26454920 ATTTTATAGTTTTGCCATTGTTTTCCAA
1 ATTTTACAGTTTTGCCACTGTTTTCCAG
* *
26454948 ATTTTATAGTTTTGCCACTGTTTTACAG
1 ATTTTACAGTTTTGCCACTGTTTTCCAG
* *
26454976 ATTTTACAATTTTTCCACTGTTTTCCAG
1 ATTTTACAGTTTTGCCACTGTTTTCCAG
* * *
26455004 ATTTTATAGTTTTGCCACTATTTTCCAA
1 ATTTTACAGTTTTGCCACTGTTTTCCAG
26455032 ATTTT
1 ATTTT
26455037 TATAATTTTG
Statistics
Matches: 171, Mismatches: 30, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
28 128 0.75
29 43 0.25
ACGTcount: A:0.23, C:0.17, G:0.11, T:0.50
Consensus pattern (28 bp):
ATTTTACAGTTTTGCCACTGTTTTCCAG
Found at i:26454922 original size:85 final size:85
Alignment explanation
Indices: 26454806--26455071 Score: 345
Period size: 85 Copynumber: 3.1 Consensus size: 85
26454796 AACTACAACT
* * * * *
26454806 ATTTTACAGTTTTACCACTGGTTTTCTAGATTTTACAGTTTTGCCACTATTTTTCAAAATTTACA
1 ATTTTACAGTTTTACCACTGGTTTTCCAGATTTTATAGTTTTGCCACTATTTTCCAAATTTTATA
26454871 ATTTTGCCACTGTTTTCCAG
66 ATTTTGCCACTGTTTTCCAG
* * * * *
26454891 ATTTTACAGTTTTGCTAATGGTTTTCCAGATTTTATAGTTTTGCCATTGTTTTCCAAATTTTATA
1 ATTTTACAGTTTTACCACTGGTTTTCCAGATTTTATAGTTTTGCCACTATTTTCCAAATTTTATA
* *
26454956 GTTTTGCCACTGTTTTACAG
66 ATTTTGCCACTGTTTTCCAG
* *
26454976 ATTTTACAATTTTTCCACT-GTTTTCCAGATTTTATAGTTTTGCCACTATTTTCCAAATTTTTAT
1 ATTTTACAGTTTTACCACTGGTTTTCCAGATTTTATAGTTTTGCCACTATTTTCCAAA-TTTTAT
** * *
26455040 AATTTTGCTGCTATTTTCCAA
65 AATTTTGCCACTGTTTTCCAG
*
26455061 ATTTTATAGTT
1 ATTTTACAGTT
26455072 ACTATTTTTT
Statistics
Matches: 154, Mismatches: 26, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
84 36 0.23
85 118 0.77
ACGTcount: A:0.23, C:0.16, G:0.11, T:0.50
Consensus pattern (85 bp):
ATTTTACAGTTTTACCACTGGTTTTCCAGATTTTATAGTTTTGCCACTATTTTCCAAATTTTATA
ATTTTGCCACTGTTTTCCAG
Found at i:26454952 original size:57 final size:56
Alignment explanation
Indices: 26454806--26455071 Score: 271
Period size: 57 Copynumber: 4.7 Consensus size: 56
26454796 AACTACAACT
* * * * * * * * *
26454806 ATTTTACAGTTTTACCACTGGTTTTCTAGATTTTACAGTTTTGCCACTATTTTTCAA
1 ATTTTATAATTTTGCCACT-GTTTTCCAAATTTTATAGTTTTGCCACTGTTTTCCAG
* * * * * *
26454863 AATTTACAATTTTGCCACTGTTTTCCAGATTTTACAGTTTTGCTAATGGTTTTCCAG
1 ATTTTATAATTTTGCCACTGTTTTCCAAATTTTATAGTTTTGCCACT-GTTTTCCAG
* * *
26454920 ATTTTATAGTTTTGCCATTGTTTTCCAAATTTTATAGTTTTGCCACTGTTTTACAG
1 ATTTTATAATTTTGCCACTGTTTTCCAAATTTTATAGTTTTGCCACTGTTTTCCAG
* * * * *
26454976 ATTTTACAATTTTTCCACTGTTTTCCAGATTTTATAGTTTTGCCACTATTTTCCAA
1 ATTTTATAATTTTGCCACTGTTTTCCAAATTTTATAGTTTTGCCACTGTTTTCCAG
** *
26455032 ATTTTTATAATTTTGCTGCTATTTTCCAAATTTTATAGTT
1 A-TTTTATAATTTTGCCACTGTTTTCCAAATTTTATAGTT
26455072 ACTATTTTTT
Statistics
Matches: 175, Mismatches: 32, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
56 82 0.47
57 93 0.53
ACGTcount: A:0.23, C:0.16, G:0.11, T:0.50
Consensus pattern (56 bp):
ATTTTATAATTTTGCCACTGTTTTCCAAATTTTATAGTTTTGCCACTGTTTTCCAG
Found at i:26455038 original size:113 final size:113
Alignment explanation
Indices: 26454806--26455071 Score: 318
Period size: 113 Copynumber: 2.3 Consensus size: 113
26454796 AACTACAACT
* * * * * * *
26454806 ATTTTACAGTTTTACCACTGGTTTTCTAGATTTTACAGTTTTGCCACTATTTTTCAAAATTTACA
1 ATTTTATAGTTTTGCCA-TTGTTTTCCAAATTTTATAGTTTTGCCACTATTTTACAAAATTTACA
* * *
26454871 ATTTTGCCACTGTTTTCCAGATTTTACAGTTTTGCTAATGGTTTTCCAG
65 ATTTTGCCACTGTTTTCCAGATTTTACAGTTTTGCCAATGATTTTCCAA
* * *
26454920 ATTTTATAGTTTTGCCATTGTTTTCCAAATTTTATAGTTTTGCCACTGTTTTACAGATTTTACAA
1 ATTTTATAGTTTTGCCATTGTTTTCCAAATTTTATAGTTTTGCCACTATTTTACAAAATTTACAA
* * *
26454985 TTTTTCCACTGTTTTCCAGATTTTATAGTTTTGCCACT-ATTTTCCAA
66 TTTTGCCACTGTTTTCCAGATTTTACAGTTTTGCCAATGATTTTCCAA
* *** *
26455032 ATTTTTATAATTTTGCTGCTATTTTCCAAATTTTATAGTT
1 A-TTTTATAGTTTTGCCATTGTTTTCCAAATTTTATAGTT
26455072 ACTATTTTTT
Statistics
Matches: 130, Mismatches: 21, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
112 8 0.06
113 107 0.82
114 15 0.12
ACGTcount: A:0.23, C:0.16, G:0.11, T:0.50
Consensus pattern (113 bp):
ATTTTATAGTTTTGCCATTGTTTTCCAAATTTTATAGTTTTGCCACTATTTTACAAAATTTACAA
TTTTGCCACTGTTTTCCAGATTTTACAGTTTTGCCAATGATTTTCCAA
Found at i:26460746 original size:16 final size:16
Alignment explanation
Indices: 26460692--26460754 Score: 51
Period size: 16 Copynumber: 4.0 Consensus size: 16
26460682 ACTTTCAAAG
26460692 CATCC-CTCA-TCCCT
1 CATCCTCTCATTCCCT
* *
26460706 CATCACTCAACATT-CTT
1 CATC-CTC-TCATTCCCT
*
26460723 CATTCTCTCATTCCCT
1 CATCCTCTCATTCCCT
*
26460739 CATCCTCTCAATCCCT
1 CATCCTCTCATTCCCT
26460755 TTCCATTCCT
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
14 4 0.11
15 5 0.14
16 20 0.54
17 7 0.19
18 1 0.03
ACGTcount: A:0.19, C:0.46, G:0.00, T:0.35
Consensus pattern (16 bp):
CATCCTCTCATTCCCT
Found at i:26464643 original size:24 final size:24
Alignment explanation
Indices: 26464610--26464684 Score: 80
Period size: 24 Copynumber: 3.1 Consensus size: 24
26464600 AAACTGGTTA
26464610 AACTCTATCTGGGCTCGAATGAGCT
1 AACT-TATCTGGGCTCGAATGAGCT
* *
26464635 AACTTATCTAGGCTC-ATAAGAGCT
1 AACTTATCTGGGCTCGA-ATGAGCT
* * *
26464659 AACCTATTTGGGCTCGTATGAGCT
1 AACTTATCTGGGCTCGAATGAGCT
26464683 AA
1 AA
26464685 ATTTTTGGAA
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
23 1 0.02
24 36 0.88
25 4 0.10
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.29
Consensus pattern (24 bp):
AACTTATCTGGGCTCGAATGAGCT
Found at i:26472882 original size:17 final size:17
Alignment explanation
Indices: 26472862--26472895 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
26472852 AAGGAAGGTG
*
26472862 AAAGGTGAAAGGTTGAA
1 AAAGATGAAAGGTTGAA
26472879 AAAGATGAAAGGTTGAA
1 AAAGATGAAAGGTTGAA
26472896 CATCCACTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.32, T:0.18
Consensus pattern (17 bp):
AAAGATGAAAGGTTGAA
Found at i:26474091 original size:17 final size:17
Alignment explanation
Indices: 26474069--26474107 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
26474059 CTCCACCTTG
* * *
26474069 ACAAGAATTCTCTACTA
1 ACAAGAACTCTCAACAA
26474086 ACAAGAACTCTCAACAA
1 ACAAGAACTCTCAACAA
26474103 ACAAG
1 ACAAG
26474108 TTCGCCACCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.49, C:0.26, G:0.08, T:0.18
Consensus pattern (17 bp):
ACAAGAACTCTCAACAA
Found at i:26484688 original size:23 final size:23
Alignment explanation
Indices: 26484658--26484707 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
26484648 AAGACATATG
*
26484658 GGTAATTCGGTAGAGGTTAGTAA
1 GGTAATTCGGTAAAGGTTAGTAA
26484681 GGTAATTCGGTAAAGGTTAGTAA
1 GGTAATTCGGTAAAGGTTAGTAA
26484704 GGTA
1 GGTA
26484708 TATCGAAGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.32, C:0.04, G:0.34, T:0.30
Consensus pattern (23 bp):
GGTAATTCGGTAAAGGTTAGTAA
Found at i:26497351 original size:18 final size:20
Alignment explanation
Indices: 26497314--26497352 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
26497304 TCATTCACAT
26497314 AAAGAAAAATGAATGAGAAAA
1 AAAGAAAAA-GAATGAGAAAA
26497335 AAAGAAAAA-AA-GAGAAAA
1 AAAGAAAAAGAATGAGAAAA
26497353 GAAAAGAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.39
19 2 0.11
21 9 0.50
ACGTcount: A:0.77, C:0.00, G:0.18, T:0.05
Consensus pattern (20 bp):
AAAGAAAAAGAATGAGAAAA
Found at i:26512776 original size:14 final size:13
Alignment explanation
Indices: 26512759--26512801 Score: 59
Period size: 14 Copynumber: 3.2 Consensus size: 13
26512749 ACGGTAGAAG
26512759 AAAAAGAAGAGAAA
1 AAAAAGAAGA-AAA
26512773 AAAAAGAAGAAAA
1 AAAAAGAAGAAAA
*
26512786 AGAAGAGAAGAAAA
1 A-AAAAGAAGAAAA
26512800 AA
1 AA
26512802 TGGAGATGTC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 5 0.19
14 22 0.81
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (13 bp):
AAAAAGAAGAAAA
Found at i:26512783 original size:23 final size:24
Alignment explanation
Indices: 26512754--26512801 Score: 89
Period size: 23 Copynumber: 2.0 Consensus size: 24
26512744 ACTAGACGGT
26512754 AGAAGAAAAAGAAGAGAA-AAAAA
1 AGAAGAAAAAGAAGAGAAGAAAAA
26512777 AGAAGAAAAAGAAGAGAAGAAAAA
1 AGAAGAAAAAGAAGAGAAGAAAAA
26512801 A
1 A
26512802 TGGAGATGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 18 0.75
24 6 0.25
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (24 bp):
AGAAGAAAAAGAAGAGAAGAAAAA
Found at i:26512807 original size:14 final size:14
Alignment explanation
Indices: 26512754--26512800 Score: 59
Period size: 11 Copynumber: 3.7 Consensus size: 14
26512744 ACTAGACGGT
26512754 AGAAGAAAAAG-A-
1 AGAAGAAAAAGAAG
26512766 AG-AGAAAAA-AA-
1 AGAAGAAAAAGAAG
26512777 AGAAGAAAAAGAAG
1 AGAAGAAAAAGAAG
26512791 AGAAGAAAAA
1 AGAAGAAAAA
26512801 ATGGAGATGT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
11 10 0.32
12 9 0.29
13 2 0.06
14 10 0.32
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (14 bp):
AGAAGAAAAAGAAG
Done.