Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 11 of 279
Found at i:3439213 original size:15 final size:15
Alignment explanation
Indices: 3439188--3439224 Score: 65
Period size: 15 Copynumber: 2.4 Consensus size: 15
3439178 TTGTTTATTT
3439188 TAAATGTTTATAATAA
1 TAAA-GTTTATAATAA
3439204 TAAAGTTTATAATAA
1 TAAAGTTTATAATAA
3439219 TAAAGT
1 TAAAGT
3439225 ATATCACAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (15 bp):
TAAAGTTTATAATAA
Found at i:3449874 original size:39 final size:39
Alignment explanation
Indices: 3449830--3450144 Score: 585
Period size: 39 Copynumber: 8.1 Consensus size: 39
3449820 ATTATATTAT
* *
3449830 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
3449869 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
3449908 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
3449947 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
3449986 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
3450025 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
3450064 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
3450103 CAGCACGAAGCCTGCGGGCCTGTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
3450142 CAG
1 CAG
3450145 TGTCTTGCTT
Statistics
Matches: 270, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 270 1.00
ACGTcount: A:0.23, C:0.31, G:0.26, T:0.20
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:3451450 original size:15 final size:15
Alignment explanation
Indices: 3451425--3451461 Score: 65
Period size: 15 Copynumber: 2.4 Consensus size: 15
3451415 TTGTTTATTT
3451425 TAAATGTTTATAATAA
1 TAAA-GTTTATAATAA
3451441 TAAAGTTTATAATAA
1 TAAAGTTTATAATAA
3451456 TAAAGT
1 TAAAGT
3451462 ATATCACAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (15 bp):
TAAAGTTTATAATAA
Found at i:3457635 original size:29 final size:31
Alignment explanation
Indices: 3457586--3457644 Score: 70
Period size: 29 Copynumber: 2.0 Consensus size: 31
3457576 AATGTGTATC
* *
3457586 TATTTATTTGATGGATGAAAT-T-GAGATAA
1 TATTTATTTAATAGATGAAATGTGGAGATAA
3457615 TATTTATTATAATAGAT-AAATGTGGAGATA
1 TATTTATT-TAATAGATGAAATGTGGAGATA
3457645 TTAAATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
29 12 0.48
30 7 0.28
31 6 0.24
ACGTcount: A:0.41, C:0.00, G:0.19, T:0.41
Consensus pattern (31 bp):
TATTTATTTAATAGATGAAATGTGGAGATAA
Found at i:3463533 original size:37 final size:37
Alignment explanation
Indices: 3463483--3463561 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
3463473 TTATTACGAA
* * *
3463483 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
3463520 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
3463557 GTCTT
1 GTCTT
3463562 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:3463758 original size:47 final size:47
Alignment explanation
Indices: 3463680--3465935 Score: 4287
Period size: 47 Copynumber: 48.0 Consensus size: 47
3463670 CCCTTCGGGA
* * * * * *
3463680 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
3463727 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
3463774 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
3463821 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
3463868 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
3463915 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
3463962 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
3464009 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
3464056 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
3464103 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
3464150 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
3464197 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
3464244 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
3464291 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
3464338 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
3464385 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
3464432 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
3464479 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
3464526 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
3464573 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
3464620 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
3464667 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
3464714 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
3464761 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
3464808 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
3464855 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
3464902 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
3464949 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
3464996 CTTATCACATATATACACATTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
3465043 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
3465090 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
3465139 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
3465186 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
3465233 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
3465280 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
3465327 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
3465374 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
3465421 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
3465468 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
3465515 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
3465562 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
3465609 CTTATCACATATATACACTTTCACATTCATCGCATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
3465656 CTTATCACACATATACACTTTCATATTCATCGCATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
3465703 CTTATCACACATATACACTTTTACATTCATCGCATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
3465750 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
3465797 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
3465844 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
3465891 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAG
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAG
3465936 ACCATGATTT
Statistics
Matches: 2182, Mismatches: 25, Indels: 4
0.99 0.01 0.00
Matches are distributed among these distances:
47 2135 0.98
49 47 0.02
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:3468862 original size:17 final size:17
Alignment explanation
Indices: 3468840--3468872 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
3468830 GTATGCATGT
3468840 AATGAT-ATGTCTTGTTG
1 AATGATGATGT-TTGTTG
3468857 AATGATGATGTTTGTT
1 AATGATGATGTTTGTT
3468873 AAATTTGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.24, C:0.03, G:0.24, T:0.48
Consensus pattern (17 bp):
AATGATGATGTTTGTTG
Found at i:3478470 original size:14 final size:13
Alignment explanation
Indices: 3478447--3478478 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
3478437 GGGATATCAA
3478447 AACAATAATTAAG
1 AACAATAATTAAG
3478460 AACACATAATTAAG
1 AACA-ATAATTAAG
3478474 AACAA
1 AACAA
3478479 GTTAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.19
Consensus pattern (13 bp):
AACAATAATTAAG
Found at i:3493475 original size:18 final size:18
Alignment explanation
Indices: 3493438--3493476 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
3493428 TTGGAAATCA
*
3493438 AAATAATTAAAAGATGAT
1 AAATAATTAAAAGATAAT
3493456 AAATAATTAAATAGA-AAT
1 AAATAATTAAA-AGATAAT
3493474 AAA
1 AAA
3493477 AATCATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.26
Consensus pattern (18 bp):
AAATAATTAAAAGATAAT
Found at i:3494232 original size:17 final size:17
Alignment explanation
Indices: 3494210--3494250 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
3494200 AAAATGTATC
**
3494210 TGATAAAGCCCGATCAA
1 TGATAAAGCCCGAAAAA
*
3494227 TGATAATGCCCGAAAAA
1 TGATAAAGCCCGAAAAA
3494244 TGATAAA
1 TGATAAA
3494251 TGGTAAAAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.46, C:0.17, G:0.17, T:0.20
Consensus pattern (17 bp):
TGATAAAGCCCGAAAAA
Found at i:3495621 original size:28 final size:27
Alignment explanation
Indices: 3495564--3495715 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
3495554 TAAATTGTGC
*
3495564 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
3495591 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
3495619 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
3495646 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
3495674 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
3495701 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
3495716 GACTTAATAT
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:3495629 original size:55 final size:55
Alignment explanation
Indices: 3495564--3495715 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
3495554 TAAATTGTGC
*
3495564 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
*
3495619 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
3495674 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
3495716 GACTTAATAT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:3497559 original size:57 final size:57
Alignment explanation
Indices: 3497483--3497618 Score: 141
Period size: 57 Copynumber: 2.4 Consensus size: 57
3497473 TTATGGATTA
* * * *
3497483 GATTTAACCCAGACAGGTAATCCAAA-TCAAGCTCT-TTAGAGCATATGTCATAAAAAG
1 GATTTAGCCTAGACTGGTAATCCAAACT-AAGCTCTATT-GAGCATATATCATAAAAAG
* ** * ** *
3497540 GATTTAGCTTAGACTGGTAATCCTGACTAAGCTCTATTGAGTATATATTGTAGAAAG
1 GATTTAGCCTAGACTGGTAATCCAAACTAAGCTCTATTGAGCATATATCATAAAAAG
3497597 GATTTAGCCTAGACTGGTAATC
1 GATTTAGCCTAGACTGGTAATC
3497619 ATGTTGTTTA
Statistics
Matches: 65, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
57 62 0.95
58 3 0.05
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (57 bp):
GATTTAGCCTAGACTGGTAATCCAAACTAAGCTCTATTGAGCATATATCATAAAAAG
Found at i:3498017 original size:14 final size:14
Alignment explanation
Indices: 3497998--3498026 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
3497988 TAATCTGTAC
3497998 TCGAGATGAACTAT
1 TCGAGATGAACTAT
3498012 TCGAGATGAACTAT
1 TCGAGATGAACTAT
3498026 T
1 T
3498027 TTGAAACTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (14 bp):
TCGAGATGAACTAT
Found at i:3498818 original size:30 final size:30
Alignment explanation
Indices: 3498784--3498882 Score: 171
Period size: 30 Copynumber: 3.3 Consensus size: 30
3498774 CACATAGGTA
* *
3498784 GACACATGGGCGTGTGTCATGACCGTGTGT
1 GACACACGGGCGTGTGTCATGACTGTGTGT
3498814 GACACACGGGCGTGTGTCATGACTGTGTGT
1 GACACACGGGCGTGTGTCATGACTGTGTGT
*
3498844 GACACACGGGTGTGTGTCATGACTGTGTGT
1 GACACACGGGCGTGTGTCATGACTGTGTGT
3498874 GACACACGG
1 GACACACGG
3498883 CCTAGTACAC
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 66 1.00
ACGTcount: A:0.18, C:0.20, G:0.36, T:0.25
Consensus pattern (30 bp):
GACACACGGGCGTGTGTCATGACTGTGTGT
Found at i:3498843 original size:15 final size:15
Alignment explanation
Indices: 3498825--3498874 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
3498815 ACACACGGGC
3498825 GTGTGTCATGACTGT
1 GTGTGTCATGACTGT
* * *
3498840 GTGTGACA-CACGGGT
1 GTGTGTCATGAC-TGT
3498855 GTGTGTCATGACTGT
1 GTGTGTCATGACTGT
3498870 GTGTG
1 GTGTG
3498875 ACACACGGCC
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
14 2 0.07
15 23 0.85
16 2 0.07
ACGTcount: A:0.14, C:0.14, G:0.38, T:0.34
Consensus pattern (15 bp):
GTGTGTCATGACTGT
Found at i:3503047 original size:18 final size:18
Alignment explanation
Indices: 3502996--3503048 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 18
3502986 GGCTAAGGAC
3502996 TAAATTAGAAATCAAAATAAT
1 TAAA-TAGAAAT--AAATAAT
*
3503017 TAAA-AGATGATAAATAAT
1 TAAATAGA-AATAAATAAT
3503035 TAAATAGAAATAAA
1 TAAATAGAAATAAA
3503049 AATCATTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
18 16 0.57
19 6 0.21
20 2 0.07
21 4 0.14
ACGTcount: A:0.64, C:0.02, G:0.08, T:0.26
Consensus pattern (18 bp):
TAAATAGAAATAAATAAT
Found at i:3528320 original size:30 final size:30
Alignment explanation
Indices: 3528263--3528320 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
3528253 TTTTCGAGCA
**
3528263 TAGGGGCAAAATGGTCATTTTGTCAAAGTC
1 TAGGGGCAAAATGGTCATTTTACCAAAGTC
3528293 TAGGGGCAAAATGGTCATTTTACCAAAG
1 TAGGGGCAAAATGGTCATTTTACCAAAG
3528321 ATGTGAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTACCAAAGTC
Found at i:3528560 original size:47 final size:46
Alignment explanation
Indices: 3528500--3528772 Score: 177
Period size: 47 Copynumber: 5.8 Consensus size: 46
3528490 GACGAGGGCT
3528500 AGTGTAAGACATGTCTGGGACATGCATCAGC-CATACTATGATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCACATA-TATGATAGCC
* * *
3528546 AGTGTAAGACCATGTCTAGGACATGGCATC-GACACAGAGATGAGT-GCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAG-CACATATATGA-TAGCC
* * * * *
3528594 AATGTAAGACATGTCTGGGACATGCATCGGCCTCGACAGA-GATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAG-CAC-ATATATGATAGCC
* * ** * * * *
3528641 AGTGTAATACGTGTCTGGGACACACACCTGCTA-AAAGT-TG-T-GCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGC-ACATA-TATGATAGCC
* * *
3528685 AGTGTAAGACATGTTTGGGACATGCATCAGCAGGCGTATATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCA--CATATATGATAGCC
* *
3528733 AGTGTAAGACCATGTCTAGGACATAGCATCGGCA-ATATAT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCACATATAT
3528773 CCCATGTTGA
Statistics
Matches: 174, Mismatches: 34, Indels: 37
0.71 0.14 0.15
Matches are distributed among these distances:
43 1 0.01
44 26 0.15
45 4 0.02
46 20 0.11
47 63 0.36
48 36 0.21
49 16 0.09
50 8 0.05
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCACATATATGATAGCC
Found at i:3545193 original size:41 final size:43
Alignment explanation
Indices: 3545148--3545228 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
3545138 TAGACACTCC
*
3545148 CGTGTCT-TAGGACGTGTG-GACACACGGTAAGGCCACACAGG
1 CGTGTCTATAGGACGTGTGAGACACACAGTAAGGCCACACAGG
* * *
3545189 CGTGTCTATTGGTCGTGTGAGACACACAGTCAGGCCACAC
1 CGTGTCTATAGGACGTGTGAGACACACAGTAAGGCCACAC
3545229 TCGAAATGGG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 7 0.21
42 9 0.26
43 18 0.53
ACGTcount: A:0.23, C:0.26, G:0.31, T:0.20
Consensus pattern (43 bp):
CGTGTCTATAGGACGTGTGAGACACACAGTAAGGCCACACAGG
Found at i:3563432 original size:40 final size:40
Alignment explanation
Indices: 3563388--3563649 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
3563378 GCTCCTCGTT
* *
3563388 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
3563428 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
3563468 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
3563507 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
3563546 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
3563585 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
3563626 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
3563650 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:3586940 original size:40 final size:40
Alignment explanation
Indices: 3586788--3586933 Score: 154
Period size: 40 Copynumber: 3.6 Consensus size: 40
3586778 TTGAATGATG
* * * *
3586788 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
3586828 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
3586868 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTGTAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAA
* *
3586909 -CCGGGCTATGTCCCGAAGGCGTTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
3586934 AACGAGTAGC
Statistics
Matches: 89, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
39 1 0.01
40 78 0.88
41 10 0.11
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:3594851 original size:79 final size:80
Alignment explanation
Indices: 3594715--3594978 Score: 367
Period size: 79 Copynumber: 3.3 Consensus size: 80
3594705 TTGAATGATG
* * * * **
3594715 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
3594778 TTGTGCAAGATACTAAT
64 TTGTGCAAGATACTAAT
3594795 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
3594859 GTGCAAGATACTAAT
66 GTGCAAGATACTAAT
*
3594874 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
* *
3594938 GTGCGAGTTACT-AT
66 GTGCAAGATACTAAT
* *
3594952 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
3594979 AACGAGTAGC
Statistics
Matches: 169, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
78 3 0.02
79 134 0.79
80 32 0.19
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
GTGCAAGATACTAAT
Found at i:3594929 original size:119 final size:121
Alignment explanation
Indices: 3594715--3594978 Score: 362
Period size: 119 Copynumber: 2.2 Consensus size: 121
3594705 TTGAATGATG
* *
3594715 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGACCCGAAGGCATT
* *
3594779 TGTGCAAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTA-AA
66 TGTGCAAGATACTAAATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTACTATAA
* *
3594834 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-AAGAT-ACTAAT-TCCGGGCTAAG-CCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAG-TGAC-AATATCCGGACTAAGACCCGAAGGCA
* * *
3594895 TTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
64 TTTGTGCAAGATACTAAATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTACTATAA
*
3594954 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
3594979 AACGAGTAGC
Statistics
Matches: 129, Mismatches: 11, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
118 34 0.26
119 83 0.64
120 12 0.09
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (121 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGACCCGAAGGCATT
TGTGCAAGATACTAAATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTACTATAA
Found at i:3594985 original size:40 final size:40
Alignment explanation
Indices: 3594715--3594978 Score: 331
Period size: 40 Copynumber: 6.7 Consensus size: 40
3594705 TTGAATGATG
* * * *
3594715 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
3594755 TCCGGACTAAGAT-CCGAAGGCATTTGTGCAAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
3594795 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
3594834 TCCGGGTTAAGTCCCGAAGGCATTTGTGCAAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
3594874 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
3594913 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
3594954 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
3594979 AACGAGTAGC
Statistics
Matches: 195, Mismatches: 23, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
39 69 0.35
40 116 0.59
41 10 0.05
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:3596362 original size:18 final size:18
Alignment explanation
Indices: 3596339--3596380 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
3596329 AATGAATTGT
3596339 ATTAAATTGCTTGATGTG
1 ATTAAATTGCTTGATGTG
3596357 ATTAAATTGCTTGATGTG
1 ATTAAATTGCTTGATGTG
3596375 ATTAAA
1 ATTAAA
3596381 AATGCATATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.43
Consensus pattern (18 bp):
ATTAAATTGCTTGATGTG
Found at i:3597527 original size:47 final size:47
Alignment explanation
Indices: 3597473--3597969 Score: 913
Period size: 47 Copynumber: 10.6 Consensus size: 47
3597463 TATTTGAATA
*
3597473 AATGTGAAAGTGTATATATGTGATAATGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
3597520 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
3597567 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
3597614 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
3597661 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
3597708 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
3597755 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
3597802 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
3597849 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
3597896 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
3597943 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
3597970 TCCCGAAGGG
Statistics
Matches: 439, Mismatches: 11, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 439 1.00
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:3598144 original size:37 final size:37
Alignment explanation
Indices: 3598088--3598166 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
3598078 CCGAGCTCTA
* * *
3598088 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
3598125 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
3598162 AAGAC
1 AAGAC
3598167 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:3598767 original size:73 final size:73
Alignment explanation
Indices: 3598612--3598758 Score: 249
Period size: 73 Copynumber: 2.0 Consensus size: 73
3598602 GGGGATCGTC
* * * *
3598612 AGCAACTAGCCACACTATCACTATCTACTGTTTGGTACTGCTATGTTTTGGATTATCTTGTGGCA
1 AGCAACTAGTCACACTATCACTATCCACTGTTTGGTACTGCTACGTTTTGGATTATCTTATGGCA
3598677 TGTATAAA
66 TGTATAAA
*
3598685 AGCAACTAGTCACACTATCACTATCCATTGTTTGGTACTGCTACGTTTTGGATTATCTTATGGCA
1 AGCAACTAGTCACACTATCACTATCCACTGTTTGGTACTGCTACGTTTTGGATTATCTTATGGCA
3598750 TGTATAAA
66 TGTATAAA
3598758 A
1 A
3598759 TAGACTAGTA
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
73 69 1.00
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (73 bp):
AGCAACTAGTCACACTATCACTATCCACTGTTTGGTACTGCTACGTTTTGGATTATCTTATGGCA
TGTATAAA
Found at i:3599505 original size:40 final size:40
Alignment explanation
Indices: 3599450--3599761 Score: 471
Period size: 40 Copynumber: 7.8 Consensus size: 40
3599440 GAGAATTGAG
3599450 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
3599490 AGTGATATATCCGGGCTAAGTCCCGAAAAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
3599530 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
3599570 AGTGATATATCCAGACTAAGTTCTGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
3599610 AGTGATATATCCAGGTTAAATCTCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
3599650 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* **
3599690 AGTGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
3599730 AGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
3599762 ATCATGCTGG
Statistics
Matches: 242, Mismatches: 30, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 242 1.00
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:3604150 original size:20 final size:21
Alignment explanation
Indices: 3604127--3604165 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
3604117 CCCTTGAAAC
3604127 AGGGC-ACACGCCCATGTGGA
1 AGGGCAACACGCCCATGTGGA
*
3604147 AGGGCAACACGCCCGTGTG
1 AGGGCAACACGCCCATGTG
3604166 ATCACTAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.23, C:0.31, G:0.36, T:0.10
Consensus pattern (21 bp):
AGGGCAACACGCCCATGTGGA
Found at i:3605484 original size:48 final size:48
Alignment explanation
Indices: 3605388--3605509 Score: 145
Period size: 48 Copynumber: 2.5 Consensus size: 48
3605378 AAGTTGACGC
* * *** * *
3605388 CATGTCCCAGACAAGTCTTACACTAGCTTGTCCATCGCGAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTGGCTTAAACATCGCAAGGCCGATG
* *
3605436 CATGTCCCAGACATGTCTTACACTGGCTTAAATATCTCAAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTTAAACATCGCAAGGCCGATG
* *
3605484 CATGTCCTAGACATGTTTTACACTGG
1 CATGTCCCAGACATGTCTTACACTGG
3605510 ATCACATATC
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 63 1.00
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTGGCTTAAACATCGCAAGGCCGATG
Found at i:3605519 original size:48 final size:48
Alignment explanation
Indices: 3605427--3605519 Score: 132
Period size: 48 Copynumber: 1.9 Consensus size: 48
3605417 GTCCATCGCG
* * *
3605427 AGGCTGATGCATGTCCCAGACATGTCTTACACTGGCTTAAATATCTCA
1 AGGCCGATGCATGTCCCAGACATGTCTTACACTGGATCAAATATCTCA
* * *
3605475 AGGCCGATGCATGTCCTAGACATGTTTTACACTGGATCACATATC
1 AGGCCGATGCATGTCCCAGACATGTCTTACACTGGATCAAATATC
3605520 ACCTAATATC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (48 bp):
AGGCCGATGCATGTCCCAGACATGTCTTACACTGGATCAAATATCTCA
Found at i:3611817 original size:18 final size:18
Alignment explanation
Indices: 3611790--3611824 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3611780 ACTTAGTAAG
* *
3611790 TTTCTTCTTTGCCTTAGC
1 TTTCTGCTTTCCCTTAGC
3611808 TTTCTGCTTTCCCTTAG
1 TTTCTGCTTTCCCTTAG
3611825 AGGACGAGGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.06, C:0.29, G:0.11, T:0.54
Consensus pattern (18 bp):
TTTCTGCTTTCCCTTAGC
Found at i:3615510 original size:9 final size:9
Alignment explanation
Indices: 3615496--3615521 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
3615486 TACTATCCAT
3615496 TTTACAAAC
1 TTTACAAAC
3615505 TTTACAAAC
1 TTTACAAAC
3615514 TTTACAAA
1 TTTACAAA
3615522 TGCTAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (9 bp):
TTTACAAAC
Found at i:3621889 original size:49 final size:49
Alignment explanation
Indices: 3621829--3621953 Score: 171
Period size: 49 Copynumber: 2.6 Consensus size: 49
3621819 ATTAAAGTCG
* * *
3621829 ATGCCGTGTCCCAGACAGGTCTTACACTGACTTTTATATATCGAG-GCCA
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCG-GTGCCA
* * * *
3621878 ATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCGGTGTCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGGTGCCA
3621927 ATGCCATGTCCCAGACAGGTCTTACAC
1 ATGCCATGTCCCAGACAGGTCTTACAC
3621954 AGACAGACAG
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
48 1 0.01
49 67 0.99
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (49 bp):
ATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGGTGCCA
Found at i:3623495 original size:23 final size:21
Alignment explanation
Indices: 3623443--3623500 Score: 53
Period size: 23 Copynumber: 2.5 Consensus size: 21
3623433 TCATCTTATA
3623443 TATATATATCAAAATTATAACAT
1 TATA-ATAT-AAAATTATAACAT
3623466 TACATAATATAAAATTATAAACAAT
1 T--ATAATATAAAATTAT-AAC-AT
*
3623491 TATAAAATAA
1 TATAATATAA
3623501 TATATAAGGA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
23 17 0.57
24 7 0.23
25 6 0.20
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (21 bp):
TATAATATAAAATTATAACAT
Found at i:3624939 original size:33 final size:33
Alignment explanation
Indices: 3624896--3624970 Score: 141
Period size: 33 Copynumber: 2.3 Consensus size: 33
3624886 ATAGATATTA
*
3624896 AACATAAAGAACTAATGAACTACCATACCAATC
1 AACATTAAGAACTAATGAACTACCATACCAATC
3624929 AACATTAAGAACTAATGAACTACCATACCAATC
1 AACATTAAGAACTAATGAACTACCATACCAATC
3624962 AACATTAAG
1 AACATTAAG
3624971 GTGCAATCAC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.51, C:0.23, G:0.07, T:0.20
Consensus pattern (33 bp):
AACATTAAGAACTAATGAACTACCATACCAATC
Found at i:3628652 original size:37 final size:37
Alignment explanation
Indices: 3628601--3628680 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
3628591 CTTATTACGA
* *
3628601 AGTCTTACCCGGACATAATCT-CCACACGAAGTTATCG
1 AGTCTTACCCGGACAAAAT-TACCACACGAAGTCATCG
* *
3628638 GGTCTTACCCGGACAAAATTACCACACGTAGTCATCG
1 AGTCTTACCCGGACAAAATTACCACACGAAGTCATCG
3628675 AGTCTT
1 AGTCTT
3628681 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 1 0.03
37 36 0.97
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (37 bp):
AGTCTTACCCGGACAAAATTACCACACGAAGTCATCG
Found at i:3628879 original size:100 final size:100
Alignment explanation
Indices: 3628706--3628905 Score: 391
Period size: 100 Copynumber: 2.0 Consensus size: 100
3628696 GTACGAGCAC
3628706 GAAGCTTACGGACATTAATCAGTGATAATATTCTCGCACAAAGCCTGCGGGGTTTTAACCCGGAT
1 GAAGCTTACGGACATTAATCAGTGATAATATTCTCGCACAAAGCCTGCGGGGTTTTAACCCGGAT
3628771 ATAGTACTGACACAAATGCCCTTCGGGACTTATCA
66 ATAGTACTGACACAAATGCCCTTCGGGACTTATCA
*
3628806 GAAGCTTACGGACATTAATCAGTGATAATATTCTCGCATAAAGCCTGCGGGGTTTTAACCCGGAT
1 GAAGCTTACGGACATTAATCAGTGATAATATTCTCGCACAAAGCCTGCGGGGTTTTAACCCGGAT
3628871 ATAGTACTGACACAAATGCCCTTCGGGACTTATCA
66 ATAGTACTGACACAAATGCCCTTCGGGACTTATCA
3628906 CATTTATACA
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 99 1.00
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.27
Consensus pattern (100 bp):
GAAGCTTACGGACATTAATCAGTGATAATATTCTCGCACAAAGCCTGCGGGGTTTTAACCCGGAT
ATAGTACTGACACAAATGCCCTTCGGGACTTATCA
Found at i:3628968 original size:47 final size:47
Alignment explanation
Indices: 3628899--3629046 Score: 278
Period size: 47 Copynumber: 3.1 Consensus size: 47
3628889 CCCTTCGGGA
* *
3628899 CTTATCACATTTATACACTTTCACATCCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
3628946 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
3628993 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
3629040 CTTATCA
1 CTTATCA
3629047 ACAGAACATG
Statistics
Matches: 99, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 99 1.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:3631289 original size:20 final size:20
Alignment explanation
Indices: 3631264--3631311 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
3631254 AGAGTAGGAA
* *
3631264 TATCGATACCTTAGGAAATG
1 TATCGATACCTTAAGAAAAG
3631284 TATCGATACCTTAAGAAAAG
1 TATCGATACCTTAAGAAAAG
3631304 TATCGATA
1 TATCGATA
3631312 TTGGATCGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.29
Consensus pattern (20 bp):
TATCGATACCTTAAGAAAAG
Found at i:3646168 original size:17 final size:18
Alignment explanation
Indices: 3646146--3646179 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3646136 CACATTGAAG
3646146 TGTTTT-ATCGAAAACCT
1 TGTTTTCATCGAAAACCT
*
3646163 TGTTTTCATTGAAAACC
1 TGTTTTCATCGAAAACC
3646180 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:3647498 original size:28 final size:28
Alignment explanation
Indices: 3647466--3647540 Score: 105
Period size: 28 Copynumber: 2.7 Consensus size: 28
3647456 TGGCCCCTTT
**
3647466 AGGCCCAATTTCATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
* * *
3647494 AGGCCCAATCACTTTCATATGGCCCGTT
1 AGGCCCAATCACATTCATATGGCCCATC
3647522 AGGCCCAATCACATTCATA
1 AGGCCCAATCACATTCATA
3647541 GTCATGCAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.27
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCCATC
Found at i:3647773 original size:16 final size:16
Alignment explanation
Indices: 3647752--3647787 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
3647742 GTAGCCAAAC
3647752 TTTCAGCTTTTCGGCA
1 TTTCAGCTTTTCGGCA
*
3647768 TTTCAGCTTTTCGGTA
1 TTTCAGCTTTTCGGCA
3647784 TTTC
1 TTTC
3647788 GAGATTTGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.11, C:0.22, G:0.17, T:0.50
Consensus pattern (16 bp):
TTTCAGCTTTTCGGCA
Found at i:3648073 original size:21 final size:21
Alignment explanation
Indices: 3648044--3648083 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
3648034 AACTAAACAC
*
3648044 AAGTGACTCGCAAATCATCTT
1 AAGTCACTCGCAAATCATCTT
**
3648065 AAGTCACTCTTAAATCATC
1 AAGTCACTCGCAAATCATC
3648084 CATGACCATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.25, G:0.10, T:0.30
Consensus pattern (21 bp):
AAGTCACTCGCAAATCATCTT
Found at i:3657623 original size:27 final size:27
Alignment explanation
Indices: 3657592--3657646 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
3657582 CACCGATAAT
3657592 AGCCAACTAATCCCAAAAAAACTTCTA
1 AGCCAACTAATCCCAAAAAAACTTCTA
*
3657619 AGCCAACTAATCCTAAAAAAACTTCTA
1 AGCCAACTAATCCCAAAAAAACTTCTA
3657646 A
1 A
3657647 CTTCAGATAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.49, C:0.27, G:0.04, T:0.20
Consensus pattern (27 bp):
AGCCAACTAATCCCAAAAAAACTTCTA
Found at i:3664118 original size:61 final size:61
Alignment explanation
Indices: 3664018--3664134 Score: 144
Period size: 61 Copynumber: 1.9 Consensus size: 61
3664008 TTGGTCTAAT
** * * * * * * *
3664018 AACAAATTTGGCCCTTAATGTTTACCCATTTTCTTAATTTAGTGTTGATTTTAAAAATTTC
1 AACAAATTTAACCCTCAATGTTTACACAATTTATAAATTTAGTCTTGATTCTAAAAATTTC
*
3664079 AACAAATTTAACCCTCAATGTTTACACAATTTATAAATTTGGTCTTGATTCTAAAA
1 AACAAATTTAACCCTCAATGTTTACACAATTTATAAATTTAGTCTTGATTCTAAAA
3664135 TTTTAAAAAT
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
61 46 1.00
ACGTcount: A:0.34, C:0.15, G:0.09, T:0.42
Consensus pattern (61 bp):
AACAAATTTAACCCTCAATGTTTACACAATTTATAAATTTAGTCTTGATTCTAAAAATTTC
Found at i:3664484 original size:18 final size:18
Alignment explanation
Indices: 3664461--3664495 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3664451 TAAATTATAA
* *
3664461 AATTAACTTAATAAAAAT
1 AATTAAATTAACAAAAAT
3664479 AATTAAATTAACAAAAA
1 AATTAAATTAACAAAAA
3664496 AAAATCGATG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.29
Consensus pattern (18 bp):
AATTAAATTAACAAAAAT
Found at i:3673327 original size:45 final size:45
Alignment explanation
Indices: 3672331--3673289 Score: 1776
Period size: 45 Copynumber: 21.3 Consensus size: 45
3672321 TTACCGCTAT
** *
3672331 TGCTACTGTTACCGATTCAACACTTTGTGTGTCAAATATTGTTAC
1 TGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTAC
3672376 TGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTAC
1 TGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTAC
* * * *
3672421 TGTTACTGTTATCGATTTGACACTTTGTGTGTCGAATATTGTTAC
1 TGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTAC
3672466 TGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTAC
1 TGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTAC
3672511 TGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTAC
1 TGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTAC
3672556 TGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTAC
1 TGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTAC
3672601 TGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTAC
1 TGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTAC
3672646 TGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTAC
1 TGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTAC
3672691 TGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTAC
1 TGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTAC
3672736 TGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTAC
1 TGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTAC
3672781 TGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTAC
1 TGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTAC
3672826 TGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTAC
1 TGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTAC
3672871 TGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTAC
1 TGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTAC
3672916 TGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTAC
1 TGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTAC
3672961 TGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTAC
1 TGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTAC
3673006 TGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTAC
1 TGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTAC
3673051 TGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTAC
1 TGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTAC
3673096 TGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTAC
1 TGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTAC
3673141 TGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTAC
1 TGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTAC
* *
3673186 TGTTACTGTTACCGATTCAGCACTTTGTGTG-CTGAATATTGTTAC
1 TGCTACTGTTACCGATTCGGCACTTTGTGTGTC-GAATATTGTTAC
* * *
3673231 TGCTACTGTTACCAATTCGACACTTTGTGTGTCAAATATTGTTAC
1 TGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTAC
* *
3673276 TGTTACCGTTACCG
1 TGCTACTGTTACCG
3673290 TTACCGATTC
Statistics
Matches: 891, Mismatches: 21, Indels: 4
0.97 0.02 0.00
Matches are distributed among these distances:
44 1 0.00
45 889 1.00
46 1 0.00
ACGTcount: A:0.19, C:0.20, G:0.21, T:0.40
Consensus pattern (45 bp):
TGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTAC
Found at i:3673341 original size:18 final size:18
Alignment explanation
Indices: 3673318--3673363 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
3673308 GTGTGTTGAA
*
3673318 TACTGTTACCATTACTAT
1 TACTGTTACCACTACTAT
**
3673336 TACTGTTACTGCTACTAT
1 TACTGTTACCACTACTAT
3673354 TACTGATTAC
1 TACTG-TTAC
3673364 TGTTCTAGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 20 0.83
19 4 0.17
ACGTcount: A:0.26, C:0.22, G:0.09, T:0.43
Consensus pattern (18 bp):
TACTGTTACCACTACTAT
Found at i:3686941 original size:91 final size:92
Alignment explanation
Indices: 3686786--3686988 Score: 266
Period size: 91 Copynumber: 2.2 Consensus size: 92
3686776 TAATTATCTG
* * ** *
3686786 TAAACACTGGTTGTTTATCCATAAACTTACTGGCAACTTTTATCTACAAACAGGTTGTGCATTCA
1 TAAACACTGGTGGTTTATCCATAAACTTACTAGCAACTTTTATCTACAAACACATTATGCATTCA
* *
3686851 CAACCCACTGGCAGCGTATTAA-CTTC
66 CAACCCAATGGCAGCGTATTAACCTGC
* * **
3686877 TAAACACTAGTGGTTTATCCATAAACTTACTAGTAGTTTTTATCTACAAACACATTATGCATTCA
1 TAAACACTGGTGGTTTATCCATAAACTTACTAGCAACTTTTATCTACAAACACATTATGCATTCA
** *
3686942 CAACTTAATGTCAGCGTATTAACCTGC
66 CAACCCAATGGCAGCGTATTAACCTGC
3686969 -AAACACTGGTGGTTTATCCA
1 TAAACACTGGTGGTTTATCCA
3686989 AAAATTAGAG
Statistics
Matches: 96, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
91 93 0.97
92 3 0.03
ACGTcount: A:0.32, C:0.22, G:0.13, T:0.33
Consensus pattern (92 bp):
TAAACACTGGTGGTTTATCCATAAACTTACTAGCAACTTTTATCTACAAACACATTATGCATTCA
CAACCCAATGGCAGCGTATTAACCTGC
Found at i:3688692 original size:35 final size:36
Alignment explanation
Indices: 3688601--3688695 Score: 115
Period size: 35 Copynumber: 2.7 Consensus size: 36
3688591 TTTGGTGAAT
* *
3688601 TTCAT-CTCTGTTTTGTGTTTACT-ATCCTGACGGAC
1 TTCATCCT-TGTTTTGTGTTTATTGTTCCTGACGGAC
* * *
3688636 TTCATCCCTATTTTGTGTTTATTGTTCCTG-TGGAC
1 TTCATCCTTGTTTTGTGTTTATTGTTCCTGACGGAC
3688671 TTCATCCTTGTTTTGTGTTTATTGT
1 TTCATCCTTGTTTTGTGTTTATTGT
3688696 CCCCATGGAC
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
35 45 0.88
36 6 0.12
ACGTcount: A:0.12, C:0.19, G:0.17, T:0.53
Consensus pattern (36 bp):
TTCATCCTTGTTTTGTGTTTATTGTTCCTGACGGAC
Found at i:3688705 original size:35 final size:35
Alignment explanation
Indices: 3688601--3688707 Score: 108
Period size: 35 Copynumber: 3.1 Consensus size: 35
3688591 TTTGGTGAAT
* * ** *
3688601 TTCAT-CTCTGTTTTGTGTTTACTATCCTGACGGAC
1 TTCATCCT-TGTTTTGTGTTTATTGTCCCCATGGAC
* * * **
3688636 TTCATCCCTATTTTGTGTTTATTGTTCCTGTGGAC
1 TTCATCCTTGTTTTGTGTTTATTGTCCCCATGGAC
3688671 TTCATCCTTGTTTTGTGTTTATTGTCCCCATGGAC
1 TTCATCCTTGTTTTGTGTTTATTGTCCCCATGGAC
3688706 TT
1 TT
3688708 GATCTCTATA
Statistics
Matches: 57, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
35 56 0.98
36 1 0.02
ACGTcount: A:0.12, C:0.21, G:0.17, T:0.50
Consensus pattern (35 bp):
TTCATCCTTGTTTTGTGTTTATTGTCCCCATGGAC
Found at i:3693361 original size:21 final size:23
Alignment explanation
Indices: 3693329--3693375 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
3693319 TAACTTTCAG
3693329 ACACCATAAA-TTGCAGCATTTA
1 ACACCATAAATTTGCAGCATTTA
*
3693351 ACACC-TAAATTTTCAGCATTTA
1 ACACCATAAATTTGCAGCATTTA
3693373 ACA
1 ACA
3693376 TATAAAATGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.40, C:0.23, G:0.06, T:0.30
Consensus pattern (23 bp):
ACACCATAAATTTGCAGCATTTA
Found at i:3693381 original size:22 final size:21
Alignment explanation
Indices: 3693333--3693381 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
3693323 TTTCAGACAC
3693333 CATAAATTGCAGCATTTAACA
1 CATAAATTGCAGCATTTAACA
* *
3693354 CCTAAATTTTCAGCATTTAACA
1 CATAAA-TTGCAGCATTTAACA
*
3693376 TATAAA
1 CATAAA
3693382 ATGGTTAGAG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.43, C:0.18, G:0.06, T:0.33
Consensus pattern (21 bp):
CATAAATTGCAGCATTTAACA
Found at i:3694868 original size:60 final size:59
Alignment explanation
Indices: 3694748--3694884 Score: 152
Period size: 60 Copynumber: 2.3 Consensus size: 59
3694738 TAGTGTTAAC
* * * *
3694748 TGGGCCTTAGCCCATATCAATATTAATTTGGGCCATAGCCCCTTACAGTATCAGAGTATAT
1 TGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCATTAAAG-ATCAGAGTATAT
**
3694809 TGGGCCTAGCCCATATCAATATCAATCTGGGCTGTAGCCCTATTATAAG-TC-GAGATATAT
1 TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCC-ATTA-AAGATCAGAG-TATAT
*
3694869 TGGGCCTTGCCCATAT
1 TGGGCCTAGCCCATAT
3694885 TAACATAGTT
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
59 3 0.05
60 52 0.79
61 9 0.14
62 2 0.03
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (59 bp):
TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTAAAGATCAGAGTATAT
Found at i:3699883 original size:60 final size:60
Alignment explanation
Indices: 3699805--3699941 Score: 181
Period size: 60 Copynumber: 2.3 Consensus size: 60
3699795 TAGTGTTAAC
*
3699805 TGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCC-ATTAC-AGTATC-AGAGTATAT
1 TGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAG--TCGAGA-TATAT
* *
3699866 TGGGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACAAGTCGAGATATAT
1 TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAGTCGAGATATAT
*
3699926 TGGGCCTTGCCCATAT
1 TGGGCCTAGCCCATAT
3699942 TAACATAGTT
Statistics
Matches: 69, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
60 53 0.77
61 14 0.20
62 2 0.03
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.28
Consensus pattern (60 bp):
TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAGTCGAGATATAT
Found at i:3699905 original size:28 final size:27
Alignment explanation
Indices: 3699804--3699905 Score: 89
Period size: 28 Copynumber: 3.5 Consensus size: 27
3699794 TTAGTGTTAA
* *
3699804 CTGGGCCTTAGCCCATATCAATATTAAT
1 CTGGGCC-TAGCCCATATCAGTATCAAT
3699832 CTGGGCCATAGCCCAT-TACAGTATCAGAGTAT
1 CTGGGCC-TAGCCCATAT-CAGTATC--A--AT
*
3699864 ATTGGGCCTAGCCCATATCAGTATCAAT
1 -CTGGGCCTAGCCCATATCAGTATCAAT
3699892 CTGGGCCGTAGCCC
1 CTGGGCC-TAGCCC
3699906 TATTACAAGT
Statistics
Matches: 61, Mismatches: 5, Indels: 16
0.74 0.06 0.20
Matches are distributed among these distances:
27 7 0.11
28 28 0.46
30 2 0.03
32 17 0.28
33 7 0.11
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (27 bp):
CTGGGCCTAGCCCATATCAGTATCAAT
Found at i:3704336 original size:73 final size:72
Alignment explanation
Indices: 3704227--3704368 Score: 223
Period size: 73 Copynumber: 2.0 Consensus size: 72
3704217 TATTACAACG
* * *
3704227 TTTTTTTAAAAAACGCCACTAATCCCCTAAGTCTCCAATTAAAACGATGCC-TTTTCGTTAAACT
1 TTTTTTTAAAAAACACCACTAATCCCCTAAATCTCCAATTAAAACAATGCCTTTTTCGTTAAACT
3704291 ATTAAAT
66 ATTAAAT
*
3704298 TTTTTTCTAAAAGAACACCGCTAATCCCCTAAATCTCCAATTAAAACAATGCCTTTTTCGTTAAA
1 TTTTTT-TAAAA-AACACCACTAATCCCCTAAATCTCCAATTAAAACAATGCCTTTTTCGTTAAA
3704363 CTATTA
64 CTATTA
3704369 TGTTTTTTGC
Statistics
Matches: 64, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
71 6 0.09
72 5 0.08
73 36 0.56
74 17 0.27
ACGTcount: A:0.35, C:0.23, G:0.06, T:0.35
Consensus pattern (72 bp):
TTTTTTTAAAAAACACCACTAATCCCCTAAATCTCCAATTAAAACAATGCCTTTTTCGTTAAACT
ATTAAAT
Found at i:3704582 original size:21 final size:21
Alignment explanation
Indices: 3704558--3704599 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
3704548 ATTTGTTGAA
* * *
3704558 TTAATTCTTTATATTAATGAT
1 TTAATTATTAATACTAATGAT
3704579 TTAATTATTAATACTAATGAT
1 TTAATTATTAATACTAATGAT
3704600 AAATGTTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.52
Consensus pattern (21 bp):
TTAATTATTAATACTAATGAT
Found at i:3705025 original size:7 final size:7
Alignment explanation
Indices: 3705013--3705085 Score: 65
Period size: 7 Copynumber: 10.3 Consensus size: 7
3705003 ACTAATTAAT
3705013 CTAAACC
1 CTAAACC
3705020 CTAAACC
1 CTAAACC
*
3705027 TCTAACCC
1 -CTAAACC
**
3705035 CTATCCC
1 CTAAACC
**
3705042 CTAAATA
1 CTAAACC
*
3705049 CTAAACT
1 CTAAACC
3705056 CTAAACC
1 CTAAACC
* *
3705063 TTAAATC
1 CTAAACC
3705070 CTAAACC
1 CTAAACC
3705077 CTAAACC
1 CTAAACC
3705084 CT
1 CT
3705086 TAAGTCCTAA
Statistics
Matches: 52, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
7 46 0.88
8 6 0.12
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.23
Consensus pattern (7 bp):
CTAAACC
Found at i:3705142 original size:21 final size:21
Alignment explanation
Indices: 3705105--3705147 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
3705095 AATCACAAAA
*
3705105 CATAAACCTTAGCCTCTAAAC
1 CATAAACCTTAGACTCTAAAC
*
3705126 CATAAACCTCTA-ACTCTTAAC
1 CATAAACCT-TAGACTCTAAAC
3705147 C
1 C
3705148 CTTAACCCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.37, C:0.35, G:0.02, T:0.26
Consensus pattern (21 bp):
CATAAACCTTAGACTCTAAAC
Found at i:3705253 original size:7 final size:7
Alignment explanation
Indices: 3705241--3705292 Score: 50
Period size: 7 Copynumber: 7.4 Consensus size: 7
3705231 TAGTAACTCC
*
3705241 TAAACCT
1 TAAACCA
*
3705248 TAAACCT
1 TAAACCA
3705255 TAAACCA
1 TAAACCA
* *
3705262 TATACCC
1 TAAACCA
3705269 TAAACCA
1 TAAACCA
*
3705276 TAAACCC
1 TAAACCA
*
3705283 TAAACTA
1 TAAACCA
3705290 TAA
1 TAA
3705293 TGATAATTAA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.48, C:0.29, G:0.00, T:0.23
Consensus pattern (7 bp):
TAAACCA
Found at i:3705260 original size:14 final size:14
Alignment explanation
Indices: 3705239--3705292 Score: 72
Period size: 14 Copynumber: 3.9 Consensus size: 14
3705229 AATAGTAACT
*
3705239 CCTAAACCTTAAAC
1 CCTAAACCATAAAC
* *
3705253 CTTAAACCATATAC
1 CCTAAACCATAAAC
3705267 CCTAAACCATAAAC
1 CCTAAACCATAAAC
*
3705281 CCTAAACTATAA
1 CCTAAACCATAA
3705293 TGATAATTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 34 1.00
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.22
Consensus pattern (14 bp):
CCTAAACCATAAAC
Found at i:3705704 original size:40 final size:40
Alignment explanation
Indices: 3705625--3705707 Score: 103
Period size: 40 Copynumber: 2.1 Consensus size: 40
3705615 TTTGCGGTGC
* *
3705625 TTTAAAAAAGTGCCGCGAATGGTGGACCTATAGTAGCGTT
1 TTTAAAAAAGTGCCGCGAATGCTCGACCTATAGTAGCGTT
* * * * *
3705665 TTTAAGAAAGTGCCGCTAATGCTCGATCTTTAGTGGCGTT
1 TTTAAAAAAGTGCCGCGAATGCTCGACCTATAGTAGCGTT
3705705 TTT
1 TTT
3705708 CAGTAAGCGT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (40 bp):
TTTAAAAAAGTGCCGCGAATGCTCGACCTATAGTAGCGTT
Found at i:3705917 original size:40 final size:40
Alignment explanation
Indices: 3705858--3705942 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
3705848 ATAACGGTGT
* *
3705858 TTTTTTAAAAAGCGACGCTAATGCTCGATCTGTAGCGGCG
1 TTTTTGAAAAAGCGACGCTAATGCTCGATCTGTAGCGGCA
* * *
3705898 TTTTTGAAAAAGC-ACCGCTAATGCTTGCTCTTTAGCGGCA
1 TTTTTGAAAAAGCGA-CGCTAATGCTCGATCTGTAGCGGCA
3705938 TTTTT
1 TTTTT
3705943 TATTCAAACG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
39 1 0.03
40 38 0.97
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (40 bp):
TTTTTGAAAAAGCGACGCTAATGCTCGATCTGTAGCGGCA
Found at i:3715374 original size:18 final size:18
Alignment explanation
Indices: 3715329--3715409 Score: 83
Period size: 18 Copynumber: 4.5 Consensus size: 18
3715319 TTGTGAACCA
* * *
3715329 TATTAACTTGGTGAATTA
1 TATTAATTTGGTGAACTG
*
3715347 TATTATTTTGGTGAACTG
1 TATTAATTTGGTGAACTG
* *
3715365 TGTTAATTTGGT-AATTTG
1 TATTAATTTGGTGAA-CTG
*
3715383 TATTAATATGGTGAACTG
1 TATTAATTTGGTGAACTG
3715401 TATTAATTT
1 TATTAATTT
3715410 TCCAAATGGT
Statistics
Matches: 50, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
17 2 0.04
18 46 0.92
19 2 0.04
ACGTcount: A:0.28, C:0.04, G:0.19, T:0.49
Consensus pattern (18 bp):
TATTAATTTGGTGAACTG
Found at i:3715376 original size:36 final size:36
Alignment explanation
Indices: 3715329--3715409 Score: 101
Period size: 36 Copynumber: 2.2 Consensus size: 36
3715319 TTGTGAACCA
* * *
3715329 TATTAACTTGGTGAA-TTATATTATTTTGGTGAACTG
1 TATTAATTTGGT-AATTTATATTAATATGGTGAACTG
* *
3715365 TGTTAATTTGGTAATTTGTATTAATATGGTGAACTG
1 TATTAATTTGGTAATTTATATTAATATGGTGAACTG
3715401 TATTAATTT
1 TATTAATTT
3715410 TCCAAATGGT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
35 2 0.05
36 36 0.95
ACGTcount: A:0.28, C:0.04, G:0.19, T:0.49
Consensus pattern (36 bp):
TATTAATTTGGTAATTTATATTAATATGGTGAACTG
Found at i:3728113 original size:46 final size:49
Alignment explanation
Indices: 3728007--3728128 Score: 142
Period size: 50 Copynumber: 2.5 Consensus size: 49
3727997 TGTCTTCGAC
** * *
3728007 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCA-ATATATATCTAAT
* * *
3728057 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATA-CT-TGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATATCTAAT
*
3728103 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
3728129 CTGTCCTGTC
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
46 27 0.43
47 1 0.02
48 5 0.08
50 30 0.48
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (49 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATATCTAAT
Found at i:3733377 original size:59 final size:59
Alignment explanation
Indices: 3733305--3733422 Score: 148
Period size: 59 Copynumber: 2.0 Consensus size: 59
3733295 GAGCACACTC
* * *
3733305 TTTCCCCATAAAGAAATCGAGAAGTCACCAAGAACG-TCCACTTTATCAATAGGATATT
1 TTTCCCCACAAAGAAATCGAGAAGTCACCAACAACGCTCCACTTCATCAATAGGATATT
* * * * *
3733363 NTTTCCCCACAAAGAAATTGAGAAGTCATCAACAATGCTCCACTTCATTAGTAGGATATT
1 -TTTCCCCACAAAGAAATCGAGAAGTCACCAACAACGCTCCACTTCATCAATAGGATATT
3733423 CGGGTAGAGT
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
59 31 0.62
60 19 0.38
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.27
Consensus pattern (59 bp):
TTTCCCCACAAAGAAATCGAGAAGTCACCAACAACGCTCCACTTCATCAATAGGATATT
Found at i:3745815 original size:28 final size:28
Alignment explanation
Indices: 3745733--3745910 Score: 225
Period size: 28 Copynumber: 6.4 Consensus size: 28
3745723 GAGATTGGCG
* * * *
3745733 CTAAGTGTGCGGGTTTAAATTGTGCAGCA
1 CTAAGTGTGCGAGTTT-GATTATGTAGCA
* * *
3745762 CTAAGTGTGTGA-ATTGACTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
3745789 CTAAGTGTGCGAGTTTGACTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
3745817 CTAAGTGTGCGAGCTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
3745845 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
3745873 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
3745900 CTGAGTGTGCG
1 CTAAGTGTGCG
3745911 GACTTATTAT
Statistics
Matches: 134, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
27 43 0.32
28 81 0.60
29 10 0.07
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATGTAGCA
Found at i:3752605 original size:27 final size:27
Alignment explanation
Indices: 3752575--3752678 Score: 82
Period size: 27 Copynumber: 3.8 Consensus size: 27
3752565 CATATTACCA
* * * *
3752575 TACAGGGGTATTACGGTTATTTTGCTC
1 TACAAGGGTATTACGGTAATTTTACAC
* *
3752602 TACAAGGGTATTTCGATAATTTTACAC
1 TACAAGGGTATTACGGTAATTTTACAC
* * * *
3752629 TACAAGGGTATTTCGGTCATTTTCCCC
1 TACAAGGGTATTACGGTAATTTTACAC
* * *
3752656 TATAGGGGCATTACGGTCAATTT
1 TACAAGGGTATTACGGT-AATTT
3752679 ACAAACTATG
Statistics
Matches: 61, Mismatches: 15, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
27 57 0.93
28 4 0.07
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.38
Consensus pattern (27 bp):
TACAAGGGTATTACGGTAATTTTACAC
Found at i:3752609 original size:28 final size:27
Alignment explanation
Indices: 3752575--3752651 Score: 91
Period size: 27 Copynumber: 2.9 Consensus size: 27
3752565 CATATTACCA
* * * * *
3752575 TACAGGGGTATTACGGTTATTTTGCTC
1 TACAAGGGTATTTCGGTAATTTTACAC
*
3752602 TACAAGGGTATTTCGATAATTTTACAC
1 TACAAGGGTATTTCGGTAATTTTACAC
*
3752629 TACAAGGGTATTTCGGTCATTTT
1 TACAAGGGTATTTCGGTAATTTT
3752652 CCCCTATAGG
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.25, C:0.14, G:0.21, T:0.40
Consensus pattern (27 bp):
TACAAGGGTATTTCGGTAATTTTACAC
Found at i:3755105 original size:42 final size:42
Alignment explanation
Indices: 3755046--3755135 Score: 164
Period size: 42 Copynumber: 2.2 Consensus size: 42
3755036 TATTTTTCTC
3755046 CACAC-GGGTAAGACACGGGCATGTATCTCAGCTAAGTGTGA
1 CACACGGGGTAAGACACGGGCATGTATCTCAGCTAAGTGTGA
*
3755087 GACACGGGGTAAGACACGGGCATGTATCTCAGCTAAGTGTGA
1 CACACGGGGTAAGACACGGGCATGTATCTCAGCTAAGTGTGA
3755129 CACACGG
1 CACACGG
3755136 TCATGTTATA
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
41 4 0.09
42 42 0.91
ACGTcount: A:0.29, C:0.22, G:0.31, T:0.18
Consensus pattern (42 bp):
CACACGGGGTAAGACACGGGCATGTATCTCAGCTAAGTGTGA
Found at i:3756213 original size:37 final size:37
Alignment explanation
Indices: 3756107--3756215 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
3756097 AGCTCAGACG
* * *
3756107 AAATCTCCACACGAAGTTATCGGGTCTTACCCAGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
3756144 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
3756181 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
3756216 ATATATTTCC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:3756487 original size:48 final size:48
Alignment explanation
Indices: 3756361--3756545 Score: 264
Period size: 48 Copynumber: 3.8 Consensus size: 48
3756351 GCACATCGCC
*
3756361 TACATATTTCACACTAGCCATTCAGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCTC--A
* *
3756411 TATATATTTCACATT-GACCATTCAGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCAGCTTTACCACATATACATATCTCA
* * *
3756459 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATTTATCA
1 TACATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCTCA
* *
3756507 TACATTTTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCAGCTTTACCACATATA
3756546 TGCATGTTCA
Statistics
Matches: 124, Mismatches: 9, Indels: 6
0.89 0.06 0.04
Matches are distributed among these distances:
48 80 0.65
49 2 0.02
50 42 0.34
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.37
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCTCA
Found at i:3756550 original size:98 final size:98
Alignment explanation
Indices: 3756361--3756544 Score: 284
Period size: 98 Copynumber: 1.9 Consensus size: 98
3756351 GCACATCGCC
* *
3756361 TACATATTTCACACTAGCCATTCAGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACACTAGCCATTCAGCTTTACCACATATACATATATCATACATATATTTCACATT
3756426 GACCATTCAGCTTTACCACATATGCATATCTCA
66 GACCATTCAGCTTTACCACATATGCATATCTCA
* * *
3756459 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATTTATCATACAT-T-TTTCACATT
1 TACATATTTCACACTAGCCATTCAGCTTTACCACATATACATATATCATACATATATTTCACATT
*
3756522 -AGCCATTCGGCTTTACCACATAT
66 GA-CCATTCAGCTTTACCACATAT
3756545 ATGCATGTTC
Statistics
Matches: 79, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
95 1 0.01
96 29 0.37
97 1 0.01
98 48 0.61
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.37
Consensus pattern (98 bp):
TACATATTTCACACTAGCCATTCAGCTTTACCACATATACATATATCATACATATATTTCACATT
GACCATTCAGCTTTACCACATATGCATATCTCA
Found at i:3756594 original size:47 final size:47
Alignment explanation
Indices: 3756467--3756708 Score: 281
Period size: 47 Copynumber: 5.1 Consensus size: 47
3756457 CATACATATT
* * * * **
3756467 TCACATTAGCCATTCGGCTTTACCACATATA--CATTTATCATACATTTT
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGT-TC--ACATTCA
* * * *
3756515 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * * * *
3756562 CCATATTGGCCATTCGGCCTTATCACACATATGCGTGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
3756609 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* **
3756656 TCACATTGGCCATTCGGCCTTATCTCATATATGCACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
3756703 TCACAT
1 TCACAT
3756709 AAAATCCTAA
Statistics
Matches: 171, Mismatches: 21, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
47 134 0.78
48 31 0.18
49 2 0.01
50 4 0.02
ACGTcount: A:0.26, C:0.28, G:0.11, T:0.35
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:3756635 original size:22 final size:22
Alignment explanation
Indices: 3756608--3756679 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
3756598 GCTCACATTC
3756608 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
3756630 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
3756654 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
3756677 ATC
1 ATC
3756680 TCATATATGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:3756709 original size:25 final size:25
Alignment explanation
Indices: 3756630--3756709 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
3756620 ATTCGGCCTT
**
3756630 ATCACATATATGCATGTTCACATTC
1 ATCACATATATGCACATTCACATTC
* * *
3756655 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATGCACATTC-ACATTC
*
3756677 ATCTCATATATGCACATTCACATTC
1 ATCACATATATGCACATTCACATTC
3756702 ATCACATA
1 ATCACATA
3756710 AAATCCTAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 10
0.67 0.17 0.17
Matches are distributed among these distances:
22 9 0.22
23 6 0.15
24 6 0.15
25 19 0.47
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.34
Consensus pattern (25 bp):
ATCACATATATGCACATTCACATTC
Found at i:3764134 original size:27 final size:26
Alignment explanation
Indices: 3764103--3764280 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 26
3764093 TAAATTGTAC
3764103 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
3764130 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
3764156 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
3764184 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA--TTGACTATGT
* *
3764212 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
3764239 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
3764266 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
3764281 GGCTCAATAT
Statistics
Matches: 129, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
26 1 0.01
27 103 0.80
28 25 0.19
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:3764219 original size:82 final size:81
Alignment explanation
Indices: 3764104--3764259 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
3764094 AAATTGTACA
* *
3764104 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
3764168 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
3764185 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
3764250 TGCGAGTTGA
65 TGCGAATTGA
3764260 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:3764271 original size:82 final size:81
Alignment explanation
Indices: 3764100--3764280 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
3764090 GATTAAATTG
* *
3764100 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
3764165 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
3764181 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
3764245 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
3764263 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
3764281 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:3764291 original size:27 final size:27
Alignment explanation
Indices: 3764185--3764291 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
3764175 TGACCATGCG
* * * *
3764185 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
3764213 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
3764240 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
3764267 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
3764292 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:3771724 original size:40 final size:40
Alignment explanation
Indices: 3771680--3771985 Score: 368
Period size: 40 Copynumber: 7.7 Consensus size: 40
3771670 GCTCGTCGTT
* * * *
3771680 CAAATGCCTTAGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
3771720 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
3771760 CAAATGCCATCGGGACTTAACCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
3771800 CAAATGCCATCGGGACTTAACCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
3771840 CAAATGCCATT-GGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCC-TTCGGGACTTAACCCGGATTTAGTAACTCGCA
* ** *
3771880 CAAATGCCATCGGGACTTAACCCGGAAGTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
3771920 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
3771961 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
3771986 CACCATTCAA
Statistics
Matches: 234, Mismatches: 26, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
39 4 0.02
40 216 0.92
41 14 0.06
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:3774017 original size:40 final size:40
Alignment explanation
Indices: 3773973--3774132 Score: 189
Period size: 40 Copynumber: 4.0 Consensus size: 40
3773963 CTCGATATAT
* *
3773973 TGTATATCCGGGTTAAATCCCGCAGGCTTCGTGGTGTTAA
1 TGTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
* *
3774013 TGTATATCCGGGTTAAATCTCACAGGCTTCGTGCTGGTAA
1 TGTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
* *
3774053 AGTATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGT-A
1 TGTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
* * * * *
3774092 -CTATATCCGGGCCTAAAGTCCCACAGGCTTTGTGCTAGTAA
1 TGTATATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAA
3774133 CTGGATTCGG
Statistics
Matches: 104, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
38 10 0.10
39 5 0.05
40 88 0.85
41 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.30
Consensus pattern (40 bp):
TGTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
Found at i:3774117 original size:80 final size:80
Alignment explanation
Indices: 3773974--3774132 Score: 214
Period size: 80 Copynumber: 2.0 Consensus size: 80
3773964 TCGATATATT
* * * * * *
3773974 GTATATCCGGGTTAAATCCCGCAGGCTTCGTGGTGTTAATGTATATCCGGGTTAAATCTCACAGG
1 GTATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAATCTATATCCGGGCTAAATCCCACAGG
*
3774039 CTTCGTGCTGGTAAA
66 CTTCGTGCTAGTAAA
3774054 GTATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGT-A-CTATATCCGGGCCTAAAGTCCCACA
1 GTATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAATCTATATCCGGG-CTAAA-TCCCACA
*
3774117 GGCTTTGTGCTAGTAA
64 GGCTTCGTGCTAGTAA
3774133 CTGGATTCGG
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
78 10 0.14
79 5 0.07
80 54 0.78
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.30
Consensus pattern (80 bp):
GTATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAATCTATATCCGGGCTAAATCCCACAGG
CTTCGTGCTAGTAAA
Found at i:3776494 original size:79 final size:82
Alignment explanation
Indices: 3776383--3776567 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
3776373 GCTACTCGTT
* * *
3776383 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
3776446 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
3776463 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
3776526 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
3776543 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
3776568 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:3776567 original size:40 final size:40
Alignment explanation
Indices: 3776364--3776567 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
3776354 CGGAATTTAA
** *
3776364 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
3776404 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
3776444 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
3776483 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
3776523 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
3776563 CCGGA
1 CCGGA
3776568 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:3782910 original size:47 final size:47
Alignment explanation
Indices: 3782856--3783097 Score: 281
Period size: 47 Copynumber: 5.1 Consensus size: 47
3782846 TTAGGATTTT
** *
3782856 ATGTGATGAATGTGAATGTGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
3782903 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
3782950 ATGTGATGAATGTGAGCACGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
3782997 ATATGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
** * * * *
3783044 ATGTGAAAAATGTATGATAAATG--TATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATG--TGA-ACATGCATATATGTGATAAGGCCGAATGGCCA
3783092 ATGTGA
1 ATGTGA
3783098 AATATGTATG
Statistics
Matches: 171, Mismatches: 21, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
47 133 0.78
48 31 0.18
49 3 0.02
50 4 0.02
ACGTcount: A:0.35, C:0.11, G:0.28, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:3782956 original size:22 final size:22
Alignment explanation
Indices: 3782885--3782956 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
3782875 GCATATATGA
3782885 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
3782907 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
3782932 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
3782954 GAT
1 GAT
3782957 GAATGTGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:3783177 original size:50 final size:49
Alignment explanation
Indices: 3783019--3783203 Score: 261
Period size: 48 Copynumber: 3.8 Consensus size: 49
3783009 TGAACATGCA
* *
3783019 TATATGTGGTAAAGCCGAATGGCTAATGTGAAAA-ATGTATGATAAATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAAATATGTATGAGATATG
3783067 TATATGTGGTAAAGCCGAATGGCTAATGTG-AAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAAATATGTATGAGATATG
* * *
3783115 CATATGTGGTAAAGCTGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTGAAA-ATATGTATGAGATATG
* *
3783165 TATATGTGGTAAAGCTGAATGGCTAGTGTG-AAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAAATATGTA
3783204 GGCGATGTGC
Statistics
Matches: 124, Mismatches: 8, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
47 4 0.03
48 74 0.60
49 4 0.03
50 41 0.33
51 1 0.01
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.31
Consensus pattern (49 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAAATATGTATGAGATATG
Found at i:3783177 original size:98 final size:96
Alignment explanation
Indices: 3783020--3783203 Score: 280
Period size: 98 Copynumber: 1.9 Consensus size: 96
3783010 GAACATGCAT
* *
3783020 ATATGTGGTAAAGCCGAATGGCTAATGTGAAAAATGTATGATAAATGTATATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAAAATATATGAGAAATGTATATGTGGTAAAGCCGA
3783085 ATGGCTAATGTGAAATATGTATGAGATATGC
66 ATGGCTAATGTGAAATATGTATGAGATATGC
* *
3783116 ATATGTGGTAAAGCTGAATGG-TCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGC
1 ATATGTGGTAAAGCCGAATGGCT-AATGTGAAA-A-ATATATGAGAAATGTATATGTGGTAAAGC
* *
3783180 TGAATGGCTAGTGTGAAATATGTA
63 CGAATGGCTAATGTGAAATATGTA
3783204 GGCGATGTGC
Statistics
Matches: 79, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
95 1 0.01
96 29 0.37
97 1 0.01
98 48 0.61
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.31
Consensus pattern (96 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAAAATATATGAGAAATGTATATGTGGTAAAGCCGA
ATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:3783218 original size:50 final size:50
Alignment explanation
Indices: 3783014--3783224 Score: 238
Period size: 48 Copynumber: 4.3 Consensus size: 50
3783004 GAATATGAAC
* * * *
3783014 ATGCATATATGTGGTAAAGCCGAATGGCTAATGTGAAAAATGTATGATAA
1 ATGCGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
3783064 AT--GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
1 ATGCGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
* *
3783112 ATGC--ATATGTGGTAAAGCTGAATGG-TCAATGTGAAATATATATATGAGAT
1 ATGCGTATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGAT
* * * *
3783162 AT--GTATATGTGGTAAAGCTGAATGGCTAGTGTGAAATATGTAGGCGAT
1 ATGCGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
*
3783210 GTGCGTATATTGTGG
1 ATGCGTATA-TGTGG
3783225 CTGAACGACC
Statistics
Matches: 139, Mismatches: 11, Indels: 21
0.81 0.06 0.12
Matches are distributed among these distances:
47 1 0.01
48 81 0.58
49 4 0.03
50 47 0.34
51 6 0.04
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.31
Consensus pattern (50 bp):
ATGCGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
Found at i:3783399 original size:37 final size:37
Alignment explanation
Indices: 3783349--3783456 Score: 180
Period size: 37 Copynumber: 2.9 Consensus size: 37
3783339 GGAAATATAT
3783349 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
3783386 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
3783423 TCTGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
3783457 TCGTCTGAGC
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:3786864 original size:27 final size:27
Alignment explanation
Indices: 3786834--3786910 Score: 91
Period size: 27 Copynumber: 2.9 Consensus size: 27
3786824 CCTATAGGGG
* * *
3786834 AAAATGACCGAAATACCCTTGTAGTGT
1 AAAATAACCGAAATACCCTTGTAGAGC
* *
3786861 AAAATTATCGAAATACCCTTGTAGAGC
1 AAAATAACCGAAATACCCTTGTAGAGC
* *
3786888 AAAATAACCGTAATACCCCTGTA
1 AAAATAACCGAAATACCCTTGTA
3786911 TGGTAATATG
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.25
Consensus pattern (27 bp):
AAAATAACCGAAATACCCTTGTAGAGC
Found at i:3790168 original size:28 final size:28
Alignment explanation
Indices: 3790105--3790255 Score: 223
Period size: 28 Copynumber: 5.4 Consensus size: 28
3790095 ATATTAAGTC
*
3790105 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
3790132 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
3790160 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
3790188 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
3790216 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
3790245 CGCACACTTAG
1 CGCACACTTAG
3790256 CGCCAATCTC
Statistics
Matches: 115, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
27 22 0.19
28 77 0.67
29 16 0.14
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:3798276 original size:27 final size:26
Alignment explanation
Indices: 3798259--3798328 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
3798249 ATATTAAGTC
3798259 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATAT-ATCAACT
*
3798286 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATAT-ATC-AACT
*
3798314 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
3798329 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (26 bp):
CGCACACTCAGTGCTATATATCAACT
Found at i:3798322 original size:28 final size:28
Alignment explanation
Indices: 3798259--3798353 Score: 129
Period size: 28 Copynumber: 3.4 Consensus size: 28
3798249 ATATTAAGTC
*
3798259 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
3798286 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
3798314 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
3798343 CGCACACTTAG
1 CGCACACTTAG
3798354 CGCCAATCTC
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.36
28 23 0.38
29 16 0.26
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:3805826 original size:42 final size:44
Alignment explanation
Indices: 3805777--3805870 Score: 113
Period size: 44 Copynumber: 2.2 Consensus size: 44
3805767 TCCTAGATAG
*
3805777 GGTCTTACAC-GAAATCA-AA-TACGATGCAAACGTCCCAGACGT
1 GGTCTTACACAGAAATCATAAGT-CGATGCAAACGTCACAGACGT
* * * *
3805819 GTTCTTACACATAAATCATAAGTCGATGCCAACGTTACAGACGT
1 GGTCTTACACAGAAATCATAAGTCGATGCAAACGTCACAGACGT
3805863 GGTCTTAC
1 GGTCTTAC
3805871 TCAAAAATAT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
42 9 0.21
43 6 0.14
44 27 0.63
45 1 0.02
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.24
Consensus pattern (44 bp):
GGTCTTACACAGAAATCATAAGTCGATGCAAACGTCACAGACGT
Found at i:3814883 original size:34 final size:36
Alignment explanation
Indices: 3814844--3814911 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
3814834 ATTGAATATT
*
3814844 TTAATTTTG-A-ATGTATATAGATCAAGAAAAAAGA
1 TTAATTTTGAATATATATATAGATCAAGAAAAAAGA
*
3814878 TTAATTTTGAATATATATATAGATTAAGAAAAAA
1 TTAATTTTGAATATATATATAGATCAAGAAAAAA
3814912 ATAAATCAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 9 0.30
35 1 0.03
36 20 0.67
ACGTcount: A:0.51, C:0.01, G:0.12, T:0.35
Consensus pattern (36 bp):
TTAATTTTGAATATATATATAGATCAAGAAAAAAGA
Found at i:3815427 original size:32 final size:31
Alignment explanation
Indices: 3815391--3815467 Score: 79
Period size: 30 Copynumber: 2.5 Consensus size: 31
3815381 CTAGAAAATT
* *
3815391 AGAGAAAAGGACTTATTACAT-CAAAAACCCAA
1 AGAGAAAAGGA-AT-TTACATAAAAAAACCCAA
*
3815423 AGAG-AAAGTAATTTACATAAAAAAACCCAA
1 AGAGAAAAGGAATTTACATAAAAAAACCCAA
*
3815453 AGAG-AAAGTAATTTA
1 AGAGAAAAGGAATTTA
3815468 AGTAATGTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
29 6 0.15
30 26 0.63
31 5 0.12
32 4 0.10
ACGTcount: A:0.56, C:0.13, G:0.13, T:0.18
Consensus pattern (31 bp):
AGAGAAAAGGAATTTACATAAAAAAACCCAA
Found at i:3822670 original size:40 final size:40
Alignment explanation
Indices: 3822585--3822680 Score: 102
Period size: 40 Copynumber: 2.4 Consensus size: 40
3822575 AACTATATTT
* **
3822585 GGCACTTAGTGTGCGTTTTGAAATAGCTTCAGCTATATAA
1 GGCATTTAGTGTGCGAATTGAAATAGCTTCAGCTATATAA
* * * * **
3822625 AGCATTTAGTGTGCGAATTGGAATAGCTTCGGCTTTATGC
1 GGCATTTAGTGTGCGAATTGAAATAGCTTCAGCTATATAA
*
3822665 GGCATTAAGTGTGCGA
1 GGCATTTAGTGTGCGA
3822681 GTTTTCAGAG
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (40 bp):
GGCATTTAGTGTGCGAATTGAAATAGCTTCAGCTATATAA
Found at i:3831697 original size:40 final size:39
Alignment explanation
Indices: 3831653--3831796 Score: 225
Period size: 40 Copynumber: 3.6 Consensus size: 39
3831643 GCCACTAGCT
*
3831653 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
*
3831693 CAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
* * *
3831732 CAAATGCCTTCGGGACTTAGCCCAGATATAGTAGCTCACA
1 CAAATGCCTTCGGGACTTAGCCC-GGTATAGTAACTCGCA
3831772 CAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
3831797 AATTAGCCAC
Statistics
Matches: 96, Mismatches: 7, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
39 36 0.38
40 60 0.62
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
Found at i:3831816 original size:40 final size:41
Alignment explanation
Indices: 3831630--3831832 Score: 194
Period size: 40 Copynumber: 5.1 Consensus size: 41
3831620 CCTTCGGAGT
*
3831630 TTAG-CCGG-ATATAGCCACTAGCTCAAATGCCTTCGGGAC
1 TTAGCCCGGAATATAGCCACTAGCACAAATGCCTTCGGGAC
* ** *
3831669 TTAGCCCGG-TTATAGTAACTTGCACAAATGCCTTCGGGAC
1 TTAGCCCGGAATATAGCCACTAGCACAAATGCCTTCGGGAC
* *
3831709 TTAGCCCGGTATAATA---ACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGAAT-ATAGCCACTAGCACAAATGCCTTCGGGAC
* *
3831748 TTAGCCCAG-ATATAG-TAGCTCA-CACAAATGCCTTCGGGAC
1 TTAGCCCGGAATATAGCCA-CT-AGCACAAATGCCTTCGGGAC
* *
3831788 TTAGCCCGGAAT-TAGCCACTAGCTCAAATG-CTCTCGGCAC
1 TTAGCCCGGAATATAGCCACTAGCACAAATGCCT-TCGGGAC
3831828 TTAGC
1 TTAGC
3831833 TCGTTTATCA
Statistics
Matches: 140, Mismatches: 13, Indels: 21
0.80 0.07 0.12
Matches are distributed among these distances:
37 3 0.02
38 2 0.01
39 38 0.27
40 90 0.64
41 4 0.03
42 3 0.02
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
TTAGCCCGGAATATAGCCACTAGCACAAATGCCTTCGGGAC
Found at i:3833628 original size:40 final size:40
Alignment explanation
Indices: 3833584--3833773 Score: 267
Period size: 40 Copynumber: 4.8 Consensus size: 40
3833574 GCCACTAGCT
* *
3833584 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* * *
3833624 CAAATGCCTTCGGGACTTAGCCCGGTA-TAATAACTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* *
3833663 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAGCTCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
3833703 CAAATGCCTTCGGGACTTAGCCCGGAATTACTAGCTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
3833743 CAAATGCCTTCGGGACTTAGCCCGGAATTAG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAG
3833774 CCACTAGCTC
Statistics
Matches: 136, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.26
40 101 0.74
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:3833682 original size:79 final size:80
Alignment explanation
Indices: 3833584--3833773 Score: 276
Period size: 79 Copynumber: 2.4 Consensus size: 80
3833574 GCCACTAGCT
* *
3833584 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
* **
3833648 GTA-TAATAACTCGTA
65 GAATTAATAACTCACA
* *
3833663 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAGCTCGGACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
* *
3833728 AATTACTAGCTCACA
66 AATTAATAACTCACA
3833743 CAAATGCCTTCGGGACTTAGCCCGGAATTAG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAG
3833774 CCACTAGCTC
Statistics
Matches: 100, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
79 60 0.60
80 40 0.40
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.24
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
AATTAATAACTCACA
Found at i:3833787 original size:40 final size:40
Alignment explanation
Indices: 3833572--3833803 Score: 231
Period size: 40 Copynumber: 5.8 Consensus size: 40
3833562 TAGCCGGATA
* * *
3833572 TAGCCACTAGCTCAAATGCCTTCGGGACTTAGCCCGG-TT
1 TAGCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAAT
* * *
3833611 ATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGTA-
1 -TAGCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAAT
** * *
3833651 TAATAACTCGTACAAATGCCTTCGGGACTTAGCCCGGAAT
1 TAGCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAAT
* * * *
3833691 TAGTAGCTCGGACAAATGCCTTCGGGACTTAGCCCGGAAT
1 TAGCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAAT
*
3833731 TA-CTAGCTCA-CACAAATGCCTTCGGGACTTAGCCCGGAAT
1 TAGC-AACT-AGCACAAATGCCTTCGGGACTTAGCCCGGAAT
* * *
3833771 TAGCCACTAGCTCAAATG-CTCTCGGCACTTAGC
1 TAGCAACTAGCACAAATGCCT-TCGGGACTTAGC
3833804 TCGTTTATCA
Statistics
Matches: 166, Mismatches: 19, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
39 38 0.23
40 127 0.77
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
TAGCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAAT
Found at i:3841501 original size:33 final size:33
Alignment explanation
Indices: 3841464--3841531 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
3841454 ATTAGCATAA
3841464 GTAAGTGTTCAGCATTATTATGTGACTTATGTG
1 GTAAGTGTTCAGCATTATTATGTGACTTATGTG
**
3841497 GTAAGTGTTTGGCATTATTATGTGACTTATGTG
1 GTAAGTGTTCAGCATTATTATGTGACTTATGTG
3841530 GT
1 GT
3841532 TGTTTTGATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.22, C:0.07, G:0.26, T:0.44
Consensus pattern (33 bp):
GTAAGTGTTCAGCATTATTATGTGACTTATGTG
Found at i:3846122 original size:63 final size:61
Alignment explanation
Indices: 3845998--3846126 Score: 199
Period size: 63 Copynumber: 2.1 Consensus size: 61
3845988 ACCATAAAAT
3845998 TTTCATAATTTTTGGTTTAGCTAATTAGTACAGTTTATTCATTAAAATTTCCCTTGCTTCAC
1 TTTCATAATTTTTGGTTTAGCTAATTAGTACAGTTTATTCATTAAAATTTCCCTT-CTTCAC
3846060 ATTTCATAATTTTTGGTTTAGGC-AATTAGTACAGTTTATTCATTAAAATTTTCCCTAT-TTCAC
1 -TTTCATAATTTTTGGTTTA-GCTAATTAGTACAGTTTATTCATTAAAA-TTTCCCT-TCTTCAC
3846123 TTTC
1 TTTC
3846127 TGACAGTTTT
Statistics
Matches: 63, Mismatches: 0, Indels: 7
0.90 0.00 0.10
Matches are distributed among these distances:
62 4 0.06
63 49 0.78
64 9 0.14
65 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.09, T:0.49
Consensus pattern (61 bp):
TTTCATAATTTTTGGTTTAGCTAATTAGTACAGTTTATTCATTAAAATTTCCCTTCTTCAC
Found at i:3847712 original size:30 final size:30
Alignment explanation
Indices: 3847678--3847738 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
3847668 TCCTTAACTC
3847678 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
3847708 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
3847738 A
1 A
3847739 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:3848812 original size:45 final size:45
Alignment explanation
Indices: 3848748--3848905 Score: 210
Period size: 45 Copynumber: 3.5 Consensus size: 45
3848738 CAAGATTCTA
* *
3848748 ATATGTGTTTTTGTGTAAGACCACGTCTGGGACGTTGGCATCGAT
1 ATATGTGTTTTCGTGTAAGACCACGTCTGGGACATTGGCATCGAT
* * * *
3848793 ATATGTGTTTTCGTGTAAGACGATGTCTAGGACATTGGCATCAAT
1 ATATGTGTTTTCGTGTAAGACCACGTCTGGGACATTGGCATCGAT
* *
3848838 ATATGTGTTTTCGTGTAAGACCGCATCTGGGACATTGGCATCGAT
1 ATATGTGTTTTCGTGTAAGACCACGTCTGGGACATTGGCATCGAT
* *
3848883 CTATGTGGTTAT-GTGTAAGACCA
1 ATATGT-GTTTTCGTGTAAGACCA
3848906 TATCAGGGGC
Statistics
Matches: 97, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
45 93 0.96
46 4 0.04
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.35
Consensus pattern (45 bp):
ATATGTGTTTTCGTGTAAGACCACGTCTGGGACATTGGCATCGAT
Found at i:3852300 original size:46 final size:48
Alignment explanation
Indices: 3852221--3852427 Score: 147
Period size: 46 Copynumber: 4.5 Consensus size: 48
3852211 GCTGATGCCG
3852221 TGTCCCAGACATGGTCTTACACTG-AC-ACATCTCGTA-G-CAGATGCA
1 TGTCCCAGACAT-GTCTTACACTGCACTACATCTCGTAGGTCAGATGCA
3852266 TGTCCCAGACATGTCTTACACTG-ACTTACATCTCG-AGGTC-GATGCA
1 TGTCCCAGACATGTCTTACACTGCAC-TACATCTCGTAGGTCAGATGCA
** * * *
3852312 TGTCTTAGATAAT-TCTTACACTAGCACT-CATCTC-AATGTCA-ATGCCA
1 TGTCCCAGA-CATGTCTTACACT-GCACTACATCTCGTAGGTCAGATG-CA
* * * * *
3852359 TGTCCCAGACATGGTCTTACACAAGCTCT-TATAAT-GT-GG-CCGATGCA
1 TGTCCCAGACAT-GTCTTACAC-TGCACTACAT-CTCGTAGGTCAGATGCA
3852406 TGTCCCAGACATGTCTTACACT
1 TGTCCCAGACATGTCTTACACT
3852428 AGTTCACAAT
Statistics
Matches: 131, Mismatches: 15, Indels: 32
0.74 0.08 0.18
Matches are distributed among these distances:
44 13 0.10
45 13 0.10
46 55 0.42
47 29 0.22
48 20 0.15
49 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (48 bp):
TGTCCCAGACATGTCTTACACTGCACTACATCTCGTAGGTCAGATGCA
Found at i:3852424 original size:94 final size:93
Alignment explanation
Indices: 3852164--3852429 Score: 235
Period size: 94 Copynumber: 2.8 Consensus size: 93
3852154 GTAAGGTGGC
* * * *
3852164 GATGTCATGTCCTAGACATGGTCTTACACAAGCTC-TAGCATATCTGTGCTGATGCCGTGTCCCA
1 GATG-CATGTCCCAGACATGGTCTTACACAAGCTCTTA-CATATGTG-GCCGATG-CATGTCCCA
*
3852228 GACATGGTCTTACACT-GACACATCTCGTAGCA
62 GACAT-GTCTTACACTAGACACATCTCATAGCA
* * * * * **
3852260 GATGCATGTCCCAGACAT-GTCTTACAC-TG-ACTTACATCTCGAGGTCGATGCATGTCTTAGAT
1 GATGCATGTCCCAGACATGGTCTTACACAAGCTCTTACATAT-GTGGCCGATGCATGTCCCAGA-
* *
3852322 AAT-TCTTACACTAGCACTCATCTCA-ATGTCA
64 CATGTCTTACACTAG-ACACATCTCATA-G-CA
*
3852353 -ATGCCATGTCCCAGACATGGTCTTACACAAGCTCTTATA-ATGTGGCCGATGCATGTCCCAGAC
1 GATG-CATGTCCCAGACATGGTCTTACACAAGCTCTTACATATGTGGCCGATGCATGTCCCAGAC
3852416 ATGTCTTACACTAG
65 ATGTCTTACACTAG
3852430 TTCACAATAA
Statistics
Matches: 135, Mismatches: 23, Indels: 26
0.73 0.12 0.14
Matches are distributed among these distances:
90 9 0.07
91 10 0.07
92 24 0.18
93 22 0.16
94 46 0.34
95 15 0.11
96 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.29
Consensus pattern (93 bp):
GATGCATGTCCCAGACATGGTCTTACACAAGCTCTTACATATGTGGCCGATGCATGTCCCAGACA
TGTCTTACACTAGACACATCTCATAGCA
Found at i:3857887 original size:16 final size:15
Alignment explanation
Indices: 3857868--3857910 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 15
3857858 AAAGATCCTG
3857868 AAATCTCGAAATCCAA
1 AAATCTC-AAATCCAA
*
3857884 AAATCCCAAAATCCAA
1 AAATCTC-AAATCCAA
3857900 AAATCTCAAAT
1 AAATCTCAAAT
3857911 TTTCTTTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
15 4 0.17
16 20 0.83
ACGTcount: A:0.53, C:0.26, G:0.02, T:0.19
Consensus pattern (15 bp):
AAATCTCAAATCCAA
Found at i:3857894 original size:9 final size:8
Alignment explanation
Indices: 3857876--3857909 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
3857866 TGAAATCTCG
3857876 AAATCCAA
1 AAATCCAA
*
3857884 AAATCCCA
1 AAATCCAA
3857892 AAATCCAA
1 AAATCCAA
3857900 AAATCTCAA
1 AAATC-CAA
3857909 A
1 A
3857910 TTTTCTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 19 0.83
9 4 0.17
ACGTcount: A:0.59, C:0.26, G:0.00, T:0.15
Consensus pattern (8 bp):
AAATCCAA
Found at i:3859357 original size:28 final size:29
Alignment explanation
Indices: 3859246--3859359 Score: 117
Period size: 29 Copynumber: 4.0 Consensus size: 29
3859236 GTGAGCATGA
* * *
3859246 ATATGAATGTGA-CTGGGCCTAACGGGCC
1 ATATGAATATGATTTGGGCCTAATGGGCC
* * *
3859274 ATATAAATGTGATTTGAGCCTAATGGGCC
1 ATATGAATATGATTTGGGCCTAATGGGCC
*
3859303 ATAT-ACAGATGATTTGGGCCTAATGGGCC
1 ATATGA-ATATGATTTGGGCCTAATGGGCC
* *
3859332 ATATGAATATGA-TTGGGCTTAGTGGGCC
1 ATATGAATATGATTTGGGCCTAATGGGCC
3859360 GGATACAGGT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
28 26 0.36
29 46 0.63
30 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (29 bp):
ATATGAATATGATTTGGGCCTAATGGGCC
Found at i:3861938 original size:49 final size:48
Alignment explanation
Indices: 3861767--3862042 Score: 250
Period size: 51 Copynumber: 5.5 Consensus size: 48
3861757 TGAGTACACG
**
3861767 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA-A-TGTTCGGTCGCA
* ** * ***
3861817 TGTGTAGTACTAAGTGCAGGCTACTATGCATACTCAATGACTTCGATCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAATG--TTCGGTCGCA
* *
3861868 TGTGTAGTACTAAGTGGAGGCTACTACGTGTACCGGATTGTT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACC--AATGTTCGGTCGCA
* ** * ***
3861917 TGTGTAGTACTAAGTGCAGGCTACTATGCATACTCAATGACTTCGATCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAATG--TTCGGTCGCA
* *
3861968 TGTGTAGTACTAAGTGGAGGCTACTACGTGTACCGGATTGTT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACC--AATGTTCGGTCGCA
3862017 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
3862043 TGCGTATCAG
Statistics
Matches: 178, Mismatches: 37, Indels: 23
0.75 0.16 0.10
Matches are distributed among these distances:
48 3 0.02
49 62 0.35
50 40 0.22
51 67 0.38
52 6 0.03
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (48 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAATGTTCGGTCGCA
Found at i:3862062 original size:100 final size:100
Alignment explanation
Indices: 3861766--3862045 Score: 506
Period size: 100 Copynumber: 2.8 Consensus size: 100
3861756 GTGAGTACAC
* ** * *
3861766 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGTCGCATGTGTAGTACTAAG
1 GTGTGTAGTACTAAGTGGAGGCTACTACGTGTACCGGATTGTT-GGTCGCATGTGTAGTACTAAG
3861831 TGCAGGCTACTATGCATACTCAATGACTTCGATCAT
65 TGCAGGCTACTATGCATACTCAATGACTTCGATCAT
3861867 GTGTGTAGTACTAAGTGGAGGCTACTACGTGTACCGGATTGTTGGTCGCATGTGTAGTACTAAGT
1 GTGTGTAGTACTAAGTGGAGGCTACTACGTGTACCGGATTGTTGGTCGCATGTGTAGTACTAAGT
3861932 GCAGGCTACTATGCATACTCAATGACTTCGATCAT
66 GCAGGCTACTATGCATACTCAATGACTTCGATCAT
3861967 GTGTGTAGTACTAAGTGGAGGCTACTACGTGTACCGGATTGTTGGTCGCATGTGTAGTACTAAGT
1 GTGTGTAGTACTAAGTGGAGGCTACTACGTGTACCGGATTGTTGGTCGCATGTGTAGTACTAAGT
3862032 GCAGGCTACTATGC
66 GCAGGCTACTATGC
3862046 GTATCAGATA
Statistics
Matches: 174, Mismatches: 5, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
100 135 0.78
101 39 0.22
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (100 bp):
GTGTGTAGTACTAAGTGGAGGCTACTACGTGTACCGGATTGTTGGTCGCATGTGTAGTACTAAGT
GCAGGCTACTATGCATACTCAATGACTTCGATCAT
Done.