Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167993.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_25, whole genome shotgun sequence
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: 17943224
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 94000 characters in sequence are not A, C, G, or T
File 15 of 100
Found at i:2840096 original size:21 final size:21
Alignment explanation
Indices: 2840056--2840112 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
2840046 ATAATTAATA
*
2840056 ATTATT-TTTTTAAAATTATT
1 ATTATTATTATTAAAATTATT
2840076 ATTATTATTATTAAAATTATT
1 ATTATTATTATTAAAATTATT
* *
2840097 AATATTA-TACTAAAAT
1 ATTATTATTATTAAAAT
2840113 GAAAACAGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
20 14 0.42
21 19 0.58
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (21 bp):
ATTATTATTATTAAAATTATT
Found at i:2840475 original size:23 final size:23
Alignment explanation
Indices: 2840426--2840494 Score: 88
Period size: 23 Copynumber: 3.0 Consensus size: 23
2840416 AATCAAATTT
*
2840426 ATGCCTAGAGGTCTT--AGACATC
1 ATGCCTGGAGGTCTTACAGA-ATC
2840448 ATGCCTGGAGGTCTTACAGAATC
1 ATGCCTGGAGGTCTTACAGAATC
* *
2840471 ATGCCCGAAGGTCTTACAGAATC
1 ATGCCTGGAGGTCTTACAGAATC
2840494 A
1 A
2840495 ATTGGGATAA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
22 14 0.33
23 25 0.60
24 3 0.07
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (23 bp):
ATGCCTGGAGGTCTTACAGAATC
Found at i:2840547 original size:133 final size:133
Alignment explanation
Indices: 2840364--2840603 Score: 345
Period size: 133 Copynumber: 1.8 Consensus size: 133
2840354 TAGGATCGAC
* * *
2840364 TGGGATAACACCGCAAGTTAAAAAATAAAAAATTGATCGGGATAACACTGCGAATCAAATTTATG
1 TGGGATAACACCGCAAGTCAAAAAATAAAAAATCGATCGGGATAACACTGCGAATCAAAATTATG
* * *
2840429 CCTAGAGGTCTTAGACATCATGCCTGGAGGTCTTACAGAATCATGCCCGAAGGTCTTACAGAATC
66 CCTAGAGGTCTTAGAAATCATGCCCGGAGGTCTTACAAAATCATGCCCGAAGGTCTTACAGAATC
2840494 AAT
131 AAT
* * * * * * *
2840497 TGGGATAACACTGTAAGTCGAAAGATAAAGAATCGATTGGGATAACACTGCGAATTAAAATTATG
1 TGGGATAACACCGCAAGTCAAAAAATAAAAAATCGATCGGGATAACACTGCGAATCAAAATTATG
* *
2840562 TCTGGAGGTCTTAGAAATCATGCCCGGAGGTCTTACAAAATC
66 CCTAGAGGTCTTAGAAATCATGCCCGGAGGTCTTACAAAATC
2840604 GACTAAGATA
Statistics
Matches: 92, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
133 92 1.00
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.25
Consensus pattern (133 bp):
TGGGATAACACCGCAAGTCAAAAAATAAAAAATCGATCGGGATAACACTGCGAATCAAAATTATG
CCTAGAGGTCTTAGAAATCATGCCCGGAGGTCTTACAAAATCATGCCCGAAGGTCTTACAGAATC
AAT
Found at i:2840614 original size:110 final size:109
Alignment explanation
Indices: 2840452--2840714 Score: 339
Period size: 110 Copynumber: 2.4 Consensus size: 109
2840442 GACATCATGC
* * * ** ** *
2840452 CTGGAGGTCTTACAGAATCATGCCCGAAGGTCTTACAGAATCAATTGGGATAACACTGTAAGTCG
1 CTGGAGGTCTTAGA-AATCATGCCCGGAGGTCTTACAGAATCAACTAAGATAACACCATAAGTCA
*
2840517 AAAGATAAAGAATCGATTGGGATAACA-CTGCGAATTAAAATTATG
65 AAAGATAAAGAATCGATTGGGATAACATC-GCGAATCAAAATTATG
* *
2840562 TCTGGAGGTCTTAGAAATCATGCCCGGAGGTCTTACAAAATCGACTAAGATAACACCATAAGTCA
1 -CTGGAGGTCTTAGAAATCATGCCCGGAGGTCTTACAGAATCAACTAAGATAACACCATAAGTCA
* *
2840627 AAAGATAAAGAATCGATTGGGATAACATCGTGAATCGAAATTATG
65 AAAGATAAAGAATCGATTGGGATAACATCGCGAATCAAAATTATG
* * *
2840672 CTCAGAGGTCTTAGAAATAATGCCCAGAGGTCTTACAGAATCA
1 CT-GGAGGTCTTAGAAATCATGCCCGGAGGTCTTACAGAATCA
2840715 TGTCCGGAGG
Statistics
Matches: 132, Mismatches: 18, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
109 2 0.02
110 116 0.88
111 14 0.11
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.24
Consensus pattern (109 bp):
CTGGAGGTCTTAGAAATCATGCCCGGAGGTCTTACAGAATCAACTAAGATAACACCATAAGTCAA
AAGATAAAGAATCGATTGGGATAACATCGCGAATCAAAATTATG
Found at i:2840694 original size:22 final size:22
Alignment explanation
Indices: 2840663--2840729 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
2840653 ATCGTGAATC
* *
2840663 GAAATTATGCTCAGAGGTCTTA
1 GAAATAATGCCCAGAGGTCTTA
2840685 GAAATAATGCCCAGAGGTCTTA
1 GAAATAATGCCCAGAGGTCTTA
* * * *
2840707 CAGAATCATGTCCGGAGGTCTTA
1 GA-AATAATGCCCAGAGGTCTTA
2840730 CAGAATTGAC
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
22 21 0.55
23 17 0.45
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (22 bp):
GAAATAATGCCCAGAGGTCTTA
Found at i:2840704 original size:243 final size:243
Alignment explanation
Indices: 2840254--2840839 Score: 676
Period size: 243 Copynumber: 2.4 Consensus size: 243
2840244 ACAAAAGAAT
* * * *
2840254 TGGGATGACACCACAAGTCAAAAAATAATGAATCGATCGAGATAACATCGCGAATCAAATTTATG
1 TGGGATAACACCACAAGTCAAAAAATAAAGAATCGATCGGGATAACATCGCGAATCAAAATTATG
* * * * * * * * * ** ** * *
2840319 CCCGGAGATTTTACAAATCATACTCGGAGATCTTATAGGATCGACTGGGATAACACCGCAAGTTA
66 TCTGGAGGTCTTAAAAATCATGCCCGGAGGTCTTACAAAATCGACTAAGATAACACCACAAGTCA
* * *
2840384 AAAAATAAAAAATTGATCGGGATAACACTGCGAATCAAATTTATGCCTAGAGGTCTTAGACATCA
131 AAAAATAAAAAATCGATCGGGATAACACTGCGAATCAAATTTATGCCTAGAGGTCTTAGAAATAA
** *
2840449 TGCCTGGAGGTCTTACAGAATCATGCCCGAAGGTCTTACAGAATCAAT
196 TGCCCAGAGGTCTTACAGAATCATGCCCGAAGGTCTTACAGAATCAAC
*** * * * *
2840497 TGGGATAACACTGTAAGTCGAAAGATAAAGAATCGATTGGGATAACA-CTGCGAATTAAAATTAT
1 TGGGATAACACCACAAGTCAAAAAATAAAGAATCGATCGGGATAACATC-GCGAATCAAAATTAT
* *
2840561 GTCTGGAGGTCTTAGAAATCATGCCCGGAGGTCTTACAAAATCGACTAAGATAACACCATAAGTC
65 GTCTGGAGGTCTTAAAAATCATGCCCGGAGGTCTTACAAAATCGACTAAGATAACACCACAAGTC
* * * *
2840626 AAAAGATAAAGAATCGATTGGGATAACA-TCGTGAATCGAAA-TTATG-CTCAGAGGTCTTAGAA
130 AAAAAATAAAAAATCGATCGGGATAACACT-GCGAATC-AAATTTATGCCT-AGAGGTCTTAGAA
* * **
2840688 ATAATGCCCAGAGGTCTTACAGAATCATGTCCGGAGGTCTTACAGAATTGAC
192 ATAATGCCCAGAGGTCTTACAGAATCATGCCCGAAGGTCTTACAGAATCAAC
* * * *
2840740 TGGGATAACACCACAAGTTAAAAAATAAAGAATCAATCAGGATAACATCACGAATCAAAATTATG
1 TGGGATAACACCACAAGTCAAAAAATAAAGAATCGATCGGGATAACATCGCGAATCAAAATTATG
* *
2840805 TTTGGAGGTCTTAAAAATCATGCCCGAAGGTCTTA
66 TCTGGAGGTCTTAAAAATCATGCCCGGAGGTCTTA
2840840 GAGAATCATG
Statistics
Matches: 283, Mismatches: 55, Indels: 10
0.81 0.16 0.03
Matches are distributed among these distances:
242 4 0.01
243 275 0.97
244 4 0.01
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.24
Consensus pattern (243 bp):
TGGGATAACACCACAAGTCAAAAAATAAAGAATCGATCGGGATAACATCGCGAATCAAAATTATG
TCTGGAGGTCTTAAAAATCATGCCCGGAGGTCTTACAAAATCGACTAAGATAACACCACAAGTCA
AAAAATAAAAAATCGATCGGGATAACACTGCGAATCAAATTTATGCCTAGAGGTCTTAGAAATAA
TGCCCAGAGGTCTTACAGAATCATGCCCGAAGGTCTTACAGAATCAAC
Found at i:2840727 original size:133 final size:130
Alignment explanation
Indices: 2840566--2840935 Score: 472
Period size: 133 Copynumber: 2.8 Consensus size: 130
2840556 ATTATGTCTG
* *
2840566 GAGGTCTTAGA-AATCATGCCCGGAGGTCTTACAAAATCGACTAAGATAACACCATAAGTCAAAA
1 GAGGTCTTAGAGAATCATGCCCGGAGGTCTTACAGAATCGACT-GGATAACACCATAAGTCAAAA
* * *
2840630 GATAAAGAATCGATTGGGATAACATCGTGAATCGAAATTATGCTCAGAGGTCTTAGAAATAATGC
65 -ATAAAGAATCGATTGGGATAACATCGCGAATCAAAATTATGCTCAGAGGTCTTAAAAATAATGC
2840695 CC
129 CC
* * * * *
2840697 AGAGGTCTTACAGAATCATGTCCGGAGGTCTTACAGAATTGACTGGGATAACACCACAAGTTAAA
1 -GAGGTCTTAGAGAATCATGCCCGGAGGTCTTACAGAATCGACT-GGATAACACCATAAG-TCAA
* ** * * ** *
2840762 AAATAAAGAATCAATCAGGATAACATCACGAATCAAAATTATGTTTGGAGGTCTTAAAAATCATG
63 AAATAAAGAATCGATTGGGATAACATCGCGAATCAAAATTATGCTCAGAGGTCTTAAAAATAATG
2840827 CCC
128 CCC
* * *
2840830 GAAGGTCTTAGAGAATCATGCCCGAAGGTCTTACAGAATCGACTGGTATAATACCGTAAGTCAAA
1 G-AGGTCTTAGAGAATCATGCCCGGAGGTCTTACAGAATCGACTGG-ATAACACCATAAGTCAAA
*
2840895 AATAAAGAATCGATTGGGATAATATCGCGAATCAAAATTAT
64 AATAAAGAATCGATTGGGATAACATCGCGAATCAAAATTAT
2840936 ACCCGGAAGT
Statistics
Matches: 202, Mismatches: 32, Indels: 8
0.83 0.13 0.03
Matches are distributed among these distances:
132 53 0.26
133 144 0.71
134 5 0.02
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (130 bp):
GAGGTCTTAGAGAATCATGCCCGGAGGTCTTACAGAATCGACTGGATAACACCATAAGTCAAAAA
TAAAGAATCGATTGGGATAACATCGCGAATCAAAATTATGCTCAGAGGTCTTAAAAATAATGCCC
Found at i:2840728 original size:23 final size:23
Alignment explanation
Indices: 2840669--2840735 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 23
2840659 AATCGAAATT
* *
2840669 ATGCTCAGAGGTCTTAGA-AATA
1 ATGCCCAGAGGTCTTACAGAATA
*
2840691 ATGCCCAGAGGTCTTACAGAATC
1 ATGCCCAGAGGTCTTACAGAATA
* *
2840714 ATGTCCGGAGGTCTTACAGAAT
1 ATGCCCAGAGGTCTTACAGAAT
2840736 TGACTGGGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
22 16 0.41
23 23 0.59
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.25
Consensus pattern (23 bp):
ATGCCCAGAGGTCTTACAGAATA
Found at i:2840850 original size:23 final size:22
Alignment explanation
Indices: 2840810--2840869 Score: 93
Period size: 23 Copynumber: 2.6 Consensus size: 22
2840800 TTATGTTTGG
*
2840810 AGGTCTTAAAAATCATGCCCGA
1 AGGTCTTAAGAATCATGCCCGA
2840832 AGGTCTTAGAGAATCATGCCCGA
1 AGGTCTTA-AGAATCATGCCCGA
2840855 AGGTCTTACAGAATC
1 AGGTCTTA-AGAATC
2840870 GACTGGTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
22 8 0.23
23 27 0.77
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.23
Consensus pattern (22 bp):
AGGTCTTAAGAATCATGCCCGA
Found at i:2841002 original size:86 final size:87
Alignment explanation
Indices: 2840850--2841035 Score: 221
Period size: 86 Copynumber: 2.1 Consensus size: 87
2840840 GAGAATCATG
* * ** * * *
2840850 CCCGAAGGTCTTACAGAATCGACTGGTATAATACCGTAAGTCAAAAATAAAGAATCGATTGGGAT
1 CCCGAAAGTCTTACAGAATCGACTGGTATAACACCACAAGTCAAAAATAAAAAATCGATCGAGAT
* *
2840915 AATATCGCGAATCAAAATTATA
66 AACACCGCGAATCAAAATTATA
* * *
2840937 CCCGGAAGTCTTACAGAATCGACTGG-ATAACACCACAGGTCAGAAATAAAAAATCGATCGAGAT
1 CCCGAAAGTCTTACAGAATCGACTGGTATAACACCACAAGTCAAAAATAAAAAATCGATCGAGAT
* * *
2841001 AACACCGTGAATCGAAATTATG
66 AACACCGCGAATCAAAATTATA
*
2841023 CCTGAAAGTCTTA
1 CCCGAAAGTCTTA
2841036 GAAATCATGC
Statistics
Matches: 82, Mismatches: 17, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
86 58 0.71
87 24 0.29
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.22
Consensus pattern (87 bp):
CCCGAAAGTCTTACAGAATCGACTGGTATAACACCACAAGTCAAAAATAAAAAATCGATCGAGAT
AACACCGCGAATCAAAATTATA
Found at i:2841045 original size:22 final size:22
Alignment explanation
Indices: 2841014--2841057 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
2841004 ACCGTGAATC
* *
2841014 GAAATTATGCCTGAAAGTCTTA
1 GAAATCATGCCCGAAAGTCTTA
*
2841036 GAAATCATGCCCGAAGGTCTTA
1 GAAATCATGCCCGAAAGTCTTA
2841058 CAGAATCGAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.27
Consensus pattern (22 bp):
GAAATCATGCCCGAAAGTCTTA
Found at i:2841155 original size:22 final size:23
Alignment explanation
Indices: 2841123--2841174 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 23
2841113 CATCGCGACT
*
2841123 CAAAATTATGCCCGAAGGTCTTA
1 CAAAATCATGCCCGAAGGTCTTA
* *
2841146 -AAAATCATGCCTGGAGGTCTTA
1 CAAAATCATGCCCGAAGGTCTTA
2841168 CAAAATC
1 CAAAATC
2841175 GACTGGGATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 19 0.76
23 6 0.24
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (23 bp):
CAAAATCATGCCCGAAGGTCTTA
Found at i:2841262 original size:22 final size:21
Alignment explanation
Indices: 2841233--2841275 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
2841223 ACCACGAATC
*
2841233 GAAATTATGCTCGGAGGTCTT
1 GAAATTATGCCCGGAGGTCTT
2841254 GAAAGTTATGCCCGGAGGTCTT
1 GAAA-TTATGCCCGGAGGTCTT
2841276 ACAAATCTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.30
Consensus pattern (21 bp):
GAAATTATGCCCGGAGGTCTT
Found at i:2841271 original size:109 final size:105
Alignment explanation
Indices: 2840937--2841280 Score: 355
Period size: 110 Copynumber: 3.2 Consensus size: 105
2840927 CAAAATTATA
* * * * *
2840937 CCCGGAAGTCTTACAGAATCGACTGGATAACACCACAGGTCAGAAATAAAAAATCGATCGAGATA
1 CCCGGAGGTCTTACAAAATCGACTGGATAACACCATAAGTCAAAAATAAAAAATCGATCG-GATA
* *
2841002 ACACCGTGAATCGAAATTATGCCTGAAAGTCTTAGAAATCATG
65 ACACCGCGAATCGAAATTATGCC-GAAGGTCTT-GAAATCATG
* * * * * *
2841045 CCCGAAGGTCTTACAGAATCGACTAGGAGAACACCATAAGTCAAAAGATAAAGAATTGATTGGGA
1 CCCGGAGGTCTTACAAAATCGACT-GGATAACACCATAAGTCAAAA-ATAAAAAATCGA-TCGGA
* * * *
2841110 TAACATCGCGACTCAAAATTATGCCCGAAGGTCTTAAAAATCATG
63 TAACACCGCGAATCGAAATTATG-CCGAAGGTCTT-GAAATCATG
* * * * *
2841155 CCTGGAGGTCTTACAAAATCGACTGGGATAATACCGTAAATCAAAAATAAAAAATCGATCAGGAC
1 CCCGGAGGTCTTACAAAATCGACT-GGATAACACCATAAGTCAAAAATAAAAAATCGATC-GGAT
* * *
2841220 AACACCACGAATCGAAATTATGCTCGGAGGTCTTGAAAGTTATG
64 AACACCGCGAATCGAAATTATGC-CGAAGGTCTTGAAA-TCATG
2841264 CCCGGAGGTCTTACAAA
1 CCCGGAGGTCTTACAAA
2841281 TCTCAAAATC
Statistics
Matches: 194, Mismatches: 35, Indels: 13
0.80 0.14 0.05
Matches are distributed among these distances:
108 27 0.14
109 77 0.40
110 86 0.44
111 4 0.02
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.21
Consensus pattern (105 bp):
CCCGGAGGTCTTACAAAATCGACTGGATAACACCATAAGTCAAAAATAAAAAATCGATCGGATAA
CACCGCGAATCGAAATTATGCCGAAGGTCTTGAAATCATG
Found at i:2841530 original size:122 final size:120
Alignment explanation
Indices: 2841259--2841552 Score: 453
Period size: 122 Copynumber: 2.4 Consensus size: 120
2841249 GTCTTGAAAG
2841259 TTATGCCCGGAGGTCTTACAAATCTCAAAATCTTTGAATGCTCCTCATAATCAGAGGCAATGAAA
1 TTATG-CCGGAGGTCTTACAAATCTCAAAATCTTTGAATGCTCCTCATAATCAGAGGCAATGAAA
* * * *
2841324 CTTTAAATTTTAAAAATTTTTTAATCTTGAAAGTCGTACGCAGAAGCTTTTAGAGA
65 CTTTAAAATTTAAAAATCTTTTAATCTTGAAACTCGCACGCAGAAGCTTTTAGAGA
* ** *
2841380 TTATGCCTGAAGGTCTTGTAAATCTCAAAATCTTTGAATGCTCCTCATAATTAGAGGCAATGAAA
1 TTATGCC-GGAGGTCTTACAAATCTCAAAATCTTTGAATGCTCCTCATAATCAGAGGCAATGAAA
* * *
2841445 CTTTAAAAATTTGAAAATCTTTTAATCTTGAAACTCGCACGTAGAGGCTTTTAGAGA
65 CTTT-AAAATTTAAAAATCTTTTAATCTTGAAACTCGCACGCAGAAGCTTTTAGAGA
2841502 TTATGTCCGGAGGTCTTACAAATCTCAAAATCTTTGAATGCTCCTCATAAT
1 TTATG-CCGGAGGTCTTACAAATCTCAAAATCTTTGAATGCTCCTCATAAT
2841553 AAAAAAAAAG
Statistics
Matches: 156, Mismatches: 14, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
120 2 0.01
121 62 0.40
122 90 0.58
123 2 0.01
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.34
Consensus pattern (120 bp):
TTATGCCGGAGGTCTTACAAATCTCAAAATCTTTGAATGCTCCTCATAATCAGAGGCAATGAAAC
TTTAAAATTTAAAAATCTTTTAATCTTGAAACTCGCACGCAGAAGCTTTTAGAGA
Found at i:2841707 original size:206 final size:205
Alignment explanation
Indices: 2841353--2841758 Score: 609
Period size: 206 Copynumber: 2.0 Consensus size: 205
2841343 TTTAATCTTG
**
2841353 AAAGTCGTACGCAGAAGCTTTTAGAGATTATGCCTGAAGGTCTTGTAAATCTCAAAATCTTTGAA
1 AAAGTCGTACGCAGAAGCTTTTAGAGATTATGCCTGAAGGTCTTACAAATCTCAAAATCTTTGAA
* * *
2841418 TGCTCCTCATAATTAGAGGCAATGAAACTTTAAAAATTTGAAAATCTTTTAATCTTGAAACTCGC
66 TGCTCCTCATAATCAGAGGCAACGAAACTTTAAAAATATGAAAATCTTTTAATCTTGAAACTCGC
* * * *
2841483 ACGTAGAGGCTTTTAGAGATTATGTCCGGAGGTCTTACAAATCTCAAAATCTTTGAATGCTCCTC
131 ACG-AGAGACTTTTAGAGATTATGCCCGGAGGTCTTACAAATCTCAAAATCTTTAAATACTCCTC
2841548 ATAATAAAAAA
195 ATAATAAAAAA
* * *
2841559 AAAGTCGTACGCAGAGGGTTTTAGAGATTATGTCC-GGAGGTCTTACAAATCTCAAAATCTTTGA
1 AAAGTCGTACGCAGAAGCTTTTAGAGATTATG-CCTGAAGGTCTTACAAATCTCAAAATCTTTGA
* *
2841623 ATGCTCCTCATAATCAGAGGTAACGAAACTTTAAAAATATGAAAATCTTTTAATCTTGAAAGTCG
65 ATGCTCCTCATAATCAGAGGCAACGAAACTTTAAAAATATGAAAATCTTTTAATCTTGAAACTC-
* *
2841688 TGCAC-AGAGACTTTTAGAGATTATGCCCGGAGGTCTTATAAATCTTAAAATCTTTAAATACTCC
129 -GCACGAGAGACTTTTAGAGATTATGCCCGGAGGTCTTACAAATCTCAAAATCTTTAAATACTCC
*
2841752 TTATAAT
193 TCATAAT
2841759 CAGAGTTAAT
Statistics
Matches: 180, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
206 174 0.97
207 2 0.01
208 4 0.02
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32
Consensus pattern (205 bp):
AAAGTCGTACGCAGAAGCTTTTAGAGATTATGCCTGAAGGTCTTACAAATCTCAAAATCTTTGAA
TGCTCCTCATAATCAGAGGCAACGAAACTTTAAAAATATGAAAATCTTTTAATCTTGAAACTCGC
ACGAGAGACTTTTAGAGATTATGCCCGGAGGTCTTACAAATCTCAAAATCTTTAAATACTCCTCA
TAATAAAAAA
Found at i:2841776 original size:122 final size:122
Alignment explanation
Indices: 2841559--2841797 Score: 370
Period size: 122 Copynumber: 2.0 Consensus size: 122
2841549 TAATAAAAAA
* ** * *
2841559 AAAGTCGTACGCAGAGGGTTTTAGAGATTATGTCCGGAGGTCTTACAAATCTCAAAATCTTTGAA
1 AAAGTCGTACACAGAGACTTTTAGAGATTATGCCCGGAGGTCTTACAAATCTCAAAATCTTTAAA
*
2841624 TGCTCCTCATAATCAGAGGTAACGAAACTTTAAAAATATGAAAATCTTTTAATCTTG
66 TACTCCTCATAATCAGAGGTAACGAAACTTTAAAAATATGAAAATCTTTTAATCTTG
* * *
2841681 AAAGTCGTGCACAGAGACTTTTAGAGATTATGCCCGGAGGTCTTATAAATCTTAAAATCTTTAAA
1 AAAGTCGTACACAGAGACTTTTAGAGATTATGCCCGGAGGTCTTACAAATCTCAAAATCTTTAAA
* * *
2841746 TACTCCTTATAATCAGAGTTAATGAAACTTTAAAAATATGAAAATCTTTTAA
66 TACTCCTCATAATCAGAGGTAACGAAACTTTAAAAATATGAAAATCTTTTAA
2841798 AACATGGCTT
Statistics
Matches: 105, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
122 105 1.00
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (122 bp):
AAAGTCGTACACAGAGACTTTTAGAGATTATGCCCGGAGGTCTTACAAATCTCAAAATCTTTAAA
TACTCCTCATAATCAGAGGTAACGAAACTTTAAAAATATGAAAATCTTTTAATCTTG
Found at i:2843621 original size:10 final size:9
Alignment explanation
Indices: 2843607--2843651 Score: 56
Period size: 9 Copynumber: 4.9 Consensus size: 9
2843597 ATTTTGTTTA
*
2843607 TTTTTTTTC
1 TTTTTTTTG
2843616 TCTTTTTTT-
1 T-TTTTTTTG
2843625 TATTTTTTTG
1 T-TTTTTTTG
2843635 TTTTTTTTG
1 TTTTTTTTG
2843644 TTTTTTTT
1 TTTTTTTT
2843652 TATGCCCCAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
9 25 0.76
10 8 0.24
ACGTcount: A:0.02, C:0.04, G:0.04, T:0.89
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:2843638 original size:17 final size:17
Alignment explanation
Indices: 2843618--2843650 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2843608 TTTTTTTCTC
2843618 TTTTTTTTATTTTTTTG
1 TTTTTTTTATTTTTTTG
*
2843635 TTTTTTTTGTTTTTTT
1 TTTTTTTTATTTTTTT
2843651 TTATGCCCCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.03, C:0.00, G:0.06, T:0.91
Consensus pattern (17 bp):
TTTTTTTTATTTTTTTG
Found at i:2843650 original size:20 final size:21
Alignment explanation
Indices: 2843598--2843652 Score: 62
Period size: 19 Copynumber: 2.7 Consensus size: 21
2843588 AATATGTCCA
2843598 TTTTGTTTATTTTTTTTCTCTT
1 TTTTGTTT-TTTTTTTTCTCTT
*
2843620 TTTT-TTATTTTTTTGT-T-TT
1 TTTTGTT-TTTTTTTTTCTCTT
2843639 TTTTGTTTTTTTTT
1 TTTTGTTTTTTTTT
2843653 ATGCCCCATC
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
19 13 0.43
20 3 0.10
21 9 0.30
22 5 0.17
ACGTcount: A:0.04, C:0.04, G:0.05, T:0.87
Consensus pattern (21 bp):
TTTTGTTTTTTTTTTTCTCTT
Found at i:2849038 original size:5 final size:5
Alignment explanation
Indices: 2849028--2849056 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
2849018 ATGTTTTCAA
2849028 AAATT AAATT AAATT AAATT AAATT AAAT
1 AAATT AAATT AAATT AAATT AAATT AAAT
2849057 ATCAAATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
AAATT
Found at i:2849738 original size:21 final size:22
Alignment explanation
Indices: 2849698--2849738 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
2849688 AATATCATAA
* *
2849698 TTTTTTCTTTTAAAAGTATTAT
1 TTTTTTATTATAAAAGTATTAT
2849720 TTTTTTATTATAAAA-TATT
1 TTTTTTATTATAAAAGTATT
2849739 TTATCACCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.63
Consensus pattern (22 bp):
TTTTTTATTATAAAAGTATTAT
Found at i:2851607 original size:16 final size:16
Alignment explanation
Indices: 2851588--2851622 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
2851578 TGTTTTTCTC
*
2851588 TTTTTTATTTTTATTT
1 TTTTTTATTATTATTT
2851604 TTTTTTATTATTATTT
1 TTTTTTATTATTATTT
2851620 TTT
1 TTT
2851623 ATATAATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (16 bp):
TTTTTTATTATTATTT
Found at i:2851660 original size:22 final size:24
Alignment explanation
Indices: 2851608--2851662 Score: 73
Period size: 22 Copynumber: 2.5 Consensus size: 24
2851598 TTATTTTTTT
2851608 TTATTATTATTTTTTATATAATTA
1 TTATTATTATTTTTTATATAATTA
*
2851632 --ATAATTATTTTTTA-A-AATTA
1 TTATTATTATTTTTTATATAATTA
2851652 TTATTATTATT
1 TTATTATTATT
2851663 ATTAATATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
20 5 0.19
21 1 0.04
22 21 0.78
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (24 bp):
TTATTATTATTTTTTATATAATTA
Found at i:2853967 original size:19 final size:18
Alignment explanation
Indices: 2853954--2853991 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
2853944 ATAAAATTAA
2853954 AAAATTAATTTAAAAAAT
1 AAAATTAATTTAAAAAAT
*
2853972 AAAAATAATTTAAACAAAT
1 AAAATTAATTTAAA-AAAT
2853991 A
1 A
2853992 TTCATCATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (18 bp):
AAAATTAATTTAAAAAAT
Found at i:2853980 original size:18 final size:20
Alignment explanation
Indices: 2853953--2853991 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
2853943 TATAAAATTA
2853953 AAAAATTAATTTAAA-AAAT
1 AAAAATTAATTTAAACAAAT
2853972 AAAAA-TAATTTAAACAAAT
1 AAAAATTAATTTAAACAAAT
2853991 A
1 A
2853992 TTCATCATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (20 bp):
AAAAATTAATTTAAACAAAT
Found at i:2856015 original size:41 final size:41
Alignment explanation
Indices: 2855958--2856041 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
2855948 AAACCCACAA
2855958 ATCATTACACCTAGTCACAAACCAAGGCAGGGAACTTCCCT
1 ATCATTACACCTAGTCACAAACCAAGGCAGGGAACTTCCCT
*
2855999 ATCATTACACCTAGTCACAAACCAAGGTAGGGAACTTCCCT
1 ATCATTACACCTAGTCACAAACCAAGGCAGGGAACTTCCCT
2856040 AT
1 AT
2856042 ACATAGAGTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.35, C:0.30, G:0.14, T:0.21
Consensus pattern (41 bp):
ATCATTACACCTAGTCACAAACCAAGGCAGGGAACTTCCCT
Found at i:2857456 original size:21 final size:20
Alignment explanation
Indices: 2857430--2857488 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 20
2857420 TTATAATTAA
2857430 TATTTTTAATGATTATTTAT
1 TATTTTTAATGATTATTTAT
* *
2857450 T-TTTTTTAT-ATT-TTTAAA
1 TATTTTTAATGATTATTT-AT
*
2857468 TATTTTTAATGATAATTTAT
1 TATTTTTAATGATTATTTAT
2857488 T
1 T
2857489 TAATGGTCAT
Statistics
Matches: 30, Mismatches: 5, Indels: 8
0.70 0.12 0.19
Matches are distributed among these distances:
17 3 0.10
18 5 0.17
19 14 0.47
20 5 0.17
21 3 0.10
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (20 bp):
TATTTTTAATGATTATTTAT
Found at i:2858815 original size:35 final size:35
Alignment explanation
Indices: 2858776--2858844 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 35
2858766 CTAGCAACCC
* * *
2858776 TATATCTAATTATACAATTAATAATATAAATCATG
1 TATATATAATCATACAATTAACAATATAAATCATG
*
2858811 TATATATAATCATGCAATTAACAATATAAATCAT
1 TATATATAATCATACAATTAACAATATAAATCAT
2858845 ACAAATAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.49, C:0.10, G:0.03, T:0.38
Consensus pattern (35 bp):
TATATATAATCATACAATTAACAATATAAATCATG
Found at i:2858914 original size:41 final size:40
Alignment explanation
Indices: 2858812--2859208 Score: 250
Period size: 41 Copynumber: 9.9 Consensus size: 40
2858802 TAAATCATGT
*
2858812 ATATATAATCATGCAATTAACA-ATATAAATCATAC-A-AATA
1 ATATA-AATCATGTAATTAA-ATATAT-AATCATACAATAATA
* * **
2858852 A-ATAATAATTATGCAATTAAATATATAATCATGTAATTAATA
1 ATAT-A-AATCATGTAATTAAATATATAATCATACAA-TAATA
* *
2858894 ATATAAATCATGTAATTAAATATATAATTATACAAATAACA
1 ATATAAATCATGTAATTAAATATATAATCATAC-AATAATA
* * *
2858935 ATATAAA--A--TAAAT-AAT-TA-AAT-ATATAATAATG
1 ATATAAATCATGTAATTAAATATATAATCATACAATAATA
* * * *
2858967 CTGAT-AATTATGTAATCAAATATATAATCATACAATAAACA
1 AT-ATAAATCATGTAATTAAATATATAATCATACAAT-AATA
* * *
2859008 ATATAAAACATGTAATTAAATATATAATCGTGCACATAATA
1 ATATAAATCATGTAATTAAATATATAATCATACA-ATAATA
* * * *
2859049 ATATAAATCAAGCAATTAAATATATATAATTATGTA-AATAA-C
1 ATATAAATCATGTAATT-AA-ATATATAATCA--TACAATAATA
** * * *
2859091 A-AGCAATCAAGCAATTAAATATATAATCATGCAAATAATA
1 ATATAAATCATGTAATTAAATATATAATCATAC-AATAATA
**
2859131 ATATAAATCAAATAATTAAATATATATAATCATACAATAATA
1 ATATAAATCATGTAATT-AA-ATATATAATCATACAATAATA
* * *
2859173 ATATAAATCATGCAATTAAAAATATAACCATACAAT
1 ATATAAATCATGTAATTAAATATATAATCATACAAT
2859209 TAAAACATGC
Statistics
Matches: 280, Mismatches: 48, Indels: 58
0.73 0.12 0.15
Matches are distributed among these distances:
32 8 0.03
33 5 0.02
34 4 0.01
35 2 0.01
36 6 0.02
37 8 0.03
38 2 0.01
39 28 0.10
40 47 0.17
41 104 0.37
42 36 0.13
43 28 0.10
44 1 0.00
45 1 0.00
ACGTcount: A:0.55, C:0.09, G:0.04, T:0.32
Consensus pattern (40 bp):
ATATAAATCATGTAATTAAATATATAATCATACAATAATA
Found at i:2858993 original size:114 final size:113
Alignment explanation
Indices: 2858856--2859078 Score: 295
Period size: 114 Copynumber: 2.0 Consensus size: 113
2858846 CAAATAAATA
* ** * * *
2858856 ATAATTATGCAATTAAATATATAATCATGTAATTAATAATATAAATCATGTAATTAAATATATAA
1 ATAATTATGCAATCAAATATATAATCATACAATAAACAATATAAAACATGTAATTAAATATATAA
* *
2858921 TTATACAAATAACAATATAAAAT-AAATAATTAAATATATAATAATGCTG
66 TCATACAAATAACAATAT-AAATCAAACAATTAAATATAT-ATAATGCTG
*
2858970 ATAATTATGTAATCAAATATATAATCATACAATAAACAATATAAAACATGTAATTAAATATATAA
1 ATAATTATGCAATCAAATATATAATCATACAATAAACAATATAAAACATGTAATTAAATATATAA
* * * * *
2859035 TCGTGCACATAATAATATAAATCAAGCAATTAAATATATATAAT
66 TCATACAAATAACAATATAAATCAAACAATTAAATATATATAAT
2859079 TATGTAAATA
Statistics
Matches: 94, Mismatches: 14, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
113 9 0.10
114 85 0.90
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.34
Consensus pattern (113 bp):
ATAATTATGCAATCAAATATATAATCATACAATAAACAATATAAAACATGTAATTAAATATATAA
TCATACAAATAACAATATAAATCAAACAATTAAATATATATAATGCTG
Found at i:2859047 original size:73 final size:73
Alignment explanation
Indices: 2858903--2859047 Score: 193
Period size: 73 Copynumber: 2.0 Consensus size: 73
2858893 AATATAAATC
* * *
2858903 ATGTAATTAAATATATAATTATACAAATAACAATATAAAATAAATAATTAAATATATAATAATGC
1 ATGTAATCAAATATATAATCATACAAATAACAATATAAAACAAATAATTAAATATATAATAATGC
**
2858968 TGATAATT
66 ACATAATT
** **
2858976 ATGTAATCAAATATATAATCATAC-AATAAACAATATAAAACATGTAATTAAATATATAATCGTG
1 ATGTAATCAAATATATAATCATACAAAT-AACAATATAAAACAAATAATTAAATATATAATAATG
2859040 CACATAAT
65 CACATAAT
2859048 AATATAAATC
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
72 3 0.05
73 59 0.95
ACGTcount: A:0.54, C:0.08, G:0.05, T:0.33
Consensus pattern (73 bp):
ATGTAATCAAATATATAATCATACAAATAACAATATAAAACAAATAATTAAATATATAATAATGC
ACATAATT
Found at i:2859212 original size:20 final size:20
Alignment explanation
Indices: 2858814--2859213 Score: 110
Period size: 20 Copynumber: 20.0 Consensus size: 20
2858804 AATCATGTAT
* *
2858814 ATATAATCATGCAATTAACA
1 ATATAATCATACAATTAAAA
* *
2858834 ATATAAATCATACAAATAAAT
1 ATAT-AATCATACAATTAAAA
* * *
2858855 A-ATAATTATGCAATTAAAT
1 ATATAATCATACAATTAAAA
** *
2858874 ATATAATCATGTAATTAATA
1 ATATAATCATACAATTAAAA
** *
2858894 ATATAAATCATGTAATTAAAT
1 ATAT-AATCATACAATTAAAA
* * *
2858915 ATATAATTATACAAATAACA
1 ATATAATCATACAATTAAAA
*
2858935 ATATAA-AATA-AA-T--AA
1 ATATAATCATACAATTAAAA
* * **
2858950 TTA-AAT-ATATAA-TAATG
1 ATATAATCATACAATTAAAA
* * ** * *
2858967 CTGATAATTATGTAATCAAAT
1 AT-ATAATCATACAATTAAAA
2858988 ATATAATCATACAA-TAAACA
1 ATATAATCATACAATTAAA-A
* ** *
2859008 ATATAAAACATGTAATTAAAT
1 ATAT-AATCATACAATTAAAA
* * *
2859029 ATATAATCGTGCACA-TAATA
1 ATATAATCATACA-ATTAAAA
2859049 ATATAAATCA-AGCAATTAAATA
1 ATAT-AATCATA-CAATTAAA-A
* ** * *
2859071 TATATAATTATGTAAATAACA
1 -ATATAATCATACAATTAAAA
** *
2859092 A-GCAATCA-AGCAATTAAAT
1 ATATAATCATA-CAATTAAAA
* * *
2859111 ATATAATCATGCAAATAATA
1 ATATAATCATACAATTAAAA
* *
2859131 ATATAAATCAAATAATTAAATA
1 ATAT-AATCATACAATTAAA-A
*
2859153 TATATAATCATACAA-TAATA
1 -ATATAATCATACAATTAAAA
*
2859173 ATATAAATCATGCAATTAAAA
1 ATAT-AATCATACAATTAAAA
*
2859194 ATATAACCATACAATTAAAA
1 ATATAATCATACAATTAAAA
2859214 CATGCAATTA
Statistics
Matches: 273, Mismatches: 78, Indels: 58
0.67 0.19 0.14
Matches are distributed among these distances:
14 5 0.02
15 6 0.02
17 2 0.01
18 3 0.01
19 37 0.14
20 112 0.41
21 77 0.28
22 23 0.08
23 8 0.03
ACGTcount: A:0.56, C:0.09, G:0.04, T:0.32
Consensus pattern (20 bp):
ATATAATCATACAATTAAAA
Found at i:2859829 original size:17 final size:17
Alignment explanation
Indices: 2859807--2859840 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
2859797 TTAAGCAAAA
*
2859807 TTTTATATTTGTTTTTT
1 TTTTATATTTATTTTTT
2859824 TTTTATATTTATTTTTT
1 TTTTATATTTATTTTTT
2859841 ACCGAATGAC
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:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (17 bp):
TTTTATATTTATTTTTT
Found at i:2859892 original size:19 final size:19
Alignment explanation
Indices: 2859868--2859909 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
2859858 CTTTTGATTA
2859868 AAAAAATAAAAAT-TAAATT
1 AAAAAATAAAAATATAAA-T
*
2859887 AAAAAATTAAAATATAAAT
1 AAAAAATAAAAATATAAAT
2859906 AAAA
1 AAAA
2859910 TTTAAGATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (19 bp):
AAAAAATAAAAATATAAAT
Found at i:2860212 original size:58 final size:59
Alignment explanation
Indices: 2860080--2860198 Score: 195
Period size: 59 Copynumber: 2.0 Consensus size: 59
2860070 GAACACAGAA
* *
2860080 AATGAAAGCAAGAAAATGAAAAAAATGAAAGAGCCGCCCCAAGAATAACTCAAGGCCCC
1 AATGAAAGCAAGAAAATGAAAAAAATGAAAGAGACGCCCCAAGAATAACTCAAGCCCCC
* *
2860139 AATGAAAGCAAGAAAATGAAAAAAATGAAAGAGAC-TCCCAAGAATAAGTCAAGCCCCC
1 AATGAAAGCAAGAAAATGAAAAAAATGAAAGAGACGCCCCAAGAATAACTCAAGCCCCC
2860197 AA
1 AA
2860199 CTAATACATG
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
58 22 0.39
59 34 0.61
ACGTcount: A:0.53, C:0.20, G:0.18, T:0.09
Consensus pattern (59 bp):
AATGAAAGCAAGAAAATGAAAAAAATGAAAGAGACGCCCCAAGAATAACTCAAGCCCCC
Found at i:2868315 original size:209 final size:208
Alignment explanation
Indices: 2867929--2868322 Score: 503
Period size: 209 Copynumber: 1.9 Consensus size: 208
2867919 AAAATTTCAT
* * * *
2867929 TATATTGAAGATTTTCTATAAATATTTCAATACACTGGTAATATTTTACAAAAAATCTTCTCACC
1 TATATTGAAAATTTTCTATAAATACTCCAATACACTGGTAATATTTTAAAAAAAATCTTCTCACC
* *
2867994 TAGAGATTTCTTAAAGCATCTCTACTCGGAATACTTTTAGAATCCCATCATCAAATAAAATTTCT
66 TAGAGATTTCGTAAAGCATCACTACTCGGAATACTTTTAGAATCCCATCATCAAATAAAATTTCT
* *
2868059 TTTCTTCTCATTTTTATTACTTATTTTTAATATATTAATCAATTTTTAT-TTATTACTTAAAAAA
131 TTTC-TCTCATTTTTATTACTTAGTATTAATATATTAATCAATTTTTATATTATTACTTAAAAAA
2868123 AAGAAAATTTTTAC
195 AAGAAAATTTTTAC
* *
2868137 TATATTGAAAATTTTTTTATAAATACTCCAATACACTGGTACTATTTTAAAAAAAATCTTCTCAC
1 TATATTGAAAA-TTTTCTATAAATACTCCAATACACTGGTAATATTTTAAAAAAAATCTTCTCAC
* * * * **
2868202 CTAGAGATTTCGT-AGGTATCACTACTCGGAATACTTTT-GAATCCTATCGTCGGATAAAAATTT
65 CTAGAGATTTCGTAAAGCATCACTACTCGGAATACTTTTAGAATCCCATCATCAAAT-AAAATTT
* **
2868265 CCTTTTC-CTACATTTTTTATTAGTTTAGTATT-AT-TATTAAATTTATTTTTATATTATT
129 -CTTTTCTCT-CA-TTTTTATTA-CTTAGTATTAATATATT-AATCAATTTTTATATTATT
2868323 TTGTTTTTAA
Statistics
Matches: 159, Mismatches: 19, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
207 15 0.09
208 45 0.28
209 88 0.55
210 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.07, T:0.44
Consensus pattern (208 bp):
TATATTGAAAATTTTCTATAAATACTCCAATACACTGGTAATATTTTAAAAAAAATCTTCTCACC
TAGAGATTTCGTAAAGCATCACTACTCGGAATACTTTTAGAATCCCATCATCAAATAAAATTTCT
TTTCTCTCATTTTTATTACTTAGTATTAATATATTAATCAATTTTTATATTATTACTTAAAAAAA
AGAAAATTTTTAC
Found at i:2869456 original size:14 final size:15
Alignment explanation
Indices: 2869437--2869501 Score: 89
Period size: 14 Copynumber: 4.4 Consensus size: 15
2869427 ACCATCCTCG
2869437 ATTTTTTTTT-TATT
1 ATTTTTTTTTGTATT
2869451 ATTTTTTTTTGTATT
1 ATTTTTTTTTGTATT
*
2869466 -TTTTGTTTTGTATT
1 ATTTTTTTTTGTATT
*
2869480 TTTTTTATTTTGTATT
1 ATTTTT-TTTTGTATT
2869496 ATTTTT
1 ATTTTT
2869502 GGTATATTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
14 23 0.51
15 8 0.18
16 14 0.31
ACGTcount: A:0.12, C:0.00, G:0.06, T:0.82
Consensus pattern (15 bp):
ATTTTTTTTTGTATT
Found at i:2869501 original size:42 final size:40
Alignment explanation
Indices: 2869437--2869522 Score: 102
Period size: 42 Copynumber: 2.1 Consensus size: 40
2869427 ACCATCCTCG
* * *
2869437 ATTTTTTTTTTATTATTTTTTTTTGTAT-TTTTTGTTTTGT
1 ATTTTTTTTTTATTATTATTTTTGGTATATTTTT-TATTGT
*
2869477 ATTTTTTTTATTTTGTATTATTTTTGGTATATTTTTTATTGT
1 ATTTTTTTT-TTAT-TATTATTTTTGGTATATTTTTTATTGT
2869519 ATTT
1 ATTT
2869523 CATATTTTGT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
40 9 0.23
41 3 0.08
42 22 0.56
43 5 0.13
ACGTcount: A:0.14, C:0.00, G:0.08, T:0.78
Consensus pattern (40 bp):
ATTTTTTTTTTATTATTATTTTTGGTATATTTTTTATTGT
Found at i:2869520 original size:14 final size:13
Alignment explanation
Indices: 2869437--2869520 Score: 60
Period size: 14 Copynumber: 6.0 Consensus size: 13
2869427 ACCATCCTCG
*
2869437 ATTTTTTTTTTATT
1 ATTTTTTTTGTA-T
2869451 ATTTTTTTTTGTAT
1 A-TTTTTTTTGTAT
*
2869465 TTTTTGTTTTGTAT
1 ATTTT-TTTTGTAT
* * *
2869479 TTTTTTTATTTTGT
1 ATTTTTT-TTGTAT
*
2869493 ATTATTTTTGGTAT
1 ATT-TTTTTTGTAT
2869507 ATTTTTTATTGTAT
1 ATTTTTT-TTGTAT
2869521 TTCATATTTT
Statistics
Matches: 56, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
13 10 0.18
14 32 0.57
15 14 0.25
ACGTcount: A:0.14, C:0.00, G:0.08, T:0.77
Consensus pattern (13 bp):
ATTTTTTTTGTAT
Found at i:2869529 original size:19 final size:20
Alignment explanation
Indices: 2869505--2869549 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
2869495 TATTTTTGGT
* *
2869505 ATATTTTTTA-TTGTATTTC
1 ATATTTTGTATTTATATTTC
2869524 ATATTTTGTATTTATATTTC
1 ATATTTTGTATTTATATTTC
*
2869544 GTATTT
1 ATATTT
2869550 ATTTTTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.22, C:0.04, G:0.07, T:0.67
Consensus pattern (20 bp):
ATATTTTGTATTTATATTTC
Found at i:2869542 original size:13 final size:13
Alignment explanation
Indices: 2869485--2869555 Score: 60
Period size: 13 Copynumber: 5.5 Consensus size: 13
2869475 GTATTTTTTT
2869485 TATTTTGTA-TTA
1 TATTTTGTATTTA
2869497 T-TTTTGGTATATT-
1 TATTTT-GTAT-TTA
*
2869510 TTTTATTGTATTTCA
1 TATT-TTGTATTT-A
2869525 TATTTTGTATTTA
1 TATTTTGTATTTA
*
2869538 TATTTCGTATTTA
1 TATTTTGTATTTA
2869551 T-TTTT
1 TATTTT
2869556 TTTTTGACAA
Statistics
Matches: 49, Mismatches: 3, Indels: 14
0.74 0.05 0.21
Matches are distributed among these distances:
11 4 0.08
12 7 0.14
13 17 0.35
14 16 0.33
15 5 0.10
ACGTcount: A:0.20, C:0.03, G:0.08, T:0.69
Consensus pattern (13 bp):
TATTTTGTATTTA
Found at i:2869543 original size:20 final size:19
Alignment explanation
Indices: 2869485--2869549 Score: 58
Period size: 21 Copynumber: 3.3 Consensus size: 19
2869475 GTATTTTTTT
* *
2869485 TATTTTGTATTATTTTTGGTA
1 TATTTTGTATTATATTT--CA
* *
2869506 TATTTTTTATTGTATTTCA
1 TATTTTGTATTATATTTCA
*
2869525 TATTTTGTATTTATATTTCG
1 TATTTTGTA-TTATATTTCA
2869545 TATTT
1 TATTT
2869550 ATTTTTTTTT
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
19 9 0.25
20 13 0.36
21 14 0.39
ACGTcount: A:0.20, C:0.03, G:0.09, T:0.68
Consensus pattern (19 bp):
TATTTTGTATTATATTTCA
Found at i:2869789 original size:50 final size:50
Alignment explanation
Indices: 2869723--2870956 Score: 503
Period size: 49 Copynumber: 24.9 Consensus size: 50
2869713 TTAAAAATCT
* * * *
2869723 AAAAAAGACTCATCTCAGCAGAGGTTCAACAACTTTAAAAATTTTATCTTG
1 AAAAAAG-CTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTG
* * *
2869774 AAAAAGGTTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTCATTTTG
1 AAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTG
* * *
2869823 --AAAAGCTCCTCTTAGCAGAGGTTCAACAACGTTAAAAAATCTCATCTTGG
1 AAAAAAGCTCCTCTCAGCAGAGGCTCAACAAC-TTTAAAAATCTCATCTT-G
* * *
2869873 AAAAAAAGCTCCTCTCAGCACAGGCTTAACAATTTTTAAAAATCTCATCTTG
1 -AAAAAAGCTCCTCTCAGCAGAGGCTCAACAA-CTTTAAAAATCTCATCTTG
* * *
2869925 AAAAAAGCTCCTCTCAGCACAGGCTTAACAACTTTAAAAATCTAAT-TTG
1 AAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTG
* * *
2869974 -GAAAAGTTCCTTTCAGCAGAGGCTCAACAACTTT-AAAATCTCATCTTG
1 AAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTG
* ** * * *
2870022 GAAATGGCTCCTCTCAGTAGAGGCTCAATAACTTTAAAAATCTCATCTTA
1 AAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTG
*
2870072 AAAAAAGCTCCTTTCAGCAGAGGCTCAACAACTTTAAAAATCTCAT-TTG
1 AAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTG
* * * * * * ***
2870121 -GAAAAGCTCTTCTTAGCAGA-GCTTAATAACTTT-AAAATCTTGAAAAAGAATG
1 AAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATC-T----CATCTTG
* * * * * * * * ** *** * *
2870173 ACTTTAAAATCTCATCT-TGGAAATGGCTCATC-TCAGTAGAGGCTCAACAACTT-
1 A---AAAAAGCTCCTCTCAGCAGA-GGCTCAACAACTTTA-AAAATC-TCATCTTG
* * * * * * * *
2870226 TAAAAATCTCATTTGA-AAAAGCTCCTCTCAATAGAGGCTCAACTTT-AAAA--TC--CATCT-
1 AAAAAAGCTCCTCTCAGCAGAG----GCTC---A-A----CAACTTTAAAAATCTCATC-T-TG
* ** * * * * * * *
2870283 TAAAAAG-AGCTCCTC-TCAGCAGAG-GC-TCAACAACTTTAAAA-ATTATCTTG
1 AAAAAAGCTCCT-CTCAGCAG-AG-GCTCAACAAC--TTTAAAAATCTCATCTTG
** * * *
2870333 AAAATGGCTTCTCTTAGTAGATGG-TCAACAACTTTAAAAAT-T-ATCTT-
1 AAAAAAGCTCCTCTCAGCAGA-GGCTCAACAACTTTAAAAATCTCATCTTG
* * * *
2870380 AAAAAGGGCTCCTCTCAGCAGAAGCTTAACAACTTT-AAAATCT-TTCTTG
1 AAAAA-AGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTG
* *
2870429 -AAAAA-CTTCGT-TCAGCAAAGGCTCAACAACTTT-AAAATC-CATCTTG
1 AAAAAAGC-TCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTG
* * *
2870475 -AAAAAGCTTCTCTCAACAGAGGCT---CAACTTT--AAATC-CATCTTT
1 AAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTG
* * ** **
2870518 AAAAAAGGGCTCCTTTCAGCAGAGGTTCACAACAGAGGCTCAACAATTTTAAAAATCATCTTG
1 AAAAAA--GCTCCTCTCAGCAGAGG--CTCAACA-A--CT------TTAAAAATCTCATCTTG
* * *
2870581 AAAAAGGCTCCTCTGC-GCAGAGGCTCAACAA-TTTTAAAATCTCATTTTG
1 AAAAAAGCTCCTCT-CAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTG
* * * * *
2870630 AAAAAGGCTCTTCTCAGCAAAGGCTCAACAACTTT-AAAGTCTTATCTTG
1 AAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTG
* *
2870679 AAAAAGGCTCCTTTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGG
1 AAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTT-G
* ** *
2870730 AAAAAA-CTCCTCTCAGTAGAGGCTCAATGACTTT-AAAATCTC-TTTTG
1 AAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTG
* *
2870777 -GAAAAGCTCCTTTCAGCAGAGGCTCAACAACTTT-AAAATCTCA---TG
1 AAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTG
* *
2870822 GAAAAA-CTCCTCTCAACAGAGGCTCAACAACTTT-AAAATCTCA---TG
1 AAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTG
** * *
2870867 -AAAAAGCTTTTCTCAACAAAGGCTCAACAACTTT-AAAATCTCA---T-
1 AAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTG
* * *
2870911 AAAAAAGGCTCCTTTTAGCAGAGGCTCAGCAACTTT-AAAATCTCAT
1 AAAAAA-GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCAT
2870957 GAAAAGGGCT
Statistics
Matches: 910, Mismatches: 178, Indels: 194
0.71 0.14 0.15
Matches are distributed among these distances:
43 11 0.01
44 17 0.02
45 83 0.09
46 97 0.11
47 106 0.12
48 96 0.11
49 156 0.17
50 154 0.17
51 56 0.06
52 4 0.00
53 44 0.05
54 5 0.01
55 5 0.01
56 15 0.02
57 14 0.02
58 6 0.01
59 6 0.01
60 3 0.00
61 15 0.02
62 6 0.01
63 11 0.01
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (50 bp):
AAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTG
Found at i:2870261 original size:48 final size:48
Alignment explanation
Indices: 2870173--2870550 Score: 303
Period size: 48 Copynumber: 8.0 Consensus size: 48
2870163 AAAAAGAATG
** * *
2870173 ACTTTAAAATCTCATCTTGGAAATGGCTCATCTCAGTAGAGGCTCAACA
1 ACTTTAAAATCTCATCTT-GAAAAAGCTCCTCTCAGCAGAGGCTCAACA
**
2870222 ACTTTAAAAATCTCAT-TTGAAAAAGCTCCTCTCAATAGAGGCT---CA
1 ACTTT-AAAATCTCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACA
*
2870267 ACTTTAAAATC-CATCTTAAAAAGAGCTCCTCTCAGCAGAGGCTCAACA
1 ACTTTAAAATCTCATCTTGAAAA-AGCTCCTCTCAGCAGAGGCTCAACA
* * * *
2870315 ACTTTAAAAAT-T-ATCTTGAAAATGGCTTCTCTTAGTAGATGG-TCAACA
1 ACTTT-AAAATCTCATCTTGAAAA-AGCTCCTCTCAGCAGA-GGCTCAACA
* *
2870363 ACTTTAAAAAT-T-ATCTT-AAAAAGGGCTCCTCTCAGCAGAAGCTTAACA
1 ACTTT-AAAATCTCATCTTGAAAAA--GCTCCTCTCAGCAGAGGCTCAACA
* * *
2870411 ACTTTAAAATCT-TTCTTGAAAAA-CTTCGT-TCAGCAAAGGCTCAACA
1 ACTTTAAAATCTCATCTTGAAAAAGC-TCCTCTCAGCAGAGGCTCAACA
* *
2870457 ACTTTAAAATC-CATCTTGAAAAAGCTTCTCTCAACAGAGGCT---CA
1 ACTTTAAAATCTCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACA
* * *
2870501 ACTTT-AAATC-CATCTTTAAAAAAGGGCTCCTTTCAGCAGAGGTTC-ACA
1 ACTTTAAAATCTCATC-TTGAAAAA--GCTCCTCTCAGCAGAGGCTCAACA
2870549 AC
1 AC
2870551 AGAGGCTCAA
Statistics
Matches: 272, Mismatches: 34, Indels: 47
0.77 0.10 0.13
Matches are distributed among these distances:
43 12 0.04
44 26 0.10
45 25 0.09
46 53 0.19
47 24 0.09
48 103 0.38
49 19 0.07
50 10 0.04
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (48 bp):
ACTTTAAAATCTCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACA
Found at i:2870336 original size:170 final size:168
Alignment explanation
Indices: 2870003--2870323 Score: 454
Period size: 170 Copynumber: 1.9 Consensus size: 168
2869993 AGGCTCAACA
* *
2870003 ACTTTAAAATCTCATCTTGGAAATGGCTCCTCTCAGTAGAGGCTCAATAACTTTAAAAATCTCAT
1 ACTTTAAAATCTCATCTTGGAAATGGCTCATCTCAGTAGAGGCTCAACAACTTTAAAAATCTCAT
* * ** *
2870068 CTTAAAAAAAGCTCCTTTCAGCAGAGGCTCAACAACTTTAAAAATCTCATTTGGAAAAGCTCTTC
66 CTTAAAAAAAGCTCCTCTCAACAGAGGCT--ACAACTTTAAAAATCTCATTTAAAAAAGCTCCTC
* * *
2870133 TTAGCAGAGCTTAATAACTTTAAAATCTTGAAAAAGAATG
129 TCAGCAGAGCTCAACAACTTTAAAATCTTGAAAAAGAATG
2870173 ACTTTAAAATCTCATCTTGGAAATGGCTCATCTCAGTAGAGGCTCAACAACTTTAAAAATCTCAT
1 ACTTTAAAATCTCATCTTGGAAATGGCTCATCTCAGTAGAGGCTCAACAACTTTAAAAATCTCAT
* *
2870238 -TT-GAAAAAGCTCCTCTCAATAGAGGCT-CAACTTT-AAAATC-CATCTTAAAAAGAGCTCCTC
66 CTTAAAAAAAGCTCCTCTCAACAGAGGCTACAACTTTAAAAATCTCAT-TTAAAAA-AGCTCCTC
2870298 TCAGCAGAGGCTCAACAACTTTAAAA
129 TCAGCAGA-GCTCAACAACTTTAAAA
2870324 ATTATCTTGA
Statistics
Matches: 136, Mismatches: 12, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
163 3 0.02
164 11 0.08
165 21 0.15
166 15 0.11
168 21 0.15
169 2 0.01
170 63 0.46
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.29
Consensus pattern (168 bp):
ACTTTAAAATCTCATCTTGGAAATGGCTCATCTCAGTAGAGGCTCAACAACTTTAAAAATCTCAT
CTTAAAAAAAGCTCCTCTCAACAGAGGCTACAACTTTAAAAATCTCATTTAAAAAAGCTCCTCTC
AGCAGAGCTCAACAACTTTAAAATCTTGAAAAAGAATG
Found at i:2870361 original size:93 final size:93
Alignment explanation
Indices: 2870173--2870904 Score: 427
Period size: 93 Copynumber: 7.6 Consensus size: 93
2870163 AAAAAGAATG
* * * *
2870173 ACTTTAAAATCTCATCTTGGAAATGGCTCATCTCAGTAGAGGCTCAACAACTTTAAAAATCTCAT
1 ACTTTAAAATC-CATCTT-AAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCT-AT
2870238 -TTGAAAAAGCTCCTCTCAATAGAGGCT-CA
63 CTTGAAAAAGCTCCTCTCAATAGAGGCTACA
2870267 ACTTTAAAATCCATCTTAAAAAGAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAAT-TATCT
1 ACTTTAAAATCCATCTTAAAAAG-GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTATCT
* * * * *
2870331 TGAAAATGGCTTCTCTTAGTAGATGGTCAACA
65 TGAAAA-AGCTCCTCTCAATAGA-GG-CTACA
* * * *
2870363 ACTTTAAAAAT-TATCTTAAAAAGGGCTCCTCTCAGCAGAAGCTTAACAACTTT-AAAATCTTTC
1 ACTTT-AAAATCCATCTTAAAAA-GGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTATC
* ** *
2870426 TTGAAAAA-CTTCGT-TCAGCAAAGGCTCAACA
64 TTGAAAAAGC-TCCTCTCAATAGAGGCT--ACA
* * *
2870457 ACTTTAAAATCCATCTTGAAAAA-GCTTCTCTCAACAGAGGCT---CAACTTT--AAATCCATCT
1 ACTTTAAAATCCATCTT-AAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTATC-
* *
2870516 TTAAAAAAGGGCTCCTTTCAGCAGAGGTTCACAACAGAGGCTCAACA
64 TTGAAAAA--GCTCC--T---C------T--CAATAGAGGCT--ACA
* *
2870563 ATTTTAAAAAT-CATCTTGAAAAAGGCTCCTCTGC-GCAGAGGCTCAACAA-TTTTAAAATCTCA
1 ACTTTAAA-ATCCATCTT-AAAAAGGCTCCTCT-CAGCAGAGGCTCAACAACTTTAAAAATCT-A
* * ** *
2870625 TTTTGAAAAAGGCTCTTCTCAGCAAAGGCTCAACA
62 TCTTGAAAAA-GCTCCTCTCAATAGAGGCT--ACA
* * *
2870660 ACTTTAAAGTCTTATCTTGAAAAAGGCTCCTTTCAGCAGAGGCTCAACAACTTTAAAAATCTCAT
1 ACTTTAAAATC-CATCTT-AAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCT-AT
* *
2870725 CTTGGAAAAAACTCCTCTCAGTAGAGGCT-CAA
63 CTT-GAAAAAGCTCCTCTCAATAGAGGCTAC-A
* * *
2870757 TGACTTTAAAATCTC-TTTTGGAAAA-GCTCCTTTCAGCAGAGGCTCAACAACTTT-AAAATC--
1 --ACTTTAAAATC-CATCTT-AAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTA
* *
2870817 TCATGGAAAAA-CTCCTCTCAACAGAGGCTCAACA
62 TC-TTGAAAAAGCTCCTCTCAATAGAGGCT--ACA
* ** * *
2870851 ACTTTAAAAT-C-TCATGAAAAA-GCTTTTCTCAACAAAGGCTCAACAACTTTAAAA
1 ACTTTAAAATCCATC-TTAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAA
2870905 TCTCATAAAA
Statistics
Matches: 519, Mismatches: 64, Indels: 113
0.75 0.09 0.16
Matches are distributed among these distances:
89 7 0.01
90 44 0.08
91 6 0.01
92 41 0.08
93 83 0.16
94 35 0.07
95 14 0.03
96 62 0.12
97 58 0.11
98 42 0.08
99 42 0.08
100 6 0.01
104 1 0.00
105 1 0.00
106 33 0.06
107 17 0.03
108 2 0.00
109 3 0.01
110 8 0.02
111 12 0.02
112 2 0.00
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (93 bp):
ACTTTAAAATCCATCTTAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTATCTT
GAAAAAGCTCCTCTCAATAGAGGCTACA
Found at i:2870716 original size:146 final size:141
Alignment explanation
Indices: 2870173--2870961 Score: 547
Period size: 141 Copynumber: 5.5 Consensus size: 141
2870163 AAAAAGAATG
* * * * * *
2870173 ACTTTAAAATCTCATCTTGGAAATGGCTCATCTCAGTAGAGGCTCAACAACTTTAAAAATCTCAT
1 ACTTTAAAATCTCATTTTGAAAAAGGCTCCTTTCAGCAGAGGCTCAACAACTTT-AAAATCTCA-
* * *
2870238 TTGAAAAAGCTCCTCTCAATAGAGGCT---CAACTTT-AAAATCCATCTTAAAAAGAGCTCCTCT
64 TGGAAAAA-CTCCTCTCAACAGAGGCTCAACAACTTTAAAAAT-CATCTTGAAAA-AGCTCCTCT
2870299 CAGCAGAGGCTCAACA
126 CAGCAGAGGCTCAACA
* * * *
2870315 ACTTTAAAAAT-T-ATCTTGAAAATGGCTTCTCTT-AGTAGATGG-TCAACAACTTTAAAAAT-T
1 ACTTT-AAAATCTCATTTTGAAAAAGGCTCCT-TTCAGCAGA-GGCTCAACAACTTT-AAAATCT
** * * * *
2870375 -ATCTTAAAAAGGGCTCCTCTCAGCAGAAGCTTAACAACTTT-AAAATCTTTCTTGAAAAA-CTT
62 CAT-GGAAAAA---CTCCTCTCAACAGAGGCTCAACAACTTTAAAAATC-ATCTTGAAAAAGC-T
* *
2870437 CGT-TCAGCAAAGGCTCAACA
121 CCTCTCAGCAGAGGCTCAACA
* * * * *
2870457 ACTTTAAAATC-CATCTTGAAAAA-GCTTCTCTCAACAGAGGCT---CAACTTT-AAATCCATCT
1 ACTTTAAAATCTCATTTTGAAAAAGGCTCCTTTCAGCAGAGGCTCAACAACTTTAAAAT-C-TCA
** *
2870516 TTAAAAAAGGGCTCCTTTCAGCAGAGGTTCACAACAGAGGCTCAACAATTTTAAAAATCATCTTG
64 TGGAAAAA---CTCC--T---C------T--CAACAGAGGCTCAACAACTTTAAAAATCATCTTG
2870581 AAAAAGGCTCCTCTGC-GCAGAGGCTCAACA
113 AAAAA-GCTCCTCT-CAGCAGAGGCTCAACA
* * * *
2870611 ATTTTAAAATCTCATTTTGAAAAAGGCT-CTTCTCAGCAAAGGCTCAACAACTTTAAAGTCTTAT
1 ACTTTAAAATCTCATTTTGAAAAAGGCTCCTT-TCAGCAGAGGCTCAACAACTTTAAAATCTCA-
* * * *
2870675 CTTGAAAAAGGCTCCTTTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGGAAAAAACTCC
64 -TGGAAAAA--CTCCTCTCAACAGAGGCTCAACAACTTTAAAAA--TCATCTT-GAAAAAGCTCC
* **
2870740 TCTCAGTAGAGGCTCAATG
123 TCTCAGCAGAGGCTCAACA
*
2870759 ACTTTAAAATCTC-TTTTGGAAAA-GCTCCTTTCAGCAGAGGCTCAACAACTTTAAAATCTCATG
1 ACTTTAAAATCTCATTTTGAAAAAGGCTCCTTTCAGCAGAGGCTCAACAACTTTAAAATCTCATG
* ** *
2870822 GAAAAACTCCTCTCAACAGAGGCTCAACAACTTT-AAAATC-TCATGAAAAAGCTTTTCTCAACA
66 GAAAAACTCCTCTCAACAGAGGCTCAACAACTTTAAAAATCATCTTGAAAAAGCTCCTCTCAGCA
*
2870885 AAGGCTCAACA
131 GAGGCTCAACA
* * *
2870896 ACTTTAAAATCTCA---TAAAAAAGGCTCCTTTTAGCAGAGGCTCAGCAACTTTAAAATCTCAT-
1 ACTTTAAAATCTCATTTTGAAAAAGGCTCCTTTCAGCAGAGGCTCAACAACTTTAAAATCTCATG
2870957 GAAAA
66 GAAAA
2870962 GGGCTCATTT
Statistics
Matches: 532, Mismatches: 62, Indels: 113
0.75 0.09 0.16
Matches are distributed among these distances:
135 10 0.02
136 41 0.08
137 35 0.07
138 11 0.02
139 23 0.04
140 5 0.01
141 75 0.14
142 67 0.13
143 10 0.02
144 28 0.05
146 55 0.10
147 13 0.02
148 38 0.07
149 6 0.01
150 1 0.00
152 27 0.05
153 9 0.02
154 25 0.05
155 14 0.03
156 13 0.02
157 1 0.00
158 1 0.00
159 14 0.03
160 10 0.02
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (141 bp):
ACTTTAAAATCTCATTTTGAAAAAGGCTCCTTTCAGCAGAGGCTCAACAACTTTAAAATCTCATG
GAAAAACTCCTCTCAACAGAGGCTCAACAACTTTAAAAATCATCTTGAAAAAGCTCCTCTCAGCA
GAGGCTCAACA
Found at i:2870978 original size:25 final size:25
Alignment explanation
Indices: 2870944--2870992 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
2870934 GCTCAGCAAC
2870944 TTTAAAATCTCATGAAAAGGGCTCA
1 TTTAAAATCTCATGAAAAGGGCTCA
2870969 TTTAAAATCTCATGAAAAGGGCTC
1 TTTAAAATCTCATGAAAAGGGCTC
2870993 GTCTCAGCAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (25 bp):
TTTAAAATCTCATGAAAAGGGCTCA
Found at i:2874767 original size:58 final size:57
Alignment explanation
Indices: 2874647--2874968 Score: 407
Period size: 58 Copynumber: 5.6 Consensus size: 57
2874637 CTCGATAATC
* * *
2874647 GATACTTTCAACTTTTCCTCAAAACT-TTTTTTGAAAATTTATTTTTAAGGAAAATT
1 GATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAATTTAATTTTAAGAAAAATT
* * * * ** *
2874703 AATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACTTTAGTTTCGATAAAAATT
1 GATACTTTCAACTTTTCCTCAAAAATATTTTTT-GAAAATTTAATTTTAAGAAAAATT
* *
2874761 GATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTGAAAATTTATTTTTAAGAAAAATT
1 GATACTTTCAACTTTTCCTCAAAAATA--TTTTTTGAAAATTTAATTTTAAGAAAAATT
* ** *
2874820 GATACTTTCAACTTTTCC-CTAAAAATATTTTTTGGAAACTTTAATTTCGAGGAAAATT
1 GATACTTTCAACTTTTCCTC-AAAAATATTTTTT-GAAAATTTAATTTTAAGAAAAATT
*
2874878 GATACTTTCAAATTTTCCTCAAAAA-ACCTTTTTTGAAAATTTAATTTTAAGAAAAATT
1 GATACTTTCAACTTTTCCTCAAAAATA--TTTTTTGAAAATTTAATTTTAAGAAAAATT
2874936 GATACTTTCAACTTTTCCTCAAAAATATTTTTT
1 GATACTTTCAACTTTTCCTCAAAAATATTTTTT
2874969 TTTGAATTTT
Statistics
Matches: 227, Mismatches: 29, Indels: 19
0.83 0.11 0.07
Matches are distributed among these distances:
56 23 0.10
57 19 0.08
58 128 0.56
59 51 0.22
60 6 0.03
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (57 bp):
GATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAATTTAATTTTAAGAAAAATT
Found at i:2874940 original size:116 final size:116
Alignment explanation
Indices: 2874647--2874968 Score: 524
Period size: 117 Copynumber: 2.8 Consensus size: 116
2874637 CTCGATAATC
* * *
2874647 GATACTTTCAACTTTTCCTC--AAAACTTTTTTTGAAAATTTATTTTTAAGGAAAATTAATACTT
1 GATACTTTCAACTTTTCCTCAAAAAACCTTTTTTGAAAATTTATTTTTAAGAAAAATTGATACTT
* * *
2874710 TCAACTTTTCCCCAAAAATATTTTTTGGAAACTTTAGTTTCGATAAAAATT
66 TCAACTTTTCCCTAAAAATATTTTTTGGAAACTTTAATTTCGAGAAAAATT
2874761 GATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTGAAAATTTATTTTTAAGAAAAATTGATACT
1 GATACTTTCAACTTTTCCTC-AAAAAACCTTTTTTGAAAATTTATTTTTAAGAAAAATTGATACT
*
2874826 TTCAACTTTTCCCTAAAAATATTTTTTGGAAACTTTAATTTCGAGGAAAATT
65 TTCAACTTTTCCCTAAAAATATTTTTTGGAAACTTTAATTTCGAGAAAAATT
* *
2874878 GATACTTTCAAATTTTCCTCAAAAAACCTTTTTTGAAAATTTAATTTTAAGAAAAATTGATACTT
1 GATACTTTCAACTTTTCCTCAAAAAACCTTTTTTGAAAATTTATTTTTAAGAAAAATTGATACTT
2874943 TCAACTTTT-CCTCAAAAATATTTTTT
66 TCAACTTTTCCCT-AAAAATATTTTTT
2874969 TTTGAATTTT
Statistics
Matches: 195, Mismatches: 9, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
114 20 0.10
115 3 0.02
116 66 0.34
117 106 0.54
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (116 bp):
GATACTTTCAACTTTTCCTCAAAAAACCTTTTTTGAAAATTTATTTTTAAGAAAAATTGATACTT
TCAACTTTTCCCTAAAAATATTTTTTGGAAACTTTAATTTCGAGAAAAATT
Found at i:2874995 original size:5 final size:5
Alignment explanation
Indices: 2874987--2875046 Score: 54
Period size: 5 Copynumber: 11.8 Consensus size: 5
2874977 TTATTTAAAG
*
2874987 AAAAT AAAAT --AAT AAAAT AAAAAT AAAGA- AAAGT AAAAT AAAAT AAAGAT
1 AAAAT AAAAT AAAAT AAAAT -AAAAT AAA-AT AAAAT AAAAT AAAAT AAA-AT
2875037 AAAAAT AAAA
1 -AAAAT AAAA
2875047 AATATTAAAC
Statistics
Matches: 46, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
3 3 0.07
5 30 0.65
6 10 0.22
7 3 0.07
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:2875483 original size:32 final size:32
Alignment explanation
Indices: 2875424--2875505 Score: 87
Period size: 32 Copynumber: 2.5 Consensus size: 32
2875414 GAAAATTAAT
* **
2875424 CAAAATAAAAAGATAAATATATTAATAGATAA
1 CAAAATAAAAAGATAAATAAAGAAATAGATAA
2875456 CAAAA-AAAAAGATAAATAAAAGAAATAGATAAA
1 CAAAATAAAAAGATAAAT-AAAGAAATAGAT-AA
*
2875489 TAATAATAAAAA-ATAAA
1 CAA-AATAAAAAGATAAA
2875506 AGCAGATGAA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
31 12 0.29
32 14 0.33
33 4 0.10
34 7 0.17
35 5 0.12
ACGTcount: A:0.72, C:0.02, G:0.06, T:0.20
Consensus pattern (32 bp):
CAAAATAAAAAGATAAATAAAGAAATAGATAA
Found at i:2875487 original size:17 final size:16
Alignment explanation
Indices: 2875447--2875491 Score: 58
Period size: 15 Copynumber: 2.8 Consensus size: 16
2875437 TAAATATATT
2875447 AATAGATAACA-AAAAA
1 AATAGATAA-ATAAAAA
2875463 AA-AGATAAATAAAAGA
1 AATAGATAAATAAAA-A
2875479 AATAGATAAATAA
1 AATAGATAAATAA
2875492 TAATAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 1 0.04
15 10 0.38
16 5 0.19
17 10 0.38
ACGTcount: A:0.73, C:0.02, G:0.09, T:0.16
Consensus pattern (16 bp):
AATAGATAAATAAAAA
Found at i:2875553 original size:5 final size:6
Alignment explanation
Indices: 2875538--2875585 Score: 51
Period size: 6 Copynumber: 7.7 Consensus size: 6
2875528 TAATAGATAA
* * *
2875538 AAAAAT AAAAAT AAAAAT ATATATT AAATAAT GAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT A-AAAAT AAA-AAT AAAAAT AAAAAT AAAA
2875586 GCTCATTGGG
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
6 26 0.76
7 8 0.24
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (6 bp):
AAAAAT
Found at i:2875556 original size:24 final size:24
Alignment explanation
Indices: 2875460--2875582 Score: 79
Period size: 24 Copynumber: 4.9 Consensus size: 24
2875450 AGATAACAAA
2875460 AAAAAAGATAAATAA-AAGAAATAGAT
1 AAAAAA-ATAAA-AATAA-AAATAGAT
**
2875486 AAATAATAATAAAAAATAAAAGCAGAT
1 AAA-AA-AAT-AAAAATAAAAATAGAT
* * **
2875513 -GAATAATAAAAATATTAATAGAT
1 AAAAAAATAAAAATAAAAATAGAT
*
2875536 AAAAAAATAAAAATAAAAATATAT
1 AAAAAAATAAAAATAAAAATAGAT
* *
2875560 ATTAAATAATGAAAATAAAAATA
1 A--AAAAAATAAAAATAAAAATA
2875583 AAAGCTCATT
Statistics
Matches: 75, Mismatches: 15, Indels: 14
0.72 0.14 0.13
Matches are distributed among these distances:
23 12 0.16
24 22 0.29
25 1 0.01
26 22 0.29
27 12 0.16
28 6 0.08
ACGTcount: A:0.71, C:0.01, G:0.07, T:0.22
Consensus pattern (24 bp):
AAAAAAATAAAAATAAAAATAGAT
Found at i:2875580 original size:32 final size:30
Alignment explanation
Indices: 2875517--2875585 Score: 93
Period size: 32 Copynumber: 2.2 Consensus size: 30
2875507 GCAGATGAAT
*
2875517 AATAAAAATATTAATAGATAAAAAAATAAA
1 AATAAAAATATTAATAAATAAAAAAATAAA
* *
2875547 AATAAAAATATATATTAAATAATGAAAATAAA
1 AATAAAAATAT-TAATAAATAA-AAAAATAAA
2875579 AATAAAA
1 AATAAAA
2875586 GCTCATTGGG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
30 11 0.32
31 8 0.24
32 15 0.44
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (30 bp):
AATAAAAATATTAATAAATAAAAAAATAAA
Found at i:2876995 original size:209 final size:208
Alignment explanation
Indices: 2876617--2876997 Score: 506
Period size: 209 Copynumber: 1.8 Consensus size: 208
2876607 ATTTAAAATT
* * *
2876617 TTGAAGAAAAATGAAATTTTCATTATATTGAAGATTTTCTATAAATATTCCAATACACTAGTAAT
1 TTGAAGAAAAATGAAATTTTCACTATATTGAAAATTTTCTATAAATACTCCAATACACTAGTAAT
* * *
2876682 ATTTTACAAAAAATCTTCTCACCTAGAGATTTCTTAAAGCATCTCTATTCGAAATACTTTTAGAA
66 ATTTTACAAAAAATCTTCTCACCTAGAGATTTCGTAAAGCATCACTACTCGAAATACTTTTAGAA
*
2876747 TCCCATCATTGGATAAAATTTCTTTTCTTCTCATTTTTATTACTTATTTTTAATATATTAATCAA
131 TCCCATCATCGGATAAAATTTCTTTTC-TCTCATTTTTATTACTTATTTTTAATATATTAATCAA
2876812 TTTTTATTTATTAC
195 TTTTTATTTATTAC
* *
2876826 TTGAA-AAAAA-GAAAATTTTTACTATATTGAAAATTTTTTTATAAATACTCCAATACACT-GAT
1 TTGAAGAAAAATG-AAATTTTCACTATATTGAAAA-TTTTCTATAAATACTCCAATACACTAG-T
* * *
2876888 AGTATTTTTA-AAAAAATCTTTTCACCTAGAGATTTCGT-AGGCATCACTACTCGAAATACTTTT
63 AATA-TTTTACAAAAAATCTTCTCACCTAGAGATTTCGTAAAGCATCACTACTCGAAATACTTTT
* *
2876951 -GAATCTCATCGTCGGATAAAAATTTTCTTTTC-CTACATTTTTTATTA
127 AGAATCCCATCATCGGAT-AAAA-TTTCTTTTCTCT-CA-TTTTTATTA
2876998 GTTTAGTATT
Statistics
Matches: 150, Mismatches: 14, Indels: 16
0.83 0.08 0.09
Matches are distributed among these distances:
207 17 0.11
208 52 0.35
209 76 0.51
210 5 0.03
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (208 bp):
TTGAAGAAAAATGAAATTTTCACTATATTGAAAATTTTCTATAAATACTCCAATACACTAGTAAT
ATTTTACAAAAAATCTTCTCACCTAGAGATTTCGTAAAGCATCACTACTCGAAATACTTTTAGAA
TCCCATCATCGGATAAAATTTCTTTTCTCTCATTTTTATTACTTATTTTTAATATATTAATCAAT
TTTTATTTATTAC
Found at i:2877069 original size:10 final size:10
Alignment explanation
Indices: 2877054--2877078 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
2877044 AGTTTATTTT
2877054 AAAAATTATA
1 AAAAATTATA
2877064 AAAAATTATA
1 AAAAATTATA
2877074 AAAAA
1 AAAAA
2877079 AAATTAACCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (10 bp):
AAAAATTATA
Found at i:2878204 original size:11 final size:12
Alignment explanation
Indices: 2878185--2878284 Score: 61
Period size: 11 Copynumber: 8.3 Consensus size: 12
2878175 TTTTTTTCTA
*
2878185 TTTTCTATTT-T
1 TTTTGTATTTAT
2878196 TTTTGTA--T-T
1 TTTTGTATTTAT
*
2878205 TTTTGT-TTTGT
1 TTTTGTATTTAT
*
2878216 ATTTGTA-TTAT
1 TTTTGTATTTAT
2878227 TTTTGGTATATGT-T
1 TTTT-GTAT-T-TAT
2878241 TTATTGTATTTCAT
1 TT-TTGTATTT-AT
2878255 ATTTTGTATTTAT
1 -TTTTGTATTTAT
2878268 ATTTTGTATTTAT
1 -TTTTGTATTTAT
2878281 TTTT
1 TTTT
2878285 TTCTGGACAA
Statistics
Matches: 73, Mismatches: 4, Indels: 23
0.73 0.04 0.23
Matches are distributed among these distances:
9 8 0.11
10 1 0.01
11 18 0.25
12 8 0.11
13 16 0.22
14 17 0.23
15 5 0.07
ACGTcount: A:0.16, C:0.02, G:0.10, T:0.72
Consensus pattern (12 bp):
TTTTGTATTTAT
Found at i:2878213 original size:14 final size:13
Alignment explanation
Indices: 2878192--2878286 Score: 55
Period size: 14 Copynumber: 6.6 Consensus size: 13
2878182 CTATTTTCTA
2878192 TTTTTTTTGTATT
1 TTTTTTTTGTATT
2878205 TTTTGTTTTGTATTT
1 TTTT-TTTTGTA-TT
2878220 GTATTATTTTTGGTATAT
1 -T-TT-TTTTT-GTAT-T
* *
2878238 GTTTTATTGTATT
1 TTTTTTTTGTATT
* *
2878251 TCATATTTTGTATT
1 T-TTTTTTTGTATT
* *
2878265 TATATTTTGTATT
1 TTTTTTTTGTATT
2878278 TATTTTTTT
1 T-TTTTTTT
2878287 CTGGACAAAT
Statistics
Matches: 65, Mismatches: 8, Indels: 17
0.72 0.09 0.19
Matches are distributed among these distances:
13 18 0.28
14 26 0.40
15 6 0.09
16 3 0.05
17 7 0.11
18 5 0.08
ACGTcount: A:0.16, C:0.01, G:0.11, T:0.73
Consensus pattern (13 bp):
TTTTTTTTGTATT
Found at i:2878285 original size:13 final size:13
Alignment explanation
Indices: 2878217--2878285 Score: 68
Period size: 13 Copynumber: 5.2 Consensus size: 13
2878207 TTGTTTTGTA
2878217 TTTGTA-TTATTT
1 TTTGTATTTATTT
* * *
2878229 TTGGTATATGTTT
1 TTTGTATTTATTT
*
2878242 TATTGTATTTCATAT
1 T-TTGTATTT-ATTT
*
2878257 TTTGTATTTATAT
1 TTTGTATTTATTT
2878270 TTTGTATTTATTT
1 TTTGTATTTATTT
2878283 TTT
1 TTT
2878286 TCTGGACAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
12 5 0.11
13 24 0.52
14 14 0.30
15 3 0.07
ACGTcount: A:0.19, C:0.01, G:0.10, T:0.70
Consensus pattern (13 bp):
TTTGTATTTATTT
Found at i:2878716 original size:48 final size:49
Alignment explanation
Indices: 2878456--2879620 Score: 1100
Period size: 48 Copynumber: 23.9 Consensus size: 49
2878446 AATTTGAAAG
* * *
2878456 AAAA-CTCTTCTCAGCAGAGGTTCAACAACTTTAAAAATTTCATCTTGA
1 AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGA
* * * * *
2878504 AAAAGGTTTCTCTTAGCAGAGGCTCAACAA-TTTTAAAATCTCATTTTG-
1 AAAA-GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGA
* *
2878552 AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAAATCTTATTTTAGAAA
1 AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAAATCTCATCTT-G--A
* * **
2878605 AAAAGCTCCTTTCAGCAAAGGCAT-AACATTTTTTAAAAATCTCATCTTGAA
1 AAAAGCTCCTCTCAGCAGAGGC-TCAACA-ACTTTAAAAATCTCATCTTG-A
* *
2878656 AAAAGCTCCTCTCAGCATAGGCTCAACAACTTTAAAAATCTCAT-TTGG
1 AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGA
* *
2878704 AAAAGCTCCTCTCAGCAAAGGCTCAACAACTTT-AAAATC-CATTTTGAAAAA
1 AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTG----A
* * *
2878755 AAAAGCTCCTCTCAGGAAAGGCTTAACAACTTT--AAA----ATCTTGAA
1 AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTG-A
* **
2878799 AAAAGCTCCTCTCAACAGAGGCTCAATGACTTTAAAATATCT--TCTTGGA
1 AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAA-ATCTCATCTT-GA
** * * *
2878848 AATGGCTCCTCTCAGTAGAAGCTCAATAACTTTAAAAATCTCATCTTGAAA
1 AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTG--A
* * * *
2878899 AAAAACTCCTTTCAGCAGAGGCTTAACAACTTTAAAAATCTCAT-TTGG
1 AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGA
* * *
2878947 AAAAGCTCTTCTTAGCAGAGGCTTAACAACTTT--AAA----ATCTTGA
1 AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGA
2878990 AAAAGACTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATC-TGA
1 AAAAG-CTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGA
**
2879039 AAAAGCTCCTCTCAATAGAGGCTCAACAACTTT-AAAATCT-ATCTT-A
1 AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGA
* **
2879085 AAAAGGGCTCCTCTCAGTAGAGGCTCAATGACTTTAAAAAT-T-ATCTTGA
1 AAAA--GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGA
* * *
2879134 AAAGTGCTTCTCTCAGCAGAGGCTCAACAA-TTTTAAAATC-CATCTTGA
1 AAA-AGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGA
* *
2879182 AAAAGCTCCTCTCAACAGAGGCTCAACAACTTT-AAAATC-CATCCTGA
1 AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGA
* * *
2879229 AAAGGGCTGCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTTAT-TTGA
1 AAA-AGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGA
* * *
2879277 AAAAGGGCTCATCTCAAG-AGAGCCTTAACAACTTTAAAAA--TCATCTTGA
1 AAAA--GCTCCTCTC-AGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGA
*
2879326 AAAAGGCTCCTCTCAGTAGAGGCTCAACAACTTTAAAAAAT-TCATCTTGA
1 AAAA-GCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAAATCTCATCTTGA
* *
2879376 AAAAGACTCCTCTCAACAGAGGGCTTAACAACTTT-AAAATCTCATCTTGA
1 AAAAG-CTCCTCTCAGCAGA-GGCTCAACAACTTTAAAAATCTCATCTTGA
* * *
2879426 AAAAGGCTCTTCTCAGCAGAGGCTCAACAACTTT-AAAGTTTCATCTTGA
1 AAAA-GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGA
* * * *
2879475 AAAAGGCTCCTTTTAGCAGAGGCTTAACAACTTTAAAAATCTCGTCTTGAA
1 AAAA-GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTG-A
* * *
2879526 AAAAGTTCCTCTCAGTAGAAGCTCAA-AGACTTT-AAAATCTCATCTTGA
1 AAAAGCTCCTCTCAGCAGAGGCTCAACA-ACTTTAAAAATCTCATCTTGA
* * * * *
2879574 AAATGGCTGCTCTCAGCAAAGGCTCAATAACTTTAAAAACCTCATCT
1 AAA-AGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCT
2879621 CAATAGAGGC
Statistics
Matches: 937, Mismatches: 116, Indels: 126
0.79 0.10 0.11
Matches are distributed among these distances:
42 2 0.00
43 8 0.01
44 54 0.06
46 19 0.02
47 94 0.10
48 238 0.25
49 219 0.23
50 149 0.16
51 113 0.12
52 1 0.00
53 36 0.04
54 4 0.00
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (49 bp):
AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGA
Found at i:2878768 original size:99 final size:98
Alignment explanation
Indices: 2878449--2879620 Score: 1113
Period size: 99 Copynumber: 12.0 Consensus size: 98
2878439 AATTAAAAAT
* * * * * *
2878449 TTGAAAGAAAACTCTTCTCAGCAGAGGTTCAACAACTTTAAAAATTTCATCTTGAAAAAGGTTTC
1 TTGAAA-AAAGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTCATCTTGAAAAA-GCTCC
* * *
2878514 TCTTAGCAGAGGCTCAACAA-TTTTAAAATCTCATT
63 TCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATC
* *
2878549 TTG--AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAAATCTTATTTTAGAAAAAAAGCT
1 TTGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT--AAAATCTCATCTT-G--AAAAAGCT
* * **
2878612 CCTTTCAGCAAAGGCAT-AACATTTTTTAAAAATCTCATC
61 CCTCTCAGCAGAGGC-TCAACA-ACTTTAAAAATCTCATC
* *
2878651 TTGAAAAAAGCTCCTCTCAGCATAGGCTCAACAACTTTAAAAATCTCAT-TTGGAAAAGCTCCTC
1 TTGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTCATCTTGAAAAAGCTCCTC
* *
2878715 TCAGCAAAGGCTCAACAACTTT-AAAATC-CATT
65 TCAGCAGAGGCTCAACAACTTTAAAAATCTCATC
* * *
2878747 TTGAAAAAAAAAGCTCCTCTCAGGAAAGGCTTAACAACTTT-AAA----ATCTTGAAAAAAGCTC
1 TTG---AAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTG-AAAAAGCTC
* **
2878807 CTCTCAACAGAGGCTCAATGACTTTAAAATATCT--TC
62 CTCTCAGCAGAGGCTCAACAACTTTAAAA-ATCTCATC
* ** * * * *
2878843 TTGGAAATGGCTCCTCTCAGTAGAAGCTCAATAACTTTAAAAATCTCATCTTGAAAAAAAACTCC
1 TTGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTCATCTTG--AAAAAGCTCC
* *
2878908 TTTCAGCAGAGGCTTAACAACTTTAAAAATCTCAT-
63 TCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATC
* * * *
2878943 TTG-GAAAAGCTCTTCTTAGCAGAGGCTTAACAACTTT-AAA----ATCTTGAAAAAGACTCCTC
1 TTGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAAG-CTCCTC
2879002 TCAGCAGAGGCTCAACAACTTTAAAAATCTCATC
65 TCAGCAGAGGCTCAACAACTTTAAAAATCTCATC
**
2879036 -TG-AAAAAGCTCCTCTCAATAGAGGCTCAACAACTTTAAAATCT-ATCTT-AAAAAGGGCTCCT
1 TTGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAA--GCTCCT
* **
2879097 CTCAGTAGAGGCTCAATGACTTTAAAAAT-T-ATC
64 CTCAGCAGAGGCTCAACAACTTTAAAAATCTCATC
** * *
2879130 TTGAAAAGTGCTTCTCTCAGCAGAGGCTCAACAATTTTAAAATC-CATCTTGAAAAAGCTCCTCT
1 TTGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAAGCTCCTCT
*
2879194 CAACAGAGGCTCAACAACTTT-AAAATC-CATC
66 CAGCAGAGGCTCAACAACTTTAAAAATCTCATC
* ** * * *
2879225 CTGAAAAGGGCTGCTCTCAGCAGAGGCTCAACAACTTTAAAATCTTAT-TTGAAAAAGGGCTCAT
1 TTGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAA--GCTCCT
* *
2879289 CTCAAG-AGAGCCTTAACAACTTTAAAAA--TCATC
64 CTC-AGCAGAGGCTCAACAACTTTAAAAATCTCATC
* *
2879322 TTGAAAAAGGCTCCTCTCAGTAGAGGCTCAACAACTTTAAAAAAT-TCATCTTGAAAAAGACTCC
1 TTGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT--AAAATCTCATCTTGAAAAAG-CTCC
* *
2879386 TCTCAACAGAGGGCTTAACAACTTT-AAAATCTCATC
63 TCTCAGCAGA-GGCTCAACAACTTTAAAAATCTCATC
* * * * *
2879422 TTGAAAAAGGCTCTTCTCAGCAGAGGCTCAACAACTTTAAAGTTTCATCTTGAAAAAGGCTCCTT
1 TTGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAA-GCTCCTC
* * *
2879487 TTAGCAGAGGCTTAACAACTTTAAAAATCTCGTC
65 TCAGCAGAGGCTCAACAACTTTAAAAATCTCATC
* * * * *
2879521 TTGAAAAAAGTTCCTCTCAGTAGAAGCTCAA-AGACTTTAAAATCTCATCTTGAAAATGGCTGCT
1 TTGAAAAAAGCTCCTCTCAGCAGAGGCTCAACA-ACTTTAAAATCTCATCTTGAAAA-AGCTCCT
* * *
2879585 CTCAGCAAAGGCTCAATAACTTTAAAAACCTCATC
64 CTCAGCAGAGGCTCAACAACTTTAAAAATCTCATC
2879620 T
1 T
2879621 CAATAGAGGC
Statistics
Matches: 897, Mismatches: 115, Indels: 121
0.79 0.10 0.11
Matches are distributed among these distances:
91 5 0.01
92 67 0.07
93 38 0.04
94 11 0.01
95 116 0.13
96 90 0.10
97 113 0.13
98 57 0.06
99 234 0.26
100 98 0.11
101 8 0.01
102 18 0.02
103 10 0.01
104 32 0.04
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (98 bp):
TTGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAAGCTCCTCT
CAGCAGAGGCTCAACAACTTTAAAAATCTCATC
Found at i:2879687 original size:82 final size:83
Alignment explanation
Indices: 2879535--2879693 Score: 232
Period size: 82 Copynumber: 1.9 Consensus size: 83
2879525 AAAAAGTTCC
* * *
2879535 TCTCAGTAGAAGCTCAAAGACTTTAAAATCTCATCTTGAAAATGGCTGCTCTCAGCAAAGGCTCA
1 TCTCAATAGAAGCTCAAAGACTTTAAAATCTCATCTTGAAAAGGGCTCCTCTCAGCAAAGGCTCA
2879600 ATAACTTTAAAAACCTCA
66 ATAACTTTAAAAACCTCA
* * * *
2879618 TCTCAATAGAGGCTCAACA-ACTTTAAAATCT-ATCTTGAAAAGGGCTCCTCTCAGTAGATGCTC
1 TCTCAATAGAAGCTCAA-AGACTTTAAAATCTCATCTTGAAAAGGGCTCCTCTCAGCAAAGGCTC
2879681 AATAACTTTAAAA
65 AATAACTTTAAAA
2879694 TCTATCTTGA
Statistics
Matches: 68, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
82 40 0.59
83 27 0.40
84 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (83 bp):
TCTCAATAGAAGCTCAAAGACTTTAAAATCTCATCTTGAAAAGGGCTCCTCTCAGCAAAGGCTCA
ATAACTTTAAAAACCTCA
Found at i:2879734 original size:46 final size:46
Alignment explanation
Indices: 2879609--2879739 Score: 181
Period size: 48 Copynumber: 2.8 Consensus size: 46
2879599 AATAACTTTA
*
2879609 AAAACCTCATCTCAATAGAGGCTCAACAACTTTAAAATCTATCTTG
1 AAAACCTCCTCTCAATAGAGGCTCAACAACTTTAAAATCTATCTTG
* * * *
2879655 AAAAGGGCTCCTCTCAGTAGATGCTCAATAACTTTAAAATCTATCTTG
1 AAAA--CCTCCTCTCAATAGAGGCTCAACAACTTTAAAATCTATCTTG
* *
2879703 AAAACCTCCTCCCAACAGAGGCTCAACAACTTTAAAA
1 AAAACCTCCTCTCAATAGAGGCTCAACAACTTTAAAA
2879740 ATTTCGTCTT
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
46 31 0.43
48 41 0.57
ACGTcount: A:0.38, C:0.25, G:0.11, T:0.26
Consensus pattern (46 bp):
AAAACCTCCTCTCAATAGAGGCTCAACAACTTTAAAATCTATCTTG
Found at i:2880493 original size:9 final size:10
Alignment explanation
Indices: 2880479--2880523 Score: 51
Period size: 9 Copynumber: 4.8 Consensus size: 10
2880469 TGAGTCATTA
2880479 TTTTTTCA-T
1 TTTTTTCACT
2880488 TTTTTT-ACT
1 TTTTTTCACT
*
2880497 TTTTTTCATT
1 TTTTTTCACT
*
2880507 TTTTTTC-TT
1 TTTTTTCACT
2880516 TTTTTTCA
1 TTTTTTCA
2880524 AGCAAAATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
8 1 0.03
9 22 0.69
10 9 0.28
ACGTcount: A:0.09, C:0.11, G:0.00, T:0.80
Consensus pattern (10 bp):
TTTTTTCACT
Found at i:2880523 original size:19 final size:18
Alignment explanation
Indices: 2880479--2880520 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
2880469 TGAGTCATTA
2880479 TTTTTTCATTTTTTTACT
1 TTTTTTCATTTTTTTACT
*
2880497 TTTTTTCATTTTTTTTCT
1 TTTTTTCATTTTTTTACT
2880515 TTTTTT
1 TTTTTT
2880521 TCAAGCAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTTTCATTTTTTTACT
Found at i:2883397 original size:13 final size:12
Alignment explanation
Indices: 2883374--2883447 Score: 75
Period size: 11 Copynumber: 6.2 Consensus size: 12
2883364 GGTAAGCCCA
2883374 TTTTT-TTTTAT
1 TTTTTATTTTAT
2883385 TTTTGTATTTTAT
1 TTTT-TATTTTAT
2883398 ATTTTTATTTTA-
1 -TTTTTATTTTAT
*
2883410 TTTATATTTTA-
1 TTTTTATTTTAT
2883421 TTTTTATTATTAT
1 TTTTTATT-TTAT
*
2883434 TTTATATTTT-T
1 TTTTTATTTTAT
2883445 TTT
1 TTT
2883448 ATCTTATGTA
Statistics
Matches: 55, Mismatches: 3, Indels: 10
0.81 0.04 0.15
Matches are distributed among these distances:
11 25 0.45
12 6 0.11
13 20 0.36
14 4 0.07
ACGTcount: A:0.19, C:0.00, G:0.01, T:0.80
Consensus pattern (12 bp):
TTTTTATTTTAT
Found at i:2883406 original size:6 final size:6
Alignment explanation
Indices: 2883374--2883444 Score: 67
Period size: 6 Copynumber: 11.7 Consensus size: 6
2883364 GGTAAGCCCA
*
2883374 TTTT-T TTTTATT TTTGTAT TTTATAT TTTTA- TTTTAT TTATA- TTTTAT
1 TTTTAT TTTTA-T TTT-TAT TTT-TAT TTTTAT TTTTAT TTTTAT TTTTAT
*
2883422 TTTTAT TATTAT TTTATAT TTTT
1 TTTTAT TTTTAT TTT-TAT TTTT
2883445 TTTATCTTAT
Statistics
Matches: 55, Mismatches: 5, Indels: 11
0.77 0.07 0.15
Matches are distributed among these distances:
5 13 0.24
6 20 0.36
7 20 0.36
8 2 0.04
ACGTcount: A:0.20, C:0.00, G:0.01, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:2883413 original size:17 final size:16
Alignment explanation
Indices: 2883373--2883446 Score: 71
Period size: 16 Copynumber: 4.5 Consensus size: 16
2883363 GGGTAAGCCC
*
2883373 ATTTTTTTTTATTTTT
1 ATTTTTTTATATTTTT
* *
2883389 -GTATTTTATATTTTT
1 ATTTTTTTATATTTTT
2883404 ATTTTATTTATA-TTTT
1 ATTTT-TTTATATTTTT
2883420 ATTTTTATTATTATTTTAT
1 ATTTTT-TTA-TATTTT-T
2883439 ATTTTTTT
1 ATTTTTTT
2883447 TATCTTATGT
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
15 13 0.28
16 14 0.30
17 8 0.17
18 5 0.11
19 7 0.15
ACGTcount: A:0.20, C:0.00, G:0.01, T:0.78
Consensus pattern (16 bp):
ATTTTTTTATATTTTT
Found at i:2883459 original size:28 final size:28
Alignment explanation
Indices: 2883397--2883556 Score: 68
Period size: 28 Copynumber: 5.8 Consensus size: 28
2883387 TTGTATTTTA
* *
2883397 TATTTTTATTTTATTTATATTTTATTTT
1 TATTATTATTTTATTTATATTTTATTCT
*
2883425 TATTATTATTTTATATT-TTTTTTA-TCT
1 TATTATTATTTTAT-TTATATTTTATTCT
* * * * *
2883452 TATGTATT-TATTGTTTA-CTTAT-TTAT
1 TAT-TATTATTTTATTTATATTTTATTCT
* * *
2883478 TATTACTA-TTTATTAATATATATATGTCCT
1 TATTATTATTTTATTTATAT-TTTAT-T-CT
*
2883508 TATTATTATTATTA-TTACTATTTTTTTC-
1 TATTATTATT-TTATTTA-TATTTTATTCT
* *
2883536 TATTAATA-TTTATATATATTT
1 TATTATTATTTTATTTATATTT
2883557 ATCTGATTAT
Statistics
Matches: 98, Mismatches: 20, Indels: 30
0.66 0.14 0.20
Matches are distributed among these distances:
25 8 0.08
26 19 0.19
27 15 0.15
28 31 0.32
29 4 0.04
30 9 0.09
31 6 0.06
32 6 0.06
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (28 bp):
TATTATTATTTTATTTATATTTTATTCT
Found at i:2883461 original size:24 final size:23
Alignment explanation
Indices: 2883373--2883482 Score: 90
Period size: 24 Copynumber: 4.8 Consensus size: 23
2883363 GGGTAAGCCC
*
2883373 ATTTT-TTTTTATT-TT-TGTAT
1 ATTTTATTTTTATTATTATTTAT
2883393 -TTTATATTTTTATT-TTATTTAT
1 ATTT-TATTTTTATTATTATTTAT
2883415 ATTTTATTTTTATTATTATTTTAT
1 ATTTTATTTTTATTATTA-TTTAT
*
2883439 ATTTT-TTTTATCTTATGTATTTAT
1 ATTTTATTTT-TATTAT-TATTTAT
2883463 -TGTTTACTTATTTATTATTA
1 AT-TTTA-TT-TTTATTATTA
2883483 CTATTTATTA
Statistics
Matches: 75, Mismatches: 3, Indels: 19
0.77 0.03 0.20
Matches are distributed among these distances:
19 3 0.04
20 1 0.01
21 10 0.13
22 14 0.19
23 11 0.15
24 23 0.31
25 4 0.05
26 7 0.09
27 2 0.03
ACGTcount: A:0.22, C:0.02, G:0.03, T:0.74
Consensus pattern (23 bp):
ATTTTATTTTTATTATTATTTAT
Found at i:2883632 original size:20 final size:21
Alignment explanation
Indices: 2883553--2883633 Score: 78
Period size: 22 Copynumber: 3.8 Consensus size: 21
2883543 ATTTATATAT
* *
2883553 ATTTATCTGATTATATATTATA
1 ATTTATCTGATTAT-TTTTTTA
2883575 ATTTATCT-ATTATTTATTTTTA
1 ATTTATCTGATTA-TT-TTTTTA
2883597 ATTTATCTG-TTAATTTTTTT-
1 ATTTATCTGATT-ATTTTTTTA
*
2883617 GTTTATCTGATTATTTT
1 ATTTATCTGATTATTTT
2883634 CATTAATATT
Statistics
Matches: 51, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
20 13 0.25
21 12 0.24
22 25 0.49
23 1 0.02
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.64
Consensus pattern (21 bp):
ATTTATCTGATTATTTTTTTA
Found at i:2883658 original size:8 final size:9
Alignment explanation
Indices: 2883644--2883677 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
2883634 CATTAATATT
2883644 TTTTTTTGA
1 TTTTTTTGA
*
2883653 TTTTTTTTA
1 TTTTTTTGA
2883662 TTTTTTTGA
1 TTTTTTTGA
2883671 TTTTTTT
1 TTTTTTT
2883678 TTGTTGAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.09, C:0.00, G:0.06, T:0.85
Consensus pattern (9 bp):
TTTTTTTGA
Found at i:2883667 original size:18 final size:18
Alignment explanation
Indices: 2883644--2883678 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
2883634 CATTAATATT
2883644 TTTTTTTGATTTTTTTTA
1 TTTTTTTGATTTTTTTTA
2883662 TTTTTTTGATTTTTTTT
1 TTTTTTTGATTTTTTTT
2883679 TGTTGAAGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.09, C:0.00, G:0.06, T:0.86
Consensus pattern (18 bp):
TTTTTTTGATTTTTTTTA
Found at i:2884550 original size:24 final size:24
Alignment explanation
Indices: 2884523--2884624 Score: 88
Period size: 25 Copynumber: 4.2 Consensus size: 24
2884513 TTCGTTTATT
2884523 TTTATTATTTTATTTATTTATTT-A
1 TTTATTATTTTATTTATTT-TTTCA
* * * *
2884547 TTTATTATGATTGTTTAATATTTCA
1 TTTATTAT-TTTATTTATTTTTTCA
2884572 TTT-TTATTTTTATTATATTTTTTCA
1 TTTATTA-TTTTATT-TATTTTTTCA
2884597 TTT-TTCATTTT-TTTATTTTTT-A
1 TTTATT-ATTTTATTTATTTTTTCA
2884619 TTTATT
1 TTTATT
2884625 TTATTTTTTT
Statistics
Matches: 64, Mismatches: 8, Indels: 13
0.75 0.09 0.15
Matches are distributed among these distances:
22 4 0.06
23 10 0.16
24 20 0.31
25 29 0.45
26 1 0.02
ACGTcount: A:0.22, C:0.03, G:0.02, T:0.74
Consensus pattern (24 bp):
TTTATTATTTTATTTATTTTTTCA
Found at i:2884595 original size:25 final size:24
Alignment explanation
Indices: 2884567--2884635 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 24
2884557 TTGTTTAATA
2884567 TTTCATTTTTATTTTTATTATATTT
1 TTTCATTTTTATTTTT-TTATATTT
*
2884592 TTTCATTTTTCATTTTTTTATTTTT
1 TTTCATTTTT-ATTTTTTTATATTT
*
2884617 TATTTA-TTTTATTTTTTTA
1 T-TTCATTTTTATTTTTTTA
2884636 AATAAAATTA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
24 9 0.22
25 22 0.55
26 9 0.22
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.78
Consensus pattern (24 bp):
TTTCATTTTTATTTTTTTATATTT
Found at i:2884606 original size:32 final size:34
Alignment explanation
Indices: 2884521--2884626 Score: 110
Period size: 34 Copynumber: 3.1 Consensus size: 34
2884511 TTTTCGTTTA
* *
2884521 TTTTTATTATTTTATTTATTTATTTATTTATTATGAT
1 TTTTTAATATTTCATTT-TTTATTT-TTTATTAT-AT
*
2884558 TGTTTAATATTTCA-TTTTTA-TTTTTATTATAT
1 TTTTTAATATTTCATTTTTTATTTTTTATTATAT
* *
2884590 TTTTTCATTTTTCATTTTTTTATTTTTTATT-TAT
1 TTTTTAATATTTCA-TTTTTTATTTTTTATTATAT
2884624 TTT
1 TTT
2884627 ATTTTTTTAA
Statistics
Matches: 60, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
32 13 0.22
33 8 0.13
34 14 0.23
35 12 0.20
36 2 0.03
37 11 0.18
ACGTcount: A:0.21, C:0.03, G:0.02, T:0.75
Consensus pattern (34 bp):
TTTTTAATATTTCATTTTTTATTTTTTATTATAT
Found at i:2884608 original size:15 final size:15
Alignment explanation
Indices: 2884517--2884632 Score: 69
Period size: 16 Copynumber: 7.6 Consensus size: 15
2884507 TTTTTTTTCG
*
2884517 TTTATTTTT-ATTAT
1 TTTATTTTTCATTTT
* *
2884531 TTTATTTATTTATTTA
1 TTTATTT-TTCATTTT
* * *
2884547 TTTA-TTATGATTGT
1 TTTATTTTTCATTTT
* *
2884561 TTAATATTTCATTTT
1 TTTATTTTTCATTTT
2884576 TATT-TTTATT-ATATTT
1 T-TTATTT-TTCAT-TTT
2884592 TTTCATTTTTCATTTT
1 TTT-ATTTTTCATTTT
*
2884608 TTTATTTTTTATTTAT
1 TTTATTTTTCATTT-T
2884624 TTTATTTTT
1 TTTATTTTT
2884633 TTAAATAAAA
Statistics
Matches: 78, Mismatches: 14, Indels: 18
0.71 0.13 0.16
Matches are distributed among these distances:
14 14 0.18
15 27 0.35
16 32 0.41
17 5 0.06
ACGTcount: A:0.21, C:0.03, G:0.02, T:0.75
Consensus pattern (15 bp):
TTTATTTTTCATTTT
Found at i:2884630 original size:24 final size:23
Alignment explanation
Indices: 2884517--2884635 Score: 80
Period size: 24 Copynumber: 4.9 Consensus size: 23
2884507 TTTTTTTTCG
2884517 TTTATTTTTATTATTTTATTTATTT
1 TTTATTTTT-TTATTTT-TTTATTT
* * * *
2884542 ATTTATTTATTATGATTGTTTAATAT
1 -TTTATTT-TT-TTATTTTTTTATTT
* *
2884568 TTCATTTTTATT-TTTATTATATTT
1 TTTATTTTT-TTATTT-TTTTATTT
*
2884592 TTTCA-TTTTTCATTTTTTTATTT
1 TTT-ATTTTTTTATTTTTTTATTT
2884615 TTTATTTATTTTATTTTTTTA
1 TTTATTT-TTTTATTTTTTTA
2884636 AATAAAATTA
Statistics
Matches: 73, Mismatches: 14, Indels: 14
0.72 0.14 0.14
Matches are distributed among these distances:
22 1 0.01
23 15 0.21
24 30 0.41
25 7 0.10
26 12 0.16
27 8 0.11
ACGTcount: A:0.21, C:0.03, G:0.02, T:0.75
Consensus pattern (23 bp):
TTTATTTTTTTATTTTTTTATTT
Found at i:2884720 original size:59 final size:58
Alignment explanation
Indices: 2884654--2884805 Score: 175
Period size: 59 Copynumber: 2.6 Consensus size: 58
2884644 TAAAATATAT
* *
2884654 ATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAA-TTTTCAAAAA
1 ATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAGTTTTCAAAAA
* * * * * *
2884711 AGGTTTTTTTGAGGAAAAGTTGAAAATATCAAATTTCCTCGAAATTAAAGTTTTCAAAAA
1 A--TATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAGTTTTCAAAAA
2884771 ATATTTTTG-GAGAAAAGTT-ATAAGTATCAATTTTC
1 ATATTTTTGAGA-AAAAGTTGA-AAGTATCAATTTTC
2884806 TCTATATAAA
Statistics
Matches: 78, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
57 3 0.04
58 26 0.33
59 38 0.49
60 11 0.14
ACGTcount: A:0.43, C:0.07, G:0.12, T:0.38
Consensus pattern (58 bp):
ATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAGTTTTCAAAAA
Found at i:2887544 original size:54 final size:54
Alignment explanation
Indices: 2887456--2887561 Score: 158
Period size: 54 Copynumber: 2.0 Consensus size: 54
2887446 CCAAAAAGAT
* * *
2887456 AACCATTGACGCGCTGACTGAAGAAAATACAAGATTGAAGCAAGAGTATGCTAA
1 AACCATTGACGAGCTGACTGAAAAAAATACAAGATTAAAGCAAGAGTATGCTAA
* **
2887510 AACCATTGTCGAGCTGACTGAAAAAAATGTAAGATTAAAGCAAGAGTATGCT
1 AACCATTGACGAGCTGACTGAAAAAAATACAAGATTAAAGCAAGAGTATGCT
2887562 GAATTGGAAG
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 46 1.00
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.21
Consensus pattern (54 bp):
AACCATTGACGAGCTGACTGAAAAAAATACAAGATTAAAGCAAGAGTATGCTAA
Found at i:2895301 original size:17 final size:16
Alignment explanation
Indices: 2895279--2895344 Score: 66
Period size: 14 Copynumber: 4.1 Consensus size: 16
2895269 TATGCTTGAA
2895279 AAAAAATGGAAAAAATG
1 AAAAAAT-GAAAAAATG
**
2895296 AAAAAAATGAAAAAAACA
1 -AAAAAATG-AAAAAATG
2895314 AAAAAATG-AAAAATG
1 AAAAAATGAAAAAATG
2895329 -AAAAAT-AAAAAATG
1 AAAAAATGAAAAAATG
2895343 AA
1 AA
2895345 TGAAAAAAGA
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
14 13 0.32
15 6 0.15
17 9 0.22
18 13 0.32
ACGTcount: A:0.77, C:0.02, G:0.11, T:0.11
Consensus pattern (16 bp):
AAAAAATGAAAAAATG
Found at i:2895311 original size:9 final size:9
Alignment explanation
Indices: 2895278--2895326 Score: 73
Period size: 9 Copynumber: 5.6 Consensus size: 9
2895268 TTATGCTTGA
2895278 AAAAAAATG
1 AAAAAAATG
*
2895287 GAAAAAATG
1 AAAAAAATG
2895296 AAAAAAATG
1 AAAAAAATG
*
2895305 AAAAAAA-C
1 AAAAAAATG
2895313 AAAAAAATG
1 AAAAAAATG
2895322 AAAAA
1 AAAAA
2895327 TGAAAAATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
8 7 0.20
9 28 0.80
ACGTcount: A:0.80, C:0.02, G:0.10, T:0.08
Consensus pattern (9 bp):
AAAAAAATG
Found at i:2895325 original size:7 final size:7
Alignment explanation
Indices: 2895315--2895344 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
2895305 AAAAAAACAA
2895315 AAAAATG
1 AAAAATG
2895322 AAAAATG
1 AAAAATG
*
2895329 AAAAATA
1 AAAAATG
2895336 AAAAATG
1 AAAAATG
2895343 AA
1 AA
2895345 TGAAAAAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.13
Consensus pattern (7 bp):
AAAAATG
Found at i:2895346 original size:25 final size:24
Alignment explanation
Indices: 2895288--2895351 Score: 80
Period size: 24 Copynumber: 2.7 Consensus size: 24
2895278 AAAAAAATGG
2895288 AAAAAATGAA--AAAAATGAAAAA
1 AAAAAATGAATGAAAAATGAAAAA
*
2895310 AACAAAA-AAATGAAAAATGAAAAA
1 AA-AAAATGAATGAAAAATGAAAAA
2895334 TAAAAAATGAATGAAAAA
1 -AAAAAATGAATGAAAAA
2895352 AGAGGACTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
22 4 0.11
23 4 0.11
24 16 0.46
25 11 0.31
ACGTcount: A:0.78, C:0.02, G:0.09, T:0.11
Consensus pattern (24 bp):
AAAAAATGAATGAAAAATGAAAAA
Found at i:2896485 original size:43 final size:42
Alignment explanation
Indices: 2896320--2896578 Score: 371
Period size: 42 Copynumber: 6.1 Consensus size: 42
2896310 ATGATTGTCA
*
2896320 AGGAGCAATTTATTTTT-TCAAAGTCGTTGAGCCTCTGATTAG
1 AGGAGCCATTTATTTTTCT-AAAGTCGTTGAGCCTCTGATTAG
*
2896362 AGGAGCCATTTATTTTTCTAAAGTCGTTGAGCCTCTGATTAA
1 AGGAGCCATTTATTTTTCTAAAGTCGTTGAGCCTCTGATTAG
* *
2896404 AGGTGCCATTTATTTTT-TAAAGTCGTTGAGCCTCTGATTAA
1 AGGAGCCATTTATTTTTCTAAAGTCGTTGAGCCTCTGATTAG
* *
2896445 AGAAGCCATTTATTTCTTCTAAAGTCGTTGAGCCTTTGATTAG
1 AGGAGCCATTTATTT-TTCTAAAGTCGTTGAGCCTCTGATTAG
* *
2896488 AGAAGCCGTTTATTTTT-TAAAAGTCGTTGAGCCTCTGATTAG
1 AGGAGCCATTTATTTTTCT-AAAGTCGTTGAGCCTCTGATTAG
* *
2896530 AGGAGCCATTTATGTTTCTCAAAGTCGTTGAGCCTCTGCTTAG
1 AGGAGCCATTTATTTTTCT-AAAGTCGTTGAGCCTCTGATTAG
2896573 AGGAGC
1 AGGAGC
2896579 TTTGATCAAA
Statistics
Matches: 198, Mismatches: 14, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
41 38 0.19
42 94 0.47
43 66 0.33
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.37
Consensus pattern (42 bp):
AGGAGCCATTTATTTTTCTAAAGTCGTTGAGCCTCTGATTAG
Found at i:2896799 original size:45 final size:43
Alignment explanation
Indices: 2896621--2896800 Score: 252
Period size: 43 Copynumber: 4.1 Consensus size: 43
2896611 CAAAAAAATT
* * * **
2896621 GCCTCTGTTTAGAGGAGCTTTGTTTATTTTTCAAAGTCATTGA
1 GCCTCTGATTATAGGAGCTTTATTTATTTTTCAAAGTTGTTGA
* *
2896664 GCCTCTGATTAAAGGAGCTTTATTTATTTTTTAAAGTTGTTGA
1 GCCTCTGATTATAGGAGCTTTATTTATTTTTCAAAGTTGTTGA
* *
2896707 GCCTCTGATTATAAGAGCTTTATTTATTTTTCAAAATTGTTGA
1 GCCTCTGATTATAGGAGCTTTATTTATTTTTCAAAGTTGTTGA
*
2896750 GCCTCTGATTATAGGAGCTTTGTTTATGTCTTTCAAAGTTGTTGA
1 GCCTCTGATTATAGGAGCTTTATTTAT-T-TTTCAAAGTTGTTGA
2896795 GCCTCT
1 GCCTCT
2896801 ACTTAGAGGA
Statistics
Matches: 122, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
43 101 0.83
44 1 0.01
45 20 0.16
ACGTcount: A:0.23, C:0.13, G:0.19, T:0.45
Consensus pattern (43 bp):
GCCTCTGATTATAGGAGCTTTATTTATTTTTCAAAGTTGTTGA
Found at i:2896819 original size:234 final size:233
Alignment explanation
Indices: 2896412--2896838 Score: 571
Period size: 231 Copynumber: 1.8 Consensus size: 233
2896402 AAAGGTGCCA
* *
2896412 TTTATTTTTTAAAGTCGTTGAGCCTCTGATTAAAGAAGCCATTTATTTCTTCTAAAGTCGTTGAG
1 TTTATTTTTCAAAGTCATTGAGCCTCTGATTAAAGAAGCCATTTATTTCTTCTAAAGTCGTTGAG
* * * *
2896477 CCTTTGATTAGAGAAGCCGTTTATTTTTTAAAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTA
66 CCTCTGATTAAAGAAGCCATTTATTTTTCAAAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTA
* *
2896542 TGTTTCTCAAAGTCGTTGAGCCTCTGCTTAGAGGAGCTTTGATCAAATTTTAAA-A-AAAAAATA
131 TGTTTCTCAAAGTCGTTGAGCCTCTACTTAGAGGAGCTTTGATCAAATCTTAAACACAAAAAATA
2896605 AAAAAACAAAAAAATTGCCTCTGTTTAGAGGAGCTTTG
196 AAAAAACAAAAAAATTGCCTCTGTTTAGAGGAGCTTTG
* * *
2896643 TTTATTTTTCAAAGTCATTGAGCCTCTGATTAAAGGAGCTTTATTTATTT-TT-TAAAGTTGTTG
1 TTTATTTTTCAAAGTCATTGAGCCTCTGATTAAAGAAGC--CATTTATTTCTTCTAAAGTCGTTG
* * *
2896706 AGCCTCTGATTATAAG-AGCTTTATTTATTTTTCAAAA-TTGTTGAGCCTCTGATTATAGGAGCT
64 AGCCTCTGATTA-AAGAAGC--CATTTATTTTTCAAAAGTCGTTGAGCCTCTGATTAGAGGAGC-
** * *
2896769 TTGTTTATGTCTT-TCAAAGTTGTTGAGCCTCTACTTAGAGGAGTTTTGATCAAATCTTAAACAC
125 -CATTTATGT-TTCTCAAAGTCGTTGAGCCTCTACTTAGAGGAGCTTTGATCAAATCTTAAACAC
2896833 AAAAAA
188 AAAAAA
2896839 AAATGTCGAG
Statistics
Matches: 168, Mismatches: 18, Indels: 15
0.84 0.09 0.07
Matches are distributed among these distances:
231 60 0.36
232 27 0.16
233 21 0.12
234 51 0.30
235 3 0.02
236 6 0.04
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.39
Consensus pattern (233 bp):
TTTATTTTTCAAAGTCATTGAGCCTCTGATTAAAGAAGCCATTTATTTCTTCTAAAGTCGTTGAG
CCTCTGATTAAAGAAGCCATTTATTTTTCAAAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTA
TGTTTCTCAAAGTCGTTGAGCCTCTACTTAGAGGAGCTTTGATCAAATCTTAAACACAAAAAATA
AAAAAACAAAAAAATTGCCTCTGTTTAGAGGAGCTTTG
Found at i:2896998 original size:6 final size:6
Alignment explanation
Indices: 2896989--2897092 Score: 61
Period size: 7 Copynumber: 16.0 Consensus size: 6
2896979 CCATTTTCTT
*
2896989 TTTTTA TTTTTGTA TTTTATA TTTTTA -TTTTA TTTATA -TTTTA TTTTTA
1 TTTTTA -TTTT-TA TTTT-TA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
* *
2897038 TTATTA TTATTATA TTTTTTA TCTTATGTA TTTATTA TTTATT- TATTTA
1 TTTTTA TT-TT-TA -TTTTTA T-TT-T-TA TTT-TTA TTT-TTA TTTTTA
2897087 TTTTTA
1 TTTTTA
2897093 CTATTTATTA
Statistics
Matches: 80, Mismatches: 7, Indels: 21
0.74 0.06 0.19
Matches are distributed among these distances:
5 11 0.14
6 26 0.32
7 27 0.34
8 11 0.14
9 5 0.06
ACGTcount: A:0.23, C:0.01, G:0.02, T:0.74
Consensus pattern (6 bp):
TTTTTA
Found at i:2897006 original size:13 final size:12
Alignment explanation
Indices: 2896990--2897090 Score: 68
Period size: 13 Copynumber: 8.3 Consensus size: 12
2896980 CATTTTCTTT
2896990 TTTTATTTTTGTA
1 TTTTATTTTT-TA
2897003 TTTTATATTTTTA
1 TTTTAT-TTTTTA
*
2897016 TTTTA-TTTATA
1 TTTTATTTTTTA
2897027 TTTTA-TTTTTA
1 TTTTATTTTTTA
*
2897038 --TTA-TTATTA
1 TTTTATTTTTTA
*
2897047 TTATATTTTTTA
1 TTTTATTTTTTA
* *
2897059 TCTTATGTATTTA
1 TTTTAT-TTTTTA
2897072 TTATTTATTTATTTA
1 -T-TTTATTT-TTTA
2897087 TTTT
1 TTTT
2897091 TACTATTTAT
Statistics
Matches: 70, Mismatches: 10, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
9 8 0.11
11 17 0.24
12 9 0.13
13 21 0.30
14 7 0.10
15 8 0.11
ACGTcount: A:0.23, C:0.01, G:0.02, T:0.74
Consensus pattern (12 bp):
TTTTATTTTTTA
Found at i:2897026 original size:17 final size:16
Alignment explanation
Indices: 2897004--2897106 Score: 58
Period size: 17 Copynumber: 6.4 Consensus size: 16
2896994 ATTTTTGTAT
2897004 TTTATATTTTTATTTTA
1 TTTATA-TTTTATTTTA
2897021 TTTATATTTTATTTT-
1 TTTATATTTTATTTTA
*
2897036 TATTATTATTATTATATT-
1 T-TTA-TATT-TTATTTTA
* *
2897054 TTT-TATCTTA-TGTA
1 TTTATATTTTATTTTA
2897068 TTTAT-TATTTA-TTTA
1 TTTATAT-TTTATTTTA
2897083 TTTAT-TTTTACTATTTA
1 TTTATATTTTA-T-TTTA
*
2897100 TTAATAT
1 TTTATAT
2897107 ATATTCTTAT
Statistics
Matches: 69, Mismatches: 7, Indels: 19
0.73 0.07 0.20
Matches are distributed among these distances:
13 1 0.01
14 11 0.16
15 17 0.25
16 12 0.17
17 20 0.29
18 8 0.12
ACGTcount: A:0.26, C:0.02, G:0.01, T:0.71
Consensus pattern (16 bp):
TTTATATTTTATTTTA
Found at i:2897028 original size:11 final size:11
Alignment explanation
Indices: 2897008--2897055 Score: 51
Period size: 11 Copynumber: 4.1 Consensus size: 11
2896998 TTGTATTTTA
*
2897008 TATTTTTATTT
1 TATTTATATTT
2897019 TATTTATATTT
1 TATTTATATTT
*
2897030 TATTTTTATTAT
1 TATTTATATT-T
2897042 TATTATTATATTT
1 TA-T-TTATATTT
2897055 T
1 T
2897056 TTATCTTATG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
11 19 0.61
12 3 0.10
13 3 0.10
14 6 0.19
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (11 bp):
TATTTATATTT
Found at i:2897033 original size:22 final size:22
Alignment explanation
Indices: 2896989--2897055 Score: 75
Period size: 22 Copynumber: 3.0 Consensus size: 22
2896979 CCATTTTCTT
*
2896989 TTTTTATTTT-TGTAT-TTTATA
1 TTTTTATTTTATTTATATTT-TA
2897010 TTTTTATTTTATTTATATTTTA
1 TTTTTATTTTATTTATATTTTA
2897032 TTTTTATTATTATTATTATATTTT
1 TTTTTATT-TTA-T-TTATATTTT
2897056 TTATCTTATG
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
21 10 0.25
22 14 0.35
23 6 0.15
24 1 0.03
25 9 0.22
ACGTcount: A:0.22, C:0.00, G:0.01, T:0.76
Consensus pattern (22 bp):
TTTTTATTTTATTTATATTTTA
Found at i:2897054 original size:31 final size:30
Alignment explanation
Indices: 2897003--2897111 Score: 82
Period size: 31 Copynumber: 3.5 Consensus size: 30
2896993 TATTTTTGTA
*
2897003 TTTTA-TATTTTTATTTTATTTATATTTTAT
1 TTTTATTATTATTA-TTTATTTATATTTTAT
* *
2897033 TTTTATTATTATTATTATATTTTTTATCTTAT
1 TTTTATTATTATTATT-TA-TTTATATTTTAT
2897065 GTATTTATTA-T-TTATTTATTTAT-TTTTACT
1 -T-TTTATTATTATTATTTATTTATATTTTA-T
* *
2897095 ATTTATTAATATATATT
1 TTTTATTATTAT-TATT
2897112 CTTATTTTTA
Statistics
Matches: 64, Mismatches: 6, Indels: 17
0.74 0.07 0.20
Matches are distributed among these distances:
28 7 0.11
29 5 0.08
30 13 0.20
31 15 0.23
32 15 0.23
33 2 0.03
34 7 0.11
ACGTcount: A:0.27, C:0.02, G:0.01, T:0.71
Consensus pattern (30 bp):
TTTTATTATTATTATTTATTTATATTTTAT
Found at i:2897099 original size:7 final size:7
Alignment explanation
Indices: 2897018--2897102 Score: 74
Period size: 6 Copynumber: 12.4 Consensus size: 7
2897008 TATTTTTATT
2897018 TTATTTA
1 TTATTTA
2897025 -TATTTTA
1 TTA-TTTA
2897032 TT-TTTA
1 TTATTTA
2897038 TTA-TTA
1 TTATTTA
2897044 TTA-TTA
1 TTATTTA
*
2897050 -TATTTT
1 TTATTTA
2897056 TTATCTTA
1 TTAT-TTA
2897064 TGTATTTA
1 T-TATTTA
2897072 TTATTTA
1 TTATTTA
2897079 TTTATTTA
1 -TTATTTA
2897087 TT-TTTA
1 TTATTTA
*
2897093 CTATTTA
1 TTATTTA
2897100 TTA
1 TTA
2897103 ATATATATTC
Statistics
Matches: 65, Mismatches: 4, Indels: 18
0.75 0.05 0.21
Matches are distributed among these distances:
5 2 0.03
6 24 0.37
7 21 0.32
8 15 0.23
9 3 0.05
ACGTcount: A:0.26, C:0.02, G:0.01, T:0.71
Consensus pattern (7 bp):
TTATTTA
Found at i:2897135 original size:41 final size:39
Alignment explanation
Indices: 2897023--2897141 Score: 123
Period size: 41 Copynumber: 2.9 Consensus size: 39
2897013 TTATTTTATT
* *
2897023 TATATTTTATTTTTATTATTATTATTA-TATTTTTTATCT
1 TATATTTTATTTTTATTATTATTATTACTATTTTTAAT-A
* *
2897062 TATGTATTTATTATTTATTTATTTATTTTTACTATTTATTAATA
1 TATAT-TTTATT-TTTA-TTA-TTATTATTACTATTT-TTAATA
*
2897106 TATATTCTTATTTTTATTATTACTATTACTATTTTT
1 TATATT-TTATTTTTATTATTATTATTACTATTTTT
2897142 TCTATTAATA
Statistics
Matches: 66, Mismatches: 7, Indels: 13
0.77 0.08 0.15
Matches are distributed among these distances:
39 4 0.06
40 8 0.12
41 17 0.26
42 6 0.09
43 13 0.20
44 14 0.21
45 4 0.06
ACGTcount: A:0.27, C:0.04, G:0.01, T:0.68
Consensus pattern (39 bp):
TATATTTTATTTTTATTATTATTATTACTATTTTTAATA
Found at i:2897147 original size:21 final size:21
Alignment explanation
Indices: 2897008--2897153 Score: 58
Period size: 20 Copynumber: 6.9 Consensus size: 21
2896998 TTGTATTTTA
* *
2897008 TATTTTTATTTTATTTATATT-T
1 TATTTTTA--TTATTAATATTAC
*
2897030 TATTTTTATTATTATTATTA-
1 TATTTTTATTATTAATATTAC
* *
2897050 TATTTTT-TATCTTATGTATT--
1 TATTTTTAT-TATTA-ATATTAC
* *
2897070 TATTATTTATTTATTTATTTTTAC
1 TATT-TTTA-TTA-TTAATATTAC
*
2897094 TA--TTTATTAATATATATT-C
1 TATTTTTATTATTA-ATATTAC
*
2897113 TTATTTTTATTATTACTATTAC
1 -TATTTTTATTATTAATATTAC
2897135 TATTTTT-TCTATTAATATT
1 TATTTTTAT-TATTAATATT
2897154 TATATATATT
Statistics
Matches: 96, Mismatches: 13, Indels: 31
0.69 0.09 0.22
Matches are distributed among these distances:
19 4 0.04
20 33 0.34
21 31 0.32
22 22 0.23
23 4 0.04
24 2 0.02
ACGTcount: A:0.27, C:0.04, G:0.01, T:0.68
Consensus pattern (21 bp):
TATTTTTATTATTAATATTAC
Found at i:2897194 original size:21 final size:21
Alignment explanation
Indices: 2897095--2897212 Score: 71
Period size: 22 Copynumber: 5.4 Consensus size: 21
2897085 TATTTTTACT
* * *
2897095 ATTTAT-TAATATATATTCTT
1 ATTTATCTATTATATATTATA
2897115 ATTT-T-TATTATTACTATTACTA
1 ATTTATCTATTA-TA-TATTA-TA
* * *
2897137 TTTTTTCTATTAATATTTATATA
1 ATTTATCTATT-ATATAT-TATA
2897160 TATTTATCTGATTATATATTATA
1 -ATTTATCT-ATTATATATTATA
* *
2897183 ATTTATCTATTATTTATTTTTA
1 ATTTATCTATTATATA-TTATA
2897205 ATTTATCT
1 ATTTATCT
2897213 GTTAATTTTT
Statistics
Matches: 78, Mismatches: 10, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
19 5 0.06
20 6 0.08
21 11 0.14
22 24 0.31
23 9 0.12
24 19 0.24
25 4 0.05
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.62
Consensus pattern (21 bp):
ATTTATCTATTATATATTATA
Found at i:2897240 original size:20 final size:21
Alignment explanation
Indices: 2897161--2897241 Score: 78
Period size: 22 Copynumber: 3.8 Consensus size: 21
2897151 ATTTATATAT
* *
2897161 ATTTATCTGATTATATATTATA
1 ATTTATCTGATTAT-TTTTTTA
2897183 ATTTATCT-ATTATTTATTTTTA
1 ATTTATCTGATTA-TT-TTTTTA
2897205 ATTTATCTG-TTAATTTTTTT-
1 ATTTATCTGATT-ATTTTTTTA
*
2897225 GTTTATCTGATTATTTT
1 ATTTATCTGATTATTTT
2897242 CATTAATATT
Statistics
Matches: 51, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
20 13 0.25
21 12 0.24
22 25 0.49
23 1 0.02
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.64
Consensus pattern (21 bp):
ATTTATCTGATTATTTTTTTA
Found at i:2897276 original size:18 final size:18
Alignment explanation
Indices: 2897253--2897287 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
2897243 ATTAATATTT
2897253 TTTATTTGATTTTTTTTA
1 TTTATTTGATTTTTTTTA
2897271 TTTATTTGATTTTTTTT
1 TTTATTTGATTTTTTTT
2897288 CGACTGAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.14, C:0.00, G:0.06, T:0.80
Consensus pattern (18 bp):
TTTATTTGATTTTTTTTA
Found at i:2898129 original size:4 final size:4
Alignment explanation
Indices: 2898122--2898147 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
2898112 TTTTTATTAT
2898122 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
2898148 ATTATTATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:2898129 original size:12 final size:12
Alignment explanation
Indices: 2898114--2898243 Score: 67
Period size: 12 Copynumber: 10.5 Consensus size: 12
2898104 TTCGTTTGTT
2898114 TTTATTATTTTA
1 TTTATTATTTTA
2898126 TTTATT-TATTTA
1 TTTATTAT-TTTA
2898138 TTTATTTATTATTA
1 TTTA-TTATT-TTA
*
2898152 -TTATTATTATA
1 TTTATTATTTTA
* *
2898163 TTAGGATTGATTAATA
1 TT--TATT-ATT-TTA
2898179 TTT-TTATTTTTA
1 TTTATTA-TTTTA
2898191 TTT-TTATTTT-
1 TTTATTATTTTA
2898201 TTTATGTATTTTCA
1 TTTAT-TATTTT-A
*
2898215 TTT-TTCATTTTT
1 TTTATT-ATTTTA
*
2898227 TTTAAT-TTTTA
1 TTTATTATTTTA
2898238 TTTATT
1 TTTATT
2898244 TTATTTTCTT
Statistics
Matches: 94, Mismatches: 8, Indels: 33
0.70 0.06 0.24
Matches are distributed among these distances:
10 3 0.03
11 17 0.18
12 39 0.41
13 17 0.18
14 10 0.11
15 3 0.03
16 5 0.05
ACGTcount: A:0.24, C:0.02, G:0.03, T:0.72
Consensus pattern (12 bp):
TTTATTATTTTA
Found at i:2898164 original size:8 final size:7
Alignment explanation
Indices: 2898114--2898243 Score: 54
Period size: 6 Copynumber: 19.9 Consensus size: 7
2898104 TTCGTTTGTT
2898114 TTTATTA
1 TTTATTA
2898121 -TT-TTA
1 TTTATTA
2898126 TTTATTTA
1 TTTA-TTA
2898134 TTTATTTA
1 TTTA-TTA
2898142 TTTATTA
1 TTTATTA
2898149 -TTATTA
1 TTTATTA
2898155 -TTATTA
1 TTTATTA
**
2898161 TATTAGGA
1 T-TTATTA
*
2898169 TTGATTA
1 TTTATTA
*
2898176 -ATATT-
1 TTTATTA
2898181 TTTATT-
1 TTTATTA
2898187 TTTATT-
1 TTTATTA
2898193 TTTATT-
1 TTTATTA
2898199 TTT-TTA
1 TTTATTA
*
2898205 TGTATT-
1 TTTATTA
*
2898211 TTCATT-
1 TTTATTA
2898217 TTTCATT-
1 TTT-ATTA
*
2898224 TTTTTTAA
1 TTTATT-A
2898232 TTT-TTA
1 TTTATTA
2898238 TTTATT
1 TTTATT
2898244 TTATTTTCTT
Statistics
Matches: 98, Mismatches: 13, Indels: 24
0.73 0.10 0.18
Matches are distributed among these distances:
5 5 0.05
6 52 0.53
7 18 0.18
8 23 0.23
ACGTcount: A:0.24, C:0.02, G:0.03, T:0.72
Consensus pattern (7 bp):
TTTATTA
Found at i:2898199 original size:6 final size:6
Alignment explanation
Indices: 2898177--2898240 Score: 62
Period size: 6 Copynumber: 10.8 Consensus size: 6
2898167 GATTGATTAA
* *
2898177 TATTTT TATTTT TATTTT TATTTT T-TTATG TATTTT CATTTT TCA-TTT
1 TATTTT TATTTT TATTTT TATTTT TATT-TT TATTTT TATTTT T-ATTTT
*
2898225 T-TTTT AATTTT TATTT
1 TATTTT TATTTT TATTT
2898241 ATTTTATTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
5 5 0.11
6 39 0.83
7 3 0.06
ACGTcount: A:0.17, C:0.03, G:0.02, T:0.78
Consensus pattern (6 bp):
TATTTT
Found at i:2898211 original size:24 final size:23
Alignment explanation
Indices: 2898179--2898240 Score: 81
Period size: 24 Copynumber: 2.7 Consensus size: 23
2898169 TTGATTAATA
2898179 TTTTTATTTTTATTTTT-ATTTT
1 TTTTTATTTTTATTTTTCATTTT
*
2898201 TTTATGTATTTTCATTTTTCATTTT
1 TTT-T-TATTTTTATTTTTCATTTT
*
2898226 TTTTAATTTTTATTT
1 TTTTTATTTTTATTT
2898241 ATTTTATTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
22 3 0.09
23 10 0.29
24 13 0.38
25 8 0.24
ACGTcount: A:0.16, C:0.03, G:0.02, T:0.79
Consensus pattern (23 bp):
TTTTTATTTTTATTTTTCATTTT
Found at i:2898228 original size:16 final size:16
Alignment explanation
Indices: 2898177--2898250 Score: 64
Period size: 18 Copynumber: 4.4 Consensus size: 16
2898167 GATTGATTAA
2898177 TATTTTTATTTTTATTTT
1 TATTTTTA-TTTTA-TTT
2898195 TATTTTT-TTATGTATTT
1 TATTTTTATT-T-TATTT
2898212 TCATTTTTCATTTT-TTT
1 T-ATTTTT-ATTTTATTT
2898229 TAATTTTTA-TTTATTT
1 T-ATTTTTATTTTATTT
2898245 TATTTT
1 TATTTT
2898251 CTTTAAATAA
Statistics
Matches: 49, Mismatches: 1, Indels: 15
0.75 0.02 0.23
Matches are distributed among these distances:
15 8 0.16
16 7 0.14
17 15 0.31
18 16 0.33
19 1 0.02
20 2 0.04
ACGTcount: A:0.18, C:0.03, G:0.01, T:0.78
Consensus pattern (16 bp):
TATTTTTATTTTATTT
Found at i:2898255 original size:9 final size:9
Alignment explanation
Indices: 2898113--2898249 Score: 56
Period size: 8 Copynumber: 14.9 Consensus size: 9
2898103 TTTCGTTTGT
2898113 TTTTA-TTA
1 TTTTATTTA
2898121 TTTTATTTA
1 TTTTATTTA
2898130 -TTTATTTA
1 TTTTATTTA
2898138 -TTTATTTA
1 TTTTATTTA
2898146 TTATTA-TTA
1 TT-TTATTTA
2898155 TTATTATATTA
1 TT-TTAT-TTA
* * *
2898166 GGATTGATTAA
1 --TTTTATTTA
*
2898177 TATT-TTTA
1 TTTTATTTA
*
2898185 TTTT-TAT-
1 TTTTATTTA
2898192 TTTTATTT-
1 TTTTATTTA
*
2898200 TTTTATGTA
1 TTTTATTTA
2898209 TTTTCATTTTTCA
1 TTTT-A--TTT-A
*
2898222 TTTTTTTTAA
1 TTTTATTT-A
2898232 TTTTTATTTA
1 -TTTTATTTA
2898242 TTTTATTT
1 TTTTATTT
2898250 TCTTTAAATA
Statistics
Matches: 100, Mismatches: 15, Indels: 27
0.70 0.11 0.19
Matches are distributed among these distances:
7 4 0.04
8 38 0.38
9 26 0.26
10 9 0.09
11 12 0.12
12 5 0.05
13 6 0.06
ACGTcount: A:0.23, C:0.01, G:0.03, T:0.72
Consensus pattern (9 bp):
TTTTATTTA
Found at i:2898355 original size:60 final size:58
Alignment explanation
Indices: 2898276--2898546 Score: 316
Period size: 60 Copynumber: 4.6 Consensus size: 58
2898266 AAAAAAACAC
*
2898276 ATTTTTG-AGGAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAAGTTTTCAGAAAAAT
1 ATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTCGAAATT-AAAGTTTTCA-AAAAAT
* *
2898335 ATTTTTGAAAAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAAGTTTTCAAAAAAAT
1 ATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTCGAAATT-AAAGTTTTC-AAAAAAT
* * * *
2898395 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCAT-AAAAATAAA-TTTTCAAAAAAGTTTTTT
1 ATTTTTGAAGAAAAGTTGAAAGTATCAA-TTTTCCTCGAAATTAAAGTTTTCAAAAAA------T
* *
2898458 TTTTTTG-AGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCCAAAAAAT
1 ATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTTCAAAAAAT
**
2898515 ATTTTTGGGGAAAAGTTGAAAGTATCAATTTT
1 ATTTTTGAAGAAAAGTTGAAAGTATCAATTTT
2898547 TCTTGTACAA
Statistics
Matches: 183, Mismatches: 17, Indels: 25
0.81 0.08 0.11
Matches are distributed among these distances:
57 13 0.07
58 28 0.15
59 10 0.05
60 77 0.42
61 12 0.07
62 26 0.14
63 17 0.09
ACGTcount: A:0.42, C:0.07, G:0.13, T:0.38
Consensus pattern (58 bp):
ATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTTCAAAAAAT
Found at i:2907199 original size:209 final size:207
Alignment explanation
Indices: 2906804--2907206 Score: 512
Period size: 209 Copynumber: 1.9 Consensus size: 207
2906794 AAGAAAAATG
* * * * *
2906804 AAATTTTCATTATATTGAAGATTTTCTATAAATATTTCAATATACTGGTAATATTTTACAAAAAA
1 AAATTTTCACTATATTGAAAATTTTCTATAAATACTCCAATATACTGGTAATATTTTAAAAAAAA
* * *
2906869 TCTTCTCACCTAGAGATTTCTTAAAGCATCTCTACTCGGAATACTTTTAGAATCTCATCATTAGA
66 TCTTCTCACCTAGAGATTTCGTAAAGCATCACTACTCGGAATACTTTTA-AATCTCATCATCAGA
* *
2906934 TAAAATTTTTTTCTTCTCATTTTTATTACTTATTTTTAATATATTAATCAATTTTTAT-TTATTA
130 TAAAATTTTTTTCTTCTCATTTTTATTACTTAGTATTAATATATTAATCAATTTTTATATTATTA
2906998 CTTAAAAAAAAGA
195 CTTAAAAAAAAGA
* * **
2907011 AAATTTTTACTATATTGAAAATTTTTTTATAAATACTCCAATATACTGGTGGTATTTTTAAAAAA
1 AAATTTTCACTATATTGAAAA-TTTTCTATAAATACTCCAATATACTGGTAATA-TTTTAAAAAA
* *
2907076 AATCTTCTCACCTAGAGATTTCGT-AGGCATCACTACTCGGAATACCTTTT-AATCTCATCGTCA
64 AATCTTCTCACCTAGAGATTTCGTAAAGCATCACTACTCGGAATA-CTTTTAAATCTCATCATCA
* **
2907139 GATAAAATTTTTCTT-TTCTTACATTTTTATTAGTTTAGTATT-AT-TATTAAATTTATTTTTAT
128 GATAAAATTTTT-TTCTTC-T-CATTTTTATTA-CTTAGTATTAATATATT-AATCAATTTTTAT
2907201 ATTATT
188 ATTATT
2907207 TTGTTTTTAA
Statistics
Matches: 168, Mismatches: 19, Indels: 15
0.83 0.09 0.07
Matches are distributed among these distances:
207 44 0.26
208 52 0.31
209 61 0.36
210 11 0.07
ACGTcount: A:0.34, C:0.13, G:0.07, T:0.46
Consensus pattern (207 bp):
AAATTTTCACTATATTGAAAATTTTCTATAAATACTCCAATATACTGGTAATATTTTAAAAAAAA
TCTTCTCACCTAGAGATTTCGTAAAGCATCACTACTCGGAATACTTTTAAATCTCATCATCAGAT
AAAATTTTTTTCTTCTCATTTTTATTACTTAGTATTAATATATTAATCAATTTTTATATTATTAC
TTAAAAAAAAGA
Found at i:2907917 original size:19 final size:20
Alignment explanation
Indices: 2907893--2907939 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
2907883 GGTGAGACTA
**
2907893 TTTTTTTTGTATTCTGA-CC
1 TTTTTTTTGTAAACTGACCC
*
2907912 TTTTTTTTTTAAACTGACCC
1 TTTTTTTTGTAAACTGACCC
2907932 TTTTTTTT
1 TTTTTTTT
2907940 TCTTCGTGCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.13, C:0.15, G:0.06, T:0.66
Consensus pattern (20 bp):
TTTTTTTTGTAAACTGACCC
Found at i:2908342 original size:10 final size:10
Alignment explanation
Indices: 2908329--2908388 Score: 50
Period size: 11 Copynumber: 5.9 Consensus size: 10
2908319 TTTGTATTTG
*
2908329 TTATTTTATA
1 TTATTTTTTA
2908339 TTATTTTTTA
1 TTATTTTTTA
2908349 TATATTTTTTA
1 T-TATTTTTTA
* *
2908360 TT-GTATTTA
1 TTATTTTTTA
* *
2908369 GTATTTTGTA
1 TTATTTTTTA
2908379 TTTATTTTTT
1 -TTATTTTTT
2908389 TTTCTGGACA
Statistics
Matches: 38, Mismatches: 9, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
9 6 0.16
10 15 0.39
11 17 0.45
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (10 bp):
TTATTTTTTA
Found at i:2908354 original size:11 final size:12
Alignment explanation
Indices: 2908332--2908360 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
2908322 GTATTTGTTA
2908332 TTTTATATTATT
1 TTTTATATTATT
2908344 TTTTATA-TATT
1 TTTTATATTATT
2908355 TTTTAT
1 TTTTAT
2908361 TGTATTTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 10 0.59
12 7 0.41
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTATATTATT
Found at i:2908389 original size:14 final size:14
Alignment explanation
Indices: 2908313--2908389 Score: 61
Period size: 14 Copynumber: 5.6 Consensus size: 14
2908303 TCTATTTTTC
2908313 TATTTTTTTGTATT
1 TATTTTTTTGTATT
* * *
2908327 TGTTATTTTATA-T
1 TATTTTTTTGTATT
*
2908340 TA-TTTTTTATATAT
1 TATTTTTTTGTAT-T
*
2908354 T-TTTTATTGTATT
1 TATTTTTTTGTATT
* *
2908367 TAGTATTTTGTATT
1 TATTTTTTTGTATT
2908381 TATTTTTTT
1 TATTTTTTT
2908390 TTCTGGACAA
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
12 8 0.17
13 4 0.09
14 35 0.74
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.74
Consensus pattern (14 bp):
TATTTTTTTGTATT
Found at i:2911042 original size:18 final size:20
Alignment explanation
Indices: 2911014--2911053 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
2911004 ATATAAAATT
2911014 TAAAAATTAATTTAAA-AAA
1 TAAAAATTAATTTAAACAAA
2911033 TAAAAA-TAATTTAAACAAA
1 TAAAAATTAATTTAAACAAA
2911052 TA
1 TA
2911054 TTCACCATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (20 bp):
TAAAAATTAATTTAAACAAA
Found at i:2912020 original size:22 final size:23
Alignment explanation
Indices: 2911975--2912020 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
2911965 TCATATTTTA
*
2911975 TATGAAAATTATGAATCATAATT
1 TATGAAAATTATAAATCATAATT
2911998 TATGAAAA-TATAAAAT-ATAATT
1 TATGAAAATTAT-AAATCATAATT
2912020 T
1 T
2912021 TTTTATTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.39
Consensus pattern (23 bp):
TATGAAAATTATAAATCATAATT
Found at i:2912100 original size:13 final size:12
Alignment explanation
Indices: 2912072--2912109 Score: 51
Period size: 13 Copynumber: 3.2 Consensus size: 12
2912062 TAATATTTTA
2912072 TTCATATTAT-T
1 TTCATATTATAT
2912083 TTCATATTATAT
1 TTCATATTATAT
*
2912095 TATCATATTGTAT
1 T-TCATATTATAT
2912108 TT
1 TT
2912110 TAAATTATCA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
11 10 0.42
12 3 0.12
13 11 0.46
ACGTcount: A:0.29, C:0.08, G:0.03, T:0.61
Consensus pattern (12 bp):
TTCATATTATAT
Found at i:2912116 original size:25 final size:24
Alignment explanation
Indices: 2912054--2912117 Score: 58
Period size: 25 Copynumber: 2.5 Consensus size: 24
2912044 TTTTTTTAAA
*
2912054 ATTTTAAATAATATTTTATTCATATT
1 ATTTTAAAT--TATATTATTCATATT
*
2912080 ATTTTCATATTATATTA-TCATATTGT
1 ATTTT-AAATTATATTATTCATA-T-T
2912106 ATTTTAAATTAT
1 ATTTTAAATTAT
2912118 CAAATTTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
24 5 0.16
25 13 0.41
26 11 0.34
27 3 0.09
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.58
Consensus pattern (24 bp):
ATTTTAAATTATATTATTCATATT
Found at i:2915213 original size:219 final size:219
Alignment explanation
Indices: 2914834--2915274 Score: 882
Period size: 219 Copynumber: 2.0 Consensus size: 219
2914824 CGACGGTGGA
2914834 AAATCAACCGCGTCTCCTGGAGGACTAGGATAGGAACAGTGATACAAGCATGATCCCATAAAGAA
1 AAATCAACCGCGTCTCCTGGAGGACTAGGATAGGAACAGTGATACAAGCATGATCCCATAAAGAA
2914899 AAAAAAATCCAGAACTAATAATTAGCAGACTTTTTTGTTATTTTCTTTTATTGTCCTGAAACTGC
66 AAAAAAATCCAGAACTAATAATTAGCAGACTTTTTTGTTATTTTCTTTTATTGTCCTGAAACTGC
2914964 AATTGAAAATTACCATATTGATCTCTGTCTTTGTTCCATTTGTGAGACTTTTTCATTTCTGCTCA
131 AATTGAAAATTACCATATTGATCTCTGTCTTTGTTCCATTTGTGAGACTTTTTCATTTCTGCTCA
2915029 ATGTGAAATCAAGCAATTCTAACC
196 ATGTGAAATCAAGCAATTCTAACC
2915053 AAATCAACCGCGTCTCCTGGAGGACTAGGATAGGAACAGTGATACAAGCATGATCCCATAAAGAA
1 AAATCAACCGCGTCTCCTGGAGGACTAGGATAGGAACAGTGATACAAGCATGATCCCATAAAGAA
2915118 AAAAAAATCCAGAACTAATAATTAGCAGACTTTTTTGTTATTTTCTTTTATTGTCCTGAAACTGC
66 AAAAAAATCCAGAACTAATAATTAGCAGACTTTTTTGTTATTTTCTTTTATTGTCCTGAAACTGC
2915183 AATTGAAAATTACCATATTGATCTCTGTCTTTGTTCCATTTGTGAGACTTTTTCATTTCTGCTCA
131 AATTGAAAATTACCATATTGATCTCTGTCTTTGTTCCATTTGTGAGACTTTTTCATTTCTGCTCA
2915248 ATGTGAAATCAAGCAATTCTAACC
196 ATGTGAAATCAAGCAATTCTAACC
2915272 AAA
1 AAA
2915275 GACATTTTTG
Statistics
Matches: 222, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
219 222 1.00
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (219 bp):
AAATCAACCGCGTCTCCTGGAGGACTAGGATAGGAACAGTGATACAAGCATGATCCCATAAAGAA
AAAAAAATCCAGAACTAATAATTAGCAGACTTTTTTGTTATTTTCTTTTATTGTCCTGAAACTGC
AATTGAAAATTACCATATTGATCTCTGTCTTTGTTCCATTTGTGAGACTTTTTCATTTCTGCTCA
ATGTGAAATCAAGCAATTCTAACC
Done.