Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 27 of 333
Found at i:7650522 original size:18 final size:18
Alignment explanation
Indices: 7650444--7650508 Score: 76
Period size: 18 Copynumber: 3.6 Consensus size: 18
7650434 GCATTGCTTA
* **
7650444 AATTATTTTAAAAAAAAT
1 AATTATTTTTAAAATTAT
* *
7650462 AATTATTAATTATAATTAT
1 AATTATT-TTTAAAATTAT
7650481 AATTATTTTTAAAATTAT
1 AATTATTTTTAAAATTAT
7650499 AATTATTTTT
1 AATTATTTTT
7650509 CAATATGTAA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
18 26 0.67
19 13 0.33
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
AATTATTTTTAAAATTAT
Found at i:7654944 original size:28 final size:29
Alignment explanation
Indices: 7654885--7654948 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
7654875 TTGAAATTTG
**
7654885 AAAAATAAAAAGGTTAAATTTCTAAAAAT
1 AAAAATAAAAAGACTAAATTTCTAAAAAT
* *
7654914 AAAAATATAAAGACTAAATTTC-AAATAT
1 AAAAATAAAAAGACTAAATTTCTAAAAAT
7654942 AAAAATA
1 AAAAATA
7654949 GTACAGGGAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 12 0.39
29 19 0.61
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.27
Consensus pattern (29 bp):
AAAAATAAAAAGACTAAATTTCTAAAAAT
Found at i:7664255 original size:558 final size:558
Alignment explanation
Indices: 7663153--7664265 Score: 2023
Period size: 558 Copynumber: 2.0 Consensus size: 558
7663143 TCGAGCAATT
*
7663153 TGAAGGTATTTTTCATGTTTTTACTTAGTTTTAGTTCTTTGTTTTAATAAGTGAATTAGTGTGTT
1 TGAAGGTATTTTTCATGTTTTTACTTAGTTTTAGTTCTTTGCTTTAATAAGTGAATTAGTGTGTT
* * *
7663218 TTATACTATTTTTGAAACTCAAGTTGGTCAAGTGTGCCAAAGGAAACCTAATGGGTTGATTGAGT
66 TTACACTATTTTTGAAACCCAAGTTGGTCAAGTGCGCCAAAGGAAACCTAATGGGTTGATTGAGT
*
7663283 GTTGTAGGGGGTCGATGGCGGCCTAAACGTGAAGAAAACATCACTTAGAATAGGGGTATCGTGAT
131 GTTGTAGGGAGTCGATGGCGGCCTAAACGTGAAGAAAACATCACTTAGAATAGGGGTATCGTGAT
* * *
7663348 ATCGAAGCATAGAAGTCGTGATACCCCTAACAGACTGAAACGATGAGGATTAAGGCCATCTGCAG
196 ATCGAAGCAAAGAAGTCGTGATAACCCTAACAGACTGAAACGATGAGGATTAAGGCCATCTACAG
*
7663413 TGGTATTGCGATACTAGCCATGGGTATTGCAATACCCAACCTCCCAAGGCTCCCCCATTTCAAGA
261 TGGTATGGCGATACTAGCCATGGGTATTGCAATACCCAACCTCCCAAGGCTCCCCCATTTCAAGA
*
7663478 TTGTTGTGGGTATCTCGGTACCAGACCATGGTTATCACAATACCCCTAATGAGAGGAGACCAAAA
326 TTATTGTGGGTATCTCGGTACCAGACCATGGTTATCACAATACCCCTAATGAGAGGAGACCAAAA
7663543 AAAAAACTGATTGCAGGGGTAATCCTTGTACAACTTTAACATCAATCAAATTTAGACGTTGAGGG
391 AAAAAACTGATTGCAGGGGTAATCCTTGTACAACTTTAACATCAATCAAATTTAGACGTTGAGGG
* *
7663608 GCATTTTGGTCACAAAAATTAGGTTGTAATCAAATTAAACAGCCACTTGTGTCTGAGAATTGGAG
456 GCATTTTGGTCACAAAAATTAGGTTGTAATCAAATTAAAAAGCCACTTGTGTCTGAGAATTGAAG
7663673 GAAAAGCTTTTATTTAGGTTTTTTTTTCATATTTTTCA
521 GAAAAGCTTTTATTTAGGTTTTTTTTTCATATTTTTCA
7663711 TGAAGGTATTTTTCATGTTTTTACTTAGTTTTAGTTCTTTGCTTTAATAAGTGAATTAGTGTGTT
1 TGAAGGTATTTTTCATGTTTTTACTTAGTTTTAGTTCTTTGCTTTAATAAGTGAATTAGTGTGTT
*
7663776 TTACACTATTTTTGAGACCCAAGTTGGTCAAGTGCGCCAAAGGAAACCTAATGGGTTGATTGAGT
66 TTACACTATTTTTGAAACCCAAGTTGGTCAAGTGCGCCAAAGGAAACCTAATGGGTTGATTGAGT
*
7663841 GTTGTAGGGAGTCGATGGTGGCCTAAACGTGAAGAAAACATCACTTAGAATAGGGGTATCGTGAT
131 GTTGTAGGGAGTCGATGGCGGCCTAAACGTGAAGAAAACATCACTTAGAATAGGGGTATCGTGAT
* * * *
7663906 ATCGAAGCAAAGAAGTCGTGATAACCCTGACAGTGCTGAAGCGATGAGGATTAAGGCCATCTATA
196 ATCGAAGCAAAGAAGTCGTGATAACCCTAACAG-ACTGAAACGATGAGGATTAAGGCCATCTACA
7663971 GTGGTATGGCGATACTAGCCATGGGTATTGCAATACCCAACCTCCCAAGGCTCCCCCATTTCAAG
260 GTGGTATGGCGATACTAGCCATGGGTATTGCAATACCCAACCTCCCAAGGCTCCCCCATTTCAAG
7664036 ATTATTGTGGGTATCTCGGTACCAGACCATGGTTATCACAATACCCCTAATGAGAGGAGA-C-AA
325 ATTATTGTGGGTATCTCGGTACCAGACCATGGTTATCACAATACCCCTAATGAGAGGAGACCAAA
*
7664099 AAAAAAACTGATTGTAGGGGTAATCCTTGTACAACTTTAACATCAATCAAATTTAGACGTTGAGG
390 AAAAAAACTGATTGCAGGGGTAATCCTTGTACAACTTTAACATCAATCAAATTTAGACGTTGAGG
*
7664164 GGCATTTTGGTCACAAAAATTAGGTTGTAATCAAATTAAAAAGCTACTTGTGTCTGAGAATTGAA
455 GGCATTTTGGTCACAAAAATTAGGTTGTAATCAAATTAAAAAGCCACTTGTGTCTGAGAATTGAA
7664229 GGAAAAGCTTTTATTTAGGTTTTTTTTTCATATTTTT
520 GGAAAAGCTTTTATTTAGGTTTTTTTTTCATATTTTT
7664266 AGCTTAGGTT
Statistics
Matches: 534, Mismatches: 20, Indels: 3
0.96 0.04 0.01
Matches are distributed among these distances:
557 165 0.31
558 219 0.41
559 150 0.28
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (558 bp):
TGAAGGTATTTTTCATGTTTTTACTTAGTTTTAGTTCTTTGCTTTAATAAGTGAATTAGTGTGTT
TTACACTATTTTTGAAACCCAAGTTGGTCAAGTGCGCCAAAGGAAACCTAATGGGTTGATTGAGT
GTTGTAGGGAGTCGATGGCGGCCTAAACGTGAAGAAAACATCACTTAGAATAGGGGTATCGTGAT
ATCGAAGCAAAGAAGTCGTGATAACCCTAACAGACTGAAACGATGAGGATTAAGGCCATCTACAG
TGGTATGGCGATACTAGCCATGGGTATTGCAATACCCAACCTCCCAAGGCTCCCCCATTTCAAGA
TTATTGTGGGTATCTCGGTACCAGACCATGGTTATCACAATACCCCTAATGAGAGGAGACCAAAA
AAAAAACTGATTGCAGGGGTAATCCTTGTACAACTTTAACATCAATCAAATTTAGACGTTGAGGG
GCATTTTGGTCACAAAAATTAGGTTGTAATCAAATTAAAAAGCCACTTGTGTCTGAGAATTGAAG
GAAAAGCTTTTATTTAGGTTTTTTTTTCATATTTTTCA
Found at i:7665968 original size:21 final size:22
Alignment explanation
Indices: 7665927--7665974 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 22
7665917 ATAAAAATTC
7665927 AAAAA-ATAAAATATTTCTAAA
1 AAAAATATAAAATATTTCTAAA
*
7665948 AAAAATATAAAATGTTT-TAAA
1 AAAAATATAAAATATTTCTAAA
7665969 AAAAAT
1 AAAAAT
7665975 TACCTATGTC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 15 0.60
22 10 0.40
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (22 bp):
AAAAATATAAAATATTTCTAAA
Found at i:7667448 original size:18 final size:18
Alignment explanation
Indices: 7667427--7667867 Score: 110
Period size: 18 Copynumber: 24.6 Consensus size: 18
7667417 GAAAGTTTTT
* *
7667427 TTTTTTAAAATACGAGAA
1 TTTTTGAAAACACGAGAA
7667445 TTTTTGAAAACACGAGAA
1 TTTTTGAAAACACGAGAA
*
7667463 --TTTGTAAACACGA-ATA
1 TTTTTGAAAACACGAGA-A
* *
7667479 TTTTAG-AAACACGAAAA
1 TTTTTGAAAACACGAGAA
*
7667496 TTTTTGGAAAAAAACGA-AA
1 TTTTT-G-AAAACACGAGAA
* * *
7667515 TTTTCTTAAAACACGACATTTT
1 TTTT-TGAAAACACGAGA---A
*
7667537 TTTTTG-AAACACGGGAA
1 TTTTTGAAAACACGAGAA
* * *
7667554 TTTTT-AAAACAAGACATT
1 TTTTTGAAAACACGAGA-A
7667572 TTTTTG-AAACA--A-AA
1 TTTTTGAAAACACGAGAA
* *
7667586 TTTTTTCTTAAAA-A--AAAA
1 --TTTT-TGAAAACACGAGAA
* *
7667604 ATTTT--AAATACGAGAA
1 TTTTTGAAAACACGAGAA
*
7667620 TTTTT-AAAACACGAAAAA
1 TTTTTGAAAACACG-AGAA
*
7667638 TTTTT-AAAACACGGAAATA
1 TTTTTGAAAACAC-GAGA-A
*
7667657 TTTTTTTTAAAACACGA-AA
1 --TTTTTGAAAACACGAGAA
* *
7667676 TTTTTTTTTTGAAAACAAGAAAA
1 -----TTTTTGAAAACACGAGAA
*
7667699 TTTTTG-AAACACTAGAA
1 TTTTTGAAAACACGAGAA
7667716 -TTTTGAAAACACGA-AGA
1 TTTTTGAAAACACGAGA-A
*
7667733 TTTTTG-AAACATGAGAA
1 TTTTTGAAAACACGAGAA
*
7667750 TTTTT-AAAAGCACGAGGA
1 TTTTTGAAAA-CACGAGAA
* *
7667768 TTATTGAAAGCACGA-AGA
1 TTTTTGAAAACACGAGA-A
* * *
7667786 TTTAT-AAAAAACGACAA
1 TTTTTGAAAACACGAGAA
*
7667803 TTTTTG-AAATACGAGAAA
1 TTTTTGAAAACACGAG-AA
* * *
7667821 TTTTT-TAAACGCGAAAA
1 TTTTTGAAAACACGAGAA
** *
7667838 TTTTTTTCAAACACGAAAA
1 -TTTTTGAAAACACGAGAA
*
7667857 CTTTTGAAAAC
1 TTTTTGAAAAC
7667868 GCGAAAATTC
Statistics
Matches: 324, Mismatches: 51, Indels: 96
0.69 0.11 0.20
Matches are distributed among these distances:
13 3 0.01
14 1 0.00
15 3 0.01
16 34 0.10
17 87 0.27
18 120 0.37
19 23 0.07
20 17 0.05
21 8 0.02
22 26 0.08
23 2 0.01
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (18 bp):
TTTTTGAAAACACGAGAA
Found at i:7667466 original size:16 final size:16
Alignment explanation
Indices: 7667433--7667498 Score: 53
Period size: 16 Copynumber: 3.9 Consensus size: 16
7667423 TTTTTTTTTT
*
7667433 AAAATACGAGAATTTTTG
1 AAAACACGAGAA--TTTG
7667451 AAAACACGAGAATTTG
1 AAAACACGAGAATTTG
* *
7667467 TAAACACGA-ATATTTT
1 AAAACACGAGA-ATTTG
*
7667483 AGAAACACGAAAATTT
1 A-AAACACGAGAATTT
7667499 TTGGAAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
15 1 0.02
16 16 0.39
17 12 0.29
18 12 0.29
ACGTcount: A:0.48, C:0.11, G:0.14, T:0.27
Consensus pattern (16 bp):
AAAACACGAGAATTTG
Found at i:7667666 original size:22 final size:21
Alignment explanation
Indices: 7667620--7667703 Score: 95
Period size: 22 Copynumber: 4.1 Consensus size: 21
7667610 AATACGAGAA
*
7667620 TTTTTAAAACACGAAA-A--A
1 TTTTTAAAACACGAAATATTT
7667638 TTTTTAAAACACGGAAATATTT
1 TTTTTAAAACAC-GAAATATTT
*
7667660 TTTTTAAAACACGAAATTTTT
1 TTTTTAAAACACGAAATATTT
*
7667681 TTTTTGAAAACAAGAAA-ATTT
1 TTTTT-AAAACACGAAATATTT
7667702 TT
1 TT
7667704 GAAACACTAG
Statistics
Matches: 57, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
18 12 0.21
19 4 0.07
20 1 0.02
21 18 0.32
22 22 0.39
ACGTcount: A:0.44, C:0.08, G:0.07, T:0.40
Consensus pattern (21 bp):
TTTTTAAAACACGAAATATTT
Found at i:7667721 original size:16 final size:16
Alignment explanation
Indices: 7667700--7667753 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
7667690 ACAAGAAAAT
7667700 TTTTGAAACACTAGAA
1 TTTTGAAACACTAGAA
* *
7667716 TTTTGAAAACACGAAGAT
1 TTTTG-AAACAC-TAGAA
7667734 TTTTGAAACA-TGAGAA
1 TTTTGAAACACT-AGAA
7667750 TTTT
1 TTTT
7667754 TAAAAGCACG
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
16 12 0.39
17 11 0.35
18 8 0.26
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.35
Consensus pattern (16 bp):
TTTTGAAACACTAGAA
Found at i:7667725 original size:34 final size:34
Alignment explanation
Indices: 7667682--7667758 Score: 111
Period size: 34 Copynumber: 2.3 Consensus size: 34
7667672 GAAATTTTTT
7667682 TTTTGAAAACAAGAAAATTTTTGAAACACT-AGAA
1 TTTTGAAAACAAGAAAATTTTTGAAACA-TGAGAA
* *
7667716 TTTTGAAAACACGAAGATTTTTGAAACATGAGAA
1 TTTTGAAAACAAGAAAATTTTTGAAACATGAGAA
*
7667750 TTTTTAAAA
1 TTTTGAAAA
7667759 GCACGAGGAT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
33 1 0.03
34 38 0.97
ACGTcount: A:0.47, C:0.08, G:0.13, T:0.32
Consensus pattern (34 bp):
TTTTGAAAACAAGAAAATTTTTGAAACATGAGAA
Found at i:7667872 original size:18 final size:19
Alignment explanation
Indices: 7667827--7667875 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
7667817 GAAATTTTTT
* **
7667827 AAACGCGAAAATTTTTTTC
1 AAACGCGAAAATCTTTTGA
*
7667846 AAACACGAAAA-CTTTTGA
1 AAACGCGAAAATCTTTTGA
7667864 AAACGCGAAAAT
1 AAACGCGAAAAT
7667876 TCGAAAATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.47, C:0.16, G:0.12, T:0.24
Consensus pattern (19 bp):
AAACGCGAAAATCTTTTGA
Found at i:7667920 original size:18 final size:17
Alignment explanation
Indices: 7667871--7667921 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
7667861 TGAAAACGCG
7667871 AAAATTCGAAAATTTCT
1 AAAATTCGAAAATTTCT
* * *
7667888 AAAATACGAGTAATTTTT
1 AAAATTCGA-AAATTTCT
7667906 AAAGATTCGAAAATTT
1 AAA-ATTCGAAAATTT
7667922 GAAACAAGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
17 8 0.30
18 14 0.52
19 5 0.19
ACGTcount: A:0.47, C:0.08, G:0.10, T:0.35
Consensus pattern (17 bp):
AAAATTCGAAAATTTCT
Found at i:7668439 original size:7 final size:7
Alignment explanation
Indices: 7668427--7668476 Score: 82
Period size: 7 Copynumber: 6.9 Consensus size: 7
7668417 TTTTTCTTCT
7668427 TTTTTTC
1 TTTTTTC
7668434 TTTTTTC
1 TTTTTTC
7668441 TTTTTTCC
1 TTTTTT-C
7668449 TTTTTTC
1 TTTTTTC
7668456 TTTTTTC
1 TTTTTTC
7668463 TTTTTTC
1 TTTTTTC
7668470 TTCTTTT
1 TT-TTTT
7668477 TCTTCCTTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
7 30 0.73
8 11 0.27
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTTTC
Found at i:7668443 original size:15 final size:15
Alignment explanation
Indices: 7668418--7668493 Score: 93
Period size: 14 Copynumber: 5.1 Consensus size: 15
7668408 TGAACCCCCT
7668418 TTTTCTTCTTTTTTTC
1 TTTT-TTCTTTTTTTC
*
7668434 TTTTTTCTTTTTTCC
1 TTTTTTCTTTTTTTC
7668449 TTTTTTC-TTTTTTC
1 TTTTTTCTTTTTTTC
7668463 TTTTTTCTTCTTTTTC
1 TTTTTTCTT-TTTTTC
**
7668479 TTCCTT-TTTTTTTC
1 TTTTTTCTTTTTTTC
7668493 T
1 T
7668494 GCTGGGCTGC
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
14 20 0.37
15 20 0.37
16 14 0.26
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTTTCTTTTTTTC
Found at i:7668455 original size:22 final size:22
Alignment explanation
Indices: 7668427--7668488 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
7668417 TTTTTCTTCT
7668427 TTTTTTCTTTTTT-CTTTTTTCC
1 TTTTTTCTTTTTTCCTTTTTT-C
7668449 TTTTTTCTTTTTT-CTTTTTTC
1 TTTTTTCTTTTTTCCTTTTTTC
* *
7668470 -TTCTT-TTTCTTCCTTTTTT
1 TTTTTTCTTTTTTCCTTTTTT
7668489 TTTCTGCTGG
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.14
20 11 0.30
21 1 0.03
22 20 0.54
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (22 bp):
TTTTTTCTTTTTTCCTTTTTTC
Found at i:7668489 original size:22 final size:22
Alignment explanation
Indices: 7668417--7668493 Score: 84
Period size: 23 Copynumber: 3.3 Consensus size: 22
7668407 TTGAACCCCC
7668417 TTTTTCTTCTTTTT-TTCTTTT
1 TTTTTCTTCTTTTTCTTCTTTT
* *
7668438 TTCTTTTTTCCTTTTTTCTTTTTTCT
1 TT-TTTCTT-C-TTTTTCTTCTTT-T
7668464 TTTTTCTTCTTTTTCTTCCTTTT
1 TTTTTCTTCTTTTTCTT-CTTTT
7668487 TTTTTCT
1 TTTTTCT
7668494 GCTGGGCTGC
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
21 2 0.04
22 5 0.11
23 17 0.37
24 9 0.20
25 10 0.22
26 3 0.07
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (22 bp):
TTTTTCTTCTTTTTCTTCTTTT
Found at i:7668652 original size:16 final size:16
Alignment explanation
Indices: 7668628--7668658 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7668618 CCTTCTTTTT
*
7668628 TTTGCTTTTTTTTTGC
1 TTTGATTTTTTTTTGC
7668644 TTTGATTTTTTTTTG
1 TTTGATTTTTTTTTG
7668659 GGCTTGTTTC
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:0.03, C:0.06, G:0.13, T:0.77
Consensus pattern (16 bp):
TTTGATTTTTTTTTGC
Found at i:7668685 original size:17 final size:18
Alignment explanation
Indices: 7668625--7668687 Score: 58
Period size: 18 Copynumber: 3.5 Consensus size: 18
7668615 TTCCCTTCTT
7668625 TTTTTTGCTTTTTTTTTGC
1 TTTTTT-CTTTTTTTTTGC
* **
7668644 TTTGATT-TTTTTTTGGGC
1 TTT-TTTCTTTTTTTTTGC
*
7668662 TTGTTTCTTTTTTTTTG-
1 TTTTTTCTTTTTTTTTGC
7668679 TTTTTTCTT
1 TTTTTTCTT
7668688 GGGCTGCTGG
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
17 10 0.29
18 19 0.56
19 3 0.09
20 2 0.06
ACGTcount: A:0.02, C:0.08, G:0.13, T:0.78
Consensus pattern (18 bp):
TTTTTTCTTTTTTTTTGC
Found at i:7668785 original size:3 final size:3
Alignment explanation
Indices: 7668779--7668824 Score: 58
Period size: 3 Copynumber: 15.0 Consensus size: 3
7668769 TTTTCTTTCT
*
7668779 TTC TTC TTC CTC TT- TTC TTC TTCC TTC TTC TTCC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TT-C TTC TTC TT-C TTC TTC TTC TTC
7668825 AAAGTCTAGC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 30 0.79
4 6 0.16
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (3 bp):
TTC
Found at i:7668808 original size:10 final size:10
Alignment explanation
Indices: 7668793--7668821 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
7668783 TCTTCCTCTT
7668793 TTCTTCTTCC
1 TTCTTCTTCC
7668803 TTCTTCTTCC
1 TTCTTCTTCC
7668813 TTCTTCTTC
1 TTCTTCTTC
7668822 TTCAAAGTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (10 bp):
TTCTTCTTCC
Found at i:7668809 original size:13 final size:13
Alignment explanation
Indices: 7668779--7668824 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
7668769 TTTTCTTTCT
7668779 TTCTTCTTCC-TC
1 TTCTTCTTCCTTC
7668791 TT-TTCTT-CTTCC
1 TTCTTCTTCCTT-C
7668803 TTCTTCTTCCTTC
1 TTCTTCTTCCTTC
7668816 TTCTTCTTC
1 TTCTTCTTC
7668825 AAAGTCTAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 1 0.03
11 6 0.20
12 5 0.17
13 15 0.50
14 3 0.10
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (13 bp):
TTCTTCTTCCTTC
Found at i:7668915 original size:10 final size:10
Alignment explanation
Indices: 7668880--7668929 Score: 59
Period size: 10 Copynumber: 5.2 Consensus size: 10
7668870 ACGCCGGTAC
7668880 TCTT-TCTTT
1 TCTTCTCTTT
* *
7668889 TCTTCTCCTC
1 TCTTCTCTTT
7668899 T-TTCTCTTT
1 TCTTCTCTTT
7668908 TCTTCTCTTT
1 TCTTCTCTTT
*
7668918 TCTTCTTTTT
1 TCTTCTCTTT
7668928 TC
1 TC
7668930 CTTCGAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
9 11 0.32
10 23 0.68
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (10 bp):
TCTTCTCTTT
Found at i:7668927 original size:19 final size:19
Alignment explanation
Indices: 7668884--7668926 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
7668874 CGGTACTCTT
7668884 TCTTTTCTTCTCCTCTTTC
1 TCTTTTCTTCTCCTCTTTC
7668903 TCTTTTCTTCT-CT-TTTC
1 TCTTTTCTTCTCCTCTTTC
7668920 TTCTTTT
1 -TCTTTT
7668927 TTCCTTCGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.17
18 8 0.35
19 11 0.48
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (19 bp):
TCTTTTCTTCTCCTCTTTC
Found at i:7669208 original size:29 final size:29
Alignment explanation
Indices: 7669175--7669291 Score: 94
Period size: 30 Copynumber: 3.9 Consensus size: 29
7669165 TGTAATTTTT
*
7669175 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
7669204 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
7669234 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
7669263 GGAAAAGTTTAGGTGTCAAAATGCAATTT
1 AGAAAA-TTTAGG-GTTAAAATGAAATTT
7669292 TTATTTTTTA
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
29 16 0.22
30 54 0.75
31 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.21, T:0.31
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:7669230 original size:30 final size:30
Alignment explanation
Indices: 7669190--7669291 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
7669180 ATTTAGGATT
*
7669190 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
7669220 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* *
7669250 AAAATGAAATTT-AGGAAAAGTTTAGGTGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
7669280 AAAATGCAATTT
1 AAAATGAAATTT
7669292 TTATTTTTTA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
29 2 0.03
30 59 0.97
ACGTcount: A:0.44, C:0.04, G:0.22, T:0.30
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:7669314 original size:16 final size:17
Alignment explanation
Indices: 7669289--7669324 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
7669279 CAAAATGCAA
7669289 TTTTTATTTTTT-AAAT
1 TTTTTATTTTTTGAAAT
*
7669305 TTTTTTTTTTTTGAAAT
1 TTTTTATTTTTTGAAAT
7669322 TTT
1 TTT
7669325 GAAAATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (17 bp):
TTTTTATTTTTTGAAAT
Found at i:7669315 original size:17 final size:17
Alignment explanation
Indices: 7669289--7669324 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
7669279 CAAAATGCAA
*
7669289 TTTTTATTTTTTAAATT
1 TTTTTATTTTTGAAATT
*
7669306 TTTTTTTTTTTGAAATT
1 TTTTTATTTTTGAAATT
7669323 TT
1 TT
7669325 GAAAATTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (17 bp):
TTTTTATTTTTGAAATT
Found at i:7669785 original size:53 final size:54
Alignment explanation
Indices: 7669566--7669816 Score: 379
Period size: 53 Copynumber: 4.7 Consensus size: 54
7669556 CACGTGAGCC
* *
7669566 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAAACAGAATTTGCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT--AA
*
7669621 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAG--A--AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTAA
* *
7669672 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
7669726 AAGGCTCAACTCACCTCTCGCAATATGA-TTGATTTTTGAAAAACAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
*
7669779 AAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTT
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
7669817 TTTTTTGAAA
Statistics
Matches: 182, Mismatches: 7, Indels: 15
0.89 0.03 0.07
Matches are distributed among these distances:
50 14 0.08
51 34 0.19
52 1 0.01
53 50 0.27
54 39 0.21
55 32 0.18
56 6 0.03
57 6 0.03
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (54 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
Found at i:7669807 original size:107 final size:105
Alignment explanation
Indices: 7669566--7669816 Score: 373
Period size: 107 Copynumber: 2.4 Consensus size: 105
7669556 CACGTGAGCC
* *
7669566 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAACAGAATTTGCAAAAGGCTCAAC
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATT-CAAAAGGCTCAAC
*
7669631 TCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAGAAA
65 TCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAA
* *
7669672 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATT-AAAAGGCTCAAC
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACAGAAATTCAAAAGGCTCAAC
7669736 TCACCTCTCGCAATATGA-TTGA-TTTTTGAAAAACAGAAATTAA
65 TCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAG--A--AA
*
7669779 AAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTT
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
7669817 TTTTTTGAAA
Statistics
Matches: 133, Mismatches: 7, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
103 13 0.10
104 4 0.03
105 31 0.23
106 37 0.28
107 48 0.36
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (105 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTCAAAAGGCTCAACT
CACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAA
Found at i:7669856 original size:13 final size:14
Alignment explanation
Indices: 7669828--7669860 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
7669818 TTTTTGAAAC
7669828 ACAGAAATTAAAAA
1 ACAGAAATTAAAAA
7669842 ACAGAAATT-AAAA
1 ACAGAAATTAAAAA
7669855 ACAGAA
1 ACAGAA
7669861 TTTGAAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.70, C:0.09, G:0.09, T:0.12
Consensus pattern (14 bp):
ACAGAAATTAAAAA
Found at i:7669868 original size:14 final size:14
Alignment explanation
Indices: 7669821--7669868 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
7669811 ATTTTTTTTT
*
7669821 TTGAAACACAGAAA
1 TTGAAAAACAGAAA
*
7669835 TTAAAAAACAGAAA
1 TTGAAAAACAGAAA
*
7669849 TT-AAAAACAGAAT
1 TTGAAAAACAGAAA
7669862 TTGAAAA
1 TTGAAAA
7669869 GACCTCAGCG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
13 12 0.40
14 18 0.60
ACGTcount: A:0.62, C:0.08, G:0.10, T:0.19
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:7670165 original size:72 final size:72
Alignment explanation
Indices: 7669944--7671615 Score: 2918
Period size: 72 Copynumber: 23.1 Consensus size: 72
7669934 ATTAGTAAAG
* * * *
7669944 CAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTT-AAGT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-T
7670008 TTTGAAAA
65 TTTGAAAA
* *
7670016 GCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
1 -CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
7670081 TTTGAAAA
65 TTTGAAAA
7670089 CAGAAATTGAAATTACCTCAACGTGT-TTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
7670153 TTGAGAAG
66 TTGA-AAA
*
7670161 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
7670226 TTGAAAA
66 TTGAAAA
7670233 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
7670298 TTGAAAA
66 TTGAAAA
*
7670305 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
7670370 TTGAAAA
66 TTGAAAA
7670377 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
7670442 TTGAAAA
66 TTGAAAA
7670449 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
7670514 TTGAGAAG
66 TTGA-AAA
*
7670522 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
7670587 TTGAAAA
66 TTGAAAA
*
7670594 GCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
1 -CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
7670659 TTTGAAAA
65 TTTGAAAA
7670667 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
7670732 TTGAAAA
66 TTGAAAA
7670739 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
7670804 TTGAGAAG
66 TTGA-AAA
*
7670812 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
7670877 TTGAAAA
66 TTGAAAA
7670884 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
7670949 TTGAAAA
66 TTGAAAA
*
7670956 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
7671021 TTGAAAA
66 TTGAAAA
7671028 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
7671093 TTGAAAA
66 TTGAAAA
7671100 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
7671165 TTGAGAAG
66 TTGA-AAA
*
7671173 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
7671238 TTGAAAA
66 TTGAAAA
7671245 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
7671310 TTGAAAA
66 TTGAAAA
7671317 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
7671382 TTGAAAA
66 TTGAAAA
* * * * *
7671389 GCAGAAATTGAAAATACCTCAGCGTGTCCTGAAGCTCAACTCATTTCTCGCAATATAAGTTGAAT
1 -CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
7671454 TTTGAAAA
65 TTTGAAAA
* * *
7671462 CAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-AT
*
7671527 TTTTAACAA
65 TTTGAA-AA
* * * ** * *
7671536 CAGAAATTAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAATTG-ATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
7671600 TTGAAAAA
66 TTG-AAAA
*
7671608 CATAAATT
1 CAGAAATT
7671616 AAAAGGCTTA
Statistics
Matches: 1544, Mismatches: 44, Indels: 23
0.96 0.03 0.01
Matches are distributed among these distances:
71 42 0.03
72 978 0.63
73 464 0.30
74 60 0.04
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (72 bp):
CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
TTGAAAA
Found at i:7670338 original size:217 final size:216
Alignment explanation
Indices: 7669944--7671619 Score: 2946
Period size: 217 Copynumber: 7.7 Consensus size: 216
7669934 ATTAGTAAAG
* * *
7669944 CAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTT-AAGT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-T
* *
7670008 TTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
65 TTTGAAAA-CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
*
7670073 AGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGT-TTGAGGCTCAACTCATTTCTCG
129 AGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCG
*
7670137 CAATATGAGTTGAATTTTGAGAAG
194 CAATATGAGTTGAATTTTGA-AAA
7670161 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
7670226 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
66 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
7670291 TTGAATTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCA
131 TTGAATTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCA
7670356 ATATGAGTTGAATTTTGAAAA
196 ATATGAGTTGAATTTTGAAAA
*
7670377 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
7670442 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
66 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
*
7670507 TTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGC
131 TTGAATTTTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGC
7670572 AATATGAGTTGAATTTTGAAAA
195 AATATGAGTTGAATTTTGAAAA
7670594 GCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
1 -CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
7670659 TTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
65 TTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
*
7670724 GTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGC
130 GTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGC
*
7670789 AATATGAGTTGAATTTTGAGAAG
195 AATATGAGTTGAATTTTGA-AAA
7670812 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
7670877 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
66 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
7670942 TTGAATTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCA
131 TTGAATTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCA
7671007 ATATGAGTTGAATTTTGAAAA
196 ATATGAGTTGAATTTTGAAAA
*
7671028 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
7671093 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
66 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
*
7671158 TTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGC
131 TTGAATTTTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGC
7671223 AATATGAGTTGAATTTTGAAAA
195 AATATGAGTTGAATTTTGAAAA
*
7671245 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
7671310 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
66 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
* * *
7671375 TTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAGCGTGTCCTGAAGCTCAACTCATTTCTCGC
131 TTGAATTTTGAAAA-CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGC
*
7671440 AATATAAGTTGAATTTTGAAAA
195 AATATGAGTTGAATTTTGAAAA
* * * *
7671462 CAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-AT
* * * * ** *
7671527 TTTTAACAACAGAAATTAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATG
65 TTTGAA-AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
* *
7671592 AATTG-ATTTTGAAAAACATAAATT-AAAA
129 AGTTGAATTTTG-AAAACAGAAATTGAAAA
7671620 GGCTTAACTC
Statistics
Matches: 1415, Mismatches: 34, Indels: 20
0.96 0.02 0.01
Matches are distributed among these distances:
216 381 0.27
217 811 0.57
218 163 0.12
219 60 0.04
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (216 bp):
CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
TTGAATTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCA
ATATGAGTTGAATTTTGAAAA
Found at i:7672606 original size:45 final size:46
Alignment explanation
Indices: 7672545--7672657 Score: 122
Period size: 46 Copynumber: 2.5 Consensus size: 46
7672535 GTTTCATTAG
*
7672545 GACGCCC-TCTCGGGTTTTCATCCTAATCTTTT-TGTATTAATCAA
1 GACGCCCTTTTCGGGTTTTCATCCTAATCTTTTCTGTATTAATCAA
** * * * ** *
7672589 GACGCCCTTTTCGGGTTTTCGCCCTGATCTTTTCTTTTTTTTTTAA
1 GACGCCCTTTTCGGGTTTTCATCCTAATCTTTTCTGTATTAATCAA
*
7672635 GATGCCCTTTTCGGGTTTTCATC
1 GACGCCCTTTTCGGGTTTTCATC
7672658 TTAAGCATAA
Statistics
Matches: 55, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
44 7 0.13
45 21 0.38
46 27 0.49
ACGTcount: A:0.13, C:0.25, G:0.16, T:0.46
Consensus pattern (46 bp):
GACGCCCTTTTCGGGTTTTCATCCTAATCTTTTCTGTATTAATCAA
Found at i:7679856 original size:16 final size:17
Alignment explanation
Indices: 7679837--7679906 Score: 51
Period size: 16 Copynumber: 4.3 Consensus size: 17
7679827 GAAAGTTTTT
*
7679837 TTTTTAAAATACGA-AA
1 TTTTTAAAACACGAGAA
*
7679853 TTTTTGAAACACGAGAA
1 TTTTTAAAACACGAGAA
*
7679870 -TTGT-AAACAC--GAA
1 TTTTTAAAACACGAGAA
*
7679883 TATTTTAGAAACACGAAAA
1 T-TTTTA-AAACACGAGAA
7679902 TTTTT
1 TTTTT
7679907 GGAAAAAAAC
Statistics
Matches: 42, Mismatches: 5, Indels: 12
0.71 0.08 0.20
Matches are distributed among these distances:
13 3 0.07
15 9 0.21
16 15 0.36
17 8 0.19
18 4 0.10
19 3 0.07
ACGTcount: A:0.44, C:0.10, G:0.11, T:0.34
Consensus pattern (17 bp):
TTTTTAAAACACGAGAA
Found at i:7679988 original size:14 final size:14
Alignment explanation
Indices: 7679955--7680044 Score: 65
Period size: 16 Copynumber: 5.9 Consensus size: 14
7679945 GAAACACGGG
7679955 AATTTTTAAAACAA
1 AATTTTTAAAACAA
*
7679969 ACATTTTTGAAACAA
1 A-ATTTTTAAAACAA
7679984 AATTTTTCTTAAAA-AA
1 AA--TTT-TTAAAACAA
* *
7680000 AAATTTTAAATACGAG
1 AATTTTTAAA-AC-AA
*
7680016 AATTTTAAAACACGAA
1 AATTTTTAAA-AC-AA
7680032 AATTTTTAAAACA
1 AATTTTTAAAACA
7680045 CGGAAATATT
Statistics
Matches: 60, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
13 5 0.08
14 6 0.10
15 15 0.25
16 29 0.48
17 5 0.08
ACGTcount: A:0.52, C:0.09, G:0.04, T:0.34
Consensus pattern (14 bp):
AATTTTTAAAACAA
Found at i:7680060 original size:21 final size:20
Alignment explanation
Indices: 7680018--7680097 Score: 96
Period size: 21 Copynumber: 4.1 Consensus size: 20
7680008 AATACGAGAA
7680018 TTTTAAAACACGAAA-A--T
1 TTTTAAAACACGAAATATTT
7680035 TTTTAAAACACGGAAATATTT
1 TTTTAAAACAC-GAAATATTT
*
7680056 TTTTAAAACACGAAATTTTT
1 TTTTAAAACACGAAATATTT
*
7680076 TTTTGAAAACAAGAAA-ATTT
1 TTTT-AAAACACGAAATATTT
7680096 TT
1 TT
7680098 GAAACACTAG
Statistics
Matches: 55, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
17 11 0.20
18 4 0.07
19 1 0.02
20 17 0.31
21 22 0.40
ACGTcount: A:0.45, C:0.09, G:0.07, T:0.39
Consensus pattern (20 bp):
TTTTAAAACACGAAATATTT
Found at i:7680115 original size:15 final size:15
Alignment explanation
Indices: 7680095--7680143 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
7680085 CAAGAAAATT
7680095 TTTGAAACACTAGAA
1 TTTGAAACACTAGAA
* *
7680110 TTTGAAACACGAAGAT
1 TTTGAAACAC-TAGAA
7680126 TTTGAAACA-TGAGAA
1 TTTGAAACACT-AGAA
7680141 TTT
1 TTT
7680144 TAAAAGCACG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 16 0.57
16 12 0.43
ACGTcount: A:0.43, C:0.10, G:0.16, T:0.31
Consensus pattern (15 bp):
TTTGAAACACTAGAA
Found at i:7680132 original size:31 final size:33
Alignment explanation
Indices: 7680094--7680166 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 33
7680084 ACAAGAAAAT
*
7680094 TTTTGAAACACT-AGAA-TTTGAAA-CACGAAGA
1 TTTTGAAACA-TGAGAATTTTAAAAGCACGAAGA
*
7680125 TTTTGAAACATGAGAATTTTAAAAGCACGAGGA
1 TTTTGAAACATGAGAATTTTAAAAGCACGAAGA
7680158 TTATTGAAA
1 TT-TTGAAA
7680167 GCACGAAGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
30 1 0.03
31 14 0.39
32 6 0.17
33 9 0.25
34 6 0.17
ACGTcount: A:0.44, C:0.10, G:0.18, T:0.29
Consensus pattern (33 bp):
TTTTGAAACATGAGAATTTTAAAAGCACGAAGA
Found at i:7680169 original size:18 final size:16
Alignment explanation
Indices: 7680094--7680178 Score: 75
Period size: 16 Copynumber: 5.2 Consensus size: 16
7680084 ACAAGAAAAT
*
7680094 TTTTGAAACAC-TAGA
1 TTTTGAAACACGAAGA
*
7680109 ATTTGAAACACGAAGA
1 TTTTGAAACACGAAGA
*
7680125 TTTTGAAACATG-AGAA
1 TTTTGAAACACGAAG-A
* *
7680141 TTTTAAAAGCACGAGGA
1 TTTTGAAA-CACGAAGA
7680158 TTATTGAAAGCACGAAGA
1 TT-TTGAAA-CACGAAGA
7680176 TTT
1 TTT
7680179 ATAAAAAACG
Statistics
Matches: 56, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
15 12 0.21
16 21 0.38
17 7 0.12
18 16 0.29
ACGTcount: A:0.42, C:0.11, G:0.19, T:0.28
Consensus pattern (16 bp):
TTTTGAAACACGAAGA
Found at i:7680214 original size:18 final size:17
Alignment explanation
Indices: 7679837--7680254 Score: 154
Period size: 17 Copynumber: 24.5 Consensus size: 17
7679827 GAAAGTTTTT
* *
7679837 TTTTTAAAATACG-AAA
1 TTTTTGAAACACGAAAA
*
7679853 TTTTTGAAACACGAGAA
1 TTTTTGAAACACGAAAA
* *
7679870 -TTGT-AAACACGAATA
1 TTTTTGAAACACGAAAA
*
7679885 TTTTAGAAACACGAAAA
1 TTTTTGAAACACGAAAA
*
7679902 TTTTTGGAAA-A-AAACGAA
1 TTTTT-GAAACACGAA--AA
* **
7679920 TTTTCTTAAACACGACATTT
1 TTTT-TGAAACACGA-A-AA
**
7679940 TTTTTGAAACACGGGAA
1 TTTTTGAAACACGAAAA
7679957 TTTTT-AAA-AC-AAACA
1 TTTTTGAAACACGAAA-A
*
7679972 TTTTTGAAACA--AAAT
1 TTTTTGAAACACGAAAA
*
7679987 TTTTCTTAAA-A--AAAA
1 TTTT-TGAAACACGAAAA
* * *
7680002 ATTTT-AAATACGAGAA
1 TTTTTGAAACACGAAAA
*
7680018 -TTTTAAAACACGAAAA
1 TTTTTGAAACACGAAAA
*
7680034 TTTTTAAAACACGGAAATA
1 TTTTTGAAACAC-GAAA-A
* *
7680053 TTTTTTTAAAACACGAAATTTT
1 --TTTTTGAAACACGAAA---A
*
7680075 TTTTTGAAAACAAGAAAA
1 TTTTTG-AAACACGAAAA
* *
7680093 TTTTTGAAACACTAGAA
1 TTTTTGAAACACGAAAA
*
7680110 --TTTGAAACACGAAGA
1 TTTTTGAAACACGAAAA
* *
7680125 -TTTTGAAACATGAGAA
1 TTTTTGAAACACGAAAA
* **
7680141 -TTTTAAAAGCACGAGGA
1 TTTTTGAAA-CACGAAAA
* *
7680158 TTATTGAAAGCACGAAGA
1 TTTTTGAAA-CACGAAAA
* * * *
7680176 TTTATAAAAAACGACAA
1 TTTTTGAAACACGAAAA
*
7680193 TTTTTGAAATACGAGAAA
1 TTTTTGAAACACGA-AAA
* *
7680211 TTTTTTAAACGCGAAAA
1 TTTTTGAAACACGAAAA
*
7680228 TTTTTTCAAACACGAAAA
1 -TTTTTGAAACACGAAAA
*
7680246 CTTTTGAAA
1 TTTTTGAAA
7680255 ACGCGAAATT
Statistics
Matches: 305, Mismatches: 66, Indels: 61
0.71 0.15 0.14
Matches are distributed among these distances:
13 3 0.01
14 3 0.01
15 44 0.14
16 62 0.20
17 74 0.24
18 71 0.23
19 11 0.04
20 14 0.05
21 22 0.07
22 1 0.00
ACGTcount: A:0.46, C:0.11, G:0.12, T:0.32
Consensus pattern (17 bp):
TTTTTGAAACACGAAAA
Found at i:7680256 original size:18 final size:17
Alignment explanation
Indices: 7679999--7680262 Score: 98
Period size: 18 Copynumber: 15.2 Consensus size: 17
7679989 TTCTTAAAAA
*
7679999 AAAATTTT--AAATACG
1 AAAATTTTGAAAACACG
*
7680014 AGAATTTT-AAAACACG
1 AAAATTTTGAAAACACG
*
7680030 AAAATTTTTAAAACACGG
1 AAAATTTTGAAAACAC-G
*
7680048 AAATATTTTTTTAAAACACG
1 AAA-A--TTTTGAAAACACG
* *
7680068 AAATTTTTTTTTGAAAACAAG
1 AAA----ATTTTGAAAACACG
*
7680089 AAAATTTTTG-AAACACT
1 AAAA-TTTTGAAAACACG
*
7680106 AGAA-TTTG-AAACACG
1 AAAATTTTGAAAACACG
* *
7680121 AAGATTTTG-AAACATG
1 AAAATTTTGAAAACACG
*
7680137 AGAATTTT-AAAAGCACG
1 AAAATTTTGAAAA-CACG
** *
7680154 AGGATTATTGAAAGCACG
1 AAAATT-TTGAAAACACG
* *
7680172 AAGATTTAT-AAAAAACG
1 AAAATTT-TGAAAACACG
* *
7680189 ACAATTTTTG-AAATACG
1 A-AAATTTTGAAAACACG
** *
7680206 AGAAATTTTTTAAACGCG
1 A-AAATTTTGAAAACACG
**
7680224 AAAATTTTTTCAAACACG
1 AAAA-TTTTGAAAACACG
*
7680242 AAAACTTTTGAAAACGCG
1 AAAA-TTTTGAAAACACG
7680260 AAA
1 AAA
7680263 TTCGAAAATT
Statistics
Matches: 193, Mismatches: 36, Indels: 37
0.73 0.14 0.14
Matches are distributed among these distances:
15 19 0.10
16 32 0.17
17 48 0.25
18 59 0.31
19 4 0.02
20 4 0.02
21 26 0.13
23 1 0.01
ACGTcount: A:0.47, C:0.11, G:0.13, T:0.30
Consensus pattern (17 bp):
AAAATTTTGAAAACACG
Found at i:7680308 original size:18 final size:17
Alignment explanation
Indices: 7680260--7680309 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
7680250 TGAAAACGCG
7680260 AAATTCGAAAATTTCTA
1 AAATTCGAAAATTTCTA
* * *
7680277 AAATACGAGTAATTTTTA
1 AAATTCGA-AAATTTCTA
7680295 AAGATTCGAAAATTT
1 AA-ATTCGAAAATTT
7680310 GAAACAAGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
17 7 0.27
18 14 0.54
19 5 0.19
ACGTcount: A:0.46, C:0.08, G:0.10, T:0.36
Consensus pattern (17 bp):
AAATTCGAAAATTTCTA
Found at i:7680823 original size:7 final size:7
Alignment explanation
Indices: 7680811--7680878 Score: 75
Period size: 7 Copynumber: 9.1 Consensus size: 7
7680801 TTTTTCTTCT
7680811 TTTTTTC
1 TTTTTTC
7680818 TTTTTTTC
1 -TTTTTTC
*
7680826 TTTTTCC
1 TTTTTTC
7680833 TTTTTTC
1 TTTTTTC
7680840 TTTTTTC
1 TTTTTTC
7680847 TTTTTTC
1 TTTTTTC
7680854 TTCTTTTTC
1 -T-TTTTTC
7680863 TTCCTTTT-
1 TT--TTTTC
7680871 TTTTTTC
1 TTTTTTC
7680878 T
1 T
7680879 GCTGGGCTGC
Statistics
Matches: 53, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
6 4 0.08
7 28 0.53
8 11 0.21
9 10 0.19
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTTTTC
Found at i:7680831 original size:14 final size:14
Alignment explanation
Indices: 7680812--7680878 Score: 73
Period size: 15 Copynumber: 4.5 Consensus size: 14
7680802 TTTTCTTCTT
7680812 TTTTTCTTTTTTTC
1 TTTTTCTTTTTTTC
*
7680826 TTTTTCCTTTTTTC
1 TTTTTCTTTTTTTC
7680840 TTTTTTCTTTTTTCTTC
1 -TTTTTC-TTTTT-TTC
7680857 TTTTTCTTCCTTTTT-
1 TTTTTCTT--TTTTTC
7680872 TTTTTCT
1 TTTTTCT
7680879 GCTGGGCTGC
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
14 13 0.28
15 15 0.33
16 12 0.26
17 6 0.13
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (14 bp):
TTTTTCTTTTTTTC
Found at i:7681033 original size:16 final size:16
Alignment explanation
Indices: 7681014--7681044 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7681004 CTTCTTTTTT
*
7681014 TTTGCTTTTTTTTTGC
1 TTTGATTTTTTTTTGC
7681030 TTTGATTTTTTTTTG
1 TTTGATTTTTTTTTG
7681045 GGCTTGTTTC
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:0.03, C:0.06, G:0.13, T:0.77
Consensus pattern (16 bp):
TTTGATTTTTTTTTGC
Found at i:7681044 original size:11 final size:11
Alignment explanation
Indices: 7681007--7681032 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
7680997 TCTTTCCCTT
7681007 CTTTTTTTTTG
1 CTTTTTTTTTG
7681018 CTTTTTTTTTG
1 CTTTTTTTTTG
7681029 CTTT
1 CTTT
7681033 GATTTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.12, G:0.08, T:0.81
Consensus pattern (11 bp):
CTTTTTTTTTG
Found at i:7681171 original size:3 final size:3
Alignment explanation
Indices: 7681165--7681209 Score: 54
Period size: 3 Copynumber: 14.0 Consensus size: 3
7681155 TTTTCTTTCT
*
7681165 TTC TTC TTC CTC TTTC TTC TTCC TTC TTC TTCC TTC TTC TTC TTC
1 TTC TTC TTC TTC -TTC TTC TT-C TTC TTC TT-C TTC TTC TTC TTC
7681210 AAAGTCTAGC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
3 29 0.78
4 8 0.22
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (3 bp):
TTC
Found at i:7681180 original size:13 final size:13
Alignment explanation
Indices: 7681162--7681209 Score: 59
Period size: 13 Copynumber: 3.9 Consensus size: 13
7681152 TTTTTTTCTT
7681162 TCTTTCTTCTTCC
1 TCTTTCTTCTTCC
7681175 TCTTTCTTCTT-C
1 TCTTTCTTCTTCC
7681187 -C-TTCTTCTTCC
1 TCTTTCTTCTTCC
7681198 T-TCTTCTTCTTC
1 TCT-TTCTTCTTC
7681210 AAAGTCTAGC
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
10 8 0.26
11 2 0.06
12 1 0.03
13 20 0.65
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (13 bp):
TCTTTCTTCTTCC
Found at i:7681181 original size:10 final size:10
Alignment explanation
Indices: 7681161--7681206 Score: 65
Period size: 10 Copynumber: 4.6 Consensus size: 10
7681151 TTTTTTTTCT
*
7681161 TTCTTTCTTC
1 TTCTTCCTTC
* *
7681171 TTCCTCTTTC
1 TTCTTCCTTC
7681181 TTCTTCCTTC
1 TTCTTCCTTC
7681191 TTCTTCCTTC
1 TTCTTCCTTC
7681201 TTCTTC
1 TTCTTC
7681207 TTCAAAGTCT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
10 31 1.00
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (10 bp):
TTCTTCCTTC
Found at i:7681589 original size:29 final size:29
Alignment explanation
Indices: 7681556--7681672 Score: 94
Period size: 30 Copynumber: 3.9 Consensus size: 29
7681546 TGTAATTTTT
*
7681556 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
7681585 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
7681615 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
7681644 GGAAAAGTTTAGGTGTCAAAATGCAATTT
1 AGAAAA-TTTAGG-GTTAAAATGAAATTT
7681673 TTATTTTTTA
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
29 16 0.22
30 54 0.75
31 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.21, T:0.31
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:7681611 original size:30 final size:30
Alignment explanation
Indices: 7681571--7681672 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
7681561 ATTTAGGATT
*
7681571 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
7681601 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* *
7681631 AAAATGAAATTT-AGGAAAAGTTTAGGTGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
7681661 AAAATGCAATTT
1 AAAATGAAATTT
7681673 TTATTTTTTA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
29 2 0.03
30 59 0.97
ACGTcount: A:0.44, C:0.04, G:0.22, T:0.30
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:7681696 original size:17 final size:18
Alignment explanation
Indices: 7681670--7681706 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
7681660 CAAAATGCAA
7681670 TTTTTATTTTTT-AAATT
1 TTTTTATTTTTTGAAATT
*
7681687 TTTTTTTTTTTTGAAATT
1 TTTTTATTTTTTGAAATT
7681705 TT
1 TT
7681707 GAAAATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (18 bp):
TTTTTATTTTTTGAAATT
Found at i:7681697 original size:18 final size:18
Alignment explanation
Indices: 7681670--7681706 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
7681660 CAAAATGCAA
*
7681670 TTTTTATTTTTTAAATTT
1 TTTTTATTTTTGAAATTT
*
7681688 TTTTTTTTTTTGAAATTT
1 TTTTTATTTTTGAAATTT
7681706 T
1 T
7681707 GAAAATTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (18 bp):
TTTTTATTTTTGAAATTT
Found at i:7697115 original size:24 final size:24
Alignment explanation
Indices: 7697088--7697150 Score: 76
Period size: 24 Copynumber: 2.6 Consensus size: 24
7697078 AAAAGGTATA
*
7697088 TATACGTAATATATA-TAAAAAAT
1 TATACATAATATATATTAAAAAAT
*
7697111 GTATACATAATATAGTATTAAAATAT
1 -TATACATAATATA-TATTAAAAAAT
7697137 T-TACATAATATATA
1 TATACATAATATATA
7697151 CATATTAGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
23 2 0.06
24 23 0.66
25 3 0.09
26 7 0.20
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (24 bp):
TATACATAATATATATTAAAAAAT
Found at i:7697229 original size:21 final size:21
Alignment explanation
Indices: 7697199--7697265 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
7697189 ATAATACTAC
* * *
7697199 ATAAATATATACATATATTTA
1 ATAAAGATATACACATATATA
* *
7697220 TTAAAGATATATACATATATA
1 ATAAAGATATACACATATATA
7697241 ATAAAGCATATACTA-ATAT-TA
1 ATAAAG-ATATAC-ACATATATA
7697262 ATAA
1 ATAA
7697266 CAAATATAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
21 27 0.73
22 9 0.24
23 1 0.03
ACGTcount: A:0.54, C:0.06, G:0.03, T:0.37
Consensus pattern (21 bp):
ATAAAGATATACACATATATA
Found at i:7697454 original size:3 final size:3
Alignment explanation
Indices: 7697446--7697537 Score: 64
Period size: 3 Copynumber: 30.7 Consensus size: 3
7697436 TGAAACTAAA
** * *
7697446 AAT AAT AAT TCT AAT AAT AGT AA- AGAT -AT ACT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT
* * * *
7697490 AAT AAT AAC GAT AAT AAT AA- ATAT AAT AAT AAAT AAT ATT AAA AAT
1 AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT -AAT AAT AAT AAT AAT
7697536 AA
1 AA
7697538 AAAATAGTGA
Statistics
Matches: 67, Mismatches: 16, Indels: 12
0.71 0.17 0.13
Matches are distributed among these distances:
2 4 0.06
3 59 0.88
4 4 0.06
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:7697550 original size:16 final size:16
Alignment explanation
Indices: 7697502--7697553 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 16
7697492 TAATAACGAT
* *
7697502 AATAATAAATA-TAAT
1 AATAAAAAATAGTAAA
* *
7697517 AATAAATAATATTAAA
1 AATAAAAAATAGTAAA
*
7697533 AATAAAAAATAGTGAA
1 AATAAAAAATAGTAAA
7697549 AATAA
1 AATAA
7697554 TATAAAAACC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
15 9 0.30
16 21 0.70
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (16 bp):
AATAAAAAATAGTAAA
Found at i:7699256 original size:14 final size:14
Alignment explanation
Indices: 7699237--7699265 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
7699227 TTGATTGTTG
7699237 AAACATGAATTGAA
1 AAACATGAATTGAA
7699251 AAACATGAATTGAA
1 AAACATGAATTGAA
7699265 A
1 A
7699266 TACTTCACCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.07, G:0.14, T:0.21
Consensus pattern (14 bp):
AAACATGAATTGAA
Found at i:7699309 original size:86 final size:85
Alignment explanation
Indices: 7699094--7699340 Score: 245
Period size: 86 Copynumber: 2.8 Consensus size: 85
7699084 CAATCTTTGT
*
7699094 CCTCGGCGTGTGACCCGAGGCTCAACTCACCTC-TAGTAATATGAGTTGACTTTTGAAAAACAAA
1 CCTCCGCGTGTGACCCGAGGCTCAACTCACCTCTTA-TAATATGAGTTGA-TTTTG-AAAACAAA
7699158 AATTAAAACAGAATTTTGAAAATA
63 AATTAAAACAGAA-TTTGAAAATA
* * * * **
7699182 CCTCCGCATG-GAGCCCGGGGTTCAACTCACCTCTCATAATATGAGTTGATTGTTG-AAACATGA
1 CCTCCGCGTGTGA-CCCGAGGCTCAACTCACCTCTTATAATATGAGTTGATT-TTGAAAACAAAA
7699245 ATTGAAAAACATGAA-TTG-AAATA
64 ATT--AAAACA-GAATTTGAAAATA
* * *
7699268 CTTCAC-CGTGTGACCCGAGGCTCAACTCACCTCTTACAATATGAGTTGATTTTTTGAAAAACAG
1 CCTC-CGCGTGTGACCCGAGGCTCAACTCACCTCTTATAATATGAGTTGA--TTTTG-AAAACAA
7699332 AAATTAAAA
62 AAATTAAAA
7699341 ATACCTCAGT
Statistics
Matches: 132, Mismatches: 15, Indels: 25
0.77 0.09 0.15
Matches are distributed among these distances:
86 52 0.39
87 17 0.13
88 50 0.38
89 13 0.10
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.27
Consensus pattern (85 bp):
CCTCCGCGTGTGACCCGAGGCTCAACTCACCTCTTATAATATGAGTTGATTTTGAAAACAAAAAT
TAAAACAGAATTTGAAAATA
Found at i:7699430 original size:75 final size:75
Alignment explanation
Indices: 7699284--7699693 Score: 567
Period size: 75 Copynumber: 5.5 Consensus size: 75
7699274 CGTGTGACCC
**
7699284 GAGGCTCAACTCACCTCTTACAATATGAGTTGA-TTTTTTGAAAAACAGAAATTAAAAATACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAATACCTC
* * *
7699348 AGTGTGAATT
66 AGCGTGTACT
* * *
7699358 GAGGCTCAACTCACCCCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAATTAAAAATACCTA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAATACCTC
*
7699423 AGCGTGAACT
66 AGCGTGTACT
* *
7699433 GAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAATACCCC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAATACCTC
*
7699498 AGCGTGTCCT
66 AGCGTGTACT
* *
7699508 GAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTG-AAAACAAAAATTAAAAATACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAATACCTC
*
7699572 AGCGTGTCCT
66 AGCGTGTACT
* * *
7699582 GAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTTTAAAAAAACAAAAATTAAAAATACC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTT-GAAAAACAGAAATTAAAAATACC
7699647 TC-G-GTGTATCCT
64 TCAGCGTGTA--CT
* * *
7699659 GAGGCTCAAGTCACCTCTCGTAATACGAGTTGATT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
7699694 ATTGGAATAA
Statistics
Matches: 306, Mismatches: 24, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
74 92 0.30
75 155 0.51
76 3 0.01
77 56 0.18
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (75 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAATACCTC
AGCGTGTACT
Found at i:7699470 original size:149 final size:148
Alignment explanation
Indices: 7699284--7699693 Score: 567
Period size: 149 Copynumber: 2.7 Consensus size: 148
7699274 CGTGTGACCC
7699284 GAGGCTCAACTCACCTCTTA-CAATATGAGTTGA-TTTTTTGAAAAACAGAAATTAAAAATACCT
1 GAGGCTCAACTCACCTC-TAGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAATACCT
* *
7699347 CAGTGTGAATTGAGGCTCAACTCACCCCTCGCAATATGAGTTGATTTTTTTGAAAA-ATAGAAAT
65 CAG-GTGTATTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACA-A-AAAT
7699411 TAAAAATACCTAAGCGTGAACT
127 TAAAAATACCTAAGCGTGAACT
*
7699433 GAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAATACCCC
1 GAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAATACCTC
** *
7699498 AGCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGAAAACAAAAATTAA
66 AG-GTGTATTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAAAAATTAA
* **
7699563 AAATACCTCAGCGTGTCCT
130 AAATACCTAAGCGTGAACT
* * * *
7699582 GAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTTTAAAAAAACAAAAATTAAAAATACC
1 GAGGCTCAACTCACCTCTAGCAATATGAGTTGA-TTTTTTT-GAAAAACAGAAATTAAAAATACC
* * *
7699647 TC-GGTGTATCCTGAGGCTCAAGTCACCTCTCGTAATACGAGTTGATT
64 TCAGGTGTAT--TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
7699694 ATTGGAATAA
Statistics
Matches: 233, Mismatches: 21, Indels: 12
0.88 0.08 0.05
Matches are distributed among these distances:
148 2 0.01
149 88 0.38
150 88 0.38
151 55 0.24
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (148 bp):
GAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAATACCTC
AGGTGTATTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAAAAATTAAA
AATACCTAAGCGTGAACT
Found at i:7700585 original size:50 final size:48
Alignment explanation
Indices: 7700491--7700588 Score: 135
Period size: 50 Copynumber: 2.0 Consensus size: 48
7700481 TCATTAGAAC
7700491 GCCCTTTCAGGTTTTCATCCTAATCTTTTGTGTTAATCAAGACGCCCT
1 GCCCTTTCAGGTTTTCATCCTAATCTTTTGTGTTAATCAAGACGCCCT
* * *
7700539 GCCCTTTTCGGGTTTTCATCTTAATTCCTTTT-TGTTTATCAAGACGCCCT
1 GCCC-TTTCAGGTTTTCATCCTAA-T-CTTTTGTGTTAATCAAGACGCCCT
7700589 TTTTGGGTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
48 4 0.09
49 17 0.39
50 18 0.41
51 5 0.11
ACGTcount: A:0.16, C:0.27, G:0.14, T:0.43
Consensus pattern (48 bp):
GCCCTTTCAGGTTTTCATCCTAATCTTTTGTGTTAATCAAGACGCCCT
Found at i:7700597 original size:45 final size:46
Alignment explanation
Indices: 7700495--7700610 Score: 130
Period size: 50 Copynumber: 2.5 Consensus size: 46
7700485 TAGAACGCCC
* *
7700495 TTTCAGGTTTTCATCCTAATCTTTTGTGTTAATCAAGACGCCCTGCCCT
1 TTTCGGGTTTTCATCTTAATCTTTTGTGTTAATCAAGACGCCCT---CT
*
7700544 TTTCGGGTTTTCATCTTAATTCCTTTT-TGTTTATCAAGACGCCCT-T
1 TTTCGGGTTTTCATCTTAA-T-CTTTTGTGTTAATCAAGACGCCCTCT
*
7700590 TTT-GGGTTTTCATCTTGATCT
1 TTTCGGGTTTTCATCTTAATCT
7700611 CTTTTTTTTT
Statistics
Matches: 61, Mismatches: 4, Indels: 10
0.81 0.05 0.13
Matches are distributed among these distances:
43 2 0.03
44 1 0.02
45 14 0.23
46 4 0.07
49 17 0.28
50 18 0.30
51 5 0.08
ACGTcount: A:0.16, C:0.22, G:0.15, T:0.47
Consensus pattern (46 bp):
TTTCGGGTTTTCATCTTAATCTTTTGTGTTAATCAAGACGCCCTCT
Found at i:7711935 original size:25 final size:25
Alignment explanation
Indices: 7711906--7712024 Score: 111
Period size: 26 Copynumber: 4.7 Consensus size: 25
7711896 AGGTATATAC
* *
7711906 ATAGTATTATAAATATGTACATAAT
1 ATAGTATTAAAAATATATACATAAT
7711931 ATAGTTATTAAAAATATATACATAAAAT
1 ATAG-TATTAAAAATATATACAT--AAT
* *
7711959 AATATGT-TTAATATATATATAAATAAT
1 -ATA-GTATTAA-AAATATATACATAAT
*
7711986 ATAGTATTAAAAATATATACATGAT
1 ATAGTATTAAAAATATATACATAAT
7712011 ATA-TA-T-AAAATATA
1 ATAGTATTAAAAATATA
7712025 ATATTAAATC
Statistics
Matches: 80, Mismatches: 7, Indels: 17
0.77 0.07 0.16
Matches are distributed among these distances:
22 8 0.10
23 1 0.01
24 2 0.03
25 21 0.26
26 23 0.29
27 3 0.04
28 7 0.09
29 14 0.17
30 1 0.01
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.39
Consensus pattern (25 bp):
ATAGTATTAAAAATATATACATAAT
Found at i:7711987 original size:13 final size:13
Alignment explanation
Indices: 7711942--7712103 Score: 78
Period size: 13 Copynumber: 12.9 Consensus size: 13
7711932 TAGTTATTAA
*
7711942 AAAT-ATATACAT
1 AAATAATATATAT
*
7711954 AAAATAATATGT-T
1 -AAATAATATATAT
*
7711967 TAAT-ATATATAT
1 AAATAATATATAT
7711979 AAATAATATAGTAT
1 AAATAATATA-TAT
*
7711993 TAA-AA-ATATAT
1 AAATAATATATAT
* *
7712004 ACATGATATATAT
1 AAATAATATATAT
7712017 -AA-AATATAATATT
1 AAATAATAT-ATA-T
*
7712030 AAATCGATATATAT
1 AAAT-AATATATAT
*
7712044 AAGTAATATATAT
1 AAATAATATATAT
*
7712057 AAA-AA-ATGTAT
1 AAATAATATATAT
*
7712068 ACATAATATAGTAT
1 AAATAATATA-TAT
*
7712082 TAA-AATAT-T-T
1 AAATAATATATAT
*
7712092 ACATAATATATA
1 AAATAATATATA
7712104 CATATTAGAA
Statistics
Matches: 110, Mismatches: 22, Indels: 34
0.66 0.13 0.20
Matches are distributed among these distances:
10 2 0.02
11 26 0.24
12 20 0.18
13 36 0.33
14 19 0.17
15 3 0.03
16 4 0.04
ACGTcount: A:0.55, C:0.03, G:0.04, T:0.38
Consensus pattern (13 bp):
AAATAATATATAT
Found at i:7712194 original size:21 final size:20
Alignment explanation
Indices: 7712168--7712222 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 20
7712158 ATAGACATAT
*
7712168 ATATATATTAAAGATATATAC
1 ATATATATTAAA-ACATATAC
*
7712189 ATATATAATAAAACATATAC
1 ATATATATTAAAACATATAC
7712209 -TA-ATATTAATAACA
1 ATATATATTAA-AACA
7712223 AATATAATAG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 6 0.20
19 6 0.20
20 7 0.23
21 11 0.37
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.35
Consensus pattern (20 bp):
ATATATATTAAAACATATAC
Found at i:7712408 original size:3 final size:3
Alignment explanation
Indices: 7712400--7712476 Score: 52
Period size: 3 Copynumber: 26.0 Consensus size: 3
7712390 TAATTGAAAC
** ** *
7712400 TAA TAA TAA TAA TTC TAA TAA TGG TAA -AGA T-A TAC TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA
**
7712444 TAA TAA TAA CGA TAA TAA TAA -ATA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA
7712477 ATAACATTAA
Statistics
Matches: 55, Mismatches: 14, Indels: 10
0.70 0.18 0.13
Matches are distributed among these distances:
2 4 0.07
3 50 0.91
4 1 0.02
ACGTcount: A:0.58, C:0.04, G:0.05, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:7712477 original size:12 final size:12
Alignment explanation
Indices: 7712429--7712479 Score: 59
Period size: 12 Copynumber: 4.2 Consensus size: 12
7712419 AATGGTAAAG
*
7712429 ATATACTAAT-A
1 ATATAATAATAA
7712440 ATAATAATAATAA
1 AT-ATAATAATAA
**
7712453 CGATAATAATAA
1 ATATAATAATAA
7712465 ATATAATAATAA
1 ATATAATAATAA
7712477 ATA
1 ATA
7712480 ACATTAAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
11 2 0.06
12 30 0.91
13 1 0.03
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (12 bp):
ATATAATAATAA
Found at i:7717170 original size:17 final size:18
Alignment explanation
Indices: 7717121--7717172 Score: 52
Period size: 19 Copynumber: 2.9 Consensus size: 18
7717111 CAAAAAAAAA
* *
7717121 TTTATATATTCTTTAGATT
1 TTTATAGATTTTTTA-ATT
* *
7717140 TTTTTAGAATTTTTAATT
1 TTTATAGATTTTTTAATT
7717158 TTTATA-ATTTTTTAA
1 TTTATAGATTTTTTAA
7717173 AAATATAATT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
17 8 0.30
18 8 0.30
19 11 0.41
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (18 bp):
TTTATAGATTTTTTAATT
Found at i:7720630 original size:21 final size:21
Alignment explanation
Indices: 7720604--7720645 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
7720594 AACATGAGTA
7720604 TAAAAATAATTAATTTTAATT
1 TAAAAATAATTAATTTTAATT
7720625 TAAAAATAATTAATTTTAATT
1 TAAAAATAATTAATTTTAATT
7720646 ATGAAGTATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TAAAAATAATTAATTTTAATT
Found at i:7724137 original size:13 final size:13
Alignment explanation
Indices: 7724121--7724154 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
7724111 TTATTTTTTT
7724121 TATTTTTCAT-GTC
1 TATTTTT-ATGGTC
7724134 TATTTTTATGGTC
1 TATTTTTATGGTC
7724147 TATTTTTA
1 TATTTTTA
7724155 GAGTTCGAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 2 0.10
13 18 0.90
ACGTcount: A:0.18, C:0.09, G:0.09, T:0.65
Consensus pattern (13 bp):
TATTTTTATGGTC
Found at i:7734994 original size:7 final size:6
Alignment explanation
Indices: 7734967--7734992 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
7734957 AATATAATTT
7734967 AATAAA AATAAA AATAAA AATAAA AA
1 AATAAA AATAAA AATAAA AATAAA AA
7734993 ATTTAATCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AATAAA
Found at i:7738211 original size:34 final size:34
Alignment explanation
Indices: 7738168--7738235 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
7738158 TCAAATCTTA
7738168 GTATAAACTCAATTATCCTTTAACAATCATATAT
1 GTATAAACTCAATTATCCTTTAACAATCATATAT
7738202 GTATAAACTCAATTATCCTTTAACAATCATATAT
1 GTATAAACTCAATTATCCTTTAACAATCATATAT
7738236 AATTTTAGCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.41, C:0.18, G:0.03, T:0.38
Consensus pattern (34 bp):
GTATAAACTCAATTATCCTTTAACAATCATATAT
Found at i:7742321 original size:30 final size:29
Alignment explanation
Indices: 7742281--7742337 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 29
7742271 TTATTCTAAC
7742281 ACTATTATTAT-TTATCTATTTATATTTCA
1 ACTATTATTATATT-TCTATTTATATTTCA
*
7742310 ACTATTTATTATATTTCTATTTCTATTT
1 ACTA-TTATTATATTTCTATTTATATTT
7742338 ATATACTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 4 0.16
30 19 0.76
31 2 0.08
ACGTcount: A:0.28, C:0.11, G:0.00, T:0.61
Consensus pattern (29 bp):
ACTATTATTATATTTCTATTTATATTTCA
Found at i:7742339 original size:18 final size:18
Alignment explanation
Indices: 7742295--7742354 Score: 54
Period size: 17 Copynumber: 3.4 Consensus size: 18
7742285 TTATTATTTA
*
7742295 TCTATTTATATTTCAACTAT
1 TCTATTTATATTTCTA-T-T
7742315 T-TA-TTATATTTCTATT
1 TCTATTTATATTTCTATT
*
7742331 TCTATTTATA-TACTATT
1 TCTATTTATATTTCTATT
*
7742348 ACTATTT
1 TCTATTT
7742355 TCATTATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
16 2 0.06
17 15 0.43
18 15 0.43
19 2 0.06
20 1 0.03
ACGTcount: A:0.28, C:0.12, G:0.00, T:0.60
Consensus pattern (18 bp):
TCTATTTATATTTCTATT
Found at i:7742352 original size:23 final size:21
Alignment explanation
Indices: 7742311--7742354 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 21
7742301 TATATTTCAA
*
7742311 CTATTTATTATATTTCTATTT
1 CTATTTATTATATTACTATTT
7742332 CTATTTATATACTATTACTATTT
1 CTATTTAT-TA-TATTACTATTT
7742355 TCATTATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 8 0.40
22 2 0.10
23 10 0.50
ACGTcount: A:0.27, C:0.11, G:0.00, T:0.61
Consensus pattern (21 bp):
CTATTTATTATATTACTATTT
Found at i:7744596 original size:19 final size:19
Alignment explanation
Indices: 7744572--7744617 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
7744562 CTATCTTTCT
7744572 TTTGCATT-CATCCCATGCA
1 TTTGCATTGCATCCCAT-CA
**
7744591 TTTGCATTGCATTGCATCA
1 TTTGCATTGCATCCCATCA
7744610 TTTGCATT
1 TTTGCATT
7744618 AGATTTTCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.20, C:0.24, G:0.13, T:0.43
Consensus pattern (19 bp):
TTTGCATTGCATCCCATCA
Found at i:7748730 original size:21 final size:21
Alignment explanation
Indices: 7748705--7748744 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
7748695 TGGGATAAAG
*
7748705 AAGATGATTTTCTGTCAAAAA
1 AAGATAATTTTCTGTCAAAAA
7748726 AAGATAATTTTCTGTCAAA
1 AAGATAATTTTCTGTCAAA
7748745 GATACTAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.35
Consensus pattern (21 bp):
AAGATAATTTTCTGTCAAAAA
Found at i:7749276 original size:44 final size:43
Alignment explanation
Indices: 7749226--7749546 Score: 163
Period size: 44 Copynumber: 7.3 Consensus size: 43
7749216 TCCTATCTCT
*
7749226 CTAAGCAGCAGTGGAGTAGGTTGAGGACAGTAAGCCTTATCCCC
1 CTAAGCAGTAGTGGAGTAGGTTGA-GACAGTAAGCCTTATCCCC
* * * * * *
7749270 CTAAGCAGTAG-GGAAATAGGCTGA-AAATTACAGATCTTATCTCC
1 CTAAGCAGTAGTGG-AGTAGGTTGAGACAGTA-AG-CCTTATCCCC
* * *
7749314 CTAAGCAGTAGTGGAGTAGATCGAAGACGGTAAGCCTTATCCCC
1 CTAAGCAGTAGTGGAGTAGGTTG-AGACAGTAAGCCTTATCCCC
* * * * *
7749358 CTAAGCAGTAG-GGAAG-AGGCTGA-AAATGATAGACCACCCTATCTCC
1 CTAAGCAGTAGTGG-AGTAGGTTGAGACA-G-TA-A--GCCTTATCCCC
* * *
7749404 CTAAGCAGTAATGGAGTAGGTTGAAGACGGTGAGCCTTATCCCC
1 CTAAGCAGTAGTGGAGTAGGTTG-AGACAGTAAGCCTTATCCCC
* * * * ** *
7749448 CTAAGCAGTAG-GGAAATAGGCTGA-AAATTACAAATCTTATCTCC
1 CTAAGCAGTAGTGG-AGTAGGTTGAGACAGT--AAGCCTTATCCCC
* * * *
7749492 CTAAGCAGTAGTGGAGCAGATCGAAGAC-GATGAGCCTTATCCCC
1 CTAAGCAGTAGTGGAGTAGGTTG-AGACAG-TAAGCCTTATCCCC
*
7749536 CTAAACAGTAG
1 CTAAGCAGTAG
7749547 GGAAACAGGC
Statistics
Matches: 200, Mismatches: 54, Indels: 46
0.67 0.18 0.15
Matches are distributed among these distances:
41 1 0.00
42 8 0.04
43 14 0.07
44 132 0.66
45 8 0.04
46 26 0.13
47 8 0.04
48 2 0.01
49 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.21
Consensus pattern (43 bp):
CTAAGCAGTAGTGGAGTAGGTTGAGACAGTAAGCCTTATCCCC
Found at i:7749350 original size:88 final size:88
Alignment explanation
Indices: 7749219--7749717 Score: 599
Period size: 88 Copynumber: 5.6 Consensus size: 88
7749209 CAGACCATCC
* * * * * * *
7749219 TATCTCTCTAAGCAGCAGTGGAGTAGGTTGAGGACAGTAAGCCTTATCCCCCTAAGCAGTAGGGA
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTAAGCCTTATCCCCCTAAGCAGTAGGGA
*
7749284 AATAGGCTGAAAATTACAGATCT
66 AACAGGCTGAAAATTACAGATCT
*
7749307 TATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGTAAGCCTTATCCCCCTAAGCAGTAGGG-
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTAAGCCTTATCCCCCTAAGCAGTAGGGA
* * * * *
7749371 AAGAGGCTGAAAATGATAGACCACCC
66 AACAGGCTGAAAAT--TACA-GATCT
* * * * *
7749397 TATCTCCCTAAGCAGTAATGGAGTAGGTTGAAGACGGTGAGCCTTATCCCCCTAAGCAGTAGGGA
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTAAGCCTTATCCCCCTAAGCAGTAGGGA
* *
7749462 AATAGGCTGAAAATTACAAATCT
66 AACAGGCTGAAAATTACAGATCT
* * *
7749485 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGATGAGCCTTATCCCCCTAAACAGTAGGGA
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTAAGCCTTATCCCCCTAAGCAGTAGGGA
*
7749550 AACAGGCT-AGAAGTTACAGATCT
66 AACAGGCTGA-AAATTACAGATCT
* * * * *
7749573 TATCTCCCTAAGTAGTAGTGGAGCATATCGAAGA-GCGTGAGCCTTATCTCCCTAAGCAGTAGAG
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACG-GTAAGCCTTATCCCCCTAAGCAGTAGGG
7749637 AAACAGGCTGAAAATTACAGATCT
65 AAACAGGCTGAAAATTACAGATCT
* * * * * * *
7749661 TATATCCCTAAGTAGTAGTGGAACAGATAGCAGACGGTAATCCTTATCTCCCTAAGC
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTAAGCCTTATCCCCCTAAGC
7749718 CTTATCTCCA
Statistics
Matches: 360, Mismatches: 43, Indels: 16
0.86 0.10 0.04
Matches are distributed among these distances:
87 15 0.04
88 262 0.73
89 8 0.02
90 62 0.17
91 13 0.04
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.23
Consensus pattern (88 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTAAGCCTTATCCCCCTAAGCAGTAGGGA
AACAGGCTGAAAATTACAGATCT
Found at i:7749497 original size:178 final size:179
Alignment explanation
Indices: 7749193--7749717 Score: 691
Period size: 178 Copynumber: 3.0 Consensus size: 179
7749183 AACCGTAACG
* * * * * * *
7749193 AACAAGCTGAAAATGACAGACCATCCTATCTCTCTAAGCAGCAGTGGAGTAGGTTGAGGACAGTA
1 AACAGGCTGAAAATGATAGACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGACGGTG
7749258 AGCCTTATCCCCCTAAGCAGTAGGGAAATAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGT
66 AGCCTTATCCCCCTAAGCAGTAGGGAAATAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGT
*
7749323 AGTGGAGTAGATCGAAGACGGTAAGCCTTATCCCCCTAAGCAGTAGGG-
131 AGTGGAGCAGATCGAAGACGGTAAGCCTTATCCCCCTAAGCAGTAGGGA
* * *
7749371 AAGAGGCTGAAAATGATAGACCACCCTATCTCCCTAAGCAGTAATGGAGTAGGTTGAAGACGGTG
1 AACAGGCTGAAAATGATAGACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGACGGTG
*
7749436 AGCCTTATCCCCCTAAGCAGTAGGGAAATAGGCTGAAAATTACAAATCTTATCTCCCTAAGCAGT
66 AGCCTTATCCCCCTAAGCAGTAGGGAAATAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGT
* * *
7749501 AGTGGAGCAGATCGAAGACGATGAGCCTTATCCCCCTAAACAGTAGGGA
131 AGTGGAGCAGATCGAAGACGGTAAGCCTTATCCCCCTAAGCAGTAGGGA
* * * * * * * ** *
7749550 AACAGGCT-AGAA-GTTACA-GATCTTATCTCCCTAAGTAGTAGTGGAGCATATCGAAGA-GCGT
1 AACAGGCTGAAAATGATAGACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGACG-GT
* * * * *
7749611 GAGCCTTATCTCCCTAAGCAGTAGAGAAACAGGCTGAAAATTACAGATCTTATATCCCTAAGTAG
65 GAGCCTTATCCCCCTAAGCAGTAGGGAAATAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAG
* * * * *
7749676 TAGTGGAACAGATAGCAGACGGTAATCCTTATCTCCCTAAGC
130 TAGTGGAGCAGATCGAAGACGGTAAGCCTTATCCCCCTAAGC
7749718 CTTATCTCCA
Statistics
Matches: 303, Mismatches: 42, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
175 1 0.00
176 125 0.41
177 4 0.01
178 166 0.55
179 7 0.02
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.22
Consensus pattern (179 bp):
AACAGGCTGAAAATGATAGACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGACGGTG
AGCCTTATCCCCCTAAGCAGTAGGGAAATAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGT
AGTGGAGCAGATCGAAGACGGTAAGCCTTATCCCCCTAAGCAGTAGGGA
Found at i:7749663 original size:44 final size:44
Alignment explanation
Indices: 7749261--7749683 Score: 149
Period size: 44 Copynumber: 9.5 Consensus size: 44
7749251 GACAGTAAGC
* *
7749261 CTTATCCCCCTAAGCAGTAGGGAAATAGGCTGAAAATTACAGAT
1 CTTATCTCCCTAAGCAGTAGGGAAACAGGCTGAAAATTACAGAT
** * ** *
7749305 CTTATCTCCCTAAGCAGTAGTGG-AGTA-GATCGAAGACGGTA-AG-C
1 CTTATCTCCCTAAGCAGTAG-GGAAACAGGCT-GAA-A-ATTACAGAT
* * * * *
7749349 CTTATCCCCCTAAGCAGTAGGG-AAGAGGCTGAAAATGATAGACCAC
1 CTTATCTCCCTAAGCAGTAGGGAAACAGGCTGAAAAT--TACA-GAT
* * ** * ** * *
7749395 CCTATCTCCCTAAGCAGTAATGG-AGTAGGTTGAAGACGGT-GAG-C
1 CTTATCTCCCTAAGCAGT-AGGGAAACAGGCTGAA-A-ATTACAGAT
* * *
7749439 CTTATCCCCCTAAGCAGTAGGGAAATAGGCTGAAAATTACAAAT
1 CTTATCTCCCTAAGCAGTAGGGAAACAGGCTGAAAATTACAGAT
* * * ** * *
7749483 CTTATCTCCCTAAGCAGTAGTGG-AGCA-GATCGAAGACGA-TGAGC
1 CTTATCTCCCTAAGCAGTAG-GGAAACAGGCT-GAAAATTACAGA-T
* * *
7749527 CTTATCCCCCTAAACAGTAGGGAAACAGGCT-AGAAGTTACAGAT
1 CTTATCTCCCTAAGCAGTAGGGAAACAGGCTGA-AAATTACAGAT
* * ** * * * *
7749571 CTTATCTCCCTAAGTAGTAGTGG-AGCA-TATCGAAGA--GCGTGAGC
1 CTTATCTCCCTAAGCAGTAG-GGAAACAGGCT-GAAAATTAC-AGA-T
*
7749615 CTTATCTCCCTAAGCAGTAGAGAAACAGGCTGAAAATTACAGAT
1 CTTATCTCCCTAAGCAGTAGGGAAACAGGCTGAAAATTACAGAT
* *
7749659 CTTATATCCCTAAGTAGTAGTGGAA
1 CTTATCTCCCTAAGCAGTAG-GGAA
7749684 CAGATAGCAG
Statistics
Matches: 271, Mismatches: 75, Indels: 65
0.66 0.18 0.16
Matches are distributed among these distances:
42 3 0.01
43 26 0.10
44 187 0.69
45 20 0.07
46 22 0.08
47 12 0.04
48 1 0.00
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.22
Consensus pattern (44 bp):
CTTATCTCCCTAAGCAGTAGGGAAACAGGCTGAAAATTACAGAT
Found at i:7752001 original size:105 final size:101
Alignment explanation
Indices: 7751892--7752085 Score: 246
Period size: 105 Copynumber: 1.9 Consensus size: 101
7751882 CTTGTAATGT
* *
7751892 CATAACCTAGTTATGGTCTTATCATCAGG-ATGTCATAGCCCAACTATGGTCTTACACTTATACA
1 CATAACCCAGTTATGATCTTATCA-CAGGAATGTCATAGCCCAACTATGGTCTTACA-TT-TA-A
7751956 TACACTACCATGGTCCAACCATGGTCTTACAATCACGATGC
62 -ACACTACCATGGTCCAACCATGGTCTTACAATCACGATGC
* * * ** * *
7751997 CATAACCCAGTTATGATCTTTTCACTGGAATGTCATTGCCCAGTTATGGTCTTACATTTAAATAT
1 CATAACCCAGTTATGATCTTATCACAGGAATGTCATAGCCCAACTATGGTCTTACATTTAAACAC
*
7752062 TGCCATGGTCCAACCATGGTCTTA
66 TACCATGGTCCAACCATGGTCTTA
7752086 TCCGTAAATT
Statistics
Matches: 78, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
101 25 0.32
102 1 0.01
103 2 0.03
104 5 0.06
105 45 0.58
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (101 bp):
CATAACCCAGTTATGATCTTATCACAGGAATGTCATAGCCCAACTATGGTCTTACATTTAAACAC
TACCATGGTCCAACCATGGTCTTACAATCACGATGC
Found at i:7753078 original size:36 final size:36
Alignment explanation
Indices: 7753031--7753103 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
7753021 CTCCTCCAGC
7753031 AAGCAAATAAACATAACTTGATATGGATTTCATGCT
1 AAGCAAATAAACATAACTTGATATGGATTTCATGCT
*
7753067 AAGCAGATAAACATAACTTGATATGGATTTCATGCT
1 AAGCAAATAAACATAACTTGATATGGATTTCATGCT
7753103 A
1 A
7753104 TCTTGGCATC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.30
Consensus pattern (36 bp):
AAGCAAATAAACATAACTTGATATGGATTTCATGCT
Found at i:7758822 original size:3 final size:3
Alignment explanation
Indices: 7758807--7758838 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
7758797 TTTCAGTTCA
*
7758807 TTC TTC ATC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
7758839 TGCTCTGCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.03, C:0.31, G:0.00, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:7762665 original size:27 final size:27
Alignment explanation
Indices: 7762607--7762669 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
7762597 CATTATCGAG
* * *
7762607 GGGACCCGACATGAACCCTCTCTCGAT
1 GGGACCCGACATAAACCCTCTCTCCAA
* *
7762634 CGGACCCGACATAAACCCTCTTTCCAA
1 GGGACCCGACATAAACCCTCTCTCCAA
7762661 GGGACCCGA
1 GGGACCCGA
7762670 ACCTGAAACT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.25, C:0.38, G:0.21, T:0.16
Consensus pattern (27 bp):
GGGACCCGACATAAACCCTCTCTCCAA
Found at i:7767604 original size:12 final size:12
Alignment explanation
Indices: 7767587--7767612 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
7767577 TTATATTGTG
7767587 AAATATTATGTT
1 AAATATTATGTT
7767599 AAATATTATGTT
1 AAATATTATGTT
7767611 AA
1 AA
7767613 TAATACTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (12 bp):
AAATATTATGTT
Found at i:7776044 original size:24 final size:22
Alignment explanation
Indices: 7776017--7776061 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
7776007 ATATAATTTT
7776017 TTATAATTATACATTTAAAAATAA
1 TTATAATT-TA-ATTTAAAAATAA
*
7776041 TTATAATTTAATTTACAAATA
1 TTATAATTTAATTTAAAAATA
7776062 TTACTTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 10 0.50
23 2 0.10
24 8 0.40
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (22 bp):
TTATAATTTAATTTAAAAATAA
Found at i:7776201 original size:21 final size:22
Alignment explanation
Indices: 7776163--7776220 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 22
7776153 TTTAAAACAA
7776163 ATATT-TTTATTTTTACAT-TT
1 ATATTATTTATTTTTACATATT
7776183 ATATTATTT-TTTATTACATATT
1 ATATTATTTATTT-TTACATATT
*
7776205 A-ATTATATATTATTTA
1 ATATTATTTATT-TTTA
7776221 AAAGTTATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
20 8 0.25
21 15 0.47
22 8 0.25
23 1 0.03
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (22 bp):
ATATTATTTATTTTTACATATT
Found at i:7777332 original size:48 final size:48
Alignment explanation
Indices: 7777251--7777343 Score: 150
Period size: 48 Copynumber: 1.9 Consensus size: 48
7777241 TTAGGGGATA
* *
7777251 CATTAATTTGGCTTCGGGCCATGATATCGGCACTTCGAGTGCGAGCTT
1 CATTAATTTGGCTTCGGGCCATGATATCAGCACTTAGAGTGCGAGCTT
* *
7777299 CATTGATTTGGCTTCGGGCCATGATATTAGCACTTAGAGTGCGAG
1 CATTAATTTGGCTTCGGGCCATGATATCAGCACTTAGAGTGCGAG
7777344 ATTCCTGAGT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.31
Consensus pattern (48 bp):
CATTAATTTGGCTTCGGGCCATGATATCAGCACTTAGAGTGCGAGCTT
Found at i:7779301 original size:12 final size:12
Alignment explanation
Indices: 7779274--7779307 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
7779264 TTTATGTAAA
7779274 CTAATTTTATTT
1 CTAATTTTATTT
*
7779286 -TAATTTTTTTT
1 CTAATTTTATTT
7779297 CTAATTTTATT
1 CTAATTTTATT
7779308 AATATAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.71
Consensus pattern (12 bp):
CTAATTTTATTT
Found at i:7785717 original size:22 final size:22
Alignment explanation
Indices: 7785675--7785747 Score: 76
Period size: 22 Copynumber: 3.3 Consensus size: 22
7785665 TATCTAAAAG
* *
7785675 AATAACAACAAAATATTAGCAA
1 AATAACAACAAAATGTCAGCAA
* * *
7785697 TATAATAGCAAAATGTCAGCAA
1 AATAACAACAAAATGTCAGCAA
7785719 AATAACAACAAAATGGT-AGCAA
1 AATAACAACAAAAT-GTCAGCAA
*
7785741 AAAAACA
1 AATAACA
7785748 GCAGGAGAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
22 39 0.95
23 2 0.05
ACGTcount: A:0.60, C:0.14, G:0.10, T:0.16
Consensus pattern (22 bp):
AATAACAACAAAATGTCAGCAA
Found at i:7789212 original size:3 final size:3
Alignment explanation
Indices: 7789204--7789238 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
7789194 GTCTCACCAC
7789204 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
7789239 AACTTTCCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:7793087 original size:176 final size:177
Alignment explanation
Indices: 7792790--7793143 Score: 593
Period size: 176 Copynumber: 2.0 Consensus size: 177
7792780 ACATGTCATC
7792790 ATCATGTGAGGCCAAATAAAGGCCAAAAAAACTTATTATTTCAAAAGATCATGTCTTGTCTTGCC
1 ATCATGTGAGGCCAAATAAAGGCCAAAAAAACTTATTATTTCAAAAGATCATGTCTTGTCTTGCC
* * * * *
7792855 AAAATAAATAACCAATTGCTAGTAAAAAAGAAGCTCTAGAGCATAACCAGCGATATGGGTGACAA
66 AAAAAAAAAAACCAATTGCTAGCAAAAAAGAAGCTCTAGAGCATAAACAACGATATGGGTGACAA
*
7792920 ATGACTACTCAACGATAAAACCACCGGCTACCATTAACAATCTAAAA
131 ATGACTACTCAACAATAAAACCACCGGCTACCATTAACAATCTAAAA
* *
7792967 ATCATGTGAGGCCAAATAAAGGCC-AAAAAACTTATTATTTTAAAAGATCTTGTCTTGTCTTGCC
1 ATCATGTGAGGCCAAATAAAGGCCAAAAAAACTTATTATTTCAAAAGATCATGTCTTGTCTTGCC
* *
7793031 AAAAAAAAAAACCAATTGCTAGCAAAAGAGAAGCTCTAGAGCATAAACAACGATATGGGTGACGA
66 AAAAAAAAAAACCAATTGCTAGCAAAAAAGAAGCTCTAGAGCATAAACAACGATATGGGTGACAA
* *
7793096 ATGACTACTTAACAATAAAACCACTGGCTACCATTAACAATCTAAAA
131 ATGACTACTCAACAATAAAACCACCGGCTACCATTAACAATCTAAAA
7793143 A
1 A
7793144 AGCTCTAGAG
Statistics
Matches: 165, Mismatches: 12, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
176 141 0.85
177 24 0.15
ACGTcount: A:0.44, C:0.19, G:0.15, T:0.23
Consensus pattern (177 bp):
ATCATGTGAGGCCAAATAAAGGCCAAAAAAACTTATTATTTCAAAAGATCATGTCTTGTCTTGCC
AAAAAAAAAAACCAATTGCTAGCAAAAAAGAAGCTCTAGAGCATAAACAACGATATGGGTGACAA
ATGACTACTCAACAATAAAACCACCGGCTACCATTAACAATCTAAAA
Found at i:7796948 original size:27 final size:27
Alignment explanation
Indices: 7796917--7796969 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
7796907 CCACTTAATC
*
7796917 GGGGAATCAGCACTTAGCAACCCCTTG
1 GGGGAATCAGCACATAGCAACCCCTTG
7796944 GGGGAATCAGCACATAGCAACCCCTT
1 GGGGAATCAGCACATAGCAACCCCTT
7796970 TTTATTTCAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.28, C:0.30, G:0.25, T:0.17
Consensus pattern (27 bp):
GGGGAATCAGCACATAGCAACCCCTTG
Found at i:7797060 original size:102 final size:104
Alignment explanation
Indices: 7796884--7797147 Score: 408
Period size: 102 Copynumber: 2.6 Consensus size: 104
7796874 AACCGTTATT
* * * *
7796884 GGTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
** *
7796949 ATCAGCACATAGCAA-CCCCTTT-TTATTTCAGAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
7796986 GGTGGATATCGCACTTAGCACCACCAATGAA-CTGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 GGTGGATATCGCACTTAGCACCACCAATGAATC-GGGGAATCAGCACTTAGCAACCCCTCGGGGG
7797050 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
65 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
* **
7797090 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
7797148 TTATGTACAA
Statistics
Matches: 148, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
101 1 0.01
102 74 0.50
103 7 0.05
104 65 0.44
105 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.20
Consensus pattern (104 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
Found at i:7797508 original size:30 final size:29
Alignment explanation
Indices: 7797474--7797538 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
7797464 TAATCCACCA
7797474 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
7797504 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
7797534 CCCAA
1 CCCAA
7797539 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:7797512 original size:31 final size:30
Alignment explanation
Indices: 7797481--7797538 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
7797471 CCACCCAACT
7797481 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
7797511 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
7797539 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:7808457 original size:18 final size:18
Alignment explanation
Indices: 7808434--7808486 Score: 106
Period size: 18 Copynumber: 2.9 Consensus size: 18
7808424 CCATTTCTGA
7808434 AGATTGGAAGCAACCTTC
1 AGATTGGAAGCAACCTTC
7808452 AGATTGGAAGCAACCTTC
1 AGATTGGAAGCAACCTTC
7808470 AGATTGGAAGCAACCTT
1 AGATTGGAAGCAACCTT
7808487 TACAAGTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.23
Consensus pattern (18 bp):
AGATTGGAAGCAACCTTC
Found at i:7812818 original size:17 final size:18
Alignment explanation
Indices: 7812787--7812822 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
7812777 ATTAAATTTA
7812787 ATTAGAATATATAAATAT
1 ATTAGAATATATAAATAT
*
7812805 ATTA-AATATTTAAATAT
1 ATTAGAATATATAAATAT
7812822 A
1 A
7812823 ATAATTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (18 bp):
ATTAGAATATATAAATAT
Found at i:7812831 original size:21 final size:23
Alignment explanation
Indices: 7812795--7812836 Score: 70
Period size: 21 Copynumber: 1.9 Consensus size: 23
7812785 TAATTAGAAT
7812795 ATATAAATATATTAAATATTTAA
1 ATATAAATATATTAAATATTTAA
7812818 ATAT-AATA-ATTAAATATTT
1 ATATAAATATATTAAATATTT
7812837 GTAATTAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 11 0.58
22 4 0.21
23 4 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
ATATAAATATATTAAATATTTAA
Found at i:7817027 original size:42 final size:42
Alignment explanation
Indices: 7816979--7817063 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 42
7816969 TAAAATAAAG
* *
7816979 ATTTTGTTGCGTTATCGCAACTCTTTCCTTAAATAAATCTTA
1 ATTTTGTTGCATTATAGCAACTCTTTCCTTAAATAAATCTTA
*** *
7817021 ATTTTGTTGCATTATAGCTGTTCTTTCCTTGAATAAATCTTA
1 ATTTTGTTGCATTATAGCAACTCTTTCCTTAAATAAATCTTA
7817063 A
1 A
7817064 GCTCTTTATT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.26, C:0.16, G:0.11, T:0.47
Consensus pattern (42 bp):
ATTTTGTTGCATTATAGCAACTCTTTCCTTAAATAAATCTTA
Found at i:7817500 original size:12 final size:12
Alignment explanation
Indices: 7817479--7817514 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
7817469 TGACATGTTA
7817479 AAATAAAAAATT
1 AAATAAAAAATT
*
7817491 AAATATAAAATT
1 AAATAAAAAATT
7817503 AAA-AAAAAATT
1 AAATAAAAAATT
7817514 A
1 A
7817515 TAAAAATAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 8 0.36
12 14 0.64
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (12 bp):
AAATAAAAAATT
Found at i:7817516 original size:19 final size:18
Alignment explanation
Indices: 7817477--7817519 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
7817467 GCTGACATGT
7817477 TAAAATAAAAAATTAAATA
1 TAAAATAAAAAA-TAAATA
7817496 TAAAATTAAAAAA-AAATTA
1 TAAAA-TAAAAAATAAA-TA
7817515 TAAAA
1 TAAAA
7817520 ATAGAGAGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 3 0.14
19 12 0.55
20 7 0.32
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (18 bp):
TAAAATAAAAAATAAATA
Found at i:7819241 original size:11 final size:11
Alignment explanation
Indices: 7819183--7819241 Score: 73
Period size: 11 Copynumber: 5.4 Consensus size: 11
7819173 GTTTTCTCCC
*
7819183 TATTTTACTAC
1 TATTTTACTAT
7819194 TATTTTACTAT
1 TATTTTACTAT
*
7819205 TATGTTACTAT
1 TATTTTACTAT
* *
7819216 TATGTTACTAC
1 TATTTTACTAT
*
7819227 TATTTTATTAT
1 TATTTTACTAT
7819238 TATT
1 TATT
7819242 GTTTGGATAT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 42 1.00
ACGTcount: A:0.27, C:0.10, G:0.03, T:0.59
Consensus pattern (11 bp):
TATTTTACTAT
Found at i:7819452 original size:12 final size:12
Alignment explanation
Indices: 7819422--7819454 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
7819412 ATATATTTTT
7819422 AAAATT-ATATA
1 AAAATTAATATA
7819433 AAAA-TAATATA
1 AAAATTAATATA
7819444 AAAATTAATAT
1 AAAATTAATAT
7819455 GGATGGGTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:7819626 original size:13 final size:13
Alignment explanation
Indices: 7819608--7819636 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
7819598 ACACCTCTAG
7819608 TTGTGGATCATCT
1 TTGTGGATCATCT
7819621 TTGTGGATCATCT
1 TTGTGGATCATCT
7819634 TTG
1 TTG
7819637 GGCAATATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.14, C:0.14, G:0.24, T:0.48
Consensus pattern (13 bp):
TTGTGGATCATCT
Found at i:7822393 original size:21 final size:23
Alignment explanation
Indices: 7822346--7822399 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
7822336 CATTCAAGAT
**
7822346 AAAATAATATATAAAACTCTTTA
1 AAAATAATATATAAAACTAATTA
*
7822369 AAAATAATATAT-AAAC-AATTC
1 AAAATAATATATAAAACTAATTA
7822390 AAAAT-ATATA
1 AAAATAATATA
7822400 ATGTGTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.18
21 7 0.25
22 4 0.14
23 12 0.43
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.31
Consensus pattern (23 bp):
AAAATAATATATAAAACTAATTA
Found at i:7822509 original size:24 final size:26
Alignment explanation
Indices: 7822480--7822533 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 26
7822470 TGAGCGTTGT
* *
7822480 ATAAAAAGT-TAAAATAGAT-AAT-A
1 ATAAAAAATGTAAAATAAATAAATAA
7822503 ATAAAAAATGTAAAATAAATAAATAA
1 ATAAAAAATGTAAAATAAATAAATAA
7822529 ATAAA
1 ATAAA
7822534 TAGAATGTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 8 0.31
24 9 0.35
25 3 0.12
26 6 0.23
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (26 bp):
ATAAAAAATGTAAAATAAATAAATAA
Found at i:7822621 original size:18 final size:17
Alignment explanation
Indices: 7822598--7822723 Score: 68
Period size: 18 Copynumber: 7.4 Consensus size: 17
7822588 TAATATTAGT
7822598 ATATAAATAGAAATAAAA
1 ATATAAATA-AAATAAAA
*
7822616 ATAT-AAT-AAATAGAA
1 ATATAAATAAAATAAAA
* *
7822631 ATAT-AATAATAGTAGAA
1 ATATAAATAA-AATAAAA
7822648 ATATAAATAGATAA-ATAAA
1 ATATAAATA-A-AATA-AAA
* *
7822667 AT-TAGAT-AAATAATA
1 ATATAAATAAAATAAAA
* *
7822682 ATAGT-ATTAGAATAAAA
1 ATA-TAAATAAAATAAAA
*
7822699 AAATAAATATAAATAAAA
1 ATATAAATA-AAATAAAA
7822717 ATATAAA
1 ATATAAA
7822724 AATAATAGCA
Statistics
Matches: 83, Mismatches: 14, Indels: 22
0.70 0.12 0.18
Matches are distributed among these distances:
15 20 0.24
16 5 0.06
17 25 0.30
18 26 0.31
19 7 0.08
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (17 bp):
ATATAAATAAAATAAAA
Found at i:7822632 original size:15 final size:15
Alignment explanation
Indices: 7822608--7822653 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
7822598 ATATAAATAG
*
7822608 AAATAAAAATATAAT
1 AAATAGAAATATAAT
7822623 AAATAGAAATATAAT
1 AAATAGAAATATAAT
7822638 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
7822654 ATAGATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:7822663 original size:14 final size:13
Alignment explanation
Indices: 7822623--7822713 Score: 60
Period size: 14 Copynumber: 6.4 Consensus size: 13
7822613 AAAATATAAT
7822623 AAATAGA-AATATA
1 AAATAGATAA-ATA
*
7822636 ATAATAGTAGAAATA
1 A-AATAG-ATAAATA
7822651 TAAATAGATAAATA
1 -AAATAGATAAATA
7822665 AAATTAGATAAATA
1 AAA-TAGATAAATA
7822679 ATAATAGTATTAGAATA
1 A-AATAG-A-TA-AATA
*
7822696 AAA-AAATAAATA
1 AAATAGATAAATA
7822708 TAAATA
1 -AAATA
7822714 AAAATATAAA
Statistics
Matches: 65, Mismatches: 2, Indels: 21
0.74 0.02 0.24
Matches are distributed among these distances:
12 4 0.06
13 9 0.14
14 27 0.42
15 13 0.20
16 7 0.11
17 5 0.08
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (13 bp):
AAATAGATAAATA
Found at i:7822682 original size:29 final size:30
Alignment explanation
Indices: 7822618--7822739 Score: 76
Period size: 29 Copynumber: 4.2 Consensus size: 30
7822608 AAATAAAAAT
7822618 ATAATAAATAGAAATATAATAATAGTAGAA
1 ATAATAAATAGAAATATAATAATAGTAGAA
*
7822648 AT-ATAAATAGATAA-ATAA-AATTAG-ATAA
1 ATAATAAATAGA-AATATAATAA-TAGTAGAA
* * * * ** *
7822676 ATAAT-AATAGTATTAGAATAAAAAAATAA
1 ATAATAAATAGAAATATAATAATAGTAGAA
* * * *
7822705 AT-ATAAATAAAAATATAAAAATAATAGCA
1 ATAATAAATAGAAATATAATAATAGTAGAA
7822734 ATAATA
1 ATAATA
7822740 TATTAAATTA
Statistics
Matches: 69, Mismatches: 15, Indels: 16
0.69 0.15 0.16
Matches are distributed among these distances:
27 1 0.01
28 18 0.26
29 43 0.62
30 7 0.10
ACGTcount: A:0.66, C:0.01, G:0.07, T:0.27
Consensus pattern (30 bp):
ATAATAAATAGAAATATAATAATAGTAGAA
Found at i:7822726 original size:14 final size:15
Alignment explanation
Indices: 7822608--7822730 Score: 50
Period size: 14 Copynumber: 8.5 Consensus size: 15
7822598 ATATAAATAG
7822608 AAATAA-AAATATAA
1 AAATAATAAATATAA
*
7822622 TAAAT-AGAAATATAA
1 -AAATAATAAATATAA
* * *
7822637 TAATAGTAGAA-ATAT
1 AAATAATA-AATATAA
7822652 AAATAGAT-AA-ATAA
1 AAATA-ATAAATATAA
*
7822666 AATTAGATAAATAATAA
1 AAATA-ATAAAT-ATAA
* * * *
7822683 TAGTATTAGA-ATAA
1 AAATAATAAATATAA
7822697 AAA-AATAAATAT--
1 AAATAATAAATATAA
7822709 AAATAA-AAATATAA
1 AAATAATAAATATAA
7822723 AAATAATA
1 AAATAATA
7822731 GCAATAATAT
Statistics
Matches: 80, Mismatches: 16, Indels: 24
0.67 0.13 0.20
Matches are distributed among these distances:
12 9 0.11
13 6 0.08
14 29 0.36
15 23 0.29
16 6 0.08
17 7 0.09
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (15 bp):
AAATAATAAATATAA
Found at i:7824002 original size:178 final size:178
Alignment explanation
Indices: 7823703--7824325 Score: 885
Period size: 178 Copynumber: 3.5 Consensus size: 178
7823693 GTTAAGGCTC
* *
7823703 GTATCTTCAA-CTTACTCTCCTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCAT
1 GTATCTTCAATC-TGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCAT
* * * *
7823767 AGCAGATACACGGAGATAAGGCTCGCCATTTCTGATCTACTCCATAGCCGATACATGGAGATAAG
65 AGCCGATACATGGAGATAAGACTCGCCATTTCTGATCTGCTCCATAGCCGATACATGGAGATAAG
*
7823832 ATCTATAATTTGTAGTCTGCTTCCTTGCTACCTTAGGAAGATAAGACTT
130 ATCTATAATTTGTAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTT
*
7823881 GTATCTTCAATCTGCTATCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATA
1 GTATCTTCAATCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATA
* *
7823946 GCCGATACATGGAGATAAGACTCGCCATTTCTGATCTGCTCTATAGCCGATACATGGATATAAGA
66 GCCGATACATGGAGATAAGACTCGCCATTTCTGATCTGCTCCATAGCCGATACATGGAGATAAGA
* *
7824011 TCTATAATTTGCAGTCTACTTCCTTGCTACCTCAGGAAGATAAGACTT
131 TCTATAATTTGTAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTT
* * * * *
7824059 GTATCTTCAATTTGCTCTCTTACTACCTCAGAAAGATAAGGCTGATGGTTAAAATCTGCTCCATA
1 GTATCTTCAATCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATA
* * * * * *
7824124 GCCGATACATGGAGATAAGACTCACCATCTTC-AACCTGCTCCATAGTCGATATATAGAGATAAG
66 GCCGATACATGGAGATAAGACTCGCCAT-TTCTGATCTGCTCCATAGCCGATACATGGAGATAAG
* *
7824188 ATCTGTAATTT-TCAGTCTGCTTCCTTGCTACCTCAAGAAGATAAGACTT
130 ATCTATAATTTGT-AGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTT
* * * * *
7824237 GTATTTTCAA-CTTGCTCTCTTGCTACCTCAGAGAGATAAGGCTCGTGGGTAAAATTTACTCCAT
1 GTATCTTCAATC-TGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCAT
* * *
7824301 AGCCGATATATGAAGATAAAACTCG
65 AGCCGATACATGGAGATAAGACTCG
7824326 TATCTTCAAC
Statistics
Matches: 398, Mismatches: 43, Indels: 8
0.89 0.10 0.02
Matches are distributed among these distances:
178 394 0.99
179 4 0.01
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.30
Consensus pattern (178 bp):
GTATCTTCAATCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATA
GCCGATACATGGAGATAAGACTCGCCATTTCTGATCTGCTCCATAGCCGATACATGGAGATAAGA
TCTATAATTTGTAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTT
Found at i:7824413 original size:88 final size:88
Alignment explanation
Indices: 7824224--7824413 Score: 290
Period size: 88 Copynumber: 2.2 Consensus size: 88
7824214 GCTACCTCAA
* * *
7824224 GAAGATAAGACTTGTATTTTCAACTTGCTCTCTTGCTACCTCAGAGAGATAAGGCTCGTGGGTAA
1 GAAGATAAGACTCGTATCTTCAACTTGCTCTCTTGCTACCTCAGAGAGATAAGGCTCGTGGCTAA
*
7824289 AATTTACTCCATAGCCGATATAT
66 AATCTACTCCATAGCCGATATAT
* * *
7824312 GAAGATAAAACTCGTATCTTCAACTTGCTCTCTTGCTATCTCAGAGAGATAAGGCTGGTGGCTAA
1 GAAGATAAGACTCGTATCTTCAACTTGCTCTCTTGCTACCTCAGAGAGATAAGGCTCGTGGCTAA
*
7824377 AATCTGCTCCATAGCCGATATAT
66 AATCTACTCCATAGCCGATATAT
* *
7824400 GGATATAAGACTCG
1 GAAGATAAGACTCG
7824414 CCATTTCTGA
Statistics
Matches: 91, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
88 91 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (88 bp):
GAAGATAAGACTCGTATCTTCAACTTGCTCTCTTGCTACCTCAGAGAGATAAGGCTCGTGGCTAA
AATCTACTCCATAGCCGATATAT
Found at i:7824505 original size:177 final size:177
Alignment explanation
Indices: 7824312--7824818 Score: 649
Period size: 177 Copynumber: 2.9 Consensus size: 177
7824302 GCCGATATAT
* * * * *
7824312 GAAGATAAAACTCGTATCTTCAACTTGCTCTCTTGCTATCTCAGAGAGATAAGGCTGGTGGCTAA
1 GAAGATAAGACTCGTATCTTCAACCTGTTCTCTTGCTATCTCAGAGAGATAAGGCCGGTGGCTTA
* * * *
7824377 AATCTGCTCCATAGCCGATATATGGATATAAGACTCGCCATTTCTGATCTGCTCCATAGCC-ATA
66 AATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTTTTATCTGCTCCATAGCCGATA
* * * * * *
7824441 CATGGAGATAATATCTATAATTTGCAGTCTGCTT-CCTTGCTACCTTAG
131 CATAGAGATAAAATCTGTAATTTGCAGCCTG-TTACCCTACT-CCTTAG
* * * *
7824489 GAAGATAAGACTCGTATCTTCAACCTGTTCTCCTACTACCTCAGAGAGATAAGACCGGTGGCTTA
1 GAAGATAAGACTCGTATCTTCAACCTGTTCTCTTGCTATCTCAGAGAGATAAGGCCGGTGGCTTA
* * * * *
7824554 AATCTACTCCATAGTCGATACATGAAGATAAGACTCGTCATTTTTTATTTGCTCCATAGCCGATA
66 AATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTTTTATCTGCTCCATAGCCGATA
** *
7824619 CATAGAGATAAAATCTGTAATTTTTAGCCTGTTACCCTACTGCTTAG
131 CATAGAGATAAAATCTGTAATTTGCAGCCTGTTACCCTACTCCTTAG
** * * * *
7824666 GGGGTTAAGGCGCGTATCTTCAACCTATTCTCTTGCTATCTCAGAGAGATAAGGCCGGTGGCTTA
1 GAAGATAAGACTCGTATCTTCAACCTGTTCTCTTGCTATCTCAGAGAGATAAGGCCGGTGGCTTA
* * *
7824731 AATCTGCTCCATAACCGATACATGGAGATAAGACTTGCCATTTTTTATCTGCTTCATAGCCGATA
66 AATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTTTTATCTGCTCCATAGCCGATA
*
7824796 CATAGAGATAAGATCTGTAATTT
131 CATAGAGATAAAATCTGTAATTT
7824819 TCACCGATGT
Statistics
Matches: 282, Mismatches: 46, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
177 249 0.88
178 33 0.12
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (177 bp):
GAAGATAAGACTCGTATCTTCAACCTGTTCTCTTGCTATCTCAGAGAGATAAGGCCGGTGGCTTA
AATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTTTTATCTGCTCCATAGCCGATA
CATAGAGATAAAATCTGTAATTTGCAGCCTGTTACCCTACTCCTTAG
Found at i:7824807 original size:443 final size:444
Alignment explanation
Indices: 7823909--7824761 Score: 1122
Period size: 443 Copynumber: 1.9 Consensus size: 444
7823899 CTTGCTACCT
7823909 CAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCAT
1 CAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCAT
* *
7823974 TTCTGATCTGCTCTATAGCCGATACATGGATATAAGATCTATAATTTGCAGTCTACTTCCTTGCT
66 TTCTGATCTGCTCCATAGCCGATACATGGAGATAAGATCTATAATTTGCAGTCTACTTCCTTGCT
* ** * * *
7824039 ACCTCAGGAAGATAAGACTTGTATCTTCAATTTGCTCTCTTACTACCTCAGAAAGATAAGGCTGA
131 ACCTCAGGAAGATAAGACTCGTATCTTCAACCTGCTCTCCTACTACCTCAGAAAGATAAGACCGA
* *
7824104 TGGTTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCACCATCTTCAACCTGCTCCATA
196 TGGTTAAAATCTACTCCATAGCCGATACATGAAGATAAGACTCACCATCTTCAACCTGCTCCATA
* * * * * *
7824169 GTCGATATATAGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTCAAGAAGATAAGA
261 GCCGATACATAGAGATAAAATCTGTAATTTTCAGCCTGCTTCCCTACTACCTCAAGAAGATAAGA
** * * * * *
7824234 CTTGTATTTTCAACTTGCTCTCTTGCTACCTCAGAGAGATAAGGCTCGTGGGTAAAATTTACTCC
326 CGCGTATCTTCAACCTACTCTCTTGCTACCTCAGAGAGATAAGGCTCGTGGCTAAAATCTACTCC
* * * * * *
7824299 ATAGCCGATATATGAAGATAAAACTCGTATCTTCAACTTGCTCTCTTGCTATCT
391 ATAACCGATACATGAAGATAAAACTCGCATCTTCAACTTGCTCTCTAGCGATCA
* *
7824353 CAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATATATGGATATAAGACTCGCCAT
1 CAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCAT
* *
7824418 TTCTGATCTGCTCCATAGCC-ATACATGGAGATAATATCTATAATTTGCAGTCTGCTTCCTTGCT
66 TTCTGATCTGCTCCATAGCCGATACATGGAGATAAGATCTATAATTTGCAGTCTACTTCCTTGCT
* * * *
7824482 ACCTTAGGAAGATAAGACTCGTATCTTCAACCTGTTCTCCTACTACCTCAGAGAGATAAGACCGG
131 ACCTCAGGAAGATAAGACTCGTATCTTCAACCTGCTCTCCTACTACCTCAGAAAGATAAGACCGA
* ** * ** **
7824547 TGGCTT-AAATCTACTCCATAGTCGATACATGAAGATAAGACTCGTCATTTTTTATTTGCTCCAT
196 TGG-TTAAAATCTACTCCATAGCCGATACATGAAGATAAGACTCACCATCTTCAACCTGCTCCAT
* * * * ** *
7824611 AGCCGATACATAGAGATAAAATCTGTAATTTTTAGCCTG-TTACCCTACT-GCTTAGGGGGTTAA
260 AGCCGATACATAGAGATAAAATCTGTAATTTTCAGCCTGCTT-CCCTACTACCTCAAGAAGATAA
* * * * *
7824674 GGCGCGTATCTTCAACCTATTCTCTTGCTATCTCAGAGAGATAAGGC-CGGTGGCTTAAATCTGC
324 GACGCGTATCTTCAACCTACTCTCTTGCTACCTCAGAGAGATAAGGCTC-GTGGCTAAAATCTAC
*
7824738 TCCATAACCGATACATGGAGATAA
388 TCCATAACCGATACATGAAGATAA
7824762 GACTTGCCAT
Statistics
Matches: 352, Mismatches: 54, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
441 1 0.00
442 81 0.23
443 186 0.53
444 84 0.24
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (444 bp):
CAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCAT
TTCTGATCTGCTCCATAGCCGATACATGGAGATAAGATCTATAATTTGCAGTCTACTTCCTTGCT
ACCTCAGGAAGATAAGACTCGTATCTTCAACCTGCTCTCCTACTACCTCAGAAAGATAAGACCGA
TGGTTAAAATCTACTCCATAGCCGATACATGAAGATAAGACTCACCATCTTCAACCTGCTCCATA
GCCGATACATAGAGATAAAATCTGTAATTTTCAGCCTGCTTCCCTACTACCTCAAGAAGATAAGA
CGCGTATCTTCAACCTACTCTCTTGCTACCTCAGAGAGATAAGGCTCGTGGCTAAAATCTACTCC
ATAACCGATACATGAAGATAAAACTCGCATCTTCAACTTGCTCTCTAGCGATCA
Found at i:7830927 original size:126 final size:127
Alignment explanation
Indices: 7830774--7831013 Score: 347
Period size: 127 Copynumber: 1.9 Consensus size: 127
7830764 TATCGAATTT
* * * *
7830774 CCAAATACAAAACATTGCCTCATTTTAATTT-GAGAAAACATGGATGAAATTTCAAAAGGATATT
1 CCAAACACAAAACATTGCCTCACTTTAATTTAAAAAAAACATGGATGAAATTTCAAAAGGATATT
* * * * *
7830838 CTGTAGTTTAGTCGAATGGAAAATCGAAACCCAGCACGATTGGGCACGACCTCCCAAACCCC
66 CCGCAGTTTAGTCGAACGAAAAATCGAAACCCAGCACGATAGGGCACGACCTCCCAAACCCC
* **
7830900 CCAAACACAAAATATTGCCTTGCTTTAATTTAAAAAAAACATGGATGAAATTTCAAAAGGATATT
1 CCAAACACAAAACATTGCCTCACTTTAATTTAAAAAAAACATGGATGAAATTTCAAAAGGATATT
* *
7830965 CCGCATTTTAGTTGAACGAAAAATCGAAACCCAGCACGATAGGGCACGA
66 CCGCAGTTTAGTCGAACGAAAAATCGAAACCCAGCACGATAGGGCACGA
7831014 TTCCTCGAAC
Statistics
Matches: 99, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
126 26 0.26
127 73 0.74
ACGTcount: A:0.40, C:0.20, G:0.16, T:0.24
Consensus pattern (127 bp):
CCAAACACAAAACATTGCCTCACTTTAATTTAAAAAAAACATGGATGAAATTTCAAAAGGATATT
CCGCAGTTTAGTCGAACGAAAAATCGAAACCCAGCACGATAGGGCACGACCTCCCAAACCCC
Found at i:7831188 original size:21 final size:23
Alignment explanation
Indices: 7831141--7831194 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
7831131 CATTCAAGAT
**
7831141 AAAATAATATATAAAACTCTTTA
1 AAAATAATATATAAAACTAATTA
*
7831164 AAAATAATATAT-AAAC-AATTC
1 AAAATAATATATAAAACTAATTA
7831185 AAAAT-ATATA
1 AAAATAATATA
7831195 ATGTGCAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.18
21 7 0.25
22 4 0.14
23 12 0.43
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.31
Consensus pattern (23 bp):
AAAATAATATATAAAACTAATTA
Done.