Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold48
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: 4619657
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 18863 characters in sequence are not A, C, G, or T
File 11 of 27
Found at i:1537428 original size:13 final size:13
Alignment explanation
Indices: 1537410--1537436 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1537400 CTTGAAAAGA
1537410 AATATATATATAT
1 AATATATATATAT
1537423 AATATATATATAT
1 AATATATATATAT
1537436 A
1 A
1537437 TATGTATGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AATATATATATAT
Found at i:1539618 original size:2 final size:2
Alignment explanation
Indices: 1539611--1539642 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
1539601 AATTACTCCA
*
1539611 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1539643 TGCAGAGTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:1543070 original size:16 final size:17
Alignment explanation
Indices: 1543049--1543105 Score: 64
Period size: 16 Copynumber: 3.4 Consensus size: 17
1543039 AAGTGATCAA
*
1543049 TTAATTTTTTATAT-TT
1 TTAATTTTTTATATAAT
*
1543065 TTAATTTTTTTTATAAT
1 TTAATTTTTTATATAAT
*
1543082 TTATATTTTTTATTTAA-
1 TTA-ATTTTTTATATAAT
1543099 TTAATTT
1 TTAATTT
1543106 ATCTAAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
16 17 0.49
17 7 0.20
18 11 0.31
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
TTAATTTTTTATATAAT
Found at i:1543076 original size:18 final size:18
Alignment explanation
Indices: 1543053--1543092 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
1543043 GATCAATTAA
*
1543053 TTTTTTAT-ATTTTTAATT
1 TTTTTTATAATTTAT-ATT
1543071 TTTTTTATAATTTATATT
1 TTTTTTATAATTTATATT
1543089 TTTT
1 TTTT
1543093 ATTTAATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTTATAATTTATATT
Found at i:1543222 original size:41 final size:42
Alignment explanation
Indices: 1543177--1543257 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 42
1543167 AAACTAATAT
1543177 TCAGTCAACAAGT-AACCAATTAAAATTAATCTCATGGTTAC
1 TCAGTCAACAAGTGAACCAATTAAAATTAATCTCATGGTTAC
** ***
1543218 TCAGTCGGCAAGTGATGGAATTAAAATTAATCTCATGGTT
1 TCAGTCAACAAGTGAACCAATTAAAATTAATCTCATGGTT
1543258 TGACTTACTA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
41 11 0.32
42 23 0.68
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (42 bp):
TCAGTCAACAAGTGAACCAATTAAAATTAATCTCATGGTTAC
Found at i:1543694 original size:18 final size:18
Alignment explanation
Indices: 1543663--1543701 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
1543653 TAATTTCAAA
1543663 TAAAAATTAATTTA-TAT
1 TAAAAATTAATTTAGTAT
*
1543680 TAAAAATTTATTTTAGTAT
1 TAAAAA-TTAATTTAGTAT
1543699 TAA
1 TAA
1543702 TTAAAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 7 0.37
19 6 0.32
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (18 bp):
TAAAAATTAATTTAGTAT
Found at i:1543712 original size:30 final size:30
Alignment explanation
Indices: 1543678--1543749 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
1543668 ATTAATTTAT
* **
1543678 ATTAAAAATTTATTTTAGTATTAATTAAAA
1 ATTAAAAATTTATTTGAGTACAAATTAAAA
* *
1543708 ATT-AAGATCTTATTTGATTACAAATTAAAA
1 ATTAAAAAT-TTATTTGAGTACAAATTAAAA
1543738 ATTAAAAATTTA
1 ATTAAAAATTTA
1543750 GTTAAATACA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
29 4 0.12
30 26 0.76
31 4 0.12
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.43
Consensus pattern (30 bp):
ATTAAAAATTTATTTGAGTACAAATTAAAA
Found at i:1543813 original size:19 final size:19
Alignment explanation
Indices: 1543789--1543833 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
1543779 ATTTGAATGT
1543789 AATAAAAAT-ATAAAAATTA
1 AATAAAAATGAT-AAAATTA
1543808 AAT-AAAATGATAAAATTA
1 AATAAAAATGATAAAATTA
1543826 AA-AAAAAT
1 AATAAAAAT
1543834 TGTTATTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 19 0.79
19 5 0.21
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (19 bp):
AATAAAAATGATAAAATTA
Found at i:1545549 original size:2 final size:2
Alignment explanation
Indices: 1545542--1545569 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1545532 ATAGATAACC
1545542 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1545570 GAACAATTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1547779 original size:17 final size:18
Alignment explanation
Indices: 1547747--1547781 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
1547737 AATTTTCATG
*
1547747 TAAAATTTACTTTATTTA
1 TAAAATATACTTTATTTA
1547765 TAAAATATA-TTTATTTA
1 TAAAATATACTTTATTTA
1547782 AGATTAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (18 bp):
TAAAATATACTTTATTTA
Found at i:1548355 original size:3 final size:3
Alignment explanation
Indices: 1548347--1548396 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
1548337 AATTGTACAA
1548347 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1548395 AA
1 AA
1548397 ACATGTCAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:1549027 original size:17 final size:17
Alignment explanation
Indices: 1549005--1549037 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
1548995 AAATTATTAT
1549005 TAATTAGATCA-ATATTC
1 TAATTA-ATCACATATTC
1549022 TAATTAATCACATATT
1 TAATTAATCACATATT
1549038 TATTTTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.42, C:0.12, G:0.03, T:0.42
Consensus pattern (17 bp):
TAATTAATCACATATTC
Found at i:1561814 original size:35 final size:35
Alignment explanation
Indices: 1561768--1561838 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
1561758 TTAAGGAACC
1561768 AGATCTTGCCCATGTTTAGAATAAAGCTATGAAGT
1 AGATCTTGCCCATGTTTAGAATAAAGCTATGAAGT
1561803 AGATCTTGCCCATGTTTAGAATAAAGCTATGAAGT
1 AGATCTTGCCCATGTTTAGAATAAAGCTATGAAGT
1561838 A
1 A
1561839 ACTTATAGAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (35 bp):
AGATCTTGCCCATGTTTAGAATAAAGCTATGAAGT
Found at i:1564989 original size:20 final size:20
Alignment explanation
Indices: 1564964--1565003 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
1564954 TAAATTAATT
1564964 AAATTATCTTA-ATAATTTTA
1 AAATTAT-TTACATAATTTTA
*
1564984 AAATTATTTACATATTTTTA
1 AAATTATTTACATAATTTTA
1565004 TATTTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (20 bp):
AAATTATTTACATAATTTTA
Found at i:1565182 original size:21 final size:20
Alignment explanation
Indices: 1565133--1565182 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
1565123 CATCCACAAA
1565133 TATATTTTTAAAAAACAATT
1 TATATTTTTAAAAAACAATT
* *
1565153 AATCA-TTTTAAAAAACTTATT
1 TAT-ATTTTTAAAAAAC-AATT
1565174 TATATTTTT
1 TATATTTTT
1565183 TTTACATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
20 14 0.58
21 10 0.42
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (20 bp):
TATATTTTTAAAAAACAATT
Found at i:1565437 original size:44 final size:43
Alignment explanation
Indices: 1565388--1565471 Score: 118
Period size: 44 Copynumber: 1.9 Consensus size: 43
1565378 TATTTTTATA
*
1565388 TTTAAAAA-TA-TTAAAATTTAAAAAAATTATGAACTTCTTAATTT
1 TTTAAAAACTACTT-AAATTT-AAAAAATTATCAACTT-TTAATTT
1565432 TTTAAAAACTACTTAAATTTAAAAAATTATCAACTTTTAA
1 TTTAAAAACTACTTAAATTTAAAAAATTATCAACTTTTAA
1565472 AAACTAAGTA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
43 4 0.11
44 23 0.62
45 8 0.22
46 2 0.05
ACGTcount: A:0.50, C:0.07, G:0.01, T:0.42
Consensus pattern (43 bp):
TTTAAAAACTACTTAAATTTAAAAAATTATCAACTTTTAATTT
Found at i:1565570 original size:15 final size:17
Alignment explanation
Indices: 1565545--1565591 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
1565535 ATATTTTTAT
*
1565545 ATATTAATTTTTTAAAA
1 ATATTATTTTTTTAAAA
1565562 A-A-TATTTTTTATAAAA
1 ATATTATTTTTT-TAAAA
1565578 ATATTATTTTTTTA
1 ATATTATTTTTTTA
1565592 CTAATAAAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 7 0.27
16 7 0.27
17 4 0.15
18 8 0.31
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
ATATTATTTTTTTAAAA
Found at i:1567668 original size:2 final size:2
Alignment explanation
Indices: 1567656--1567697 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
1567646 ATTACCAATG
* *
1567656 AC AC GC AC AC AC AC AC AC AC AC AG AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1567698 CAGAAATGGC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.48, C:0.48, G:0.05, T:0.00
Consensus pattern (2 bp):
AC
Found at i:1571589 original size:18 final size:18
Alignment explanation
Indices: 1571568--1571631 Score: 58
Period size: 18 Copynumber: 3.4 Consensus size: 18
1571558 TTTCATTGAT
*
1571568 TAAATTTAATAATTTATA
1 TAAATATAATAATTTATA
* *
1571586 TAAATATATTATTTTATA
1 TAAATATAATAATTTATA
*
1571604 TATAA-ATATTAATATTATA
1 TA-AATATAATAAT-TTATA
1571623 TTAAATATA
1 -TAAATATA
1571632 TTAAAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
18 24 0.63
19 9 0.24
20 5 0.13
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TAAATATAATAATTTATA
Found at i:1571607 original size:20 final size:20
Alignment explanation
Indices: 1571582--1571634 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 20
1571572 TTTAATAATT
*
1571582 TATATAAATATATTATTTTA
1 TATATAAATATATTATATTA
*
1571602 TATATAAATAT-TAATATTA
1 TATATAAATATATTATATTA
1571621 TAT-TAAATATATTA
1 TATATAAATATATTA
1571635 AAAATTTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 7 0.24
19 11 0.38
20 11 0.38
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TATATAAATATATTATATTA
Found at i:1571655 original size:21 final size:21
Alignment explanation
Indices: 1571596--1571660 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
1571586 TAAATATATT
* *
1571596 ATTTTATATATAAATATT-AAT
1 ATTTTATA-AAAAATATTAAAA
* * *
1571617 ATTATATTAAATATATTAAAA
1 ATTTTATAAAAAATATTAAAA
*
1571638 ATTTTATAAAAAATATTATAA
1 ATTTTATAAAAAATATTAAAA
1571659 AT
1 AT
1571661 ATGAAATATA
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
20 7 0.21
21 27 0.79
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
ATTTTATAAAAAATATTAAAA
Found at i:1571686 original size:32 final size:30
Alignment explanation
Indices: 1571617--1571686 Score: 70
Period size: 30 Copynumber: 2.3 Consensus size: 30
1571607 AAATATTAAT
*
1571617 ATTATATTAAATATATTAAAAATTTTATAA
1 ATTATATTAAATATATGAAAAATTTTATAA
** *
1571647 AAAATATTATAA-ATATGAAATATATTTTATTA
1 ATTATATTA-AATATATGAAA-A-ATTTTATAA
1571679 ATTATATT
1 ATTATATT
1571687 TGAATATAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
30 14 0.45
31 3 0.10
32 14 0.45
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (30 bp):
ATTATATTAAATATATGAAAAATTTTATAA
Found at i:1572284 original size:25 final size:24
Alignment explanation
Indices: 1572247--1572293 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
1572237 AAATTTTAAT
1572247 TATTAAAAAATAAAAATTAAATTTA
1 TATTAAAAAATAAAAA-TAAATTTA
* *
1572272 TATTAAAATATAAATATAAATT
1 TATTAAAAAATAAAAATAAATT
1572294 AATTTTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (24 bp):
TATTAAAAAATAAAAATAAATTTA
Found at i:1578608 original size:34 final size:34
Alignment explanation
Indices: 1578570--1578641 Score: 144
Period size: 34 Copynumber: 2.1 Consensus size: 34
1578560 TCAGGTAAAC
1578570 CTTTATAATATGGTCTCACTGTTATGCTATTACT
1 CTTTATAATATGGTCTCACTGTTATGCTATTACT
1578604 CTTTATAATATGGTCTCACTGTTATGCTATTACT
1 CTTTATAATATGGTCTCACTGTTATGCTATTACT
1578638 CTTT
1 CTTT
1578642 CTTTTCAGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.22, C:0.18, G:0.11, T:0.49
Consensus pattern (34 bp):
CTTTATAATATGGTCTCACTGTTATGCTATTACT
Found at i:1581511 original size:42 final size:40
Alignment explanation
Indices: 1581431--1581512 Score: 103
Period size: 40 Copynumber: 2.0 Consensus size: 40
1581421 ATATAAAAAT
* *
1581431 TAAAAATATTATTATATTAATATTTATAATTAAATTTAAA
1 TAAAAATATTATTATATTAATAATAATAATTAAATTTAAA
*
1581471 TAAAAATATT-TTTTATTATATAAATAATAATTTAAATTTAAA
1 TAAAAATATTATTATATTA-AT-AATAATAA-TTAAATTTAAA
1581513 AAACTTAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
39 7 0.19
40 12 0.33
41 6 0.17
42 11 0.31
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (40 bp):
TAAAAATATTATTATATTAATAATAATAATTAAATTTAAA
Found at i:1581859 original size:19 final size:19
Alignment explanation
Indices: 1581808--1581864 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
1581798 TTTATTTAAA
1581808 TTTAAAT-ATAAAATAT-T
1 TTTAAATAATAAAATATAT
1581825 TTTAAA-AA-AATTAATATAT
1 TTTAAATAATAA--AATATAT
1581844 TTTAAATAATAAAATA-AT
1 TTTAAATAATAAAATATAT
1581862 TTT
1 TTT
1581865 TTAGAGTTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
16 2 0.06
17 7 0.21
18 10 0.29
19 11 0.32
20 2 0.06
21 2 0.06
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTAAATAATAAAATATAT
Found at i:1581931 original size:15 final size:15
Alignment explanation
Indices: 1581911--1581943 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
1581901 TTATATGTTA
1581911 AAACTCTCAATAGCC
1 AAACTCTCAATAGCC
*
1581926 AAACTCTCAATTGCC
1 AAACTCTCAATAGCC
1581941 AAA
1 AAA
1581944 GTTCAGTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.42, C:0.30, G:0.06, T:0.21
Consensus pattern (15 bp):
AAACTCTCAATAGCC
Found at i:1589462 original size:5 final size:5
Alignment explanation
Indices: 1589452--1589476 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
1589442 TTTTTATTAT
1589452 GAAAA GAAAA GAAAA GAAAA GAAAA
1 GAAAA GAAAA GAAAA GAAAA GAAAA
1589477 CCACTGAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:1590273 original size:16 final size:18
Alignment explanation
Indices: 1590252--1590287 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
1590242 TAATTTGATA
1590252 AATTTAATTT-A-AATTG
1 AATTTAATTTGAGAATTG
1590268 AATTTAATTTGAGAATTG
1 AATTTAATTTGAGAATTG
1590286 AA
1 AA
1590288 ATAAAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.56
17 1 0.06
18 7 0.39
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (18 bp):
AATTTAATTTGAGAATTG
Found at i:1590396 original size:21 final size:21
Alignment explanation
Indices: 1590372--1590411 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
1590362 ATAAAATATA
1590372 TTAATAT-TAATATAATTTTTT
1 TTAATATCTAATAT-ATTTTTT
1590393 TTAATATCTAATATATTTT
1 TTAATATCTAATATATTTT
1590412 AAATAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
TTAATATCTAATATATTTTTT
Found at i:1592573 original size:12 final size:12
Alignment explanation
Indices: 1592556--1592582 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
1592546 AATTATACGA
1592556 ATTAATTAAATT
1 ATTAATTAAATT
1592568 ATTAATTAAATT
1 ATTAATTAAATT
1592580 ATT
1 ATT
1592583 GTTTATCAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
ATTAATTAAATT
Found at i:1593709 original size:20 final size:19
Alignment explanation
Indices: 1593672--1593711 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
1593662 ATTTAATTTT
* *
1593672 TTTAAAAATTTTTATATTA
1 TTTAAAAAGTTATATATTA
1593691 TTTAAAAAGTTATATTATTA
1 TTTAAAAAGTTATA-TATTA
1593711 T
1 T
1593712 ATTTATATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (19 bp):
TTTAAAAAGTTATATATTA
Found at i:1599794 original size:18 final size:18
Alignment explanation
Indices: 1599773--1599816 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
1599763 TAAATTATTA
1599773 AAATATTAAAAT-TTATAT
1 AAATATTAAAATATT-TAT
1599791 AAATA-TAAAATATTTAT
1 AAATATTAAAATATTTAT
*
1599808 TAATATTAA
1 AAATATTAA
1599817 TAACATATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 13 0.57
18 10 0.43
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AAATATTAAAATATTTAT
Found at i:1619883 original size:18 final size:19
Alignment explanation
Indices: 1619849--1619890 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
1619839 TTTTTTATAA
*
1619849 AAATTTTTAATTATTAAAT
1 AAATTTTTAAATATTAAAT
1619868 AAATTTTTAAAT-TTAAAT
1 AAATTTTTAAATATTAAAT
1619886 AAATT
1 AAATT
1619891 AACTTGATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
AAATTTTTAAATATTAAAT
Found at i:1620825 original size:21 final size:19
Alignment explanation
Indices: 1620788--1620827 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
1620778 GAATAGTAAG
1620788 GGATTAACTAGAGATATAA
1 GGATTAACTAGAGATATAA
*
1620807 GGATTGAACTTAGATATATAA
1 GGATT-AAC-TAGAGATATAA
1620828 ACTACTCAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 3 0.17
21 10 0.56
ACGTcount: A:0.45, C:0.05, G:0.20, T:0.30
Consensus pattern (19 bp):
GGATTAACTAGAGATATAA
Found at i:1624201 original size:14 final size:16
Alignment explanation
Indices: 1624165--1624201 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
1624155 TTTGTGAGAT
1624165 AAATATTAAATACAAA
1 AAATATTAAATACAAA
1624181 AAATATT-AATA-AAA
1 AAATATTAAATACAAA
*
1624195 AATTATT
1 AAATATT
1624202 TTCTTTTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 9 0.45
15 4 0.20
16 7 0.35
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATATTAAATACAAA
Found at i:1624703 original size:19 final size:19
Alignment explanation
Indices: 1624672--1624721 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 19
1624662 TTTTATATTT
1624672 ATATAAA-TA-TAAATATA
1 ATATAAATTATTAAATATA
1624689 ATATAAATTATTAAATATA
1 ATATAAATTATTAAATATA
* *
1624708 TTAAAAATT-TTAAA
1 ATATAAATTATTAAA
1624722 AATGTAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 7 0.24
18 7 0.24
19 15 0.52
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
ATATAAATTATTAAATATA
Found at i:1626029 original size:32 final size:33
Alignment explanation
Indices: 1625992--1626063 Score: 85
Period size: 32 Copynumber: 2.2 Consensus size: 33
1625982 AATACGATAT
**
1625992 AAATATTAA-ATTATTTTAATATATAT-AATAAA
1 AAATATTAACA-TATTAAAATATATATAAATAAA
* *
1626024 AAATATTAACATATTAAAATTTATATAAATATA
1 AAATATTAACATATTAAAATATATATAAATAAA
1626057 AAATATT
1 AAATATT
1626064 TTAAATATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
32 21 0.62
33 13 0.38
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (33 bp):
AAATATTAACATATTAAAATATATATAAATAAA
Found at i:1626041 original size:58 final size:56
Alignment explanation
Indices: 1625975--1626118 Score: 143
Period size: 58 Copynumber: 2.5 Consensus size: 56
1625965 AAAATTTGAT
**
1625975 AATATTAAATACGATATAAATATTAAATTATTTT-AATATATATAATAA-AAAATATTA
1 AATATTAAATAAAATATAAATATTAAATTATTTTAAATATA-ATAATAATAAAATA--A
** * *
1626032 ACATATTAAA-ATTTATATAAATA-TAAAATATTTTAAATATAATTATAATAAAATAA
1 A-ATATTAAATA-AAATATAAATATTAAATTATTTTAAATATAATAATAATAAAATAA
1626088 AATATATAAATAAAATATAAATATATAAATT
1 AATAT-TAAATAAAATATAAATAT-TAAATT
1626119 TAAATTTGAT
Statistics
Matches: 72, Mismatches: 7, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
55 4 0.06
56 15 0.21
57 19 0.26
58 34 0.47
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (56 bp):
AATATTAAATAAAATATAAATATTAAATTATTTTAAATATAATAATAATAAAATAA
Found at i:1626057 original size:6 final size:6
Alignment explanation
Indices: 1626046--1626112 Score: 54
Period size: 6 Copynumber: 11.8 Consensus size: 6
1626036 ATTAAAATTT
* * * *
1626046 ATATAA ATATAA A-AT-A TTTTAA ATATAA TTAT-A ATA-AA ATAAAA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
1626090 TATATAA ATA-AA ATATAA ATATA
1 -ATATAA ATATAA ATATAA ATATA
1626113 TAAATTTAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
4 1 0.02
5 15 0.31
6 27 0.56
7 5 0.10
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (6 bp):
ATATAA
Found at i:1626093 original size:15 final size:15
Alignment explanation
Indices: 1626038--1626107 Score: 56
Period size: 15 Copynumber: 4.7 Consensus size: 15
1626028 ATTAACATAT
*
1626038 TAAAATTTATATAAATA
1 TAAAATATA-ATAAA-A
* *
1626055 TAAAATAT-TTTAAA
1 TAAAATATAATAAAA
*
1626069 TATAATTATAATAAAA
1 TA-AAATATAATAAAA
1626085 TAAAATAT-AT-AAA
1 TAAAATATAATAAAA
1626098 TAAAATATAA
1 TAAAATATAA
1626108 ATATATAAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
13 11 0.26
14 6 0.14
15 13 0.30
16 6 0.14
17 7 0.16
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
TAAAATATAATAAAA
Found at i:1626111 original size:19 final size:19
Alignment explanation
Indices: 1626066--1626117 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
1626056 AAAATATTTT
1626066 AAATAT-AAT-TAT-AATA
1 AAATATAAATATATAAATA
1626082 AAATA-AAATATATAAATA
1 AAATATAAATATATAAATA
1626100 AAATATAAATATATAAAT
1 AAATATAAATATATAAAT
1626118 TTAAATTTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.25
17 3 0.09
18 9 0.28
19 12 0.38
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
AAATATAAATATATAAATA
Found at i:1627086 original size:22 final size:22
Alignment explanation
Indices: 1627061--1627115 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 22
1627051 AGTAAAATTT
1627061 TAAAATTAAATT-TTATAAATAA
1 TAAAATTAAATTATTA-AAATAA
*
1627083 TAAAATT--ATTATTAAAATAT
1 TAAAATTAAATTATTAAAATAA
*
1627103 TTAAATTAAATTA
1 TAAAATTAAATTA
1627116 ATTGATATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
20 14 0.50
21 3 0.11
22 11 0.39
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
TAAAATTAAATTATTAAAATAA
Found at i:1627408 original size:11 final size:11
Alignment explanation
Indices: 1627390--1627528 Score: 57
Period size: 11 Copynumber: 13.0 Consensus size: 11
1627380 TTAATTAAAA
1627390 ATTA-TTTAAT
1 ATTATTTTAAT
1627400 ATTATTTTAA-
1 ATTATTTTAAT
1627410 ATT-TTTT-AT
1 ATTATTTTAAT
**
1627419 ATT-TGAT-AT
1 ATTATTTTAAT
*
1627428 ATTATTTTTAAA
1 ATTA-TTTTAAT
*
1627440 ATTAATTTAAT
1 ATTATTTTAAT
*
1627451 AAATATTTATAAAT
1 -ATTATTT-T-AAT
* * *
1627465 ATTAATTAAAG
1 ATTATTTTAAT
1627476 ATTA-TTTAATT
1 ATTATTTTAA-T
1627487 ATTATTTTAAT
1 ATTATTTTAAT
1627498 AATT-TTTT--T
1 -ATTATTTTAAT
*
1627507 A-TATTTAATAT
1 ATTATTTTA-AT
1627518 ATTATTTTAAT
1 ATTATTTTAAT
1627529 TGAATTGAGG
Statistics
Matches: 96, Mismatches: 17, Indels: 31
0.67 0.12 0.22
Matches are distributed among these distances:
7 1 0.01
8 5 0.05
9 15 0.16
10 11 0.11
11 31 0.32
12 24 0.25
13 6 0.06
14 3 0.03
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.58
Consensus pattern (11 bp):
ATTATTTTAAT
Found at i:1627481 original size:24 final size:24
Alignment explanation
Indices: 1627419--1627501 Score: 64
Period size: 24 Copynumber: 3.5 Consensus size: 24
1627409 AATTTTTTAT
* *
1627419 ATTTGATATATTATTTTTAAAATTA
1 ATTTAATA-ATTATTTATAAAATTA
*
1627444 ATTTAATAAATATTTATAAATATTA
1 ATTTAATAATTATTTATAAA-ATTA
**
1627469 A-TTAA-AGATTATTTA-ATTATTA
1 ATTTAATA-ATTATTTATAAAATTA
*
1627491 TTTTAATAATT
1 ATTTAATAATT
1627502 TTTTTATATT
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
22 4 0.09
23 9 0.19
24 22 0.47
25 12 0.26
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (24 bp):
ATTTAATAATTATTTATAAAATTA
Found at i:1627525 original size:19 final size:17
Alignment explanation
Indices: 1627488--1627526 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
1627478 TATTTAATTA
*
1627488 TTATTTTAATAATTTTT
1 TTATTTTAATAATTATT
1627505 TTATATTTAATATATTATT
1 TTAT-TTTAATA-ATTATT
1627524 TTA
1 TTA
1627527 ATTGAATTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 7 0.37
19 8 0.42
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTATTTTAATAATTATT
Found at i:1629180 original size:2 final size:2
Alignment explanation
Indices: 1629175--1629205 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
1629165 TGTGTGTGTG
1629175 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1629206 AGAGGGATTC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1629303 original size:18 final size:19
Alignment explanation
Indices: 1629267--1629307 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
1629257 TAATTTTATA
1629267 TAATTTATATATATATATT
1 TAATTTATATATATATATT
1629286 TAATTTA-AT-TATTATATT
1 TAATTTATATATA-TATATT
1629304 TAAT
1 TAAT
1629308 ATTTTATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 2 0.10
18 12 0.57
19 7 0.33
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TAATTTATATATATATATT
Found at i:1629317 original size:24 final size:23
Alignment explanation
Indices: 1629259--1629317 Score: 57
Period size: 24 Copynumber: 2.4 Consensus size: 23
1629249 GATTTTCGTA
1629259 ATTTTATATAATTTATATATATAT
1 ATTTTAT-TAATTTATATATATAT
* *
1629283 ATTTAATTTAA-TTATTATATTTAAT
1 ATTTTA-TTAATTTA-TATATAT-AT
1629308 ATTTTATTAA
1 ATTTTATTAA
1629318 AATAAATCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
23 3 0.10
24 18 0.62
25 8 0.28
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (23 bp):
ATTTTATTAATTTATATATATAT
Found at i:1632759 original size:13 final size:13
Alignment explanation
Indices: 1632735--1632776 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
1632725 GACACTAATG
1632735 TAAAAGTATCTTAA
1 TAAAA-TATCTTAA
*
1632749 TAAAATATCTTTA
1 TAAAATATCTTAA
*
1632762 T-AAATATTTTAA
1 TAAAATATCTTAA
1632774 TAA
1 TAA
1632777 TATTTAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
12 10 0.42
13 9 0.38
14 5 0.21
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (13 bp):
TAAAATATCTTAA
Found at i:1632938 original size:16 final size:15
Alignment explanation
Indices: 1632895--1632949 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 15
1632885 TAAAAACATC
*
1632895 AATAAAA-TA-AAAC
1 AATAAAATTATAAAT
1632908 AATAAAATTATAAAT
1 AATAAAATTATAAAT
1632923 AATATAAATTATAAATT
1 AATA-AAATTATAAA-T
*
1632940 AAAAAAATTA
1 AATAAAATTA
1632950 AAAAAATGGT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
13 7 0.19
14 2 0.06
15 7 0.19
16 16 0.44
17 4 0.11
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (15 bp):
AATAAAATTATAAAT
Found at i:1634567 original size:18 final size:18
Alignment explanation
Indices: 1634544--1634581 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
1634534 AGTTACAGCT
1634544 AAAATAAAAAAAAAATAA
1 AAAATAAAAAAAAAATAA
**
1634562 AAAATAAGTAAAAAATAA
1 AAAATAAAAAAAAAATAA
1634580 AA
1 AA
1634582 GACACAAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.13
Consensus pattern (18 bp):
AAAATAAAAAAAAAATAA
Found at i:1634789 original size:50 final size:50
Alignment explanation
Indices: 1634730--1634888 Score: 273
Period size: 50 Copynumber: 3.2 Consensus size: 50
1634720 TATACTTAGA
*
1634730 GTCAACAATTATGGCCACCTCCCTCTATTATCAAAGGTTGGTGAAGAATC
1 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATC
* *
1634780 GTCAACAATTATGGCCACCTCCCTCTATTGTTAAAGGTTGGTGAAAAATC
1 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATC
* *
1634830 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGGATA
1 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATC
1634880 GTCAACAAT
1 GTCAACAAT
1634889 GGCAATAACT
Statistics
Matches: 102, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 102 1.00
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (50 bp):
GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATC
Found at i:1638889 original size:22 final size:22
Alignment explanation
Indices: 1638861--1638905 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
1638851 TTTCCTTAAA
1638861 ACAGCTTTCATCTTCATTTTCC
1 ACAGCTTTCATCTTCATTTTCC
*
1638883 ACAGCTTTTATCTTCATTTTCC
1 ACAGCTTTCATCTTCATTTTCC
1638905 A
1 A
1638906 TAACGTGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.20, C:0.29, G:0.04, T:0.47
Consensus pattern (22 bp):
ACAGCTTTCATCTTCATTTTCC
Found at i:1639028 original size:19 final size:20
Alignment explanation
Indices: 1639004--1639047 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
1638994 TTTCACGTGC
**
1639004 ACAGTAACC-GTATGTATGA
1 ACAGTAACCTGTATACATGA
1639023 ACAGT-ACCTGTATACATGA
1 ACAGTAACCTGTATACATGA
1639042 ACAGTA
1 ACAGTA
1639048 CCTCGACAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.25
Consensus pattern (20 bp):
ACAGTAACCTGTATACATGA
Found at i:1639362 original size:50 final size:50
Alignment explanation
Indices: 1639303--1639448 Score: 249
Period size: 50 Copynumber: 2.9 Consensus size: 50
1639293 TATACTTAGA
1639303 GTCAACAATTATGGCCACCTCCTTCTATTGTCAAAGGTTGGTGAAGAATC
1 GTCAACAATTATGGCCACCTCCTTCTATTGTCAAAGGTTGGTGAAGAATC
* *
1639353 GTCAACAATTATGGTCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATC
1 GTCAACAATTATGGCCACCTCCTTCTATTGTCAAAGGTTGGTGAAGAATC
*
1639403 GTCAACAATTATGACCACCTCTCTT-TATTGTCAAAGGTTGGTGAAG
1 GTCAACAATTATGGCCACCTC-CTTCTATTGTCAAAGGTTGGTGAAG
1639449 GATAATTAAC
Statistics
Matches: 90, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
50 88 0.98
51 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (50 bp):
GTCAACAATTATGGCCACCTCCTTCTATTGTCAAAGGTTGGTGAAGAATC
Found at i:1642372 original size:2 final size:2
Alignment explanation
Indices: 1642359--1642401 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
1642349 ATCCATGGTG
*
1642359 TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1642401 T
1 T
1642402 TCATAAGAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1646315 original size:27 final size:28
Alignment explanation
Indices: 1646251--1646321 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 28
1646241 AAACAAGCCT
* * *
1646251 CCATATTTGACAAATACAAAAGAAATCA
1 CCATTTTTGACAAACACAAAAGAAACCA
*
1646279 CCATTTTTGACAAACACAAAA-TAACCA
1 CCATTTTTGACAAACACAAAAGAAACCA
1646306 CCATTTTTGACAAACA
1 CCATTTTTGACAAACA
1646322 AATGGGTGGC
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 20 0.51
28 19 0.49
ACGTcount: A:0.48, C:0.23, G:0.06, T:0.24
Consensus pattern (28 bp):
CCATTTTTGACAAACACAAAAGAAACCA
Found at i:1650862 original size:27 final size:27
Alignment explanation
Indices: 1650801--1650871 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 27
1650791 AAACAAGCCT
* *
1650801 CCATATTTGACAAATACAAAGGAAACCA
1 CCATTTTTGACAAACACAAA-GAAACCA
1650829 CCATTTTTGACAAACACAAA-ATAACCA
1 CCATTTTTGACAAACACAAAGA-AACCA
1650856 CCATTTTTGACAAACA
1 CCATTTTTGACAAACA
1650872 AATAGATAGC
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
26 1 0.03
27 21 0.52
28 18 0.45
ACGTcount: A:0.46, C:0.24, G:0.07, T:0.23
Consensus pattern (27 bp):
CCATTTTTGACAAACACAAAGAAACCA
Found at i:1651766 original size:20 final size:20
Alignment explanation
Indices: 1651743--1651794 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
1651733 TTGTACTTTA
*
1651743 AAAATATT-TTTTGTTAGTTT
1 AAAATATTATTTTATTA-TTT
*
1651763 AAAATTTTATTTTATTATTT
1 AAAATATTATTTTATTATTT
*
1651783 AAAATAATATTT
1 AAAATATTATTT
1651795 AAAAAATAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 20 0.74
21 7 0.26
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (20 bp):
AAAATATTATTTTATTATTT
Found at i:1652684 original size:23 final size:23
Alignment explanation
Indices: 1652657--1652712 Score: 87
Period size: 23 Copynumber: 2.4 Consensus size: 23
1652647 TTGGTGCCAC
1652657 ATAAATATAATATTAAAAAATAAT
1 ATAAATATAATA-TAAAAAATAAT
1652681 -TAAAATATAATATAAAAAATAAT
1 AT-AAATATAATATAAAAAATAAT
1652704 ATAAATATA
1 ATAAATATA
1652713 TTGATATCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
23 19 0.63
24 11 0.37
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (23 bp):
ATAAATATAATATAAAAAATAAT
Found at i:1652686 original size:24 final size:24
Alignment explanation
Indices: 1652659--1652713 Score: 85
Period size: 24 Copynumber: 2.2 Consensus size: 24
1652649 GGTGCCACAT
1652659 AAATATAATATTAAAAAATAAT-TA
1 AAATATAATA-TAAAAAATAATATA
1652683 AAATATAATATAAAAAATAATATA
1 AAATATAATATAAAAAATAATATA
1652707 AATATAT
1 AA-ATAT
1652714 TGATATCTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
23 11 0.38
24 14 0.48
25 4 0.14
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (24 bp):
AAATATAATATAAAAAATAATATA
Found at i:1652702 original size:12 final size:12
Alignment explanation
Indices: 1652663--1652708 Score: 67
Period size: 12 Copynumber: 3.8 Consensus size: 12
1652653 CCACATAAAT
1652663 ATAATATTAAAAA
1 ATAATA-TAAAAA
*
1652676 ATAAT-TAAAAT
1 ATAATATAAAAA
1652687 ATAATATAAAAA
1 ATAATATAAAAA
1652699 ATAATATAAA
1 ATAATATAAA
1652709 TATATTGATA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
11 10 0.33
12 15 0.50
13 5 0.17
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
ATAATATAAAAA
Found at i:1652757 original size:16 final size:18
Alignment explanation
Indices: 1652723--1652775 Score: 60
Period size: 16 Copynumber: 3.2 Consensus size: 18
1652713 TTGATATCTT
*
1652723 AAAATTTATAT-AATA-A
1 AAAATATATATAAATATA
*
1652739 AAAATA-ATA-ATATATA
1 AAAATATATATAAATATA
1652755 AAAATATATATAAATATA
1 AAAATATATATAAATATA
1652773 AAA
1 AAA
1652776 TTCTTAAACA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
15 6 0.20
16 12 0.40
17 3 0.10
18 9 0.30
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AAAATATATATAAATATA
Found at i:1652770 original size:20 final size:17
Alignment explanation
Indices: 1652730--1652775 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
1652720 CTTAAAATTT
1652730 ATATAATAAAAAATAATA
1 ATAT-ATAAAAAATAATA
1652748 ATATATAAAAATATATATA
1 ATATATAAAAA-ATA-ATA
1652767 A-ATATAAAA
1 ATATATAAAA
1652776 TTCTTAAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.27
18 15 0.58
19 4 0.15
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
ATATATAAAAAATAATA
Found at i:1653343 original size:27 final size:27
Alignment explanation
Indices: 1653300--1653380 Score: 119
Period size: 27 Copynumber: 2.9 Consensus size: 27
1653290 AGTCAATAAA
*
1653300 AGTTACTTTTTATGTTTGTCAAAAATGAT
1 AGTT-CTTTTT-TGTTTGTAAAAAATGAT
1653329 AGTT-TTTTTGTGTTTGTAAAAAATGAT
1 AGTTCTTTTT-TGTTTGTAAAAAATGAT
1653356 AGTTCTTTTTTGTTTGTAAAAAATG
1 AGTTCTTTTTTGTTTGTAAAAAATG
1653381 GTGACTTGTT
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
27 40 0.82
28 5 0.10
29 4 0.08
ACGTcount: A:0.30, C:0.04, G:0.16, T:0.51
Consensus pattern (27 bp):
AGTTCTTTTTTGTTTGTAAAAAATGAT
Found at i:1654354 original size:3 final size:3
Alignment explanation
Indices: 1654346--1654386 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
1654336 ATGTTCTTTC
1654346 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1654387 GGGGACATGC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:1655069 original size:16 final size:16
Alignment explanation
Indices: 1655045--1655075 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1655035 TAAAATTGTT
1655045 TATTAATTATTTATTA
1 TATTAATTATTTATTA
*
1655061 TATTTATTATTTATT
1 TATTAATTATTTATT
1655076 TAATATTAAA
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TATTAATTATTTATTA
Found at i:1656715 original size:5 final size:5
Alignment explanation
Indices: 1656687--1656786 Score: 74
Period size: 5 Copynumber: 21.4 Consensus size: 5
1656677 GAAACTAAAA
*
1656687 TAATT T-ATT T-ATT TTATT TGAATT TAATT TAATT TAA-T TAATT TAA-T
1 TAATT TAATT TAATT TAATT T-AATT TAATT TAATT TAATT TAATT TAATT
* * * *
1656734 CAATT TAAAT TAA-T TAATT TAA-T CAATT TAA-A TATATT T-ATT TAA-T
1 TAATT TAATT TAATT TAATT TAATT TAATT TAATT TA-ATT TAATT TAATT
1656780 TAATT TA
1 TAATT TA
1656787 TAATTTTATT
Statistics
Matches: 77, Mismatches: 8, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
4 32 0.42
5 40 0.52
6 5 0.06
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.56
Consensus pattern (5 bp):
TAATT
Found at i:1656729 original size:9 final size:9
Alignment explanation
Indices: 1656687--1656784 Score: 71
Period size: 9 Copynumber: 11.1 Consensus size: 9
1656677 GAAACTAAAA
*
1656687 TAATTTATT
1 TAATTTAAT
* *
1656696 TATTTTATT
1 TAATTTAAT
1656705 TGAATTTAATT
1 T-AATTTAA-T
1656716 TAATTTAAT
1 TAATTTAAT
1656725 TAATTTAAT
1 TAATTTAAT
*
1656734 CAATTT-A-
1 TAATTTAAT
1656741 -AA-TTAAT
1 TAATTTAAT
1656748 TAATTTAAT
1 TAATTTAAT
* *
1656757 CAATTTAAA
1 TAATTTAAT
*
1656766 TATATTTATT
1 TA-ATTTAAT
1656776 TAA-TTAAT
1 TAATTTAAT
1656784 T
1 T
1656785 TATAATTTTA
Statistics
Matches: 72, Mismatches: 10, Indels: 15
0.74 0.10 0.15
Matches are distributed among these distances:
5 2 0.03
6 3 0.04
8 8 0.11
9 38 0.53
10 19 0.26
11 2 0.03
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.56
Consensus pattern (9 bp):
TAATTTAAT
Found at i:1656746 original size:23 final size:23
Alignment explanation
Indices: 1656712--1656791 Score: 108
Period size: 23 Copynumber: 3.4 Consensus size: 23
1656702 ATTTGAATTT
*
1656712 AATTTAATTTAATTAATTTAATC
1 AATTTAAATTAATTAATTTAATC
1656735 AATTTAAATTAATTAATTTAATC
1 AATTTAAATTAATTAATTTAATC
* *
1656758 AATTTAAA-TATATTTATTTAATT
1 AATTTAAATTA-ATTAATTTAATC
1656781 AATTTATAATT
1 AATTTA-AATT
1656792 TTATTCTGTT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
22 2 0.04
23 46 0.90
24 2 0.04
25 1 0.02
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (23 bp):
AATTTAAATTAATTAATTTAATC
Found at i:1656764 original size:14 final size:14
Alignment explanation
Indices: 1656687--1656756 Score: 70
Period size: 14 Copynumber: 4.9 Consensus size: 14
1656677 GAAACTAAAA
* *
1656687 TAATTTATTTATTT
1 TAATTAATTTAATT
*
1656701 TATTTGAATTTAATT
1 TAATT-AATTTAATT
1656716 TAATTTAA-TTAATT
1 TAA-TTAATTTAATT
* *
1656730 TAATCAATTTAAAT
1 TAATTAATTTAATT
1656744 TAATTAATTTAAT
1 TAATTAATTTAAT
1656757 CAATTTAAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
13 3 0.07
14 29 0.64
15 11 0.24
16 2 0.04
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (14 bp):
TAATTAATTTAATT
Found at i:1656909 original size:23 final size:23
Alignment explanation
Indices: 1656867--1656937 Score: 81
Period size: 23 Copynumber: 3.1 Consensus size: 23
1656857 CCCAACAAGG
* *
1656867 CAAACAAATAAAAAATCCATTACC
1 CAAACAAAT-AAAAACCCATAACC
*
1656891 CAAACAAATTAAAACCCATAACC
1 CAAACAAATAAAAACCCATAACC
* *
1656914 CAAAAAAATAAAAACTC-TAACC
1 CAAACAAATAAAAACCCATAACC
1656936 CA
1 CA
1656938 CAGTCCGAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
22 7 0.17
23 25 0.61
24 9 0.22
ACGTcount: A:0.59, C:0.27, G:0.00, T:0.14
Consensus pattern (23 bp):
CAAACAAATAAAAACCCATAACC
Found at i:1657225 original size:18 final size:17
Alignment explanation
Indices: 1657202--1657239 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
1657192 ATAAATTATT
1657202 AAAAAATAAAAATAATAA
1 AAAAAAT-AAAATAATAA
*
1657220 AAAAAATAAAATATTAA
1 AAAAAATAAAATAATAA
1657237 AAA
1 AAA
1657240 TTTAATGAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (17 bp):
AAAAAATAAAATAATAA
Found at i:1657515 original size:27 final size:27
Alignment explanation
Indices: 1657407--1657514 Score: 146
Period size: 27 Copynumber: 4.0 Consensus size: 27
1657397 ACAAACAACA
1657407 AACCACCATTTTTGATAAACAAAAAGG
1 AACCACCATTTTTGATAAACAAAAAGG
* *
1657434 AACCACTATTTTTTATAAACAAAAAGG
1 AACCACCATTTTTGATAAACAAAAAGG
* * *
1657461 AACCACTATTTTTGACAAATATAAAA-G
1 AACCACCATTTTTGATAAACA-AAAAGG
1657488 AACCACCATTTTTGATAAACACAAAAG
1 AACCACCATTTTTGATAAACA-AAAAG
1657515 ATGGCTTTTG
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 66 0.94
28 4 0.06
ACGTcount: A:0.48, C:0.18, G:0.08, T:0.26
Consensus pattern (27 bp):
AACCACCATTTTTGATAAACAAAAAGG
Found at i:1659318 original size:21 final size:22
Alignment explanation
Indices: 1659292--1659333 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
1659282 GTTAAAACTA
* *
1659292 CACCTGTTTTGGAGTA-TACTC
1 CACCTGCTGTGGAGTACTACTC
1659313 CACCTGCTGTGGAGTACTACT
1 CACCTGCTGTGGAGTACTACT
1659334 TGTCTTAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.33
Consensus pattern (22 bp):
CACCTGCTGTGGAGTACTACTC
Found at i:1668379 original size:15 final size:15
Alignment explanation
Indices: 1668359--1668399 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
1668349 TCATTCGGTT
1668359 ATTAATTTTTAACAA
1 ATTAATTTTTAACAA
* *
1668374 ATTAATTATAAACAA
1 ATTAATTTTTAACAA
*
1668389 ATGAATTTTTA
1 ATTAATTTTTA
1668400 TGGTGAAGAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (15 bp):
ATTAATTTTTAACAA
Found at i:1668866 original size:21 final size:21
Alignment explanation
Indices: 1668804--1668872 Score: 68
Period size: 21 Copynumber: 3.1 Consensus size: 21
1668794 ATTAACAAAT
*
1668804 ATATTTATTATTAATTAATATAA
1 ATATTTATT-TTAATT-TTATAA
*
1668827 ATATTT-TATTTAATATTATAA
1 ATATTTAT-TTTAATTTTATAA
*
1668848 ATATTTATTTTTATTTTATTAA
1 ATATTTATTTTAATTTTA-TAA
1668870 ATA
1 ATA
1668873 CTATTATGAT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
21 19 0.49
22 13 0.33
23 7 0.18
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
ATATTTATTTTAATTTTATAA
Found at i:1668987 original size:34 final size:34
Alignment explanation
Indices: 1668931--1669148 Score: 242
Period size: 34 Copynumber: 6.4 Consensus size: 34
1668921 ATATTTATAT
**
1668931 TTGTTGATTAAAT-GGTGATTTGGTAATTTACCA
1 TTGTTGATTAAATGGGTGATTTGGTAGCTTACCA
* * **
1668964 TTGTTGATTAAATGGGTGATTTGGTGGTTTGTCA
1 TTGTTGATTAAATGGGTGATTTGGTAGCTTACCA
* *
1668998 TTGTTGACTAAATGGGAGATTTGGTAGCTTACCA
1 TTGTTGATTAAATGGGTGATTTGGTAGCTTACCA
* **
1669032 TTGTTGATTAAATGAGAAATTTGGTAGCTTACCA
1 TTGTTGATTAAATGGGTGATTTGGTAGCTTACCA
* * *
1669066 TTATTGATTAAATCGGTGATTTGGTGGCTTACCA
1 TTGTTGATTAAATGGGTGATTTGGTAGCTTACCA
* * * **
1669100 TTGTTGACTAAAT-GGTAGATTTTGTAGGTTGTCA
1 TTGTTGATTAAATGGGT-GATTTGGTAGCTTACCA
1669134 TTGTTGATTAAATGG
1 TTGTTGATTAAATGG
1669149 TGGTTTTTAC
Statistics
Matches: 155, Mismatches: 27, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
33 16 0.10
34 138 0.89
35 1 0.01
ACGTcount: A:0.25, C:0.07, G:0.25, T:0.42
Consensus pattern (34 bp):
TTGTTGATTAAATGGGTGATTTGGTAGCTTACCA
Found at i:1669073 original size:102 final size:101
Alignment explanation
Indices: 1668931--1669148 Score: 301
Period size: 102 Copynumber: 2.1 Consensus size: 101
1668921 ATATTTATAT
** * * * * **
1668931 TTGTTGATTAAATGGTGATTTGGTAATTTACCATTGTTGATTAAATGGGTGATTTGGTGGTTTGT
1 TTGTTGATTAAATGGAAATTTGGTAACTTACCATTATTGATTAAATCGGTGATTTGGTGGCTTAC
1668996 CATTGTTGACTAAATGGGAGATTTGGTAGCTTACCA
66 CATTGTTGACTAAATGGGAGATTTGGTAGCTTACCA
*
1669032 TTGTTGATTAAATGAGAAATTTGGTAGCTTACCATTATTGATTAAATCGGTGATTTGGTGGCTTA
1 TTGTTGATTAAATG-GAAATTTGGTAACTTACCATTATTGATTAAATCGGTGATTTGGTGGCTTA
* * * **
1669097 CCATTGTTGACTAAATGGTAGATTTTGTAGGTTGTCA
65 CCATTGTTGACTAAATGGGAGATTTGGTAGCTTACCA
1669134 TTGTTGATTAAATGG
1 TTGTTGATTAAATGG
1669149 TGGTTTTTAC
Statistics
Matches: 102, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
101 15 0.15
102 87 0.85
ACGTcount: A:0.25, C:0.07, G:0.25, T:0.42
Consensus pattern (101 bp):
TTGTTGATTAAATGGAAATTTGGTAACTTACCATTATTGATTAAATCGGTGATTTGGTGGCTTAC
CATTGTTGACTAAATGGGAGATTTGGTAGCTTACCA
Found at i:1670341 original size:33 final size:32
Alignment explanation
Indices: 1670301--1670386 Score: 111
Period size: 33 Copynumber: 2.7 Consensus size: 32
1670291 TATATAATTA
** *
1670301 AAAAAATAAAATAAGAAAATTTTAAAAATTTTT
1 AAAAAATAAAATAA-AAAATTTTAAAAAAATCT
*
1670334 AAAAAATAAAATAAATAAATTCTAAAAAAATCT
1 AAAAAATAAAATAAA-AAATTTTAAAAAAATCT
1670367 -AAAAATAAAATAAAAAATTT
1 AAAAAATAAAATAAAAAATTT
1670387 AGTTCCATGG
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
31 5 0.11
32 15 0.32
33 27 0.57
ACGTcount: A:0.69, C:0.02, G:0.01, T:0.28
Consensus pattern (32 bp):
AAAAAATAAAATAAAAAATTTTAAAAAAATCT
Found at i:1670811 original size:22 final size:21
Alignment explanation
Indices: 1670777--1670825 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
1670767 AAATAAATTT
*
1670777 AAAATTTAATTTATGATAA-A
1 AAAATTTAATTTATAATAATA
1670797 AAAATATTACATTTATAATAATA
1 AAAAT-TTA-ATTTATAATAATA
1670820 AAAATT
1 AAAATT
1670826 GAGGTATCCA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 5 0.20
21 3 0.12
22 11 0.44
23 6 0.24
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (21 bp):
AAAATTTAATTTATAATAATA
Found at i:1676348 original size:34 final size:34
Alignment explanation
Indices: 1676310--1676411 Score: 195
Period size: 34 Copynumber: 3.0 Consensus size: 34
1676300 CTTTGTTAAG
1676310 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
1 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
1676344 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
1 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
*
1676378 TGTGTTTGGTGAGAATGTTAGGTGTGTTAGGTGA
1 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
1676412 GAATGTTAGG
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
34 67 1.00
ACGTcount: A:0.20, C:0.00, G:0.39, T:0.41
Consensus pattern (34 bp):
TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
Found at i:1676410 original size:22 final size:22
Alignment explanation
Indices: 1676303--1676433 Score: 103
Period size: 22 Copynumber: 5.9 Consensus size: 22
1676293 TTAATTTCTT
* * *
1676303 TGTTAAGTGTATTTGGTGAGAA
1 TGTTAGGTGTGTTAGGTGAGAA
*
1676325 TGTTAGGTGTGTTAGGTGATGTA
1 TGTTAGGTGTGTTAGGTGA-GAA
1676348 T-TT-GGTGAGAATGTTAGGT--G--
1 TGTTAGGT--G--TGTTAGGTGAGAA
*
1676368 TGTTAGGTGATGTGTTTGGTGAGAA
1 TGTTA-G-G-TGTGTTAGGTGAGAA
1676393 TGTTAGGTGTGTTAGGTGAGAA
1 TGTTAGGTGTGTTAGGTGAGAA
1676415 TGTTAGGTGTGTTAGGTGA
1 TGTTAGGTGTGTTAGGTGA
1676434 TGTATTTGGT
Statistics
Matches: 89, Mismatches: 6, Indels: 28
0.72 0.05 0.23
Matches are distributed among these distances:
20 1 0.01
21 12 0.13
22 52 0.58
23 8 0.09
24 2 0.02
25 14 0.16
ACGTcount: A:0.21, C:0.00, G:0.39, T:0.40
Consensus pattern (22 bp):
TGTTAGGTGTGTTAGGTGAGAA
Found at i:1676411 original size:56 final size:56
Alignment explanation
Indices: 1676351--1676462 Score: 206
Period size: 56 Copynumber: 2.0 Consensus size: 56
1676341 TGATGTATTT
* *
1676351 GGTGAGAATGTTAGGTGTGTTAGGTGATGTGTTTGGTGAGAATGTTAGGTGTGTTA
1 GGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTATGTTA
1676407 GGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTATGTTA
1 GGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTATGTTA
1676463 ACATGTATAT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.21, C:0.00, G:0.39, T:0.39
Consensus pattern (56 bp):
GGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTATGTTA
Found at i:1677850 original size:50 final size:50
Alignment explanation
Indices: 1677791--1678050 Score: 441
Period size: 50 Copynumber: 5.2 Consensus size: 50
1677781 TATACTTAGA
*
1677791 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATT
1 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATC
*
1677841 GTCAACAATTATGGCCACCTCCTTCTATTGTCAAAGGTTGGTGAAGAATC
1 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATC
*
1677891 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATTT
1 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAA-TC
*
1677942 GTCAACAATTATGGCCACCTCCTTCTATTGTCAAAGGTTGGTGAAGAATC
1 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATC
* *
1677992 GTCAACAATTATGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAATG-ATA
1 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAA-GAATC
1678042 GTCAACAAT
1 GTCAACAAT
1678051 GACAACAACT
Statistics
Matches: 199, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
50 150 0.75
51 49 0.25
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (50 bp):
GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATC
Found at i:1677989 original size:101 final size:100
Alignment explanation
Indices: 1677791--1678050 Score: 477
Period size: 101 Copynumber: 2.6 Consensus size: 100
1677781 TATACTTAGA
1677791 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATTGTCAACAATTATGGC
1 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATTGTCAACAATTATGGC
1677856 CACCTCCTTCTATTGTCAAAGGTTGGTGAAGAATC
66 CACCTCCTTCTATTGTCAAAGGTTGGTGAAGAATC
1677891 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATTTGTCAACAATTATGG
1 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAA-TTGTCAACAATTATGG
1677956 CCACCTCCTTCTATTGTCAAAGGTTGGTGAAGAATC
65 CCACCTCCTTCTATTGTCAAAGGTTGGTGAAGAATC
* *
1677992 GTCAACAATTATGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAATG-ATAGTCAACAAT
1 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAA-GAATTGTCAACAAT
1678051 GACAACAACT
Statistics
Matches: 156, Mismatches: 2, Indels: 4
0.96 0.01 0.02
Matches are distributed among these distances:
100 58 0.37
101 97 0.62
102 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (100 bp):
GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATTGTCAACAATTATGGC
CACCTCCTTCTATTGTCAAAGGTTGGTGAAGAATC
Found at i:1682503 original size:50 final size:50
Alignment explanation
Indices: 1682444--1682703 Score: 441
Period size: 50 Copynumber: 5.2 Consensus size: 50
1682434 TATACTTAGA
*
1682444 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATT
1 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATC
*
1682494 GTCAACAATTATGGCCACCTCCTTCTATTGTCAAAGGTTGGTGAAGAATC
1 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATC
*
1682544 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATTT
1 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAA-TC
*
1682595 GTCAACAATTATGGCCACCTCCTTCTATTGTCAAAGGTTGGTGAAGAATC
1 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATC
* *
1682645 GTCAACAATTATGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAATG-ATA
1 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAA-GAATC
1682695 GTCAACAAT
1 GTCAACAAT
1682704 GACAACAACT
Statistics
Matches: 199, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
50 150 0.75
51 49 0.25
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (50 bp):
GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATC
Found at i:1682642 original size:101 final size:100
Alignment explanation
Indices: 1682444--1682703 Score: 477
Period size: 101 Copynumber: 2.6 Consensus size: 100
1682434 TATACTTAGA
1682444 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATTGTCAACAATTATGGC
1 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATTGTCAACAATTATGGC
1682509 CACCTCCTTCTATTGTCAAAGGTTGGTGAAGAATC
66 CACCTCCTTCTATTGTCAAAGGTTGGTGAAGAATC
1682544 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATTTGTCAACAATTATGG
1 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAA-TTGTCAACAATTATGG
1682609 CCACCTCCTTCTATTGTCAAAGGTTGGTGAAGAATC
65 CCACCTCCTTCTATTGTCAAAGGTTGGTGAAGAATC
* *
1682645 GTCAACAATTATGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAATG-ATAGTCAACAAT
1 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAA-GAATTGTCAACAAT
1682704 GACAACAACT
Statistics
Matches: 156, Mismatches: 2, Indels: 4
0.96 0.01 0.02
Matches are distributed among these distances:
100 58 0.37
101 97 0.62
102 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (100 bp):
GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATTGTCAACAATTATGGC
CACCTCCTTCTATTGTCAAAGGTTGGTGAAGAATC
Found at i:1683088 original size:16 final size:16
Alignment explanation
Indices: 1683067--1683100 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
1683057 TTTTAACTTA
1683067 ACAAAAATT-AATTATG
1 ACAAAAATTCAATT-TG
1683083 ACAAAAATTCAATTTG
1 ACAAAAATTCAATTTG
1683099 AC
1 AC
1683101 TTCTTTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.53, C:0.12, G:0.06, T:0.29
Consensus pattern (16 bp):
ACAAAAATTCAATTTG
Found at i:1684774 original size:16 final size:18
Alignment explanation
Indices: 1684740--1684777 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
1684730 AATTAGAAGA
*
1684740 AAAATGAAAAATAAGCAT
1 AAAATGAAAAATAAACAT
1684758 AAAAT-AAAAA-AAACAT
1 AAAATGAAAAATAAACAT
1684774 AAAA
1 AAAA
1684778 GAATTACGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 9 0.47
17 5 0.26
18 5 0.26
ACGTcount: A:0.76, C:0.05, G:0.05, T:0.13
Consensus pattern (18 bp):
AAAATGAAAAATAAACAT
Found at i:1685010 original size:34 final size:34
Alignment explanation
Indices: 1684965--1685183 Score: 280
Period size: 34 Copynumber: 6.5 Consensus size: 34
1684955 GTAAAAAATA
* *
1684965 CCATTTAATCAACAATGGCAACCTACCAAATCTC
1 CCATTTAATCAACAATGGTAAACTACCAAATCTC
* * *
1684999 CAATTTAATCAACAATGGTAAGCCACCAAAT-TAC
1 CCATTTAATCAACAATGGTAAACTACCAAATCT-C
* * *
1685033 CCATTTAATTAACAATGGTAAGCTACCAAATTTC
1 CCATTTAATCAACAATGGTAAACTACCAAATCTC
* *
1685067 TCATTTAATCAACAATGGTAAGCTACCAAATCTC
1 CCATTTAATCAACAATGGTAAACTACCAAATCTC
* * *
1685101 CCATTTAGTCAACAATGGCAAACTACCAAATCAC
1 CCATTTAATCAACAATGGTAAACTACCAAATCTC
* *
1685135 CCATTTAATCAACAATGGTAAACTACTAAATC-A
1 CCATTTAATCAACAATGGTAAACTACCAAATCTC
1685168 CCATTTAATCAACAAT
1 CCATTTAATCAACAAT
1685184 TCTCTCACTT
Statistics
Matches: 164, Mismatches: 19, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
33 17 0.10
34 146 0.89
35 1 0.01
ACGTcount: A:0.41, C:0.25, G:0.07, T:0.26
Consensus pattern (34 bp):
CCATTTAATCAACAATGGTAAACTACCAAATCTC
Found at i:1685142 original size:102 final size:101
Alignment explanation
Indices: 1684960--1685183 Score: 315
Period size: 102 Copynumber: 2.2 Consensus size: 101
1684950 TTTTGGTAAA
* *
1684960 AAAT-ACCATTTAATCAACAATGGCAACCTACCAAATCTCCAATTTAATCAACAATGGTAAGCCA
1 AAATCACCATTTAATCAACAATGGCAACCTACCAAATCTCCAATTTAATCAACAATGGCAAACCA
* * *
1685024 CCAAATTACCCATTTAATTAACAATGGTAAGCTACC
66 CCAAATCACCCATTTAATCAACAATGGTAAACTACC
** * * * * *
1685060 AAATTTCTCATTTAATCAACAATGGTAAGCTACCAAATCTCCCATTTAGTCAACAATGGCAAACT
1 AAATCAC-CATTTAATCAACAATGGCAACCTACCAAATCTCCAATTTAATCAACAATGGCAAACC
*
1685125 ACCAAATCACCCATTTAATCAACAATGGTAAACTACT
65 ACCAAATCACCCATTTAATCAACAATGGTAAACTACC
1685162 AAATCACCATTTAATCAACAAT
1 AAATCACCATTTAATCAACAAT
1685184 TCTCTCACTT
Statistics
Matches: 108, Mismatches: 14, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
100 4 0.04
101 16 0.15
102 88 0.81
ACGTcount: A:0.42, C:0.25, G:0.07, T:0.26
Consensus pattern (101 bp):
AAATCACCATTTAATCAACAATGGCAACCTACCAAATCTCCAATTTAATCAACAATGGCAAACCA
CCAAATCACCCATTTAATCAACAATGGTAAACTACC
Found at i:1689289 original size:19 final size:19
Alignment explanation
Indices: 1689239--1689290 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
1689229 CTACTATTTC
* * *
1689239 ACGTGTATAGTAACCGTAT
1 ACGTGAATAGTACCCATAT
*
1689258 ACTTGAATAGTACCCATAT
1 ACGTGAATAGTACCCATAT
1689277 ACGTGAATAGTACC
1 ACGTGAATAGTACC
1689291 TCGACAACCA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (19 bp):
ACGTGAATAGTACCCATAT
Found at i:1689635 original size:34 final size:34
Alignment explanation
Indices: 1689597--1689813 Score: 269
Period size: 34 Copynumber: 6.4 Consensus size: 34
1689587 GTAAAAATCA
*
1689597 CCATTTAATCAACAATGGCAACCTACCAAATCTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
*
1689631 CCATTTAATCAACAATGGTAAGCC-ACCAAATCAC
1 CCATTTAATCAACAATGGTAA-CCTACCAAATCTC
* *
1689665 CCATTTAATCAACAATGGTAAGCTACCAAATTTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* *
1689699 TCATTTAATCAACAATGGTAAGCTACCAAATCTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* * *
1689733 CCATTTAGTCAACAATGGCAAACC-ACCAAATCAC
1 CCATTTAATCAACAATGG-TAACCTACCAAATCTC
* * * *
1689767 TCATTTAATCAACAATGGTAAACTACTAAATC-A
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
*
1689800 CTATTTAATCAACA
1 CCATTTAATCAACA
1689814 TATTGTATTT
Statistics
Matches: 159, Mismatches: 20, Indels: 9
0.85 0.11 0.05
Matches are distributed among these distances:
33 16 0.10
34 138 0.87
35 5 0.03
ACGTcount: A:0.41, C:0.26, G:0.07, T:0.26
Consensus pattern (34 bp):
CCATTTAATCAACAATGGTAACCTACCAAATCTC
Found at i:1689704 original size:68 final size:67
Alignment explanation
Indices: 1689591--1689813 Score: 311
Period size: 68 Copynumber: 3.3 Consensus size: 67
1689581 GGTTTGGTAA
* * *
1689591 AAATCACCATTTAATCAACAATGGCAACCTACCAAATCTCCCATTTAATCAACAATGGTAAGCCA
1 AAATCACCATTTAATCAACAATGGCAAACTACCAAATCTCTCATTTAATCAACAATGGTAAGCTA
1689656 CC
66 CC
* * *
1689658 AAATCACCCATTTAATCAACAATGGTAAGCTACCAAATTTCTCATTTAATCAACAATGGTAAGCT
1 AAATCA-CCATTTAATCAACAATGGCAAACTACCAAATCTCTCATTTAATCAACAATGGTAAGCT
1689723 ACC
65 ACC
* * * * *
1689726 AAATCTCCCATTTAGTCAACAATGGCAAACCACCAAATCACTCATTTAATCAACAATGGTAAACT
1 AAATC-ACCATTTAATCAACAATGGCAAACTACCAAATCTCTCATTTAATCAACAATGGTAAGCT
*
1689791 ACT
65 ACC
*
1689794 AAATCACTATTTAATCAACA
1 AAATCACCATTTAATCAACA
1689814 TATTGTATTT
Statistics
Matches: 137, Mismatches: 17, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
67 18 0.13
68 119 0.87
ACGTcount: A:0.41, C:0.26, G:0.07, T:0.26
Consensus pattern (67 bp):
AAATCACCATTTAATCAACAATGGCAAACTACCAAATCTCTCATTTAATCAACAATGGTAAGCTA
CC
Found at i:1689774 original size:102 final size:102
Alignment explanation
Indices: 1689591--1689813 Score: 342
Period size: 102 Copynumber: 2.2 Consensus size: 102
1689581 GGTTTGGTAA
* *
1689591 AAATCAC-CATTTAATCAACAATGGCAACCTACCAAATCTCCCATTTAATCAACAATGGTAAGCC
1 AAATCACTCATTTAATCAACAATGGCAACCTACCAAATCTCCCATTTAATCAACAATGGCAAACC
*
1689655 ACCAAATCACCCATTTAATCAACAATGGTAAGCTACC
66 ACCAAATCACCCATTTAATCAACAATGGTAAACTACC
** * * *
1689692 AAATTTCTCATTTAATCAACAATGGTAAGCTACCAAATCTCCCATTTAGTCAACAATGGCAAACC
1 AAATCACTCATTTAATCAACAATGGCAACCTACCAAATCTCCCATTTAATCAACAATGGCAAACC
* *
1689757 ACCAAATCACTCATTTAATCAACAATGGTAAACTACT
66 ACCAAATCACCCATTTAATCAACAATGGTAAACTACC
1689794 AAATCACT-ATTTAATCAACA
1 AAATCACTCATTTAATCAACA
1689814 TATTGTATTT
Statistics
Matches: 109, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
101 17 0.16
102 92 0.84
ACGTcount: A:0.41, C:0.26, G:0.07, T:0.26
Consensus pattern (102 bp):
AAATCACTCATTTAATCAACAATGGCAACCTACCAAATCTCCCATTTAATCAACAATGGCAAACC
ACCAAATCACCCATTTAATCAACAATGGTAAACTACC
Found at i:1692150 original size:3 final size:3
Alignment explanation
Indices: 1692142--1692179 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
1692132 TCCTGGGGAC
*
1692142 AAT AAT AAT AAT AAT AAT ACT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1692180 AACATACACT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:1693274 original size:20 final size:20
Alignment explanation
Indices: 1693236--1693274 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1693226 TAATAATATA
* **
1693236 ATTTTTAAGAGAATTCAATC
1 ATTTTTAAGAAAAACCAATC
1693256 ATTTTTAAGAAAAACCAAT
1 ATTTTTAAGAAAAACCAAT
1693275 AGTTATTTAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.46, C:0.10, G:0.08, T:0.36
Consensus pattern (20 bp):
ATTTTTAAGAAAAACCAATC
Found at i:1698831 original size:22 final size:21
Alignment explanation
Indices: 1698804--1698850 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
1698794 ATTTTTATTC
*
1698804 TTAATAAGATTTAATTAA-TTTA
1 TTAATAAGAATT--TTAACTTTA
1698826 TTAATAAGAATTTTAACTTTA
1 TTAATAAGAATTTTAACTTTA
1698847 TTAA
1 TTAA
1698851 AGGTCTTTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 4 0.17
21 8 0.35
22 11 0.48
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (21 bp):
TTAATAAGAATTTTAACTTTA
Found at i:1699050 original size:21 final size:21
Alignment explanation
Indices: 1699026--1699070 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1699016 ATTTAATTTT
1699026 ATTTA-AAATTAAAAATAATAA
1 ATTTATAAATT-AAAATAATAA
* *
1699047 ATTTATAAATTTAAATATTAA
1 ATTTATAAATTAAAATAATAA
1699068 ATT
1 ATT
1699071 AAATTTACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
ATTTATAAATTAAAATAATAA
Found at i:1700371 original size:19 final size:19
Alignment explanation
Indices: 1700348--1700401 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
1700338 ATGAATTTAA
1700348 ATAAAATATTATTTATTTT
1 ATAAAATATTATTTATTTT
* * *
1700367 TTAAAAAATTAATTATTTT
1 ATAAAATATTATTTATTTT
* *
1700386 AAAAAATATTTTTTAT
1 ATAAAATATTATTTAT
1700402 AATAATCGTT
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATAAAATATTATTTATTTT
Found at i:1701273 original size:20 final size:20
Alignment explanation
Indices: 1701240--1701280 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
1701230 GATCAATCCA
*
1701240 AAAGCACTACATTTTTAAAAT
1 AAAGCACTA-AATTTTAAAAT
1701261 AAAG-ACTAAATTTTAAAAT
1 AAAGCACTAAATTTTAAAAT
1701280 A
1 A
1701281 TCAAACTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 11 0.58
20 4 0.21
21 4 0.21
ACGTcount: A:0.54, C:0.10, G:0.05, T:0.32
Consensus pattern (20 bp):
AAAGCACTAAATTTTAAAAT
Found at i:1702710 original size:25 final size:25
Alignment explanation
Indices: 1702682--1702735 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
1702672 TGGATCAAAT
*
1702682 AATAGTAGTTTAAAATTTATATAAA
1 AATAGTAGTTTAAAATATATATAAA
* **
1702707 AATATTTTTTTAAAATATATATAAA
1 AATAGTAGTTTAAAATATATATAAA
1702732 AATA
1 AATA
1702736 TAATTTTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.43
Consensus pattern (25 bp):
AATAGTAGTTTAAAATATATATAAA
Found at i:1702736 original size:25 final size:26
Alignment explanation
Indices: 1702690--1702757 Score: 90
Period size: 25 Copynumber: 2.8 Consensus size: 26
1702680 ATAATAGTAG
* *
1702690 TTTAAAATTTATATAAAAATAT-TTT
1 TTTAAAATATATATAAAAATATAATT
1702715 TTTAAAATATATATAAAAATATAATT
1 TTTAAAATATATATAAAAATATAATT
1702741 TTT-AAATAT-TA-AAAAAT
1 TTTAAAATATATATAAAAAT
1702758 TTAAATTTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.15
24 2 0.05
25 27 0.68
26 5 0.12
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (26 bp):
TTTAAAATATATATAAAAATATAATT
Found at i:1702791 original size:17 final size:17
Alignment explanation
Indices: 1702765--1702803 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
1702755 AATTTAAATT
1702765 TATTTATATTAAATATA
1 TATTTATATTAAATATA
* **
1702782 TATTTGTATTTTATATA
1 TATTTATATTAAATATA
1702799 TATTT
1 TATTT
1702804 TCAAGTTAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (17 bp):
TATTTATATTAAATATA
Found at i:1707845 original size:660 final size:660
Alignment explanation
Indices: 1706545--1708200 Score: 1537
Period size: 661 Copynumber: 2.5 Consensus size: 660
1706535 ATTATTAATA
* * * *
1706545 ATTTTAGTTTTATT-AAAAGTTTTCCATTAAACATATTTATTTGATGATAAATAAAAAAGAATTA
1 ATTTTAATTTTATTAAAAAATCTT-CATTAAATATATTTA-TTGATGATAAATAAAAAA-AATTA
* * * *
1706609 AAGTTTACATTAAATTATTTTATTTTCAAGTTTTAACTTTTTGTTAGCA-TAAAATCCAAATGAA
63 AATTTTACATTAAATTACTTTATTTTCAAGTTTTAA-TTTTTATTAACATTAAAATCCAAATGAA
* * *
1706673 TTCATTTGATAAAAAAATAAAAAAAGAGTTAAAATTTATATTGATTTTTTTTTATTTTCATAAGA
127 TTTATTTGAT-AAAAAAT-ATAAAAGAGTTAAAATTTATATTGA--CTTTTTTATTTTCATAAGA
* * * * * *
1706738 CTTT-ATTTTATAT--TA-T-AATTAATAAATTA-ATAAATTCAAATATTCAATAAACTTTATAT
188 -TTTAATTTTATATAAAATTAAAATAATAAATTATATAAATTTAAATAATAAATAAATTTTATAT
* * * *
1706797 GATAATAAATTTATTAATTTTAATTACTTATAAAATATATAACTACAAATATATAAAAT-AATAA
252 GTTAAT-AATTTATTAATTTTAATAACTTA-AAAATACATAACTACATATATATAAAATAAATAA
1706861 AATAATAAATATTCCCTAACATATGACTAACAACAAAAACAGTGAATGAAAAAGAACAAAAAAGA
315 AATAATAAATATT-CCTAACATATGACTAACAACAAAAACAGTGAA-GAAAAAGAACAAAAAAGA
*
1706926 AATAGTATCAATTACCTAATATGAGCATGGTGGACCAAAGTTCTTTTAAAAGAGATAGAATGCGA
378 AACAGTATCAATTACCTAATATGAGCATGGTGGACCAAAGTTCTTTTAAAAGAGATAGAATGCGA
*
1706991 CAACATTGGCCCAAAGAAATTTGACAATGTATGGAACCTAGGAATTGAGTCAAATATTTTTGATG
443 CAACATTGGCCCAAAGAAATTTGACAATATATGGAACCTAGGAATTGAGTCAAATATTTTTGATG
* *
1707056 GTAATGGATTTTTTAATTATTAAGAATTCATCAATAAAAATATATAAAAATAATATAAATTTTTT
508 GTAATGAATTTTTTAATTATTAAAAATTCATCAATAAAAATATATAAAAATAATATAAA-----T
* * *** *
1707121 AAACTGATAAAAAAATTATAGATATTCATTCTAATTATAAACTATCATTAAAATATTTTTTATTA
568 AAACTCATAAAAAAATTATAGATATTAATAAAAATTATAAACTATCATTAAAATATTATTTATTA
1707186 GTA-AATATATTAAAT-TTA-TAAGTAAACA-
633 GTATAA-ATATT-AATGTTATTAA-TAAA-AT
* **
1707214 A-TTTAATTGTTATTAAAAAATCTTCATTAAATATATTTATATGATGGTAAATAAAAAATTTTAA
1 ATTTTAATT-TTATTAAAAAATCTTCATTAAATATATTTAT-TGATGATAAATAAAAAAAATTAA
* *
1707278 ATTTTACATTAAATTA-TTTATTTTCAAGTTTTTATTTTTCATTAACATTAAAATCCAAATCAAT
64 ATTTTACATTAAATTACTTTATTTTCAAGTTTTAATTTTT-ATTAACATTAAAATCCAAATGAAT
* * *
1707342 TTATTTGATAAAAAATGTAAAGGAGTTAAAATTTATAATGACTTTTTTAATTTTCATAAGATTTA
128 TTATTTGATAAAAAATATAAAAGAGTTAAAATTTATATTGACTTTTTT-ATTTTCATAAGATTTA
* *
1707407 ATTTTATAGTAAAATTAAAATAATAAATTATATAAATTTAAACAATAAACAAATTTTATATGTTA
192 ATTTTATA-TAAAATTAAAATAATAAATTATATAAATTTAAATAATAAATAAATTTTATATGTTA
*
1707472 ATGAATTTATTAATTTTAATAACTTAAAAAGTACATAACTACATATATTTAAAATAAATAAAATA
256 AT-AATTTATTAATTTTAATAACTTAAAAA-TACATAACTACATATATATAAAATAAATAAAATA
* * * ** *
1707537 A-AGAGTATT-C-AGCATGA-GA-T-A-AGCAGTAA-A-TGAA-AAATAA-AA-ATAAAAGAAAC
319 ATA-AATATTCCTAACAT-ATGACTAACAACAAAAACAGTGAAGAAA-AAGAACAAAAAAGAAAC
* * * * * *
1707590 AGTATCAGTTACCTAATTTGAGCATGGTGGGCCAAA-TTCTTTTAATATAGATATAATGCGACAA
381 AGTATCAATTACCTAATATGAGCATGGTGGACCAAAGTTCTTTTAAAAGAGATAGAATGCGACAA
* * * * * * * *
1707654 GC-TTGGCCCAAATAAATTTGACATTATTTGTAGCTTAGGTATTATGAATTCAATATTTTATTTT
446 -CATTGGCCCAAAGAAATTTGACAATATATGGAACCTAGG-AAT-TG-AGTCAA-A---TATTTT
* * * * * *
1707718 GATGATGGTGATGAATTTTTTTTAATTATTAAAAATTTATTAAT-AATATATATATATAT-ATAT
503 --TGATGGTAATGAA--TTTTTTAATTATTAAAAATTCATCAATAAAAATATATAAAAATAATAT
* * * * * *
1707781 -AA-AAAC-CA-AGAAGAATCTTTTGA-ATTAATAAAAAAATTATAGA-TATTCATT-ATA-ATT
564 AAATAAACTCATAAAAAAAT-TATAGATATTAAT--AAAAATTATAAACTA-TCATTAAAATATT
* **
1707838 ATTTATTATTATTAAATATTTTTGTTATTAATAAAAT
625 ATTTATTAGTA-TAAATATTAATGTTATTAATAAAAT
* * * * *
1707875 ATTTTAATTTTATTAAAAATTTTTTATTAAATATATTTATTCAATGATAACA-AAAAAAAGTTAA
1 ATTTTAATTTTATTAAAAAATCTTCATTAAATATATTTATT-GATGATAA-ATAAAAAAAATTAA
* * * * * **
1707939 ATCTTATAGTAAATTACTTTATTTTTAAG-TTTAATCTTTTATTAATATTAAAATGTAAATGAAT
64 ATTTTACATTAAATTACTTTATTTTCAAGTTTTAAT-TTTTATTAACATTAAAATCCAAATGAAT
* ** * *
1708003 TTATTTGATAAAAAATTTAATAAGAGCAAAAATTTAGATTGACTTTATTATTTTCATAAGATTTA
128 TTATTTGATAAAAAATATAA-AAGAGTTAAAATTTATATTGACTTTTTTATTTTCATAAGATTTA
* * * *
1708068 ATTTTATATTAAAATAAAAAATAAT-AATT-TATAAATTTAAATACTAAATAAATGTTA-ATTTT
192 ATTTTATA-TAAAAT-TAAAATAATAAATTATATAAATTTAAATAATAAATAAATTTTATA-TGT
** * * * * *
1708130 TAATATATTTATTAATTTTAATTATTTTTAATATACATAAATAAATATATCTAAAATAAATAAAA
254 TAATA-ATTTATTAATTTTAA-TAACTTAAAAATACATAACTACATATATATAAAATAAATAAAA
1708195 TAATAA
317 TAATAA
1708201 GTACTCACAT
Statistics
Matches: 823, Mismatches: 114, Indels: 109
0.79 0.11 0.10
Matches are distributed among these distances:
659 2 0.00
660 159 0.19
661 210 0.26
662 82 0.10
663 7 0.01
664 14 0.02
665 21 0.03
666 32 0.04
667 36 0.04
668 53 0.06
669 58 0.07
670 37 0.04
671 97 0.12
672 15 0.02
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.40
Consensus pattern (660 bp):
ATTTTAATTTTATTAAAAAATCTTCATTAAATATATTTATTGATGATAAATAAAAAAAATTAAAT
TTTACATTAAATTACTTTATTTTCAAGTTTTAATTTTTATTAACATTAAAATCCAAATGAATTTA
TTTGATAAAAAATATAAAAGAGTTAAAATTTATATTGACTTTTTTATTTTCATAAGATTTAATTT
TATATAAAATTAAAATAATAAATTATATAAATTTAAATAATAAATAAATTTTATATGTTAATAAT
TTATTAATTTTAATAACTTAAAAATACATAACTACATATATATAAAATAAATAAAATAATAAATA
TTCCTAACATATGACTAACAACAAAAACAGTGAAGAAAAAGAACAAAAAAGAAACAGTATCAATT
ACCTAATATGAGCATGGTGGACCAAAGTTCTTTTAAAAGAGATAGAATGCGACAACATTGGCCCA
AAGAAATTTGACAATATATGGAACCTAGGAATTGAGTCAAATATTTTTGATGGTAATGAATTTTT
TAATTATTAAAAATTCATCAATAAAAATATATAAAAATAATATAAATAAACTCATAAAAAAATTA
TAGATATTAATAAAAATTATAAACTATCATTAAAATATTATTTATTAGTATAAATATTAATGTTA
TTAATAAAAT
Found at i:1707891 original size:19 final size:20
Alignment explanation
Indices: 1707842--1707897 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 20
1707832 ATAATTATTT
*
1707842 ATTATTATT-AAATATTTTT
1 ATTATTATTAAAATATTTTA
* *
1707861 GTTATTAATAAAATATTTTA
1 ATTATTATTAAAATATTTTA
1707881 ATT-TTATTAAAA-ATTTT
1 ATTATTATTAAAATATTTT
1707898 TTATTAAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
18 5 0.16
19 15 0.48
20 11 0.35
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (20 bp):
ATTATTATTAAAATATTTTA
Found at i:1708146 original size:19 final size:17
Alignment explanation
Indices: 1708122--1708161 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 17
1708112 TAAATAAATG
1708122 TTAATTTTTAATATATTT
1 TTAATTTTTAAT-TATTT
1708140 ATTAA-TTTTAATTATTT
1 -TTAATTTTTAATTATTT
1708157 TTAAT
1 TTAAT
1708162 ATACATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 4 0.20
17 5 0.25
18 7 0.35
19 4 0.20
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTAATTTTTAATTATTT
Found at i:1708469 original size:12 final size:12
Alignment explanation
Indices: 1708452--1708479 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
1708442 TATTTAACTC
1708452 ATTATATAAATA
1 ATTATATAAATA
1708464 ATTATATAAATA
1 ATTATATAAATA
1708476 ATTA
1 ATTA
1708480 AAATTTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
ATTATATAAATA
Found at i:1709874 original size:15 final size:15
Alignment explanation
Indices: 1709858--1709894 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
1709848 AATTAACAAA
1709858 TTAAATTTAAAATAAT
1 TTAAATTT-AAATAAT
*
1709874 TTAAACTTAAATAAT
1 TTAAATTTAAATAAT
1709889 TTAAAT
1 TTAAAT
1709895 ATCAAATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (15 bp):
TTAAATTTAAATAAT
Found at i:1710378 original size:13 final size:14
Alignment explanation
Indices: 1710360--1710396 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
1710350 AGATTTAAAT
1710360 ATCAATTTTTTA-A
1 ATCAATTTTTTACA
*
1710373 ATCAA-TATTTACA
1 ATCAATTTTTTACA
1710386 ATCAATTTTTT
1 ATCAATTTTTT
1710397 TAAAAATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
12 5 0.25
13 11 0.55
14 4 0.20
ACGTcount: A:0.38, C:0.11, G:0.00, T:0.51
Consensus pattern (14 bp):
ATCAATTTTTTACA
Found at i:1711608 original size:26 final size:28
Alignment explanation
Indices: 1711559--1711612 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
1711549 ATCTCGAAGT
1711559 TTTTTTTTTTTTCTTTAGTCTTTTCTTC
1 TTTTTTTTTTTTCTTTAGTCTTTTCTTC
*
1711587 TTTTTTTTTTTT-TTTA-TGTTTTCTTC
1 TTTTTTTTTTTTCTTTAGTCTTTTCTTC
1711613 CATCACTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 9 0.36
27 4 0.16
28 12 0.48
ACGTcount: A:0.04, C:0.11, G:0.04, T:0.81
Consensus pattern (28 bp):
TTTTTTTTTTTTCTTTAGTCTTTTCTTC
Found at i:1712928 original size:17 final size:17
Alignment explanation
Indices: 1712908--1712963 Score: 62
Period size: 18 Copynumber: 3.3 Consensus size: 17
1712898 AAAATTAAAT
* *
1712908 TAATTTTATATATTTTA
1 TAATTTTATATAATTAA
1712925 TAATTTTTATATAATTAA
1 TAA-TTTTATATAATTAA
1712943 T-ATTTT-TATGAATTAA
1 TAATTTTATAT-AATTAA
1712959 TAATT
1 TAATT
1712964 AAATTTAACA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
15 3 0.09
16 11 0.32
17 7 0.21
18 13 0.38
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (17 bp):
TAATTTTATATAATTAA
Found at i:1713537 original size:29 final size:30
Alignment explanation
Indices: 1713504--1713567 Score: 89
Period size: 28 Copynumber: 2.2 Consensus size: 30
1713494 GGTTTCTATT
*
1713504 TTTAAAAATTT-ATGATTGAATTA-TTTAAA
1 TTTAAAAATTTAAT-ATTAAATTATTTTAAA
1713533 TTT-AAAATTTAATATTAAATTATTTTAAA
1 TTTAAAAATTTAATATTAAATTATTTTAAA
1713562 TTTAAA
1 TTTAAA
1713568 TGTTAAATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
28 15 0.48
29 14 0.45
30 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (30 bp):
TTTAAAAATTTAATATTAAATTATTTTAAA
Found at i:1713559 original size:23 final size:24
Alignment explanation
Indices: 1713533--1713583 Score: 79
Period size: 23 Copynumber: 2.2 Consensus size: 24
1713523 ATTATTTAAA
1713533 TTTAAAATTT-AATATTAAATTAT
1 TTTAAAATTTAAATATTAAATTAT
*
1713556 TTT-AAATTTAAATGTTAAATTAT
1 TTTAAAATTTAAATATTAAATTAT
1713579 TTTAA
1 TTTAA
1713584 TTTTGGATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 6 0.24
23 18 0.72
24 1 0.04
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (24 bp):
TTTAAAATTTAAATATTAAATTAT
Found at i:1714071 original size:21 final size:20
Alignment explanation
Indices: 1714033--1714071 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1714023 ATTTATAATT
**
1714033 TTTTTATAAAATTAATATGA
1 TTTTTATAAAAGAAATATGA
1714053 TTTTTATAAAAGAACATAT
1 TTTTTATAAAAGAA-ATAT
1714072 AAGCCCGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (20 bp):
TTTTTATAAAAGAAATATGA
Found at i:1714806 original size:43 final size:43
Alignment explanation
Indices: 1714745--1714830 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
1714735 CACCAGTGTG
1714745 GGGTCCAGCCCCATGAAAGAAAGAAAGAAAATTGAGGTGACGA
1 GGGTCCAGCCCCATGAAAGAAAGAAAGAAAATTGAGGTGACGA
1714788 GGGTCCAGCCCCATGAAAGAAAGAAAGAAAATTGAGGTGACGA
1 GGGTCCAGCCCCATGAAAGAAAGAAAGAAAATTGAGGTGACGA
1714831 TCGTATGTAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.42, C:0.16, G:0.30, T:0.12
Consensus pattern (43 bp):
GGGTCCAGCCCCATGAAAGAAAGAAAGAAAATTGAGGTGACGA
Found at i:1718331 original size:12 final size:12
Alignment explanation
Indices: 1718314--1718339 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1718304 GCCAACAAAG
1718314 GCTGCCAACTGT
1 GCTGCCAACTGT
1718326 GCTGCCAACTGT
1 GCTGCCAACTGT
1718338 GC
1 GC
1718340 CGTCAATTTT
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:0.15, C:0.35, G:0.27, T:0.23
Consensus pattern (12 bp):
GCTGCCAACTGT
Found at i:1718364 original size:12 final size:12
Alignment explanation
Indices: 1718342--1718392 Score: 57
Period size: 12 Copynumber: 3.9 Consensus size: 12
1718332 AACTGTGCCG
1718342 TCAATTTTGAAAT
1 TCAA-TTTGAAAT
1718355 TCAATTTGAAAT
1 TCAATTTGAAAT
*
1718367 AGTAAATGTTGAAAT
1 --TCAAT-TTGAAAT
1718382 TCAATTTGAAA
1 TCAATTTGAAA
1718393 CAGTGAAGGT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
12 14 0.42
13 8 0.24
14 4 0.12
15 7 0.21
ACGTcount: A:0.43, C:0.06, G:0.12, T:0.39
Consensus pattern (12 bp):
TCAATTTGAAAT
Done.