Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 39 of 292
Found at i:10653047 original size:25 final size:24
Alignment explanation
Indices: 10653019--10653075 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
10653009 TATTTACTTT
**
10653019 TATTTATTGTATATATAAATAAATA
1 TATTTATTCAATATA-AAATAAATA
*
10653044 TATTTATTCAATATAAAATAAATT
1 TATTTATTCAATATAAAATAAATA
*
10653068 TATGTATT
1 TATTTATT
10653076 TATTTTTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 15 0.54
25 13 0.46
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.49
Consensus pattern (24 bp):
TATTTATTCAATATAAAATAAATA
Found at i:10654775 original size:22 final size:21
Alignment explanation
Indices: 10654729--10654777 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
10654719 TGGGGAGACT
10654729 ACTCCACCCACCAACCACTAC
1 ACTCCACCCACCAACCACTAC
*
10654750 ACTCCACCCGTACCAGCCA-TAC
1 ACTCCACCC--ACCAACCACTAC
10654772 ACTCCA
1 ACTCCA
10654778 TGTGGGGAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 9 0.36
22 9 0.36
23 7 0.28
ACGTcount: A:0.31, C:0.53, G:0.04, T:0.12
Consensus pattern (21 bp):
ACTCCACCCACCAACCACTAC
Found at i:10655017 original size:26 final size:26
Alignment explanation
Indices: 10654970--10655022 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
10654960 TCAAACATGC
*
10654970 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACACTAGGGGT
*
10654996 ATTTAGGT-AATTTATCTACTAGGGGT
1 ATTTAGGTCAATTTAAC-ACTAGGGGT
10655022 A
1 A
10655023 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.28, C:0.11, G:0.23, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACACTAGGGGT
Found at i:10656559 original size:26 final size:26
Alignment explanation
Indices: 10656507--10656693 Score: 272
Period size: 26 Copynumber: 7.2 Consensus size: 26
10656497 CATGAAATTC
10656507 TTATCATGAAACA-TTACCTAA-CTCA
1 TTATCATGAAACATTTACCTAACCT-A
*
10656532 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
10656558 TTATCAT-AGAGCATTTACCTAACCTA
1 TTATCATGA-AACATTTACCTAACCTA
* *
10656584 TTATCATGAAGCATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
10656610 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
10656636 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
10656662 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
10656688 TTATCA
1 TTATCA
10656694 ATTTGTATCA
Statistics
Matches: 151, Mismatches: 7, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
25 14 0.09
26 135 0.89
27 2 0.01
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:10665036 original size:23 final size:23
Alignment explanation
Indices: 10665006--10665059 Score: 108
Period size: 23 Copynumber: 2.3 Consensus size: 23
10664996 TATTTGTTAA
10665006 AAGGTTTATTTAGTAATTAAACT
1 AAGGTTTATTTAGTAATTAAACT
10665029 AAGGTTTATTTAGTAATTAAACT
1 AAGGTTTATTTAGTAATTAAACT
10665052 AAGGTTTA
1 AAGGTTTA
10665060 AATGGAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.39, C:0.04, G:0.15, T:0.43
Consensus pattern (23 bp):
AAGGTTTATTTAGTAATTAAACT
Found at i:10665069 original size:23 final size:23
Alignment explanation
Indices: 10665006--10665070 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 23
10664996 TATTTGTTAA
** *
10665006 AAGGTTTATTTAGTAATTAAACT
1 AAGGTTTAAATAGAAATTAAACT
** *
10665029 AAGGTTTATTTAGTAATTAAACT
1 AAGGTTTAAATAGAAATTAAACT
*
10665052 AAGGTTTAAATGGAAATTA
1 AAGGTTTAAATAGAAATTA
10665071 GGCCATAGTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.42, C:0.03, G:0.15, T:0.40
Consensus pattern (23 bp):
AAGGTTTAAATAGAAATTAAACT
Found at i:10670040 original size:12 final size:12
Alignment explanation
Indices: 10670023--10670048 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
10670013 TTTATGGACT
10670023 TAGTAAATAAAA
1 TAGTAAATAAAA
10670035 TAGTAAATAAAA
1 TAGTAAATAAAA
10670047 TA
1 TA
10670049 ACTTAAACAA
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:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (12 bp):
TAGTAAATAAAA
Found at i:10688505 original size:41 final size:41
Alignment explanation
Indices: 10688445--10688533 Score: 133
Period size: 41 Copynumber: 2.2 Consensus size: 41
10688435 TGAACTTAAG
* ** * *
10688445 GGTTTAGGGTCTTAGGTCTTGGGCATAATGTCTAGGTTTTA
1 GGTTTAGGGTCTTAAGTCTTGGGCATAAACTCCAAGTTTTA
10688486 GGTTTAGGGTCTTAAGTCTTGGGCATAAACTCCAAGTTTTA
1 GGTTTAGGGTCTTAAGTCTTGGGCATAAACTCCAAGTTTTA
10688527 GGTTTAG
1 GGTTTAG
10688534 TGTTTTAGCA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.20, C:0.11, G:0.29, T:0.39
Consensus pattern (41 bp):
GGTTTAGGGTCTTAAGTCTTGGGCATAAACTCCAAGTTTTA
Found at i:10690799 original size:22 final size:22
Alignment explanation
Indices: 10690753--10690799 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
10690743 AAATTGTAGT
**
10690753 AAAACAGTAGTGAAATGACAAC
1 AAAACAGTAGTGAAACAACAAC
* *
10690775 AAAATAGTAGTGAAACAACAGC
1 AAAACAGTAGTGAAACAACAAC
10690797 AAA
1 AAA
10690800 GCAACTACTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.57, C:0.13, G:0.17, T:0.13
Consensus pattern (22 bp):
AAAACAGTAGTGAAACAACAAC
Found at i:10691554 original size:24 final size:26
Alignment explanation
Indices: 10691500--10691638 Score: 96
Period size: 24 Copynumber: 5.4 Consensus size: 26
10691490 AAAATATTAA
*
10691500 ATAAAATAATAGAATGAATATAACAT
1 ATAATATAATAGAATGAATATAACAT
10691526 ATAATATAATAGAATG-A-ATAACAT
1 ATAATATAATAGAATGAATATAACAT
* * * *
10691550 ATAATA-ACATATAATATAATACAAAATT
1 ATAATATA-ATAGAAT-GAATATAACA-T
* *
10691578 ATAATA-AATTA-TATAAAATACTAA-AT
1 ATAATATAA-TAGAAT-GAATA-TAACAT
*
10691604 A-AA-ATAATAGATTGAATATAACAT
1 ATAATATAATAGAATGAATATAACAT
10691628 ATAATATAATA
1 ATAATATAATA
10691639 TAAAAAATCT
Statistics
Matches: 90, Mismatches: 11, Indels: 24
0.72 0.09 0.19
Matches are distributed among these distances:
23 4 0.04
24 29 0.32
25 8 0.09
26 24 0.27
27 13 0.14
28 12 0.13
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.31
Consensus pattern (26 bp):
ATAATATAATAGAATGAATATAACAT
Found at i:10691590 original size:28 final size:27
Alignment explanation
Indices: 10691549--10691603 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
10691539 ATGAATAACA
*
10691549 TATAATAACATATAATATAATACAAAAT
1 TATAATAACATAT-ATAAAATACAAAAT
*
10691577 TATAATAA-ATTATATAAAATACTAAAT
1 TATAATAACA-TATATAAAATACAAAAT
10691604 AAAATAATAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 13 0.54
28 11 0.46
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (27 bp):
TATAATAACATATATAAAATACAAAAT
Found at i:10691591 original size:102 final size:97
Alignment explanation
Indices: 10691477--10691666 Score: 292
Period size: 102 Copynumber: 1.9 Consensus size: 97
10691467 TACTAACATA
*
10691477 ATAAAAATTATATAAAATATTAAATAAAATAATAGAATGAATATAACATATAATATAATAGAATG
1 ATAAAAATTATATAAAATACTAAATAAAATAATAGAATGAATATAACATATAATATAATAGAA--
10691542 AATAA-CATATAATAACATATAATATAATACAAAATT
64 AA-AATC-TATAATAACATATAA-ATAATACAAAATT
* *
10691578 ATAATAAATTATATAAAATACTAAATAAAATAATAGATTGAATATAACATATAATATAATATAAA
1 ATAA-AAATTATATAAAATACTAAATAAAATAATAGAATGAATATAACATATAATATAATAGAAA
10691643 AAATCTATAATAACATATAAATAA
65 AAATCTATAATAACATATAAATAA
10691667 ATAAACAATA
Statistics
Matches: 84, Mismatches: 3, Indels: 7
0.89 0.03 0.07
Matches are distributed among these distances:
98 4 0.05
99 17 0.20
100 3 0.04
101 4 0.05
102 56 0.67
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.31
Consensus pattern (97 bp):
ATAAAAATTATATAAAATACTAAATAAAATAATAGAATGAATATAACATATAATATAATAGAAAA
AATCTATAATAACATATAAATAATACAAAATT
Found at i:10691651 original size:21 final size:22
Alignment explanation
Indices: 10691627--10691668 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
10691617 GAATATAACA
10691627 TATAATATA-ATATAAA-AAATC
1 TATAATA-ACATATAAATAAATC
10691648 TATAATAACATATAAATAAAT
1 TATAATAACATATAAATAAAT
10691669 AAACAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 1 0.05
21 14 0.74
22 4 0.21
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (22 bp):
TATAATAACATATAAATAAATC
Found at i:10693260 original size:20 final size:19
Alignment explanation
Indices: 10693217--10693267 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 19
10693207 GATATATGTT
*
10693217 GATTAATTAAGTAAAATAA
1 GATTAATTAAGTAAAACAA
10693236 GATTAATTAAGATAAAACATA
1 GATTAATTAAG-TAAAACA-A
10693257 -ATTAATTAAGT
1 GATTAATTAAGT
10693268 TAATTAACCT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 12 0.41
20 16 0.55
21 1 0.03
ACGTcount: A:0.55, C:0.02, G:0.10, T:0.33
Consensus pattern (19 bp):
GATTAATTAAGTAAAACAA
Found at i:10698580 original size:40 final size:40
Alignment explanation
Indices: 10698489--10698710 Score: 218
Period size: 40 Copynumber: 5.6 Consensus size: 40
10698479 GAATCACGTA
* * ** * *
10698489 CCTTCGGGATTTA-ACCGGATATAACCACTCGCAC-AAGG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
10698527 CCTTCGGGTCTTAGCCCGGATAT-GATCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TCACTAGCACAAATG
* *
10698567 CCTTTGGGACTTAGCCCGGATATAGTCGCTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
** * * * *
10698607 CCTTCGGGTTTTGGCCCGGATATAGTAACTCGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* * *
10698647 CCTTC-GGATCTTAGTCCGGATATAGTCACTTAACACAAAAG
1 CCTTCGGGA-CTTAGCCCGGATATAGTCAC-TAGCACAAATG
10698688 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
10698711 CATTCGAATA
Statistics
Matches: 147, Mismatches: 30, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
38 11 0.07
39 17 0.12
40 90 0.61
41 26 0.18
42 3 0.02
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:10698642 original size:80 final size:81
Alignment explanation
Indices: 10698526--10698710 Score: 241
Period size: 80 Copynumber: 2.3 Consensus size: 81
10698516 CTCGCACAAG
* *
10698526 GCCTTCGGGTCTTAGCCCGGATATGATCACTAGCATAAATGCCTTTGGGA-CTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATATGATAACTAGCATAAATGCC-TTCGGATCTTAGCCCGGATAT
* * *
10698590 AGTCGC-TAGCACAAAT
65 AGTCACTTAACACAAAA
* * * *
10698606 GCCTTCGGGTTTTGGCCCGGATAT-AGTAACTCGCATAAATGCCTTCGGATCTTAGTCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATATGA-TAACTAGCATAAATGCCTTCGGATCTTAGCCCGGATAT
10698670 AGTCACTTAACACAAAA
65 AGTCACTTAACACAAAA
*
10698687 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
10698711 CATTCGAATA
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
79 6 0.07
80 55 0.61
81 29 0.32
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (81 bp):
GCCTTCGGGTCTTAGCCCGGATATGATAACTAGCATAAATGCCTTCGGATCTTAGCCCGGATATA
GTCACTTAACACAAAA
Found at i:10701720 original size:42 final size:42
Alignment explanation
Indices: 10701609--10701730 Score: 156
Period size: 43 Copynumber: 2.9 Consensus size: 42
10701599 TATCGTACCA
* *
10701609 ATGTCATATCCCAGATATGGTCTTACATGTAATCTCGTATCG
1 ATGTCATATCCCAGATATGGTCTTACACGTAATCTCATATCG
* * *
10701651 ATGCCAATAGCCCAGCTATGGTCTTACACG-AATTCTCATATCG
1 ATGTC-ATATCCCAGATATGGTCTTACACGTAA-TCTCATATCG
* *
10701694 ATTTCATATCCCAGATATGGTCTTACATGTAATCTCA
1 ATGTCATATCCCAGATATGGTCTTACACGTAATCTCA
10701731 GTAACCCTAA
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
42 32 0.48
43 35 0.52
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.34
Consensus pattern (42 bp):
ATGTCATATCCCAGATATGGTCTTACACGTAATCTCATATCG
Found at i:10707735 original size:19 final size:19
Alignment explanation
Indices: 10707681--10707735 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
10707671 CTAAAAAAAT
*
10707681 TAATTTTTATACTTTTTGAA
1 TAATTTTTATA-TTTTTCAA
* *
10707701 TAATTTTTAAAATTTTCAA
1 TAATTTTTATATTTTTCAA
10707720 TAAATTTTT-TATTTTT
1 T-AATTTTTATATTTTT
10707736 AAAATTATAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.62
Consensus pattern (19 bp):
TAATTTTTATATTTTTCAA
Found at i:10719332 original size:10 final size:10
Alignment explanation
Indices: 10719317--10719342 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
10719307 ATGGTCTTGT
10719317 TTTTTTTTTC
1 TTTTTTTTTC
10719327 TTTTTTTTTC
1 TTTTTTTTTC
10719337 TTTTTT
1 TTTTTT
10719343 CTGTTAATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:10722652 original size:27 final size:27
Alignment explanation
Indices: 10722622--10722675 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
10722612 CCTATGTATT
*
10722622 TAACCAATATGCCCTTATTGGTACCAC
1 TAACCAATATGCCCTCATTGGTACCAC
10722649 TAACCAATATGCCCTCATTGGTACCAC
1 TAACCAATATGCCCTCATTGGTACCAC
10722676 AACTCAAACA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.30, C:0.31, G:0.11, T:0.28
Consensus pattern (27 bp):
TAACCAATATGCCCTCATTGGTACCAC
Found at i:10723475 original size:13 final size:13
Alignment explanation
Indices: 10723459--10723527 Score: 84
Period size: 13 Copynumber: 5.2 Consensus size: 13
10723449 TTATAGAAAC
10723459 TTCATATAACCAT
1 TTCATATAACCAT
* *
10723472 TTCATATATCTAT
1 TTCATATAACCAT
*
10723485 TTCCATATAAACAT
1 TT-CATATAACCAT
*
10723499 TTCATATATCCAT
1 TTCATATAACCAT
*
10723512 TTCATATTACCAT
1 TTCATATAACCAT
10723525 TTC
1 TTC
10723528 TGCTTGCTCA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
13 36 0.78
14 10 0.22
ACGTcount: A:0.33, C:0.22, G:0.00, T:0.45
Consensus pattern (13 bp):
TTCATATAACCAT
Found at i:10723491 original size:27 final size:26
Alignment explanation
Indices: 10723459--10723527 Score: 102
Period size: 27 Copynumber: 2.6 Consensus size: 26
10723449 TTATAGAAAC
*
10723459 TTCATATAACCATTTCATATATCTAT
1 TTCATATAACCATTTCATATATCCAT
*
10723485 TTCCATATAAACATTTCATATATCCAT
1 TT-CATATAACCATTTCATATATCCAT
*
10723512 TTCATATTACCATTTC
1 TTCATATAACCATTTC
10723528 TGCTTGCTCA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
26 14 0.37
27 24 0.63
ACGTcount: A:0.33, C:0.22, G:0.00, T:0.45
Consensus pattern (26 bp):
TTCATATAACCATTTCATATATCCAT
Found at i:10725434 original size:26 final size:26
Alignment explanation
Indices: 10725398--10725453 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
10725388 AAACTGTTAT
10725398 TAACACAATATTGACGATTACTCCGC
1 TAACACAATATTGACGATTACTCCGC
*
10725424 TAACACAATATTGACGATTACTCTGC
1 TAACACAATATTGACGATTACTCCGC
10725450 TAAC
1 TAAC
10725454 TTTCCTTTCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.36, C:0.25, G:0.11, T:0.29
Consensus pattern (26 bp):
TAACACAATATTGACGATTACTCCGC
Found at i:10727853 original size:44 final size:44
Alignment explanation
Indices: 10727786--10727869 Score: 132
Period size: 44 Copynumber: 1.9 Consensus size: 44
10727776 CAAATATCCC
* *
10727786 TAATCTATTCATAATCCCATCGACTCATCTTTCTTTTTCATAAA
1 TAATCTATACACAATCCCATCGACTCATCTTTCTTTTTCATAAA
**
10727830 TAATCTATACACAATCCTGTCGACTCATCTTTCTTTTTCA
1 TAATCTATACACAATCCCATCGACTCATCTTTCTTTTTCA
10727870 CAAACAGAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.27, C:0.26, G:0.04, T:0.43
Consensus pattern (44 bp):
TAATCTATACACAATCCCATCGACTCATCTTTCTTTTTCATAAA
Found at i:10731196 original size:13 final size:12
Alignment explanation
Indices: 10731178--10731221 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 12
10731168 ATTCGTTGAG
10731178 CATTTCATATATT
1 CATTTCA-ATATT
10731191 CATTTCAAGTATT
1 CATTTCAA-TATT
*
10731204 CATTCCAAATATT
1 CATTTC-AATATT
10731217 CATTT
1 CATTT
10731222 TCACATAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 1 0.04
13 24 0.89
14 2 0.07
ACGTcount: A:0.32, C:0.18, G:0.02, T:0.48
Consensus pattern (12 bp):
CATTTCAATATT
Found at i:10736094 original size:49 final size:49
Alignment explanation
Indices: 10736022--10736401 Score: 571
Period size: 49 Copynumber: 7.7 Consensus size: 49
10736012 ATCAAGATTC
* * *
10736022 GTGAAAATGTATATATATGTGATGAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * * *
10736071 GTGAAAATGTATATATATGTGATGAGGCCTAATGGCCGATGCGATGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * *
10736120 GCGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* *
10736169 GGGAAAGTATATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* *
10736218 GTGAAAGTATATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* *
10736267 GTGAAAGTATATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
10736316 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * * *
10736365 GTGAAAGTGTATATATATAGTGGTAAAGCCGAATGGC
1 GTGAAAGTGTATGTATAT-GTGATAAGGCCTAATGGC
10736402 TAATGTGAAT
Statistics
Matches: 312, Mismatches: 18, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
49 297 0.95
50 15 0.05
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (49 bp):
GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
Found at i:10736505 original size:37 final size:36
Alignment explanation
Indices: 10736450--10736536 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
10736440 AACTTGGAAA
10736450 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGT-AGACCCGATGACTACGTGTGGAGAT
10736488 TATGTCCGGGTACGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTA-GACCCGATGACTACGTGTGGAGAT
10736525 TATGTCCGGGTA
1 TATGTCCGGGTA
10736537 AGACTTCGTA
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 43 0.90
38 4 0.08
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.26
Consensus pattern (36 bp):
TATGTCCGGGTAGACCCGATGACTACGTGTGGAGAT
Found at i:10738441 original size:40 final size:39
Alignment explanation
Indices: 10738395--10738611 Score: 204
Period size: 40 Copynumber: 5.5 Consensus size: 39
10738385 TGAATGATAC
*
10738395 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGAATATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTG-ATATAT
* * *
10738435 CCGGGCTAAGACCCGAAGGCATTTGTG-TGAGTTGTTATAC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCT-AG-TGATATAT
* * * * *
10738475 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGT-GATATAT
* * *
10738515 CC-GGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCTAGTGATATAT
* * * **
10738554 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGCAT
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCTAGTGATATAT
*
10738594 CCGGGCTAGGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
10738612 AGCAATCATG
Statistics
Matches: 150, Mismatches: 21, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
39 21 0.14
40 126 0.84
41 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATATAT
Found at i:10742524 original size:49 final size:49
Alignment explanation
Indices: 10742452--10742812 Score: 569
Period size: 49 Copynumber: 7.4 Consensus size: 49
10742442 ATCAAGATTC
* * *
10742452 GTGAAAATGTATATATATGTGATGAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * * *
10742501 GTGAAAATGTATATATATGTGATGAGGCCTAATGGCCGATGCGATGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * *
10742550 GCGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* *
10742599 GGGAAAGTATATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* *
10742648 GTGAAAGTATATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* *
10742697 GTGAAAGTATATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
10742746 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
10742795 GTGAAAGTGTATATATAT
1 GTGAAAGTGTATGTATAT
10742813 AGGTGGTAAA
Statistics
Matches: 297, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 297 1.00
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (49 bp):
GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
Found at i:10742936 original size:37 final size:36
Alignment explanation
Indices: 10742881--10742967 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
10742871 AACTTGGAAA
10742881 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGT-AGACCCGATGACTACGTGTGGAGAT
10742919 TATGTCCGGGTACGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTA-GACCCGATGACTACGTGTGGAGAT
10742956 TATGTCCGGGTA
1 TATGTCCGGGTA
10742968 AGACTTTGTA
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 43 0.90
38 4 0.08
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.26
Consensus pattern (36 bp):
TATGTCCGGGTAGACCCGATGACTACGTGTGGAGAT
Found at i:10747428 original size:20 final size:20
Alignment explanation
Indices: 10747403--10747440 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
10747393 GTTTATTCGC
*
10747403 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
10747423 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
10747441 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:10752590 original size:26 final size:26
Alignment explanation
Indices: 10752561--10752668 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
10752551 TGGTACAAAT
10752561 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
10752587 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
10752613 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
10752639 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
10752665 TGAT
1 TGAT
10752669 GGACATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:10754112 original size:9 final size:9
Alignment explanation
Indices: 10754100--10754132 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
10754090 GAATTATTCG
10754100 AATCGAGTT
1 AATCGAGTT
10754109 AATCGAGTT
1 AATCGAGTT
*
10754118 AATCGAATT
1 AATCGAGTT
10754127 AATCGA
1 AATCGA
10754133 ATCAACTCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.30
Consensus pattern (9 bp):
AATCGAGTT
Found at i:10754133 original size:9 final size:9
Alignment explanation
Indices: 10754100--10754145 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 9
10754090 GAATTATTCG
*
10754100 AATCGAGTT
1 AATCGAATT
*
10754109 AATCGAGTT
1 AATCGAATT
10754118 AATCGAATT
1 AATCGAATT
*
10754127 AATCGAATC
1 AATCGAATT
10754136 AACTCGAATT
1 AA-TCGAATT
10754146 TTTTTTTCGA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
9 27 0.82
10 6 0.18
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.30
Consensus pattern (9 bp):
AATCGAATT
Found at i:10754537 original size:24 final size:24
Alignment explanation
Indices: 10754508--10754555 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
10754498 TTATTCAAAC
10754508 CCCTTACCCCCCATTTCAACGAAA
1 CCCTTACCCCCCATTTCAACGAAA
*
10754532 CCCTTACCCCCCATTTCTACGAAA
1 CCCTTACCCCCCATTTCAACGAAA
10754556 GACGAAACCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.27, C:0.46, G:0.04, T:0.23
Consensus pattern (24 bp):
CCCTTACCCCCCATTTCAACGAAA
Found at i:10759145 original size:137 final size:136
Alignment explanation
Indices: 10758860--10759133 Score: 485
Period size: 137 Copynumber: 2.0 Consensus size: 136
10758850 GAGTAGTCTC
*
10758860 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
* *
10758925 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATATGAAAAGGGCTCTGACCCAGTACCA
66 GTTATCTAAATAAGGGGCTAAGACCCAGTTTATTGTAATATGAAAAGGGCTCTGACCCAGTACCA
10758990 CTGTTA
131 CTGTTA
10758996 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATG-TTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
* * *
10759061 TGTTATCTAAATAAGGGGCTAAGACCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCTAGTACC
65 TGTTATCTAAATAAGGGGCTAAGACCCAGTTTATTGTAATATGAAAAGGGCTCTGACCCAGTACC
10759126 ACTGTTA
130 ACTGTTA
10759133 C
1 C
10759134 TAGAATGGGC
Statistics
Matches: 131, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
136 20 0.15
137 111 0.85
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTAAATAAGGGGCTAAGACCCAGTTTATTGTAATATGAAAAGGGCTCTGACCCAGTACCA
CTGTTA
Found at i:10761412 original size:46 final size:46
Alignment explanation
Indices: 10761358--10761624 Score: 363
Period size: 46 Copynumber: 5.8 Consensus size: 46
10761348 CTCTGATAGA
*
10761358 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG
* * *
10761404 AAACGTGTAAGACTATGGTTGAAAGATACCATGGCAACCTGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG
*
10761450 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG
* **
10761496 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACGGGG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAC-ATG
** * * **
10761543 AAATGAATAAGACCATGGTTGAATGATACCATGGCAACATGACAAA
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG
* * * *
10761589 AAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
10761625 TCATGTCGAA
Statistics
Matches: 200, Mismatches: 20, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
46 160 0.80
47 40 0.20
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.21
Consensus pattern (46 bp):
AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG
Found at i:10766682 original size:50 final size:50
Alignment explanation
Indices: 10766597--10766811 Score: 236
Period size: 50 Copynumber: 4.3 Consensus size: 50
10766587 GCTAAATGAC
* * * * *
10766597 CTTGTATATTCGGCCACATAGGTATGTACATATGTGATGTTGTATTGGAT
1 CTTGTATATTCGGCCATATAGGTAAGCACATATGTGATATTATATTGGAT
* * * * *
10766647 CTTGAATATTCGGCCATGA-AGGTATGCACAAATGTGATATTATGTTTGAAT
1 CTTGTATATTCGGCCAT-ATAGGTAAGCACATATGTGATATTAT-ATTGGAT
* * * *
10766698 -TTGTATATTCGGCCATATAAGTAAGTACATATGTGATATTAAATTTGAT
1 CTTGTATATTCGGCCATATAGGTAAGCACATATGTGATATTATATTGGAT
* * *
10766747 CTTGCATATTCGGCCATTTAGGTAAGCACATATGTGATATTATATTTGAT
1 CTTGTATATTCGGCCATATAGGTAAGCACATATGTGATATTATATTGGAT
*
10766797 CTTGTATATTTGGCC
1 CTTGTATATTCGGCC
10766812 CAATGAGTGA
Statistics
Matches: 137, Mismatches: 24, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
49 5 0.04
50 126 0.92
51 6 0.04
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.40
Consensus pattern (50 bp):
CTTGTATATTCGGCCATATAGGTAAGCACATATGTGATATTATATTGGAT
Found at i:10766776 original size:100 final size:100
Alignment explanation
Indices: 10766597--10766811 Score: 288
Period size: 100 Copynumber: 2.1 Consensus size: 100
10766587 GCTAAATGAC
* * * **
10766597 CTTGTATATTCGGCCACATAGGTATGTACATATGTGATGTTGTATTGGATCTTGAATATTCGGCC
1 CTTGTATATTCGGCCACATAAGTAAGTACATATGTGATATTAAATTGGATCTTGAATATTCGGCC
* *
10766662 ATGAAGGTATGCACAAATGTGATATTATGTTTGAAT
66 ATGAAGGTAAGCACAAATGTGATATTATATTTG-AT
* * *
10766698 -TTGTATATTCGGCCATATAAGTAAGTACATATGTGATATTAAATTTGATCTTGCATATTCGGCC
1 CTTGTATATTCGGCCACATAAGTAAGTACATATGTGATATTAAATTGGATCTTGAATATTCGGCC
** *
10766762 ATTTAGGTAAGCACATATGTGATATTATATTTGAT
66 ATGAAGGTAAGCACAAATGTGATATTATATTTGAT
*
10766797 CTTGTATATTTGGCC
1 CTTGTATATTCGGCC
10766812 CAATGAGTGA
Statistics
Matches: 99, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
99 2 0.02
100 97 0.98
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.40
Consensus pattern (100 bp):
CTTGTATATTCGGCCACATAAGTAAGTACATATGTGATATTAAATTGGATCTTGAATATTCGGCC
ATGAAGGTAAGCACAAATGTGATATTATATTTGAT
Found at i:10772220 original size:28 final size:28
Alignment explanation
Indices: 10772175--10772243 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
10772165 CTTAAAACCC
*
10772175 TAGGGGT-ATATCGGTAATTTTACTCTT
1 TAGGGGTAATTTCGGTAATTTTACTCTT
*
10772202 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTACTCTT
10772230 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
10772244 TGATCTACGC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 7 0.18
28 32 0.82
ACGTcount: A:0.20, C:0.10, G:0.26, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTACTCTT
Found at i:10778183 original size:40 final size:39
Alignment explanation
Indices: 10778003--10778183 Score: 170
Period size: 40 Copynumber: 4.6 Consensus size: 39
10777993 GACTCGCTCA
** * **
10778003 AATGCCTTCGGGACGAAGCCCGGTTATAGCGACTTGCAC
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCAC
* * *
10778042 GAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTTGCAC
1 -AATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCAC
* * *
10778082 AATGCCTTCGGG-CTTAG-CCGGATTTATTAACTCGCAC
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCAC
* * *
10778119 GAATGCCTTC-GGATCCTAGTCCGGATATAGTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTT-GCAC
*
10778160 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
10778184 CATCATTCGA
Statistics
Matches: 116, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
37 19 0.16
38 13 0.11
39 16 0.14
40 61 0.53
41 7 0.06
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCAC
Found at i:10786028 original size:78 final size:80
Alignment explanation
Indices: 10785946--10786092 Score: 201
Period size: 78 Copynumber: 1.9 Consensus size: 80
10785936 ATAGCGACTT
* * * *
10785946 GCACGAATGCCTTCGGGA-CTTAACCCGGGTTTAGTAACTT-GCACAATGCCTTCGGG-CTTAGC
1 GCACGAATGCCTTC-GGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGC
10786008 CCGGATTTATTAACTC
65 CCGGATTTATTAACTC
** *
10786024 GCACGAATGCCTTCGGATCCTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGCC
1 GCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCC
10786089 CGGA
66 CGGA
10786093 CATCATTCGA
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
77 3 0.05
78 30 0.51
79 15 0.25
80 11 0.19
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (80 bp):
GCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCC
CGGATTTATTAACTC
Found at i:10786092 original size:40 final size:39
Alignment explanation
Indices: 10785911--10786092 Score: 179
Period size: 40 Copynumber: 4.6 Consensus size: 39
10785901 GACTCGCTCA
** * **
10785911 AATGCCTTCGGGACGAAGCCCGGTTATAGCGACTTGCAC
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCAC
* * *
10785950 GAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTTGCAC
1 -AATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCAC
* * *
10785990 AATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCAC
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCAC
* * *
10786028 GAATGCCTTC-GGATCCTAGTCCGGATATAGTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTT-GCAC
*
10786069 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
10786093 CATCATTCGA
Statistics
Matches: 117, Mismatches: 20, Indels: 10
0.80 0.14 0.07
Matches are distributed among these distances:
38 24 0.21
39 21 0.18
40 65 0.56
41 7 0.06
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCAC
Found at i:10794325 original size:26 final size:26
Alignment explanation
Indices: 10794294--10794366 Score: 69
Period size: 26 Copynumber: 2.8 Consensus size: 26
10794284 TATCATCCCT
10794294 ATTTTACCCCTAGTAAAATTTTGACA
1 ATTTTACCCCTAGTAAAATTTTGACA
* * *
10794320 GTTTTA-GCCTTG-ACAAATTTTTGACA
1 ATTTTACCCCTAGTA-AAA-TTTTGACA
**
10794346 ATTTTACCATTAGTAAAATTT
1 ATTTTACCCCTAGTAAAATTT
10794367 CGAGAAAATA
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
24 1 0.03
25 7 0.20
26 21 0.60
27 5 0.14
28 1 0.03
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (26 bp):
ATTTTACCCCTAGTAAAATTTTGACA
Found at i:10803587 original size:18 final size:18
Alignment explanation
Indices: 10803564--10803630 Score: 66
Period size: 18 Copynumber: 3.7 Consensus size: 18
10803554 GCAATAAGTG
10803564 ACGTTTTGAAAATTAATA
1 ACGTTTTGAAAATTAATA
*
10803582 ACGTTTTGAAAGAGT-ATA
1 ACGTTTTGAAA-ATTAATA
* *
10803600 AC-TTTGTGATAATGAATA
1 ACGTTT-TGAAAATTAATA
*
10803618 ATGTTTTGAAAAT
1 ACGTTTTGAAAAT
10803631 GAATGACACG
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
17 4 0.10
18 30 0.77
19 5 0.13
ACGTcount: A:0.40, C:0.04, G:0.16, T:0.39
Consensus pattern (18 bp):
ACGTTTTGAAAATTAATA
Found at i:10814563 original size:12 final size:11
Alignment explanation
Indices: 10814548--10814594 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 11
10814538 ATGAAATAAC
10814548 AAATAATAAACA
1 AAATAATAAA-A
10814560 AAATAATAAATA
1 AAATAATAAA-A
10814572 ACAA-AATAAAA
1 A-AATAATAAAA
10814583 AAATAAATAAAA
1 AAAT-AATAAAA
10814595 CTTAAATAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
10 2 0.06
11 2 0.06
12 25 0.81
13 2 0.06
ACGTcount: A:0.79, C:0.04, G:0.00, T:0.17
Consensus pattern (11 bp):
AAATAATAAAA
Found at i:10814587 original size:20 final size:19
Alignment explanation
Indices: 10814512--10814611 Score: 69
Period size: 19 Copynumber: 5.1 Consensus size: 19
10814502 AAACATCCTC
10814512 TAAAATAATAAGAAAAA-AAA
1 TAAAA-AATAA-AAAAATAAA
* * *
10814532 CT-AAAAATGAAATAACAAA
1 -TAAAAAATAAAAAAATAAA
* * *
10814551 TAATAAACAAAATAATAAA
1 TAAAAAATAAAAAAATAAA
10814570 TAACAAAATAAAAAAATAAA
1 TAA-AAAATAAAAAAATAAA
**
10814590 TAAAACTTAAATAAAATAAA
1 TAAAAAATAAA-AAAATAAA
10814610 TA
1 TA
10814612 TGAGAGTAAA
Statistics
Matches: 64, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
18 5 0.08
19 29 0.45
20 29 0.45
21 1 0.02
ACGTcount: A:0.74, C:0.05, G:0.02, T:0.19
Consensus pattern (19 bp):
TAAAAAATAAAAAAATAAA
Found at i:10817368 original size:17 final size:17
Alignment explanation
Indices: 10817340--10817392 Score: 88
Period size: 17 Copynumber: 3.1 Consensus size: 17
10817330 TTGGGCTGGG
10817340 ATGGGTCCTGTGGGCCCA
1 ATGGG-CCTGTGGGCCCA
10817358 ATGGGCCTGTGGGCCCA
1 ATGGGCCTGTGGGCCCA
*
10817375 ATGGGCCTCTGGGCCCA
1 ATGGGCCTGTGGGCCCA
10817392 A
1 A
10817393 GAGGATAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
17 29 0.85
18 5 0.15
ACGTcount: A:0.13, C:0.30, G:0.38, T:0.19
Consensus pattern (17 bp):
ATGGGCCTGTGGGCCCA
Found at i:10817529 original size:27 final size:27
Alignment explanation
Indices: 10817452--10817531 Score: 101
Period size: 27 Copynumber: 3.0 Consensus size: 27
10817442 CTCATATCTG
* * *
10817452 TAGGCTAGTATTACTGAAATACCTCTGTA
1 TAGGGTAGAATTACTAAAATACC-CT-TA
10817481 -A-GGTAGAATTACTAAAATACCCTTA
1 TAGGGTAGAATTACTAAAATACCCTTA
10817506 TAGGGTAGAATTACTAAAATACCCTT
1 TAGGGTAGAATTACTAAAATACCCTT
10817532 GGTTTACAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
25 2 0.04
26 3 0.07
27 40 0.87
28 1 0.02
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (27 bp):
TAGGGTAGAATTACTAAAATACCCTTA
Found at i:10817544 original size:27 final size:27
Alignment explanation
Indices: 10817514--10817662 Score: 142
Period size: 27 Copynumber: 5.6 Consensus size: 27
10817504 TATAGGGTAG
*
10817514 AATTACTAAAATACCCTTGGTTTACAA
1 AATTACCAAAATACCCTTGGTTTACAA
**
10817541 AATTA-CTGAATACCCTTGGTTTACAA
1 AATTACCAAAATACCCTTGGTTTACAA
* ***
10817567 AATTACCAAAATGCCC-TCAATTAGCAA
1 AATTACCAAAATACCCTTGGTTTA-CAA
* * **
10817594 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTACAA
**
10817621 AATTACCAAAATA-CCTCTGGTTTGTAA
1 AATTACCAAAATACCCT-TGGTTTACAA
10817648 AATTACCAAAATACC
1 AATTACCAAAATACC
10817663 TCTGATTTGT
Statistics
Matches: 100, Mismatches: 17, Indels: 9
0.79 0.13 0.07
Matches are distributed among these distances:
26 29 0.29
27 67 0.67
28 4 0.04
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGGTTTACAA
Found at i:10817663 original size:27 final size:26
Alignment explanation
Indices: 10817565--10817881 Score: 183
Period size: 27 Copynumber: 11.7 Consensus size: 26
10817555 CTTGGTTTAC
* * * *
10817565 AAAATTACCAAAATGCCCTCAATTAGC
1 AAAATTACCAAAATACCCT-GATTTGT
10817592 AAAATTACCAAAATACCCCT-AGTTTGT
1 AAAATTACCAAAATA-CCCTGA-TTTGT
*
10817619 AAAATTACCAAAATACCTCTGGTTTGT
1 AAAATTACCAAAATACC-CTGATTTGT
10817646 AAAATTACCAAAATACCTCTGATTTGT
1 AAAATTACCAAAATACC-CTGATTTGT
* *** **
10817673 GAAATTATTGAAATACCCTCGACCTGT
1 AAAATTACCAAAATACCCT-GATTTGT
* *
10817700 AAAATTACCGAAATACCCTCGACTTGT
1 AAAATTACCAAAATACCCT-GATTTGT
* ** * * *
10817727 AAAATGACTGAAATGCCCTTAATTTGG
1 AAAATTACCAAAATACCC-TGATTTGT
*
10817754 AAAATTA-CAGAAATACCCCTGATTTAT
1 AAAATTACCA-AAATA-CCCTGATTTGT
* *
10817781 AAAATTA-CAAGAATACCCTTGACTTCT
1 AAAATTACCAA-AATACCC-TGATTTGT
* * *
10817808 AAAAATTA-CAGAAATACCATTGGTTTGC
1 -AAAATTACCA-AAATACC-CTGATTTGT
* * *
10817836 AAAATTGCCAAAATACCTTTGGTTTGT
1 AAAATTACCAAAATACC-CTGATTTGT
* * *
10817863 AGATTTACCAAAACACCCT
1 AAAATTACCAAAATACCCT
10817882 TGTAGGGTGA
Statistics
Matches: 233, Mismatches: 43, Indels: 29
0.76 0.14 0.10
Matches are distributed among these distances:
26 10 0.04
27 193 0.83
28 29 0.12
29 1 0.00
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (26 bp):
AAAATTACCAAAATACCCTGATTTGT
Found at i:10817813 original size:28 final size:27
Alignment explanation
Indices: 10817514--10817825 Score: 126
Period size: 27 Copynumber: 11.6 Consensus size: 27
10817504 TATAGGGTAG
* * *
10817514 AATTACTA-AAATACCCTTGGTTTACAA
1 AATTAC-AGAAATACCCCTGATTTATAA
* * * *
10817541 AATTACTG-AATACCCTTGGTTTACAA
1 AATTACAGAAATACCCCTGATTTATAA
* * * *
10817567 AATTACCA-AAAT-GCCCTCAATTAGCAA
1 AATTA-CAGAAATACCCCTGATTTA-TAA
*
10817594 AATTACCA-AAATACCCCT-AGTTTGTAA
1 AATTA-CAGAAATACCCCTGA-TTTATAA
* * *
10817621 AATTACCA-AAATACCTCTGGTTTGTAA
1 AATTA-CAGAAATACCCCTGATTTATAA
* * *
10817648 AATTACCA-AAATACCTCTGATTTGTGA
1 AATTA-CAGAAATACCCCTGATTTATAA
** ** *
10817675 AATTATTGAAATA-CCCTCGACCTGTAA
1 AATTACAGAAATACCCCT-GATTTATAA
* * *
10817702 AATTACCGAAATA-CCCTCGACTTGTAA
1 AATTACAGAAATACCCCT-GATTTATAA
* * * * * **
10817729 AATGACTGAAATGCCCTTAATTTGGAA
1 AATTACAGAAATACCCCTGATTTATAA
10817756 AATTACAGAAATACCCCTGATTTATAA
1 AATTACAGAAATACCCCTGATTTATAA
*
10817783 AATTACA-AGAATACCCTTGACTTCTA-AA
1 AATTACAGA-AATACCCCTGA-TT-TATAA
10817811 AATTACAGAAATACC
1 AATTACAGAAATACC
10817826 ATTGGTTTGC
Statistics
Matches: 232, Mismatches: 39, Indels: 27
0.78 0.13 0.09
Matches are distributed among these distances:
26 33 0.14
27 170 0.73
28 26 0.11
29 3 0.01
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (27 bp):
AATTACAGAAATACCCCTGATTTATAA
Found at i:10818352 original size:22 final size:22
Alignment explanation
Indices: 10818300--10818364 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
10818290 GCCAATTATT
* *
10818300 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
10818322 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
10818344 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
10818365 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.26, G:0.23, T:0.31
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:10818591 original size:22 final size:22
Alignment explanation
Indices: 10818566--10818613 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
10818556 GTTGATGTGA
* *
10818566 TGTTTACGTCTATGTGTTGTCC
1 TGTTTACGGCTATGAGTTGTCC
*
10818588 TGTTTATGGCTATGAGTTGTCC
1 TGTTTACGGCTATGAGTTGTCC
10818610 TGTT
1 TGTT
10818614 GACTTAGTAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.10, C:0.15, G:0.25, T:0.50
Consensus pattern (22 bp):
TGTTTACGGCTATGAGTTGTCC
Found at i:10823893 original size:42 final size:42
Alignment explanation
Indices: 10823846--10823937 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
10823836 TGGCCCTTAG
* ** *
10823846 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
10823888 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
10823930 GCCCATTT
1 GCCCATTT
10823938 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:10824113 original size:25 final size:25
Alignment explanation
Indices: 10824085--10824154 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
10824075 CTCTTTTAAT
*
10824085 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAGAGCCCTTTTC-GATA
*
10824110 AACTGGGGCAGAGCCCTTTTCGGTA
1 AACTGGGGCAGAGCCCTTTTCGATA
*
10824135 AACCGGGGCAGAGCCCTTTT
1 AACTGGGGCAGAGCCCTTTT
10824155 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
25 37 0.90
26 4 0.10
ACGTcount: A:0.23, C:0.26, G:0.29, T:0.23
Consensus pattern (25 bp):
AACTGGGGCAGAGCCCTTTTCGATA
Found at i:10825105 original size:27 final size:27
Alignment explanation
Indices: 10825075--10825173 Score: 92
Period size: 27 Copynumber: 3.6 Consensus size: 27
10825065 GTAAATCTAC
*
10825075 AAACCAAGGGTATTTCAATAATTTTGT
1 AAACCAAGGGTATTTCTATAATTTTGT
* *
10825102 AAACCAATGGTATTCCTATAATTTT-T
1 AAACCAAGGGTATTTCTATAATTTTGT
* *
10825128 AAAAAAGTCAAGGGTATTTCTGTAATTTTGT
1 ---AAA-CCAAGGGTATTTCTATAATTTTGT
* *
10825159 AAATCAGGGGTATTT
1 AAACCAAGGGTATTT
10825174 TGGTAATTTT
Statistics
Matches: 59, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
26 1 0.02
27 33 0.56
28 3 0.05
29 3 0.05
30 18 0.31
31 1 0.02
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.38
Consensus pattern (27 bp):
AAACCAAGGGTATTTCTATAATTTTGT
Found at i:10825179 original size:27 final size:26
Alignment explanation
Indices: 10825139--10825235 Score: 81
Period size: 27 Copynumber: 3.6 Consensus size: 26
10825129 AAAAAGTCAA
*
10825139 GGGTATTTCT-GTAATTTTGTAAATCAG
1 GGGTATTT-TGGTAATTTT-CAAATCAG
*
10825166 GGGTATTTTGGTAATTTTACAAAT-TG
1 GGGTATTTTGGTAATTTT-CAAATCAG
* * *
10825192 AGGGTATTTCGATAATTTCTCAAACCAG
1 -GGGTATTTTGGTAATTT-TCAAATCAG
*
10825220 TGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
10825236 CTATCCTACA
Statistics
Matches: 56, Mismatches: 10, Indels: 8
0.76 0.14 0.11
Matches are distributed among these distances:
26 2 0.04
27 52 0.93
28 2 0.04
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.43
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTCAAATCAG
Found at i:10825301 original size:27 final size:27
Alignment explanation
Indices: 10825267--10825358 Score: 132
Period size: 27 Copynumber: 3.4 Consensus size: 27
10825257 GTAATTTCAC
*
10825267 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGATAATTTTATA
* *
10825294 AA-CTGAGGGTAAAATGGTAATTTTATA
1 AATC-GAGGGTAAAACGATAATTTTATA
*
10825321 AATCGAGGGTAAAACGATAATTCTATA
1 AATCGAGGGTAAAACGATAATTTTATA
10825348 AATCGAGGGTA
1 AATCGAGGGTA
10825359 CTTTGGTAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
26 1 0.02
27 55 0.96
28 1 0.02
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGATAATTTTATA
Found at i:10825356 original size:54 final size:54
Alignment explanation
Indices: 10825267--10825372 Score: 151
Period size: 54 Copynumber: 2.0 Consensus size: 54
10825257 GTAATTTCAC
* *
10825267 AATCGAGGGTAAAACGATAATTTTGTAAACTGAGGGTAAAATGGTAATTTTATA
1 AATCGAGGGTAAAACGATAATTCTATAAACTGAGGGTAAAATGGTAATTTTATA
***
10825321 AATCGAGGGTAAAACGATAATTCTATAAA-TCGAGGGTACTTTGGTAATTTTA
1 AATCGAGGGTAAAACGATAATTCTATAAACT-GAGGGTAAAATGGTAATTTTA
10825373 CAAGTTGAAG
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
53 1 0.02
54 45 0.98
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.32
Consensus pattern (54 bp):
AATCGAGGGTAAAACGATAATTCTATAAACTGAGGGTAAAATGGTAATTTTATA
Found at i:10828734 original size:40 final size:41
Alignment explanation
Indices: 10828674--10828894 Score: 289
Period size: 40 Copynumber: 5.6 Consensus size: 41
10828664 TATTCGAATG
*
10828674 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
* *
10828714 ATATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAG-TGACT
* *
10828754 ATATCTGGGCTAAGA-CCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
*
10828794 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
* *
10828834 ATATCCGGGCTAAGA-CCCGAAGGCATTTGTGCGAGTTG-TT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAG-TGACT
10828874 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGATCCCGAAG
10828895 ATACTTGGGT
Statistics
Matches: 160, Mismatches: 13, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
38 1 0.01
39 14 0.09
40 140 0.88
41 5 0.03
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (41 bp):
ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
Found at i:10829162 original size:22 final size:22
Alignment explanation
Indices: 10829122--10829163 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
10829112 GAATGTGCAT
*
10829122 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
10829144 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
10829164 TTGAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:10830860 original size:46 final size:46
Alignment explanation
Indices: 10830793--10830967 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 46
10830783 TGTAACCCGC
*
10830793 CCATAAGTGAACTCGAACTCAACTCAATGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGGGCATTCGCAT
*
10830839 CCATAAGTGAACTCGAACTCAACTCAACGAGCTC-GG-ATGC-CTAGTT
1 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGGGCATTCGC-A--T
* *** * * * *
10830885 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGT-GAACTCGAACTCAACTCAACGAGCTCGGGCATTCGCAT
* *
10830932 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGG
10830968 ATGCCCAAAT
Statistics
Matches: 107, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 2 0.02
46 65 0.61
47 29 0.27
48 1 0.01
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGGGCATTCGCAT
Found at i:10830908 original size:93 final size:93
Alignment explanation
Indices: 10830801--10830972 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
10830791 GCCCATAAGT
* * *
10830801 GAACTCGAACTCAACTCAATGAGCTCGGGCATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
10830866 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * *
10830894 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
*
10830959 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
10830973 CAAATATCCT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:10830987 original size:46 final size:44
Alignment explanation
Indices: 10830844--10830987 Score: 98
Period size: 46 Copynumber: 3.1 Consensus size: 44
10830834 CGCATCCATA
* * *
10830844 AGTGAACTCGAACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---A-ATC-CT
* * * *
10830893 --CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGC--ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTC-G-GATGCCCAAATCC-T
10830936 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AA-ATCCT
10830983 AGTGA
1 AGTGA
10830988 CATGTCACTT
Statistics
Matches: 74, Mismatches: 11, Indels: 23
0.69 0.10 0.21
Matches are distributed among these distances:
42 1 0.01
43 4 0.05
44 4 0.05
45 1 0.01
46 31 0.42
47 25 0.34
48 5 0.07
49 3 0.04
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCCT
Found at i:10833391 original size:30 final size:30
Alignment explanation
Indices: 10833347--10833434 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
10833337 CAAAGATAAC
10833347 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
10833376 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * *
10833406 AAGAGATCCAG-ATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
10833435 CGATACTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
29 23 0.46
30 27 0.54
ACGTcount: A:0.58, C:0.16, G:0.16, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:10833395 original size:15 final size:15
Alignment explanation
Indices: 10833347--10833425 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
10833337 CAAAGATAAC
*
10833347 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
10833361 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
10833376 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
10833391 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
*
10833406 AAGAGATCCAG-ATA
1 AAGAAATCCAGAATA
10833420 AAGAAA
1 AAGAAA
10833426 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
14 17 0.31
15 37 0.67
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.16, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:10836485 original size:93 final size:93
Alignment explanation
Indices: 10836373--10836544 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
10836363 GCCCATAAGT
* *
10836373 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
10836438 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
10836466 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
10836531 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
10836545 CAAATATCCT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:10836540 original size:46 final size:46
Alignment explanation
Indices: 10836365--10836540 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
10836355 TGTAACCCGC
* *
10836365 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
10836411 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
10836457 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
10836504 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
10836541 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 70 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:10838569 original size:27 final size:27
Alignment explanation
Indices: 10838508--10838571 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
10838498 GGCGTATTCA
10838508 TCATTTTACCATACAAGGGTATTACGG
1 TCATTTTACCATACAAGGGTATTACGG
* * *
10838535 TCACTTTACCCTACAGGGGCT-TTACGG
1 TCATTTTACCATACAAGGG-TATTACGG
*
10838562 TCTTTTTACC
1 TCATTTTACC
10838572 TATTAGGGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (27 bp):
TCATTTTACCATACAAGGGTATTACGG
Found at i:10838663 original size:27 final size:26
Alignment explanation
Indices: 10838625--10838680 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 26
10838615 GTAAATCTAC
*
10838625 AAACCAAGGGTATTTCAATAATTTTGT
1 AAACCAAGGGTATTCCAATAATTTT-T
* *
10838652 AAACCAATGGTATTCCTATAATTTTT
1 AAACCAAGGGTATTCCAATAATTTTT
10838678 AAA
1 AAA
10838681 AAAGTCAAGG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 4 0.15
27 22 0.85
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.38
Consensus pattern (26 bp):
AAACCAAGGGTATTCCAATAATTTTT
Found at i:10838739 original size:27 final size:26
Alignment explanation
Indices: 10838689--10838785 Score: 74
Period size: 27 Copynumber: 3.6 Consensus size: 26
10838679 AAAAAGTCAA
*
10838689 GGGTATTTCT-GTAATTTTGTAAATCAG
1 GGGTATTT-TGGTAATTTT-CAAATCAG
*
10838716 GGGTATTTTGGTAATTTTACAAAT-TG
1 GGGTATTTTGGTAATTTT-CAAATCAG
* *
10838742 AGGGTATTTCGATAATTTCTCAAA-CTAG
1 -GGGTATTTTGGTAATTT-TCAAATC-AG
*
10838770 TGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
10838786 CTATCCTACA
Statistics
Matches: 56, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
26 2 0.04
27 52 0.93
28 2 0.04
ACGTcount: A:0.27, C:0.07, G:0.22, T:0.44
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTCAAATCAG
Found at i:10838851 original size:27 final size:27
Alignment explanation
Indices: 10838817--10838908 Score: 123
Period size: 27 Copynumber: 3.4 Consensus size: 27
10838807 GTAATTTCAC
*
10838817 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGATAATTTTGTA
* *
10838844 AA-CTGAGGGTCAAATGATAATTTTGTA
1 AATC-GAGGGTAAAACGATAATTTTGTA
* *
10838871 AATCGAGGGTAAAACGATAATTCTATA
1 AATCGAGGGTAAAACGATAATTTTGTA
10838898 AATCGAGGGTA
1 AATCGAGGGTA
10838909 CTTTGGTAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
26 1 0.02
27 54 0.96
28 1 0.02
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGATAATTTTGTA
Found at i:10838919 original size:54 final size:54
Alignment explanation
Indices: 10838808--10838935 Score: 127
Period size: 54 Copynumber: 2.4 Consensus size: 54
10838798 GGTATTTCAG
* * * *
10838808 TAATTTCAC-AATCGAGGGTAAAACGGTAATTTTGTAAACTGAGGGTCAAATGA
1 TAATTTTACAAATCGAGGGTAAAACGATAATTCTATAAACTGAGGGTCAAATGA
** ** *
10838861 TAATTTTGTAAATCGAGGGTAAAACGATAATTCTATAAA-TCGAGGGT-ACTTTGG
1 TAATTTTACAAATCGAGGGTAAAACGATAATTCTATAAACT-GAGGGTCA-AATGA
*
10838915 TAATTTTACAAGTCGAGGGTA
1 TAATTTTACAAATCGAGGGTA
10838936 TTTCAGTAAT
Statistics
Matches: 60, Mismatches: 12, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
53 8 0.13
54 52 0.87
ACGTcount: A:0.36, C:0.10, G:0.23, T:0.31
Consensus pattern (54 bp):
TAATTTTACAAATCGAGGGTAAAACGATAATTCTATAAACTGAGGGTCAAATGA
Found at i:10840219 original size:45 final size:45
Alignment explanation
Indices: 10840169--10840278 Score: 132
Period size: 45 Copynumber: 2.4 Consensus size: 45
10840159 CTACTGTTAT
* *
10840169 TGTTACTATTACTGTTACTGATTCGAG-ACTTTTTGTGTCAAATAC
1 TGTTACTGTTACTGTTACTGATTC-AGCACTTTGTGTGTCAAATAC
* * **
10840214 TGTTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTTGAATAC
1 TGTTACTGTTACTGTTACTGATTCAGCACTTTGTGTGTCAAATAC
* *
10840259 TGTTAATGTTACTGCTACTG
1 TGTTACTGTTACTGTTACTG
10840279 CTACCGTTAC
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
44 2 0.04
45 52 0.96
ACGTcount: A:0.23, C:0.16, G:0.18, T:0.43
Consensus pattern (45 bp):
TGTTACTGTTACTGTTACTGATTCAGCACTTTGTGTGTCAAATAC
Found at i:10845639 original size:2 final size:2
Alignment explanation
Indices: 10845628--10845656 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
10845618 ATTATTTTAT
10845628 TA TA -A 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
10845657 ACATTAAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:10849273 original size:45 final size:45
Alignment explanation
Indices: 10849166--10849292 Score: 131
Period size: 45 Copynumber: 2.9 Consensus size: 45
10849156 TTTTCTCAAA
* * *
10849166 TCACCGGCATT-TTGCCTGCTAGGCTCG-AGGCCCG-ATATCATT
1 TCACCGACATTATAGCCTGCTAGGCTCGAAAGCCCGAATATCATT
*
10849208 TCACCGACTTTATAGCCTGCTAGGCTCGAAAGCCCGAATAGT-ATCT
1 TCACCGACATTATAGCCTGCTAGGCTCGAAAGCCCGAATA-TCAT-T
* *
10849254 T-ACCGACATTATAGTCTGCTAAGCTC-AAAGGCCCGAATA
1 TCACCGACATTATAGCCTGCTAGGCTCGAAA-GCCCGAATA
10849293 ATCAAATCAA
Statistics
Matches: 72, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
42 9 0.12
43 15 0.21
44 9 0.12
45 36 0.50
46 3 0.04
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.26
Consensus pattern (45 bp):
TCACCGACATTATAGCCTGCTAGGCTCGAAAGCCCGAATATCATT
Found at i:10849689 original size:43 final size:43
Alignment explanation
Indices: 10849628--10849756 Score: 190
Period size: 43 Copynumber: 3.0 Consensus size: 43
10849618 CATTACGCCG
10849628 GCTAGGTACGAAGGCCTGAATACAAATCACCGGCACGAAGCCT
1 GCTAGGTACGAAGGCCTGAATACAAATCACCGGCACGAAGCCT
*
10849671 GCTAGGTACGAAGGCCTGAATACACATCACCGGCACGAAGCCT
1 GCTAGGTACGAAGGCCTGAATACAAATCACCGGCACGAAGCCT
* * * * *
10849714 GCTAGGCACGAAGGCCCGGATA-TAAT-ACCAGCACGAAGCCT
1 GCTAGGTACGAAGGCCTGAATACAAATCACCGGCACGAAGCCT
10849755 GC
1 GC
10849757 GAGATTTAAC
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
41 16 0.20
42 2 0.03
43 61 0.77
ACGTcount: A:0.31, C:0.29, G:0.26, T:0.13
Consensus pattern (43 bp):
GCTAGGTACGAAGGCCTGAATACAAATCACCGGCACGAAGCCT
Found at i:10849778 original size:38 final size:38
Alignment explanation
Indices: 10849728--10850003 Score: 480
Period size: 38 Copynumber: 7.3 Consensus size: 38
10849718 GGCACGAAGG
*
10849728 CCCGGATATAATACCAGCACGAAGCCTGCGAGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
**
10849766 CCCGGATATAATACCAGCACGAAGCCTGCTAGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
10849804 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
10849842 CCCAGATATATTACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
10849880 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
10849918 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
10849956 CCCAGATATAATACCAGCACGAAGCCTACGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
10849994 CCCGGATATA
1 CCCGGATATA
10850004 CATCGAATAT
Statistics
Matches: 226, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 226 1.00
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.20
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:10857487 original size:38 final size:35
Alignment explanation
Indices: 10857428--10857545 Score: 135
Period size: 31 Copynumber: 3.5 Consensus size: 35
10857418 TCAATCATGC
*
10857428 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTT-AT--T
10857467 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
10857498 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
10857529 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
10857546 ACTGTAAACG
Statistics
Matches: 78, Mismatches: 1, Indels: 8
0.90 0.01 0.09
Matches are distributed among these distances:
31 49 0.63
33 2 0.03
34 1 0.01
36 1 0.01
38 14 0.18
39 11 0.14
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (35 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
Found at i:10857489 original size:31 final size:31
Alignment explanation
Indices: 10857451--10857545 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
10857441 CCTTTTCATA
*
10857451 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
10857482 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
10857513 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
10857544 TT
1 TT
10857546 ACTGTAAACG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:10857788 original size:24 final size:24
Alignment explanation
Indices: 10857737--10857879 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
10857727 GCTTTATCAT
*
10857737 ATAACTGGAGGCCTAA-CCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
10857762 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
10857786 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
10857809 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
* *
10857833 ATAACTGGGGCATAATCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
10857857 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
10857880 TCACTTCCTC
Statistics
Matches: 109, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.70
25 10 0.09
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:10857816 original size:47 final size:47
Alignment explanation
Indices: 10857737--10857878 Score: 196
Period size: 47 Copynumber: 3.0 Consensus size: 47
10857727 GCTTTATCAT
* *
10857737 ATAACTGGAGGCCTAACCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAACC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
10857786 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAA-CCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
10857833 ATAACTGGGGCATAATCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAA-CCCTTTTAATAACTGGGGCATAAGCCCTTT
10857879 TTCACTTCCT
Statistics
Matches: 86, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
47 43 0.50
48 33 0.38
49 10 0.12
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (47 bp):
ATAACTGGGGCATAACCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:10857837 original size:71 final size:72
Alignment explanation
Indices: 10857736--10857879 Score: 211
Period size: 71 Copynumber: 2.0 Consensus size: 72
10857726 TGCTTTATCA
*
10857736 TATAACTGGAGGCCTAACCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAACCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
10857801 GCCCTTT
66 GCCCTTT
* * * **
10857808 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAATCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCATAA-CCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
10857871 AGCCCTTT
65 AGCCCTTT
10857879 T
1 T
10857880 TCACTTCCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
71 54 0.83
72 11 0.17
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (72 bp):
TATAACTGGAGGCATAACCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:10857955 original size:20 final size:20
Alignment explanation
Indices: 10857930--10857989 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
10857920 TATGATTACC
10857930 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
10857950 TCATGTGCATAGCATACATT
1 TCATGTGCATATCATACATA
10857970 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
10857990 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:10858060 original size:25 final size:25
Alignment explanation
Indices: 10858032--10858079 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
10858022 ATACATAAAC
* * *
10858032 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
10858057 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
10858080 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:10859289 original size:27 final size:27
Alignment explanation
Indices: 10859227--10859291 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
10859217 GGGCATATTC
10859227 GTCATTTTACCATACAGGGGTATTACA
1 GTCATTTTACCATACAGGGGTATTACA
* * *
10859254 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACA
*
10859281 GTCTTTTTACC
1 GTCATTTTACC
10859292 TAATAGGGAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACA
Found at i:10859518 original size:27 final size:27
Alignment explanation
Indices: 10859350--10859547 Score: 100
Period size: 27 Copynumber: 7.3 Consensus size: 27
10859340 TCTACAAACT
* * *
10859350 AAGGGTATTTCAGTAATTTTGTAAACC
1 AAGGGTATTTTAGTAATTTTGAAAATC
* *
10859377 AATGGTATTTCTA-TAATTTTTAGAAAGTC
1 AAGGGTATTT-TAGTAA-TTTT-GAAAATC
* * *
10859406 AAGGGTATTTCT-GTAACTTTGTAAATT
1 AAGGGTATTT-TAGTAATTTTGAAAATC
* * *
10859433 AGGGGTATTTTGGTAATTTT-ACAAATT
1 AAGGGTATTTTAGTAATTTTGA-AAATC
* * * *
10859460 GAGGGT-TTTTCGGTAA-TTTCACAAACC
1 AAGGGTATTTT-AGTAATTTTGA-AAATC
10859487 AAGGGTATTTTAGTAATTTTGAAAATC
1 AAGGGTATTTTAGTAATTTTGAAAATC
* **** * *
10859514 GAGGGTAAAACAGTAATTCTGTAAATC
1 AAGGGTATTTTAGTAATTTTGAAAATC
10859541 AAGGGTA
1 AAGGGTA
10859548 AAACAGTAAT
Statistics
Matches: 132, Mismatches: 29, Indels: 20
0.73 0.16 0.11
Matches are distributed among these distances:
26 8 0.06
27 90 0.68
28 16 0.12
29 18 0.14
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (27 bp):
AAGGGTATTTTAGTAATTTTGAAAATC
Found at i:10859548 original size:27 final size:27
Alignment explanation
Indices: 10859499--10859970 Score: 498
Period size: 27 Copynumber: 17.5 Consensus size: 27
10859489 GGGTATTTTA
* * * *
10859499 GTAATTTTGAAAATCGAGGGTAAAACA
1 GTAATTATGTAAATCAAGGGTAAAACG
* *
10859526 GTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTATGTAAATCAAGGGTAAAACG
* * **
10859553 GTAATTCTATAAATCAAGGGTAAAATA
1 GTAATTATGTAAATCAAGGGTAAAACG
* * *
10859580 GTAATTCTATAAATCAAGGGTAAAACA
1 GTAATTATGTAAATCAAGGGTAAAACG
*
10859607 GTAATTCA-GTAAATCGAGGGTAAAACG
1 GTAATT-ATGTAAATCAAGGGTAAAACG
* * * *
10859634 GTAATTCTGTAAGTCGAGGATAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* * *
10859661 ATAATTATGTAAATTAGGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* *
10859688 GTAATTATGTAAATTAGGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* * * *
10859715 GTAATTTTATAAGTCGAGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* *
10859742 ATAATTATGTAAATCAGGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* *
10859769 GTAATTATGTAAATTAGGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* * *
10859796 GTAATTCTGTAAGTCGAGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* *
10859823 ATAATTATGTAAATCAGGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* * *
10859850 ATAATTATGTAAATTAGGGGT-AAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* * *
10859876 GTAATTCTGTAAGTCGAGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* *
10859903 ATAATTATGTAAATCAGGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* *
10859930 GTAATTATGTAAATTAGGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
*
10859957 GTAATTCTGTAAAT
1 GTAATTATGTAAAT
10859971 TGGGGGTACT
Statistics
Matches: 382, Mismatches: 60, Indels: 6
0.85 0.13 0.01
Matches are distributed among these distances:
26 20 0.05
27 362 0.95
ACGTcount: A:0.42, C:0.08, G:0.23, T:0.28
Consensus pattern (27 bp):
GTAATTATGTAAATCAAGGGTAAAACG
Found at i:10860192 original size:27 final size:27
Alignment explanation
Indices: 10860162--10860226 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
10860152 GGGCATATTC
10860162 GTCATTTTACCATACAGGGG-TATAACG
1 GTCATTTTACCATACAGGGGCT-TAACG
* * *
10860189 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAGGGGCTTAACG
*
10860216 GTCTTTTTACC
1 GTCATTTTACC
10860227 TAATAGGGAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.34
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGCTTAACG
Found at i:10860453 original size:27 final size:27
Alignment explanation
Indices: 10860285--10860563 Score: 125
Period size: 27 Copynumber: 10.3 Consensus size: 27
10860275 TCTACAAACT
* *
10860285 AAGGGTATTTCAGTAATTTTGTAAACC
1 AAGGGTATTTTAGTAATTTTGTAAATC
*
10860312 AATGGTATTTCTA-TAATTTT-TAGAAAGTC
1 AAGGGTATTT-TAGTAATTTTGT--AAA-TC
* *
10860341 AAGGGTATTTCTA-TAACTTTGTAAATT
1 AAGGGTATTT-TAGTAATTTTGTAAATC
* * ** *
10860368 AGGGGTATTTTGGTAATTTTACAAATT
1 AAGGGTATTTTAGTAATTTTGTAAATC
* * *** *
10860395 GAGGGT-TTTTCGGTAATTTCACAAACC
1 AAGGGTATTTT-AGTAATTTTGTAAATC
10860422 AAGGGTATTTTAGTAATTTTGTAAATC
1 AAGGGTATTTTAGTAATTTTGTAAATC
* **** *
10860449 GAGGGTAAAACAGTAATTCTGTAAATC
1 AAGGGTATTTTAGTAATTTTGTAAATC
**** * *
10860476 AAGGGTAAAACAGTAATTCTATAAATC
1 AAGGGTATTTTAGTAATTTTGTAAATC
*** * *
10860503 AAGGGTAAAATAGTAATTCTATAAATC
1 AAGGGTATTTTAGTAATTTTGTAAATC
**** **
10860530 AAGGGTAAAACAGTAATTCAGTAAATC
1 AAGGGTATTTTAGTAATTTTGTAAATC
10860557 AAGGGTA
1 AAGGGTA
10860564 AAACGGTAAT
Statistics
Matches: 210, Mismatches: 34, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
26 6 0.03
27 173 0.82
28 11 0.05
29 19 0.09
30 1 0.00
ACGTcount: A:0.38, C:0.09, G:0.19, T:0.35
Consensus pattern (27 bp):
AAGGGTATTTTAGTAATTTTGTAAATC
Found at i:10860877 original size:935 final size:935
Alignment explanation
Indices: 10859068--10860937 Score: 3625
Period size: 935 Copynumber: 2.0 Consensus size: 935
10859058 ATCTAAGCTA
10859068 TTACGAGGGTTAGTACACACCTGTTACGGGTTGAAGTTGAAATGTTTCCATAATCAATCACCTAC
1 TTACGAGGGTTAGTACACACCTGTTACGGGTTGAAGTTGAAATGTTTCCATAATCAATCACCTAC
10859133 GATAACCACCACCTGTCACTCAAACTCAACTATTCCAATATCAATATATGTAAATCCTAAGCACA
66 GATAACCACCACCTGTCACTCAAACTCAACTATTCCAATATCAATATATGTAAATCCTAAGCACA
*
10859198 TCAGTCATACGGAACATAAGGGCATATTCGTCATTTTACCATACAGGGGTATTACAGTCACTTTA
131 TCAGTCATACGGAACATAAGGGCATATTCGTCATTTTACCATACAGGGGTATAACAGTCACTTTA
10859263 CCCTACAGGGGCTTTACGGTCTTTTTACCTAATAGGGATATTTTAGTCATTTCATCCTACAAGGG
196 CCCTACAGGGGCTTTACGGTCTTTTTACCTAATAGGGATATTTTAGTCATTTCATCCTACAAGGG
10859328 TGTTTTGGTAAATCTACAAACTAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCTATAA
261 TGTTTTGGTAAATCTACAAACTAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCTATAA
*
10859393 TTTTTAGAAAGTCAAGGGTATTTCTGTAACTTTGTAAATTAGGGGTATTTTGGTAATTTTACAAA
326 TTTTTAGAAAGTCAAGGGTATTTCTATAACTTTGTAAATTAGGGGTATTTTGGTAATTTTACAAA
10859458 TTGAGGGTTTTTCGGTAATTTCACAAACCAAGGGTATTTTAGTAATTTTGAAAATCGAGGGTAAA
391 TTGAGGGTTTTTCGGTAATTTCACAAACCAAGGGTATTTTAGTAATTTTGAAAATCGAGGGTAAA
10859523 ACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAATAGTAATTCT
456 ACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAATAGTAATTCT
*
10859588 ATAAATCAAGGGTAAAACAGTAATTCAGTAAATCGAGGGTAAAACGGTAATTCTGTAAGTCGAGG
521 ATAAATCAAGGGTAAAACAGTAATTCAGTAAATCAAGGGTAAAACGGTAATTCTGTAAGTCGAGG
10859653 ATAAAACGATAATTATGTAAATTAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTA
586 ATAAAACGATAATTATGTAAATTAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTA
*
10859718 ATTTTATAAGTCGAGGGTAAAACGATAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAAT
651 ATTCTATAAGTCGAGGGTAAAACGATAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAAT
10859783 TAGGGGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAACGATAATTATGTAAATCAGGGGTAAAA
716 TAGGGGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAACGATAATTATGTAAATCAGGGGTAAAA
10859848 CGATAATTATGTAAATTAGGGGTAAACGGTAATTCTGTAAGTCGAGGGTAAAACGATAATTATGT
781 CGATAATTATGTAAATTAGGGGTAAACGGTAATTCTGTAAGTCGAGGGTAAAACGATAATTATGT
* *
10859913 AAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAAATTGGGGGT
846 AAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTATAAATCGGGGGT
*
10859978 ACTTTAGTAATTTTACAAGTTGAAG
911 ACTTTAGTAATTTTACAAGTCGAAG
10860003 TTACGAGGGTTAGTACACACCTGTTACGGGTTGAAGTTGAAATGTTTCCATAATCAATCACCTAC
1 TTACGAGGGTTAGTACACACCTGTTACGGGTTGAAGTTGAAATGTTTCCATAATCAATCACCTAC
10860068 GATAACCACCACCTGTCACTCAAACTCAACTATTCCAATATCAATATATGTAAATCCTAAGCACA
66 GATAACCACCACCTGTCACTCAAACTCAACTATTCCAATATCAATATATGTAAATCCTAAGCACA
*
10860133 TCAGTCATACGGAACATAAGGGCATATTCGTCATTTTACCATACAGGGGTATAACGGTCACTTTA
131 TCAGTCATACGGAACATAAGGGCATATTCGTCATTTTACCATACAGGGGTATAACAGTCACTTTA
10860198 CCCTACAGGGGCTTTACGGTCTTTTTACCTAATAGGGATATTTTAGTCATTTCATCCTACAAGGG
196 CCCTACAGGGGCTTTACGGTCTTTTTACCTAATAGGGATATTTTAGTCATTTCATCCTACAAGGG
10860263 TGTTTTGGTAAATCTACAAACTAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCTATAA
261 TGTTTTGGTAAATCTACAAACTAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCTATAA
10860328 TTTTTAGAAAGTCAAGGGTATTTCTATAACTTTGTAAATTAGGGGTATTTTGGTAATTTTACAAA
326 TTTTTAGAAAGTCAAGGGTATTTCTATAACTTTGTAAATTAGGGGTATTTTGGTAATTTTACAAA
*
10860393 TTGAGGGTTTTTCGGTAATTTCACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAA
391 TTGAGGGTTTTTCGGTAATTTCACAAACCAAGGGTATTTTAGTAATTTTGAAAATCGAGGGTAAA
10860458 ACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAATAGTAATTCT
456 ACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAATAGTAATTCT
10860523 ATAAATCAAGGGTAAAACAGTAATTCAGTAAATCAAGGGTAAAACGGTAATTCTGTAAGTCGAGG
521 ATAAATCAAGGGTAAAACAGTAATTCAGTAAATCAAGGGTAAAACGGTAATTCTGTAAGTCGAGG
*
10860588 GTAAAACGATAATTATGTAAATTAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTA
586 ATAAAACGATAATTATGTAAATTAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTA
10860653 ATTCTATAAGTCGAGGGTAAAACG-TAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAAT
651 ATTCTATAAGTCGAGGGTAAAACGATAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAAT
10860717 TAGGGGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAACGATAATTATGTAAATCAGGGGTAAAA
716 TAGGGGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAACGATAATTATGTAAATCAGGGGTAAAA
10860782 CGATAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAACGATAATTATG
781 CGATAATTATGTAAATTAGGGGT-AAACGGTAATTCTGTAAGTCGAGGGTAAAACGATAATTATG
*
10860847 TAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTATAAATCGGTGG
845 TAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTATAAATCGGGGG
10860912 TACTTTAGTAATTTTACAAGTCGAAG
910 TACTTTAGTAATTTTACAAGTCGAAG
10860938 GTATTTCGGT
Statistics
Matches: 923, Mismatches: 11, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
934 128 0.14
935 795 0.86
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.31
Consensus pattern (935 bp):
TTACGAGGGTTAGTACACACCTGTTACGGGTTGAAGTTGAAATGTTTCCATAATCAATCACCTAC
GATAACCACCACCTGTCACTCAAACTCAACTATTCCAATATCAATATATGTAAATCCTAAGCACA
TCAGTCATACGGAACATAAGGGCATATTCGTCATTTTACCATACAGGGGTATAACAGTCACTTTA
CCCTACAGGGGCTTTACGGTCTTTTTACCTAATAGGGATATTTTAGTCATTTCATCCTACAAGGG
TGTTTTGGTAAATCTACAAACTAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCTATAA
TTTTTAGAAAGTCAAGGGTATTTCTATAACTTTGTAAATTAGGGGTATTTTGGTAATTTTACAAA
TTGAGGGTTTTTCGGTAATTTCACAAACCAAGGGTATTTTAGTAATTTTGAAAATCGAGGGTAAA
ACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAATAGTAATTCT
ATAAATCAAGGGTAAAACAGTAATTCAGTAAATCAAGGGTAAAACGGTAATTCTGTAAGTCGAGG
ATAAAACGATAATTATGTAAATTAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTA
ATTCTATAAGTCGAGGGTAAAACGATAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAAT
TAGGGGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAACGATAATTATGTAAATCAGGGGTAAAA
CGATAATTATGTAAATTAGGGGTAAACGGTAATTCTGTAAGTCGAGGGTAAAACGATAATTATGT
AAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTATAAATCGGGGGT
ACTTTAGTAATTTTACAAGTCGAAG
Found at i:10860913 original size:27 final size:26
Alignment explanation
Indices: 10860434--10860913 Score: 467
Period size: 27 Copynumber: 17.8 Consensus size: 26
10860424 GGGTATTTTA
* *
10860434 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCG-GGGTAAAACG
* *
10860461 GTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATC-GGGGTAAAACG
* * **
10860488 GTAATTCTATAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATC-GGGGTAAAACG
* * *
10860515 GTAATTCTATAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATC-GGGGTAAAACG
* *
10860542 GTAATTCAGTAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATC-GGGGTAAAACG
*
10860569 GTAATTCTGTAAGTCGAGGGTAAAACG
1 GTAATTCTGTAAATCG-GGGTAAAACG
* * *
10860596 ATAATTATGTAAATTAGGGGTAAAACG
1 GTAATTCTGTAAA-TCGGGGTAAAACG
* *
10860623 GTAATTATGTAAATTAGGGGTAAAACG
1 GTAATTCTGTAAA-TCGGGGTAAAACG
* *
10860650 GTAATTCTATAAGTCGAGGGTAAAAC-
1 GTAATTCTGTAAATCG-GGGTAAAACG
*
10860676 GTAATTATGTAAATCAGGGGTAAAACG
1 GTAATTCTGTAAATC-GGGGTAAAACG
* *
10860703 GTAATTATGTAAATTAGGGGTAAAACG
1 GTAATTCTGTAAA-TCGGGGTAAAACG
*
10860730 GTAATTCTGTAAGTCGAGGGTAAAACG
1 GTAATTCTGTAAATCG-GGGTAAAACG
* *
10860757 ATAATTATGTAAATCAGGGGTAAAACG
1 GTAATTCTGTAAATC-GGGGTAAAACG
* * *
10860784 ATAATTATGTAAATTAGGGGTAAAACG
1 GTAATTCTGTAAA-TCGGGGTAAAACG
*
10860811 GTAATTCTGTAAGTCGAGGGTAAAACG
1 GTAATTCTGTAAATCG-GGGTAAAACG
* *
10860838 ATAATTATGTAAATCAGGGGTAAAACG
1 GTAATTCTGTAAATC-GGGGTAAAACG
* *
10860865 GTAATTATGTAAATTAGGGGTAAAACG
1 GTAATTCTGTAAA-TCGGGGTAAAACG
*
10860892 GTAATTCTATAAATCGGTGGTA
1 GTAATTCTGTAAATCGG-GGTA
10860914 CTTTAGTAAT
Statistics
Matches: 396, Mismatches: 43, Indels: 28
0.85 0.09 0.06
Matches are distributed among these distances:
26 30 0.08
27 359 0.91
28 7 0.02
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.28
Consensus pattern (26 bp):
GTAATTCTGTAAATCGGGGTAAAACG
Found at i:10860924 original size:81 final size:80
Alignment explanation
Indices: 10860434--10860903 Score: 692
Period size: 81 Copynumber: 5.8 Consensus size: 80
10860424 GGGTATTTTA
* * * * * *
10860434 GTAATTTTGTAAATC-GAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTAT
1 GTAATTATGTAAATCAG-GGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTAT
* * *
10860498 AAATCAAGGGTAAAATA
65 AAGTCGAGGGTAAAA-C
* * * * * * *
10860515 GTAATTCTATAAATCAAGGGTAAAACAGTAATTCA-GTAAATCAAGGGTAAAACGGTAATTCTGT
1 GTAATTATGTAAATCAGGGGTAAAACGGTAATT-ATGTAAATTAGGGGTAAAACGGTAATTCTAT
10860579 AAGTCGAGGGTAAAAC
65 AAGTCGAGGGTAAAAC
*
10860595 GATAATTATGTAAATTAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTAT
1 G-TAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTAT
10860660 AAGTCGAGGGTAAAAC
65 AAGTCGAGGGTAAAAC
*
10860676 GTAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTA
1 GTAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTATA
10860741 AGTCGAGGGTAAAAC
66 AGTCGAGGGTAAAAC
* *
10860756 GATAATTATGTAAATCAGGGGTAAAACGATAATTATGTAAATTAGGGGTAAAACGGTAATTCTGT
1 G-TAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTAT
10860821 AAGTCGAGGGTAAAAC
65 AAGTCGAGGGTAAAAC
10860837 GATAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTAT
1 G-TAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTAT
10860902 AA
65 AA
10860904 ATCGGTGGTA
Statistics
Matches: 362, Mismatches: 22, Indels: 10
0.92 0.06 0.03
Matches are distributed among these distances:
80 80 0.22
81 282 0.78
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.28
Consensus pattern (80 bp):
GTAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTATA
AGTCGAGGGTAAAAC
Found at i:10860940 original size:27 final size:27
Alignment explanation
Indices: 10860892--10861008 Score: 103
Period size: 27 Copynumber: 4.3 Consensus size: 27
10860882 GGGTAAAACG
* * **
10860892 GTAATTCTATAAATCGGTGGTACTTT-A
1 GTAATTTTACAAATCGAAGGTA-TTTCA
* *
10860919 GTAATTTTACAAGTCGAAGGTATTTCG
1 GTAATTTTACAAATCGAAGGTATTTCA
* *
10860946 GTAAATTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* * *
10860973 GTATTTTTACAAA-CTAAGGGTATTTCG
1 GTAATTTTACAAATCGAA-GGTATTTCA
10861000 GTAATTTTA
1 GTAATTTTA
10861009 GTAAACTAAA
Statistics
Matches: 72, Mismatches: 16, Indels: 4
0.78 0.17 0.04
Matches are distributed among these distances:
26 5 0.07
27 67 0.93
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:10860948 original size:54 final size:53
Alignment explanation
Indices: 10860890--10861006 Score: 132
Period size: 54 Copynumber: 2.2 Consensus size: 53
10860880 AGGGGTAAAA
* *
10860890 CGGTAATTCTATAAATCG-GTGGTACTTT-AGTAATTTTACAAGTCGAA-GGTATTT
1 CGGTAATT-TACAAATCGAG-GGTA-TTTCAGTAATTTTACAA-ACGAAGGGTATTT
* *
10860944 CGGTAAATTTACAAATCGAGGGTATTTCAGTATTTTTACAAACTAAGGGTATTT
1 CGGT-AATTTACAAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTT
10860998 CGGTAATTT
1 CGGTAATTT
10861007 TAGTAAACTA
Statistics
Matches: 55, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
53 11 0.20
54 39 0.71
55 5 0.09
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (53 bp):
CGGTAATTTACAAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTT
Found at i:10861022 original size:27 final size:27
Alignment explanation
Indices: 10860918--10861023 Score: 74
Period size: 27 Copynumber: 3.9 Consensus size: 27
10860908 GTGGTACTTT
* *
10860918 AGTAATTTTACAAGTCGAAG-GTATTTC
1 AGTAATTTTACAA-ACTAAGAGTATTTC
* * * *
10860945 GGTAAATTTACAAA-TCGAGGGTATTTC
1 AGTAATTTTACAAACT-AAGAGTATTTC
* *
10860972 AGTATTTTTACAAACTAAGGGTATTTC
1 AGTAATTTTACAAACTAAGAGTATTTC
* *
10860999 GGTAATTTTAGTAAACTAA-AGTATT
1 AGTAATTTTA-CAAACTAAGAGTATT
10861024 CTAAACAGGG
Statistics
Matches: 62, Mismatches: 13, Indels: 8
0.75 0.16 0.10
Matches are distributed among these distances:
26 2 0.03
27 52 0.84
28 8 0.13
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (27 bp):
AGTAATTTTACAAACTAAGAGTATTTC
Found at i:10863439 original size:38 final size:35
Alignment explanation
Indices: 10863380--10863497 Score: 126
Period size: 31 Copynumber: 3.5 Consensus size: 35
10863370 TCAATCATGC
*
10863380 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTT-AT--T
10863419 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
*
10863450 ACTAGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
10863481 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
10863498 ACTGTAAACG
Statistics
Matches: 76, Mismatches: 3, Indels: 8
0.87 0.03 0.09
Matches are distributed among these distances:
31 47 0.62
33 2 0.03
34 1 0.01
36 1 0.01
38 14 0.18
39 11 0.14
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (35 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
Found at i:10863441 original size:31 final size:31
Alignment explanation
Indices: 10863403--10863497 Score: 172
Period size: 31 Copynumber: 3.1 Consensus size: 31
10863393 CCTTTTCATA
*
10863403 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
*
10863434 TTTCATATTTCATATTACTAGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
10863465 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
10863496 TT
1 TT
10863498 ACTGTAAACG
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 61 1.00
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:10863740 original size:24 final size:24
Alignment explanation
Indices: 10863689--10863808 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
10863679 GCTTTATCAT
*
10863689 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
10863714 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
*
10863738 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
10863762 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
10863786 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
10863809 TCACTTCCTC
Statistics
Matches: 88, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
24 76 0.86
25 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:10863884 original size:20 final size:20
Alignment explanation
Indices: 10863859--10863918 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
10863849 TATGATTACC
10863859 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
10863879 TCATGTGCATAGCATACATT
1 TCATGTGCATATCATACATA
10863899 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
10863919 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:10865217 original size:27 final size:27
Alignment explanation
Indices: 10865155--10865219 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
10865145 GGGCATATTC
10865155 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
10865182 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
*
10865209 GTCTTTTTACC
1 GTCATTTTACC
10865220 TAATAGGGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:10865445 original size:27 final size:27
Alignment explanation
Indices: 10865278--10865528 Score: 123
Period size: 27 Copynumber: 9.3 Consensus size: 27
10865268 TCTACAAACT
* *
10865278 AAGGGTATTTCAGTAATTTTGTAAACC
1 AAGGGTATTTTAGTAATTTTGTAAATC
*
10865305 AATGGTATTTCTA-TAATTTTAG-AAAGTC
1 AAGGGTATTT-TAGTAATTTT-GTAAA-TC
* *
10865333 AAGGGTATTTCT-GTAACTTTGTAAATT
1 AAGGGTATTT-TAGTAATTTTGTAAATC
* * ** *
10865360 AGGGGTATTTTGGTAATTTTACAAATT
1 AAGGGTATTTTAGTAATTTTGTAAATC
* * * ***
10865387 GAGGGTTTTTTGGTAATTTCACAAA-C
1 AAGGGTATTTTAGTAATTTTGTAAATC
10865413 GAAGGGTATTTTAGTAATTTTGTAAATC
1 -AAGGGTATTTTAGTAATTTTGTAAATC
* **** *
10865441 GAGGGTAAAACAGTAATTCTGTAAATC
1 AAGGGTATTTTAGTAATTTTGTAAATC
**** * *
10865468 AAGGGTAAAACAGTAATTCTATAAATC
1 AAGGGTATTTTAGTAATTTTGTAAATC
*** * * *
10865495 AAGGGTAAAATAGTAATTCTATAAATT
1 AAGGGTATTTTAGTAATTTTGTAAATC
10865522 AAGGGTA
1 AAGGGTA
10865529 AAACAGTAAT
Statistics
Matches: 185, Mismatches: 31, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
26 1 0.01
27 160 0.86
28 24 0.13
ACGTcount: A:0.36, C:0.08, G:0.20, T:0.37
Consensus pattern (27 bp):
AAGGGTATTTTAGTAATTTTGTAAATC
Found at i:10865529 original size:27 final size:27
Alignment explanation
Indices: 10865426--10865906 Score: 523
Period size: 27 Copynumber: 17.8 Consensus size: 27
10865416 GGGTATTTTA
* * *
10865426 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTATGTAAATCAAGGGTAAAACG
* *
10865453 GTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTATGTAAATCAAGGGTAAAACG
* * **
10865480 GTAATTCTATAAATCAAGGGTAAAATA
1 GTAATTATGTAAATCAAGGGTAAAACG
* * * *
10865507 GTAATTCTATAAATTAAGGGTAAAACA
1 GTAATTATGTAAATCAAGGGTAAAACG
*
10865534 GTAATTCA-GTAAATCGAGGGTAAAACG
1 GTAATT-ATGTAAATCAAGGGTAAAACG
* * *
10865561 GTAATTCTGTAAGTCGAGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* * *
10865588 ATAATTATGTAAATTAGGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* *
10865615 GTAATTATGTAAATTAGGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* * *
10865642 GTAATTTTGTAAGTCGAGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* * *
10865669 ATAATTATGTAAATCAGGGGTAAAATG
1 GTAATTATGTAAATCAAGGGTAAAACG
* * *
10865696 GTAATTATGTAAATTAGGGGTAAAATG
1 GTAATTATGTAAATCAAGGGTAAAACG
* * *
10865723 GTAATTTTGTAAGTCGAGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* *
10865750 ATAATTATGTAAATCAGGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* *
10865777 GTAATTATGTAAATTAGGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* * *
10865804 GTAATTCTGTAAGTCGAGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* *
10865831 ATAATTATGTAAATCAGGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* *
10865858 GTAATTATGTAAATTAGGGGTAAAACG
1 GTAATTATGTAAATCAAGGGTAAAACG
* *
10865885 GTAATTCTGTAAATCAGGGGTA
1 GTAATTATGTAAATCAAGGGTA
10865907 CTTTAGTAAT
Statistics
Matches: 392, Mismatches: 60, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
27 392 1.00
ACGTcount: A:0.41, C:0.07, G:0.24, T:0.28
Consensus pattern (27 bp):
GTAATTATGTAAATCAAGGGTAAAACG
Found at i:10865917 original size:81 final size:81
Alignment explanation
Indices: 10865427--10865896 Score: 687
Period size: 81 Copynumber: 5.8 Consensus size: 81
10865417 GGTATTTTAG
* * * * * * *
10865427 TAATTTTGTAAATC-GAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATA
1 TAATTATGTAAATCAG-GGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTA
* * *
10865491 AATCAAGGGTAAAA-TA
65 AGTCGAGGGTAAAACGA
* * * * * *
10865507 GTAATTCTATAAATTAAGGGTAAAACAGTAATTCA-GTAAA-TCGAGGGTAAAACGGTAATTCTG
1 -TAATTATGTAAATCAGGGGTAAAACGGTAATT-ATGTAAATTAG-GGGTAAAACGGTAATTCTG
10865570 TAAGTCGAGGGTAAAACGA
63 TAAGTCGAGGGTAAAACGA
* *
10865589 TAATTATGTAAATTAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTTTGTAA
1 TAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAA
10865654 GTCGAGGGTAAAACGA
66 GTCGAGGGTAAAACGA
* * *
10865670 TAATTATGTAAATCAGGGGTAAAATGGTAATTATGTAAATTAGGGGTAAAATGGTAATTTTGTAA
1 TAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAA
10865735 GTCGAGGGTAAAACGA
66 GTCGAGGGTAAAACGA
10865751 TAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAA
1 TAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAA
10865816 GTCGAGGGTAAAACGA
66 GTCGAGGGTAAAACGA
10865832 TAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAA
1 TAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAA
10865897 ATCAGGGGTA
Statistics
Matches: 358, Mismatches: 25, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
80 1 0.00
81 354 0.99
82 3 0.01
ACGTcount: A:0.41, C:0.07, G:0.24, T:0.29
Consensus pattern (81 bp):
TAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAA
GTCGAGGGTAAAACGA
Found at i:10865933 original size:27 final size:27
Alignment explanation
Indices: 10865903--10866001 Score: 103
Period size: 27 Copynumber: 3.7 Consensus size: 27
10865893 GTAAATCAGG
*
10865903 GGTACTTT-AGTAATTTTACAAGTCGAA
1 GGTA-TTTCAGTAATTTTACAAATCGAA
* * *
10865930 GGTATTTCGGTAAATTTACAAATCGAG
1 GGTATTTCAGTAATTTTACAAATCGAA
* *
10865957 GGTATTTCAGTATTTTTACAAA-CTAA
1 GGTATTTCAGTAATTTTACAAATCGAA
*
10865983 GGGTATTTCGGTAATTTTA
1 -GGTATTTCAGTAATTTTA
10866002 GTAAACTAAA
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
26 5 0.08
27 54 0.92
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.39
Consensus pattern (27 bp):
GGTATTTCAGTAATTTTACAAATCGAA
Found at i:10866015 original size:27 final size:27
Alignment explanation
Indices: 10865911--10866016 Score: 74
Period size: 27 Copynumber: 3.9 Consensus size: 27
10865901 GGGGTACTTT
* *
10865911 AGTAATTTTACAAGTCGAAG-GTATTTC
1 AGTAATTTTACAA-ACTAAGAGTATTTC
* * * *
10865938 GGTAAATTTACAAA-TCGAGGGTATTTC
1 AGTAATTTTACAAACT-AAGAGTATTTC
* *
10865965 AGTATTTTTACAAACTAAGGGTATTTC
1 AGTAATTTTACAAACTAAGAGTATTTC
* *
10865992 GGTAATTTTAGTAAACTAA-AGTATT
1 AGTAATTTTA-CAAACTAAGAGTATT
10866017 CTAAACAGGG
Statistics
Matches: 62, Mismatches: 13, Indels: 8
0.75 0.16 0.10
Matches are distributed among these distances:
26 2 0.03
27 52 0.84
28 8 0.13
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (27 bp):
AGTAATTTTACAAACTAAGAGTATTTC
Found at i:10868223 original size:182 final size:184
Alignment explanation
Indices: 10867910--10868293 Score: 519
Period size: 183 Copynumber: 2.1 Consensus size: 184
10867900 CCTAAAATTT
*
10867910 TTTATTTTATACCCATAAAAAGATAGATAAATGTTTATAATGTATAATTTAAACATACTGACAGT
1 TTTATTTTATACCCATAAAAAGATAGATAAATGTTTATAATGTATAATTTAAACATACTGACACT
* * * * *
10867975 ATTTTAATATAATATTAGAATCCTACTTTTGCAAGTTTTTTTTTCTTTATTCCAATGAAGTGCAT
66 ATTTTAATATAATATTAGAAACCCACTTCT-CAAGGTTTTTTTCCTTTATTCCAATGAAGTGCAT
* *
10868040 TA-TTTTTATTTTACACTTAAACATGTTTTTTTTTTCTAAATTGTACCTAAATAA
130 TAGTTTTTATTTTACACTTAAACATGTTTTTTTTTTATAAATTGTACCTAAAAAA
* * * *
10868094 TTT-TTTTATACCCA-AAAAAGTATAGATAAATTTTTATAATGTACT-GTTTAAACAT-TTGGCA
1 TTTATTTTATACCCATAAAAAG-ATAGATAAATGTTTATAATGTA-TAATTTAAACATACTGACA
**
10868155 CTATTTTAATATAATATTAGAAACCACACTTCT-ATAGGTTTTTTTCCTTTATTTTAATGAAGTG
64 CTATTTTAATATAATATTAGAAACC-CACTTCTCA-AGGTTTTTTTCCTTTATTCCAATGAAGTG
* **
10868219 CATTAGTTTTTGTTTTACACTTAAACATGTTTTTTTTTTATAAATTGTATTTAAAAAA
127 CATTAGTTTTTATTTTACACTTAAACATGTTTTTTTTTTATAAATTGTACCTAAAAAA
10868277 TTTCATTTTATACCCAT
1 TTT-ATTTTATACCCAT
10868294 TAAGCATTTT
Statistics
Matches: 175, Mismatches: 17, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
181 1 0.01
182 63 0.36
183 96 0.55
184 4 0.02
185 11 0.06
ACGTcount: A:0.34, C:0.11, G:0.08, T:0.47
Consensus pattern (184 bp):
TTTATTTTATACCCATAAAAAGATAGATAAATGTTTATAATGTATAATTTAAACATACTGACACT
ATTTTAATATAATATTAGAAACCCACTTCTCAAGGTTTTTTTCCTTTATTCCAATGAAGTGCATT
AGTTTTTATTTTACACTTAAACATGTTTTTTTTTTATAAATTGTACCTAAAAAA
Found at i:10869659 original size:59 final size:61
Alignment explanation
Indices: 10869592--10869708 Score: 166
Period size: 62 Copynumber: 1.9 Consensus size: 61
10869582 ATCAATTTAG
* * *
10869592 TATTAAATTAATATAATATTTA-T-CAAGATAAATATTAGATTAAATTTAACATTAAATCT
1 TATTAAATTAATAAAATATTTACTACAAGATAAACATTAAATTAAATTTAACATTAAATCT
* *
10869651 TATTAAATTAATAAAATATTTATCTACAAGATAAACATTAAATTTAATTTAATATTAA
1 TATTAAATTAATAAAATATTTA-CTACAAGATAAACATTAAATTAAATTTAACATTAA
10869709 GATAATCACT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 21 0.42
61 1 0.02
62 28 0.56
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (61 bp):
TATTAAATTAATAAAATATTTACTACAAGATAAACATTAAATTAAATTTAACATTAAATCT
Found at i:10870683 original size:19 final size:19
Alignment explanation
Indices: 10870661--10870699 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
10870651 GCCCGATTCC
*
10870661 ACATGCCAAGCCCGGTTTG
1 ACATACCAAGCCCGGTTTG
* *
10870680 ACATACTAGGCCCGGTTTG
1 ACATACCAAGCCCGGTTTG
10870699 A
1 A
10870700 TCAATTTTTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.23, C:0.28, G:0.26, T:0.23
Consensus pattern (19 bp):
ACATACCAAGCCCGGTTTG
Found at i:10874383 original size:17 final size:18
Alignment explanation
Indices: 10874361--10874394 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10874351 CACATTGAAA
10874361 TGTTTT-ATCGAAAACCT
1 TGTTTTCATCGAAAACCT
*
10874378 TGTTTTCATTGAAAACC
1 TGTTTTCATCGAAAACC
10874395 CTTCCTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (18 bp):
TGTTTTCATCGAAAACCT
Found at i:10875568 original size:29 final size:29
Alignment explanation
Indices: 10875507--10875585 Score: 79
Period size: 29 Copynumber: 2.8 Consensus size: 29
10875497 ACATACATGT
* * * *
10875507 ATATGGCCCACTAAGCCC-AATCTCATTC
1 ATATGACCCATTAGGCCCAAATCACATTC
*
10875535 ATATGACCCATTGGGCCCAAATCACATTC
1 ATATGACCCATTAGGCCCAAATCACATTC
* * *
10875564 GTATGGCCCATTAGACCCAAAT
1 ATATGACCCATTAGGCCCAAAT
10875586 AATATACATA
Statistics
Matches: 41, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
28 14 0.34
29 27 0.66
ACGTcount: A:0.30, C:0.32, G:0.14, T:0.24
Consensus pattern (29 bp):
ATATGACCCATTAGGCCCAAATCACATTC
Found at i:10880076 original size:28 final size:29
Alignment explanation
Indices: 10880011--10880082 Score: 112
Period size: 28 Copynumber: 2.5 Consensus size: 29
10880001 ATAGTGAATC
10880011 CGCACACTTAGTGCTATATATATTCAGCT
1 CGCACACTTAGTGCTATATATATTCAGCT
*
10880040 CACACACTTAGTGCTATATA-A-TCAAGCT
1 CGCACACTTAGTGCTATATATATTC-AGCT
10880068 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
10880083 GTACAATTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.47
29 19 0.47
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATATTCAGCT
Found at i:10887880 original size:28 final size:29
Alignment explanation
Indices: 10887816--10887886 Score: 119
Period size: 28 Copynumber: 2.5 Consensus size: 29
10887806 TAGTGAATCT
10887816 GCACACTTAGTGCTATATATATTCAGCTC
1 GCACACTTAGTGCTATATATATTCAGCTC
10887845 GCACACTTAGTGCTATATA-A-TCAAGCTC
1 GCACACTTAGTGCTATATATATTC-AGCTC
10887873 GCACACTTAGTGCT
1 GCACACTTAGTGCT
10887887 GTACAATTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
27 2 0.05
28 20 0.49
29 19 0.46
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.31
Consensus pattern (29 bp):
GCACACTTAGTGCTATATATATTCAGCTC
Found at i:10904489 original size:23 final size:23
Alignment explanation
Indices: 10904457--10904513 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 23
10904447 ATCCAAAATA
* *
10904457 ATTTTCAAAAATTTAAAATTTAT
1 ATTTTAAAAAAATTAAAATTTAT
*
10904480 ATTTTAAAAAAATTATAATTT-T
1 ATTTTAAAAAAATTAAAATTTAT
*
10904502 -TTTAAAAAAAAT
1 ATTTTAAAAAAAT
10904514 ATAGAGTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 11 0.37
22 1 0.03
23 18 0.60
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (23 bp):
ATTTTAAAAAAATTAAAATTTAT
Found at i:10907788 original size:23 final size:23
Alignment explanation
Indices: 10907762--10907808 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
10907752 CTGTGAGAGA
10907762 TAGTCTTTGCACTCTTTCTTGCC
1 TAGTCTTTGCACTCTTTCTTGCC
10907785 TAGTCTTTGCACTCTTTCTTGCC
1 TAGTCTTTGCACTCTTTCTTGCC
10907808 T
1 T
10907809 CTTATTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.09, C:0.30, G:0.13, T:0.49
Consensus pattern (23 bp):
TAGTCTTTGCACTCTTTCTTGCC
Found at i:10919167 original size:17 final size:17
Alignment explanation
Indices: 10919145--10919210 Score: 51
Period size: 17 Copynumber: 3.5 Consensus size: 17
10919135 TTTTCAGAAT
10919145 TGTAAATTCTCAAATAA
1 TGTAAATTCTCAAATAA
*
10919162 TGTAAATTTGTCCTAGAACTCAA
1 TGTAAA-TTCT-C-A-AA-T-AA
*
10919185 GTCTAAATTCTCAAATAA
1 -TGTAAATTCTCAAATAA
10919203 TGTAAATT
1 TGTAAATT
10919211 TGTCCTAGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 14
0.68 0.07 0.25
Matches are distributed among these distances:
17 13 0.34
18 5 0.13
19 2 0.05
20 3 0.08
21 3 0.08
22 2 0.05
23 5 0.13
24 5 0.13
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.36
Consensus pattern (17 bp):
TGTAAATTCTCAAATAA
Found at i:10919204 original size:41 final size:41
Alignment explanation
Indices: 10919147--10919229 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
10919137 TTCAGAATTG
10919147 TAAATTCTCAAATAATGTAAATTTGTCCTAGAACTCAAGTC
1 TAAATTCTCAAATAATGTAAATTTGTCCTAGAACTCAAGTC
10919188 TAAATTCTCAAATAATGTAAATTTGTCCTAGAACTCAAGTC
1 TAAATTCTCAAATAATGTAAATTTGTCCTAGAACTCAAGTC
10919229 T
1 T
10919230 TGGAATCTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.35
Consensus pattern (41 bp):
TAAATTCTCAAATAATGTAAATTTGTCCTAGAACTCAAGTC
Found at i:10919793 original size:15 final size:15
Alignment explanation
Indices: 10919766--10919807 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
10919756 TTTCTAAAAA
*
10919766 AGAAAGTTA-TTTTCT
1 AGAAA-TTATTTTTCG
10919781 AGAAATTATTTTTCG
1 AGAAATTATTTTTCG
*
10919796 AGAAGTTATTTT
1 AGAAATTATTTT
10919808 CAATGAAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 3 0.12
15 21 0.88
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.48
Consensus pattern (15 bp):
AGAAATTATTTTTCG
Found at i:10921971 original size:24 final size:24
Alignment explanation
Indices: 10921944--10921995 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
10921934 CTAGTAGGTC
*
10921944 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
10921968 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
10921992 AAAT
1 AAAT
10921996 CTTCTAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Done.