Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 225 of 295
Found at i:77485444 original size:21 final size:21
Alignment explanation
Indices: 77485418--77485458 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
77485408 AGACGAGCGA
* *
77485418 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
77485439 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
77485459 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:77490191 original size:26 final size:25
Alignment explanation
Indices: 77490161--77490209 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
77490151 TTAATTTTCT
* *
77490161 ATGTTTTTATTTTAAAAAATTTAGTG
1 ATGTTTTAAATTT-AAAAATTTAGTG
77490187 ATGTTTTAAATTTAAAAATTTAG
1 ATGTTTTAAATTTAAAAATTTAG
77490210 ATCTATTTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.51
Consensus pattern (25 bp):
ATGTTTTAAATTTAAAAATTTAGTG
Found at i:77492108 original size:28 final size:28
Alignment explanation
Indices: 77492063--77492117 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
77492053 GTGTGAGGAC
*
77492063 AAGACACCCTATGTTTAATCCCAACTTG
1 AAGACACCCTATGCTTAATCCCAACTTG
*
77492091 AAGACACCCTGTGCTTAATCCCAACTT
1 AAGACACCCTATGCTTAATCCCAACTT
77492118 CTTGTAAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.31, C:0.31, G:0.11, T:0.27
Consensus pattern (28 bp):
AAGACACCCTATGCTTAATCCCAACTTG
Found at i:77495828 original size:15 final size:14
Alignment explanation
Indices: 77495799--77495831 Score: 57
Period size: 14 Copynumber: 2.3 Consensus size: 14
77495789 TGAAAGAGAG
77495799 AAAACAAAAAAAAT
1 AAAACAAAAAAAAT
77495813 AAAACAAAACAAAAT
1 AAAACAAAA-AAAAT
77495828 AAAA
1 AAAA
77495832 TAATTTAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.85, C:0.09, G:0.00, T:0.06
Consensus pattern (14 bp):
AAAACAAAAAAAAT
Found at i:77504766 original size:9 final size:10
Alignment explanation
Indices: 77504747--77504775 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
77504737 CATTTCTCTT
77504747 TTTCTATTCA
1 TTTCTATTCA
77504757 TTTC-ATTCA
1 TTTCTATTCA
77504766 TTTCTATTCA
1 TTTCTATTCA
77504776 AACATGTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.21, C:0.21, G:0.00, T:0.59
Consensus pattern (10 bp):
TTTCTATTCA
Found at i:77505160 original size:40 final size:39
Alignment explanation
Indices: 77505106--77505214 Score: 101
Period size: 41 Copynumber: 2.7 Consensus size: 39
77505096 GCAAAAATTT
* *
77505106 TAAAATACAGAGCAATAGCGGCGTTTTACAAAAAACGTCGC
1 TAAAA-ACTGAGCAATAGCGGCGTTTTAC-AAAAACGTCAC
* ** *
77505147 TAAAAACTGAGCAACAGCGGTATTTTTTACTAAAACGTCAC
1 TAAAAACTGAGCAATAGCGG--CGTTTTACAAAAACGTCAC
* *
77505188 TAAAGACTGAGCATTAGCGGCGCTTTT
1 TAAAAACTGAGCAATAGCGGCG-TTTT
77505215 GGTAAAACGC
Statistics
Matches: 54, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
40 17 0.31
41 31 0.57
42 6 0.11
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (39 bp):
TAAAAACTGAGCAATAGCGGCGTTTTACAAAAACGTCAC
Found at i:77505351 original size:83 final size:81
Alignment explanation
Indices: 77505171--77505355 Score: 271
Period size: 83 Copynumber: 2.3 Consensus size: 81
77505161 CAGCGGTATT
* * * ** * *
77505171 TTTTACTAAAACGTCACTAAAGACTGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGACC
1 TTTTAGTAAAACGCCGCTAAAGACAAAGCATTAGCGGCGCTTTTGGTAAAACGCCACTAAAAACC
*
77505236 AGGGCATTAGCGGCGC
66 AGAGCATTAGCGGCGC
*
77505252 TTTTGGTAAAACGCCGCTAAAGACCAAAGCATTAGCGGCGCTTTTGGTAAAACGCCACTAAAAAA
1 TTTTAGTAAAACGCCGCTAAAGA-CAAAGCATTAGCGGCGCTTTTGGTAAAACGCCACT-AAAAA
77505317 CCAGAGCATTAGCGGCGC
64 CCAGAGCATTAGCGGCGC
77505335 TTTTAGTAAAACGCCGCTAAA
1 TTTTAGTAAAACGCCGCTAAA
77505356 AGTTATATAA
Statistics
Matches: 92, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
81 19 0.21
82 32 0.35
83 41 0.45
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.22
Consensus pattern (81 bp):
TTTTAGTAAAACGCCGCTAAAGACAAAGCATTAGCGGCGCTTTTGGTAAAACGCCACTAAAAACC
AGAGCATTAGCGGCGC
Found at i:77505356 original size:42 final size:41
Alignment explanation
Indices: 77505177--77505355 Score: 270
Period size: 41 Copynumber: 4.4 Consensus size: 41
77505167 TATTTTTTAC
* * *
77505177 TAAAACGTCACTAAAGA-CTGAGCATTAGCGGCGCTTTTGG
1 TAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTTGG
*
77505217 TAAAACGCCGCTAAAGACCAGGGCATTAGCGGCGCTTTTGG
1 TAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTTGG
*
77505258 TAAAACGCCGCTAAAGACCAAAGCATTAGCGGCGCTTTTGG
1 TAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTTGG
* * *
77505299 TAAAACGCCACTAAAAAACCAGAGCATTAGCGGCGCTTTTAG
1 TAAAACGCCGCT-AAAGACCAGAGCATTAGCGGCGCTTTTGG
77505341 TAAAACGCCGCTAAA
1 TAAAACGCCGCTAAA
77505356 AGTTATATAA
Statistics
Matches: 126, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
40 15 0.12
41 74 0.59
42 37 0.29
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.20
Consensus pattern (41 bp):
TAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTTGG
Found at i:77505536 original size:14 final size:14
Alignment explanation
Indices: 77505514--77505558 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
77505504 TTAATTATCA
*
77505514 TTATAGTTTAAGGT
1 TTATGGTTTAAGGT
*
77505528 TTATGGTTTAAGAT
1 TTATGGTTTAAGGT
* *
77505542 ATATGGTTTAGGGT
1 TTATGGTTTAAGGT
77505556 TTA
1 TTA
77505559 AATAGGTTTA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (14 bp):
TTATGGTTTAAGGT
Found at i:77508627 original size:21 final size:21
Alignment explanation
Indices: 77508582--77508627 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
77508572 CATTTCATTG
*
77508582 TGTTTGGAAGAAACAAAGAAG
1 TGTTTGGAAGAAACAAAGAAA
* * *
77508603 TGTTTGGAATAAATAAATAAA
1 TGTTTGGAAGAAACAAAGAAA
77508624 TGTT
1 TGTT
77508628 GTCAGCATGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.46, C:0.02, G:0.22, T:0.30
Consensus pattern (21 bp):
TGTTTGGAAGAAACAAAGAAA
Found at i:77510238 original size:43 final size:42
Alignment explanation
Indices: 77510185--77510415 Score: 309
Period size: 43 Copynumber: 5.4 Consensus size: 42
77510175 TTCAATTTCA
* * * *
77510185 TGATTTTTAGCGGCGTTTTTGAGAAAAGCGTCGCTAAAGGTTG
1 TGATCTTTAGCGGCGTTTGTG-GAAAAGCGCCGCTAAAGGTCG
* *
77510228 TGATCTTTAGCGGCGTTTATGGAAAAGTGCCGCTAAAGGTCG
1 TGATCTTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGTCG
* * *
77510270 TGATCTTTAGCGGCGTTTGTAGAAACAGCGTCGTTAAAGGTCG
1 TGATCTTTAGCGGCGTTTGTGGAAA-AGCGCCGCTAAAGGTCG
* *
77510313 TGATCTTTAGCGGCGTTTGTGGAAAAAGTGCCGCTAAAGGTTG
1 TGATCTTTAGCGGCGTTTGTGG-AAAAGCGCCGCTAAAGGTCG
* * *
77510356 TGAACTTTAGCGGCGTTTGTGGGAAAGCGCCGCTAAAGGTCA
1 TGATCTTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGTCG
77510398 TGATCTTTAGCGGCGTTT
1 TGATCTTTAGCGGCGTTT
77510416 TTTCAAATAA
Statistics
Matches: 165, Mismatches: 21, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
42 74 0.45
43 88 0.53
44 3 0.02
ACGTcount: A:0.23, C:0.16, G:0.31, T:0.31
Consensus pattern (42 bp):
TGATCTTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGTCG
Found at i:77510336 original size:85 final size:85
Alignment explanation
Indices: 77510185--77510415 Score: 338
Period size: 85 Copynumber: 2.7 Consensus size: 85
77510175 TTCAATTTCA
* * *
77510185 TGATTTTTAGCGGCGTTTTTGAGAAAAGCGTCGCTAAAGGTTGTGATCTTTAGCGGCGTTTATGG
1 TGATCTTTAGCGGCGTTTGT-AGAAAAGCGTCGCTAAAGGTCGTGATCTTTAGCGGCGTTTATGG
77510250 -AAAAGTGCCGCTAAAGGTCG
65 AAAAAGTGCCGCTAAAGGTCG
* *
77510270 TGATCTTTAGCGGCGTTTGTAGAAACAGCGTCGTTAAAGGTCGTGATCTTTAGCGGCGTTTGTGG
1 TGATCTTTAGCGGCGTTTGTAGAAA-AGCGTCGCTAAAGGTCGTGATCTTTAGCGGCGTTTATGG
*
77510335 AAAAAGTGCCGCTAAAGGTTG
65 AAAAAGTGCCGCTAAAGGTCG
* * * * *
77510356 TGAACTTTAGCGGCGTTTGTGGGAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCGTTT
1 TGATCTTTAGCGGCGTTTGTAGAAAAGCGTCGCTAAAGGTCGTGATCTTTAGCGGCGTTT
77510416 TTTCAAATAA
Statistics
Matches: 132, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
84 5 0.04
85 86 0.65
86 41 0.31
ACGTcount: A:0.23, C:0.16, G:0.31, T:0.31
Consensus pattern (85 bp):
TGATCTTTAGCGGCGTTTGTAGAAAAGCGTCGCTAAAGGTCGTGATCTTTAGCGGCGTTTATGGA
AAAAGTGCCGCTAAAGGTCG
Found at i:77511737 original size:2 final size:2
Alignment explanation
Indices: 77511730--77511758 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
77511720 TGTCTATAAG
77511730 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
77511759 AAGTAGATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:77513602 original size:5 final size:5
Alignment explanation
Indices: 77513575--77513688 Score: 196
Period size: 5 Copynumber: 22.8 Consensus size: 5
77513565 TTTAAGTAAA
77513575 TATAT TAATAT TA-A- TATTAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT T-ATAT TATAT TA-TAT TATAT TATAT TATAT TATAT TATAT TATAT
77513625 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
77513675 TATAT TATAT TATA
1 TATAT TATAT TATA
77513689 AAGTAAATAA
Statistics
Matches: 105, Mismatches: 0, Indels: 8
0.93 0.00 0.07
Matches are distributed among these distances:
3 2 0.02
4 1 0.01
5 95 0.90
6 7 0.07
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:77513736 original size:19 final size:20
Alignment explanation
Indices: 77513697--77513736 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
77513687 TAAAGTAAAT
77513697 AAAAGAAATGAAACAAAAGA
1 AAAAGAAATGAAACAAAAGA
77513717 AAAAGAAA-G-AACAAACAGA
1 AAAAGAAATGAAACAAA-AGA
77513736 A
1 A
77513737 TAGAAAACGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.32
19 5 0.26
20 8 0.42
ACGTcount: A:0.75, C:0.07, G:0.15, T:0.03
Consensus pattern (20 bp):
AAAAGAAATGAAACAAAAGA
Found at i:77516766 original size:23 final size:24
Alignment explanation
Indices: 77516718--77516771 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
77516708 TTCCTTTTTG
*
77516718 TTTATTTACTTATTATTATTTGTT
1 TTTATTTACTTATTATTATTTCTT
77516742 TTTATTATACTTA-T-TTATTTCTT
1 TTTATT-TACTTATTATTATTTCTT
*
77516765 TTAATTT
1 TTTATTT
77516772 TATCATTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 1 0.04
23 13 0.48
24 7 0.26
25 6 0.22
ACGTcount: A:0.22, C:0.06, G:0.02, T:0.70
Consensus pattern (24 bp):
TTTATTTACTTATTATTATTTCTT
Found at i:77518326 original size:19 final size:20
Alignment explanation
Indices: 77518289--77518326 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
77518279 AGAGGGACAA
*
77518289 TATGATTAAATTATGATGTG
1 TATGATTAAATGATGATGTG
*
77518309 TATG-TTAAATGATTATGT
1 TATGATTAAATGATGATGT
77518327 AAATGTTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.47
Consensus pattern (20 bp):
TATGATTAAATGATGATGTG
Found at i:77518598 original size:36 final size:36
Alignment explanation
Indices: 77518542--77518612 Score: 101
Period size: 34 Copynumber: 2.0 Consensus size: 36
77518532 TCATAGTGAG
77518542 AAAATATAATATATATTATATATAAATTTTA-ATTTTT
1 AAAATATAATATATA--ATATATAAATTTTACATTTTT
*
77518579 AAAA-ATAATATTTAATATATAAATTTTACATTTT
1 AAAATATAATATATAATATATAAATTTTACATTTT
77518613 GAGAAGAGGA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
34 14 0.44
35 5 0.16
36 9 0.28
37 4 0.12
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (36 bp):
AAAATATAATATATAATATATAAATTTTACATTTTT
Found at i:77519639 original size:12 final size:12
Alignment explanation
Indices: 77519620--77519668 Score: 66
Period size: 12 Copynumber: 4.2 Consensus size: 12
77519610 TGTTTTTACC
77519620 GTTATTTTTGTT
1 GTTATTTTTGTT
77519632 GTT-TTTTT-TT
1 GTTATTTTTGTT
*
77519642 GTTATTTTTGCT
1 GTTATTTTTGTT
*
77519654 CTTATTTTTGTT
1 GTTATTTTTGTT
77519666 GTT
1 GTT
77519669 TGGGTGTTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
10 5 0.16
11 10 0.32
12 16 0.52
ACGTcount: A:0.06, C:0.04, G:0.14, T:0.76
Consensus pattern (12 bp):
GTTATTTTTGTT
Found at i:77519649 original size:21 final size:21
Alignment explanation
Indices: 77519587--77519685 Score: 58
Period size: 21 Copynumber: 4.5 Consensus size: 21
77519577 TTATCTTGCT
*
77519587 TTTTTTTTTGTTGATCTTGGTG
1 TTTTTTTTTGTT-ATTTTGGTG
** *
77519609 TTGTTTTTACCGTTATTTTTGTTG
1 TT-TTTTT-TTGTTA-TTTTGGTG
77519633 TTTTTTTTTGTTATTTT--TG
1 TTTTTTTTTGTTATTTTGGTG
* * *
77519652 CTCTTATTTTTGTTGTTTGGGTG
1 -T-TTTTTTTTGTTATTTTGGTG
*
77519675 TTATTTTTTGT
1 TTTTTTTTTGT
77519686 GCATTTTTTA
Statistics
Matches: 59, Mismatches: 11, Indels: 15
0.69 0.13 0.18
Matches are distributed among these distances:
19 2 0.03
20 1 0.02
21 25 0.42
22 7 0.12
23 13 0.22
24 11 0.19
ACGTcount: A:0.06, C:0.05, G:0.18, T:0.71
Consensus pattern (21 bp):
TTTTTTTTTGTTATTTTGGTG
Found at i:77519661 original size:22 final size:22
Alignment explanation
Indices: 77519620--77519662 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
77519610 TGTTTTTACC
* * *
77519620 GTTATTTTTGTTGTTTTTTTTT
1 GTTATTTTTGCTCTTATTTTTT
77519642 GTTATTTTTGCTCTTATTTTT
1 GTTATTTTTGCTCTTATTTTT
77519663 GTTGTTTGGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.07, C:0.05, G:0.12, T:0.77
Consensus pattern (22 bp):
GTTATTTTTGCTCTTATTTTTT
Found at i:77524684 original size:16 final size:17
Alignment explanation
Indices: 77524663--77524696 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
77524653 AAAAATTAAT
77524663 AAAAGTACATTTA-AAA
1 AAAAGTACATTTACAAA
*
77524679 AAAAGTCCATTTACAAA
1 AAAAGTACATTTACAAA
77524696 A
1 A
77524697 TACAAGCCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.59, C:0.12, G:0.06, T:0.24
Consensus pattern (17 bp):
AAAAGTACATTTACAAA
Found at i:77526256 original size:19 final size:19
Alignment explanation
Indices: 77526232--77526329 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
77526222 AATCTTTAAG
77526232 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
77526251 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
77526270 CATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
77526287 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
77526306 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
77526327 GAT
1 GAT
77526330 CTTGTAATCT
Statistics
Matches: 73, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
17 16 0.22
19 48 0.66
21 9 0.12
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:77526262 original size:36 final size:36
Alignment explanation
Indices: 77526222--77526329 Score: 112
Period size: 36 Copynumber: 2.9 Consensus size: 36
77526212 ATGGAAATAT
77526222 AATCTTTAAGGATATGCAATCTTAGATATGATATGC
1 AATCTTTAAGGATATGCAATCTTAGATATGATATGC
* *
77526258 AATC-TT-AGATATCATACAATCTTAGATATGATATGC
1 AATCTTTAAG-GAT-ATGCAATCTTAGATATGATATGC
* *
77526294 AATCTTAGATATGATATGCAATCTTGAAGATATGAT
1 AATCTT-TA-AGGATATGCAATCTT--AGATATGAT
77526330 CTTGTAATCT
Statistics
Matches: 58, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
34 2 0.03
35 4 0.07
36 30 0.52
37 1 0.02
38 9 0.16
39 2 0.03
40 10 0.17
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (36 bp):
AATCTTTAAGGATATGCAATCTTAGATATGATATGC
Found at i:77527776 original size:6 final size:6
Alignment explanation
Indices: 77527767--77527804 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
77527757 CGACATTTAT
77527767 ATTTTC ATTTT- ATTTT- ATTTTTC ATTTTC ATTTTC ATT
1 ATTTTC ATTTTC ATTTTC A-TTTTC ATTTTC ATTTTC ATT
77527805 AAATACGGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 6 0.20
6 23 0.77
7 1 0.03
ACGTcount: A:0.18, C:0.11, G:0.00, T:0.71
Consensus pattern (6 bp):
ATTTTC
Found at i:77527788 original size:17 final size:19
Alignment explanation
Indices: 77527762--77527800 Score: 64
Period size: 17 Copynumber: 2.2 Consensus size: 19
77527752 GGTTTCGACA
77527762 TTTATATTTTCATTTT-AT
1 TTTATATTTTCATTTTCAT
77527780 TTTAT-TTTTCATTTTCAT
1 TTTATATTTTCATTTTCAT
77527798 TTT
1 TTT
77527801 CATTAAATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.18, C:0.08, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTATATTTTCATTTTCAT
Found at i:77532695 original size:21 final size:20
Alignment explanation
Indices: 77532655--77532697 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
77532645 ATAAGCATGT
*
77532655 ATTTTGATGGTTGATGATAG
1 ATTTTGATGCTTGATGATAG
*
77532675 ATTTTGAATGCTTGTTGATAG
1 ATTTTG-ATGCTTGATGATAG
77532696 AT
1 AT
77532698 ATACAAGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.26, C:0.02, G:0.26, T:0.47
Consensus pattern (20 bp):
ATTTTGATGCTTGATGATAG
Found at i:77536630 original size:11 final size:11
Alignment explanation
Indices: 77536616--77536642 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
77536606 CTACAAATGA
77536616 ATGAAAATAGT
1 ATGAAAATAGT
77536627 ATGAAAATAGT
1 ATGAAAATAGT
77536638 ATGAA
1 ATGAA
77536643 TAAAATTCGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.19, T:0.26
Consensus pattern (11 bp):
ATGAAAATAGT
Found at i:77547976 original size:34 final size:34
Alignment explanation
Indices: 77547938--77548009 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 34
77547928 AAATGTTATT
77547938 ATTATATT-TA-AATGTCTAACTAAAAAATTAAAAA
1 ATTATATTCTATAAT-TCTAACTAAAAAA-TAAAAA
* *
77547972 ATTATATTCTATAATTTTAACTAAACAATAAAAA
1 ATTATATTCTATAATTCTAACTAAAAAATAAAAA
77548006 ATTA
1 ATTA
77548010 AATAATATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
34 18 0.53
35 13 0.38
36 3 0.09
ACGTcount: A:0.54, C:0.07, G:0.01, T:0.38
Consensus pattern (34 bp):
ATTATATTCTATAATTCTAACTAAAAAATAAAAA
Found at i:77548025 original size:34 final size:35
Alignment explanation
Indices: 77547954--77548023 Score: 88
Period size: 34 Copynumber: 2.0 Consensus size: 35
77547944 TTTAAATGTC
* **
77547954 TAACTAAAAAATTAAAAAATTATATTCTATAATTT
1 TAACTAAAAAATTAAAAAATTAAATAATATAATTT
*
77547989 TAACTAAACAA-TAAAAAATTAAATAATATATATTT
1 TAACTAAAAAATTAAAAAATTAAATAATATA-ATTT
77548024 AAAACTACAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
34 16 0.53
35 14 0.47
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (35 bp):
TAACTAAAAAATTAAAAAATTAAATAATATAATTT
Found at i:77550708 original size:17 final size:17
Alignment explanation
Indices: 77550688--77550753 Score: 71
Period size: 17 Copynumber: 3.9 Consensus size: 17
77550678 TTCATGCATA
77550688 ATAATAGATCATTCAAT
1 ATAATAGATCATTCAAT
* * *
77550705 ATAAAAGTTCATACAAT
1 ATAATAGATCATTCAAT
* *
77550722 ATAACAGTTCATTCAAT
1 ATAATAGATCATTCAAT
77550739 ATAATA-ATTCATTCA
1 ATAATAGA-TCATTCA
77550754 TACAACATCA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
17 41 1.00
ACGTcount: A:0.47, C:0.14, G:0.05, T:0.35
Consensus pattern (17 bp):
ATAATAGATCATTCAAT
Found at i:77550716 original size:34 final size:35
Alignment explanation
Indices: 77550671--77550755 Score: 95
Period size: 34 Copynumber: 2.5 Consensus size: 35
77550661 TTCACATAAA
* * *
77550671 ATAACAATTCATGCATA-ATAATAGATCATTCAAT
1 ATAATAATTCATACATATATAACAGATCATTCAAT
*
77550705 ATAA-AAGTTCATACA-ATATAACAGTTCATTCAAT
1 ATAATAA-TTCATACATATATAACAGATCATTCAAT
*
77550739 ATAATAATTCATTCATA
1 ATAATAATTCATACATA
77550756 CAACATCATA
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
33 3 0.07
34 37 0.86
35 3 0.07
ACGTcount: A:0.47, C:0.14, G:0.05, T:0.34
Consensus pattern (35 bp):
ATAATAATTCATACATATATAACAGATCATTCAAT
Found at i:77551190 original size:14 final size:14
Alignment explanation
Indices: 77551173--77551199 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
77551163 CACATTATAG
77551173 CACAATTCGCAATT
1 CACAATTCGCAATT
77551187 CACAATTCGCAAT
1 CACAATTCGCAAT
77551200 AGAGCATGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.30, G:0.07, T:0.26
Consensus pattern (14 bp):
CACAATTCGCAATT
Found at i:77551407 original size:18 final size:18
Alignment explanation
Indices: 77551384--77551446 Score: 63
Period size: 18 Copynumber: 3.5 Consensus size: 18
77551374 AAGTTAGCAA
77551384 ATTAATATAGTTCACCAT
1 ATTAATATAGTTCACCAT
* ** *
77551402 ATTAATACAAATCACCAA
1 ATTAATATAGTTCACCAT
* *
77551420 ATTAACATAGTTCGCCAT
1 ATTAATATAGTTCACCAT
*
77551438 AATAATATA
1 ATTAATATA
77551447 ATTAGCCAAG
Statistics
Matches: 33, Mismatches: 12, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.46, C:0.17, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTAATATAGTTCACCAT
Found at i:77551461 original size:36 final size:37
Alignment explanation
Indices: 77551367--77551470 Score: 106
Period size: 36 Copynumber: 2.8 Consensus size: 37
77551357 AAAATCTCAC
* *
77551367 AATACACAAGTTAG-CAAATTAATATAGTTCACCATATT
1 AATACA-AA-TTAGCCAAATTAACATAGTTCACCATAAT
* *
77551405 AATACAAATCA-CCAAATTAACATAGTTCGCCATAAT
1 AATACAAATTAGCCAAATTAACATAGTTCACCATAAT
* * *
77551441 AATA-TAATTAGCCAAGTTAACATGGTTCAC
1 AATACAAATTAGCCAAATTAACATAGTTCAC
77551471 AATATAACAC
Statistics
Matches: 55, Mismatches: 9, Indels: 6
0.79 0.13 0.09
Matches are distributed among these distances:
35 4 0.07
36 43 0.78
37 2 0.04
38 6 0.11
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.29
Consensus pattern (37 bp):
AATACAAATTAGCCAAATTAACATAGTTCACCATAAT
Found at i:77551792 original size:29 final size:30
Alignment explanation
Indices: 77551724--77551802 Score: 115
Period size: 29 Copynumber: 2.7 Consensus size: 30
77551714 AGACCCATAT
*
77551724 ATGCATATATATTATATATAATCAAGACCC
1 ATGCATATATATTATATATAATCAAAACCC
**
77551754 ACACATATATATTATATATAA-CAAAACCC
1 ATGCATATATATTATATATAATCAAAACCC
*
77551783 ATGCATATATATTGTATATA
1 ATGCATATATATTATATATA
77551803 TACACATACC
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 24 0.56
30 19 0.44
ACGTcount: A:0.46, C:0.15, G:0.05, T:0.34
Consensus pattern (30 bp):
ATGCATATATATTATATATAATCAAAACCC
Found at i:77564929 original size:28 final size:27
Alignment explanation
Indices: 77564873--77564937 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 27
77564863 TGACGTTCTC
*
77564873 TTCCTTCTACCTTGTTGTTTTCTCCTTT
1 TTCCTTCTACCTTGTTGATTTCT-CTTT
77564901 TTCCTTCTACTCTCTGTTGATTTCT-TTT
1 TTCCTTCTAC-CT-TGTTGATTTCTCTTT
77564929 TCTCCTTCT
1 T-TCCTTCT
77564938 TGCTGCCAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
28 14 0.42
29 9 0.27
30 10 0.30
ACGTcount: A:0.05, C:0.29, G:0.06, T:0.60
Consensus pattern (27 bp):
TTCCTTCTACCTTGTTGATTTCTCTTT
Found at i:77582352 original size:27 final size:28
Alignment explanation
Indices: 77582268--77582365 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
77582258 CATGAGATTG
* * *
77582268 GCACTAAGTGTGCGGGTTTAAATTGT-TCA
1 GCACTAAGTGTGCGAGTTT-GATTATAT-A
77582297 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
77582325 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
77582352 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
77582366 GACTTAATAT
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
27 24 0.38
28 21 0.33
29 19 0.30
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:77582379 original size:29 final size:27
Alignment explanation
Indices: 77582296--77582380 Score: 98
Period size: 27 Copynumber: 3.0 Consensus size: 27
77582286 TAAATTGTTC
* *
77582296 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTAATTATAT
* *
77582324 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTAATTATAT
*
77582351 AGCACTGAGTGTGCGGACTTAATATATAT
1 AGCACTAAGTGTGC-GACTTAAT-TATAT
77582380 A
1 A
77582381 TTTTTGAATC
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 23 0.45
28 22 0.43
29 6 0.12
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTAATTATAT
Found at i:77590448 original size:27 final size:28
Alignment explanation
Indices: 77590364--77590461 Score: 119
Period size: 27 Copynumber: 3.5 Consensus size: 28
77590354 CATGAGATTG
* * *
77590364 GCACTAAGTGTGCGGGTTTAAATTGT-TCA
1 GCACTAAGTGTGCGAGTTT-GATTATAT-A
*
77590393 GCACTAGGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
77590421 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
77590448 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
77590462 GACTTAATAT
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
27 24 0.39
28 20 0.32
29 18 0.29
ACGTcount: A:0.24, C:0.13, G:0.30, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:77590475 original size:29 final size:27
Alignment explanation
Indices: 77590392--77590476 Score: 89
Period size: 27 Copynumber: 3.0 Consensus size: 27
77590382 TAAATTGTTC
* * *
77590392 AGCACTAGGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTAATTATAT
* *
77590420 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTAATTATAT
*
77590447 AGCACTGAGTGTGCGGACTTAATATATAT
1 AGCACTAAGTGTGC-GACTTAAT-TATAT
77590476 A
1 A
77590477 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
27 23 0.46
28 21 0.42
29 6 0.12
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTAATTATAT
Found at i:77604232 original size:26 final size:24
Alignment explanation
Indices: 77604164--77604232 Score: 59
Period size: 24 Copynumber: 2.8 Consensus size: 24
77604154 AATAATTTGA
* *
77604164 ATAT-ATATTAATTATTTAAATTTT
1 ATATAATATAAATTA-TAAAATTTT
* *
77604188 ATATAATCTGAATTATAAAATTTT
1 ATATAATATAAATTATAAAATTTT
*
77604212 ATATAAATATAATATTTTAAA
1 ATAT-AATATAA-ATTATAAA
77604233 TTAAAATAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
24 16 0.44
25 13 0.36
26 7 0.19
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (24 bp):
ATATAATATAAATTATAAAATTTT
Found at i:77604241 original size:18 final size:18
Alignment explanation
Indices: 77604201--77604242 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
77604191 TAATCTGAAT
*
77604201 TATAAAATTTTATATAAA
1 TATAAAATTTTAAATAAA
*
77604219 TATAATATTTTAAATTAAA
1 TATAAAATTTTAAA-TAAA
77604238 -ATAAA
1 TATAAA
77604243 TATATGAACC
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TATAAAATTTTAAATAAA
Found at i:77606342 original size:22 final size:22
Alignment explanation
Indices: 77606316--77606359 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
77606306 TCCAACATTT
77606316 AATTAAATTTAATTCG-TTTTAA
1 AATT-AATTTAATTCGATTTTAA
*
77606338 AATTAATTTAATTTGATTTTAA
1 AATTAATTTAATTCGATTTTAA
77606360 TTTAAATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (22 bp):
AATTAATTTAATTCGATTTTAA
Found at i:77606364 original size:21 final size:20
Alignment explanation
Indices: 77606313--77606364 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
77606303 CCTTCCAACA
*
77606313 TTTAATTAAATTTAATTCGT
1 TTTAATTTAATTTAATTCGT
* *
77606333 TTTAAAATTAATTTAATTTGAT
1 TTT-AATTTAATTTAATTCG-T
77606355 TTTAATTTAA
1 TTTAATTTAA
77606365 ATAATAATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 3 0.12
21 19 0.73
22 4 0.15
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (20 bp):
TTTAATTTAATTTAATTCGT
Found at i:77637686 original size:12 final size:13
Alignment explanation
Indices: 77637666--77637694 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
77637656 CACCAAAACC
77637666 AAAACCAAAAAAT
1 AAAACCAAAAAAT
77637679 AAAA-CAAAAAAT
1 AAAACCAAAAAAT
77637691 AAAA
1 AAAA
77637695 ATAATAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.83, C:0.10, G:0.00, T:0.07
Consensus pattern (13 bp):
AAAACCAAAAAAT
Found at i:77637708 original size:17 final size:18
Alignment explanation
Indices: 77637673--77637711 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
77637663 ACCAAAACCA
77637673 AAAAATAAAACAAAAAAT
1 AAAAATAAAACAAAAAAT
* *
77637691 AAAAATAATA-AAATAAT
1 AAAAATAAAACAAAAAAT
77637708 AAAA
1 AAAA
77637712 CCAAAATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (18 bp):
AAAAATAAAACAAAAAAT
Found at i:77637718 original size:14 final size:14
Alignment explanation
Indices: 77637666--77637721 Score: 53
Period size: 14 Copynumber: 4.0 Consensus size: 14
77637656 CACCAAAACC
77637666 AAAACCAAAA-AAT
1 AAAACCAAAATAAT
*
77637679 AAAACAAAAAATAA-
1 AAAAC-CAAAATAAT
**
77637693 AAATAATAAAATAAT
1 AAA-ACCAAAATAAT
77637708 AAAACCAAAATAAT
1 AAAACCAAAATAAT
77637722 TTAAAAGTCC
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
13 5 0.15
14 23 0.68
15 6 0.18
ACGTcount: A:0.77, C:0.09, G:0.00, T:0.14
Consensus pattern (14 bp):
AAAACCAAAATAAT
Found at i:77638964 original size:17 final size:18
Alignment explanation
Indices: 77638922--77638957 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
77638912 TATGTAATTA
77638922 TTTA-TTTTTTATTTAGT
1 TTTAGTTTTTTATTTAGT
77638939 TTTAGTTTTTT-TTTA-T
1 TTTAGTTTTTTATTTAGT
77638955 TTT
1 TTT
77638958 TGCTTTTACA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 4 0.22
17 8 0.44
18 6 0.33
ACGTcount: A:0.14, C:0.00, G:0.06, T:0.81
Consensus pattern (18 bp):
TTTAGTTTTTTATTTAGT
Found at i:77644238 original size:28 final size:29
Alignment explanation
Indices: 77644188--77644249 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 29
77644178 AAGGCAGCCG
*
77644188 AAAAGAAAAACAAAAGTATAACAATAGAA
1 AAAAGAAAAACAAAAGCATAACAATAGAA
**
77644217 AAAAGAAAAGGAAAAGCA-AACAATAGAA
1 AAAAGAAAAACAAAAGCATAACAATAGAA
*
77644245 CAAAG
1 AAAAG
77644250 GTCATAGTGA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 14 0.48
29 15 0.52
ACGTcount: A:0.71, C:0.08, G:0.15, T:0.06
Consensus pattern (29 bp):
AAAAGAAAAACAAAAGCATAACAATAGAA
Found at i:77646498 original size:40 final size:40
Alignment explanation
Indices: 77646439--77646650 Score: 268
Period size: 40 Copynumber: 5.3 Consensus size: 40
77646429 CATTTGAATG
* *
77646439 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
77646479 TTATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
77646519 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* *
77646559 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * * * *
77646599 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
77646639 ATATCC-GGCTAA
1 ATATCCGGGCTAA
77646651 ATTCTGAAGA
Statistics
Matches: 156, Mismatches: 13, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
39 7 0.04
40 146 0.94
41 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:77648106 original size:13 final size:12
Alignment explanation
Indices: 77648086--77648135 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 12
77648076 TGAGACTTTT
77648086 TAAAAAAATCAAAA
1 TAAAAAAA--AAAA
77648100 TAAAAAAAAGAAA
1 TAAAAAAAA-AAA
77648113 TAAAAAGAAAAAA
1 TAAAAA-AAAAAA
77648126 TAAAAAAAAA
1 TAAAAAAAAA
77648136 GAGAAGAAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
12 5 0.15
13 18 0.53
14 11 0.32
ACGTcount: A:0.84, C:0.02, G:0.04, T:0.10
Consensus pattern (12 bp):
TAAAAAAAAAAA
Found at i:77648118 original size:19 final size:18
Alignment explanation
Indices: 77648087--77648137 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
77648077 GAGACTTTTT
* *
77648087 AAAAAAATCAAAATAAAA
1 AAAAAAATAAAAAGAAAA
77648105 AAAAGAAATAAAAAGAAAA
1 AAAA-AAATAAAAAGAAAA
*
77648124 AATAAAA-AAAAAGA
1 AAAAAAATAAAAAGA
77648138 GAAGAAAGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
17 7 0.24
18 7 0.24
19 15 0.52
ACGTcount: A:0.84, C:0.02, G:0.06, T:0.08
Consensus pattern (18 bp):
AAAAAAATAAAAAGAAAA
Found at i:77648123 original size:17 final size:17
Alignment explanation
Indices: 77648103--77648147 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
77648093 ATCAAAATAA
*
77648103 AAAAAAGAAATAAAAAG
1 AAAAAAGAAAAAAAAAG
*
77648120 AAAAAATAAAAAAAAAG
1 AAAAAAGAAAAAAAAAG
77648137 AGAAGAAAGAA
1 A-AA-AAAGAA
77648148 TCAATCAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 16 0.70
18 2 0.09
19 5 0.22
ACGTcount: A:0.82, C:0.00, G:0.13, T:0.04
Consensus pattern (17 bp):
AAAAAAGAAAAAAAAAG
Found at i:77649461 original size:64 final size:64
Alignment explanation
Indices: 77649273--77649464 Score: 296
Period size: 64 Copynumber: 3.0 Consensus size: 64
77649263 TCATTCATAA
* ** *
77649273 CACATCCAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTA-TTGGACATAAACAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGG-CATAAGCAT
* *
77649337 CACATCTAGTTAGGTGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGACATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGGCATAAGCAT
* *
77649401 CACATCTAGTTAGGAGCATTTGATTTATTTTGATCATAACATCCTAATTATTTGGCATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGGCATAAGCAT
77649465 GATACATGAA
Statistics
Matches: 117, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
64 114 0.97
65 3 0.03
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.37
Consensus pattern (64 bp):
CACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGGCATAAGCAT
Found at i:77649935 original size:177 final size:176
Alignment explanation
Indices: 77649639--77650574 Score: 819
Period size: 176 Copynumber: 5.3 Consensus size: 176
77649629 GCAGATCATA
* * * * *
77649639 ACAAGTCTTATCTCCCTGAGGTTGC-AGTGGAGTAGACTGAAGATT-ACAGGTCTTATTTCCCTA
1 ACAAGTCTTATCTCCCTGAGGTAGCAAG-GAAGCAGACTAAAGATTGA-AGATCTTATTTCCCTA
* * * * * * *
77649702 AGCAGTAGTGGAACAGACCAAAGACGACGAGTCTTATCTCCATGTACCGGCAATGGAGCAGATTT
64 AGCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTT
* * * * *
77649767 AAGTCACCAGCCTTATCTC-CTTAAAGTTGC-AGTGGAGCAGGCTCAATAT
129 TAGCCACCAGCCTTATCTCTC-TAAGGTAGCAAG-AGAGCAGG-TCAATAT
* * * * *
77649816 ACAAGTCTTATCTCCCTGAGGTTGC-AGTGGAGCAGACTAAAGATTGAAAATCTTATCTCCCGAA
1 ACAAGTCTTATCTCCCTGAGGTAGCAAG-GAAGCAGACTAAAGATTGAAGATCTTATTTCCCTAA
** * * *
77649880 GCAGTAGCAGAGCAGATCGAAGATAGCGAATCTTATCTCCATGTATCGACAATGGAGCATATTTT
65 GCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTT
* * * ***
77649945 AGCCA-CTGACCTTATCTCTCTATGGTAACAAGAGAGCAGGTTGGTGAT
130 AGCCACCAG-CCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTCAAT-AT
*** * *
77649993 TGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATC-TATTTCCCTAAG
1 ACAAGTCTTATCTCCCTGAGGTAGCAAGGAAGCAGACTAAAGATTGAAGATCTTATTTCCCTAAG
* * * *
77650057 CAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTCCATATATCGGTAATAGAGCAGATTTTA
66 CAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTA
* * * * * *
77650122 -CCACTAGCCTTATCTCTCTGAGGTAGCAAGAAAGCATGTTGAAGA-
131 GCCACCAGCCTTATCTCTCTAAGGTAGCAAGAGAGCA-GGTCAATAT
** * * * * *
77650167 ATTAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACTGAAA-ATTGAAGATTTTATATCTCTAA
1 ACAAGTCTTATCTCCCTGAGGTAGCAAGGAAGCAGACT-AAAGATTGAAGATCTTATTTCCCTAA
* * * *
77650231 GCAGTAGGGGAGCAGATCGAAGATGGTGAATCTTATCTCTATGTATCGGTAATGGAGCAGATTTT
65 GCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTT
** * *
77650296 A-CCACTGGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGGCGAT-T
130 AGCCACCAGCCTTATCTCTCTAAGGTAGCAAGAGAGCAGG-T--CAATAT
** * * * * **
77650344 -GTAGTATTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAA-ATTGAAGATTTTATATCTTTAA
1 ACAAGTCTTATCTCCCTGAGGTAGCAAGGAAGCAGACT-AAAGATTGAAGATCTTATTTCCCTAA
* * * *
77650407 GCAGTAGGGGAGCAGATCAAAGATGGTGAATCTTATCTCCATGTATCGGCAATAGAGCAGATTTT
65 GCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTT
* * * *
77650472 A-CCA-CTGACCTTATCTCTCTGAGGTAGCAAAAGAGCAGGTTGGCGAT-T
130 AGCCACCAG-CCTTATCTCTCTAAGGTAGCAAGAGAGCAGG-T--CAATAT
** * * * *
77650520 -GTAGTCTTATATTCCTGATGTAGCAAGGAAGCAGACTGAAGATTGAAGATCTTAT
1 ACAAGTCTTATCTCCCTGAGGTAGCAAGGAAGCAGACTAAAGATTGAAGATCTTAT
77650575 CTCCATGTAT
Statistics
Matches: 651, Mismatches: 92, Indels: 33
0.84 0.12 0.04
Matches are distributed among these distances:
174 45 0.07
175 140 0.22
176 283 0.43
177 177 0.27
178 6 0.01
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (176 bp):
ACAAGTCTTATCTCCCTGAGGTAGCAAGGAAGCAGACTAAAGATTGAAGATCTTATTTCCCTAAG
CAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTA
GCCACCAGCCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTCAATAT
Found at i:77650288 original size:351 final size:352
Alignment explanation
Indices: 77649819--77650574 Score: 1076
Period size: 351 Copynumber: 2.2 Consensus size: 352
77649809 TCAATATACA
* * * * *
77649819 AGTCTTATCTCCCTGAGGTTGC-AGTGGAGCAGACT-AAAGATTGAAAATCTTATCTCCCGAAGC
1 AGTCTTATCTTCCTGAGGTAGCAAG-GAAGCAGACTGAAA-ATTGAAGATCTTATATCCCGAAGC
*
77649882 AGTAGCAGAGCAGATCGAAGATAGCGAATCTTATCTCCATGTATCGACAATGGAGCATATTTTAG
64 AGTAGCAGAGCAGATCGAAGATAGCGAATCTTATCTCCATGTATCGACAATGGAGCAGATTTTA-
* *
77649947 CCACTGACCTTATCTCTCT-ATGGTAACAAGAGAGCAGGTTGGTGATTGTAGTCTTATCTTCCTG
128 CCACTGACCTTATCTCTCTGA-GGTAACAAGAGAGCAGGTTGGCGATTGTAGTATTATCTTCCTG
* * * *
77650011 AGGTAGCAAGGAAGCAGACTGAAGATTGAAGA-TCTATTTCCCTAAGCAGTAGTGGAGCAGATCG
192 AGGTAGCAAGGAAGCAGACTGAAAATTGAAGATTCTATATCCCTAAGCAGTAGGGGAGCAGATCA
*
77650075 AAGATGGTGAATCTTATCTCCATATATCGGTAATAGAGCAGATTTTACCACT-AGCCTTATCTCT
257 AAGATGGTGAATCTTATCTCCATATATCGGCAATAGAGCAGATTTTACCACTGA-CCTTATCTCT
*
77650139 CTGAGGTAGCAAGAA-AGCATGTTGAAGAAT-T
321 CTGAGGTAGCAA-AAGAGCAGGTTGAAGAATGT
* * * *
77650170 AGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACTGAAAATTGAAGATTTTATATCTCTAAGCAG
1 AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTGAAGATCTTATATCCCGAAGCAG
** * * * **
77650235 TAGGGGAGCAGATCGAAGATGGTGAATCTTATCTCTATGTATCGGTAATGGAGCAGATTTTACCA
66 TAGCAGAGCAGATCGAAGATAGCGAATCTTATCTCCATGTATCGACAATGGAGCAGATTTTACCA
* *
77650300 CTGGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGGCGATTGTAGTATTATCTTCCTGAGGT
131 CTGACCTTATCTCTCTGAGGTAACAAGAGAGCAGGTTGGCGATTGTAGTATTATCTTCCTGAGGT
* **
77650365 AGCAAGGAAGCAGACTGAAAATTGAAGATTTTATATCTTTAAGCAGTAGGGGAGCAGATCAAAGA
196 AGCAAGGAAGCAGACTGAAAATTGAAGATTCTATATCCCTAAGCAGTAGGGGAGCAGATCAAAGA
*
77650430 TGGTGAATCTTATCTCCATGTATCGGCAATAGAGCAGATTTTACCACTGACCTTATCTCTCTGAG
261 TGGTGAATCTTATCTCCATATATCGGCAATAGAGCAGATTTTACCACTGACCTTATCTCTCTGAG
** *
77650495 GTAGCAAAAGAGCAGGTTGGCGATTGT
326 GTAGCAAAAGAGCAGGTTGAAGAATGT
* * *
77650522 AGTCTTATATTCCTGATGTAGCAAGGAAGCAGACTGAAGATTGAAGATCTTAT
1 AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTGAAGATCTTAT
77650575 CTCCATGTAT
Statistics
Matches: 359, Mismatches: 39, Indels: 13
0.87 0.09 0.03
Matches are distributed among these distances:
350 91 0.25
351 213 0.59
352 55 0.15
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (352 bp):
AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTGAAGATCTTATATCCCGAAGCAG
TAGCAGAGCAGATCGAAGATAGCGAATCTTATCTCCATGTATCGACAATGGAGCAGATTTTACCA
CTGACCTTATCTCTCTGAGGTAACAAGAGAGCAGGTTGGCGATTGTAGTATTATCTTCCTGAGGT
AGCAAGGAAGCAGACTGAAAATTGAAGATTCTATATCCCTAAGCAGTAGGGGAGCAGATCAAAGA
TGGTGAATCTTATCTCCATATATCGGCAATAGAGCAGATTTTACCACTGACCTTATCTCTCTGAG
GTAGCAAAAGAGCAGGTTGAAGAATGT
Found at i:77650435 original size:176 final size:176
Alignment explanation
Indices: 77649819--77650574 Score: 1047
Period size: 176 Copynumber: 4.3 Consensus size: 176
77649809 TCAATATACA
* * * * * * * *
77649819 AGTCTTATCTCCCTGAGGTTGC-AGTGGAGCAGACT-AAAGATTGAAAATCTTATCTCCCGAAGC
1 AGTCTTATCTTCCTGAGGTAGCAAG-GAAGCAGACTGAAA-ATTGAAGATTTTATATCTCTAAGC
** * * * * *
77649882 AGTAGCAGAGCAGATCGAAGATAGCGAATCTTATCTCCATGTATCGACAATGGAGCATATTTTAG
64 AGTAGGGGAGCAGATCGAAGATGGTGAATCTTATCTCCATGTATCGGCAATAGAGCAGATTTTA-
* *
77649947 CCACTGACCTTATCTCTCT-ATGGTAACAAGAGAGCAGGTTGGTGATTGT
128 CCACTGACCTTATCTCTCTGA-GGTAGCAAGAGAGCAGGTTGGCGATTGT
* * * *
77649996 AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGA-TCTATTTCCCTAAGCAG
1 AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTGAAGATTTTATATCTCTAAGCAG
* * *
77650060 TAGTGGAGCAGATCGAAGATGGTGAATCTTATCTCCATATATCGGTAATAGAGCAGATTTTACCA
66 TAGGGGAGCAGATCGAAGATGGTGAATCTTATCTCCATGTATCGGCAATAGAGCAGATTTTACCA
* * ** *
77650125 CT-AGCCTTATCTCTCTGAGGTAGCAAGAAAGCATGTTGAAGAAT-T
131 CTGA-CCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGGCGATTGT
*
77650170 AGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACTGAAAATTGAAGATTTTATATCTCTAAGCAG
1 AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTGAAGATTTTATATCTCTAAGCAG
* * *
77650235 TAGGGGAGCAGATCGAAGATGGTGAATCTTATCTCTATGTATCGGTAATGGAGCAGATTTTACCA
66 TAGGGGAGCAGATCGAAGATGGTGAATCTTATCTCCATGTATCGGCAATAGAGCAGATTTTACCA
*
77650300 CTGGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGGCGATTGT
131 CTGACCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGGCGATTGT
* *
77650346 AGTATTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTGAAGATTTTATATCTTTAAGCAG
1 AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTGAAGATTTTATATCTCTAAGCAG
*
77650411 TAGGGGAGCAGATCAAAGATGGTGAATCTTATCTCCATGTATCGGCAATAGAGCAGATTTTACCA
66 TAGGGGAGCAGATCGAAGATGGTGAATCTTATCTCCATGTATCGGCAATAGAGCAGATTTTACCA
*
77650476 CTGACCTTATCTCTCTGAGGTAGCAAAAGAGCAGGTTGGCGATTGT
131 CTGACCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGGCGATTGT
* * * *
77650522 AGTCTTATATTCCTGATGTAGCAAGGAAGCAGACTGAAGATTGAAGATCTTAT
1 AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTGAAGATTTTAT
77650575 CTCCATGTAT
Statistics
Matches: 519, Mismatches: 53, Indels: 15
0.88 0.09 0.03
Matches are distributed among these distances:
174 47 0.09
175 149 0.29
176 283 0.55
177 36 0.07
178 4 0.01
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (176 bp):
AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTGAAGATTTTATATCTCTAAGCAG
TAGGGGAGCAGATCGAAGATGGTGAATCTTATCTCCATGTATCGGCAATAGAGCAGATTTTACCA
CTGACCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGGCGATTGT
Found at i:77650781 original size:12 final size:12
Alignment explanation
Indices: 77650766--77650800 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
77650756 AAACCAAAGC
77650766 CAAAAAATAAAA
1 CAAAAAATAAAA
77650778 CAAAAAATAAAAA
1 CAAAAAAT-AAAA
*
77650791 TAAAAAATAA
1 CAAAAAATAA
77650801 TAAAACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.83, C:0.06, G:0.00, T:0.11
Consensus pattern (12 bp):
CAAAAAATAAAA
Found at i:77658807 original size:6 final size:6
Alignment explanation
Indices: 77658792--77658825 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
77658782 TTAGTGAATA
*
77658792 TTTAAC TTTAAT TTTAAT TTTAAT TTTATAT TTT
1 TTTAAT TTTAAT TTTAAT TTTAAT TTTA-AT TTT
77658826 TTAATTTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
6 21 0.81
7 5 0.19
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTAAT
Found at i:77659042 original size:73 final size:73
Alignment explanation
Indices: 77658954--77659162 Score: 221
Period size: 73 Copynumber: 2.9 Consensus size: 73
77658944 TTTAAGGTTA
* *
77658954 CCTTAAAC--GGTCTATCTCAACCTTTTTAATATTACCTTAGATGAGC-CTAT-CTCAACTTTTT
1 CCTTAAACAAGGTCTATCTCAACCTTTTTAAGATTACCTTAGATG-GCTCTATAC-CAACCTTTT
*
77659015 TTATAGGGTG
64 TTAAAGGGTG
* * * *
77659025 CCTTAAACAAGGTCTATCCCAACCTTTTTAAGGTTATCTTAGGTGGCTCTATACCAACCTTTTTT
1 CCTTAAACAAGGTCTATCTCAACCTTTTTAAGATTACCTTAGATGGCTCTATACCAACCTTTTTT
* *
77659090 AAATGTTG
66 AAAGGGTG
* * * * * *
77659098 CCTTAGACAAGGTCTATTTAAACCTTTTTAAGGTTGCCTTAGATAGG-TCTATTCCAACCTTTTT
1 CCTTAAACAAGGTCTATCTCAACCTTTTTAAGATTACCTTAGAT-GGCTCTATACCAACCTTTTT
77659162 T
65 T
77659163 CAACGTTGGC
Statistics
Matches: 116, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
71 8 0.07
72 2 0.02
73 103 0.89
74 3 0.03
ACGTcount: A:0.25, C:0.21, G:0.13, T:0.40
Consensus pattern (73 bp):
CCTTAAACAAGGTCTATCTCAACCTTTTTAAGATTACCTTAGATGGCTCTATACCAACCTTTTTT
AAAGGGTG
Found at i:77659123 original size:38 final size:37
Alignment explanation
Indices: 77659080--77659185 Score: 119
Period size: 36 Copynumber: 2.9 Consensus size: 37
77659070 GCTCTATACC
* * *
77659080 AACCTTTTTTAAATGTTGCCTTAGACAAGGTCTATTTA
1 AACCTTTTTT-AACGTTGCCTTAGACTAGGTCTATTCA
* *
77659118 AACC-TTTTTAAGGTTGCCTTAGA-TAGGTCTATTCC
1 AACCTTTTTTAACGTTGCCTTAGACTAGGTCTATTCA
77659153 AACCTTTTTTCAACGTTGGCCTTA-ACTAGGTCT
1 AACCTTTTTT-AACGTT-GCCTTAGACTAGGTCT
77659186 TTGTCAACCC
Statistics
Matches: 59, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
35 13 0.22
36 18 0.31
37 11 0.19
38 17 0.29
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.41
Consensus pattern (37 bp):
AACCTTTTTTAACGTTGCCTTAGACTAGGTCTATTCA
Found at i:77659157 original size:35 final size:35
Alignment explanation
Indices: 77658937--77659161 Score: 140
Period size: 35 Copynumber: 6.3 Consensus size: 35
77658927 CGTGTTTACC
77658937 CCAACC-TTTTAAGGTTACCTTA-A-ACGGTCTA-T
1 CCAACCTTTTTAAGGTTACCTTAGATA-GGTCTATT
** *
77658969 CTCAACCTTTTTAATATTACCTTAGAT-GAGCCTA-T
1 C-CAACCTTTTTAAGGTTACCTTAGATAG-GTCTATT
* * * * * *
77659004 CTCAACTTTTTTTATAGGGTGCCTTAAACAAGGTCTATC
1 C-CAAC-CTTTTTA-AGGTTACCTTAGA-TAGGTCTATT
* * *
77659043 CCAACCTTTTTAAGGTTATCTTAGGT-GGCTCTATA
1 CCAACCTTTTTAAGGTTACCTTAGATAGG-TCTATT
* * *
77659078 CCAACCTTTTTTAAATGTTGCCTTAGACAAGGTCTATT
1 CCAACC-TTTTT-AAGGTTACCTTAGA-TAGGTCTATT
** *
77659116 TAAACCTTTTTAAGGTTGCCTTAGATAGGTCTATT
1 CCAACCTTTTTAAGGTTACCTTAGATAGGTCTATT
77659151 CCAACCTTTTT
1 CCAACCTTTTT
77659162 TCAACGTTGG
Statistics
Matches: 146, Mismatches: 32, Indels: 27
0.71 0.16 0.13
Matches are distributed among these distances:
32 1 0.01
33 5 0.03
34 17 0.12
35 41 0.28
36 32 0.22
37 29 0.20
38 17 0.12
39 4 0.03
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.40
Consensus pattern (35 bp):
CCAACCTTTTTAAGGTTACCTTAGATAGGTCTATT
Found at i:77659184 original size:73 final size:73
Alignment explanation
Indices: 77658962--77659185 Score: 213
Period size: 73 Copynumber: 3.1 Consensus size: 73
77658952 TACCTTAAAC
* * ** * * * *
77658962 GGTCTATCTCAACCTTTTTAATATTACCTTAGATGAGC-CTAT-CTCAACTTTTTTTATAGGGTG
1 GGTCTATTTAAACCTTTTTAAGGTTACCTTAGATG-GCTCTATAC-CAACCTTTTTTAAACGTTG
*
77659025 CCTTAAACAA
64 CCTTAGACAA
*** * * *
77659035 GGTCTATCCCAACCTTTTTAAGGTTATCTTAGGTGGCTCTATACCAACCTTTTTTAAATGTTGCC
1 GGTCTATTTAAACCTTTTTAAGGTTACCTTAGATGGCTCTATACCAACCTTTTTTAAACGTTGCC
77659100 TTAGACAA
66 TTAGACAA
* * *
77659108 GGTCTATTTAAACCTTTTTAAGGTTGCCTTAGATAGG-TCTATTCCAACCTTTTTTCAACGTTGG
1 GGTCTATTTAAACCTTTTTAAGGTTACCTTAGAT-GGCTCTATACCAACCTTTTTTAAACGTT-G
*
77659172 CCTTA-ACTA
64 CCTTAGACAA
77659181 GGTCT
1 GGTCT
77659186 TTGTCAACCC
Statistics
Matches: 127, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
72 2 0.02
73 116 0.91
74 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.40
Consensus pattern (73 bp):
GGTCTATTTAAACCTTTTTAAGGTTACCTTAGATGGCTCTATACCAACCTTTTTTAAACGTTGCC
TTAGACAA
Found at i:77659194 original size:38 final size:37
Alignment explanation
Indices: 77659079--77659194 Score: 123
Period size: 38 Copynumber: 3.1 Consensus size: 37
77659069 GGCTCTATAC
* *
77659079 CAACCTTTTTTAAATGTTGCCTTAGACAAGGTCTATTT
1 CAACCTTTTTT-AACGTTGCCTTAGACTAGGTCTATTT
* * *
77659117 AAACC-TTTTTAAGGTTGCCTTAGA-TAGGTCTATTC
1 CAACCTTTTTTAACGTTGCCTTAGACTAGGTCTATTT
77659152 CAACCTTTTTTCAACGTTGGCCTTA-ACTAGGTCT-TTGT
1 CAACCTTTTTT-AACGTT-GCCTTAGACTAGGTCTATT-T
77659190 CAACC
1 CAACC
77659195 CTTCAATAAA
Statistics
Matches: 66, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
35 13 0.20
36 18 0.27
37 13 0.20
38 22 0.33
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.40
Consensus pattern (37 bp):
CAACCTTTTTTAACGTTGCCTTAGACTAGGTCTATTT
Found at i:77664594 original size:12 final size:12
Alignment explanation
Indices: 77664579--77664603 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
77664569 TCCTCTTCTC
77664579 TGTTAAAGGGGT
1 TGTTAAAGGGGT
77664591 TGTTAAAGGGGT
1 TGTTAAAGGGGT
77664603 T
1 T
77664604 TTTTTAGGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.40, T:0.36
Consensus pattern (12 bp):
TGTTAAAGGGGT
Found at i:77664683 original size:21 final size:21
Alignment explanation
Indices: 77664644--77664685 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
77664634 CAACGTGGCA
* *
77664644 AGTTAACTGGCTACGTCAGCT
1 AGTTAACTGGCCACATCAGCT
*
77664665 AGTTAACTTGCCACATCAGCT
1 AGTTAACTGGCCACATCAGCT
77664686 GTTCTGTTAA
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:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (21 bp):
AGTTAACTGGCCACATCAGCT
Found at i:77666193 original size:18 final size:17
Alignment explanation
Indices: 77666170--77666208 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 17
77666160 TTAAAAAACT
77666170 ATTA-AAAATATAAAAA
1 ATTATAAAATATAAAAA
77666186 ATTATAAAATATAGAAAA
1 ATTATAAAATATA-AAAA
77666204 ATTAT
1 ATTAT
77666209 TTTAAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 4 0.19
17 8 0.38
18 9 0.43
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (17 bp):
ATTATAAAATATAAAAA
Found at i:77666636 original size:43 final size:43
Alignment explanation
Indices: 77666575--77666661 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
77666565 ATCTCCTTCA
77666575 ATAAACCAGACAACCAAACCACCTTTGCAACAATTGATGTCAT
1 ATAAACCAGACAACCAAACCACCTTTGCAACAATTGATGTCAT
77666618 ATAAACCAGACAACCAAACCACCTTTGCAACAATTGATGTCAT
1 ATAAACCAGACAACCAAACCACCTTTGCAACAATTGATGTCAT
77666661 A
1 A
77666662 CTTCTGTATT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.43, C:0.28, G:0.09, T:0.21
Consensus pattern (43 bp):
ATAAACCAGACAACCAAACCACCTTTGCAACAATTGATGTCAT
Found at i:77673173 original size:25 final size:25
Alignment explanation
Indices: 77673124--77673183 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
77673114 CACTACTGAT
* *
77673124 CAGGATGCTCATAGTAACTATATAA
1 CAGGATGCTCACAGGAACTATATAA
77673149 CAGGATGCTCACAGGAACTATATAA
1 CAGGATGCTCACAGGAACTATATAA
77673174 C-GGAATGCTC
1 CAGG-ATGCTC
77673184 TTCTGAGCTA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
24 2 0.06
25 30 0.94
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.23
Consensus pattern (25 bp):
CAGGATGCTCACAGGAACTATATAA
Found at i:77686540 original size:23 final size:23
Alignment explanation
Indices: 77686514--77686571 Score: 107
Period size: 23 Copynumber: 2.5 Consensus size: 23
77686504 ATATATGCCA
*
77686514 TTATACCAAAATAGGTTTTCTAT
1 TTATACCAAAATAAGTTTTCTAT
77686537 TTATACCAAAATAAGTTTTCTAT
1 TTATACCAAAATAAGTTTTCTAT
77686560 TTATACCAAAAT
1 TTATACCAAAAT
77686572 CGGCTGAAGG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.40, C:0.14, G:0.05, T:0.41
Consensus pattern (23 bp):
TTATACCAAAATAAGTTTTCTAT
Found at i:77687203 original size:45 final size:46
Alignment explanation
Indices: 77687108--77687204 Score: 108
Period size: 45 Copynumber: 2.1 Consensus size: 46
77687098 GTGAGCTATG
* * *
77687108 TATCAGGAAGCTTATCTGGGCTAAACAGGAAACTCATAAGAGTCTA
1 TATCAGGAAGCTCATCTGAGCTAAACAGGAAACTCAGAAGAGTCTA
* * * *
77687154 TATCAGGAAGCTCAT-TGAGCTTAATAGGTAACTCCGAAGAGT-TA
1 TATCAGGAAGCTCATCTGAGCTAAACAGGAAACTCAGAAGAGTCTA
77687198 TTATCAG
1 -TATCAG
77687205 AGAGCTCCAG
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
44 2 0.05
45 27 0.63
46 14 0.33
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (46 bp):
TATCAGGAAGCTCATCTGAGCTAAACAGGAAACTCAGAAGAGTCTA
Found at i:77690512 original size:19 final size:19
Alignment explanation
Indices: 77690467--77690510 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
77690457 ATAACTTTAA
77690467 AATTTTTATATTTCATAAT
1 AATTTTTATATTTCATAAT
*
77690486 AAATTTTATATTTCA-AAT
1 AATTTTTATATTTCATAAT
77690504 AATTTTT
1 AATTTTT
77690511 TAAAATGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 9 0.39
19 14 0.61
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.57
Consensus pattern (19 bp):
AATTTTTATATTTCATAAT
Found at i:77690525 original size:21 final size:20
Alignment explanation
Indices: 77690501--77690573 Score: 58
Period size: 21 Copynumber: 3.5 Consensus size: 20
77690491 TTATATTTCA
77690501 AATAATTTTTTAAAATGTTTT
1 AATAATTTTTTAAAAT-TTTT
* *
77690522 AATAA-ATTATAAATATTTTT
1 AATAATTTTTTAAA-ATTTTT
* *
77690542 CTATAAATTTTTTATAAAATTTT
1 -AAT-AATTTTTTA-AAATTTTT
77690565 AATAATTTT
1 AATAATTTT
77690574 ATATTTTCTA
Statistics
Matches: 40, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
20 10 0.25
21 15 0.38
22 4 0.10
23 9 0.22
24 2 0.05
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (20 bp):
AATAATTTTTTAAAATTTTT
Found at i:77700798 original size:15 final size:15
Alignment explanation
Indices: 77700778--77700808 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
77700768 TTTTCCCTTC
77700778 CCCCTTCCTTTCATG
1 CCCCTTCCTTTCATG
77700793 CCCCTTCCTTTCATG
1 CCCCTTCCTTTCATG
77700808 C
1 C
77700809 TTGAATTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.48, G:0.06, T:0.39
Consensus pattern (15 bp):
CCCCTTCCTTTCATG
Found at i:77702566 original size:41 final size:41
Alignment explanation
Indices: 77702479--77702708 Score: 277
Period size: 41 Copynumber: 5.7 Consensus size: 41
77702469 GACAAATCAA
* * * *
77702479 CTATATGTGGCACTTAGTGTGC-A-ATTTGACATAGCTTCAG
1 CTATATATGGCACTTAGTGTGCGAGA-TCGAGATAGCTTCGG
* * *
77702519 ATATATATGGCACTTAGTGTGCAAGATCAAGATAGCTTCGG
1 CTATATATGGCACTTAGTGTGCGAGATCGAGATAGCTTCGG
*
77702560 CTATATATGGCACTTAGTGTGCGAGATCGAGATAGATTCGG
1 CTATATATGGCACTTAGTGTGCGAGATCGAGATAGCTTCGG
* * *
77702601 GTATATATAGCACTTAGTGTGTGAGATCGAGATAGCTTCGG
1 CTATATATGGCACTTAGTGTGCGAGATCGAGATAGCTTCGG
* * * * *
77702642 CTATACATGGCACTTAATGTGCGA-TTTGAGATAACTTCGG
1 CTATATATGGCACTTAGTGTGCGAGATCGAGATAGCTTCGG
*
77702682 CTATGTATGGCACTTAGTGTGCGAGAT
1 CTATATATGGCACTTAGTGTGCGAGAT
77702709 ATTGAGTATT
Statistics
Matches: 161, Mismatches: 26, Indels: 5
0.84 0.14 0.03
Matches are distributed among these distances:
40 54 0.34
41 106 0.66
42 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (41 bp):
CTATATATGGCACTTAGTGTGCGAGATCGAGATAGCTTCGG
Found at i:77710044 original size:41 final size:41
Alignment explanation
Indices: 77709978--77710197 Score: 228
Period size: 41 Copynumber: 5.4 Consensus size: 41
77709968 AACTATGTGA
* * *
77709978 CACTTAATGTGCGA-TTCGACATAGCTTCGGCTATATATGG
1 CACTTAGTGTGCGAGATCGAGATAGCTTCGGCTATATATGG
* *
77710018 CACTTAGTGTGTGTGATCGAGATAGCTTCGGCTATATATGG
1 CACTTAGTGTGCGAGATCGAGATAGCTTCGGCTATATATGG
* * * * *
77710059 CACCTAGTGTGCAAGATCAAGATAGCTTCGGCTATCTATAG
1 CACTTAGTGTGCGAGATCGAGATAGCTTCGGCTATATATGG
** *
77710100 CACTTAGTGTGCGAGATCGAGATAGCTTCAACTATACATGG
1 CACTTAGTGTGCGAGATCGAGATAGCTTCGGCTATATATGG
* * * * * * ** *
77710141 CACTTAATATGTGA-TTTGAGATAACTTTAGCTATGTATGG
1 CACTTAGTGTGCGAGATCGAGATAGCTTCGGCTATATATGG
77710181 CACTTAGTGTGCGAGAT
1 CACTTAGTGTGCGAGAT
77710198 ATTGATTATT
Statistics
Matches: 144, Mismatches: 34, Indels: 3
0.80 0.19 0.02
Matches are distributed among these distances:
40 41 0.28
41 103 0.72
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (41 bp):
CACTTAGTGTGCGAGATCGAGATAGCTTCGGCTATATATGG
Found at i:77716217 original size:51 final size:51
Alignment explanation
Indices: 77716142--77716385 Score: 206
Period size: 51 Copynumber: 4.9 Consensus size: 51
77716132 AAGATAAGAT
* * * * * *
77716142 TTGTAGCTTCAATCTGCTCAACTGCAATTTCTGAGAGATAAGATTTGTAAC
1 TTGTAGCTTTAATCTGTTCCACTGCAACTTCAGAGAGATAAGATTTGCAAC
* *
77716193 TTGTAGCTTTAATTTGTTCCACTGCAACTTCAGGGAGATAAGATTTGCAAC
1 TTGTAGCTTTAATCTGTTCCACTGCAACTTCAGAGAGATAAGATTTGCAAC
* *
77716244 TTGTAGCTTTAATCTGTTCCACTGCAACTTCA-AGAAAATAAG----G--TC
1 TTGTAGCTTTAATCTGTTCCACTGCAACTTCAGAG-AGATAAGATTTGCAAC
* * *
77716289 -TGTAGCTTCAATCT-TCTCCACTGCAACCTCA-AGGAGATAAGGTTTGTC-A-
1 TTGTAGCTTTAATCTGT-TCCACTGCAACTTCAGA-GAGATAAGATTTG-CAAC
* * * * *
77716338 TGGTAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGC
1 TTGTAGCTTTAATCTGTTCCACTGCAACTTCAGAGAGATAAGATTTGC
77716386 TATGGTGACT
Statistics
Matches: 159, Mismatches: 22, Indels: 26
0.77 0.11 0.13
Matches are distributed among these distances:
43 1 0.01
44 34 0.21
45 2 0.01
47 1 0.01
48 1 0.01
49 1 0.01
50 39 0.25
51 80 0.50
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.33
Consensus pattern (51 bp):
TTGTAGCTTTAATCTGTTCCACTGCAACTTCAGAGAGATAAGATTTGCAAC
Found at i:77716375 original size:50 final size:50
Alignment explanation
Indices: 77716007--77716401 Score: 237
Period size: 44 Copynumber: 8.2 Consensus size: 50
77715997 TTGTAACTTA
* * * * * *
77716007 TAGCTTTAATCTGTTCTACTACAACTTCAGGGAAATAAGACTTG-CTATGG
1 TAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTC-ATGG
* * *
77716057 TAGACTT-AAT-TCGAC-CCACTGCAACTTCAGAGATATAGGATTTGTCAT--
1 TAG-CTTCAATCT-G-CTCCACTGCAACTTCAGGGAGATAAGATTTGTCATGG
* * **
77716105 T---TT-AATATGCTCCACTACAACTTCAGCAAGATAAGA--T-T--T-G
1 TAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTCATGG
* * * * * *
77716145 TAGCTTCAATCTGCTCAACTGCAATTTCTGAGAGATAAGATTTGTAACTTG
1 TAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTCA-TGG
* * * *
77716196 TAGCTTTAATTTGTTCCACTGCAACTTCAGGGAGATAAGATTTG-CAACTTG
1 TAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTC-A-TGG
* * * * *
77716247 TAGCTTTAATCTGTTCCACTGCAACTTCAAGAAAATAAG----GTC-T-G
1 TAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTCATGG
* * * *
77716291 TAGCTTCAATCTTCTCCACTGCAACCTCAAGGAGATAAGGTTTGTCATGG
1 TAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTCATGG
*
77716341 TAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-CTATGG
1 TAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTC-ATGG
77716391 T-GACTTCAATC
1 TAG-CTTCAATC
77716402 CGACCTACTA
Statistics
Matches: 274, Mismatches: 43, Indels: 56
0.73 0.12 0.15
Matches are distributed among these distances:
39 1 0.00
40 1 0.00
41 1 0.00
42 1 0.00
43 3 0.01
44 86 0.31
45 2 0.01
46 1 0.00
47 2 0.01
48 5 0.02
49 3 0.01
50 86 0.31
51 82 0.30
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (50 bp):
TAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTCATGG
Found at i:77719789 original size:96 final size:96
Alignment explanation
Indices: 77719648--77719869 Score: 327
Period size: 96 Copynumber: 2.3 Consensus size: 96
77719638 TACGTGTGCT
* * * *
77719648 AGTGTAAGACCATGTCTAGGACATGGCATTGGCATTGAGACGAGAGCTAGTGTAAGACTATGTCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGACGAGAGCTAGTGTAAGACAATGTCT
**
77719713 AGAACATGGCATCGGCCTCGACATGTGAGCC
66 AGAACATGGCATCAACCTCGACATGTGAGCC
* * ** *
77719744 AGTGTAAGACCATGTCTGGGATATGACATCGACATTGTTATGAGAGCTAGTGTAAGACAATGTCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGACGAGAGCTAGTGTAAGACAATGTCT
* *
77719809 GGGACATGGCATCAACCTCGACATGTGAGCC
66 AGAACATGGCATCAACCTCGACATGTGAGCC
77719840 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
77719870 AACAACTTAA
Statistics
Matches: 111, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
96 111 1.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (96 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGACGAGAGCTAGTGTAAGACAATGTCT
AGAACATGGCATCAACCTCGACATGTGAGCC
Found at i:77719872 original size:48 final size:48
Alignment explanation
Indices: 77719648--77719869 Score: 237
Period size: 48 Copynumber: 4.6 Consensus size: 48
77719638 TACGTGTGCT
* * * * * * *
77719648 AGTGTAAGACCATGTCTAGGACATGGCATTGGCATTGAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACATCGACATGAGAGCC
* * * * * *
77719696 AGTGTAAGACTATGTCTAGAACATGGCATCGGCCTCGACATGTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACATCGACATGAGAGCC
* * * ** *
77719744 AGTGTAAGACCATGTCTGGGATATGACATCGACATTGTTATGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACATCGACATGAGAGCC
* * * *
77719792 AGTGTAAGACAATGTCTGGGACATGGCATCAACCTCGACATGTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACATCGACATGAGAGCC
77719840 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
77719870 AACAACTTAA
Statistics
Matches: 142, Mismatches: 32, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
48 142 1.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACATCGACATGAGAGCC
Found at i:77732159 original size:71 final size:71
Alignment explanation
Indices: 77732075--77732221 Score: 188
Period size: 71 Copynumber: 2.1 Consensus size: 71
77732065 CCTCAAAAAT
* * * ** *
77732075 AATTTCCTTAAGACTTGTATATGCTCTTCTTCTATTTAG-GATTTTGTGATCATATCATTAACAT
1 AATTTCCTCAAGACTTGTATACGCTCTTCTTCT-GTTAGAGATTTTACGATCATATCATCAACAT
77732139 AAACCTC
65 AAACCTC
* * *
77732146 AATTTCCTCAAGACTTGTATACGTTCTTCTTCTGTTCGAGATTTTACGATCATATCATCGACATA
1 AATTTCCTCAAGACTTGTATACGCTCTTCTTCTGTTAGAGATTTTACGATCATATCATCAACATA
77732211 AACCTC
66 AACCTC
*
77732217 GATTT
1 AATTT
77732222 TCTTGTGCAT
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
70 3 0.05
71 62 0.95
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (71 bp):
AATTTCCTCAAGACTTGTATACGCTCTTCTTCTGTTAGAGATTTTACGATCATATCATCAACATA
AACCTC
Found at i:77740094 original size:15 final size:17
Alignment explanation
Indices: 77740064--77740095 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
77740054 TTGATATTTG
77740064 TGAATGTGAGTTTGGTA
1 TGAATGTGAGTTTGGTA
77740081 TGAAT-TGA-TTTGGTA
1 TGAATGTGAGTTTGGTA
77740096 AATTATGCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (17 bp):
TGAATGTGAGTTTGGTA
Found at i:77761947 original size:48 final size:48
Alignment explanation
Indices: 77761862--77762075 Score: 173
Period size: 48 Copynumber: 4.5 Consensus size: 48
77761852 ATAGCCCAGC
* * * * * *
77761862 TATGGTCTTACAC-GAAGTCTCATAACGGTGTCGATGCCATGTCCTAGA
1 TATGGTCTTATACGGGA-TCTCATATCGATGCCGATGCCATATCCTAGA
* * * *
77761910 CT-TGGTCTTATACGAGACCTCATATCGATGCCAATGCCATATCCCAGA
1 -TATGGTCTTATACGGGATCTCATATCGATGCCGATGCCATATCCTAGA
* * * * * *
77761958 TATGATCTTACATGGGATCTCATA-CTGATACCGATGCCATGTCCTAAA
1 TATGGTCTTATACGGGATCTCATATC-GATGCCGATGCCATATCCTAGA
* * * * *
77762006 TGTTGTCGTATACGGGATCTCTTATCGATGCCGATGTCATATCCTAGA
1 TATGGTCTTATACGGGATCTCATATCGATGCCGATGCCATATCCTAGA
* *
77762054 TATGGTCTTACACAGGATCTCA
1 TATGGTCTTATACGGGATCTCA
77762076 ACACACACAT
Statistics
Matches: 124, Mismatches: 37, Indels: 9
0.73 0.22 0.05
Matches are distributed among these distances:
47 2 0.02
48 119 0.96
49 3 0.02
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.31
Consensus pattern (48 bp):
TATGGTCTTATACGGGATCTCATATCGATGCCGATGCCATATCCTAGA
Found at i:77761995 original size:96 final size:96
Alignment explanation
Indices: 77761893--77762075 Score: 242
Period size: 96 Copynumber: 1.9 Consensus size: 96
77761883 ATAACGGTGT
* *
77761893 CGATGCCATGTCCTAGACT-TGGTCTTATACGAGACCTCATATCGATGCCAATGCCATATCCCAG
1 CGATGCCATGTCCTA-AATGTGGTCGTATACGAGACCTCATATCGATGCCAATGCCATATCCCAG
**
77761957 ATATGATCTTACATGGGATCTCATACTGATAC
65 ATATGATCTTACACAGGATCTCATACTGATAC
* * * * * * *
77761989 CGATGCCATGTCCTAAATGTTGTCGTATACGGGATCTCTTATCGATGCCGATGTCATATCCTAGA
1 CGATGCCATGTCCTAAATGTGGTCGTATACGAGACCTCATATCGATGCCAATGCCATATCCCAGA
*
77762054 TATGGTCTTACACAGGATCTCA
66 TATGATCTTACACAGGATCTCA
77762076 ACACACACAT
Statistics
Matches: 74, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
95 2 0.03
96 72 0.97
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.31
Consensus pattern (96 bp):
CGATGCCATGTCCTAAATGTGGTCGTATACGAGACCTCATATCGATGCCAATGCCATATCCCAGA
TATGATCTTACACAGGATCTCATACTGATAC
Found at i:77770109 original size:44 final size:43
Alignment explanation
Indices: 77770026--77770130 Score: 97
Period size: 44 Copynumber: 2.4 Consensus size: 43
77770016 GATTCCGTTA
** * *
77770026 TCTAATTTCGTGTAAGACCACGTCTGGGATGTTGGCATCGACT
1 TCTAATTTCGTGTAAGACCACGTCTGGGACATCGACATCGACT
* * *
77770069 TCTATTTTACGTGTAAGACCATGTCTGGTACATCGACATCG--T
1 TCTAATTT-CGTGTAAGACCACGTCTGGGACATCGACATCGACT
* *
77770111 ATCTGATTTTGTGTAAGACC
1 -TCTAATTTCGTGTAAGACC
77770131 CTACCTGGGA
Statistics
Matches: 50, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
42 11 0.22
43 13 0.26
44 26 0.52
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (43 bp):
TCTAATTTCGTGTAAGACCACGTCTGGGACATCGACATCGACT
Found at i:77773064 original size:40 final size:40
Alignment explanation
Indices: 77773009--77773183 Score: 305
Period size: 40 Copynumber: 4.4 Consensus size: 40
77772999 TATGTGCATA
** *
77773009 GCATTCGTATGGGTTATTATAACCAGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
77773049 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
*
77773089 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCTCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
77773129 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
*
77773169 GCATTCGTGCTGGTT
1 GCATTCGTGCGGGTT
77773184 GTTACATCCG
Statistics
Matches: 129, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 129 1.00
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (40 bp):
GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
Found at i:77785048 original size:24 final size:26
Alignment explanation
Indices: 77785008--77785114 Score: 143
Period size: 26 Copynumber: 4.3 Consensus size: 26
77784998 CTGGAGGCCT
77785008 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
* *
77785032 AGCCCTTTT-GATAAACTAGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
77785056 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
*
77785082 AGCCCTTTTCAATAAACTGAGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
77785108 AGCCCTT
1 AGCCCTT
77785115 ATGCACTTCC
Statistics
Matches: 75, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
23 7 0.09
24 23 0.31
25 12 0.16
26 33 0.44
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:77785191 original size:20 final size:20
Alignment explanation
Indices: 77785166--77785222 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
77785156 TTATGATTAC
*
77785166 ATCATGTGCATTTCATA-CA
1 ATCATGTGCATATCATATCA
77785185 TATCATGTGCATATCATATCA
1 -ATCATGTGCATATCATATCA
77785206 ATCATGT--ATATCATATC
1 ATCATGTGCATATCATATC
77785223 CTACATATCA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
18 10 0.29
20 23 0.66
21 2 0.06
ACGTcount: A:0.33, C:0.19, G:0.09, T:0.39
Consensus pattern (20 bp):
ATCATGTGCATATCATATCA
Found at i:77787036 original size:49 final size:48
Alignment explanation
Indices: 77786959--77787277 Score: 249
Period size: 49 Copynumber: 6.6 Consensus size: 48
77786949 TGTGTGTGCT
* *
77786959 AGTGTAAAACCTGTCTGGGACATGGCATCGGCACCGATAAATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGC-CAGATAAATGAGAGCC
* * * * * *
77787008 AGTGTAAGACCTATCTAGGACATAGCATCGGCCTAGAGATATGCA-AGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCC-AGATAAATG-AGAGCC
* ** * * *
77787057 AGTGTAAGACCTGTCTGGGACATAGCATCGGCTTG--AGAT--GTGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCCAGATAAATGAGAGCC
* * * *
77787101 AGTGTAAGACCTGTCTGGGACATGGCATTGACAGAGATAAGTGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGC-CAGATAAATGAGAGCC
* * ** *
77787150 AGTGTAAAACCTGTCTGGGACATGGCATCGGCCTCGATGTATG-GAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCC-AGATAAATGAG-AGCC
* * * *
77787199 AGTGTAAGACCTGTCTAGGACATGGCATCGACTTAGAT--GTGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGC-CAGATAAATGAGAGCC
* *
77787246 AGTGTAAGACCATGTTTGGAACATGGCATCGG
1 AGTGTAAGACC-TGTCTGGGACATGGCATCGG
77787278 TATCGTATCC
Statistics
Matches: 212, Mismatches: 45, Indels: 27
0.75 0.16 0.10
Matches are distributed among these distances:
44 30 0.14
45 1 0.00
46 3 0.01
47 18 0.08
48 20 0.09
49 139 0.66
50 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGGCCAGATAAATGAGAGCC
Found at i:77787220 original size:142 final size:141
Alignment explanation
Indices: 77786959--77787239 Score: 386
Period size: 142 Copynumber: 2.0 Consensus size: 141
77786949 TGTGTGTGCT
* * *
77786959 AGTGTAAAACCTGTCTGGGACATGGCATCGGCACCGATAAATGAGAGCCAGTGTAAGACCTATCT
1 AGTGTAAAACCTGTCTGGGACATGGCATCGACACAGATAAATGAGAGCCAGTGTAAAACCTATCT
* *
77787024 AGGACATAGCATCGGCCTAGAGATATGCAAGCTAGTGTAAGACCTGTCTGGGACATAGCATCGGC
66 AGGACATAGCATCGGCCTAGAGATATGCAAGCTAGTGTAAGACCTGTCTAGGACATAGCATCGAC
77787089 TTGAGATGTGTC
131 TT-AGATGTGTC
* * * * *
77787101 AGTGTAAGACCTGTCTGGGACATGGCATTGACAGAGATAAGTGAGAGCCAGTGTAAAACCTGTCT
1 AGTGTAAAACCTGTCTGGGACATGGCATCGACACAGATAAATGAGAGCCAGTGTAAAACCTATCT
* * * * *
77787166 GGGACATGGCATCGGCCTCGATG-TATGGAAG-TCAGTGTAAGACCTGTCTAGGACATGGCATCG
66 AGGACATAGCATCGGCCTAGA-GATATGCAAGCT-AGTGTAAGACCTGTCTAGGACATAGCATCG
77787229 ACTTAGATGTG
129 ACTTAGATGTG
77787240 AGAGCCAGTG
Statistics
Matches: 122, Mismatches: 15, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
141 8 0.07
142 113 0.93
143 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (141 bp):
AGTGTAAAACCTGTCTGGGACATGGCATCGACACAGATAAATGAGAGCCAGTGTAAAACCTATCT
AGGACATAGCATCGGCCTAGAGATATGCAAGCTAGTGTAAGACCTGTCTAGGACATAGCATCGAC
TTAGATGTGTC
Found at i:77790609 original size:30 final size:30
Alignment explanation
Indices: 77790573--77790630 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
77790563 ATTCCTATTA
77790573 AGTATATTTGATATCAAGTGTTTATGCCAT
1 AGTATATTTGATATCAAGTGTTTATGCCAT
77790603 AGTATATTTGATATCAAGTGTTTATGCC
1 AGTATATTTGATATCAAGTGTTTATGCC
77790631 TTACTATAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.43
Consensus pattern (30 bp):
AGTATATTTGATATCAAGTGTTTATGCCAT
Found at i:77791875 original size:19 final size:18
Alignment explanation
Indices: 77791838--77791876 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
77791828 TTAAAAACAT
**
77791838 AAAAATAAAAATATTTTC
1 AAAAATAAAAATAGATTC
77791856 AAAAATAAAAAATAGATTC
1 AAAAAT-AAAAATAGATTC
77791875 AA
1 AA
77791877 TCGGTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.67, C:0.05, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAATAAAAATAGATTC
Found at i:77808651 original size:35 final size:35
Alignment explanation
Indices: 77808607--77808694 Score: 104
Period size: 35 Copynumber: 2.5 Consensus size: 35
77808597 TGTGATGATG
* **
77808607 TATTGAACTTGTATATTTGGGCACATATGATGTTA
1 TATTGAACTTGTATATTCGAACACATATGATGTTA
* * * * *
77808642 TATTAAACTTGAATATTCGAATACATGTGATGTTT
1 TATTGAACTTGTATATTCGAACACATATGATGTTA
77808677 TATTGAACTTGTATATTC
1 TATTGAACTTGTATATTC
77808695 AGTCATACAT
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.44
Consensus pattern (35 bp):
TATTGAACTTGTATATTCGAACACATATGATGTTA
Found at i:77808708 original size:35 final size:33
Alignment explanation
Indices: 77808607--77808730 Score: 97
Period size: 35 Copynumber: 3.6 Consensus size: 33
77808597 TGTGATGATG
* * *
77808607 TATTGAACTTGTATATTTGGGCACATATGATGTTA
1 TATTGAACTTGTATA-TT-CGCATACATGATGTTA
* * * *
77808642 TATTAAACTTGAATATTCGAATACATGTGATGTTT
1 TATTGAACTTGTATATTCGCATACA--TGATGTTA
*
77808677 TATTGAACTTGTATATTCAGTCATACATGATGATA
1 TATTGAACTTGTATATTC-G-CATACATGATGTTA
*
77808712 GATT-ATACTTGTATATTCG
1 TATTGA-ACTTGTATATTCG
77808731 GCCATATGTG
Statistics
Matches: 71, Mismatches: 13, Indels: 11
0.75 0.14 0.12
Matches are distributed among these distances:
33 4 0.06
34 4 0.06
35 57 0.80
36 1 0.01
37 5 0.07
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.43
Consensus pattern (33 bp):
TATTGAACTTGTATATTCGCATACATGATGTTA
Found at i:77808740 original size:70 final size:70
Alignment explanation
Indices: 77808592--77808754 Score: 173
Period size: 70 Copynumber: 2.3 Consensus size: 70
77808582 ATAGGTATGT
** * * *
77808592 ACATATGTGATGATGTATTGAACTTGTATATTTGGGCACATATGATGTTATATTAAACTTGAATA
1 ACATATGTGATGATGTATTGAACTTGTATATTCAGGCACACATGATGATAGATTAAACTTGAATA
77808657 TTCGA
66 TTCGA
* * * * * * * *
77808662 ATACATGTGATGTTTTATTGAACTTGTATATTCAGTCATACATGATGATAGATTATACTTGTATA
1 ACATATGTGATGATGTATTGAACTTGTATATTCAGGCACACATGATGATAGATTAAACTTGAATA
*
77808727 TTCGG
66 TTCGA
* * *
77808732 CCATATGTGATGATATAATGAAC
1 ACATATGTGATGATGTATTGAAC
77808755 CATGTGTATT
Statistics
Matches: 73, Mismatches: 20, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
70 73 1.00
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.40
Consensus pattern (70 bp):
ACATATGTGATGATGTATTGAACTTGTATATTCAGGCACACATGATGATAGATTAAACTTGAATA
TTCGA
Found at i:77816355 original size:38 final size:35
Alignment explanation
Indices: 77816209--77816384 Score: 122
Period size: 35 Copynumber: 5.0 Consensus size: 35
77816199 TGTACATATG
* * * * **
77816209 TGATGATGTATTGAACTTGTATGTTTGGCCACATG
1 TGATGATATATTGAACTTGTATATTCGGCCATACA
* * * * *
77816244 TGATGTTATATTAAACTTGAATAATC-G-AATACATA
1 TGATGATATATTGAACTTGTATATTCGGCCATAC--A
* * *
77816279 TGATGTTTTATTGAACTTGTATATTCGGTCATACA
1 TGATGATATATTGAACTTGTATATTCGGCCATACA
* **
77816314 TGATGATATATTGTACTTGTATATTCGGCCATATG
1 TGATGATATATTGAACTTGTATATTCGGCCATACA
* * * *
77816349 TGATGATATAATGAACCATGTGTATTTGGCCATACA
1 TGATGATATATTGAA-CTTGTATATTCGGCCATACA
77816385 AGTAAGTAAT
Statistics
Matches: 107, Mismatches: 29, Indels: 9
0.74 0.20 0.06
Matches are distributed among these distances:
33 2 0.02
34 1 0.01
35 84 0.79
36 16 0.15
37 4 0.04
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.40
Consensus pattern (35 bp):
TGATGATATATTGAACTTGTATATTCGGCCATACA
Found at i:77823222 original size:4 final size:4
Alignment explanation
Indices: 77823215--77823240 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
77823205 TTTTCAAACT
77823215 TTAA TTAA TTAA TTAA TTAA TTAA TT
1 TTAA TTAA TTAA TTAA TTAA TTAA TT
77823241 GATTCTCAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (4 bp):
TTAA
Found at i:77827826 original size:21 final size:21
Alignment explanation
Indices: 77827787--77827841 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 21
77827777 AGAGCCTAGA
* * *
77827787 CTGTGTGGCTCT-AGACATGG
1 CTGTGTGGCTATCCGACATGC
77827807 CTGTGTGGCTATCCGACATGC
1 CTGTGTGGCTATCCGACATGC
* *
77827828 CCGTGCGGCTATCC
1 CTGTGTGGCTATCC
77827842 CACACGCTCA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 11 0.38
21 18 0.62
ACGTcount: A:0.13, C:0.29, G:0.31, T:0.27
Consensus pattern (21 bp):
CTGTGTGGCTATCCGACATGC
Found at i:77827858 original size:21 final size:21
Alignment explanation
Indices: 77827810--77827868 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
77827800 GACATGGCTG
* * *
77827810 TGTGGCTATCCGACATGCCCG
1 TGTGGCTATCCCACACGCCCA
* *
77827831 TGCGGCTATCCCACACGCTCA
1 TGTGGCTATCCCACACGCCCA
*
77827852 TGTGGCTATTCCACACG
1 TGTGGCTATCCCACACG
77827869 TCTGAGTGCT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.17, C:0.36, G:0.24, T:0.24
Consensus pattern (21 bp):
TGTGGCTATCCCACACGCCCA
Found at i:77828271 original size:37 final size:33
Alignment explanation
Indices: 77828200--77828267 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
77828190 TAATTCATAT
*
77828200 CACATGGTACCTATAATCTTTCTTTCTTCAAAA
1 CACATGGTACCTATAATCTTTCTTTCTTAAAAA
77828233 CACATGGTACCTATAATCTTTCTTTCTTAAAAA
1 CACATGGTACCTATAATCTTTCTTTCTTAAAAA
77828266 CA
1 CA
77828268 AACATGTAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.32, C:0.24, G:0.06, T:0.38
Consensus pattern (33 bp):
CACATGGTACCTATAATCTTTCTTTCTTAAAAA
Found at i:77829510 original size:26 final size:27
Alignment explanation
Indices: 77829448--77829597 Score: 169
Period size: 27 Copynumber: 5.6 Consensus size: 27
77829438 ATATTGAGTC
* *
77829448 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
77829475 CGCACACTTAGTGCTACGTAATCAA-T
1 CGCACACTTAGTGCTACATAATCAACT
77829501 CGCACACTTAGTGCTACATAATCAATCT
1 CGCACACTTAGTGCTACATAATCAA-CT
* ** *
77829529 CGCACACTTAGTGCCACATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
** **
77829556 CGCACACTTAGTGC-ATCATTTTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
77829583 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
77829598 GTACAATTTA
Statistics
Matches: 108, Mismatches: 11, Indels: 7
0.86 0.09 0.06
Matches are distributed among these distances:
26 26 0.24
27 59 0.55
28 23 0.21
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:77834084 original size:42 final size:42
Alignment explanation
Indices: 77834019--77834098 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
77834009 GCCACAACGC
* *
77834019 TGTGTACCCCAGTTACACAGGCGTGTCCCTTTGCCACATGAT
1 TGTGTACCCCAGTCACACAGGCGTGTCCCTTAGCCACATGAT
* * * *
77834061 TGTGTATCTCAGTCACACGGGCGTGTCTCTTAGCCACA
1 TGTGTACCCCAGTCACACAGGCGTGTCCCTTAGCCACA
77834099 CATTCGTGTA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.19, C:0.30, G:0.23, T:0.29
Consensus pattern (42 bp):
TGTGTACCCCAGTCACACAGGCGTGTCCCTTAGCCACATGAT
Found at i:77834108 original size:42 final size:42
Alignment explanation
Indices: 77834019--77834109 Score: 103
Period size: 42 Copynumber: 2.2 Consensus size: 42
77834009 GCCACAACGC
* * * * *
77834019 TGTGTACCCCAGTTACACAGGCGTGTCCCTTTGCCACATGAT
1 TGTGTATCTCAGTCACACAGGCGTGTCCCTTAGCCACATCAT
* *
77834061 TGTGTATCTCAGTCACACGGGCGTGTCTCTTAGCCACA-CAT
1 TGTGTATCTCAGTCACACAGGCGTGTCCCTTAGCCACATCAT
77834102 TCGTGTAT
1 T-GTGTAT
77834110 TCCTATCACA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
41 3 0.07
42 38 0.93
ACGTcount: A:0.19, C:0.29, G:0.22, T:0.31
Consensus pattern (42 bp):
TGTGTATCTCAGTCACACAGGCGTGTCCCTTAGCCACATCAT
Found at i:77852665 original size:25 final size:23
Alignment explanation
Indices: 77852608--77852665 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 23
77852598 ATGAAACAAC
*
77852608 AAAAAAAATCTAATCTAAAAAAA
1 AAAAAAAATCAAATCTAAAAAAA
*
77852631 AGAGAGAAAATCAAATCTAAAAATGAA
1 A-A-AAAAAATCAAATCTAAAAA--AA
77852658 AAAAAAAA
1 AAAAAAAA
77852666 AGAAACCCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
23 1 0.04
24 1 0.04
25 22 0.79
26 1 0.04
27 3 0.11
ACGTcount: A:0.72, C:0.07, G:0.07, T:0.14
Consensus pattern (23 bp):
AAAAAAAATCAAATCTAAAAAAA
Found at i:77858290 original size:46 final size:46
Alignment explanation
Indices: 77858237--77858409 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
77858227 TGGTTGAGCA
77858237 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
77858283 TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
77858328 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
77858376 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
77858410 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 59 0.57
47 27 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:77858393 original size:93 final size:93
Alignment explanation
Indices: 77858234--77858404 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
77858224 GGATGGTTGA
* *
77858234 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
77858299 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
77858327 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
77858392 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
77858405 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:77861558 original size:66 final size:64
Alignment explanation
Indices: 77861483--77861606 Score: 144
Period size: 65 Copynumber: 1.9 Consensus size: 64
77861473 GTGCCTAGGT
* *
77861483 GTGTCAAAA-TAGGGCATACATACTGACTT-GTCCACACGGCCACATGACACGCCCATGTGCCGG
1 GTGTCAAAATTAGGG-AGAC-TACTGACTTGGT-CACACGGCCA-ATCACACGCCCATGTGCCGG
77861546 GCC
62 GCC
* * *
77861549 GTGTGAAAATTAGGGAGGCTACTGACTTGGGTCACACGGCCAGTCACACGCCCATGTG
1 GTGTCAAAATTAGGGAGACTACTGACTT-GGTCACACGGCCAATCACACGCCCATGTG
77861607 TCTAGCCCGT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
65 23 0.46
66 20 0.40
67 7 0.14
ACGTcount: A:0.25, C:0.28, G:0.27, T:0.19
Consensus pattern (64 bp):
GTGTCAAAATTAGGGAGACTACTGACTTGGTCACACGGCCAATCACACGCCCATGTGCCGGGCC
Found at i:77862853 original size:44 final size:44
Alignment explanation
Indices: 77862799--77862917 Score: 141
Period size: 44 Copynumber: 2.7 Consensus size: 44
77862789 AAATACGATG
* * *
77862799 CCAACATCCCAGACGTTGTCTTCCACATAAATCATAAG-TCAATC
1 CCAACGTCCCAGACGTGGTCTTACACATAAATCATAAGCT-AATC
* * * *
77862843 CCAACGTCCCAGATGTGGTCTTACACGTAAATCATAAGCTGATG
1 CCAACGTCCCAGACGTGGTCTTACACATAAATCATAAGCTAATC
*
77862887 CCAACGTCCCAAACGTGGTCTTACACGATAA
1 CCAACGTCCCAGACGTGGTCTTACAC-ATAA
77862918 CACATATCGG
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
44 59 0.94
45 4 0.06
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.24
Consensus pattern (44 bp):
CCAACGTCCCAGACGTGGTCTTACACATAAATCATAAGCTAATC
Found at i:77864662 original size:29 final size:27
Alignment explanation
Indices: 77864644--77864713 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
77864634 ATATTAAGTC
77864644 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
77864671 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
77864699 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
77864714 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 (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:77864707 original size:28 final size:28
Alignment explanation
Indices: 77864644--77864741 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
77864634 ATATTAAGTC
*
77864644 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
77864671 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
77864699 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
77864728 CGCACACTTAGTGC
1 CGCACACTTAGTGC
77864742 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:77871874 original size:29 final size:27
Alignment explanation
Indices: 77871856--77871925 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
77871846 ATATTAAGTC
77871856 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
77871883 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
77871911 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
77871926 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 (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:77871919 original size:28 final size:28
Alignment explanation
Indices: 77871856--77871953 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
77871846 ATATTAAGTC
*
77871856 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
77871883 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
77871911 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
77871940 CGCACACTTAGTGC
1 CGCACACTTAGTGC
77871954 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:77878110 original size:42 final size:43
Alignment explanation
Indices: 77878020--77878114 Score: 104
Period size: 42 Copynumber: 2.2 Consensus size: 43
77878010 CTCTCAGAAG
* * * * *
77878020 TGGTCTTACATGTAAATAAATATCAATGCCAACGTCGCAGATA
1 TGGTCTTACATGAAAAAAAATATCAATGCCAACATCCCAAATA
* *
77878063 GGGTCTTACATGAAAAAAAATA-CGATGCCAACATCCCAAACT-
1 TGGTCTTACATGAAAAAAAATATCAATGCCAACATCCCAAA-TA
77878105 TGGTCTTACA
1 TGGTCTTACA
77878115 AGGTAACACA
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
42 23 0.53
43 20 0.47
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (43 bp):
TGGTCTTACATGAAAAAAAATATCAATGCCAACATCCCAAATA
Found at i:77882806 original size:40 final size:40
Alignment explanation
Indices: 77882739--77882910 Score: 224
Period size: 40 Copynumber: 4.3 Consensus size: 40
77882729 ACCCAAGTAT
*
77882739 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
77882778 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * * *
77882818 CTTCGGGTCTTAGCTCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * *
77882858 CTTCGGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
*
77882898 CTTCGGATCTTAG
1 CTTCGGGTCTTAG
77882911 TCCGATTATC
Statistics
Matches: 114, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 13 0.11
40 98 0.86
41 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:77882872 original size:80 final size:79
Alignment explanation
Indices: 77882739--77882910 Score: 249
Period size: 80 Copynumber: 2.2 Consensus size: 79
77882729 ACCCAAGTAT
* * *
77882739 CTTCGGGAT-TTAGCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGC
1 CTTCGGG-TCTTAGCCGGATATAACAACTAGCACAAATGCCTTCGGGACATAGCCCGGATATAGC
77882803 AACTCGCACAAATGC
65 AACTCGCACAAATGC
*
77882818 CTTCGGGTCTTAGCTCGGATATAATC-ACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAG
1 CTTCGGGTCTTAGC-CGGATATAA-CAACTAGCACAAATGCCTTCGGGACATAGCCCGGATATAG
*
77882882 CAACTCGCACGAATGC
64 CAACTCGCACAAATGC
*
77882898 CTTCGGATCTTAG
1 CTTCGGGTCTTAG
77882911 TCCGATTATC
Statistics
Matches: 84, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
78 1 0.01
79 12 0.14
80 70 0.83
81 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (79 bp):
CTTCGGGTCTTAGCCGGATATAACAACTAGCACAAATGCCTTCGGGACATAGCCCGGATATAGCA
ACTCGCACAAATGC
Found at i:77891492 original size:11 final size:11
Alignment explanation
Indices: 77891476--77891500 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
77891466 GATATCCTCT
77891476 CATTGGCATTA
1 CATTGGCATTA
77891487 CATTGGCATTA
1 CATTGGCATTA
77891498 CAT
1 CAT
77891501 GGTTGATGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.36
Consensus pattern (11 bp):
CATTGGCATTA
Found at i:77893866 original size:44 final size:41
Alignment explanation
Indices: 77893724--77893879 Score: 149
Period size: 43 Copynumber: 3.7 Consensus size: 41
77893714 AGCTCGTACA
*
77893724 ATGCCAACGTCCCAGAC--GTCTTACATGAAATCAAATATCG
1 ATGCCAACGTCCCAGACGGGTCTTACACGAAATCAAAT-TCG
*
77893764 ATGCC-ACTGTCCCAGACAGGGTCTTACACAAAAATC-AATTACG
1 ATGCCAAC-GTCCCAGAC-GGGTCTTACAC-GAAATCAAATT-CG
* * *
77893807 ATGCCAACATCCCAGACGTTGTCTTACACGTAAATCATAATTTG
1 ATGCCAACGTCCCAGACG-GGTCTTACACG-AAATCA-AATTCG
*
77893851 ATGCCAACGTCCCAGACATGGTCTTACAC
1 ATGCCAACGTCCCAGAC-GGGTCTTACAC
77893880 AATAACACAT
Statistics
Matches: 95, Mismatches: 9, Indels: 20
0.77 0.07 0.16
Matches are distributed among these distances:
39 2 0.02
40 14 0.15
42 2 0.02
43 40 0.42
44 33 0.35
45 4 0.04
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.24
Consensus pattern (41 bp):
ATGCCAACGTCCCAGACGGGTCTTACACGAAATCAAATTCG
Found at i:77893866 original size:87 final size:83
Alignment explanation
Indices: 77893724--77893881 Score: 212
Period size: 87 Copynumber: 1.9 Consensus size: 83
77893714 AGCTCGTACA
* *
77893724 ATGCCAACGTCCCAGACGTCTTACATGAAATCAAATATCGATGCCACTGTCCCAGACAGGGTCTT
1 ATGCCAACATCCCAGACGTCTTACACGAAATCAAATATCGATGCCACTGTCCCAGACAGGGTCTT
77893789 ACACAAAAATCAATTACG
66 ACACAAAAATCAATTACG
* *
77893807 ATGCCAACATCCCAGACGTTGTCTTACACGTAAATCATAAT-TTGATGCCAAC-GTCCCAGACAT
1 ATGCCAACATCCCAGAC---GTCTTACACG-AAATCA-AATATCGATGCC-ACTGTCCCAGACAG
77893870 GGTCTTACACAA
60 GGTCTTACACAA
77893882 TAACACATAT
Statistics
Matches: 65, Mismatches: 4, Indels: 8
0.84 0.05 0.10
Matches are distributed among these distances:
83 16 0.25
86 9 0.14
87 35 0.54
88 5 0.08
ACGTcount: A:0.34, C:0.28, G:0.15, T:0.23
Consensus pattern (83 bp):
ATGCCAACATCCCAGACGTCTTACACGAAATCAAATATCGATGCCACTGTCCCAGACAGGGTCTT
ACACAAAAATCAATTACG
Found at i:77902916 original size:39 final size:39
Alignment explanation
Indices: 77902871--77903094 Score: 331
Period size: 39 Copynumber: 5.7 Consensus size: 39
77902861 TGTGTGAGAT
* *
77902871 TTATATCCAGGCTAAGTCCCAAAGGCATTCGTGCTGATA
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGATA
*
77902910 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGATA
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGATA
* * *
77902949 TTATATCCGGGTTAAGTTCCGAAGGCATTCGTGCTGGTA
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGATA
77902988 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGATA
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGATA
* * * * * *
77903027 TTATTTTCTGGCTAAGTCCCGTAGGCATTCATGCTGATG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGATA
*
77903066 TTATATCCGGGCTAAGTTCCGAAGGCATT
1 TTATATCCGGGCTAAGTCCCGAAGGCATT
77903095 TAGGTTGGAA
Statistics
Matches: 166, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 166 1.00
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.32
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGATA
Done.