Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 25 of 240
Found at i:8960223 original size:82 final size:82
Alignment explanation
Indices: 8960122--8960358 Score: 386
Period size: 82 Copynumber: 2.9 Consensus size: 82
8960112 CTAACACTAA
* * * *
8960122 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGTTAAAGCTA-ACATTTATCACTTTGTCAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACA-ACTTATCACTTTGTCTC
8960186 TTGATCAGATAAGTATAG
65 TTGATCAGATAAGTATAG
8960204 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACAACTTATCACTTTGTCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACAACTTATCACTTTGTCTCT
*
8960269 TGATCAGATAAGTGTAG
66 TGATCAGATAAGTATAG
* * *
8960286 CACTTATCACTTTTTCACTTGATGAGATAAGTGTAGCTAAAGCTACTACTTATCACTTTATCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACAACTTATCACTTTGTCTCT
8960351 TGATCAGA
66 TGATCAGA
8960359 AGTACTCAAA
Statistics
Matches: 146, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
82 145 0.99
83 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (82 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACAACTTATCACTTTGTCTCT
TGATCAGATAAGTATAG
Found at i:8963817 original size:30 final size:31
Alignment explanation
Indices: 8963757--8963821 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
8963747 ATACACAAAT
8963757 AATTTTATGTGTATGACTGAATCAAAATCAA
1 AATTTTATGTGTATGACTGAATCAAAATCAA
* * * *
8963788 AATTTTATGTTTATGATTGCA-CCAAATCAA
1 AATTTTATGTGTATGACTGAATCAAAATCAA
8963818 AATT
1 AATT
8963822 CATGTATCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 12 0.40
31 18 0.60
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.38
Consensus pattern (31 bp):
AATTTTATGTGTATGACTGAATCAAAATCAA
Found at i:8970705 original size:23 final size:22
Alignment explanation
Indices: 8970661--8970709 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
8970651 AATAGTTAGA
8970661 AATTTTATAATATTTTATATATT
1 AATTTTATAATATTTTATATA-T
8970684 AATTTTATGAA-ACTTTTA-ATAT
1 AATTTTAT-AATA-TTTTATATAT
8970706 AATT
1 AATT
8970710 GTTAAATTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
22 5 0.21
23 12 0.50
24 7 0.29
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (22 bp):
AATTTTATAATATTTTATATAT
Found at i:8972179 original size:5 final size:5
Alignment explanation
Indices: 8972169--8972195 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
8972159 TTATTTTAAA
8972169 TAATT TAATT TAATT TAATT TAATT TA
1 TAATT TAATT TAATT TAATT TAATT TA
8972196 GAGAATATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TAATT
Found at i:8973741 original size:19 final size:20
Alignment explanation
Indices: 8973704--8973743 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
8973694 AAATGCGAAA
*
8973704 AAATATATTATATATATTAT
1 AAATATATTATATAGATTAT
*
8973724 AAATATA-TATATGGATTAT
1 AAATATATTATATAGATTAT
8973743 A
1 A
8973744 TGATATGGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (20 bp):
AAATATATTATATAGATTAT
Found at i:8975354 original size:44 final size:44
Alignment explanation
Indices: 8975292--8975578 Score: 149
Period size: 44 Copynumber: 6.6 Consensus size: 44
8975282 GATCTGCTCT
* *
8975292 ACTGCAACTTTAGAGAGATAAGATCT-GTGACTTTAATCCACTCC
1 ACTGCAACTTCAGGGAGATAAGAT-TAGTGACTTTAATCCACTCC
* * * * *
8975336 ACTGCAACCTCAGGGAGATAGGATTATTGGCTTTAATCTACTCC
1 ACTGCAACTTCAGGGAGATAAGATTAGTGACTTTAATCCACTCC
** ** * * *
8975380 ACTATAACTTCAGGGAGATAAGATTCACAAGA-TTCAGTCTGC-CCCC
1 ACTGCAACTTCAGGGAGATAAGATT-A-GTGACTTTAATC--CACTCC
* * * * **
8975426 ACTGCAACTTCAGGGGGATAAGAATAGTTAC---GATCTGCT-C
1 ACTGCAACTTCAGGGAGATAAGATTAGTGACTTTAATCCACTCC
* ** * * *
8975466 TCTGCAACTTCAGATAGATAAGATCT-GTCATTTTAATCCGCTCC
1 ACTGCAACTTCAGGGAGATAAGAT-TAGTGACTTTAATCCACTCC
* * * * * * **
8975510 GCTGCAACTTTAGAGAGATAGGATTATTGGCTTTAATCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTAGTGACTTTAATCCACTCC
*
8975554 ACTACAACTTCAGGGAGATAAGATT
1 ACTGCAACTTCAGGGAGATAAGATT
8975579 CGCCATCTTT
Statistics
Matches: 178, Mismatches: 52, Indels: 26
0.70 0.20 0.10
Matches are distributed among these distances:
40 23 0.13
41 2 0.01
42 2 0.01
43 8 0.04
44 111 0.62
45 7 0.04
46 25 0.14
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (44 bp):
ACTGCAACTTCAGGGAGATAAGATTAGTGACTTTAATCCACTCC
Found at i:8975531 original size:174 final size:174
Alignment explanation
Indices: 8975241--8975579 Score: 500
Period size: 174 Copynumber: 1.9 Consensus size: 174
8975231 GCTATTTTTT
* * * * * *
8975241 AGTCTGCTCCACTGTAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTTAGA
1 AGTCTGCCCCACTGCAACTTCAGGGAGATAAGAATAGATACGATCTGCTCTACTGCAACTTCAGA
* *
8975306 GAGATAAGATCTGTGACTTTAATCCACTCCACTGCAACCTCAGGGAGATAGGATTATTGGCTTTA
66 GAGATAAGATCTGTCACTTTAATCCACTCCACTGCAACCTCAGAGAGATAGGATTATTGGCTTTA
*
8975371 ATCTACTCCACTATAACTTCAGGGAGATAAGATTCACAAGATTC
131 ATCTACTCCACTACAACTTCAGGGAGATAAGATTCACAAGATTC
* *
8975415 AGTCTGCCCCCACTGCAACTTCAGGGGGATAAGAATAGTTACGATCTGCTCT-CTGCAACTTCAG
1 AGTCTG-CCCCACTGCAACTTCAGGGAGATAAGAATAGATACGATCTGCTCTACTGCAACTTCAG
* * * * * *
8975479 ATAGATAAGATCTGTCATTTTAATCCGCTCCGCTGCAACTTTAGAGAGATAGGATTATTGGCTTT
65 AGAGATAAGATCTGTCACTTTAATCCACTCCACTGCAACCTCAGAGAGATAGGATTATTGGCTTT
*
8975544 AATCTGCTCCACTACAACTTCAGGGAGATAAGATTC
130 AATCTACTCCACTACAACTTCAGGGAGATAAGATTC
8975580 GCCATCTTTA
Statistics
Matches: 146, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
174 108 0.74
175 38 0.26
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (174 bp):
AGTCTGCCCCACTGCAACTTCAGGGAGATAAGAATAGATACGATCTGCTCTACTGCAACTTCAGA
GAGATAAGATCTGTCACTTTAATCCACTCCACTGCAACCTCAGAGAGATAGGATTATTGGCTTTA
ATCTACTCCACTACAACTTCAGGGAGATAAGATTCACAAGATTC
Found at i:8976520 original size:11 final size:11
Alignment explanation
Indices: 8976501--8976533 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
8976491 TGCCTCTCAT
8976501 TTTTC-TTTTC
1 TTTTCTTTTTC
8976511 TTTTCTTTTTC
1 TTTTCTTTTTC
8976522 TTTTCCTTTTTC
1 TTTT-CTTTTTC
8976534 ATCATTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 5 0.24
11 9 0.43
12 7 0.33
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:8976546 original size:6 final size:6
Alignment explanation
Indices: 8976547--8976604 Score: 59
Period size: 6 Copynumber: 9.7 Consensus size: 6
8976537 ATTTTTATTT
*
8976547 TTTTGA TTTTGA TTTTGA TTTTTTTA TTTTGA TTTTGA -TTT-- TTTTGA
1 TTTTGA TTTTGA TTTTGA --TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA
8976594 TTTTTGA TTTT
1 -TTTTGA TTTT
8976605 TTTTAATTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 3 0.07
5 3 0.07
6 27 0.61
7 6 0.14
8 5 0.11
ACGTcount: A:0.14, C:0.00, G:0.12, T:0.74
Consensus pattern (6 bp):
TTTTGA
Found at i:8976556 original size:7 final size:7
Alignment explanation
Indices: 8976546--8976605 Score: 56
Period size: 7 Copynumber: 8.7 Consensus size: 7
8976536 CATTTTTATT
8976546 TTTTTGA
1 TTTTTGA
8976553 -TTTTGA
1 TTTTTGA
8976559 -TTTTGA
1 TTTTTGA
*
8976565 TTTTT-T
1 TTTTTGA
8976571 TATTTTGA
1 T-TTTTGA
8976579 -TTTTGA
1 TTTTTGA
8976585 TTTTTTTGA
1 --TTTTTGA
8976594 TTTTTGA
1 TTTTTGA
8976601 TTTTT
1 TTTTT
8976606 TTTAATTTTC
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
6 19 0.42
7 20 0.44
9 6 0.13
ACGTcount: A:0.13, C:0.00, G:0.12, T:0.75
Consensus pattern (7 bp):
TTTTTGA
Found at i:8976562 original size:14 final size:14
Alignment explanation
Indices: 8976545--8976606 Score: 67
Period size: 15 Copynumber: 4.4 Consensus size: 14
8976535 TCATTTTTAT
8976545 TTTTTTGATTTTGA
1 TTTTTTGATTTTGA
*
8976559 --TTTTGATTTT-T
1 TTTTTTGATTTTGA
8976570 TTATTTTGATTTTGA
1 TT-TTTTGATTTTGA
8976585 TTTTTTTGATTTTTGA
1 -TTTTTTGA-TTTTGA
8976601 TTTTTT
1 TTTTTT
8976607 TTAATTTTCT
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
12 10 0.25
14 10 0.25
15 12 0.30
16 8 0.20
ACGTcount: A:0.13, C:0.00, G:0.11, T:0.76
Consensus pattern (14 bp):
TTTTTTGATTTTGA
Found at i:8976568 original size:20 final size:21
Alignment explanation
Indices: 8976537--8976604 Score: 111
Period size: 20 Copynumber: 3.2 Consensus size: 21
8976527 CTTTTTCATC
*
8976537 ATTTTTATTTTTTTGATTTTG
1 ATTTTGATTTTTTTGATTTTG
8976558 ATTTTGATTTTTTT-ATTTTG
1 ATTTTGATTTTTTTGATTTTG
8976578 ATTTTGATTTTTTTGATTTTTG
1 ATTTTGATTTTTTTGA-TTTTG
8976600 ATTTT
1 ATTTT
8976605 TTTTAATTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
20 20 0.45
21 14 0.32
22 10 0.23
ACGTcount: A:0.15, C:0.00, G:0.10, T:0.75
Consensus pattern (21 bp):
ATTTTGATTTTTTTGATTTTG
Found at i:8976576 original size:26 final size:27
Alignment explanation
Indices: 8976537--8976588 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 27
8976527 CTTTTTCATC
*
8976537 ATTTTTATTTTTTTGATTTTGATTTTG
1 ATTTTTATTATTTTGATTTTGATTTTG
8976564 ATTTTT-TTATTTTGATTTTGATTTT
1 ATTTTTATTATTTTGATTTTGATTTT
8976589 TTTGATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 18 0.75
27 6 0.25
ACGTcount: A:0.15, C:0.00, G:0.10, T:0.75
Consensus pattern (27 bp):
ATTTTTATTATTTTGATTTTGATTTTG
Found at i:8976597 original size:26 final size:28
Alignment explanation
Indices: 8976547--8976622 Score: 74
Period size: 26 Copynumber: 2.9 Consensus size: 28
8976537 ATTTTTATTT
8976547 TTTTGATTTTGATTTTGATTT--TTTT-A
1 TTTTGATTTTGATTTT-ATTTGATTTTGA
8976573 TTTTGATTTTGATTTT-TTTGATTTTTGA
1 TTTTGATTTTGATTTTATTTGA-TTTTGA
* *
8976601 TTTT--TTTTAATTTTCTTTGATT
1 TTTTGATTTTGATTTTATTTGATT
8976623 GAATCTGAAC
Statistics
Matches: 44, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
24 3 0.07
26 27 0.61
27 9 0.20
28 5 0.11
ACGTcount: A:0.14, C:0.01, G:0.11, T:0.74
Consensus pattern (28 bp):
TTTTGATTTTGATTTTATTTGATTTTGA
Found at i:8976620 original size:36 final size:34
Alignment explanation
Indices: 8976553--8976622 Score: 88
Period size: 36 Copynumber: 2.0 Consensus size: 34
8976543 ATTTTTTTGA
*
8976553 TTTTGATTTTGATTTTTTTATTTTGATTTTGATTT
1 TTTTGATTTTGATTTTTTTATTTT-ACTTTGATTT
8976588 TTTTGATTTTTGATTTTTTTTAATTTT-CTTTGATT
1 TTTTGA-TTTTGA-TTTTTTT-ATTTTACTTTGATT
8976623 GAATCTGAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
35 6 0.19
36 13 0.42
37 7 0.23
38 5 0.16
ACGTcount: A:0.14, C:0.01, G:0.10, T:0.74
Consensus pattern (34 bp):
TTTTGATTTTGATTTTTTTATTTTACTTTGATTT
Found at i:8977403 original size:25 final size:25
Alignment explanation
Indices: 8977375--8977433 Score: 100
Period size: 25 Copynumber: 2.3 Consensus size: 25
8977365 AAGAGAATCC
*
8977375 AAAAGAATGAAAGAATATTGGCTCA
1 AAAAGAATGAAAGAATATTGGCTAA
8977400 AAAAGAATGAAAGAATATTGGCTAA
1 AAAAGAATGAAAGAATATTGGCTAA
8977425 AAAATGAAT
1 AAAA-GAAT
8977434 ACAAAGATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 28 0.88
26 4 0.12
ACGTcount: A:0.56, C:0.05, G:0.19, T:0.20
Consensus pattern (25 bp):
AAAAGAATGAAAGAATATTGGCTAA
Found at i:8983181 original size:17 final size:17
Alignment explanation
Indices: 8983161--8983194 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
8983151 TTGAATAGTG
8983161 TATAAATAA-ATATATAT
1 TATAAA-AATATATATAT
8983178 TATAAAAATATATATAT
1 TATAAAAATATATATAT
8983195 GGATTATATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 14 0.88
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TATAAAAATATATATAT
Found at i:8983396 original size:15 final size:15
Alignment explanation
Indices: 8983376--8983409 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
8983366 ACGTATAGGC
8983376 ATAATAATAAATAAT
1 ATAATAATAAATAAT
*
8983391 ATAATAATAATTAAT
1 ATAATAATAAATAAT
8983406 ATAA
1 ATAA
8983410 CAAAATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
ATAATAATAAATAAT
Found at i:8983925 original size:91 final size:91
Alignment explanation
Indices: 8983782--8983950 Score: 311
Period size: 91 Copynumber: 1.9 Consensus size: 91
8983772 ACGACGTCGT
* *
8983782 TTTGGTGCTAGGAACCCTAGCTCAAAACGGCGTCGTATTCCGATGGTATTTAAACAAAAATAATC
1 TTTGGTGCTAGGAACCCTAGCTCAAAACGGCGTCGTATTCCGATGGTATTTAAACAAAAAGAACC
8983847 TCTAAAAAAACACCATACGGCTTCGC
66 TCTAAAAAAACACCATACGGCTTCGC
*
8983873 TTTGGTGCTAGGAACCCTAGCTCAAAACGGCGTCGTATTTCGATGGTATTTAAACAAAAAGAACC
1 TTTGGTGCTAGGAACCCTAGCTCAAAACGGCGTCGTATTCCGATGGTATTTAAACAAAAAGAACC
8983938 TCTAAAAAAACAC
66 TCTAAAAAAACAC
8983951 TAGCAGCCTA
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
91 75 1.00
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.25
Consensus pattern (91 bp):
TTTGGTGCTAGGAACCCTAGCTCAAAACGGCGTCGTATTCCGATGGTATTTAAACAAAAAGAACC
TCTAAAAAAACACCATACGGCTTCGC
Found at i:8989360 original size:2 final size:2
Alignment explanation
Indices: 8989355--8989385 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
8989345 TCTCTCTCTT
*
8989355 AC AC AC AC AC AC AC AC AC AC AC AC AA AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
8989386 TATCTGAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.55, C:0.45, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:9011553 original size:107 final size:105
Alignment explanation
Indices: 9011425--9011660 Score: 343
Period size: 107 Copynumber: 2.2 Consensus size: 105
9011415 CGGCACCAGA
*
9011425 ATACGAAAAAAAGAAAAAAAAATTTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTTTTG-GG
1 ATACG-AAAAAAGAAAAAAAAAATTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTTTTGTGG
*
9011489 GAAAATTTTTTTTTCAC-TGTTTTCGTGTCAATAGCATGTATCAAT
65 G---A-TTTTTTTT-ACTTGTTTTCGTGTCAATAACATGTATCAAT
9011534 ATACGAAAAAAG-AAAAAAAAATTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTTTTGTGGG
1 ATACGAAAAAAGAAAAAAAAAATTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTTTTGTGGG
* * *
9011598 ATTTTTTTTACTTTTTTTCGTGTCAATAACATGTATTAGT
66 ATTTTTTTTACTTGTTTTCGTGTCAATAACATGTATCAAT
*
9011638 ATACGAAAAAAGTAAAAAAAAAT
1 ATACGAAAAAAGAAAAAAAAAAT
9011661 CCACAAAAAA
Statistics
Matches: 119, Mismatches: 5, Indels: 10
0.89 0.04 0.07
Matches are distributed among these distances:
103 2 0.02
104 44 0.37
105 11 0.09
107 47 0.39
108 10 0.08
109 5 0.04
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (105 bp):
ATACGAAAAAAGAAAAAAAAAATTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTTTTGTGGG
ATTTTTTTTACTTGTTTTCGTGTCAATAACATGTATCAAT
Found at i:9011641 original size:104 final size:105
Alignment explanation
Indices: 9011425--9011660 Score: 352
Period size: 104 Copynumber: 2.2 Consensus size: 105
9011415 CGGCACCAGA
9011425 ATACGAAAAAAAGAAAAAAAAATTTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTTTTGGGG
1 ATACG-AAAAAAGAAAAAAAAA-TTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTTTTGGGG
*
9011490 AAAATTTTTTTTTCACTGTTTTCGTGTCAATAGCATGTATCAAT
64 --AATTTTTTTTTCACTGTTTTCGTGTCAATAACATGTATCAAT
9011534 ATACGAAAAAAGAAAAAAAAATTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTTTTGTGGG-
1 ATACGAAAAAAGAAAAAAAAATTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTTTTG-GGGA
* * *
9011598 A-TTTTTTTT-ACTTTTTTTCGTGTCAATAACATGTATTAGT
65 ATTTTTTTTTCAC-TGTTTTCGTGTCAATAACATGTATCAAT
9011638 ATACGAAAAAAGTAAAAAAAAAT
1 ATACGAAAAAAG-AAAAAAAAAT
9011661 CCACAAAAAA
Statistics
Matches: 120, Mismatches: 4, Indels: 10
0.90 0.03 0.07
Matches are distributed among these distances:
103 2 0.02
104 44 0.37
105 11 0.09
107 39 0.32
108 19 0.16
109 5 0.04
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (105 bp):
ATACGAAAAAAGAAAAAAAAATTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTTTTGGGGAA
TTTTTTTTTCACTGTTTTCGTGTCAATAACATGTATCAAT
Found at i:9013123 original size:23 final size:23
Alignment explanation
Indices: 9013096--9013171 Score: 116
Period size: 23 Copynumber: 3.3 Consensus size: 23
9013086 AGTGTTATTG
*
9013096 ATCAGTGGTAGCTTCGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACAT
*
9013119 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
9013142 AACAGTGGTAGCTTCGGTTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
9013165 ATCAGTG
1 ATCAGTG
9013172 TTGCACTTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:9014578 original size:100 final size:101
Alignment explanation
Indices: 9014428--9014623 Score: 277
Period size: 102 Copynumber: 1.9 Consensus size: 101
9014418 AATTTTTTTT
* * * *
9014428 ATTACTTTTTTCATATACTCATACCTGCTATTGACACGAAAAAAGT-AAAAAATTCCGACAAAAA
1 ATTACTTTTTTCATATACTCATACATGATATTGACACGAAAAAACTAAAAAAATTCCCACAAAAA
** *
9014492 AGGTGGTGCTGGTCATTGGCAGGCCACCACAAAAAA
66 AGGTGGTGCCAGTCATTAGCAGGCCACCACAAAAAA
* * *
9014528 ATTACTTTTTTCGTATACTTATACATGATATTGATACGAAAAAACTAAAAAAAATTCCCACAAAA
1 ATTACTTTTTTCATATACTCATACATGATATTGACACGAAAAAACT-AAAAAAATTCCCACAAAA
*
9014593 AAGTTGGTGCCAGTCATTAGCAGGCCACCAC
65 AAGGTGGTGCCAGTCATTAGCAGGCCACCAC
9014624 CAAATTTTTT
Statistics
Matches: 83, Mismatches: 11, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
100 40 0.48
102 43 0.52
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (101 bp):
ATTACTTTTTTCATATACTCATACATGATATTGACACGAAAAAACTAAAAAAATTCCCACAAAAA
AGGTGGTGCCAGTCATTAGCAGGCCACCACAAAAAA
Found at i:9016292 original size:110 final size:109
Alignment explanation
Indices: 9015990--9016811 Score: 1091
Period size: 110 Copynumber: 7.5 Consensus size: 109
9015980 AAAAATTGTT
* * *
9015990 GTGGCCAGCCAATGGTCGGCACCACCTTTTTTGTGGCAAAATTTTTTTGATTACTTTTTTCGTGT
1 GTGGCCTGCCAATGGCCGGCACCACCTTTTTTGT-G-AGAATTTTTTT--TTACTTTTTTCGTGT
* *
9016055 CAATAGTAGGTATTAGTATACGAAAAAAATAAAAAAAAAATTATTTTGGTG
62 CAATAGCAGGTATTAGTATACGAAAAAAGT-AAAAAAAAA--ATTTTGGTG
* * * * *
9016106 GTGCCCTGCCAATGGCTGGCACCACCTTTTTTGTG-GAAATTTTTTTTTAATTTTTTTGTGGCAA
1 GTGGCCTGCCAATGGCCGGCACCACCTTTTTTGTGAG-AATTTTTTTTTACTTTTTTCGTGTCAA
*
9016170 TAGCAGTTATTAGTATACGAAAAAAGTAAAAAAAAAATTTTGGTG
65 TAGCAGGTATTAGTATACGAAAAAAGTAAAAAAAAAATTTTGGTG
* *
9016215 GTGGCCTGCCAATGGCCGGCACCACCTTTCTTGTGAGATTTTTTTTTTTACTTTTTTCGTGTCAA
1 GTGGCCTGCCAATGGCCGGCACCACCTTTTTTGTGAGA-ATTTTTTTTTACTTTTTTCGTGTCAA
* *
9016280 TAGCAGGTATTAGTTTACGAAAAAAGTAAAAAAAAAAATTTGGTG
65 TAGCAGGTATTAGTATACGAAAAAAGTAAAAAAAAAATTTTGGTG
* * * *
9016325 GTGGCCTGCCAATGGCCGGCAACATCTTTTTTGTGGGAATTTTTTTTTTACTTTTTTAGTGTCAA
1 GTGGCCTGCCAATGGCCGGCACCACCTTTTTTGTGAGAA-TTTTTTTTTACTTTTTTCGTGTCAA
* * * * ** *
9016390 AAGAATGTATTAGTTTACGAAAAAAGTAAAAAAAAAA-AATGGTA
65 TAGCAGGTATTAGTATACGAAAAAAGTAAAAAAAAAATTTTGGTG
* * *
9016434 GTGGCCTGCCAATGGCCGGCACCACCTTTTTTCTGGGAATTTTTTTTTACTTTTTTTGTGTCAAT
1 GTGGCCTGCCAATGGCCGGCACCACCTTTTTTGTGAGAATTTTTTTTTACTTTTTTCGTGTCAAT
** *
9016499 AGCAATTATTAGTATATGAAAAAAGTAAAAAAAAATTATTTTGGTG
66 AGCAGGTATTAGTATACGAAAAAAGTAAAAAAAAA--ATTTTGGTG
*
9016545 GTGGCCTGCCAACGGCCGGCACCACCTTTTTTGTGAGAA-TTTTTTTTACTTTTTTCGTGTCAAT
1 GTGGCCTGCCAATGGCCGGCACCACCTTTTTTGTGAGAATTTTTTTTTACTTTTTTCGTGTCAAT
*
9016609 AGCAGGTATTAGTA-ACTGAAAAAAGT-AAAAAAATATTTTGGTG
66 AGCAGGTATTAGTATAC-GAAAAAAGTAAAAAAAAAATTTTGGTG
* * *
9016652 GTGGCCTACCAATGGCTGGCACCACCTTTTTTGTGAGAATTTTTTTTTACATTTTTCGTGTCAAT
1 GTGGCCTGCCAATGGCCGGCACCACCTTTTTTGTGAGAATTTTTTTTTACTTTTTTCGTGTCAAT
* * * *
9016717 AACAAGTATCAGTATACGAAAAAAGTAATAAAAAAA-TTT-GTG
66 AGCAGGTATTAGTATACGAAAAAAGTAAAAAAAAAATTTTGGTG
* *
9016759 GTGGCCTGCCAATAGCCGGCACCACCTTTTTTGTGGGAATTTTTTTTTACTTT
1 GTGGCCTGCCAATGGCCGGCACCACCTTTTTTGTGAGAATTTTTTTTTACTTT
9016812 GACATGAAAA
Statistics
Matches: 627, Mismatches: 68, Indels: 31
0.86 0.09 0.04
Matches are distributed among these distances:
107 96 0.15
108 101 0.16
109 99 0.16
110 203 0.32
111 49 0.08
112 39 0.06
114 9 0.01
115 1 0.00
116 30 0.05
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.37
Consensus pattern (109 bp):
GTGGCCTGCCAATGGCCGGCACCACCTTTTTTGTGAGAATTTTTTTTTACTTTTTTCGTGTCAAT
AGCAGGTATTAGTATACGAAAAAAGTAAAAAAAAAATTTTGGTG
Found at i:9016527 original size:218 final size:216
Alignment explanation
Indices: 9015976--9016811 Score: 1077
Period size: 218 Copynumber: 3.8 Consensus size: 216
9015966 TTTTTAGTGT
* * * * *
9015976 AAAAAAAAATTGTTGTGGCCAGCCAATGGTCGGCACCACCTTTTTTGTGGCAAAATTTTTTTGAT
1 AAAAAAAAATGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTTTTGT-G-AGAATTTTTTT--T
* * *
9016041 TACTTTTTTCGTGTCAATAGTAGGTATTAGTATACGAAAAAAATAAAAAAAAAATTATTTTGGTG
62 TACTTTTTTCGTGTCAATAGCAAGTATTAGTATACGAAAAAAGTAAAAAAAAAA--A-TTTGGTG
* * * * * *
9016106 GTGCCCTGCCAATGGCTGGCACCACCTTTTTTGTGGAAATTTTTTTTTAATTTTTTTGTGGCAAT
124 GTGGCCTGCCAATGGCCGGCACCACCTTTTTTGTGGGAATTTTTTTTTACTTTTTTAGTGTCAAT
*
9016171 AGCAGTTATTAGTATACGAAAAAAGTAAA
189 AGCAG-TATTAGTTTACGAAAAAAGTAAA
** * *
9016200 AAAAAAATTTTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTCTTGTGAGATTTTTTTTTTTA
1 AAAAAAA-AATGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTTTTGTGAGA-ATTTTTTTTTA
* *
9016265 CTTTTTTCGTGTCAATAGCAGGTATTAGTTTACGAAAAAAGTAAAAAAAAAAATTTGGTGGTGGC
64 CTTTTTTCGTGTCAATAGCAAGTATTAGTATACGAAAAAAGTAAAAAAAAAAATTTGGTGGTGGC
* * * *
9016330 CTGCCAATGGCCGGCAACATCTTTTTTGTGGGAATTTTTTTTTTACTTTTTTAGTGTCAAAAGAA
129 CTGCCAATGGCCGGCACCACCTTTTTTGTGGGAA-TTTTTTTTTACTTTTTTAGTGTCAATAGCA
9016395 TGTATTAGTTTACGAAAAAAGTAAA
193 -GTATTAGTTTACGAAAAAAGTAAA
* * *
9016420 AAAAAAAAATGGTAGTGGCCTGCCAATGGCCGGCACCACCTTTTTTCTGGGAATTTTTTTTTACT
1 AAAAAAAAATGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTTTTGTGAGAATTTTTTTTTACT
* * * *
9016485 TTTTTTGTGTCAATAGCAATTATTAGTATATGAAAAAAGTAAAAAAAAATTATTTTGGTGGTGGC
66 TTTTTCGTGTCAATAGCAAGTATTAGTATACGAAAAAAGTAAAAAAAAA--AATTTGGTGGTGGC
* * *
9016550 CTGCCAACGGCCGGCACCACCTTTTTTGTGAGAA-TTTTTTTTACTTTTTTCGTGTCAATAGCAG
129 CTGCCAATGGCCGGCACCACCTTTTTTGTGGGAATTTTTTTTTACTTTTTTAGTGTCAATAGCA-
*
9016614 GTATTAG-TAACTGAAAAAAGTAAA
193 GTATTAGTTTAC-GAAAAAAGTAAA
* *** * * *
9016638 AAAATATTTTGGTGGTGGCCTACCAATGGCTGGCACCACCTTTTTTGTGAGAATTTTTTTTTACA
1 AAAAAAAAATGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTTTTGTGAGAATTTTTTTTTACT
* * *
9016703 TTTTTCGTGTCAATAACAAGTATCAGTATACGAAAAAAGT-AATAAAAAAATTT-GTGGTGGCCT
66 TTTTTCGTGTCAATAGCAAGTATTAGTATACGAAAAAAGTAAAAAAAAAAATTTGGTGGTGGCCT
*
9016766 GCCAATAGCCGGCACCACCTTTTTTGTGGGAATTTTTTTTTACTTT
131 GCCAATGGCCGGCACCACCTTTTTTGTGGGAATTTTTTTTTACTTT
9016812 GACATGAAAA
Statistics
Matches: 539, Mismatches: 65, Indels: 25
0.86 0.10 0.04
Matches are distributed among these distances:
214 39 0.07
215 17 0.03
217 10 0.02
218 191 0.35
219 80 0.15
220 98 0.18
221 1 0.00
222 52 0.10
223 2 0.00
224 15 0.03
225 34 0.06
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.37
Consensus pattern (216 bp):
AAAAAAAAATGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTTTTGTGAGAATTTTTTTTTACT
TTTTTCGTGTCAATAGCAAGTATTAGTATACGAAAAAAGTAAAAAAAAAAATTTGGTGGTGGCCT
GCCAATGGCCGGCACCACCTTTTTTGTGGGAATTTTTTTTTACTTTTTTAGTGTCAATAGCAGTA
TTAGTTTACGAAAAAAGTAAA
Found at i:9018453 original size:4 final size:4
Alignment explanation
Indices: 9018444--9018500 Score: 105
Period size: 4 Copynumber: 14.2 Consensus size: 4
9018434 GCCGGTCAGC
*
9018444 ACAT ACAT ACAT ACAT ACAT ATAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
9018492 ACAT ACAT A
1 ACAT ACAT A
9018501 TATATAGATG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 51 1.00
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ACAT
Found at i:9020213 original size:2 final size:2
Alignment explanation
Indices: 9020206--9020267 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
9020196 AAACCCAGAG
9020206 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
9020248 TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC
9020268 CTCGTATGTC
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:9022500 original size:24 final size:24
Alignment explanation
Indices: 9022464--9022512 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
9022454 ACCGTCATGG
9022464 ACACCAGCGACAACTCCTGGTGTA
1 ACACCAGCGACAACTCCTGGTGTA
* *
9022488 ACACCGGCTACAACTCCTGGTGTA
1 ACACCAGCGACAACTCCTGGTGTA
9022512 A
1 A
9022513 GAAGCTATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.29, C:0.33, G:0.20, T:0.18
Consensus pattern (24 bp):
ACACCAGCGACAACTCCTGGTGTA
Found at i:9029578 original size:55 final size:57
Alignment explanation
Indices: 9029508--9029613 Score: 162
Period size: 55 Copynumber: 1.9 Consensus size: 57
9029498 AAAAAATTAT
*
9029508 TTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTAC-G-AAAAAAAGGAAAA
1 TTTTTTTGGGTGCTGGCCTGTAAATGGCCGGCACCCAGTACAGTAAAAAAAGGAAAA
* * *
9029563 TTTTTTTGTGTGCTGGCCTGTAAATGGTCGGCACCTAGTACAGTAAAAAAA
1 TTTTTTTGGGTGCTGGCCTGTAAATGGCCGGCACCCAGTACAGTAAAAAAA
9029614 TTCGAGTTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
55 37 0.82
56 1 0.02
57 7 0.16
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.28
Consensus pattern (57 bp):
TTTTTTTGGGTGCTGGCCTGTAAATGGCCGGCACCCAGTACAGTAAAAAAAGGAAAA
Found at i:9029971 original size:111 final size:112
Alignment explanation
Indices: 9029830--9030035 Score: 324
Period size: 111 Copynumber: 1.8 Consensus size: 112
9029820 ACCACCAATT
* * *
9029830 TTTTTTTTTACTTTTTTCGTATACTGATACTTGATACTGACACGAAAAAAAGT-AAATTTTTTTT
1 TTTTTTTTTACCTTTTTCATATACTAATACTTGATACTGACACGAAAAAAAGTAAAATTTTTTTT
*
9029894 ACTATATTGGGTGCCGACCATTGACAGGCCAGAACCCAAAAAAAGAA
66 ACTATACTGGGTGCCGACCATTGACAGGCCAGAACCCAAAAAAAGAA
9029941 TTTTTTTTTACCTTTTTCATATACTAATACTTGATACTGACACGAAAAAAAGTAAAAAATTTTTT
1 TTTTTTTTTACCTTTTTCATATACTAATACTTGATACTGACACGAAAAAAAGT--AAAATTTTTT
* * *
9030006 TTACTGTACTGGGTGCCGGCCATTTACAGG
64 TTACTATACTGGGTGCCGACCATTGACAGG
9030036 TCAATACTCA
Statistics
Matches: 85, Mismatches: 7, Indels: 3
0.89 0.07 0.03
Matches are distributed among these distances:
111 50 0.59
114 35 0.41
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (112 bp):
TTTTTTTTTACCTTTTTCATATACTAATACTTGATACTGACACGAAAAAAAGTAAAATTTTTTTT
ACTATACTGGGTGCCGACCATTGACAGGCCAGAACCCAAAAAAAGAA
Found at i:9031242 original size:110 final size:109
Alignment explanation
Indices: 9031077--9031480 Score: 579
Period size: 110 Copynumber: 3.7 Consensus size: 109
9031067 ATAATACTGA
* ** *
9031077 TATAC-AAAAAAG-AAGGAAAAAAATTTTTTGGGTGCTGGTCTGTCAATGGCCGGCACCCAGTAT
1 TATACGAAAAAAGTAA-AAAAAAAATTTTTTGGGTGCTGACCTGTCAATGGCCGGCACCCAGTAC
9031140 AGTAAATTTTTTTTTTACTTTTTTCGTGTTAGTATCAGGTATCAG
65 AGTAAATTTTTTTTTTACTTTTTTCGTGTTAGTATCAGGTATCAG
9031185 TATACGAAAAAAGTAAAAAAAAAAATTTTTTGGGTGCTGACCTGTCAATGGCCGGCACCCAGTAC
1 TATACGAAAAAAGT-AAAAAAAAAATTTTTTGGGTGCTGACCTGTCAATGGCCGGCACCCAGTAC
* * * *
9031250 AGTGAATTTTTTTTTTACTTTTTTTCTTGTCAGTATCAGGTATCAA
65 AGTAAATTTTTTTTTTAC-TTTTTTCGTGTTAGTATCAGGTATCAG
* * *
9031296 TGTACGAAAAAAGTAAAAAAAAAA-TTTTT-GATGCT-AGCCTGTCAATGGCCGGCACACAGTAC
1 TATACGAAAAAAGTAAAAAAAAAATTTTTTGGGTGCTGA-CCTGTCAATGGCCGGCACCCAGTAC
9031358 AGT-AATTTTTTTTTTACTTTTTTCGT-TTCAGTATCAGGTATCAG
65 AGTAAATTTTTTTTTTACTTTTTTCGTGTT-AGTATCAGGTATCAG
* * *
9031402 TATGCGAAAAAAGTAAAAAAAAAATTTTTTGGGTGCTGGCTTGTCAATGGCCGGCACCCAGTACA
1 TATACGAAAAAAGTAAAAAAAAAATTTTTTGGGTGCTGACCTGTCAATGGCCGGCACCCAGTACA
9031467 GTTAAATTTTTTTT
66 G-TAAATTTTTTTT
9031481 CCTTTTTTTC
Statistics
Matches: 265, Mismatches: 20, Indels: 20
0.87 0.07 0.07
Matches are distributed among these distances:
105 1 0.00
106 44 0.17
107 20 0.08
108 67 0.25
109 13 0.05
110 81 0.31
111 39 0.15
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (109 bp):
TATACGAAAAAAGTAAAAAAAAAATTTTTTGGGTGCTGACCTGTCAATGGCCGGCACCCAGTACA
GTAAATTTTTTTTTTACTTTTTTCGTGTTAGTATCAGGTATCAG
Found at i:9031360 original size:108 final size:108
Alignment explanation
Indices: 9031077--9031488 Score: 584
Period size: 108 Copynumber: 3.8 Consensus size: 108
9031067 ATAATACTGA
* * *
9031077 TATAC-AAAAAAG-AAGGAAAAAAATTTTTTGGGTGCTGGTCTGTCAATGGCCGGCACCCAGTAT
1 TATACGAAAAAAGTAA-AAAAAAAATTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTAC
* *
9031140 AGTAAATTTTTTTTTTACTTTTTTCGTGTTAGTATCAGGTATCAG
65 AGT-AATTTTTTTTTTACTTTTTTCTTGTCAGTATCAGGTATCAG
*
9031185 TATACGAAAAAAGTAAAAAAAAAAATTTTTTGGGTGCTGACCTGTCAATGGCCGGCACCCAGTAC
1 TATACGAAAAAAGT-AAAAAAAAAATTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTAC
*
9031250 AGTGAATTTTTTTTTTACTTTTTTTCTTGTCAGTATCAGGTATCAA
65 AGT-AATTTTTTTTTTAC-TTTTTTCTTGTCAGTATCAGGTATCAG
* * * *
9031296 TGTACGAAAAAAGTAAAAAAAAAA-TTTTT-GATGCTAGCCTGTCAATGGCCGGCACACAGTACA
1 TATACGAAAAAAGTAAAAAAAAAATTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACA
9031359 GTAATTTTTTTTTTACTTTTTTCGTT-TCAGTATCAGGTATCAG
66 GTAATTTTTTTTTTACTTTTTTC-TTGTCAGTATCAGGTATCAG
* *
9031402 TATGCGAAAAAAGTAAAAAAAAAATTTTTTGGGTGCTGGCTTGTCAATGGCCGGCACCCAGTACA
1 TATACGAAAAAAGTAAAAAAAAAATTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACA
* *
9031467 GTTAA-ATTTTTTTTCCTTTTTT
66 G-TAATTTTTTTTTTACTTTTTT
9031489 TCGTACTGGG
Statistics
Matches: 274, Mismatches: 22, Indels: 16
0.88 0.07 0.05
Matches are distributed among these distances:
106 45 0.16
107 21 0.08
108 83 0.30
109 15 0.05
110 71 0.26
111 39 0.14
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (108 bp):
TATACGAAAAAAGTAAAAAAAAAATTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACA
GTAATTTTTTTTTTACTTTTTTCTTGTCAGTATCAGGTATCAG
Found at i:9034164 original size:29 final size:29
Alignment explanation
Indices: 9034122--9034177 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
9034112 TTTCCTTTCG
9034122 CTGTTAAATTTAAATGCACTTACATATCA
1 CTGTTAAATTTAAATGCACTTACATATCA
9034151 CTGTTAAATTTAAATGCACTTACATAT
1 CTGTTAAATTTAAATGCACTTACATAT
9034178 TGCAGGCAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.38, C:0.16, G:0.07, T:0.39
Consensus pattern (29 bp):
CTGTTAAATTTAAATGCACTTACATATCA
Found at i:9036692 original size:34 final size:33
Alignment explanation
Indices: 9036636--9036701 Score: 96
Period size: 34 Copynumber: 2.0 Consensus size: 33
9036626 ATCACCTTTA
* * *
9036636 AACCCAACTCCTCACAGCTCACCATCAACCAGC
1 AACCCAAATCCTAACAACTCACCATCAACCAGC
9036669 AACCCATAATCCTAACAACTCACCATCAACCAG
1 AACCCA-AATCCTAACAACTCACCATCAACCAG
9036702 TAATCCCCCT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 6 0.21
34 23 0.79
ACGTcount: A:0.38, C:0.44, G:0.05, T:0.14
Consensus pattern (33 bp):
AACCCAAATCCTAACAACTCACCATCAACCAGC
Found at i:9040425 original size:42 final size:42
Alignment explanation
Indices: 9040354--9040447 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 42
9040344 TGTTAACTCA
* * **
9040354 TATGAGTTTCTGTTTAACCCTAATGGGTTTCCGTTCAGCTCT
1 TATGAGCTTCAGTTTAACCCTAACAGGTTTCCGTTCAGCTCT
* * **
9040396 TTTGAGCTTCAGTTTAACCCTTACAGGTTTTTGTTCAGCTCT
1 TATGAGCTTCAGTTTAACCCTAACAGGTTTCCGTTCAGCTCT
9040438 TATGAGCTTC
1 TATGAGCTTC
9040448 CATTCAACTC
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.17, C:0.21, G:0.18, T:0.44
Consensus pattern (42 bp):
TATGAGCTTCAGTTTAACCCTAACAGGTTTCCGTTCAGCTCT
Found at i:9040467 original size:42 final size:43
Alignment explanation
Indices: 9040369--9040498 Score: 131
Period size: 42 Copynumber: 3.1 Consensus size: 43
9040359 GTTTCTGTTT
* * * *
9040369 AACCCTAATGGGTTTCCGTTCAGCTCTTTTGAGCTT-CAGTTT
1 AACCCTTATGGGTTTCTGTTCAGCTCTTATGAGCTTCCAGTTC
** *
9040411 AACCCTTACAGGTTTTTGTTCAGCTCTTATGAGCTTCCA-TTC
1 AACCCTTATGGGTTTCTGTTCAGCTCTTATGAGCTTCCAGTTC
* * * * *
9040453 AACTCTTATGGGTTTCTGTTTAGCACTTATGTGCTT-CTGTTC
1 AACCCTTATGGGTTTCTGTTCAGCTCTTATGAGCTTCCAGTTC
9040495 AACC
1 AACC
9040499 TTCAGGCTTC
Statistics
Matches: 70, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
41 1 0.01
42 67 0.96
43 2 0.03
ACGTcount: A:0.18, C:0.24, G:0.17, T:0.42
Consensus pattern (43 bp):
AACCCTTATGGGTTTCTGTTCAGCTCTTATGAGCTTCCAGTTC
Found at i:9044440 original size:22 final size:22
Alignment explanation
Indices: 9044397--9044443 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
9044387 TATGCACAAG
*
9044397 TTTTTAAAACTTTTTATGAATTT
1 TTTTTAAAAATTTTTA-GAATTT
9044420 TTTTTAAAAATCTTTTA-AATTT
1 TTTTTAAAAAT-TTTTAGAATTT
9044442 TT
1 TT
9044444 AAATACATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 7 0.32
23 10 0.45
24 5 0.23
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (22 bp):
TTTTTAAAAATTTTTAGAATTT
Found at i:9055852 original size:19 final size:19
Alignment explanation
Indices: 9055828--9055869 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
9055818 TTCATGAATA
9055828 CACAAT-TCATATTTCAATT
1 CACAATCTCAT-TTTCAATT
*
9055847 CACAATCTCATTTTCATTT
1 CACAATCTCATTTTCAATT
9055866 CACA
1 CACA
9055870 TATAATATCA
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:0.33, C:0.26, G:0.00, T:0.40
Consensus pattern (19 bp):
CACAATCTCATTTTCAATT
Found at i:9056026 original size:40 final size:39
Alignment explanation
Indices: 9055971--9056112 Score: 128
Period size: 40 Copynumber: 3.6 Consensus size: 39
9055961 AAAACACACC
* * *
9055971 AATTTGGCATCCAGTGCCTCATCGGATAATTCGAAATAAT
1 AATTTGACACCCAGTGCCTCATCGGATAA-TCGAAGTAAT
* * * *
9056011 AATTTGACACCCAGTGTCTCATCAGCTAAACCGAAGT-A-
1 AATTTGACACCCAGTGCCTCATCGGAT-AATCGAAGTAAT
* *
9056049 AA-TTGGCACCCAGTGCCTCATCGAATTAATCTGAAGTAAT
1 AATTTGACACCCAGTGCCTCATCGGA-TAATC-GAAGTAAT
* *
9056089 AATTTGACACCCAATGTCTCATCG
1 AATTTGACACCCAGTGCCTCATCG
9056113 ATTCGAAGTC
Statistics
Matches: 80, Mismatches: 16, Indels: 11
0.75 0.15 0.10
Matches are distributed among these distances:
37 21 0.26
38 8 0.10
39 2 0.03
40 29 0.36
41 20 0.25
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.27
Consensus pattern (39 bp):
AATTTGACACCCAGTGCCTCATCGGATAATCGAAGTAAT
Found at i:9057016 original size:20 final size:20
Alignment explanation
Indices: 9056991--9057030 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
9056981 ATGGCCGTGG
9056991 CTTTCTCCTTCCTTTCTTTC
1 CTTTCTCCTTCCTTTCTTTC
* *
9057011 CTTTCTCTTTTCTTTCTTTC
1 CTTTCTCCTTCCTTTCTTTC
9057031 TTTTTATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (20 bp):
CTTTCTCCTTCCTTTCTTTC
Found at i:9057020 original size:15 final size:15
Alignment explanation
Indices: 9057003--9057035 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
9056993 TTCTCCTTCC
9057003 TTTCTTTCCTTTCTCT
1 TTTCTTT-CTTTCTCT
9057019 TTTCTTTCTTTCT-T
1 TTTCTTTCTTTCTCT
9057033 TTT
1 TTT
9057036 ATTTATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 6 0.35
16 7 0.41
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTCTTTCTTTCTCT
Found at i:9057065 original size:5 final size:5
Alignment explanation
Indices: 9057057--9057105 Score: 89
Period size: 5 Copynumber: 9.8 Consensus size: 5
9057047 ATTTTATCGT
*
9057057 TATAA TATAA TACAA TATAA TATAA TATAA TATAA TATAA TATAA TATA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATA
9057106 CTTAATAATT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 42 1.00
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (5 bp):
TATAA
Found at i:9057717 original size:16 final size:16
Alignment explanation
Indices: 9057696--9057726 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9057686 AGTAAAAATA
*
9057696 ATATAATATTTATAAT
1 ATATAACATTTATAAT
9057712 ATATAACATTTATAA
1 ATATAACATTTATAA
9057727 ATAAAGCTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
ATATAACATTTATAAT
Found at i:9065288 original size:16 final size:16
Alignment explanation
Indices: 9065267--9065302 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
9065257 TTTGGTTCGC
9065267 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
9065283 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
9065299 TGTA
1 TGTA
9065303 ATAGCAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:9065555 original size:16 final size:16
Alignment explanation
Indices: 9065518--9065559 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
9065508 TTAATCATAT
*
9065518 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
9065534 TT-AAATATATTATAA
1 TTAAAATATATTATAA
9065549 TTAAAATATAT
1 TTAAAATATAT
9065560 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:9065566 original size:14 final size:15
Alignment explanation
Indices: 9065527--9065568 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
9065517 TTTAAACATA
*
9065527 ATTATTATTAAATAT
1 ATTATAATTAAATAT
9065542 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
9065556 A-TATAATTTAATA
1 ATTATAATTAAATA
9065569 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:9065686 original size:14 final size:15
Alignment explanation
Indices: 9065637--9065688 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
9065627 GTAAAATATA
9065637 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
9065652 TATTAAATATATTAT
1 AATTAAATATATTAT
9065667 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
9065680 AATTTAATA
1 AATTAAATA
9065689 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:9065734 original size:120 final size:121
Alignment explanation
Indices: 9065516--9065813 Score: 478
Period size: 120 Copynumber: 2.5 Consensus size: 121
9065506 TTTTAATCAT
*
9065516 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* * *
9065581 ATTAATATTCTTATATGACTTTACTCAAATCATAATATATGATATTGTAAAAT-ATAA
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTAT-AAATGA-AA
9065638 A-TT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
9065701 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAATGAAA
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAATGAAA
* * **
9065757 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGCTTTAATAAAATT
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
9065814 TAAAATAATT
Statistics
Matches: 166, Mismatches: 7, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
119 7 0.04
120 154 0.93
121 4 0.02
122 1 0.01
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (121 bp):
ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAATGAAA
Found at i:9065900 original size:24 final size:25
Alignment explanation
Indices: 9065854--9065901 Score: 71
Period size: 24 Copynumber: 1.9 Consensus size: 25
9065844 TATGAATTTG
*
9065854 TATAATTTAAAATAATTATTATTACA
1 TATAATTT-AAATAATTAATATTACA
9065880 TATAATTT-AATAATTAATATTA
1 TATAATTTAAATAATTAATATTA
9065902 AATTTCATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 13 0.62
26 8 0.38
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (25 bp):
TATAATTTAAATAATTAATATTACA
Found at i:9065905 original size:92 final size:92
Alignment explanation
Indices: 9065809--9066036 Score: 234
Period size: 92 Copynumber: 2.5 Consensus size: 92
9065799 TGCTTTAATA
* * *
9065809 AAATTT-AAAATAATT-ATAACTAATAAATTATATTTTATGAATTTGTATAATTTAAAATAATTA
1 AAATTTCAAAA-AATTCATAA-TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTA
* *
9065872 TTATTACATATAATTTAATAATTAATATT
64 ATATTAAATATAATTTAATAATTAATATT
* * * * *
9065901 AAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAAT
1 AAATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
* *
9065966 ATTAAATATAATTTAAT-AGTGATA-T
66 ATTAAATATAATTTAATAATTAATATT
* * *
9065991 ATAATTTCATAAAATT-TTAATAATAAAATGT-TCTTATATGAATTTA
1 A-AATTTCAAAAAATTCATAATAAT-AAAT-TATATTATATGAATTTA
9066037 CTAAAATCAA
Statistics
Matches: 118, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
90 9 0.08
91 38 0.32
92 66 0.56
93 5 0.04
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.46
Consensus pattern (92 bp):
AAATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
ATTAAATATAATTTAATAATTAATATT
Found at i:9075171 original size:23 final size:22
Alignment explanation
Indices: 9075144--9075186 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
9075134 TTTTTTATAT
*
9075144 TAAAATATTTTTTTAATTTTAAA
1 TAAAATATTATTTT-ATTTTAAA
9075167 TAAAATATTATTTTATTTTA
1 TAAAATATTATTTTATTTTA
9075187 TTAAAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
TAAAATATTATTTTATTTTAAA
Found at i:9075193 original size:22 final size:23
Alignment explanation
Indices: 9075141--9075197 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 23
9075131 CACTTTTTTA
*
9075141 TATT-AAAATATTTTTTTAATTT
1 TATTAAAAATATTATTTTAATTT
*
9075163 TA-AATAAAATATTATTTT-ATTT
1 TATTA-AAAATATTATTTTAATTT
9075185 TATTAAAAATATT
1 TATTAAAAATATT
9075198 TAAATATATA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
22 16 0.55
23 13 0.45
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
TATTAAAAATATTATTTTAATTT
Found at i:9075526 original size:60 final size:60
Alignment explanation
Indices: 9075433--9075551 Score: 211
Period size: 60 Copynumber: 2.0 Consensus size: 60
9075423 TTTATTTTTT
* * *
9075433 TAATTATTTTAAAATTAATTTGTTATTAATTTAGGTTTATGTTATAAATTGTTGTGTTTG
1 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTATGTTATAAATTGTTGTGTTTG
9075493 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTATGTTATAAATTGTTGTGTTT
1 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTATGTTATAAATTGTTGTGTTT
9075552 AGTTTAGTAT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (60 bp):
TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTATGTTATAAATTGTTGTGTTTG
Found at i:9075627 original size:84 final size:80
Alignment explanation
Indices: 9075534--9075709 Score: 206
Period size: 72 Copynumber: 2.2 Consensus size: 80
9075524 TAGGATTATG
* *
9075534 TTATAAATTGTTGTGTTTAGTTTAGTATTTGGTGAGTTTTTAGTAATGTAAAATTATTTTGTTAG
1 TTATAAATTGTTGTGTTT-G--T-GT-TTT-GTGAGTTTTTAGTAATATAAAATTATTTTGTTAA
* *
9075599 ATA-TTTT-GTTAGTAATTTA
60 ATATTTTTAGTAAATAATTTA
9075618 TTATAAA----T-TG-TTGTGTTTTGTGAGTTTTTAGTAATATAAAATTATTTTGTTAAATATTT
1 TTATAAATTGTTGTGTTTGTGTTTTGTGAGTTTTTAGTAATATAAAATTATTTTGTTAAATATTT
9075677 TTAGTAAATAATTTA
66 TTAGTAAATAATTTA
9075692 TTATAAATTGTTGTGTTT
1 TTATAAATTGTTGTGTTT
9075710 TGTGAGTTTT
Statistics
Matches: 80, Mismatches: 4, Indels: 20
0.77 0.04 0.19
Matches are distributed among these distances:
72 35 0.44
73 7 0.09
74 19 0.24
75 1 0.01
77 1 0.01
78 3 0.04
79 4 0.05
80 3 0.04
84 7 0.09
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.55
Consensus pattern (80 bp):
TTATAAATTGTTGTGTTTGTGTTTTGTGAGTTTTTAGTAATATAAAATTATTTTGTTAAATATTT
TTAGTAAATAATTTA
Found at i:9075646 original size:72 final size:74
Alignment explanation
Indices: 9075565--9075742 Score: 285
Period size: 74 Copynumber: 2.5 Consensus size: 74
9075555 TTAGTATTTG
* * *
9075565 GTGAGTTTTTAGTAATGTAAAATTATTTTGTTAGATA-TTTT-GTTAGTAATTTATTATAAATTG
1 GTGAGTTTTTAGTAATGTAAAATTATTTTGTTAAATATTTTTAGTAAATAATTTATTATAAATTG
9075628 TTGTGTTTT
66 TTGTGTTTT
*
9075637 GTGAGTTTTTAGTAATATAAAATTATTTTGTTAAATATTTTTAGTAAATAATTTATTATAAATTG
1 GTGAGTTTTTAGTAATGTAAAATTATTTTGTTAAATATTTTTAGTAAATAATTTATTATAAATTG
9075702 TTGTGTTTT
66 TTGTGTTTT
9075711 GTGAGTTTTTAGTAATGT-AAATT-TTTT-TTAAA
1 GTGAGTTTTTAGTAATGTAAAATTATTTTGTTAAA
9075743 AAAAAATTTA
Statistics
Matches: 99, Mismatches: 5, Indels: 5
0.91 0.05 0.05
Matches are distributed among these distances:
71 5 0.05
72 39 0.39
73 9 0.09
74 46 0.46
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (74 bp):
GTGAGTTTTTAGTAATGTAAAATTATTTTGTTAAATATTTTTAGTAAATAATTTATTATAAATTG
TTGTGTTTT
Found at i:9075806 original size:27 final size:27
Alignment explanation
Indices: 9075768--9075845 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 27
9075758 ATTTTGGTCA
*
9075768 ACCAGTCGCGCCTGTCAGATAGGCT-T
1 ACCAGTCGCGCCTATCAGATAGGCTCT
* *
9075794 CACCAGTTGCGCCTATCAGAAAGGCTCT
1 -ACCAGTCGCGCCTATCAGATAGGCTCT
* *
9075822 ACCAGTCGCGTCTACCAGATAGGC
1 ACCAGTCGCGCCTATCAGATAGGC
9075846 GTCATCTACC
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
27 42 0.98
28 1 0.02
ACGTcount: A:0.23, C:0.32, G:0.24, T:0.21
Consensus pattern (27 bp):
ACCAGTCGCGCCTATCAGATAGGCTCT
Found at i:9075969 original size:20 final size:21
Alignment explanation
Indices: 9075946--9075991 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
9075936 GGCCACCAAT
9075946 AAAAGAATA-TTTAA-AAAAA
1 AAAAGAATATTTTAATAAAAA
*
9075965 CAAAAAAATATTTTAATAAAAA
1 -AAAAGAATATTTTAATAAAAA
9075987 AAAAG
1 AAAAG
9075992 TGGTTGCCCC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 8 0.36
21 9 0.41
22 5 0.23
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.22
Consensus pattern (21 bp):
AAAAGAATATTTTAATAAAAA
Found at i:9077880 original size:40 final size:40
Alignment explanation
Indices: 9077825--9077905 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
9077815 TATACAAGAA
9077825 GTTTCCAGTAATGCCTATAACTATGGGTAAATGTAGAGTT
1 GTTTCCAGTAATGCCTATAACTATGGGTAAATGTAGAGTT
9077865 GTTTCCAGTAATGCCTATAACTATGGGTAAATGTAGAGTT
1 GTTTCCAGTAATGCCTATAACTATGGGTAAATGTAGAGTT
9077905 G
1 G
9077906 CCTAAGTCTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.30, C:0.12, G:0.23, T:0.35
Consensus pattern (40 bp):
GTTTCCAGTAATGCCTATAACTATGGGTAAATGTAGAGTT
Found at i:9086796 original size:16 final size:16
Alignment explanation
Indices: 9086775--9086805 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
9086765 AGACACTGTC
9086775 AAAACACAAAAAAAAG
1 AAAACACAAAAAAAAG
9086791 AAAACACAAAAAAAA
1 AAAACACAAAAAAAA
9086806 AATCCCCCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.84, C:0.13, G:0.03, T:0.00
Consensus pattern (16 bp):
AAAACACAAAAAAAAG
Found at i:9087114 original size:18 final size:19
Alignment explanation
Indices: 9087091--9087129 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
9087081 TCGGCAAGGA
9087091 TTTTTTTCTCTCTTCT-TT
1 TTTTTTTCTCTCTTCTATT
*
9087109 TTTTTTTCTCTTTTCTATT
1 TTTTTTTCTCTCTTCTATT
9087128 TT
1 TT
9087130 CTGTTGGGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTTTTCTCTCTTCTATT
Found at i:9091900 original size:21 final size:22
Alignment explanation
Indices: 9091871--9091917 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
9091861 CAGAAGGAGT
*
9091871 GAGTAGTACTTCACAGCAGGTG
1 GAGTAGTACTCCACAGCAGGTG
*
9091893 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCACAGCAGGTG
9091914 GAGT
1 GAGT
9091918 TTGAGCAGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.23, C:0.19, G:0.36, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCACAGCAGGTG
Found at i:9101851 original size:23 final size:23
Alignment explanation
Indices: 9101808--9101851 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
9101798 AATATTATAC
*
9101808 ATATTAAATGAATAAACTAAAAA
1 ATATTAAATGAATAAAATAAAAA
9101831 ATATTAAAT-AATAAAAATAAA
1 ATATTAAATGAAT-AAAATAAA
9101852 TGTGAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.27
Consensus pattern (23 bp):
ATATTAAATGAATAAAATAAAAA
Found at i:9104380 original size:3 final size:3
Alignment explanation
Indices: 9104372--9104411 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
9104362 GTATACATGT
9104372 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
9104412 AAGTGCGTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:9104550 original size:32 final size:32
Alignment explanation
Indices: 9104492--9104553 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
9104482 AAAAAACATT
**
9104492 TATATGCATGTATATGTATGAGTTATAAAATA
1 TATATGCATGTATATACATGAGTTATAAAATA
9104524 TATATGCATGTATATACATGTA-TTATAAAA
1 TATATGCATGTATATACATG-AGTTATAAAA
9104554 ACGTATGTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
32 26 0.96
33 1 0.04
ACGTcount: A:0.42, C:0.05, G:0.13, T:0.40
Consensus pattern (32 bp):
TATATGCATGTATATACATGAGTTATAAAATA
Found at i:9104612 original size:26 final size:26
Alignment explanation
Indices: 9104561--9104612 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
9104551 AAAACGTATG
* * *
9104561 TATATAAGTGTACACATATATGTATA
1 TATATAAGTATACAAATATATATATA
9104587 TATATAAAGTATACAAATA-ATATATA
1 TATAT-AAGTATACAAATATATATATA
9104613 AGTATGTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 11 0.50
27 11 0.50
ACGTcount: A:0.50, C:0.06, G:0.08, T:0.37
Consensus pattern (26 bp):
TATATAAGTATACAAATATATATATA
Found at i:9104692 original size:26 final size:27
Alignment explanation
Indices: 9104640--9104704 Score: 71
Period size: 26 Copynumber: 2.4 Consensus size: 27
9104630 AGAAATAAAT
* *
9104640 TAAAAAAATATGTATGTAAGTATATATA
1 TAAACAAA-ATGTATGTAAGTACATATA
9104668 T-AACAAAATGTATGTATA-TACATATA
1 TAAACAAAATGTATGTA-AGTACATATA
9104694 TACAACAAAAT
1 TA-AACAAAAT
9104705 TTGGAATTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
26 17 0.53
27 6 0.19
28 9 0.28
ACGTcount: A:0.54, C:0.06, G:0.08, T:0.32
Consensus pattern (27 bp):
TAAACAAAATGTATGTAAGTACATATA
Found at i:9106261 original size:20 final size:20
Alignment explanation
Indices: 9106236--9106277 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
9106226 GGCTCTATAT
9106236 AAATAACTTA-AAGTTAATTA
1 AAATAACTTAGAA-TTAATTA
9106256 AAATAACTTAGAATTAATTA
1 AAATAACTTAGAATTAATTA
9106276 AA
1 AA
9106278 TTTTTATGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (20 bp):
AAATAACTTAGAATTAATTA
Found at i:9106800 original size:28 final size:29
Alignment explanation
Indices: 9106732--9106806 Score: 77
Period size: 28 Copynumber: 2.7 Consensus size: 29
9106722 TTAGGGTTCG
*
9106732 AGGTTCAA-GGTTTA-GGTTTAAGGTTTA
1 AGGTTCAAGGGTTTAGGGTTTAACGTTTA
* *
9106759 AGGATT-TAGAGTTTAGGGTTT-ACGTTTA
1 AGG-TTCAAGGGTTTAGGGTTTAACGTTTA
*
9106787 AGGTTCAAGGGTTTGGGGTT
1 AGGTTCAAGGGTTTAGGGTT
9106807 ATGAGTTACG
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
27 6 0.16
28 27 0.71
29 5 0.13
ACGTcount: A:0.23, C:0.04, G:0.33, T:0.40
Consensus pattern (29 bp):
AGGTTCAAGGGTTTAGGGTTTAACGTTTA
Found at i:9125012 original size:35 final size:37
Alignment explanation
Indices: 9124964--9125033 Score: 99
Period size: 35 Copynumber: 1.9 Consensus size: 37
9124954 TCCCCACTAT
* * *
9124964 TTTAAATTCAAAGCTATTATTATAA-ATTT-TTTTGC
1 TTTAAAATAAAAGCTATTACTATAATATTTATTTTGC
9124999 TTTAAAATAAAAGCTATTACTATAATATTTATTTT
1 TTTAAAATAAAAGCTATTACTATAATATTTATTTT
9125034 TAGTAATCTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
35 22 0.73
36 4 0.13
37 4 0.13
ACGTcount: A:0.39, C:0.07, G:0.04, T:0.50
Consensus pattern (37 bp):
TTTAAAATAAAAGCTATTACTATAATATTTATTTTGC
Found at i:9125260 original size:29 final size:30
Alignment explanation
Indices: 9125217--9125281 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 30
9125207 AATTAGTAAA
9125217 ATAAAATTACAATTTAACCCTTT-AAAATT
1 ATAAAATTACAATTTAACCCTTTAAAAATT
* * **
9125246 ATAAAATTTCGATTTAATTCTTTAAAAATT
1 ATAAAATTACAATTTAACCCTTTAAAAATT
9125276 ATAAAA
1 ATAAAA
9125282 ATATAGACTA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 19 0.61
30 12 0.39
ACGTcount: A:0.49, C:0.09, G:0.02, T:0.40
Consensus pattern (30 bp):
ATAAAATTACAATTTAACCCTTTAAAAATT
Found at i:9125817 original size:20 final size:19
Alignment explanation
Indices: 9125792--9125836 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 19
9125782 GTTTTAAAGT
9125792 TTTTTAATTTTTAATTCATC
1 TTTTTAA-TTTTAATTCATC
9125812 TTTTTAA--TTAATTCATC
1 TTTTTAATTTTAATTCATC
9125829 -TTTTAATT
1 TTTTTAATT
9125837 ATAAAATCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
16 6 0.26
17 10 0.43
20 7 0.30
ACGTcount: A:0.27, C:0.09, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTTTAATTTTAATTCATC
Found at i:9125834 original size:16 final size:17
Alignment explanation
Indices: 9125802--9125837 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
9125792 TTTTTAATTT
9125802 TTAATTCATCTTTTTAA
1 TTAATTCATCTTTTTAA
9125819 TTAATTCATC-TTTTAA
1 TTAATTCATCTTTTTAA
9125835 TTA
1 TTA
9125838 TAAAATCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.31, C:0.11, G:0.00, T:0.58
Consensus pattern (17 bp):
TTAATTCATCTTTTTAA
Found at i:9126199 original size:110 final size:110
Alignment explanation
Indices: 9126079--9126291 Score: 417
Period size: 110 Copynumber: 1.9 Consensus size: 110
9126069 CACCATACCC
*
9126079 ATAGTGTACGTGGAGAAAATAAATATTTGACATATAAATATTATATATAAATAAAATATATTTAA
1 ATAGTATACGTGGAGAAAATAAATATTTGACATATAAATATTATATATAAATAAAATATATTTAA
9126144 CATAATGATAAATATCAATTTTATCAAAAATATATATTATATATA
66 CATAATGATAAATATCAATTTTATCAAAAATATATATTATATATA
9126189 ATAGTATACGTGGAGAAAATAAATATTTGACATATAAATATTATATATAAATAAAATATATTTAA
1 ATAGTATACGTGGAGAAAATAAATATTTGACATATAAATATTATATATAAATAAAATATATTTAA
9126254 CATAATGATAAATATCAATTTTATCAAAAATATATATT
66 CATAATGATAAATATCAATTTTATCAAAAATATATATT
9126292 TTTATTATAT
Statistics
Matches: 102, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
110 102 1.00
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.37
Consensus pattern (110 bp):
ATAGTATACGTGGAGAAAATAAATATTTGACATATAAATATTATATATAAATAAAATATATTTAA
CATAATGATAAATATCAATTTTATCAAAAATATATATTATATATA
Found at i:9126359 original size:13 final size:13
Alignment explanation
Indices: 9126341--9126365 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9126331 TAAAAGAGTT
9126341 ATTAATTAAAAAG
1 ATTAATTAAAAAG
9126354 ATTAATTAAAAA
1 ATTAATTAAAAA
9126366 TAAAATAACT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (13 bp):
ATTAATTAAAAAG
Found at i:9132109 original size:21 final size:21
Alignment explanation
Indices: 9132070--9132109 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
9132060 GGCTTCAAAG
* * *
9132070 ATTTTGGTTTTTTTTTTTTTA
1 ATTTTGCTTTTCTTCTTTTTA
9132091 ATTTTGCTTTTCTTCTTTT
1 ATTTTGCTTTTCTTCTTTT
9132110 GTGCTTTATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.07, C:0.07, G:0.07, T:0.78
Consensus pattern (21 bp):
ATTTTGCTTTTCTTCTTTTTA
Found at i:9139664 original size:17 final size:17
Alignment explanation
Indices: 9139644--9139680 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
9139634 AATTTTTGAA
*
9139644 TTAGTGAATTCTGTGAT
1 TTAGTGAATTCTATGAT
*
9139661 TTAGTGAATTTTATGAT
1 TTAGTGAATTCTATGAT
9139678 TTA
1 TTA
9139681 AAAAGAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.27, C:0.03, G:0.19, T:0.51
Consensus pattern (17 bp):
TTAGTGAATTCTATGAT
Found at i:9140972 original size:46 final size:46
Alignment explanation
Indices: 9140905--9140998 Score: 163
Period size: 46 Copynumber: 2.0 Consensus size: 46
9140895 CCATGGAAAA
9140905 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAA-GAAAGCCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGGAAA-CCATACTGAG
*
9140951 TTGTGAAAAGTAGGTATGGTGTTTTAGTGAAGGAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGGAAACCATACTGAG
9140997 TT
1 TT
9140999 ATAACATTGT
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
46 42 0.91
47 4 0.09
ACGTcount: A:0.32, C:0.07, G:0.30, T:0.31
Consensus pattern (46 bp):
TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGGAAACCATACTGAG
Found at i:9150912 original size:7 final size:7
Alignment explanation
Indices: 9150900--9150926 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
9150890 AATCTTAGTA
9150900 TAACATT
1 TAACATT
9150907 TAACATT
1 TAACATT
9150914 TAACATT
1 TAACATT
9150921 TAACAT
1 TAACAT
9150927 GTTATGTAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (7 bp):
TAACATT
Found at i:9153571 original size:16 final size:17
Alignment explanation
Indices: 9153550--9153582 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
9153540 AATTTTAAAA
*
9153550 AATTCTATTAT-ATATC
1 AATTCTAATATGATATC
9153566 AATTCTAATATGATATC
1 AATTCTAATATGATATC
9153583 CTTAATAGTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.39, C:0.12, G:0.03, T:0.45
Consensus pattern (17 bp):
AATTCTAATATGATATC
Found at i:9153682 original size:21 final size:21
Alignment explanation
Indices: 9153658--9153710 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
9153648 CATTGTTTCT
* *
9153658 AATCTCACTGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
9153679 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
9153700 AATCTCACCGC
1 AATCTCACCGC
9153711 CACCGCTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.30, C:0.36, G:0.09, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:9171795 original size:36 final size:35
Alignment explanation
Indices: 9171729--9171799 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 35
9171719 GCATCCCACA
* *
9171729 AAGACTCAATTACTGGATTCTTTAACTTCCCAAGT
1 AAGACTCAATTACCGGATTCTTTAAATTCCCAAGT
*
9171764 AAGACTCAACTTACCGGGTTCTTTAAATTCCCAAGT
1 AAGACTCAA-TTACCGGATTCTTTAAATTCCCAAGT
9171800 TTTTTTTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 9 0.28
36 23 0.72
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (35 bp):
AAGACTCAATTACCGGATTCTTTAAATTCCCAAGT
Found at i:9177939 original size:14 final size:14
Alignment explanation
Indices: 9177920--9177949 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
9177910 AGTATTTACT
9177920 ATCCACTAATGTGC
1 ATCCACTAATGTGC
9177934 ATCCACTAATGTGC
1 ATCCACTAATGTGC
9177948 AT
1 AT
9177950 ATCATGTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.30
Consensus pattern (14 bp):
ATCCACTAATGTGC
Found at i:9182041 original size:22 final size:22
Alignment explanation
Indices: 9182013--9182075 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 22
9182003 TATTCGATTA
*
9182013 TTAGCACAGTAGTGCTCTCCGT
1 TTAGCACATTAGTGCTCTCCGT
* * *
9182035 TTAGCACATTTGTTCTCTCTGT
1 TTAGCACATTAGTGCTCTCCGT
* *
9182057 ATAGCACTTTAGTGCTCTC
1 TTAGCACATTAGTGCTCTC
9182076 TGATTATTAG
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.17, C:0.25, G:0.17, T:0.40
Consensus pattern (22 bp):
TTAGCACATTAGTGCTCTCCGT
Found at i:9183446 original size:21 final size:22
Alignment explanation
Indices: 9183408--9183448 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
9183398 CATGGTGTGA
*
9183408 TTTTAAAAAATAGTTTAATTTT
1 TTTTAAAAAATAGATTAATTTT
*
9183430 TTTTTAAAAATA-ATTAATT
1 TTTTAAAAAATAGATTAATT
9183449 GCTAACGTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (22 bp):
TTTTAAAAAATAGATTAATTTT
Found at i:9184062 original size:27 final size:27
Alignment explanation
Indices: 9184032--9184125 Score: 107
Period size: 27 Copynumber: 3.3 Consensus size: 27
9184022 AAAAAGATTA
* *
9184032 AAATATTTTTTATAATTTTTATTTTCT
1 AAATAATTTTTATAATTTTTATTTTTT
* *
9184059 AAATAATTTTAATGATTTTTATTTTTT
1 AAATAATTTTTATAATTTTTATTTTTT
9184086 AAAAAATAATTTTTATATATTTTTATTTTTT
1 ---AAATAATTTTTATA-ATTTTTATTTTTT
*
9184117 AAAAAATTT
1 AAATAATTT
9184126 AAAAATAATT
Statistics
Matches: 56, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
27 23 0.41
28 8 0.14
30 12 0.21
31 13 0.23
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.61
Consensus pattern (27 bp):
AAATAATTTTTATAATTTTTATTTTTT
Found at i:9184095 original size:30 final size:31
Alignment explanation
Indices: 9184031--9184123 Score: 117
Period size: 31 Copynumber: 3.2 Consensus size: 31
9184021 TAAAAAGATT
* *
9184031 AAAATATTTTTTATA-ATTTTTATTTTCT--
1 AAAATAATTTTTATATATTTTTATTTTTTAA
9184059 -AAATAA-TTTTA-ATGATTTTTATTTTTTAA
1 AAAATAATTTTTATAT-ATTTTTATTTTTTAA
9184088 AAAATAATTTTTATATATTTTTATTTTTTAA
1 AAAATAATTTTTATATATTTTTATTTTTTAA
9184119 AAAAT
1 AAAAT
9184124 TTAAAAATAA
Statistics
Matches: 56, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
25 1 0.02
26 5 0.09
27 17 0.30
30 6 0.11
31 25 0.45
32 2 0.04
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (31 bp):
AAAATAATTTTTATATATTTTTATTTTTTAA
Found at i:9192096 original size:25 final size:25
Alignment explanation
Indices: 9192068--9192148 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 25
9192058 AAGCTCTTCC
* * *
9192068 GAGCCATATAACGGGAAGTTCATAT
1 GAGCCAAATAACGGGAAGCTCATAA
* *
9192093 GAGCCAAATATCGAGAAGCTCATAA
1 GAGCCAAATAACGGGAAGCTCATAA
* * * *
9192118 GAGCTAAATAACTGGAAGCTCGTGA
1 GAGCCAAATAACGGGAAGCTCATAA
9192143 GAGCCA
1 GAGCCA
9192149 TAGTGTGTCC
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.19
Consensus pattern (25 bp):
GAGCCAAATAACGGGAAGCTCATAA
Found at i:9193875 original size:14 final size:15
Alignment explanation
Indices: 9193850--9193880 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
9193840 AACCAAGATC
9193850 ATTTAGCATATATAT
1 ATTTAGCATATATAT
9193865 ATTTA-CATATATAT
1 ATTTAGCATATATAT
9193879 AT
1 AT
9193881 ATATGACTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.42, C:0.06, G:0.03, T:0.48
Consensus pattern (15 bp):
ATTTAGCATATATAT
Found at i:9200631 original size:25 final size:24
Alignment explanation
Indices: 9200601--9200692 Score: 87
Period size: 25 Copynumber: 3.7 Consensus size: 24
9200591 TGTAATCAAT
9200601 AAGCTCTTTCGAGCCATGTAACGGG
1 AAGCTCTTTCGAGCCAT-TAACGGG
*
9200626 AAGCTCATGT-GAGCCATATAACGGG
1 AAGCTC-TTTCGAGCCAT-TAACGGG
* * *
9200651 AAGCTCTTGCGAGCCAATTATCAGG
1 AAGCTCTTTCGAGCC-ATTAACGGG
* *
9200676 AAGCTCATACGAGCCAT
1 AAGCTCTTTCGAGCCAT
9200693 AAATGAGAAG
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
24 3 0.05
25 49 0.88
26 4 0.07
ACGTcount: A:0.29, C:0.24, G:0.25, T:0.22
Consensus pattern (24 bp):
AAGCTCTTTCGAGCCATTAACGGG
Found at i:9200763 original size:49 final size:50
Alignment explanation
Indices: 9200624--9200828 Score: 141
Period size: 49 Copynumber: 4.2 Consensus size: 50
9200614 CCATGTAACG
** * ** *
9200624 GGAAGCTCATGTGAGCCATATAA-CGGGAAGCTCTTGCGAGCCAATTATCA
1 GGAAGCTCATAAGAGCCATA-AATCGGGAAGCTCATGAAAGCCAAATATCA
* * * *
9200674 GGAAGCTCATACGAGCCATAAAT-GAGAAGCTCAAGAAAGCCAAATATCG
1 GGAAGCTCATAAGAGCCATAAATCGGGAAGCTCATGAAAGCCAAATATCA
** * *
9200723 GGAAGCTCATAAGAGCTGT-AATCGGGAAGCTCATGTAAGCC-AATATTA
1 GGAAGCTCATAAGAGCCATAAATCGGGAAGCTCATGAAAGCCAAATATCA
* * * * * * * * *
9200771 AGAAGCTCGTGAGAGACATGTAAT-GGGATGCTCATAAAAGCTAAATAACA
1 GGAAGCTCATAAGAGCCAT-AAATCGGGAAGCTCATGAAAGCCAAATATCA
*
9200821 GGACGCTC
1 GGAAGCTC
9200829 TTGCGAGTTG
Statistics
Matches: 119, Mismatches: 31, Indels: 10
0.74 0.19 0.06
Matches are distributed among these distances:
48 21 0.18
49 66 0.55
50 32 0.27
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.20
Consensus pattern (50 bp):
GGAAGCTCATAAGAGCCATAAATCGGGAAGCTCATGAAAGCCAAATATCA
Found at i:9205287 original size:13 final size:13
Alignment explanation
Indices: 9205269--9205293 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9205259 GGCATAATTT
9205269 TTAAAAATTAAAA
1 TTAAAAATTAAAA
9205282 TTAAAAATTAAA
1 TTAAAAATTAAA
9205294 TAAAAAAAGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
TTAAAAATTAAAA
Found at i:9221894 original size:9 final size:9
Alignment explanation
Indices: 9221880--9221909 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
9221870 AAATATATTA
9221880 GAAACTGAT
1 GAAACTGAT
9221889 GAAACTGAT
1 GAAACTGAT
9221898 GAAACTGAT
1 GAAACTGAT
9221907 GAA
1 GAA
9221910 CCATTTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.47, C:0.10, G:0.23, T:0.20
Consensus pattern (9 bp):
GAAACTGAT
Found at i:9228591 original size:12 final size:13
Alignment explanation
Indices: 9228576--9228604 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
9228566 TTAGTCCTAT
9228576 TATTATTATTA-C
1 TATTATTATTACC
9228588 TATTATTATTACC
1 TATTATTATTACC
9228601 TATT
1 TATT
9228605 TATTTATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.31, C:0.10, G:0.00, T:0.59
Consensus pattern (13 bp):
TATTATTATTACC
Found at i:9239993 original size:40 final size:40
Alignment explanation
Indices: 9239957--9240035 Score: 124
Period size: 39 Copynumber: 2.0 Consensus size: 40
9239947 CACTAAAGAT
*
9239957 TGAGCATTAGTGGCGTTTTT-AAAAAAATGCCGCTAAAAA
1 TGAGCATTAGCGGCGTTTTTCAAAAAAATGCCGCTAAAAA
* *
9239996 TGAGCATTAGCGGCGTTTTTCAAAAAAACGCCGCAAAAAA
1 TGAGCATTAGCGGCGTTTTTCAAAAAAATGCCGCTAAAAA
9240036 CCTTAGCCCA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 19 0.53
40 17 0.47
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.24
Consensus pattern (40 bp):
TGAGCATTAGCGGCGTTTTTCAAAAAAATGCCGCTAAAAA
Found at i:9240011 original size:39 final size:39
Alignment explanation
Indices: 9239882--9240035 Score: 139
Period size: 40 Copynumber: 3.8 Consensus size: 39
9239872 AGCGGCACTT
** * *
9239882 TTAGCGGCGTTTGGACAAAAAACGCCGGTAAAAATCAAGCA
1 TTAGCGGCGTTTTTA-AAAAAACGCCGCTAAAAAT-GAGCA
* ** * * *
9239923 TTAGCGGCGCTTTCT-GGAAATCGCCACTAAAGATTGAGCA
1 TTAGCGGCG-TTTTTAAAAAAACGCCGCTAAA-AATGAGCA
* *
9239963 TTAGTGGCGTTTTTAAAAAAATGCCGCTAAAAATGAGCA
1 TTAGCGGCGTTTTTAAAAAAACGCCGCTAAAAATGAGCA
*
9240002 TTAGCGGCGTTTTTCAAAAAAACGCCGCAAAAAA
1 TTAGCGGCGTTTTT-AAAAAAACGCCGCTAAAAA
9240036 CCTTAGCCCA
Statistics
Matches: 89, Mismatches: 20, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
39 24 0.27
40 51 0.57
41 11 0.12
42 3 0.03
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (39 bp):
TTAGCGGCGTTTTTAAAAAAACGCCGCTAAAAATGAGCA
Found at i:9240136 original size:41 final size:40
Alignment explanation
Indices: 9240071--9240186 Score: 162
Period size: 41 Copynumber: 2.8 Consensus size: 40
9240061 AACATTTCGT
*
9240071 GGCTTTAGCGGCGTTTTTCAAAAAGCGCCGCTAATGCCT-GG
1 GGCTTTAGCGGCGTTTTT-GAAAAGCGCCGCTAATG-CTAGG
* *
9240112 GTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGGTAGG
1 GGCTTTAGCGGCGTTTTT-GAAAAGCGCCGCTAATGCTAGG
9240153 GGCTTTAGCGGCGTTTTTGATAAAGCGCCGCTAA
1 GGCTTTAGCGGCGTTTTTGA-AAAGCGCCGCTAA
9240187 AAACATTTTA
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
40 3 0.04
41 65 0.96
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.28
Consensus pattern (40 bp):
GGCTTTAGCGGCGTTTTTGAAAAGCGCCGCTAATGCTAGG
Found at i:9240428 original size:22 final size:22
Alignment explanation
Indices: 9240403--9240477 Score: 75
Period size: 21 Copynumber: 3.5 Consensus size: 22
9240393 GAGTTACTGT
9240403 TTTAAGGTTTATGGAGTATGGA
1 TTTAAGGTTTATGGAGTATGGA
* * *
9240425 TTTAAGGATTATGGATTAGGGA
1 TTTAAGGTTTATGGAGTATGGA
* *
9240447 -TTATGGTTTAAGG-GT-TGAGA
1 TTTAAGGTTTATGGAGTATG-GA
9240467 TTTAAGGTTTA
1 TTTAAGGTTTA
9240478 GGGGTTAGTG
Statistics
Matches: 42, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
19 1 0.02
20 3 0.07
21 19 0.45
22 19 0.45
ACGTcount: A:0.28, C:0.00, G:0.31, T:0.41
Consensus pattern (22 bp):
TTTAAGGTTTATGGAGTATGGA
Found at i:9240449 original size:14 final size:15
Alignment explanation
Indices: 9240419--9240459 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
9240409 GTTTATGGAG
9240419 TATGGATTTAAGGAT
1 TATGGATTTAAGGAT
*
9240434 TATGGA-TTAGGGAT
1 TATGGATTTAAGGAT
9240448 TATGG-TTTAAGG
1 TATGGATTTAAGG
9240460 GTTGAGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 17 0.74
15 6 0.26
ACGTcount: A:0.29, C:0.00, G:0.32, T:0.39
Consensus pattern (15 bp):
TATGGATTTAAGGAT
Found at i:9240498 original size:22 final size:22
Alignment explanation
Indices: 9240472--9240534 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
9240462 TGAGATTTAA
*
9240472 GGTTTAGGGGTT-AGTGGTTAGG
1 GGTTTAGGGGTTAAG-AGTTAGG
*
9240494 GGTTTGGGGGTTAAGAGTTAGG
1 GGTTTAGGGGTTAAGAGTTAGG
* * *
9240516 GATTTAGGGTTTATGAGTT
1 GGTTTAGGGGTTAAGAGTT
9240535 CATGGGTCAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 32 0.94
23 2 0.06
ACGTcount: A:0.17, C:0.00, G:0.44, T:0.38
Consensus pattern (22 bp):
GGTTTAGGGGTTAAGAGTTAGG
Found at i:9240585 original size:11 final size:11
Alignment explanation
Indices: 9240565--9240606 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
9240555 TGGGTTTAGA
9240565 TTAA-TTATTT
1 TTAATTTATTT
9240575 TTAATTTATTT
1 TTAATTTATTT
9240586 TTAAATATT-TTT
1 TT-AAT-TTATTT
9240598 TTAATTTAT
1 TTAATTTAT
9240607 ATATTAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
10 6 0.21
11 12 0.43
12 8 0.29
13 2 0.07
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
TTAATTTATTT
Found at i:9240602 original size:23 final size:24
Alignment explanation
Indices: 9240572--9240616 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
9240562 AGATTAATTA
*
9240572 TTTTTAATTTAT-TTTTAAATATT
1 TTTTTAATTTATATATTAAATATT
9240595 TTTTTAATTTATATATTAAATA
1 TTTTTAATTTATATATTAAATA
9240617 ATTTCATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (24 bp):
TTTTTAATTTATATATTAAATATT
Found at i:9240838 original size:21 final size:21
Alignment explanation
Indices: 9240814--9240854 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
9240804 GATTTAAGGT
9240814 TTAGGGATTAAGAGTTAGGGG
1 TTAGGGATTAAGAGTTAGGGG
*
9240835 TTAGGGGTTAAGAGTTAGGG
1 TTAGGGATTAAGAGTTAGGG
9240855 ATTTAGGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.44, T:0.29
Consensus pattern (21 bp):
TTAGGGATTAAGAGTTAGGGG
Found at i:9240863 original size:21 final size:20
Alignment explanation
Indices: 9240811--9240864 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 20
9240801 TAGGATTTAA
9240811 GGTTTAGGGATTAAGAGTTAG
1 GGTTTAGGG-TTAAGAGTTAG
*
9240832 GGGTTAGGGGTTAAGAGTTAG
1 GGTTTA-GGGTTAAGAGTTAG
9240853 GGATTTAGGGTT
1 GG-TTTAGGGTT
9240865 TCAAGGGCCG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 23 0.79
22 6 0.21
ACGTcount: A:0.24, C:0.00, G:0.43, T:0.33
Consensus pattern (20 bp):
GGTTTAGGGTTAAGAGTTAG
Found at i:9245497 original size:42 final size:43
Alignment explanation
Indices: 9245415--9245659 Score: 307
Period size: 43 Copynumber: 5.7 Consensus size: 43
9245405 ATGGTACTTT
* * * * *
9245415 TAGCGGCGTTTG-CGAAAAAGACGTCGCTAAAAGTCATGATCTA
1 TAGCGGCGTTTGTGGGAAAAG-CGCCGCTAAAGGTCCTGATCTA
* ** *
9245458 TAGCGGCGTTTAT-AAAAAAGCGCCGCTAAAGGTCTTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTA
* *
9245500 TAGCGGCGTTTGT-GTAAAAGTGCCGCTAAAGGTCCTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTA
* * *
9245542 TAGCGGCGTTTGTGGGAAAAGTGTCGCTAAAGGTTCTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTA
* * *
9245585 TAGCGGCGTTTGTGGGAAAAGCGCCGTTAAAGGTCCTGGTCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTA
9245628 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAG
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAG
9245660 TTAGCGACAC
Statistics
Matches: 180, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
42 69 0.38
43 111 0.62
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTA
Found at i:9245647 original size:86 final size:85
Alignment explanation
Indices: 9245415--9245659 Score: 314
Period size: 85 Copynumber: 2.9 Consensus size: 85
9245405 ATGGTACTTT
* * * * * * **
9245415 TAGCGGCGTTTGCGAAAAAGACGTCGCTAAAAGTCATGATCTATAGCGGCGTTTAT-AAAAAAGC
1 TAGCGGCGTTTGTGGAAAAG-CGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAAAAGC
9245479 GCCGCTAAAGGTCTTGATCTA
65 GCCGCTAAAGGTCTTGATCTA
* * *
9245500 TAGCGGCGTTTGTGTAAAAGTGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAAAAGTG
1 TAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAAAAGCG
*
9245565 TCGCTAAAGGT-TCTGATCTA
66 CCGCTAAAGGTCT-TGATCTA
* * *
9245585 TAGCGGCGTTTGTGGGAAAAGCGCCGTTAAAGGTCCTGGTCTTTAGCGGCGTTTGTGGGAAAAGC
1 TAGCGGCGTTTGT-GGAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAAAAGC
9245650 GCCGCTAAAG
65 GCCGCTAAAG
9245660 TTAGCGACAC
Statistics
Matches: 139, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
84 31 0.22
85 54 0.39
86 54 0.39
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (85 bp):
TAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAAAAGCG
CCGCTAAAGGTCTTGATCTA
Found at i:9245759 original size:22 final size:22
Alignment explanation
Indices: 9245731--9245773 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
9245721 CAGCGGCGCT
*
9245731 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
9245753 AAAAAGCGCCGCTAAAAGCCT
1 AAAAAGCGCCGCTAAAAGCCT
9245774 GTTTTGGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.28, G:0.21, T:0.09
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:9250141 original size:15 final size:15
Alignment explanation
Indices: 9250121--9250161 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
9250111 TTATAATTAT
9250121 TTAAATTCTATCGAA
1 TTAAATTCTATCGAA
*
9250136 TTAAATTCTATCTAA
1 TTAAATTCTATCGAA
9250151 TTAAATTCTAT
1 TTAAATTCTAT
9250162 TTTTTATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.39, C:0.12, G:0.02, T:0.46
Consensus pattern (15 bp):
TTAAATTCTATCGAA
Found at i:9251116 original size:20 final size:20
Alignment explanation
Indices: 9251091--9251128 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
9251081 TTTAAAATAC
* *
9251091 TTTTAAATTATTTTTTTATT
1 TTTTAAAATAATTTTTTATT
9251111 TTTTAAAATAATTTTTTA
1 TTTTAAAATAATTTTTTA
9251129 ATGTTTATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTAAAATAATTTTTTATT
Found at i:9251119 original size:21 final size:22
Alignment explanation
Indices: 9251091--9251141 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
9251081 TTTAAAATAC
* *
9251091 TTTT-AAATTATTTTTTTAT-T
1 TTTTAAAATAATTTTTTAATGT
9251111 TTTTAAAATAATTTTTTAATGT
1 TTTTAAAATAATTTTTTAATGT
9251133 TTATTAAAA
1 TT-TTAAAA
9251142 AATGGGCCGG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 4 0.15
21 13 0.50
22 3 0.12
23 6 0.23
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (22 bp):
TTTTAAAATAATTTTTTAATGT
Found at i:9251135 original size:20 final size:20
Alignment explanation
Indices: 9251092--9251135 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
9251082 TTAAAATACT
* * * *
9251092 TTTAAATTATTTTTTTATTT
1 TTTAAAATAATTTTTTAATG
9251112 TTTAAAATAATTTTTTAATG
1 TTTAAAATAATTTTTTAATG
9251132 TTTA
1 TTTA
9251136 TTAAAAAATG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (20 bp):
TTTAAAATAATTTTTTAATG
Found at i:9255333 original size:21 final size:21
Alignment explanation
Indices: 9255301--9255348 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 21
9255291 TGTTTGACTT
9255301 GAAATTGTGTTTAAATATGATTTG
1 GAAA-TGT-TTTAAA-ATGATTTG
*
9255325 GAAATGTTTTGAAATGATTTG
1 GAAATGTTTTAAAATGATTTG
9255346 GAA
1 GAA
9255349 CTATAGGATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 11 0.48
22 5 0.22
23 3 0.13
24 4 0.17
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (21 bp):
GAAATGTTTTAAAATGATTTG
Found at i:9256368 original size:14 final size:15
Alignment explanation
Indices: 9256349--9256381 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
9256339 GTTTCCATTA
9256349 TCTTTC-TTCTTCCC
1 TCTTTCTTTCTTCCC
9256363 TCTTTCTTTCTTCCC
1 TCTTTCTTTCTTCCC
9256378 -CTTT
1 TCTTT
9256382 AACTGTTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (15 bp):
TCTTTCTTTCTTCCC
Found at i:9257254 original size:184 final size:183
Alignment explanation
Indices: 9256695--9257666 Score: 1551
Period size: 179 Copynumber: 5.3 Consensus size: 183
9256685 CCAGATGTTG
* *
9256695 TGTTTTGAAGAAGAAAAATGGTGTTTGGCAAGAGAGAAAATGAGAGAAAAAAAATGGCAGCCGAC
1 TGTTTTGAAGAAGAAAAATGGTATTTGGCAAGAGAGAAAATGAGAG-AAAAAAATGGTAGCCGAC
* * *
9256760 AGTGGGGGAAAAAAACAATGATTTTAAGTTGAAAGTGTGGTGT-AGATTTACAAAAATTACACAA
65 ATTGGGGG-AAAAAACAATGATTTTAAGCTGAAAGTGTGGTGTGAG-TTTACAAAAATTACTCAA
*
9256824 AAGCATGATTATAATCATGGTAATGGAAATTCTTGTAGATGAAATGAGTCAACCATA
128 AAGCATGATTAT-ATCATGGTAATGGAAATTCTTGTAGATGAAATGAGCCAACCATA
* * * *
9256881 TATTTTGAAGAAGAAAAATGGTGTTTGGCAAGAGAGAAAATAAGAGAAAAAAAATGGCAGCCGAC
1 TGTTTTGAAGAAGAAAAATGGTATTTGGCAAGAGAGAAAATGAGAG-AAAAAAATGGTAGCCGAC
* * * *
9256946 AGTGGAGGGAAAAAAACAATGATTTTAAGTTGAAAGTGTGGTGTGGGTTTACAAAAATTACACAA
65 ATTGG-GGG-AAAAAACAATGATTTTAAGCTGAAAGTGTGGTGTGAGTTTACAAAAATTACTCAA
*
9257011 AAGCATGATTATAATCATGGTAATGGAAATTCTTGTAGATGAAATGAGCCAAACATA
128 AAGCATGATTAT-ATCATGGTAATGGAAATTCTTGTAGATGAAATGAGCCAACCATA
*
9257068 TGTTTTGAAGAAAAAAAATGGTATTTGGCAAGAGAGAAAATGAGAGAAAAAAATGGTAGCCGACA
1 TGTTTTGAAGAAGAAAAATGGTATTTGGCAAGAGAGAAAATGAGAGAAAAAAATGGTAGCCGACA
*
9257133 TTGGTGGGAAAAAATAATGATTTTAAGCTGAAAGTGTGGTGTGAGTTTACAAAAATTACTCAAAA
66 TTGG-GGGAAAAAACAATGATTTTAAGCTGAAAGTGTGGTGTGAGTTTACAAAAATTACTCAAAA
9257198 GCATGATTATATCATGGTAATGGAAATTCTTGTAGATGAAATGAGCCAACCATA
130 GCATGATTATATCATGGTAATGGAAATTCTTGTAGATGAAATGAGCCAACCATA
*
9257252 TGTTTTGAAGAAGAAAAATGGTATTTGGCACGAGAGAAAATGAGAGAAAAAAATGGTAGCCTG-C
1 TGTTTTGAAGAAGAAAAATGGTATTTGGCAAGAGAGAAAATGAGAGAAAAAAATGGTAGCC-GAC
* *
9257316 ATTGGGGG---GAA-AATGATTTTAAGCTGAAAGTGTAGTGTGAGTTTACAAAAATTACTCAAAA
65 ATTGGGGGAAAAAACAATGATTTTAAGCTGAAAGTGTGGTGTGAGTTTACAAAAATTACTCAAAA
9257377 GCATGATTATATCATGGTAATGGAAATTCTTGTAGATGAAATGAGCCAACCATA
130 GCATGATTATATCATGGTAATGGAAATTCTTGTAGATGAAATGAGCCAACCATA
* *
9257431 TGTTTTGAAGGAGAAAAATGGTATTTGGAAAGAGAGAAAATGAGAGAAAAAAATGGTAGCCGACA
1 TGTTTTGAAGAAGAAAAATGGTATTTGGCAAGAGAGAAAATGAGAGAAAAAAATGGTAGCCGACA
*
9257496 TTGGGGGGAAAAACAATGATTTTAAGCTGAAAGTGTGGTGTGAGTTTACAAAAATTACTCAAAAG
66 TTGGGGGAAAAAACAATGATTTTAAGCTGAAAGTGTGGTGTGAGTTTACAAAAATTACTCAAAAG
* * *
9257561 CATGATTATATCATGGTAATGGAAATTCTTGTCGATGAAATGAGTCAACCATG
131 CATGATTATATCATGGTAATGGAAATTCTTGTAGATGAAATGAGCCAACCATA
* *
9257614 TGTTTTGAAGAAAAAAAAGTGGTGTTTGGCAAGAGAGAAAATGAGAGAAAAAA
1 TGTTTTGAAGAAGAAAAA-TGGTATTTGGCAAGAGAGAAAATGAGAGAAAAAA
9257667 TTTTGTTAAA
Statistics
Matches: 744, Mismatches: 33, Indels: 20
0.93 0.04 0.03
Matches are distributed among these distances:
178 1 0.00
179 170 0.23
180 2 0.00
182 2 0.00
183 119 0.16
184 140 0.19
185 64 0.09
186 92 0.12
187 153 0.21
188 1 0.00
ACGTcount: A:0.42, C:0.08, G:0.25, T:0.25
Consensus pattern (183 bp):
TGTTTTGAAGAAGAAAAATGGTATTTGGCAAGAGAGAAAATGAGAGAAAAAAATGGTAGCCGACA
TTGGGGGAAAAAACAATGATTTTAAGCTGAAAGTGTGGTGTGAGTTTACAAAAATTACTCAAAAG
CATGATTATATCATGGTAATGGAAATTCTTGTAGATGAAATGAGCCAACCATA
Found at i:9264174 original size:22 final size:23
Alignment explanation
Indices: 9264130--9264174 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
9264120 GTATTCAAAT
* *
9264130 CTTATTCTATCAATTCTCTCAAC
1 CTTATTCTATCAATTCACACAAC
*
9264153 CTTATTC-ATCTATTCACACAAC
1 CTTATTCTATCAATTCACACAAC
9264175 TATTTTATTC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.29, C:0.31, G:0.00, T:0.40
Consensus pattern (23 bp):
CTTATTCTATCAATTCACACAAC
Found at i:9270038 original size:75 final size:73
Alignment explanation
Indices: 9269780--9270053 Score: 275
Period size: 75 Copynumber: 3.7 Consensus size: 73
9269770 AAAAAGGTTC
* * *
9269780 TCTATTGTATTTTACATCAATAATATACTTATTTACAATCTATGAAAAAAATTTAAAAAAATATT
1 TCTATTGTATTTTATATCAATAATATACTTATTTACAATCTACGAAAAAAA-TTAAAAAATTATT
9269845 GTAT-TGTAT
65 -TATATGTAT
* * * * *
9269854 TTTATTGTATTTTATATCAATAATATATATTTATTTACAATCTATGAAAGAAAATTAAAAATTTG
1 TCTATTGTATTTTATATCAAT-A-ATATACTTATTTACAATCTACGAAA-AAAATTAAAAAATTA
*
9269919 TTTGTATTGTAT
63 TTTATA-TGTAT
* * ** * *
9269931 TCTATCGCATGCCT-TCTCAATAATATATTTATTTACAATCTACG-AAAAAATTAAAAAATTATT
1 TCTATTGTAT-TTTATATCAATAATATACTTATTTACAATCTACGAAAAAAATTAAAAAATTATT
9269994 TATATAGTAT
65 TATAT-GTAT
* * *
9270004 TCTACTGTATTTTATATCAATAACATATACTTATTTACAATTTACCAAAA
1 TCTATTGTATTTTATATCAAT-A-ATATACTTATTTACAATCTACGAAAA
9270054 TATGAATAAA
Statistics
Matches: 163, Mismatches: 26, Indels: 20
0.78 0.12 0.10
Matches are distributed among these distances:
72 2 0.01
73 35 0.21
74 22 0.13
75 43 0.26
76 38 0.23
77 22 0.13
78 1 0.01
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.44
Consensus pattern (73 bp):
TCTATTGTATTTTATATCAATAATATACTTATTTACAATCTACGAAAAAAATTAAAAAATTATTT
ATATGTAT
Found at i:9270224 original size:151 final size:151
Alignment explanation
Indices: 9270046--9270348 Score: 545
Period size: 152 Copynumber: 2.0 Consensus size: 151
9270036 ATTTACAATT
*
9270046 TACCAAAATATGAATAAATTG-TTTTTTTGTATGCTTATAAAAAAATGAATAAAAGTTTTAATTA
1 TACCAAAAAATGAATAAATTGTTTTTTTTGTATGCTTATAAAAAAATGAATAAAAGTTTTAATTA
*
9270110 AGTCTTCTCCTCAATGTTGCCTCCAAGTGTGGACATGTTGGCTTATTATGTTTTGGGTTCCTACA
66 AGTCTTCTCCTCAATGTTGCCTCCAAGTGTGGACATGTTGGCTT-TTATGTCTTGGGTTCCTACA
9270175 ATAACTGCATAACCTCGATTGG
130 ATAACTGCATAACCTCGATTGG
* *
9270197 TACCAAAAAATGAATAAATTGTTTTTTTTGTATGCTTATAAAAAATTGAATAAAATTTTTAATTA
1 TACCAAAAAATGAATAAATTGTTTTTTTTGTATGCTTATAAAAAAATGAATAAAAGTTTTAATTA
9270262 AGTCTTCTCCTCAATGTTGCCTCCAAGTGTGGACATGTTGGCTTTTATGTCTTGGGTTCCTACAA
66 AGTCTTCTCCTCAATGTTGCCTCCAAGTGTGGACATGTTGGCTTTTATGTCTTGGGTTCCTACAA
*
9270327 TAATTGCATAACCTCGATTGG
131 TAACTGCATAACCTCGATTGG
9270348 T
1 T
9270349 CTATCTTCTC
Statistics
Matches: 146, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
151 61 0.42
152 85 0.58
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.39
Consensus pattern (151 bp):
TACCAAAAAATGAATAAATTGTTTTTTTTGTATGCTTATAAAAAAATGAATAAAAGTTTTAATTA
AGTCTTCTCCTCAATGTTGCCTCCAAGTGTGGACATGTTGGCTTTTATGTCTTGGGTTCCTACAA
TAACTGCATAACCTCGATTGG
Found at i:9271978 original size:85 final size:85
Alignment explanation
Indices: 9271832--9271990 Score: 228
Period size: 85 Copynumber: 1.9 Consensus size: 85
9271822 TCACCATAGA
* * * ** * *
9271832 TAAGATAATGTAAGAGATCATGTCAGAATTCAATTTTGAATGATCTTGTGACATACTTGCAACAA
1 TAAGACAATGTAAGAGATCAGGTCAAAATTCAATTTCAAATGATCTTGAGACATACCTGCAACAA
9271897 CACAAGTATTTAGAAATAAG
66 CACAAGTATTTAGAAATAAG
* * *
9271917 TAAGACAATGTTAGAGATTAGGTCAAAATTTAATTTCAAATGATCTTGAGACATACCTGCAACAA
1 TAAGACAATGTAAGAGATCAGGTCAAAATTCAATTTCAAATGATCTTGAGACATACCTGCAACAA
9271982 CACAAGTAT
66 CACAAGTAT
9271991 GTGGAGCGTT
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
85 64 1.00
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.30
Consensus pattern (85 bp):
TAAGACAATGTAAGAGATCAGGTCAAAATTCAATTTCAAATGATCTTGAGACATACCTGCAACAA
CACAAGTATTTAGAAATAAG
Found at i:9272801 original size:49 final size:49
Alignment explanation
Indices: 9272748--9272842 Score: 127
Period size: 49 Copynumber: 1.9 Consensus size: 49
9272738 GGGTCTCAAG
* * * *
9272748 TTATACTTGAACTCGTGACCATATAACTATCTTCAACTAAGAGCCTTAA
1 TTATACTTCAACCCGTGACCATATAACCATCGTCAACTAAGAGCCTTAA
* * *
9272797 TTATACTTCAACCCGTGACCGTATAACCATCGTGAACTGAGAGCCT
1 TTATACTTCAACCCGTGACCATATAACCATCGTCAACTAAGAGCCT
9272843 GAGTTGCAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
49 39 1.00
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (49 bp):
TTATACTTCAACCCGTGACCATATAACCATCGTCAACTAAGAGCCTTAA
Found at i:9273913 original size:3 final size:3
Alignment explanation
Indices: 9273905--9273930 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
9273895 TAGGTAAGTT
9273905 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
9273931 TGTTATTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Done.