Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006235.1 Hibiscus syriacus cultivar Beakdansim tig00014862_pilon, whole genome shotgun sequence
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: 996025
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 5
Found at i:619314 original size:14 final size:14
Alignment explanation
Indices: 619295--619623 Score: 160
Period size: 14 Copynumber: 24.2 Consensus size: 14
619285 AAGTATTATT
619295 AATCATTAAAATTA
1 AATCATTAAAATTA
619309 AATCATTAAAATTA
1 AATCATTAAAATTA
* * **
619323 AGTAATTATTATTA
1 AATCATTAAAATTA
*
619337 AATTATTAAAATTA
1 AATCATTAAAATTA
*
619351 AATCATT-AAAGT-
1 AATCATTAAAATTA
*
619363 AATTATTATTAAATCATA
1 AATCATTA--AAAT--TA
619381 AATCATT-AAATCATA
1 AATCATTAAAAT--TA
* **
619396 AAGTAATTATTA-TA
1 AA-TCATTAAAATTA
*
619410 AATCATTAAAGTTA
1 AATCATTAAAATTA
619424 AATCATTAAATCATTA
1 AATCATTAAA--ATTA
*
619440 AA--GTTAAATCATTA
1 AATCATTAAA--ATTA
619454 AATCATTAAAATTA
1 AATCATTAAAATTA
*
619468 AATCATT-AAAGT-
1 AATCATTAAAATTA
*
619480 AATTATT---ATTA
1 AATCATTAAAATTA
*
619491 AATCACTAAAATTA
1 AATCATTAAAATTA
*
619505 AATCATT-AAAGT-
1 AATCATTAAAATTA
*
619517 AATTATT---ATTA
1 AATCATTAAAATTA
*
619528 AATCATTAAAGTTA
1 AATCATTAAAATTA
*
619542 AATCATT-AAAGT-
1 AATCATTAAAATTA
*
619554 AATTATT---ATTA
1 AATCATTAAAATTA
*
619565 AATCATTAAAGTTA
1 AATCATTAAAATTA
* * **
619579 ATTAATTATTATTA
1 AATCATTAAAATTA
*
619593 AATCATTAAAGTTA
1 AATCATTAAAATTA
* *
619607 AATAATTAAATTTA
1 AATCATTAAAATTA
619621 AAT
1 AAT
619624 AATAATTATT
Statistics
Matches: 238, Mismatches: 52, Indels: 50
0.70 0.15 0.15
Matches are distributed among these distances:
10 6 0.03
11 17 0.07
12 24 0.10
13 20 0.08
14 136 0.57
15 13 0.05
16 14 0.06
17 2 0.01
18 6 0.03
ACGTcount: A:0.51, C:0.06, G:0.03, T:0.40
Consensus pattern (14 bp):
AATCATTAAAATTA
Found at i:619350 original size:9 final size:8
Alignment explanation
Indices: 619330--619637 Score: 66
Period size: 8 Copynumber: 41.2 Consensus size: 8
619320 TTAAGTAATT
619330 ATTATTAA
1 ATTATTAA
619338 ATTATTAA
1 ATTATTAA
619346 A--ATTAA
1 ATTATTAA
*
619352 ATCATTAA
1 ATTATTAA
*
619360 AGTAATT--
1 A-TTATTAA
619367 ATTATTAA
1 ATTATTAA
*
619375 ATCA-TAA
1 ATTATTAA
*
619382 ATCATTAA
1 ATTATTAA
*
619390 ATCA-TAA
1 ATTATTAA
*
619397 AGTAATT--
1 A-TTATTAA
619404 ATTA-TAA
1 ATTATTAA
*
619411 ATCATTAA
1 ATTATTAA
*
619419 A--GTTAA
1 ATTATTAA
*
619425 ATCATTAA
1 ATTATTAA
*
619433 ATCATTAA
1 ATTATTAA
*
619441 A--GTTAA
1 ATTATTAA
*
619447 ATCATTAA
1 ATTATTAA
*
619455 ATCATTAA
1 ATTATTAA
619463 A--ATTAA
1 ATTATTAA
*
619469 ATCATTAA
1 ATTATTAA
*
619477 AGTAATT--
1 A-TTATTAA
619484 ATTATTAA
1 ATTATTAA
* *
619492 ATCACTAA
1 ATTATTAA
619500 A--ATTAA
1 ATTATTAA
*
619506 ATCATTAA
1 ATTATTAA
*
619514 AGTAATT--
1 A-TTATTAA
619521 ATTATTAA
1 ATTATTAA
*
619529 ATCATTAA
1 ATTATTAA
*
619537 A--GTTAA
1 ATTATTAA
*
619543 ATCATTAA
1 ATTATTAA
*
619551 AGTAATT--
1 A-TTATTAA
619558 ATTATTAA
1 ATTATTAA
*
619566 ATCATTAA
1 ATTATTAA
619574 AGTTAATTAA
1 A-TT-ATTAA
619584 TTATTATTAA
1 --ATTATTAA
*
619594 ATCATTAA
1 ATTATTAA
*
619602 A--GTTAA
1 ATTATTAA
*
619608 ATAATTAA
1 ATTATTAA
619616 A-T-TTAA
1 ATTATTAA
*
619622 A-TAAT-A
1 ATTATTAA
619628 ATTATTAA
1 ATTATTAA
619636 AT
1 AT
619638 ATGTACTCGA
Statistics
Matches: 231, Mismatches: 30, Indels: 78
0.68 0.09 0.23
Matches are distributed among these distances:
5 1 0.00
6 63 0.27
7 23 0.10
8 113 0.49
9 18 0.08
10 10 0.04
11 2 0.01
12 1 0.00
ACGTcount: A:0.51, C:0.06, G:0.03, T:0.40
Consensus pattern (8 bp):
ATTATTAA
Found at i:619372 original size:37 final size:37
Alignment explanation
Indices: 619322--619579 Score: 351
Period size: 37 Copynumber: 6.8 Consensus size: 37
619312 CATTAAAATT
*
619322 AAGTAATTATTATTAAATTATTAAAATTAAATCATTA
1 AAGTAATTATTATTAAATCATTAAAATTAAATCATTA
619359 AAGTAATTATTATTAAATCA-TAAATCATTAAATCA-TA
1 AAGTAATTATTATTAAATCATTAAA--ATTAAATCATTA
*
619396 AAGTAATTATTA-TAAATCATTAAAGTTAAATCATTAA
1 AAGTAATTATTATTAAATCATTAAAATTAAATCATT-A
* *
619433 ATCATTAAAGTTAAATCATTAAATCATTAAAATTAAATCATTA
1 A--AGT-AA-TT--ATTATTAAATCATTAAAATTAAATCATTA
*
619476 AAGTAATTATTATTAAATCACTAAAATTAAATCATTA
1 AAGTAATTATTATTAAATCATTAAAATTAAATCATTA
*
619513 AAGTAATTATTATTAAATCATTAAAGTTAAATCATTA
1 AAGTAATTATTATTAAATCATTAAAATTAAATCATTA
*
619550 AAGTAATTATTATTAAATCATTAAAGTTAA
1 AAGTAATTATTATTAAATCATTAAAATTAA
619580 TTAATTATTA
Statistics
Matches: 199, Mismatches: 10, Indels: 24
0.85 0.04 0.10
Matches are distributed among these distances:
35 8 0.04
36 12 0.06
37 131 0.66
38 9 0.05
39 4 0.02
40 4 0.02
41 4 0.02
43 5 0.03
44 22 0.11
ACGTcount: A:0.51, C:0.06, G:0.04, T:0.39
Consensus pattern (37 bp):
AAGTAATTATTATTAAATCATTAAAATTAAATCATTA
Found at i:619397 original size:22 final size:23
Alignment explanation
Indices: 619370--619477 Score: 122
Period size: 22 Copynumber: 4.9 Consensus size: 23
619360 AGTAATTATT
619370 ATTAAA-TCATAAATCATTAAATC
1 ATTAAAGT-ATAAATCATTAAATC
* *
619393 A-TAAAGTA-ATTATTA-TAAATC
1 ATTAAAGTATA-AATCATTAAATC
619414 ATTAAAGT-TAAATCATTAAATC
1 ATTAAAGTATAAATCATTAAATC
619436 ATTAAAGT-TAAATCATTAAATC
1 ATTAAAGTATAAATCATTAAATC
*
619458 ATTAAAAT-TAAATCATTAAA
1 ATTAAAGTATAAATCATTAAA
619478 GTAATTATTA
Statistics
Matches: 75, Mismatches: 5, Indels: 11
0.82 0.05 0.12
Matches are distributed among these distances:
21 11 0.15
22 62 0.83
23 2 0.03
ACGTcount: A:0.53, C:0.08, G:0.03, T:0.36
Consensus pattern (23 bp):
ATTAAAGTATAAATCATTAAATC
Found at i:622796 original size:18 final size:18
Alignment explanation
Indices: 622773--622824 Score: 97
Period size: 18 Copynumber: 2.9 Consensus size: 18
622763 AAATTATTAG
622773 TCTCACGCTTCAGACGAA
1 TCTCACGCTTCAGACGAA
622791 TCTCACGCTTCAGACGAA
1 TCTCACGCTTCAGACGAA
622809 TCTCACGCTTC-GACGA
1 TCTCACGCTTCAGACGA
622825 CAAACAATAC
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 5 0.15
18 29 0.85
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.23
Consensus pattern (18 bp):
TCTCACGCTTCAGACGAA
Found at i:623266 original size:110 final size:110
Alignment explanation
Indices: 623077--623276 Score: 375
Period size: 110 Copynumber: 1.8 Consensus size: 110
623067 AGATTCCCGC
*
623077 CAGACGACAGGTGAAGACGCCGAGAGATCCACCTTGGCATTCCTTGTAGCATGCAGAAGACGCCG
1 CAGACGACAGGTGAAGACGCCAAGAGATCCACCTTGGCATTCCTTGTAGCATGCAGAAGACGCCG
623142 AGAGATCCTACAGTCCAATTGCTTGAAGACGCCGAGCATTCCCAT
66 AGAGATCCTACAGTCCAATTGCTTGAAGACGCCGAGCATTCCCAT
623187 CAGACGACAGGTGAAGACGCCAAGAGATCCACCTTGGCATTCCTTGTAGCATGCAGAAGACGCCG
1 CAGACGACAGGTGAAGACGCCAAGAGATCCACCTTGGCATTCCTTGTAGCATGCAGAAGACGCCG
623252 AGAGATCCCT-CAGTCCAATTGCTTG
66 AGAGAT-CCTACAGTCCAATTGCTTG
623277 CATTCCCATA
Statistics
Matches: 88, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
110 85 0.97
111 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.26, T:0.18
Consensus pattern (110 bp):
CAGACGACAGGTGAAGACGCCAAGAGATCCACCTTGGCATTCCTTGTAGCATGCAGAAGACGCCG
AGAGATCCTACAGTCCAATTGCTTGAAGACGCCGAGCATTCCCAT
Found at i:623346 original size:38 final size:39
Alignment explanation
Indices: 623304--623396 Score: 118
Period size: 39 Copynumber: 2.4 Consensus size: 39
623294 AACCGCAAAG
* *
623304 ACGCCGAGA-AAGCAA-TCATGGAAAAATTAACCCTAAAA
1 ACGCCGAGATAACCAAGACATGGAAAAATT-ACCCTAAAA
*
623342 ACGCCGAGATATCCAAGACATGGAAAAATTACCCTAAAA
1 ACGCCGAGATAACCAAGACATGGAAAAATTACCCTAAAA
* *
623381 ACACCGAGATATCCAA
1 ACGCCGAGATAACCAA
623397 AGAACCACTT
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
38 9 0.18
39 28 0.57
40 12 0.24
ACGTcount: A:0.47, C:0.24, G:0.15, T:0.14
Consensus pattern (39 bp):
ACGCCGAGATAACCAAGACATGGAAAAATTACCCTAAAA
Found at i:623388 original size:39 final size:40
Alignment explanation
Indices: 623320--623396 Score: 138
Period size: 39 Copynumber: 1.9 Consensus size: 40
623310 AGAAAGCAAT
*
623320 CATGGAAAAATTAACCCTAAAAACGCCGAGATATCCAAGA
1 CATGGAAAAATTAACCCTAAAAACACCGAGATATCCAAGA
623360 CATGGAAAAATT-ACCCTAAAAACACCGAGATATCCAA
1 CATGGAAAAATTAACCCTAAAAACACCGAGATATCCAA
623397 AGAACCACTT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
39 24 0.67
40 12 0.33
ACGTcount: A:0.48, C:0.23, G:0.13, T:0.16
Consensus pattern (40 bp):
CATGGAAAAATTAACCCTAAAAACACCGAGATATCCAAGA
Found at i:627240 original size:17 final size:17
Alignment explanation
Indices: 627218--627254 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
627208 CAGCTGCGTG
627218 ATATGTGTACATTGTCA
1 ATATGTGTACATTGTCA
627235 ATATGTGTACATTGTCA
1 ATATGTGTACATTGTCA
627252 ATA
1 ATA
627255 GTTAAGGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.41
Consensus pattern (17 bp):
ATATGTGTACATTGTCA
Found at i:631335 original size:19 final size:19
Alignment explanation
Indices: 631308--631357 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
631298 AATCATCCCA
*
631308 AACAGTATGCTTCAGCCCC
1 AACAATATGCTTCAGCCCC
631327 AACAATATGCTTCAGCCCC
1 AACAATATGCTTCAGCCCC
631346 AACAATATGCTT
1 AACAATATGCTT
631358 TAGTCGGGTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.32, C:0.32, G:0.12, T:0.24
Consensus pattern (19 bp):
AACAATATGCTTCAGCCCC
Found at i:639566 original size:48 final size:47
Alignment explanation
Indices: 639531--639751 Score: 253
Period size: 48 Copynumber: 4.6 Consensus size: 47
639521 CATAAGAAAT
* * *
639531 GTCAGACGTGCTAATTATCATCAATAGTAGTACCATCGTCACACAGAC
1 GTCAGACGTGCTAATCATCATCAATAGTAGCACCATC-TCACAAAGAC
* * *
639579 GTCAGACGTGCTAATCATCATCAATAGTAGCACCACCGTCACACATAC
1 GTCAGACGTGCTAATCATCATCAATAGTAGCACCATC-TCACAAAGAC
* * * * * *
639627 GCCAGACGTGTTAATCATCATCAGTAGAAGCACCATCATCATATAGAC
1 GTCAGACGTGCTAATCATCATCAATAGTAGCACCATC-TCACAAAGAC
* * * *
639675 GTCATACGTGCTAATCATCATCAATAGTAGCACCACCGTCACACAGAT
1 GTCAGACGTGCTAATCATCATCAATAGTAGCACCATC-TCACAAAGAC
*
639723 GTCAGACATGCTAATCATCATCAATAGTA
1 GTCAGACGTGCTAATCATCATCAATAGTA
639752 TTCATAAATA
Statistics
Matches: 148, Mismatches: 25, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 148 1.00
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (47 bp):
GTCAGACGTGCTAATCATCATCAATAGTAGCACCATCTCACAAAGAC
Found at i:639675 original size:96 final size:96
Alignment explanation
Indices: 639533--639749 Score: 317
Period size: 96 Copynumber: 2.3 Consensus size: 96
639523 TAAGAAATGT
* * * *
639533 CAGACGTGCTAATTATCATCAATAGTAGTACCATCGTCACACAGACGTCAGACGTGCTAATCATC
1 CAGACGTGCTAATCATCATCAATAGAAGCACCATCATCACACAGACGTCAGACGTGCTAATCATC
*
639598 ATCAATAGTAGCACCACCGTCACACATACGC
66 ATCAATAGTAGCACCACCGTCACACAGACGC
* * * * *
639629 CAGACGTGTTAATCATCATCAGTAGAAGCACCATCATCATATAGACGTCATACGTGCTAATCATC
1 CAGACGTGCTAATCATCATCAATAGAAGCACCATCATCACACAGACGTCAGACGTGCTAATCATC
* *
639694 ATCAATAGTAGCACCACCGTCACACAGATGT
66 ATCAATAGTAGCACCACCGTCACACAGACGC
*
639725 CAGACATGCTAATCATCATCAATAG
1 CAGACGTGCTAATCATCATCAATAG
639750 TATTCATAAA
Statistics
Matches: 106, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
96 106 1.00
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.23
Consensus pattern (96 bp):
CAGACGTGCTAATCATCATCAATAGAAGCACCATCATCACACAGACGTCAGACGTGCTAATCATC
ATCAATAGTAGCACCACCGTCACACAGACGC
Found at i:642954 original size:22 final size:21
Alignment explanation
Indices: 642929--642986 Score: 53
Period size: 25 Copynumber: 2.5 Consensus size: 21
642919 AATATAATTG
642929 AATTTAAAATTCAATTAATGAA
1 AATTTAAAATTC-ATTAATGAA
642951 AATTTTCAAAAATATCATTAATGAA
1 AA-TTT--AAAAT-TCATTAATGAA
* *
642976 ACTTGAAAATT
1 AATTTAAAATT
642987 ACCAAATGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
21 1 0.03
22 7 0.23
23 3 0.10
24 2 0.07
25 15 0.50
26 2 0.07
ACGTcount: A:0.52, C:0.07, G:0.05, T:0.36
Consensus pattern (21 bp):
AATTTAAAATTCATTAATGAA
Found at i:648471 original size:59 final size:59
Alignment explanation
Indices: 648373--648513 Score: 158
Period size: 58 Copynumber: 2.4 Consensus size: 59
648363 ATGGGTAGAG
* * * * *
648373 TACACAAATAGTCCCTCGACTATAGCGTGTTGATTTGTTGAATCTCTCGACTATTAAAAGT
1 TACA-AAATAGTCCTTCAACTATAGCGGGTTGATTTGTTGAATC-CCCAACTATTAAAAGT
* * *
648434 TACAAAATGGTCCTTCAACTATAG-GGGTTGCTTTGTTGAGTCCCCAACTATTAAAAGT
1 TACAAAATAGTCCTTCAACTATAGCGGGTTGATTTGTTGAATCCCCAACTATTAAAAGT
* * *
648492 TACAGAATAGTCATCCAACTAT
1 TACAAAATAGTCCTTCAACTAT
648514 TTAGTATGTT
Statistics
Matches: 68, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
58 32 0.47
59 15 0.22
60 17 0.25
61 4 0.06
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (59 bp):
TACAAAATAGTCCTTCAACTATAGCGGGTTGATTTGTTGAATCCCCAACTATTAAAAGT
Found at i:650585 original size:31 final size:32
Alignment explanation
Indices: 650544--650611 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 32
650534 TATAAAAAAG
*
650544 ATTTATAATTATCATCGTAAACT-AAATCATA
1 ATTTACAATTATCATCGTAAACTGAAATCATA
* * *
650575 ATTTACAATTATTATCGTAAATTGAATTCATA
1 ATTTACAATTATCATCGTAAACTGAAATCATA
650607 ATTTA
1 ATTTA
650612 TACATTTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
31 20 0.62
32 12 0.38
ACGTcount: A:0.43, C:0.10, G:0.04, T:0.43
Consensus pattern (32 bp):
ATTTACAATTATCATCGTAAACTGAAATCATA
Found at i:651751 original size:26 final size:26
Alignment explanation
Indices: 651722--651773 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
651712 ACCAATTTAA
651722 ATATCTTATTTCTTAAAATCCAAAGC
1 ATATCTTATTTCTTAAAATCCAAAGC
*
651748 ATATCTTATTTCTTAAAATTCAAAGC
1 ATATCTTATTTCTTAAAATCCAAAGC
651774 TCATTTTAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.38, C:0.17, G:0.04, T:0.40
Consensus pattern (26 bp):
ATATCTTATTTCTTAAAATCCAAAGC
Found at i:654697 original size:13 final size:13
Alignment explanation
Indices: 654679--654712 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
654669 ATTATGACGT
654679 CGTCCGGTTCTTC
1 CGTCCGGTTCTTC
654692 CGTCCGGTTCTTC
1 CGTCCGGTTCTTC
*
654705 CGACCGGT
1 CGTCCGGT
654713 CAGACCGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.03, C:0.38, G:0.26, T:0.32
Consensus pattern (13 bp):
CGTCCGGTTCTTC
Found at i:669488 original size:21 final size:20
Alignment explanation
Indices: 669448--669489 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
669438 CCAACTTACA
*
669448 ATGCATTATGAACCATTATT
1 ATGCATTATCAACCATTATT
*
669468 ATGCATTATACAACTATTATT
1 ATGCATTAT-CAACCATTATT
669489 A
1 A
669490 GTTGTATGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.40
Consensus pattern (20 bp):
ATGCATTATCAACCATTATT
Found at i:675731 original size:36 final size:34
Alignment explanation
Indices: 675691--675794 Score: 100
Period size: 36 Copynumber: 2.8 Consensus size: 34
675681 AGTAAGGGGA
*
675691 AAAAAACAGTGAAAATAAATAAGATAAAAAACAATT
1 AAAAAACAATGAAAATAAATAAGATAAAAAA-AA-T
*
675727 AAAAAACAAATAAGATAAATAAGATAAGATAAAGAAAAT
1 AAAAAAC-AAT--GA-AAATAA-ATAAGATAAAAAAAAT
* *
675766 AAAAATAAAATGAAAATAAATAGGATAAA
1 AAAAA-ACAATGAAAATAAATAAGATAAA
675795 TTTGATAAAG
Statistics
Matches: 58, Mismatches: 4, Indels: 13
0.77 0.05 0.17
Matches are distributed among these distances:
35 9 0.16
36 13 0.22
37 4 0.07
39 11 0.19
40 9 0.16
41 12 0.21
ACGTcount: A:0.71, C:0.03, G:0.10, T:0.16
Consensus pattern (34 bp):
AAAAAACAATGAAAATAAATAAGATAAAAAAAAT
Found at i:675767 original size:14 final size:14
Alignment explanation
Indices: 675734--675767 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
675724 ATTAAAAAAC
*
675734 AAATAAGATAAATA
1 AAATAAGATAAAGA
*
675748 AGATAAGATAAAGA
1 AAATAAGATAAAGA
675762 AAATAA
1 AAATAA
675768 AAATAAAATG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.12, T:0.18
Consensus pattern (14 bp):
AAATAAGATAAAGA
Found at i:675831 original size:49 final size:50
Alignment explanation
Indices: 675714--675833 Score: 124
Period size: 49 Copynumber: 2.4 Consensus size: 50
675704 AATAAATAAG
* *
675714 ATAAAAAACAAT-TAAAAAACAAATAAGATAAATAAGATAAGATAAAGAAA
1 ATAAAAAA-AATATAAAAAATAAATAAGATAAATAAGATAAGAGAAAGAAA
* * **
675764 ATAAAAATAAA-AT-GAAAATAAATAGGATAAATTTGATAA-AGAAA-AAA
1 ATAAAAA-AAATATAAAAAATAAATAAGATAAATAAGATAAGAGAAAGAAA
675811 ATAATAAAAAATATAAAAAATAA
1 ATAA-AAAAAATATAAAAAATAA
675834 GCAAGGAGGA
Statistics
Matches: 58, Mismatches: 7, Indels: 11
0.76 0.09 0.14
Matches are distributed among these distances:
47 10 0.17
48 9 0.16
49 28 0.48
50 10 0.17
51 1 0.02
ACGTcount: A:0.72, C:0.02, G:0.07, T:0.19
Consensus pattern (50 bp):
ATAAAAAAAATATAAAAAATAAATAAGATAAATAAGATAAGAGAAAGAAA
Found at i:675891 original size:16 final size:16
Alignment explanation
Indices: 675842--675905 Score: 60
Period size: 16 Copynumber: 4.0 Consensus size: 16
675832 AAGCAAGGAG
* *
675842 GAAAAAATATAATAAA
1 GAAAAAAAACAATAAA
*
675858 TAAATAAAAAC--TAGAA
1 GAAA-AAAAACAATA-AA
675874 GAAAAAAAACAATAAA
1 GAAAAAAAACAATAAA
*
675890 GATAAAAAACAATAAA
1 GAAAAAAAACAATAAA
675906 ATTATATAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
15 8 0.21
16 25 0.64
17 6 0.15
ACGTcount: A:0.75, C:0.05, G:0.06, T:0.14
Consensus pattern (16 bp):
GAAAAAAAACAATAAA
Found at i:675922 original size:13 final size:13
Alignment explanation
Indices: 675904--675940 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
675894 AAAAACAATA
675904 AAATTATATAAAT
1 AAATTATATAAAT
*
675917 AAATTAAATAAAT
1 AAATTATATAAAT
675930 AAATATATATA
1 AAAT-TATATA
675941 TATATAATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 16 0.76
14 5 0.24
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
AAATTATATAAAT
Found at i:676011 original size:2 final size:2
Alignment explanation
Indices: 676004--676032 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
675994 ATAATAATAA
676004 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
676033 AACTAGTGAC
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:677130 original size:20 final size:20
Alignment explanation
Indices: 677105--677143 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
677095 ATAACTTAAA
677105 TAATAACAATA-ATAGTATAC
1 TAATAA-AATATATAGTATAC
*
677125 TAATAAACTATATAGTATA
1 TAATAAAATATATAGTATA
677144 TATTTCAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.54, C:0.08, G:0.05, T:0.33
Consensus pattern (20 bp):
TAATAAAATATATAGTATAC
Found at i:677365 original size:74 final size:72
Alignment explanation
Indices: 677268--677452 Score: 230
Period size: 75 Copynumber: 2.5 Consensus size: 72
677258 AAATGATTTT
* ** *
677268 AAACTATATATTATATAATTTTTTAAAAATGTTTTTTAAACTATATTTTATATAAGTTTCTCAAA
1 AAACTATATATTATAT-ATTTTTTCAAAATGTTTTCAAAACTATATATTATATAAGTTT-TCAAA
677333 AGGTTTTAAA
64 AGGTTTT-AA
* * *
677343 GAAACTATATGTTATATATTTTTTCAAAATGATTTCAAAACTATGTATTATATAAGTTTTCAAAA
1 -AAACTATATATTATATATTTTTTCAAAATGTTTTCAAAACTATATATTATATAAGTTTTCAAAA
*
677408 TGTTTTAA
65 GGTTTTAA
* *
677416 AAACCATATATTATATA--TTTTCAAAATGTTTTAAAAA
1 AAACTATATATTATATATTTTTTCAAAATGTTTTCAAAA
677453 AATTATATAC
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
70 18 0.19
72 15 0.15
73 2 0.02
74 11 0.11
75 36 0.37
76 15 0.15
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.45
Consensus pattern (72 bp):
AAACTATATATTATATATTTTTTCAAAATGTTTTCAAAACTATATATTATATAAGTTTTCAAAAG
GTTTTAA
Found at i:677454 original size:36 final size:35
Alignment explanation
Indices: 677252--677478 Score: 183
Period size: 36 Copynumber: 6.3 Consensus size: 35
677242 TATATCGATT
* *
677252 TTTTTAAAATGATTTT--AAACTATATATTATATAATT
1 TTTTCAAAATG-TTTTAAAAACTATATATTATAT-A-G
* ** *
677288 TTTTAAAAATGTTTTTTAAACTATATTTTATATAAG
1 TTTTCAAAATGTTTTAAAAACTATATATTATAT-AG
* * *
677324 TTTCTCAAAAGGTTTTAAAGAAACTATATGTTATATATT
1 TTT-TCAAAATGTTTT-AA-AAACTATATATTATATA-G
* * *
677363 TTTTCAAAATGATTTCAAAACTATGTATTATATAAG
1 TTTTCAAAATGTTTTAAAAACTATATATTATAT-AG
*
677399 TTTTCAAAATGTTTTAAAAACCATATATTATATA-
1 TTTTCAAAATGTTTTAAAAACTATATATTATATAG
* *
677433 TTTTCAAAATGTTTTAAAAAAATTATATACTATATA-
1 TTTTCAAAATGTTTT--AAAAACTATATATTATATAG
677469 TATTTCAAAA
1 T-TTTCAAAA
677479 AAACCGTTTT
Statistics
Matches: 159, Mismatches: 22, Indels: 19
0.80 0.11 0.09
Matches are distributed among these distances:
34 15 0.09
35 5 0.03
36 73 0.46
37 37 0.23
38 11 0.07
39 18 0.11
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.46
Consensus pattern (35 bp):
TTTTCAAAATGTTTTAAAAACTATATATTATATAG
Found at i:688669 original size:20 final size:21
Alignment explanation
Indices: 688644--688691 Score: 80
Period size: 20 Copynumber: 2.3 Consensus size: 21
688634 TTATATTTTC
688644 AATTTTGTAAAAAAA-ATATA
1 AATTTTGTAAAAAAATATATA
688664 AATTTTGTAAAAAAATTATATA
1 AATTTTGTAAAAAAA-TATATA
688686 AATTTT
1 AATTTT
688692 ATGAATTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 15 0.58
22 11 0.42
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (21 bp):
AATTTTGTAAAAAAATATATA
Found at i:688897 original size:18 final size:19
Alignment explanation
Indices: 688874--688916 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 19
688864 CAGTAATCAT
688874 ATTCC-CTGGTAATCTTAC
1 ATTCCACTGGTAATCTTAC
688892 ATTCCCACTGGTAATCTTAC
1 ATT-CCACTGGTAATCTTAC
688912 ATTCC
1 ATTCC
688917 GTGAACCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 3 0.13
19 4 0.17
20 16 0.70
ACGTcount: A:0.23, C:0.30, G:0.09, T:0.37
Consensus pattern (19 bp):
ATTCCACTGGTAATCTTAC
Found at i:688904 original size:20 final size:20
Alignment explanation
Indices: 688879--688916 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
688869 ATCATATTCC
688879 CTGGTAATCTTACATTCCCA
1 CTGGTAATCTTACATTCCCA
688899 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
688917 GTGAACCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.24, C:0.29, G:0.11, T:0.37
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:691090 original size:23 final size:23
Alignment explanation
Indices: 691056--691145 Score: 135
Period size: 23 Copynumber: 3.9 Consensus size: 23
691046 CACCACAGCT
* *
691056 CGTATAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCG
* *
691079 CGTAGAATTGCACCGTAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
*
691102 CGTAGAAATGCACCGTAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
691125 CGTAGAAATGCACCGAAGTGC
1 CGTAGAAATGCACCGAAGTGC
691146 TATATAATTG
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.29, C:0.26, G:0.28, T:0.18
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCG
Found at i:691674 original size:16 final size:17
Alignment explanation
Indices: 691638--691674 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
691628 TTGTATTCAC
691638 ATCATTTATATTCTCAT
1 ATCATTTATATTCTCAT
691655 -TCATTTATATTCT-AT
1 ATCATTTATATTCTCAT
691670 ATCAT
1 ATCAT
691675 ATAACTTATC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 2 0.11
16 17 0.89
ACGTcount: A:0.30, C:0.16, G:0.00, T:0.54
Consensus pattern (17 bp):
ATCATTTATATTCTCAT
Found at i:692717 original size:23 final size:20
Alignment explanation
Indices: 692662--692723 Score: 70
Period size: 23 Copynumber: 2.9 Consensus size: 20
692652 ATTTCCCTGA
*
692662 AGTGCATCGATGCATTCTAC
1 AGTGCATCGATGCATCCTAC
*
692682 AGTGTATCGATGCATCCCTAAC
1 AGTGCATCGATGCAT-CCT-AC
692704 ATGTGCATCGATGCACTCCT
1 A-GTGCATCGATGCA-TCCT
692724 TATGCATTGA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
20 14 0.40
21 2 0.06
22 3 0.09
23 15 0.43
24 1 0.03
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.29
Consensus pattern (20 bp):
AGTGCATCGATGCATCCTAC
Found at i:701531 original size:55 final size:54
Alignment explanation
Indices: 701270--701878 Score: 521
Period size: 55 Copynumber: 11.1 Consensus size: 54
701260 ATGGAGTGGA
* * * * * *
701270 AACTCGTACAATCTTCAACAATCGTG-TCTGCCCCCTATTTCTGCAGAGAGTATA-
1 AACTCGAACAATCTTCAA-AATCGGGTTC-GCTCCCTCTTTCTTCAGGGAGTATAG
* *
701324 AGACTCAAACAATCTTCAATAATCGGGTCCGCTCCCTCTTTCTTCAGGGAGTATAG
1 A-ACTCGAACAATCTTCAA-AATCGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAG
* * * *
701380 AACTCGAATAATCTTCAACAATCGTG-TCTGCTCCC-CATTCCTTCAGAGAGTATA-
1 AACTCGAACAATCTTCAA-AATCGGGTTC-GCTCCCTC-TTTCTTCAGGGAGTATAG
* * * * * *
701434 AGACTCGAACAATCTTCATCAATCGTG-TCTGCCCCCTATTTCTGCAGAGAGTAT-G
1 A-ACTCGAACAATCTTCA-AAATCGGGTTC-GCTCCCTCTTTCTTCAGGGAGTATAG
*
701489 AGACTCAAACAATCTTCAATAATCGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAG
1 A-ACTCGAACAATCTTCAA-AATCGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAG
* * *
701545 AACTCGAATAATCTTCTGCAAA-CAGGTTCGCTCCCTCTTTCTTCAGGGAGTATAG
1 AACTCGAACAATCTTC--AAAATCGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAG
* * * *
701600 AACTCGGACATATTCTTC-AAA-CGAGTTCTCTCCCTTTTTC-TCTAGGGAGTATAG
1 AACTCGAACA-A-TCTTCAAAATCGGGTTCGCTCCCTCTTTCTTC-AGGGAGTATAG
** *
701654 AACTCGAATGATCTTCTGAAAA-CGGGCTCGCTCCCTCTTTCTTCAGGGAGTATAG
1 AACTCGAACAATCTTC--AAAATCGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAG
* **** * * *
701709 AACTCGAA-GATCTTCTTCTTACGGGTTCGCTTCGCTCTTTCTCCAGGAAGTATAG
1 AACTCGAACAATCTTCAAAAT-CGGGTTCGC-TCCCTCTTTCTTCAGGGAGTATAG
*
701764 AACTCGAACAATCTTCTGAAAAT-GGGTTCGCTCCCTCTTTCTTCAGGGAGTATGG
1 AACTCGAACAATCTTC--AAAATCGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAG
* *
701819 AACTCGAACATATTCTTC-AAA-CGGGTTCGCTCCTTCTTTCTTTAGGGAGTATAG
1 AACTCGAACA-A-TCTTCAAAATCGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAG
701873 AACTCG
1 AACTCG
701879 TATATCTTCA
Statistics
Matches: 459, Mismatches: 66, Indels: 60
0.78 0.11 0.10
Matches are distributed among these distances:
52 5 0.01
53 3 0.01
54 93 0.20
55 320 0.70
56 26 0.06
57 11 0.02
58 1 0.00
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (54 bp):
AACTCGAACAATCTTCAAAATCGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAG
Found at i:702330 original size:36 final size:36
Alignment explanation
Indices: 702258--702446 Score: 229
Period size: 36 Copynumber: 5.2 Consensus size: 36
702248 ACTCTTCTGA
* *
702258 GAAGGCTTAAAATGGATCTGCTTCACTACTT-T-TGGT
1 GAAGGCTTAAGATGG-TTTGCTTCACTA-TTCTCTGGT
* * *
702294 GAAGACTTAAGATGCTTTGCTTCACTACTCTCTGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCTGGT
* *
702330 GAAGACTTATGATGGTTTGCTTCACTATTCTCTGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCTGGT
* * * *
702366 GAAGGCTTCAGATTGATTGCTTCACTATTCTCCGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCTGGT
* *
702402 GAAGGCTTCAGATGGTTTGCTTCACTATTCTCCGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCTGGT
702438 GAAGGCTTA
1 GAAGGCTTA
702447 GGATTGACTT
Statistics
Matches: 134, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
34 1 0.01
35 12 0.09
36 121 0.90
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.37
Consensus pattern (36 bp):
GAAGGCTTAAGATGGTTTGCTTCACTATTCTCTGGT
Found at i:703440 original size:124 final size:124
Alignment explanation
Indices: 703168--703471 Score: 439
Period size: 124 Copynumber: 2.4 Consensus size: 124
703158 TCAATAATTT
* **
703168 CTTGGTCTGAATCTTTTCATCTCAACATGACGTAGGTTTGGTCTCGCCCCAACATTATCTTACAC
1 CTTGGTCTGAATCTTTTCATCTCAACATGACGTGGGTTCAGTCT-GCCCCAACATTATCTTACAC
* ** * * *
703233 TGGTAAGGGCCTTCAAAATGCCCCATTACCTCAAATTGTGAGGCTCATTCTTTATGCCTC
65 TGGTAAGGGCCATCAAAATGCCCCAACACCTCAAATTGTAAGGCTCATTCTTAATACCTC
*
703293 CTTGGTCTGAATCTTTTCATCTCAACATGACGTGGGTTCAGTCATGCCCCAACATTATCTTATAC
1 CTTGGTCTGAATCTTTTCATCTCAACATGACGTGGGTTCAGTC-TGCCCCAACATTATCTTACAC
*
703358 TGGTACGGG-CATCAAAATGCCCCAACACCTCAAATTGTAAGGCTCATTCTTAATACCTC
65 TGGTAAGGGCCATCAAAATGCCCCAACACCTCAAATTGTAAGGCTCATTCTTAATACCTC
* * * *
703417 CTTGGTCTGAATCTTGTCTTCTCAACATGATGTGGGTTCAGTCGCGCCCCAACAT
1 CTTGGTCTGAATCTTTTCATCTCAACATGACGTGGGTTCAGTC-TGCCCCAACAT
703472 ATCACAACTT
Statistics
Matches: 162, Mismatches: 16, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
124 94 0.58
125 67 0.41
126 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.17, T:0.32
Consensus pattern (124 bp):
CTTGGTCTGAATCTTTTCATCTCAACATGACGTGGGTTCAGTCTGCCCCAACATTATCTTACACT
GGTAAGGGCCATCAAAATGCCCCAACACCTCAAATTGTAAGGCTCATTCTTAATACCTC
Found at i:704424 original size:40 final size:39
Alignment explanation
Indices: 704370--704445 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 39
704360 TATTTAGATA
*
704370 AACTTGATTTAATTTGCCATTATCGGGCTAGCTGAAATC
1 AACTTGATTTAATTTGCCATTATCAGGCTAGCTGAAATC
* *
704409 AACTTTATTGTAATTTGCCTTTATCAGGCTAGCTGAA
1 AACTTGATT-TAATTTGCCATTATCAGGCTAGCTGAA
704446 GGGTTCATCT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
39 8 0.24
40 25 0.76
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (39 bp):
AACTTGATTTAATTTGCCATTATCAGGCTAGCTGAAATC
Found at i:713906 original size:14 final size:14
Alignment explanation
Indices: 713887--713923 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
713877 TTAACCCCTA
*
713887 GATTAATTTTTATT
1 GATTAACTTTTATT
713901 GATTAACTTTTATT
1 GATTAACTTTTATT
713915 GATTAACTT
1 GATTAACTT
713924 AATATTAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.30, C:0.05, G:0.08, T:0.57
Consensus pattern (14 bp):
GATTAACTTTTATT
Found at i:714528 original size:2 final size:2
Alignment explanation
Indices: 714521--714551 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
714511 TCATAAAATT
714521 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
714552 TACAATATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:716550 original size:65 final size:65
Alignment explanation
Indices: 716418--716570 Score: 184
Period size: 65 Copynumber: 2.4 Consensus size: 65
716408 CCCTATTTCA
* * *
716418 AATGCATTTTGTGTACTGATGCA-AAACCATGCATCGATGCACTCTTGAATTTATTGAAATATCG
1 AATGCATTTTGTGTACCGATGCACAAACCATGCATCGATGCACTCCTGAATTTATTGAAACATCG
* * ** *
716482 AATGCATTTTGTGTACCGATGCACAGACCTTGCATCGATGCACTCCTGGCTCTT-TTGAAACATT
1 AATGCATTTTGTGTACCGATGCACAAACCATGCATCGATGCACTCCTGAAT-TTATTGAAACATC
716546 G
65 G
* * *
716547 AATGTAATTAGTGTACCGATGCAC
1 AATGCATTTTGTGTACCGATGCAC
716571 CCCTAGTGTA
Statistics
Matches: 76, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
64 22 0.29
65 52 0.68
66 2 0.03
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (65 bp):
AATGCATTTTGTGTACCGATGCACAAACCATGCATCGATGCACTCCTGAATTTATTGAAACATCG
Found at i:721757 original size:64 final size:63
Alignment explanation
Indices: 721663--721802 Score: 151
Period size: 64 Copynumber: 2.2 Consensus size: 63
721653 ATATTAAATG
* *
721663 TGCATCGATGCACTCTTTAATGAAGAAACATCGAA-TGCAATTGGTGCATCGATGCATAAGGAA
1 TGCATCGATGCACCCTTTAATGAAGAAACATCGAAGT-CAATTGATGCATCGATGCATAAGGAA
* * * * *
721726 TGCATCGATGCATCCCTTTAA--AATGAAAACATCGAAGTTAATTTATGTATCGATGCATGAGTA
1 TGCATCGATGCA-CCCTTTAATGAA-G-AAACATCGAAGTCAATTGATGCATCGATGCATAAGGA
*
721789 G
63 A
721790 TGCATCGATGCAC
1 TGCATCGATGCAC
721803 ATGTTAAAGA
Statistics
Matches: 65, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
62 2 0.03
63 14 0.22
64 48 0.74
65 1 0.02
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.28
Consensus pattern (63 bp):
TGCATCGATGCACCCTTTAATGAAGAAACATCGAAGTCAATTGATGCATCGATGCATAAGGAA
Found at i:721817 original size:24 final size:22
Alignment explanation
Indices: 721790--721846 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 22
721780 GCATGAGTAG
*
721790 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCACA--CTAAAGAA
*
721814 TGCATCGAT--ACACTATAGAA
1 TGCATCGATGCACACTAAAGAA
721834 TGCATCGATGCAC
1 TGCATCGATGCAC
721847 TTCAAGGGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
20 15 0.52
22 5 0.17
24 9 0.31
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (22 bp):
TGCATCGATGCACACTAAAGAA
Found at i:721835 original size:20 final size:20
Alignment explanation
Indices: 721810--721847 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
721800 CACATGTTAA
721810 AGAATGCATCGATACACTAT
1 AGAATGCATCGATACACTAT
*
721830 AGAATGCATCGATGCACT
1 AGAATGCATCGATACACT
721848 TCAAGGGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (20 bp):
AGAATGCATCGATACACTAT
Found at i:722543 original size:30 final size:30
Alignment explanation
Indices: 722482--722611 Score: 188
Period size: 30 Copynumber: 4.3 Consensus size: 30
722472 CTAAGGAATA
* * * *
722482 TATGGATAGTTTACCTAGGTTCTTCAGGACC
1 TATGGATAG-TTACCGAGGATCTTTATGACC
722513 TATGGATAGTTACCGAGGATCTTTATGACC
1 TATGGATAGTTACCGAGGATCTTTATGACC
722543 TATGGATAGTTACCGAGGATCTTTATGACC
1 TATGGATAGTTACCGAGGATCTTTATGACC
* *
722573 TCTGGATAGTTATCGAGGATCTTTATGACC
1 TATGGATAGTTACCGAGGATCTTTATGACC
*
722603 TCTGGATAG
1 TATGGATAG
722612 GTCCTTCGGG
Statistics
Matches: 93, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
30 84 0.90
31 9 0.10
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.35
Consensus pattern (30 bp):
TATGGATAGTTACCGAGGATCTTTATGACC
Found at i:724912 original size:23 final size:22
Alignment explanation
Indices: 724881--724954 Score: 98
Period size: 23 Copynumber: 3.3 Consensus size: 22
724871 GACAGTGTAC
724881 CGATGCATCTCTTGAATGTGCAT
1 CGATGCAT-TCTTGAATGTGCAT
*
724904 CGATACA-TCTTGAA-GATGCAT
1 CGATGCATTCTTGAATG-TGCAT
724925 CGATGCATTCCTTGAATGTGCAT
1 CGATGCATT-CTTGAATGTGCAT
724948 CGATGCA
1 CGATGCA
724955 CTATGCTATG
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
20 1 0.02
21 18 0.40
22 1 0.02
23 24 0.53
24 1 0.02
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.31
Consensus pattern (22 bp):
CGATGCATTCTTGAATGTGCAT
Found at i:724929 original size:44 final size:44
Alignment explanation
Indices: 724855--724959 Score: 135
Period size: 44 Copynumber: 2.4 Consensus size: 44
724845 TTATGCGCAA
*
724855 TGCATCGATACACTATGACAGTGTACCGATGCA-TCTCTTGAATG
1 TGCATCGATACACTATGACAGTGCACCGATGCATTC-CTTGAATG
*
724899 TGCATCGATACATCT-TGA-AGATGCATCGATGCATTCCTTGAATG
1 TGCATCGATACA-CTATGACAG-TGCACCGATGCATTCCTTGAATG
*
724943 TGCATCGATGCACTATG
1 TGCATCGATACACTATG
724960 CTATGCATCG
Statistics
Matches: 54, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
43 4 0.07
44 46 0.85
45 4 0.07
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (44 bp):
TGCATCGATACACTATGACAGTGCACCGATGCATTCCTTGAATG
Found at i:727272 original size:166 final size:163
Alignment explanation
Indices: 727001--727331 Score: 603
Period size: 166 Copynumber: 2.0 Consensus size: 163
726991 ATCATTTACA
727001 TCATTTAGAATATGACCAATTACCATTACACCTGTCATGAATATTGATTTATGAAACTAATGGCT
1 TCATTTAGAATATGACCAATTACCATTACACCTGTCATGAATATTGATTTATGAAACTAATGGCT
727066 AACCTTTCTCTTACTTATGATCTTAGTAGCTTAATCTTTAAATTTCTAAATTTCAATTGGGCTAA
66 AACCTTTCTCTTACTTATGATCTTAGTAGCTTAATCTTTAAATTTCTAAATTTCAATT-GGCTAA
727131 GTTTTC-AAAACCTTGTTTAAAAATGTTTTAGAG
130 GTTTTCAAAAACCTTGTTTAAAAATGTTTTAGAG
727164 TCATTTAGAATATGACCAATTTTACCATTACACGCTGTTCATGAATATTGATTTA-GAAACTAAT
1 TCATTTAGAATATGACCAA--TTACCATTACAC-CTG-TCATGAATATTGATTTATGAAACTAAT
727228 GGCTAACCTTTCTCTTACTTATGATCTTAGTAGCTTAATCTTTAAATTTCTAAATTTCAATTGGC
62 GGCTAACCTTTCTCTTACTTATGATCTTAGTAGCTTAATCTTTAAATTTCTAAATTTCAATTGGC
727293 TAAGTTTTCAAAAACCTTGTTTAAAAATGTTTTAGAG
127 TAAGTTTTCAAAAACCTTGTTTAAAAATGTTTTAGAG
727330 TC
1 TC
727332 TTTTTGATTT
Statistics
Matches: 163, Mismatches: 0, Indels: 7
0.96 0.00 0.04
Matches are distributed among these distances:
163 19 0.12
165 24 0.15
166 103 0.63
167 17 0.10
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.41
Consensus pattern (163 bp):
TCATTTAGAATATGACCAATTACCATTACACCTGTCATGAATATTGATTTATGAAACTAATGGCT
AACCTTTCTCTTACTTATGATCTTAGTAGCTTAATCTTTAAATTTCTAAATTTCAATTGGCTAAG
TTTTCAAAAACCTTGTTTAAAAATGTTTTAGAG
Found at i:727818 original size:62 final size:65
Alignment explanation
Indices: 727752--727902 Score: 195
Period size: 64 Copynumber: 2.4 Consensus size: 65
727742 ATACCCTATT
* * *
727752 TCGAATGCATTTTGTGTACCGATGCAC-AGCCATGCATCGATGCACT-CTGAAT-TTATGAAACA
1 TCGAATGAAATTTGTGTACCGATGCACAAACCATGCATCGATGCACTCCTGAATCTTATGAAACA
** *
727814 TCGAAT-AAATTTGTGTACCGATGCACAAACCATGCATCGATGCACTCCTGGCTCTTTTGAAACA
1 TCGAATGAAATTTGTGTACCGATGCACAAACCATGCATCGATGCACTCCTGAATCTTATGAAACA
* *
727878 T-GAATGTAATTAGTGTACCGATGCA
1 TCGAATGAAATTTGTGTACCGATGCA
727903 TCCCTAGTGT
Statistics
Matches: 77, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
61 18 0.23
62 24 0.31
63 8 0.10
64 27 0.35
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (65 bp):
TCGAATGAAATTTGTGTACCGATGCACAAACCATGCATCGATGCACTCCTGAATCTTATGAAACA
Found at i:735426 original size:20 final size:20
Alignment explanation
Indices: 735401--735438 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
735391 TCTTAAAATA
735401 TTAAAATAATTTATTTATTG
1 TTAAAATAATTTATTTATTG
* *
735421 TTAAAATATTTTTTTTAT
1 TTAAAATAATTTATTTAT
735439 AATTTTATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (20 bp):
TTAAAATAATTTATTTATTG
Found at i:735500 original size:24 final size:26
Alignment explanation
Indices: 735453--735501 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
735443 TTATTAATAA
*
735453 AAATAAAAATATTGGTATATATTATTG
1 AAATAAAAATATT-GTATAAATTATTG
735480 AAATAAAAATA-T-TATAAATTAT
1 AAATAAAAATATTGTATAAATTAT
735502 ATTAATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 9 0.43
26 1 0.05
27 11 0.52
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (26 bp):
AAATAAAAATATTGTATAAATTATTG
Found at i:735526 original size:34 final size:32
Alignment explanation
Indices: 735486--735579 Score: 86
Period size: 31 Copynumber: 2.8 Consensus size: 32
735476 ATTGAAATAA
735486 AAATATTATAAATTATATTAATTATTTATTAAAG
1 AAATATTATAAATTATATTAATTATTTATT--AG
*
735520 TAATATTA-AAA--ATATTATATTATATTATTAG
1 AAATATTATAAATTATATTA-ATTAT-TTATTAG
* *
735551 AAATATTAATAAATATATTTTAAATATTT
1 AAATATT-ATAAAT-TATATTAATTATTT
735580 TAATAATTAA
Statistics
Matches: 49, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
31 14 0.29
32 6 0.12
33 11 0.22
34 9 0.18
35 4 0.08
36 5 0.10
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (32 bp):
AAATATTATAAATTATATTAATTATTTATTAG
Found at i:738097 original size:20 final size:21
Alignment explanation
Indices: 738072--738112 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
738062 GTCATGATGG
*
738072 AAGA-GGAATTAGGGTTGAAA
1 AAGAGGGAATTAGGGATGAAA
*
738092 AAGAGGGAATTGGGGATGAAA
1 AAGAGGGAATTAGGGATGAAA
738113 TCGATTTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.44, C:0.00, G:0.39, T:0.17
Consensus pattern (21 bp):
AAGAGGGAATTAGGGATGAAA
Found at i:741210 original size:20 final size:21
Alignment explanation
Indices: 741185--741225 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
741175 GTCATGATGG
*
741185 AAGA-GGAATTAGGGTTGAAA
1 AAGAGGGAATTAGGGATGAAA
*
741205 AAGAGGGAATTGGGGATGAAA
1 AAGAGGGAATTAGGGATGAAA
741226 TCGATTCAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.44, C:0.00, G:0.39, T:0.17
Consensus pattern (21 bp):
AAGAGGGAATTAGGGATGAAA
Found at i:744650 original size:17 final size:17
Alignment explanation
Indices: 744628--744668 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
744618 CCGGGATATA
744628 ATTATTATTATTA-TAAT
1 ATTATTA-TATTATTAAT
744645 ATTATTATATTATTAAT
1 ATTATTATATTATTAAT
*
744662 AATATTA
1 ATTATTA
744669 ATGTTATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTATTATATTATTAAT
Found at i:744651 original size:20 final size:20
Alignment explanation
Indices: 744623--744668 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
744613 TTTGTCCGGG
*
744623 ATATAATTATTATTATT-ATA
1 ATATTATTA-TATTATTAATA
744643 ATATTATTATATTATTAATA
1 ATATTATTATATTATTAATA
744663 ATATTA
1 ATATTA
744669 ATGTTATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
ATATTATTATATTATTAATA
Found at i:744676 original size:9 final size:9
Alignment explanation
Indices: 744628--744676 Score: 57
Period size: 9 Copynumber: 5.7 Consensus size: 9
744618 CCGGGATATA
*
744628 ATTATTATT
1 ATTATTAAT
744637 ATTA-TAAT
1 ATTATTAAT
744645 ATTATT-AT
1 ATTATTAAT
744653 ATTATTAAT
1 ATTATTAAT
*
744662 AATATTAAT
1 ATTATTAAT
*
744671 GTTATT
1 ATTATT
744677 TATGTTATCA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
8 15 0.44
9 19 0.56
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (9 bp):
ATTATTAAT
Found at i:748490 original size:21 final size:21
Alignment explanation
Indices: 748465--748610 Score: 204
Period size: 21 Copynumber: 6.9 Consensus size: 21
748455 TCATACCAAG
748465 GACGAGAAGACCATTCATAAA
1 GACGAGAAGACCATTCATAAA
748486 GACGAGAAGACCATTCATAAA
1 GACGAGAAGACCATTCATAAA
*
748507 GACGAGAAGACCATTCACAAA
1 GACGAGAAGACCATTCATAAA
* * *
748528 GACGAGAAAACCATTCACAAG
1 GACGAGAAGACCATTCATAAA
*
748549 GACGAGAAGATCATTCATAAA
1 GACGAGAAGACCATTCATAAA
*
748570 GATGAGAAGACCATTCATAAA
1 GACGAGAAGACCATTCATAAA
*
748591 GAC-ATGAATACCACTTCATA
1 GACGA-GAAGACCA-TTCATA
748611 TTGAAGGTAA
Statistics
Matches: 112, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
20 1 0.01
21 105 0.94
22 6 0.05
ACGTcount: A:0.47, C:0.20, G:0.18, T:0.16
Consensus pattern (21 bp):
GACGAGAAGACCATTCATAAA
Found at i:750515 original size:31 final size:31
Alignment explanation
Indices: 750462--750558 Score: 113
Period size: 31 Copynumber: 3.1 Consensus size: 31
750452 ATCTTGGTCG
** * *
750462 AATTTAAGGGTTAGATTGATATTTTATCTAA
1 AATTTAAAAGTTAAATTAATATTTTATCTAA
* * *
750493 AGTTTAAAAGTTGAATTAATATTTTATTTAA
1 AATTTAAAAGTTAAATTAATATTTTATCTAA
*
750524 AATTTAAAAGTTAAATTGATATTTTTATCTAA
1 AATTTAAAAGTTAAATTAATA-TTTTATCTAA
750556 AAT
1 AAT
750559 CAGGGATCAA
Statistics
Matches: 54, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
31 42 0.78
32 12 0.22
ACGTcount: A:0.41, C:0.02, G:0.10, T:0.46
Consensus pattern (31 bp):
AATTTAAAAGTTAAATTAATATTTTATCTAA
Found at i:757432 original size:23 final size:18
Alignment explanation
Indices: 757355--757420 Score: 132
Period size: 18 Copynumber: 3.7 Consensus size: 18
757345 AAATCAGGTA
757355 ATTTTAATAAAACATTTT
1 ATTTTAATAAAACATTTT
757373 ATTTTAATAAAACATTTT
1 ATTTTAATAAAACATTTT
757391 ATTTTAATAAAACATTTT
1 ATTTTAATAAAACATTTT
757409 ATTTTAATAAAA
1 ATTTTAATAAAA
757421 TACTGAGTTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 48 1.00
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.48
Consensus pattern (18 bp):
ATTTTAATAAAACATTTT
Found at i:759780 original size:91 final size:91
Alignment explanation
Indices: 759618--760242 Score: 902
Period size: 91 Copynumber: 6.9 Consensus size: 91
759608 GTCGAACAAA
* * * * *
759618 GTTGAACAAGTTCTTCTCATTATGAACTTTTTCTTCCTTGTTGTATGAGTTCTTCTCATGATGAA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTATGAA
* * * * *
759683 CTCTCCACTGGTAACG-TCAAGGCAGG
66 CTCTCCACTGGAAATGCT-GAGCCAAG
* *
759709 GTCT-AATAAGTTCTTCTCATTATAAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTATGA
1 GT-TGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTATGA
* **
759773 ACTCTCCACTGGAAATGTTGAGATAAG
65 ACTCTCCACTGGAAATGCTGAGCCAAG
*
759800 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTATGAA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTATGAA
**
759865 CTCTCCACTGGAAATGCTGAGATAAG
66 CTCTCCACTGGAAATGCTGAGCCAAG
* *
759891 GTTGAACAAATTATTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTATGAA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTATGAA
* *
759956 CTCTCTACTGGAAAT-CTTGAACCAAG
66 CTCTCCACTGGAAATGC-TGAGCCAAG
* *
759982 GTTGAACAAGTTATTCTCATTATAAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTATGAA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTATGAA
*
760047 CTCTCCGCTGGAAATGCTGAGCCAAG
66 CTCTCCACTGGAAATGCTGAGCCAAG
*
760073 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTATGAG
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTATGAA
*
760138 CTCTCCGCTGGAAATGCTGAGCCAAG
66 CTCTCCACTGGAAATGCTGAGCCAAG
*
760164 GTTTGAACAAGTTCTTCTTATTATGAACTTCTTCTCCCTCGTTGGATGAG---TTCTCATTATGA
1 G-TTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTATGA
* *
760226 ACTCTCCATTTGAAATG
65 ACTCTCCACTGGAAATG
760243 TCAATCCCTT
Statistics
Matches: 491, Mismatches: 37, Indels: 14
0.91 0.07 0.03
Matches are distributed among these distances:
89 25 0.05
90 2 0.00
91 414 0.84
92 50 0.10
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (91 bp):
GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTATGAA
CTCTCCACTGGAAATGCTGAGCCAAG
Found at i:760746 original size:30 final size:30
Alignment explanation
Indices: 760664--760733 Score: 104
Period size: 30 Copynumber: 2.3 Consensus size: 30
760654 TAAAATTTCT
* ** *
760664 TGTTTCAAGGGAAACAATCTCAAATGTTGG
1 TGTTTCAAGAGAAACTGTCTCAAAGGTTGG
760694 TGTTTCAAGAGAAACTGTCTCAAAGGTTGG
1 TGTTTCAAGAGAAACTGTCTCAAAGGTTGG
760724 TGTTTCAAGA
1 TGTTTCAAGA
760734 TAATTTGTCT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.31
Consensus pattern (30 bp):
TGTTTCAAGAGAAACTGTCTCAAAGGTTGG
Found at i:760839 original size:96 final size:97
Alignment explanation
Indices: 760623--760842 Score: 241
Period size: 96 Copynumber: 2.3 Consensus size: 97
760613 GAATAAGAAA
* * * *
760623 TATGTTTTAAGAAAAATTCTCTCAAGTGAGATAAAATTTCTTGTTTCAAGGGAAACAATCTCAAA
1 TATGTTTCAAGAAAAATTGTCTCAAGAGAGATAAAA--TCATGTTTCAAGGGAAACAATCTCAAA
*
760688 TGTTGGTGTTTCAAGAGAAACTGTCTCAAAGGTT
64 TGTTGGTGTCTCAAGAGAAACTGTCTCAAAGGTT
** * *
760722 GGTGTTTCAAGATAATTTGTCTCAAGAGAGATAAAA-CATGTTTCAAGGGAAACAATCTCAAA-G
1 TATGTTTCAAGAAAAATTGTCTCAAGAGAGATAAAATCATGTTTCAAGGGAAACAATCTCAAATG
* * *
760785 ATTTTGTGTCTCAAGGGAAACAT-TTTCAAA-GTT
66 --TTGGTGTCTCAAGAGAAAC-TGTCTCAAAGGTT
* *
760818 TATGTTTCAAGAGAAACTGTCTCAA
1 TATGTTTCAAGAAAAATTGTCTCAA
760843 AAACTTGTTT
Statistics
Matches: 101, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
95 1 0.01
96 48 0.48
97 22 0.22
98 1 0.01
99 29 0.29
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.33
Consensus pattern (97 bp):
TATGTTTCAAGAAAAATTGTCTCAAGAGAGATAAAATCATGTTTCAAGGGAAACAATCTCAAATG
TTGGTGTCTCAAGAGAAACTGTCTCAAAGGTT
Found at i:760891 original size:124 final size:125
Alignment explanation
Indices: 760668--760966 Score: 406
Period size: 124 Copynumber: 2.4 Consensus size: 125
760658 ATTTCTTGTT
* * ** ***
760668 TCAAGGGAAACAATCTCAAATGTTGGTGTTTCAAGAGAAACTGTCTCAAAGGTTGGTGTTTCAAG
1 TCAAGGGAAACATTTTCAAA-GTTTATGTTTCAAGAGAAACTGTCTCAAAAACT-GTGTTTCAAG
** *
760733 ATAATTTGTCTCAAGAGAGATAAAACATGTTTCAAGGGAAACAATCTCAAAGATTTTGTGTC
64 ATAAACTGTCTCAAGAGAGACAAAACATGTTTCAAGGGAAACAATCTCAAAGATTTTGTGTC
760795 TCAAGGGAAACATTTTCAAAGTTTATGTTTCAAGAGAAACTGTCTCAAAAACT-TGTTTCAA-AT
1 TCAAGGGAAACATTTTCAAAGTTTATGTTTCAAGAGAAACTGTCTCAAAAACTGTGTTTCAAGAT
* * *
760858 GAAACTGTCTCAAGGGAGACAAAA-TTCGTTTCAAGGGAAACGATCTCAAAGATTTTGTGTC
66 -AAACTGTCTCAAGAGAGACAAAACAT-GTTTCAAGGGAAACAATCTCAAAGATTTTGTGTC
* *
760919 TCAAGGGAAACATTTTTAAAGTTTATGCTTCAAGAGAAACTGTCTCAA
1 TCAAGGGAAACATTTTCAAAGTTTATGTTTCAAGAGAAACTGTCTCAA
760967 GGGAGATAAA
Statistics
Matches: 155, Mismatches: 15, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
123 3 0.02
124 106 0.68
126 28 0.18
127 18 0.12
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.30
Consensus pattern (125 bp):
TCAAGGGAAACATTTTCAAAGTTTATGTTTCAAGAGAAACTGTCTCAAAAACTGTGTTTCAAGAT
AAACTGTCTCAAGAGAGACAAAACATGTTTCAAGGGAAACAATCTCAAAGATTTTGTGTC
Found at i:760994 original size:36 final size:36
Alignment explanation
Indices: 760947--761230 Score: 233
Period size: 36 Copynumber: 7.9 Consensus size: 36
760937 AAGTTTATGC
* * * *
760947 TTCAAGAGAAACTGTCTCAAGGGAGATAAAATTCGT
1 TTCAAGGGAAACTATCTCAAGCGAGATAAAATTTGT
*
760983 TTCAAGGGAAACGT-TCTCAA---AG-T---TTTGTGT
1 TTCAAGGGAAAC-TATCTCAAGCGAGATAAAATT-TGT
** * *
761013 TTCAAGAAAAACTATCTCAAGGGAGACAAAATTTGT
1 TTCAAGGGAAACTATCTCAAGCGAGATAAAATTTGT
* * * *
761049 TTCGAGGGAAACTGTCTCAAGAGAGACAAAATTTGT
1 TTCAAGGGAAACTATCTCAAGCGAGATAAAATTTGT
* * * *
761085 TTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGT
1 TTCAAGGGAAACTATCTCAAGCGAGATAAAATTTGT
*
761121 TTCAAGGGAAACTATCTCAAGCGAGATTAAATCTTTTGT
1 TTCAAGGGAAACTATCTCAAGCGAGA-TAAA--ATTTGT
* *
761160 TTCAAGGGAAACTACCTCAAACGAGATAAAATCTTCTGT
1 TTCAAGGGAAACTATCTCAAGCGAGATAAAA--TT-TGT
** *
761199 TTTGAGTGAAACTATCTCAAGCGAGATAAAAT
1 TTCAAGGGAAACTATCTCAAGCGAGATAAAAT
761231 ATTCTTTAAA
Statistics
Matches: 205, Mismatches: 27, Indels: 31
0.78 0.10 0.12
Matches are distributed among these distances:
29 3 0.01
30 18 0.09
32 1 0.00
33 4 0.02
36 108 0.53
37 7 0.03
38 6 0.03
39 58 0.28
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.28
Consensus pattern (36 bp):
TTCAAGGGAAACTATCTCAAGCGAGATAAAATTTGT
Found at i:761032 original size:66 final size:64
Alignment explanation
Indices: 760919--761140 Score: 185
Period size: 66 Copynumber: 3.3 Consensus size: 64
760909 ATTTTGTGTC
* * * * *
760919 TCAAGGGAAACATTTTTAAAGTTTATGCTTCAAGAGAAACTGTCTCAAGGGAGATAAAATTCGTT
1 TCAAGGGAAAC-TTCTCAAAGTTTATGCTTCAAGAAAAACTATCTCAAGGGAGACAAAATTCGTT
* * *
760984 TCAAGGGAAACGTTCTCAAAGTTTTGTGTTTCAAGAAAAACTATCTCAAGGGAGACAAAATTTGT
1 TCAAGGGAAAC-TTCTCAAAG-TTTATGCTTCAAGAAAAACTATCTCAAGGGAGACAAAATTCGT
761049 T
64 T
* * * * * *
761050 TCGAGGGAAACTGTCTCAAGAGAGACAAAATT-TGTTTCAAGAGAAACTGTCTCAAGAGAGACAA
1 TCAAGGGAAACT-TCTC-A-A-AG-----TTTATGCTTCAAGAAAAACTATCTCAAGGGAGACAA
*
761114 AATTTGTT
57 AATTCGTT
761122 TCAAGGGAAACTATCTCAA
1 TCAAGGGAAACT-TCTCAA
761141 GCGAGATTAA
Statistics
Matches: 131, Mismatches: 17, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
65 19 0.15
66 52 0.40
67 1 0.01
68 1 0.01
69 2 0.02
70 1 0.01
71 1 0.01
72 52 0.40
73 2 0.02
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (64 bp):
TCAAGGGAAACTTCTCAAAGTTTATGCTTCAAGAAAAACTATCTCAAGGGAGACAAAATTCGTT
Found at i:761091 original size:21 final size:21
Alignment explanation
Indices: 761065--761126 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
761055 GGAAACTGTC
761065 TCAAGAGAGACAAAATTTGTT
1 TCAAGAGAGACAAAATTTGTT
* *
761086 TC-A-AGAG---AAA-CTGTC
1 TCAAGAGAGACAAAATTTGTT
761101 TCAAGAGAGACAAAATTTGTT
1 TCAAGAGAGACAAAATTTGTT
761122 TCAAG
1 TCAAG
761127 GGAAACTATC
Statistics
Matches: 31, Mismatches: 4, Indels: 12
0.66 0.09 0.26
Matches are distributed among these distances:
15 5 0.16
16 4 0.13
17 4 0.13
19 4 0.13
20 4 0.13
21 10 0.32
ACGTcount: A:0.42, C:0.13, G:0.19, T:0.26
Consensus pattern (21 bp):
TCAAGAGAGACAAAATTTGTT
Found at i:765284 original size:31 final size:29
Alignment explanation
Indices: 765242--765299 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 29
765232 CAATAAGAGC
765242 AGACAAAAAGAAATCAATGTTAGTAGAAACA
1 AGACAAAAAG-AATCAA-GTTAGTAGAAACA
* *
765273 AGACAACAAGAATCAAGTTAGTTGAAA
1 AGACAAAAAGAATCAAGTTAGTAGAAA
765300 AGATTAGTCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 10 0.40
30 6 0.24
31 9 0.36
ACGTcount: A:0.55, C:0.10, G:0.17, T:0.17
Consensus pattern (29 bp):
AGACAAAAAGAATCAAGTTAGTAGAAACA
Found at i:766108 original size:18 final size:18
Alignment explanation
Indices: 766049--766096 Score: 96
Period size: 18 Copynumber: 2.7 Consensus size: 18
766039 AAATCGGGTG
766049 ATTTTAATAAAACATTTT
1 ATTTTAATAAAACATTTT
766067 ATTTTAATAAAACATTTT
1 ATTTTAATAAAACATTTT
766085 ATTTTAATAAAA
1 ATTTTAATAAAA
766097 TATTGAGTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (18 bp):
ATTTTAATAAAACATTTT
Found at i:766876 original size:14 final size:15
Alignment explanation
Indices: 766750--766882 Score: 151
Period size: 15 Copynumber: 8.5 Consensus size: 15
766740 TAATAAGGTT
766750 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
766765 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
766780 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
*
766795 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
*
766810 ATTTACTTTAAAATA
1 ATTTATTTTAAAATA
* *
766825 AATTATTATAAAATATGGA
1 ATTTATT-TTAAA-AT--A
766844 TTGATTTATTTTAAAATA
1 ---ATTTATTTTAAAATA
766862 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
766876 ATTTATT
1 ATTTATT
766883 AGTATGAATT
Statistics
Matches: 103, Mismatches: 8, Indels: 15
0.82 0.06 0.12
Matches are distributed among these distances:
14 12 0.12
15 71 0.69
16 4 0.04
17 2 0.02
18 1 0.01
19 1 0.01
20 2 0.02
21 4 0.04
22 6 0.06
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:766901 original size:32 final size:32
Alignment explanation
Indices: 766862--766959 Score: 117
Period size: 32 Copynumber: 3.4 Consensus size: 32
766852 TTTTAAAATA
*
766862 ATTTATTTTAAATAATTTATTAGTATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
766894 ATTTATTTT--A-AA---A-TA-TA--GATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
766916 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
766948 ATTTATTTTAAA
1 ATTTATTTTAAA
766960 ATATGGATTG
Statistics
Matches: 55, Mismatches: 1, Indels: 20
0.72 0.01 0.26
Matches are distributed among these distances:
22 13 0.24
24 3 0.05
25 4 0.07
26 1 0.02
28 1 0.02
29 4 0.07
30 3 0.05
32 26 0.47
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (32 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTG
Found at i:766927 original size:54 final size:54
Alignment explanation
Indices: 766862--767573 Score: 246
Period size: 54 Copynumber: 13.1 Consensus size: 54
766852 TTTTAAAATA
*
766862 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATAGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTG
*
766916 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTG
* * *
766970 ATTTA--TT--AT--TGTAGTT-GTATGAATTGATTTATTTT--AA-ATA-ATTT
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAATATAGATTG
* * * * **
767014 A-TTAGTATAAATTGATTTATTTTAAAATATGGATTGATTTATTTT-AAATAATTTATTAG
1 ATTTATTTTAAA-TAATTTA--TT--AGTATGGATTGATTTATTTTAAAAT-ATAGATT-G
* * ** * * *
767073 TATGTA-TTGATTTATTTTA-AAATATGGATTGATTTATTTTAAATAATTTATTAGTATGTATTG
1 -ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT--A-AA---A-TA-TA-G-ATTG
* ** * ** * * * *
767136 ATTTATTTTAAA-ATATTGATT-G-ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATA-ATTTATTAGTATGGA-TTGATTTATTTTA-AAATATAGATTG
* *
767190 ATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTG
* * *
767244 ATTTA--TT--AT--TGTAGTT-GTATAGATTGATTTATTTTAAATAATTTATTAGTATGG
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTT-AA-AA--TA-TAG-ATTG
* ** * *
767298 ATTGA-TTT--AT--TTTAAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AA-AA--TA-TAG-ATTG
* * * * *
767353 ATTGA-TTT--AT--TTTA-AAATATGAATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTG
*
767401 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT--AA-ATA-ATTT
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTG
* * * * * *** *
767451 ATTT-GTATAGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATTG
1 ATTTATTTTA-AATAATTTA--TT--AGTATGGATTGATTTA-T-TT-TA-AAATATAGATTG
* *
767513 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTG
767567 ATTTATT
1 ATTTATT
767574 ATTGTAGTTG
Statistics
Matches: 506, Mismatches: 86, Indels: 132
0.70 0.12 0.18
Matches are distributed among these distances:
43 3 0.01
44 4 0.01
45 3 0.01
46 2 0.00
47 1 0.00
48 50 0.10
49 14 0.03
50 25 0.05
51 6 0.01
52 12 0.02
53 8 0.02
54 207 0.41
55 74 0.15
56 8 0.02
57 6 0.01
58 19 0.04
59 5 0.01
60 5 0.01
61 9 0.02
62 24 0.05
63 18 0.04
64 3 0.01
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (54 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTG
Found at i:766953 original size:18 final size:18
Alignment explanation
Indices: 766930--766977 Score: 51
Period size: 22 Copynumber: 2.4 Consensus size: 18
766920 ATTTTAAATA
*
766930 ATTTATTAGTATGGATTG
1 ATTTATTAATATGGATTG
766948 ATTTATTTTAAAATATGGATTG
1 ATTTA--TT--AATATGGATTG
766970 ATTTATTA
1 ATTTATTA
766978 TTGTAGTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
18 6 0.24
20 4 0.16
22 15 0.60
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (18 bp):
ATTTATTAATATGGATTG
Found at i:767031 original size:18 final size:17
Alignment explanation
Indices: 766984--767034 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 17
766974 ATTATTGTAG
*
766984 TTGTATGAATTGATTTA
1 TTGTATAAATTGATTTA
*
767001 TT-T-TAAA-TAATTTA
1 TTGTATAAATTGATTTA
767015 TTAGTATAAATTGATTTA
1 TT-GTATAAATTGATTTA
767033 TT
1 TT
767035 TTAAAATATG
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
14 8 0.30
15 3 0.11
16 2 0.07
17 6 0.22
18 8 0.30
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.55
Consensus pattern (17 bp):
TTGTATAAATTGATTTA
Found at i:767032 original size:32 final size:32
Alignment explanation
Indices: 766986--767233 Score: 232
Period size: 32 Copynumber: 8.7 Consensus size: 32
766976 TATTGTAGTT
766986 GTATGAATTGATTTATTTTAAATAATTTATTA
1 GTATGAATTGATTTATTTTAAATAATTTATTA
*
767018 GTATAAATTGATTTATTTT-AA-AA--TA-T-
1 GTATGAATTGATTTATTTTAAATAATTTATTA
767044 G---G-ATTGATTTATTTTAAATAATTTATTA
1 GTATGAATTGATTTATTTTAAATAATTTATTA
*
767072 GTATGTATTGATTTATTTT-AA-AA--TA-T-
1 GTATGAATTGATTTATTTTAAATAATTTATTA
767098 G---G-ATTGATTTATTTTAAATAATTTATTA
1 GTATGAATTGATTTATTTTAAATAATTTATTA
*
767126 GTATGTATTGATTTATTTT--A-AA---A-TA
1 GTATGAATTGATTTATTTTAAATAATTTATTA
767151 -T-TG-ATTGATTTATTTTAAATAATTTATTA
1 GTATGAATTGATTTATTTTAAATAATTTATTA
* *
767180 GTATGGATTGATTTATTTTAAATAATTTATTT
1 GTATGAATTGATTTATTTTAAATAATTTATTA
*
767212 GTATGGATTGATTTATTTTAAA
1 GTATGAATTGATTTATTTTAAA
767234 ATATGGATTG
Statistics
Matches: 183, Mismatches: 3, Indels: 60
0.74 0.01 0.24
Matches are distributed among these distances:
22 39 0.21
23 7 0.04
24 6 0.03
25 4 0.02
26 7 0.04
27 4 0.02
28 7 0.04
29 4 0.02
30 6 0.03
31 8 0.04
32 91 0.50
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (32 bp):
GTATGAATTGATTTATTTTAAATAATTTATTA
Found at i:767089 original size:22 final size:22
Alignment explanation
Indices: 767073--767115 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
767063 AATTTATTAG
*
767073 TATGTATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
767095 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
767116 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:767126 original size:108 final size:110
Alignment explanation
Indices: 766987--767493 Score: 576
Period size: 108 Copynumber: 4.6 Consensus size: 110
766977 ATTGTAGTTG
* *
766987 TATGAATTGATTTATTTTAAATAATTTATTAGTATAAATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGAT
*
767052 TTATTTTAAATAATTTATTAGTATGTATTGATTTATTTT-A-AAA
66 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAATAAA
*
767095 TATGGATTGATTTATTTTAAATAATTTATTAGTAT-GTATTGATTTATTTTAAAATATTGATTGA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATAG-ATTGATTTATTTTAAAATATGGATTGA
767159 TTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTA
65 TTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AATAA---A
* * * * *** *
767209 TTTGTATGGATTGATTTATTTT-AA-AA--TA-T-GGATTGATTTA-TTATTGTAGTTGTATAGA
1 ----TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTA-AAATATGGA
767267 TTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAA-AAA
61 TTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAATAAA
* *
767316 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGAT
** ** * ** * * *
767381 TTATTTTAAA-ATATGGATT-G-ATTTATTTTAAATAATTT-ATTAG
66 TTATTTTAAATA-ATTTATTAGTATGGA-TTGATTTATTTTAATAAA
*
767424 TATGGATTGATTTATTTTAAATAATTTATTTGTATAGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGAT
767489 TTATT
66 TTATT
767494 ATTGTAGTTG
Statistics
Matches: 343, Mismatches: 33, Indels: 46
0.81 0.08 0.11
Matches are distributed among these distances:
103 18 0.05
104 2 0.01
105 2 0.01
107 7 0.02
108 178 0.52
109 32 0.09
110 10 0.03
111 11 0.03
112 56 0.16
113 2 0.01
114 3 0.01
116 2 0.01
117 2 0.01
118 18 0.05
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (110 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGAT
TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAATAAA
Found at i:767306 original size:32 final size:32
Alignment explanation
Indices: 767260--767476 Score: 195
Period size: 32 Copynumber: 7.7 Consensus size: 32
767250 TATTGTAGTT
*
767260 GTATAGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
767292 GTATGGATTGATTTATTTT--A-AA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
767316 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
767347 GTATGGATTGATTTATTTT-AA-AA--TA-T-
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
767373 G-A---ATTGATTTATTTTAAAA---------
1 GTATGGATTGATTTATTTTAAATAATTTATTA
767392 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
767423 GTATGGATTGATTTATTTTAAATAATTTATTT
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
767455 GTATAGATTGATTTATTTTAAA
1 GTATGGATTGATTTATTTTAAA
767477 ATATGGATTG
Statistics
Matches: 156, Mismatches: 4, Indels: 50
0.74 0.02 0.24
Matches are distributed among these distances:
19 1 0.01
22 29 0.19
23 20 0.13
24 1 0.01
25 2 0.01
26 4 0.03
27 1 0.01
28 2 0.01
29 3 0.02
30 3 0.02
31 3 0.02
32 87 0.56
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (32 bp):
GTATGGATTGATTTATTTTAAATAATTTATTA
Found at i:767319 original size:23 final size:23
Alignment explanation
Indices: 767293--767412 Score: 118
Period size: 22 Copynumber: 4.9 Consensus size: 23
767283 AATTTATTAG
767293 TATGGATTGATTTATTTTAAAAA
1 TATGGATTGATTTATTTTAAAAA
767316 TATGGATTGATTTATTTTAAATAA
1 TATGGATTGATTTATTTTAAA-AA
* *
767340 TTTATTAGTATGGATTGATTTATTTT-AAAA
1 --TA-T-GGATTGA----TTTATTTTAAAAA
*
767370 TATGAATTGATTTATTTT-AAAA
1 TATGGATTGATTTATTTTAAAAA
767392 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
767413 TAATTTATTA
Statistics
Matches: 82, Mismatches: 5, Indels: 20
0.77 0.05 0.19
Matches are distributed among these distances:
22 29 0.35
23 23 0.28
24 2 0.02
26 7 0.09
27 2 0.02
28 7 0.09
30 2 0.02
31 2 0.02
32 8 0.10
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (23 bp):
TATGGATTGATTTATTTTAAAAA
Found at i:767373 original size:22 final size:22
Alignment explanation
Indices: 767348--767412 Score: 121
Period size: 22 Copynumber: 3.0 Consensus size: 22
767338 AATTTATTAG
767348 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
*
767370 TATGAATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
767392 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
767413 TAATTTATTA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:767424 original size:243 final size:236
Alignment explanation
Indices: 767113--767659 Score: 864
Period size: 243 Copynumber: 2.3 Consensus size: 236
767103 GATTTATTTT
* * * *
767113 AAATAATTTATTAGTATGTATTGATTTATTTTAAAATATTGATTGATTTATTTTAAATAATTTAT
1 AAATAA-TTAATAATATGAATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTAT
*
767178 TAGTATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATT
65 TAGTATGGATTGATTTATTTTAAATAATTTATTTGTATAGATTGATTTATTTTAAAATATGGATT
*
767243 GATTTATTATTGTAGTTGTATAGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTAT
130 GATTTATTATTGTAGTTGTATAGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTAT
*
767308 TTTAAAAATATGGATTGATTTATTTTAAATAATTTA-TTAGTATGGATTG
195 TTT-AAAATATGGATTGATTTA--TT--AT--TGTAGTT-GTATGGATTG
** *
767357 ATTTATTTTAA-AATATGAATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTAT
1 AAATA-ATTAATAATATGAATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTAT
767421 TAGTATGGATTGATTTATTTTAAATAATTTATTTGTATAGATTGATTTATTTTAAAATATGGATT
65 TAGTATGGATTGATTTATTTTAAATAATTTATTTGTATAGATTGATTTATTTTAAAATATGGATT
*
767486 GATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTAT
130 GATTTATTATTGTAGTTGTATAGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTAT
767551 TTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATTG
195 TTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATTG
* *
767593 AAATAATTAATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTAT
1 AAATAATTAA-TAATATGAATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTAT
767658 TA
65 TA
767660 TTGTAGTTGT
Statistics
Matches: 283, Mismatches: 16, Indels: 15
0.90 0.05 0.05
Matches are distributed among these distances:
235 4 0.01
236 16 0.06
237 55 0.19
238 2 0.01
240 2 0.01
242 18 0.06
243 180 0.64
244 6 0.02
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (236 bp):
AAATAATTAATAATATGAATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATT
AGTATGGATTGATTTATTTTAAATAATTTATTTGTATAGATTGATTTATTTTAAAATATGGATTG
ATTTATTATTGTAGTTGTATAGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATT
TTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATTG
Found at i:767507 original size:26 final size:25
Alignment explanation
Indices: 767478--767622 Score: 86
Period size: 26 Copynumber: 5.6 Consensus size: 25
767468 TATTTTAAAA
767478 TATGGATTGATTTATTATTGTAGTTG
1 TATGGATTGATTTATTATTGTA-TTG
*
767504 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTA--TT--AT--TGTATT-G
* ***
767536 TATGAATTGATTTA-T-TT-TAAAA
1 TATGGATTGATTTATTATTGTATTG
767558 TATGGATTGATTTATTATTGTAGTTG
1 TATGGATTGATTTATTATTGTA-TTG
* * *
767584 TATGGATTGA--AATAATT-AATTAG
1 TATGGATTGATTTATTATTGTATT-G
767607 TATGGATTGATTTATT
1 TATGGATTGATTTATT
767623 TTAAAATATG
Statistics
Matches: 91, Mismatches: 14, Indels: 29
0.68 0.10 0.22
Matches are distributed among these distances:
22 15 0.16
23 15 0.16
24 8 0.09
25 4 0.04
26 25 0.27
28 2 0.02
29 1 0.01
30 2 0.02
31 2 0.02
32 17 0.19
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (25 bp):
TATGGATTGATTTATTATTGTATTG
Found at i:767635 original size:22 final size:22
Alignment explanation
Indices: 767536--767649 Score: 95
Period size: 22 Copynumber: 5.0 Consensus size: 22
767526 AATTTATTAG
*
767536 TATGAATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
***
767558 TATGGATTGATTTATTATTGTAGTTG
1 TATGGATTGATTTA-T-TT-TA-AAA
** * *
767584 TATGGATTGAAATA-ATTAATTAG
1 TATGGATTGATTTATTTTAA--AA
767607 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
767629 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
767650 TAATTTATTA
Statistics
Matches: 72, Mismatches: 13, Indels: 14
0.73 0.13 0.14
Matches are distributed among these distances:
22 37 0.51
23 15 0.21
24 6 0.08
25 2 0.03
26 12 0.17
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:767709 original size:31 final size:31
Alignment explanation
Indices: 767674--767732 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
767664 AGTTGTATGG
* *
767674 ATTATTTAAATTTCAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAGTATTGCAAAACTAAA
767705 ATTATTTAAATCTCAGTATTGCAAAACT
1 ATTATTTAAATCTCAGTATTGCAAAACT
767733 CTTTTAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (31 bp):
ATTATTTAAATCTCAGTATTGCAAAACTAAA
Found at i:768809 original size:2 final size:2
Alignment explanation
Indices: 768802--768861 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
768792 CAGTGCATGC
768802 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
768844 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
768862 TTTATGTTAA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:769871 original size:2 final size:2
Alignment explanation
Indices: 769864--769926 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
769854 GTATCGATAC
769864 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
769906 AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
769927 AGTATTCAAA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:770469 original size:75 final size:75
Alignment explanation
Indices: 770384--770562 Score: 241
Period size: 75 Copynumber: 2.4 Consensus size: 75
770374 CTTAACTGGT
* * * * * *
770384 TAAAATAAAATAGGCGCTACTTATTATGTTAAACTACCTATCGGTTTGTTTGAAGGTTACTAAAA
1 TAAAATAAAATAGGCGCTACATATTATGTTAAAATACATATCGGTTTGTTTAAAGATTACGAAAA
770449 ATGAAAACGG
66 ATGAAAACGG
* * * ** *
770459 TAAAATAAAATATGTGCTACCTATTACATTAAAATACATATCGGTTTGTTTAAAGATTACGAATA
1 TAAAATAAAATAGGCGCTACATATTATGTTAAAATACATATCGGTTTGTTTAAAGATTACGAAAA
*
770524 ATGTAAACGG
66 ATGAAAACGG
770534 TAAAATAAAATAGGCGCTACATATTATGT
1 TAAAATAAAATAGGCGCTACATATTATGT
770563 CAAATAGACG
Statistics
Matches: 87, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
75 87 1.00
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.32
Consensus pattern (75 bp):
TAAAATAAAATAGGCGCTACATATTATGTTAAAATACATATCGGTTTGTTTAAAGATTACGAAAA
ATGAAAACGG
Found at i:770581 original size:23 final size:23
Alignment explanation
Indices: 770541--770608 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 23
770531 CGGTAAAATA
* * * *
770541 AAATAGGCGCTACATATTATGTC
1 AAATAGACGTTACCTATTACGTC
*
770564 AAATAGACGTTACCTATTACGTT
1 AAATAGACGTTACCTATTACGTC
*
770587 AAATA-ATTGTTACCTATTACGT
1 AAATAGA-CGTTACCTATTACGT
770609 TAAACTAGCT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
22 1 0.03
23 37 0.97
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (23 bp):
AAATAGACGTTACCTATTACGTC
Found at i:770761 original size:23 final size:23
Alignment explanation
Indices: 770748--770806 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 23
770738 TATGTGTTAT
*
770748 CTATTACGTTAAATATGCGCTAC
1 CTATTACGTTAAATATGCGATAC
* *
770771 CTATTATGTTAAATAAGCGATAC
1 CTATTACGTTAAATATGCGATAC
770794 CTATTACGTTAAA
1 CTATTACGTTAAA
770807 CTAGCTACCG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.36
Consensus pattern (23 bp):
CTATTACGTTAAATATGCGATAC
Found at i:770774 original size:194 final size:195
Alignment explanation
Indices: 770391--770855 Score: 598
Period size: 194 Copynumber: 2.4 Consensus size: 195
770381 GGTTAAAATA
* * * * * * * * * *
770391 AAATAGGCGCTACTTATTATGTTAAACTACCTATCGGTTTGTTTGAAGGTTACTAAAAATGAAAA
1 AAATAAGCGATACCTATTACGTTAAACTAGCTACCGGTTTGTTTAAAGGTTAATAATAATGTAAA
* *
770456 CGGTAAAATAAAATATGTGCTACCTATTACATTAAAATACATATCGGTTTGTTTAAAGATTACGA
66 CGGTAAAATAAAATATGTACTACCTA-TACATTAAAATACATACCGGTTTGTTTAAAGATTACGA
* * *
770521 ATAATGTAAACGGTAAAATAAAATAGGCGCTACATATTATGTCAAATAGACGTTACCTATTACGT
130 ATAATGTAAAAGGTAAAATAAAATAGGCGCTACATATTACGTCAAATAGACGCTACCTATTACGT
770586 T
195 T
** * * *
770587 AAATAATTGTTACCTATTACGTTAAACTAGCTACCAGTTTGTTTAAATGTTAATAATAATGTAAA
1 AAATAAGCGATACCTATTACGTTAAACTAGCTACCGGTTTGTTTAAAGGTTAATAATAATGTAAA
* *
770652 CGGTAAAATAAAATA-GATACTACCTA-ACATTAAAATACCTACCGGTTTGTTTAAATG-TTACT
66 CGGTAAAATAAAATATG-TACTACCTATACATTAAAATACATACCGGTTTGTTTAAA-GATTACG
* * * *
770714 AATAATGTAAAAGGTAAAATAAAATATGTGTTATC-TATTACGTTAAATATG-CGCTACCTATTA
129 AATAATGTAAAAGGTAAAATAAAATAGGCGCTA-CATATTACGTCAAATA-GACGCTACCTATTA
*
770777 TGTT
192 CGTT
770781 AAATAAGCGATACCTATTACGTTAAACTAGCTACCGGTTTGTTTAAAGGTTAATAATAATGTAAA
1 AAATAAGCGATACCTATTACGTTAAACTAGCTACCGGTTTGTTTAAAGGTTAATAATAATGTAAA
*
770846 CGCTAAAATA
66 CGGTAAAATA
770856 TATACAACTT
Statistics
Matches: 233, Mismatches: 32, Indels: 10
0.85 0.12 0.04
Matches are distributed among these distances:
194 155 0.67
195 4 0.02
196 74 0.32
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (195 bp):
AAATAAGCGATACCTATTACGTTAAACTAGCTACCGGTTTGTTTAAAGGTTAATAATAATGTAAA
CGGTAAAATAAAATATGTACTACCTATACATTAAAATACATACCGGTTTGTTTAAAGATTACGAA
TAATGTAAAAGGTAAAATAAAATAGGCGCTACATATTACGTCAAATAGACGCTACCTATTACGTT
Found at i:771112 original size:17 final size:17
Alignment explanation
Indices: 771090--771125 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
771080 CTCTAAAGGT
771090 TAATAATAATGTATCCA
1 TAATAATAATGTATCCA
771107 TAATAATAATGTATCCA
1 TAATAATAATGTATCCA
771124 TA
1 TA
771126 CTTACTCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.47, C:0.11, G:0.06, T:0.36
Consensus pattern (17 bp):
TAATAATAATGTATCCA
Found at i:771526 original size:108 final size:108
Alignment explanation
Indices: 771332--771826 Score: 442
Period size: 108 Copynumber: 4.5 Consensus size: 108
771322 TGCTAATATT
* * * * * * *
771332 TATTTATAACAAAATAAGAAATTGACATATTTTGTTGTCGTGAGATTTCGAAGGCCCTATCAGCT
1 TATTAATAACAAAATAAGTAATTAACATATTTTGTTATCGTCAGATTTCTAAGGCCCCATCAGCT
* * *
771397 TAAATTTTGGTAACATTTTAGGCGTTACCTAATATGTTGATAA
66 TAAACTTTGATAACATTTTAGGCGCTACCTAATATGTTGATAA
* *
771440 TATTAATAACAAAATAAGTAATTAATATATTTTGTTATCGTTAGATTTCTAAGGCCCCATCAGCT
1 TATTAATAACAAAATAAGTAATTAACATATTTTGTTATCGTCAGATTTCTAAGGCCCCATCAGCT
* *
771505 TAAACTTTGATAATATTTTAGGTGCTACCTAATATGTTGATAA
66 TAAACTTTGATAACATTTTAGGCGCTACCTAATATGTTGATAA
* * * * *
771548 TATTGAA-AACAAATTAAGTAATTAACATATTTTATTATAGTCAGATTTCTAATGCCCCATCAAC
1 TATT-AATAACAAAATAAGTAATTAACATATTTTGTTATCGTCAGATTTCTAAGGCCCCATCAGC
* ** * * ** * *
771612 TTTAAAAATACGCTACATATTATATTAAATAAACGCTA-CTAGTTATGTT-ATTA
65 -TT---AA-AC-TTTGATA--ACATT--TTAGGCGCTACCTA-ATATGTTGATAA
* * ** * * * * *
771665 TGGTTAATAA-TATTTCCAGTAATTAACCTATTTTGTTATCGTCGGATTTCTAAGGCTCTATCAG
1 T-ATTAATAACAAAAT-AAGTAATTAACATATTTTGTTATCGTCAGATTTCTAAGGCCCCATCAG
* * *
771729 CTTAAATTTTGGTAACATTTTAGGCGCTACATAATATGTTGATAA
64 CTTAAACTTTGATAACATTTTAGGCGCTACCTAATATGTTGATAA
* *
771774 TATTGATAAC-AAATCAAGTAATTAACATAGTTTGTTATCGTCAGATTTCTAAG
1 TATTAATAACAAAAT-AAGTAATTAACATATTTTGTTATCGTCAGATTTCTAAG
771827 ACCTCGTTAG
Statistics
Matches: 308, Mismatches: 61, Indels: 36
0.76 0.15 0.09
Matches are distributed among these distances:
108 205 0.67
109 10 0.03
110 4 0.01
112 5 0.02
113 3 0.01
114 6 0.02
116 5 0.02
117 14 0.05
118 56 0.18
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (108 bp):
TATTAATAACAAAATAAGTAATTAACATATTTTGTTATCGTCAGATTTCTAAGGCCCCATCAGCT
TAAACTTTGATAACATTTTAGGCGCTACCTAATATGTTGATAA
Found at i:771843 original size:226 final size:226
Alignment explanation
Indices: 771456--771913 Score: 625
Period size: 226 Copynumber: 2.0 Consensus size: 226
771446 TAACAAAATA
* * *
771456 AGTAATTAATATATTTTGTTATCGTTAGATTTCTAAGGCCCCATCAGCTTAAACTTTGATAATAT
1 AGTAATTAACATATTTTGTTATCGTCAGATTTCTAAGGCCCCATCAGCTTAAACTTTGATAACAT
* * * *
771521 TTTAGGTGCTACCTAATATGTTGATAATATTGAAAACAAATTAAGTAATTAACATATTTTATTAT
66 TTTAGGCGCTACATAATATGTTGATAATATTGAAAACAAATCAAGTAATTAACATAGTTTATTAT
* *
771586 AGTCAGATTTCTAATGCCCCATCAACTTTAAAAAT-ACGCTACATATTATATTAAATAAACGCTA
131 AGTCAGATTTCTAATGCCCCATCAACTTTAAAAATGA-GCTACATATTACATTAAATAAACACTA
771650 -CTAGTTATGTTATTATGGTTAATAATATTTCC
195 CCT-GTTATGTTATTATGGTTAATAATATTTCC
* * * * * *
771682 AGTAATTAACCTATTTTGTTATCGTCGGATTTCTAAGGCTCTATCAGCTTAAATTTTGGTAACAT
1 AGTAATTAACATATTTTGTTATCGTCAGATTTCTAAGGCCCCATCAGCTTAAACTTTGATAACAT
* *
771747 TTTAGGCGCTACATAATATGTTGATAATATTGATAACAAATCAAGTAATTAACATAGTTTGTTAT
66 TTTAGGCGCTACATAATATGTTGATAATATTGAAAACAAATCAAGTAATTAACATAGTTTATTAT
* * * * * * * *
771812 CGTCAGATTTCTAA-GACCTCGTTAGCTTTAAAAATGAGCTACCTATTACATTACATAAGCACTA
131 AGTCAGATTTCTAATG-CCCCATCAACTTTAAAAATGAGCTACATATTACATTAAATAAACACTA
* *
771876 CCTGTTATGTTATTATGGTTGATAATGTTTCC
195 CCTGTTATGTTATTATGGTTAATAATATTTCC
771908 AGTAAT
1 AGTAAT
771914 AAATCGGTTA
Statistics
Matches: 202, Mismatches: 27, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
225 1 0.00
226 198 0.98
227 3 0.01
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.39
Consensus pattern (226 bp):
AGTAATTAACATATTTTGTTATCGTCAGATTTCTAAGGCCCCATCAGCTTAAACTTTGATAACAT
TTTAGGCGCTACATAATATGTTGATAATATTGAAAACAAATCAAGTAATTAACATAGTTTATTAT
AGTCAGATTTCTAATGCCCCATCAACTTTAAAAATGAGCTACATATTACATTAAATAAACACTAC
CTGTTATGTTATTATGGTTAATAATATTTCC
Found at i:772275 original size:21 final size:21
Alignment explanation
Indices: 772251--772310 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
772241 ACAAATGAAA
772251 TATTTAATTTT-TAAAATAATT
1 TATTTAATTTTATAAAATAA-T
772272 TATTT-ATTTTAATAAACATAAT
1 TATTTAATTTT-ATAAA-ATAAT
*
772294 T-TTTAATTTTCTAAAAT
1 TATTTAATTTTATAAAAT
772311 TAACTAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
20 7 0.21
21 12 0.35
22 11 0.32
23 4 0.12
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (21 bp):
TATTTAATTTTATAAAATAAT
Found at i:772294 original size:23 final size:21
Alignment explanation
Indices: 772253--772303 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
772243 AAATGAAATA
772253 TTTAATTTT--TAAAATAATT
1 TTTAATTTTAATAAAATAATT
*
772272 TATTTATTTTAATAAACATAATT
1 T-TTAATTTTAATAAA-ATAATT
772295 TTTAATTTT
1 TTTAATTTT
772304 CTAAAATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 1 0.04
20 7 0.27
22 11 0.42
23 7 0.27
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (21 bp):
TTTAATTTTAATAAAATAATT
Found at i:775145 original size:27 final size:29
Alignment explanation
Indices: 775090--775145 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
775080 TCAGAAGATA
775090 ATAAATTAGGAGACTCTATGAAAATAATGT
1 ATAAATTAGGAGAC-CTATGAAAATAATGT
*
775120 ATAAATTAGGAGA-C-ATGAATATAATG
1 ATAAATTAGGAGACCTATGAAAATAATG
775146 ATGATATGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 11 0.44
28 1 0.04
30 13 0.52
ACGTcount: A:0.48, C:0.05, G:0.18, T:0.29
Consensus pattern (29 bp):
ATAAATTAGGAGACCTATGAAAATAATGT
Found at i:775855 original size:18 final size:18
Alignment explanation
Indices: 775832--775874 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
775822 TTAAGGAGTA
*
775832 GTCATTCGGGACATAGTG
1 GTCATTCGGGACAAAGTG
*
775850 GTCATTTGGGACAAAGTG
1 GTCATTCGGGACAAAGTG
775868 GTCATTC
1 GTCATTC
775875 AAGACAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.30
Consensus pattern (18 bp):
GTCATTCGGGACAAAGTG
Found at i:780335 original size:27 final size:29
Alignment explanation
Indices: 780280--780335 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
780270 TCAGAAGATA
780280 ATAAATTAGGAGACTCTATGAAAATAATGT
1 ATAAATTAGGAGAC-CTATGAAAATAATGT
*
780310 ATAAATTAGGAGA-C-ATGAATATAATG
1 ATAAATTAGGAGACCTATGAAAATAATG
780336 ATGATACGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 11 0.44
28 1 0.04
30 13 0.52
ACGTcount: A:0.48, C:0.05, G:0.18, T:0.29
Consensus pattern (29 bp):
ATAAATTAGGAGACCTATGAAAATAATGT
Found at i:794604 original size:24 final size:22
Alignment explanation
Indices: 794562--794606 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 22
794552 ATTCATGTGA
794562 TTTAAATAACTACATGATCATT
1 TTTAAATAACTACATGATCATT
794584 TTTACAATATACTAC-TGGATCAT
1 TTTA-AATA-ACTACAT-GATCAT
794607 GATTTTGATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 4 0.20
23 5 0.25
24 11 0.55
ACGTcount: A:0.38, C:0.16, G:0.07, T:0.40
Consensus pattern (22 bp):
TTTAAATAACTACATGATCATT
Found at i:796832 original size:53 final size:53
Alignment explanation
Indices: 796774--797138 Score: 477
Period size: 53 Copynumber: 6.9 Consensus size: 53
796764 GAATCACACC
* ** *
796774 AGAAGATTGTTCGAGTTATACTCCCCGAAGCAAGAGGGAGCGAACCCATAGGA
1 AGAAGATTGTTCGAGTTCTACTCCTTGAAGCAAGAGGGAGCGAACCCGTAGGA
* *
796827 AGAAGATTGTTCGAGTTCTACTCCTTGAAGCAAAAGGGAGCGAACCCGT-CGA
1 AGAAGATTGTTCGAGTTCTACTCCTTGAAGCAAGAGGGAGCGAACCCGTAGGA
*
796879 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTA-GA
1 -AGAAGATTGTTCGAGTTCTACTCCTTGAAGCAAGAGGGAGCGAACCCGTAGGA
* ** * * * *
796932 CAGAAGATTGTTCGATTTCTAAGCCCTGAAGTAAGAAGGAACGAACCCGTAGGA
1 -AGAAGATTGTTCGAGTTCTACTCCTTGAAGCAAGAGGGAGCGAACCCGTAGGA
* * *
796986 AGAAGATTGTTCGAGTTCTACTCCTTGAAGCAAAAAGGAGCGAACCTGTA-GA
1 AGAAGATTGTTCGAGTTCTACTCCTTGAAGCAAGAGGGAGCGAACCCGTAGGA
*
797038 CAGAAGATTGTTCGAGTTCTACTCCTTGAAGCAAGAGGGAGTGAACCCGTAGGA
1 -AGAAGATTGTTCGAGTTCTACTCCTTGAAGCAAGAGGGAGCGAACCCGTAGGA
* * *
797092 AGAAGATAT-TTTGAGTTCTATTCCTTGAAGCAAAAGGGAGCGAACCC
1 AGAAGAT-TGTTCGAGTTCTACTCCTTGAAGCAAGAGGGAGCGAACCC
797139 ACTGGTTGAA
Statistics
Matches: 276, Mismatches: 30, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
52 4 0.01
53 267 0.97
54 5 0.02
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (53 bp):
AGAAGATTGTTCGAGTTCTACTCCTTGAAGCAAGAGGGAGCGAACCCGTAGGA
Found at i:805834 original size:146 final size:147
Alignment explanation
Indices: 805570--805864 Score: 538
Period size: 146 Copynumber: 2.0 Consensus size: 147
805560 AAAACATTAA
*
805570 AAAGAGCTATTGATTCTTTTTAATATTCTTTGAACTCATGTTTATGGTTTGATTTGATTGTGAGC
1 AAAGAGCTATTGATTCTTTTTAATATTCTTTGAACTCATGTTTATGATTTGATTTGATTGTGAGC
* *
805635 TTGAATTAAGGGGCAATTTTTTGTAAAATTCTTTCATTCTTTGATCCCTAAAATAAGAGAAAG-A
66 TTGAATTAAGGGGCAATTTTTTGTAAAATTATTTCATTATTTGATCCCTAAAATAAGAGAAAGAA
*
805699 GAAAAACATTTTCAAAC
131 AAAAAACATTTTCAAAC
805716 AAAGAGCTATTGATTCTTTTTAATATTCTTTGAACTCATGTTTATGATTTGATTTGATTGTGAGC
1 AAAGAGCTATTGATTCTTTTTAATATTCTTTGAACTCATGTTTATGATTTGATTTGATTGTGAGC
*
805781 TTGAATTAAGGGGTAATTTTTTGTAAAATTATTTCATTATTTGATCCCTAAAATAAGAGAAAGAA
66 TTGAATTAAGGGGCAATTTTTTGTAAAATTATTTCATTATTTGATCCCTAAAATAAGAGAAAGAA
805846 AAAAAACATTTTCAAAC
131 AAAAAACATTTTCAAAC
805863 AA
1 AA
805865 GACAGTCTCA
Statistics
Matches: 143, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
146 124 0.87
147 19 0.13
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (147 bp):
AAAGAGCTATTGATTCTTTTTAATATTCTTTGAACTCATGTTTATGATTTGATTTGATTGTGAGC
TTGAATTAAGGGGCAATTTTTTGTAAAATTATTTCATTATTTGATCCCTAAAATAAGAGAAAGAA
AAAAAACATTTTCAAAC
Found at i:807221 original size:22 final size:21
Alignment explanation
Indices: 807189--807263 Score: 64
Period size: 22 Copynumber: 3.5 Consensus size: 21
807179 GTGTCATCAG
*
807189 TAAGTCTTTCGAGCATGATGA
1 TAAGTCCTTCGAGCATGATGA
* *
807210 TGAAGTCCTTCGGGCCATCA-G-
1 T-AAGTCCTTCGAG-CATGATGA
*
807231 TAAGTCTTTCGAGCATGATGA
1 TAAGTCCTTCGAGCATGATGA
*
807252 TTAAATCCTTCG
1 -TAAGTCCTTCG
807264 GGTAATTTGT
Statistics
Matches: 41, Mismatches: 8, Indels: 9
0.71 0.14 0.16
Matches are distributed among these distances:
19 4 0.10
20 11 0.27
21 2 0.05
22 20 0.49
23 4 0.10
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (21 bp):
TAAGTCCTTCGAGCATGATGA
Found at i:807241 original size:20 final size:19
Alignment explanation
Indices: 807183--807246 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 19
807173 CAATAAGTGT
807183 CATCAGTAAGTCTTTCGAG
1 CATCAGTAAGTCTTTCGAG
* * *
807202 CATGATGATGAAGTCCTTCGGG
1 CATCA-G-T-AAGTCTTTCGAG
807224 CCATCAGTAAGTCTTTCGAG
1 -CATCAGTAAGTCTTTCGAG
807244 CAT
1 CAT
807247 GATGATTAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
19 7 0.20
20 11 0.31
21 2 0.06
22 11 0.31
23 4 0.11
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (19 bp):
CATCAGTAAGTCTTTCGAG
Found at i:807242 original size:42 final size:42
Alignment explanation
Indices: 807183--807265 Score: 148
Period size: 42 Copynumber: 2.0 Consensus size: 42
807173 CAATAAGTGT
*
807183 CATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGGGC
1 CATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGGGC
*
807225 CATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGG
1 CATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGGG
807266 TAATTTGTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.30
Consensus pattern (42 bp):
CATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGGGC
Found at i:807322 original size:13 final size:13
Alignment explanation
Indices: 807304--807328 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
807294 TGAAGCAAAT
807304 CCATCAGTAAGTG
1 CCATCAGTAAGTG
807317 CCATCAGTAAGT
1 CCATCAGTAAGT
807329 CTTTCGAGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (13 bp):
CCATCAGTAAGTG
Found at i:807322 original size:135 final size:135
Alignment explanation
Indices: 807077--807348 Score: 463
Period size: 135 Copynumber: 2.0 Consensus size: 135
807067 TAAACAATTT
* * *
807077 AAGTCCTTTGGGCCATCAGTAAGGCTTTCGAGCATGATGATTAAGTCTTTCAGGTAATTTGTAAG
1 AAGTCCTTCGGGCCATCAGTAAGGCTTTCGAGCATGATGATTAAATCCTTCAGGTAATTTGTAAG
*
807142 CCTTCACCGAAGAGTAGTGAAGCAAACCCATCAATAAGTGTCATCAGTAAGTCTTTCGAGCATGA
66 CCTTCACCGAAGAGTAGTGAAGCAAACCCATCAATAAGTGCCATCAGTAAGTCTTTCGAGCATGA
807207 TGATG
131 TGATG
* *
807212 AAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTGTAAG
1 AAGTCCTTCGGGCCATCAGTAAGGCTTTCGAGCATGATGATTAAATCCTTCAGGTAATTTGTAAG
* * *
807277 CCTTCACTGAAGAGTAGTGAAGCAAATCCATCAGTAAGTGCCATCAGTAAGTCTTTCGAGCATGA
66 CCTTCACCGAAGAGTAGTGAAGCAAACCCATCAATAAGTGCCATCAGTAAGTCTTTCGAGCATGA
807342 TGATG
131 TGATG
807347 AA
1 AA
807349 TTCTTTCGAG
Statistics
Matches: 128, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
135 128 1.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.29
Consensus pattern (135 bp):
AAGTCCTTCGGGCCATCAGTAAGGCTTTCGAGCATGATGATTAAATCCTTCAGGTAATTTGTAAG
CCTTCACCGAAGAGTAGTGAAGCAAACCCATCAATAAGTGCCATCAGTAAGTCTTTCGAGCATGA
TGATG
Found at i:807356 original size:22 final size:21
Alignment explanation
Indices: 807328--807456 Score: 86
Period size: 22 Copynumber: 6.0 Consensus size: 21
807318 CATCAGTAAG
*
807328 TCTTTCGAGCATGATGATGAAT
1 TCTTTCGAGCATGATGAT-AAA
*
807350 TCTTTCGAGCATAATGATTAAA
1 TCTTTCGAGCATGATGA-TAAA
* * * *
807372 TCTTTTGGGTCATCA-G-TAAG
1 TCTTTCGAG-CATGATGATAAA
807392 TCTTTCGAGCATGATGATTAAA
1 TCTTTCGAGCATGATGA-TAAA
* * * *
807414 TCATTCGGGCCATCA-G-TAAG
1 TCTTTCGAG-CATGATGATAAA
807434 TCTTTCGAGCATGATGATTAAA
1 TCTTTCGAGCATGATGA-TAAA
807456 T
1 T
807457 TATTCGGGTC
Statistics
Matches: 80, Mismatches: 18, Indels: 18
0.69 0.16 0.16
Matches are distributed among these distances:
19 8 0.10
20 22 0.28
22 41 0.51
23 9 0.11
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.36
Consensus pattern (21 bp):
TCTTTCGAGCATGATGATAAA
Found at i:807397 original size:42 final size:42
Alignment explanation
Indices: 807350--807523 Score: 187
Period size: 42 Copynumber: 4.2 Consensus size: 42
807340 GATGATGAAT
*
807350 TCTTTCGAGCATAATGATTAAATCTTTTGGGTCATCAGTAAG
1 TCTTTCGAGCATAATGATTAAATCTTTCGGGTCATCAGTAAG
* * *
807392 TCTTTCGAGCATGATGATTAAATCATTCGGGCCATCAGTAAG
1 TCTTTCGAGCATAATGATTAAATCTTTCGGGTCATCAGTAAG
* *** *
807434 TCTTTCGAGCATGATGATTAAAT-TATTCGGGTCATTTTTGAG
1 TCTTTCGAGCATAATGATTAAATCT-TTCGGGTCATCAGTAAG
807476 TCTTTCGAG-A-AA-GATAATAAATCTTTCGGGTCATCCA-TAAG
1 TCTTTCGAGCATAATGAT--TAAATCTTTCGGGTCAT-CAGTAAG
*
807517 TCATTCG
1 TCTTTCG
807524 GGTAGGATGT
Statistics
Matches: 112, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
39 3 0.03
40 1 0.01
41 25 0.22
42 83 0.74
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (42 bp):
TCTTTCGAGCATAATGATTAAATCTTTCGGGTCATCAGTAAG
Found at i:808003 original size:53 final size:53
Alignment explanation
Indices: 807945--808309 Score: 477
Period size: 53 Copynumber: 6.9 Consensus size: 53
807935 GAATCACACC
* ** *
807945 AGAAGATTGTTCGAGTTATACTCCCCGAAGCAAGAGGGAGCGAACCCATAGGA
1 AGAAGATTGTTCGAGTTCTACTCCTTGAAGCAAGAGGGAGCGAACCCGTAGGA
* * *
807998 AGAAGATTGTTCGAGTTCTACTCCTTGAAGCAAAAGGGAGCGAACCTGT-CGA
1 AGAAGATTGTTCGAGTTCTACTCCTTGAAGCAAGAGGGAGCGAACCCGTAGGA
*
808050 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTA-GA
1 -AGAAGATTGTTCGAGTTCTACTCCTTGAAGCAAGAGGGAGCGAACCCGTAGGA
* ** * * * *
808103 CAGAAGATTGTTCGATTTCTAAGCCCTGAAGTAAGAAGGAACGAACCCGTAGGA
1 -AGAAGATTGTTCGAGTTCTACTCCTTGAAGCAAGAGGGAGCGAACCCGTAGGA
* * *
808157 AGAAGATTGTTCGAGTTCTACTCCTTGAAGCAAAAAGGAGCGAACCTGTA-GA
1 AGAAGATTGTTCGAGTTCTACTCCTTGAAGCAAGAGGGAGCGAACCCGTAGGA
*
808209 CAGAAGATTGTTCGAGTTCTACTCCTTGAAGCAAGAGGGAGTGAACCCGTAGGA
1 -AGAAGATTGTTCGAGTTCTACTCCTTGAAGCAAGAGGGAGCGAACCCGTAGGA
* *
808263 AGAAGATAT-TTTGAGTTCTATTCCTTGAAGCAAGAGGGAGCGAACCC
1 AGAAGAT-TGTTCGAGTTCTACTCCTTGAAGCAAGAGGGAGCGAACCC
808310 ACTGGTTGAA
Statistics
Matches: 275, Mismatches: 31, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
52 4 0.01
53 266 0.97
54 5 0.02
ACGTcount: A:0.32, C:0.19, G:0.27, T:0.21
Consensus pattern (53 bp):
AGAAGATTGTTCGAGTTCTACTCCTTGAAGCAAGAGGGAGCGAACCCGTAGGA
Found at i:808282 original size:159 final size:159
Alignment explanation
Indices: 807944--808327 Score: 549
Period size: 159 Copynumber: 2.4 Consensus size: 159
807934 AGAATCACAC
* ** *
807944 CAGAAGATTGTTCGAGTTATACTCCCCGAAGCAAGAGGGAGCGAACCCATAGGAAGAAGATTGTT
1 CAGAAGATTGTTCGAGTTCTAAGCCCTGAAGCAAGAGGGAGCGAACCCATAGGAAGAAGATTGTT
* *
808009 CGAGTTCTACTCCTTGAAGCAAAAGGGAGCGAACCTGTCGACAGAAGATTGTTCGAGTTCTACTC
66 CGAGTTCTACTCCTTGAAGCAAAAAGGAGCGAACCTGTAGACAGAAGATTGTTCGAGTTCTACTC
808074 CCTGAAGCAAGAGGGAGCGAACCCGTAGA
131 CCTGAAGCAAGAGGGAGCGAACCCGTAGA
* * * * *
808103 CAGAAGATTGTTCGATTTCTAAGCCCTGAAGTAAGAAGGAACGAACCCGTAGGAAGAAGATTGTT
1 CAGAAGATTGTTCGAGTTCTAAGCCCTGAAGCAAGAGGGAGCGAACCCATAGGAAGAAGATTGTT
808168 CGAGTTCTACTCCTTGAAGCAAAAAGGAGCGAACCTGTAGACAGAAGATTGTTCGAGTTCTACTC
66 CGAGTTCTACTCCTTGAAGCAAAAAGGAGCGAACCTGTAGACAGAAGATTGTTCGAGTTCTACTC
* *
808233 CTTGAAGCAAGAGGGAGTGAACCCGTAGGA
131 CCTGAAGCAAGAGGGAGCGAACCCGTA-GA
* ** * **
808263 -AGAAGATAT-TTTGAGTTCTATTCCTTGAAGCAAGAGGGAGCGAACCCACT-GGTTGAAGATTG
1 CAGAAGAT-TGTTCGAGTTCTAAGCCCTGAAGCAAGAGGGAGCGAACCCA-TAGGAAGAAGATTG
808325 TTC
64 TTC
808328 AAAGAAGAGG
Statistics
Matches: 198, Mismatches: 24, Indels: 6
0.87 0.11 0.03
Matches are distributed among these distances:
159 194 0.98
160 4 0.02
ACGTcount: A:0.32, C:0.19, G:0.27, T:0.22
Consensus pattern (159 bp):
CAGAAGATTGTTCGAGTTCTAAGCCCTGAAGCAAGAGGGAGCGAACCCATAGGAAGAAGATTGTT
CGAGTTCTACTCCTTGAAGCAAAAAGGAGCGAACCTGTAGACAGAAGATTGTTCGAGTTCTACTC
CCTGAAGCAAGAGGGAGCGAACCCGTAGA
Found at i:819116 original size:3 final size:3
Alignment explanation
Indices: 819104--819146 Score: 65
Period size: 3 Copynumber: 15.3 Consensus size: 3
819094 TTATATTTAA
819104 ATT A-T ATT ATT ATT ATT A-T ATT ATT ATT A-T ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
819147 ATGTTACATA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
2 6 0.16
3 31 0.84
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:819118 original size:11 final size:11
Alignment explanation
Indices: 819111--819144 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
819101 TAAATTATAT
819111 TATTATTATTA
1 TATTATTATTA
819122 TATTATTATTA
1 TATTATTATTA
819133 TATTATTATTA
1 TATTATTATTA
819144 T
1 T
819145 TAATGTTACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TATTATTATTA
Found at i:819121 original size:14 final size:14
Alignment explanation
Indices: 819104--819146 Score: 70
Period size: 14 Copynumber: 3.1 Consensus size: 14
819094 TTATATTTAA
819104 ATTATATTATTATT
1 ATTATATTATTATT
819118 ATTATATTATTATT
1 ATTATATTATTATT
819132 A-TATTATTATTATT
1 ATTA-TATTATTATT
819146 A
1 A
819147 ATGTTACATA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 2 0.07
14 26 0.93
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
ATTATATTATTATT
Found at i:819754 original size:146 final size:146
Alignment explanation
Indices: 819516--820173 Score: 1118
Period size: 146 Copynumber: 4.5 Consensus size: 146
819506 TCGGATCACC
*
819516 ATTCGGAACGGTCAAAAGTTGCGGAAGGCCATCACGAACAACATATTGAAAAATCAGGACGATCA
1 ATTCCGAACGGTCAAAAGTTGCGGAAGGCCATCACGAACAACATATTGAAAAATCAGGACGATCA
819581 GACGGTGGACGGTGACGGATCGGAGAAAACAAATCCGGGCGGTTTTTAGCCTCTTGCCGGTGATC
66 GACGGTGGACGGTGACGGATCGGAGAAAACAAATCCGGGCGGTTTTTAGCCTCTTGCCGGTGATC
819646 GGAATATTTGATCAAT
131 GGAATATTTGATCAAT
819662 ATTCCGAACGGTCAAAAGTTGCGGAAGGCCATCACGAACAACATATTGAAAAATCAGGACGATCA
1 ATTCCGAACGGTCAAAAGTTGCGGAAGGCCATCACGAACAACATATTGAAAAATCAGGACGATCA
819727 GACGGTGGACGGTGACGGATCGGAGAAAACAAATCCGGGCGGTTTTTAGCCTCTTGCCGGTGATC
66 GACGGTGGACGGTGACGGATCGGAGAAAACAAATCCGGGCGGTTTTTAGCCTCTTGCCGGTGATC
819792 GGAATATTTGATCAAT
131 GGAATATTTGATCAAT
819808 ATTCCGAACGGTCAAAAGTTGCGGAAGGCCATCACGAACAACATATTGAAAAATCAGGACGATCA
1 ATTCCGAACGGTCAAAAGTTGCGGAAGGCCATCACGAACAACATATTGAAAAATCAGGACGATCA
* *
819873 GACGGTGGACGGTGACGGATCGGAGAAAACAAATCCGGGCAGTTTTTAGCCTCTTGCCGGTTATC
66 GACGGTGGACGGTGACGGATCGGAGAAAACAAATCCGGGCGGTTTTTAGCCTCTTGCCGGTGATC
* *
819938 AGAATCTTTGATCAAT
131 GGAATATTTGATCAAT
*
819954 ATTCCGAACGGTCAAAAGTTGCGGAAGGCCATCACGAACAACATATTGAAAAATCAGGACGATCG
1 ATTCCGAACGGTCAAAAGTTGCGGAAGGCCATCACGAACAACATATTGAAAAATCAGGACGATCA
* * * **
820019 GACGGTGGACGGTGACGGATCGGAGAAAATAATTCCGGACTATTTTTAGCCTCTTGCCGGTGATC
66 GACGGTGGACGGTGACGGATCGGAGAAAACAAATCCGGGCGGTTTTTAGCCTCTTGCCGGTGATC
* **
820084 GGAATCTGCGATCAAT
131 GGAATATTTGATCAAT
* * * * * * * *
820100 ATTCCGAACGGTGAAAAGTTGCGCAATGCCAACACAAACAACCTATTGAAAAATCAGGACAATCG
1 ATTCCGAACGGTCAAAAGTTGCGGAAGGCCATCACGAACAACATATTGAAAAATCAGGACGATCA
820165 GACGGTGGA
66 GACGGTGGA
820174 TGACGGCAGA
Statistics
Matches: 490, Mismatches: 22, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
146 490 1.00
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.21
Consensus pattern (146 bp):
ATTCCGAACGGTCAAAAGTTGCGGAAGGCCATCACGAACAACATATTGAAAAATCAGGACGATCA
GACGGTGGACGGTGACGGATCGGAGAAAACAAATCCGGGCGGTTTTTAGCCTCTTGCCGGTGATC
GGAATATTTGATCAAT
Found at i:822319 original size:3 final size:3
Alignment explanation
Indices: 822307--822349 Score: 65
Period size: 3 Copynumber: 15.3 Consensus size: 3
822297 TTATATTTAA
822307 ATT A-T ATT ATT ATT ATT A-T ATT ATT ATT A-T ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
822350 ATGTTACATA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
2 6 0.16
3 31 0.84
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:822321 original size:11 final size:11
Alignment explanation
Indices: 822314--822347 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
822304 TAAATTATAT
822314 TATTATTATTA
1 TATTATTATTA
822325 TATTATTATTA
1 TATTATTATTA
822336 TATTATTATTA
1 TATTATTATTA
822347 T
1 T
822348 TAATGTTACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TATTATTATTA
Found at i:822324 original size:14 final size:14
Alignment explanation
Indices: 822307--822349 Score: 70
Period size: 14 Copynumber: 3.1 Consensus size: 14
822297 TTATATTTAA
822307 ATTATATTATTATT
1 ATTATATTATTATT
822321 ATTATATTATTATT
1 ATTATATTATTATT
822335 A-TATTATTATTATT
1 ATTA-TATTATTATT
822349 A
1 A
822350 ATGTTACATA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 2 0.07
14 26 0.93
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
ATTATATTATTATT
Found at i:822548 original size:52 final size:52
Alignment explanation
Indices: 822461--822568 Score: 180
Period size: 52 Copynumber: 2.1 Consensus size: 52
822451 TTCATCCACC
* * * *
822461 GAAAGTTGGGCAGTCTCGTAGGAAGATTATTGTTCGAGTTCTAGTCCCTGAA
1 GAAAATTGGGCAGTCTCGTAGAAAGATTATCGTTCGAGTTCTACTCCCTGAA
822513 GAAAATTGGGCAGTCTCGTAGAAAGATTATCGTTCGAGTTCTACTCCCTGAA
1 GAAAATTGGGCAGTCTCGTAGAAAGATTATCGTTCGAGTTCTACTCCCTGAA
822565 GAAA
1 GAAA
822569 TAGAGAGCGA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.29
Consensus pattern (52 bp):
GAAAATTGGGCAGTCTCGTAGAAAGATTATCGTTCGAGTTCTACTCCCTGAA
Found at i:822850 original size:3 final size:3
Alignment explanation
Indices: 822838--822877 Score: 59
Period size: 3 Copynumber: 14.3 Consensus size: 3
822828 TTATATTTAA
822838 ATT A-T ATT ATT ATT ATT A-T ATT ATT ATT A-T ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
822878 ATGTTACATA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 6 0.18
3 28 0.82
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:822852 original size:11 final size:11
Alignment explanation
Indices: 822845--822877 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
822835 TAAATTATAT
822845 TATTATTATTA
1 TATTATTATTA
822856 TATTATTATTA
1 TATTATTATTA
822867 TATTATTATTA
1 TATTATTATTA
822878 ATGTTACATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TATTATTATTA
Found at i:822855 original size:14 final size:14
Alignment explanation
Indices: 822838--822877 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
822828 TTATATTTAA
822838 ATTATATTATTATT
1 ATTATATTATTATT
822852 ATTATATTATTATT
1 ATTATATTATTATT
822866 A-TATTATTATTA
1 ATTA-TATTATTA
822878 ATGTTACATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 2 0.08
14 23 0.92
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
ATTATATTATTATT
Done.