Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 117 of 221
Found at i:35954228 original size:23 final size:24
Alignment explanation
Indices: 35954177--35954222 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
35954167 GTCTTAGTTA
35954177 CTATTCATGGTTTAACAGGTTAGG
1 CTATTCATGGTTTAACAGGTTAGG
*
35954201 CTATT-ATGGTTTAA-GGGTTAGG
1 CTATTCATGGTTTAACAGGTTAGG
35954223 GTTATTGATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 7 0.33
23 9 0.43
24 5 0.24
ACGTcount: A:0.24, C:0.09, G:0.28, T:0.39
Consensus pattern (24 bp):
CTATTCATGGTTTAACAGGTTAGG
Found at i:35954432 original size:22 final size:22
Alignment explanation
Indices: 35954374--35954433 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
35954364 GTTGAGTGTT
* *
35954374 TAGGGGTGAG-GGCTTAGGGTT
1 TAGGGGTTAGTGGCTTAGGGTC
*
35954395 TAGGGGTTA-TAAGCTTAGGGTC
1 TAGGGGTTAGT-GGCTTAGGGTC
35954417 TAGGGGTTAGTGGCTTA
1 TAGGGGTTAGTGGCTTA
35954434 AAGTTACTGG
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
21 8 0.25
22 23 0.72
23 1 0.03
ACGTcount: A:0.18, C:0.07, G:0.43, T:0.32
Consensus pattern (22 bp):
TAGGGGTTAGTGGCTTAGGGTC
Found at i:35954576 original size:28 final size:28
Alignment explanation
Indices: 35954545--35954607 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
35954535 TAGGGTGTGT
*
35954545 ATTTACGGTTTAA-AGATTAAGGTTTAGG
1 ATTTA-GGTTTAAGAGATTAAGGTTTACG
* * *
35954573 ATTTAGTTTTAAGAGTTTAGGGTTTACG
1 ATTTAGGTTTAAGAGATTAAGGTTTACG
35954601 ATTTAGG
1 ATTTAGG
35954608 GTGTATGTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
27 6 0.21
28 23 0.79
ACGTcount: A:0.29, C:0.03, G:0.25, T:0.43
Consensus pattern (28 bp):
ATTTAGGTTTAAGAGATTAAGGTTTACG
Found at i:35954605 original size:14 final size:14
Alignment explanation
Indices: 35954545--35954639 Score: 54
Period size: 14 Copynumber: 6.9 Consensus size: 14
35954535 TAGGGTGTGT
*
35954545 ATTTACGGTTTAAAG
1 ATTTAGGGTTT-AAG
* *
35954560 A-TTAAGGTTTAGG
1 ATTTAGGGTTTAAG
*
35954573 ATTTA-GTTTTAAG
1 ATTTAGGGTTTAAG
*
35954586 AGTTTAGGGTTTACG
1 A-TTTAGGGTTTAAG
* *
35954601 ATTTAGGGTGTATG
1 ATTTAGGGTTTAAG
*
35954615 -TTTATGG-TTAAG
1 ATTTAGGGTTTAAG
*
35954627 TGTTTAGGGTTTA
1 -ATTTAGGGTTTA
35954640 GAGGTTAGAA
Statistics
Matches: 62, Mismatches: 12, Indels: 12
0.72 0.14 0.14
Matches are distributed among these distances:
12 3 0.05
13 16 0.26
14 32 0.52
15 11 0.18
ACGTcount: A:0.25, C:0.02, G:0.27, T:0.45
Consensus pattern (14 bp):
ATTTAGGGTTTAAG
Found at i:35954698 original size:21 final size:21
Alignment explanation
Indices: 35954674--35954726 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
35954664 GGCTAAGGGC
35954674 TTATGGTTTAGGGTTTAAAT-T
1 TTATGGTTTAGGGTTT-AATGT
** *
35954695 TTATATTTTAAGGTTTAATGT
1 TTATGGTTTAGGGTTTAATGT
*
35954716 TTAAGGTTTAG
1 TTATGGTTTAG
35954727 CTAAAAACAT
Statistics
Matches: 24, Mismatches: 7, Indels: 2
0.73 0.21 0.06
Matches are distributed among these distances:
20 3 0.12
21 21 0.88
ACGTcount: A:0.26, C:0.00, G:0.21, T:0.53
Consensus pattern (21 bp):
TTATGGTTTAGGGTTTAATGT
Found at i:35955237 original size:83 final size:83
Alignment explanation
Indices: 35955115--35955366 Score: 248
Period size: 83 Copynumber: 3.1 Consensus size: 83
35955105 ACTGAAAGCA
* * * *
35955115 CCGCAAGGGTTT-TTAACAATTTGCCAATGCGGCACCGTTTTTGTACTGGAATAAAAATAATAGT
1 CCGCAAGGATTTATTAA-AATTTCCCAATGCGGCGCCGTTTCTGTACTGGAATAAAAATAATAGT
35955179 GGCGTTTTTTAGGAAAACG
65 GGCGTTTTTTAGGAAAACG
* * * ** *
35955198 CCGCAAGGATTTATTAAACTTTCCCAATGTGGCGTCGTTTCTGTACTGGGAA-AAATTTGATAGT
1 CCGCAAGGATTTATTAAAATTTCCCAATGCGGCGCCGTTTCTGTACT-GGAATAAAAATAATAGT
35955262 GGCGTTTTTTAGGAAAA--
65 GGCGTTTTTTAGGAAAACG
* * * * * ** *
35955279 -TGC-ATGTTTTATTAAATTTTTCCAATGCGGCGCCGTTTCTGTACT-TCATAAAAATCTAATAT
1 CCGCAAGGATTTATTAAAATTTCCCAATGCGGCGCCGTTTCTGTACTGGAATAAAAA--TAATAG
35955341 TGGCGTTTTTTAGGAAAACG
64 TGGCGTTTTTTAGGAAAACG
*
35955361 CTGCAA
1 CCGCAA
35955367 AAATGAATTA
Statistics
Matches: 137, Mismatches: 23, Indels: 17
0.77 0.13 0.10
Matches are distributed among these distances:
77 1 0.01
78 3 0.02
79 36 0.26
80 24 0.18
83 64 0.47
84 9 0.07
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (83 bp):
CCGCAAGGATTTATTAAAATTTCCCAATGCGGCGCCGTTTCTGTACTGGAATAAAAATAATAGTG
GCGTTTTTTAGGAAAACG
Found at i:35956312 original size:46 final size:46
Alignment explanation
Indices: 35956245--35956338 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
35956235 TACTGTCAAA
35956245 TGTGAATTTGATGTGAATTTGATATTACTTATTAAATATTTAGTAT
1 TGTGAATTTGATGTGAATTTGATATTACTTATTAAATATTTAGTAT
35956291 TGTGAATTTGATGTGAATTTGATATTACTTATTAAATATTTAGTAT
1 TGTGAATTTGATGTGAATTTGATATTACTTATTAAATATTTAGTAT
35956337 TG
1 TG
35956339 ATATTAGATA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.32, C:0.02, G:0.16, T:0.50
Consensus pattern (46 bp):
TGTGAATTTGATGTGAATTTGATATTACTTATTAAATATTTAGTAT
Found at i:35957215 original size:19 final size:19
Alignment explanation
Indices: 35957187--35957328 Score: 78
Period size: 18 Copynumber: 7.1 Consensus size: 19
35957177 TACATAACTT
35957187 ATTA-ATATATATTTTAAA
1 ATTATATATATATTTTAAA
35957205 ATTATATATAT-TTTTAAA
1 ATTATATATATATTTTAAA
35957223 ATT-TAATATATATTTTTAAA
1 ATTAT-ATATATA-TTTTAAA
* * *
35957243 TTTAATTTAGCTTATTAATTTAACA
1 ATT-ATATA---TA-TATTTTAA-A
* *
35957268 TATTAATATATATAATTTAACGT
1 -ATT-ATATATATATTTTAA--A
*
35957291 ATTA-ATATATATATTAAAA
1 ATTATATATATAT-TTTAAA
35957310 ATT-TATATATATTTTAAA
1 ATTATATATATATTTTAAA
35957328 A
1 A
35957329 ATTTATCAAT
Statistics
Matches: 98, Mismatches: 11, Indels: 30
0.71 0.08 0.22
Matches are distributed among these distances:
17 1 0.01
18 26 0.27
19 17 0.17
20 16 0.16
21 7 0.07
22 12 0.12
23 2 0.02
24 7 0.07
25 3 0.03
26 7 0.07
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.51
Consensus pattern (19 bp):
ATTATATATATATTTTAAA
Found at i:35957219 original size:18 final size:20
Alignment explanation
Indices: 35957188--35957333 Score: 113
Period size: 19 Copynumber: 7.2 Consensus size: 20
35957178 ACATAACTTA
35957188 TTAATATATA-TTTTAAAA-
1 TTAATATATATTTTTAAAAT
35957206 TT-ATATATATTTTTAAAAT
1 TTAATATATATTTTTAAAAT
35957225 TTAATATATATTTTT-AAAT
1 TTAATATATATTTTTAAAAT
* *
35957244 TTAATTTAGCTTATTAATTTAACAT
1 TTAATATA---TATT--TTTAAAAT
* **
35957269 ATTAATATATATAATTTAACGT
1 -TTAATATATAT-TTTTAAAAT
* *
35957291 ATTAATATATATATTAAAAAT
1 -TTAATATATATTTTTAAAAT
*
35957312 TT-ATATATATTTTAAAAAT
1 TTAATATATATTTTTAAAAT
35957331 TTA
1 TTA
35957334 TCAATCATAT
Statistics
Matches: 107, Mismatches: 9, Indels: 22
0.78 0.07 0.16
Matches are distributed among these distances:
17 7 0.07
18 10 0.09
19 31 0.29
20 14 0.13
21 6 0.06
22 23 0.21
23 3 0.03
24 3 0.03
25 3 0.03
26 7 0.07
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.51
Consensus pattern (20 bp):
TTAATATATATTTTTAAAAT
Found at i:35957235 original size:22 final size:22
Alignment explanation
Indices: 35957207--35957333 Score: 67
Period size: 20 Copynumber: 6.0 Consensus size: 22
35957197 ATTTTAAAAT
35957207 TATATATATTTTTAAAATTT-A
1 TATATATATTTTTAAAATTTAA
35957228 -ATATATATTTTT-AAATTTAA
1 TATATATATTTTTAAAATTTAA
* *
35957248 TTTAGCT-TATTAATTTAACATATTAA
1 TATA--TATATT--TTTAAAAT-TTAA
* **
35957274 TATATATA-ATTTAACGTATTAA
1 TATATATATTTTTAAAAT-TTAA
*
35957296 TATATATA---TTAAAAATT--
1 TATATATATTTTTAAAATTTAA
*
35957313 TATATATATTTTAAAAATTTA
1 TATATATATTTTTAAAATTTA
35957334 TCAATCATAT
Statistics
Matches: 83, Mismatches: 10, Indels: 26
0.70 0.08 0.22
Matches are distributed among these distances:
17 8 0.10
19 8 0.10
20 24 0.29
21 2 0.02
22 24 0.29
23 1 0.01
24 4 0.05
25 5 0.06
26 7 0.08
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (22 bp):
TATATATATTTTTAAAATTTAA
Found at i:35957414 original size:12 final size:12
Alignment explanation
Indices: 35957345--35957490 Score: 69
Period size: 12 Copynumber: 12.2 Consensus size: 12
35957335 CAATCATATC
35957345 ATAACTTACATA
1 ATAACTTACATA
*
35957357 CATAACTTAAATA
1 -ATAACTTACATA
* *
35957370 A-AATTTATAT-
1 ATAACTTACATA
35957380 ATAAACTTACACAATA
1 AT-AACTT--AC-ATA
35957396 CATAACTTACATA
1 -ATAACTTACATA
35957409 ATAACTTAC---
1 ATAACTTACATA
*
35957418 ATAACTTATAT-
1 ATAACTTACATA
*
35957429 ATAAACTTATAT-
1 AT-AACTTACATA
*
35957441 ATAAACTTATAT-
1 AT-AACTTACATA
*
35957453 ATAACTTTCATA
1 ATAACTTACATA
*
35957465 ACTTACTT--ATA
1 A-TAACTTACATA
35957476 ATAACTTACATA
1 ATAACTTACATA
35957488 ATA
1 ATA
35957491 CATAGCCTAC
Statistics
Matches: 109, Mismatches: 10, Indels: 29
0.74 0.07 0.20
Matches are distributed among these distances:
9 8 0.07
10 6 0.06
11 20 0.18
12 44 0.40
13 19 0.17
14 3 0.03
15 2 0.02
16 5 0.05
17 2 0.02
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (12 bp):
ATAACTTACATA
Found at i:35957443 original size:14 final size:12
Alignment explanation
Indices: 35957420--35957456 Score: 74
Period size: 12 Copynumber: 3.1 Consensus size: 12
35957410 TAACTTACAT
35957420 AACTTATATATA
1 AACTTATATATA
35957432 AACTTATATATA
1 AACTTATATATA
35957444 AACTTATATATA
1 AACTTATATATA
35957456 A
1 A
35957457 CTTTCATAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (12 bp):
AACTTATATATA
Found at i:35957510 original size:9 final size:9
Alignment explanation
Indices: 35957476--35957767 Score: 169
Period size: 9 Copynumber: 34.7 Consensus size: 9
35957466 CTTACTTATA
35957476 ATAACTTAC
1 ATAACTTAC
35957485 ATAA--TAC
1 ATAACTTAC
* *
35957492 ATAGCCTAC
1 ATAACTTAC
*
35957501 ATGACTTAC
1 ATAACTTAC
35957510 ATAA--TAC
1 ATAACTTAC
*
35957517 ACAACTTAC
1 ATAACTTAC
*
35957526 ATAACTTAA
1 ATAACTTAC
*
35957535 ATAACTTAT
1 ATAACTTAC
*
35957544 ATGA--TAC
1 ATAACTTAC
*
35957551 ATAACTTCC
1 ATAACTTAC
35957560 ATAACTTAC
1 ATAACTTAC
*
35957569 ATTA--TAC
1 ATAACTTAC
*
35957576 ACAACTTAC
1 ATAACTTAC
35957585 ATAACTTAC
1 ATAACTTAC
*
35957594 ATAGCTTAC
1 ATAACTTAC
*
35957603 AT-TC-TAC
1 ATAACTTAC
* *
35957610 ACAACTTAT
1 ATAACTTAC
35957619 ATAA-TATAC
1 ATAACT-TAC
35957628 ATAA--TAC
1 ATAACTTAC
*
35957635 ACAACTTAC
1 ATAACTTAC
*
35957644 ATAACATAC
1 ATAACTTAC
35957653 ATAA--TAC
1 ATAACTTAC
35957660 ATAACTTAC
1 ATAACTTAC
* *
35957669 ATAGCTAAC
1 ATAACTTAC
*
35957678 ATAA--AAC
1 ATAACTTAC
35957685 ATAACTTAC
1 ATAACTTAC
*
35957694 ATAACTTAT
1 ATAACTTAC
35957703 ATAA--TAC
1 ATAACTTAC
35957710 ATAACTTAC
1 ATAACTTAC
* *
35957719 ACAATTTAC
1 ATAACTTAC
*
35957728 TTAA--TAC
1 ATAACTTAC
* *
35957735 ATAA-ATAT
1 ATAACTTAC
* *
35957743 ATATCATATC
1 ATAACTTA-C
35957753 ATAACTTAC
1 ATAACTTAC
35957762 ATAACT
1 ATAACT
35957768 CATTTATACT
Statistics
Matches: 217, Mismatches: 44, Indels: 44
0.71 0.14 0.14
Matches are distributed among these distances:
7 58 0.27
8 8 0.04
9 145 0.67
10 6 0.03
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.32
Consensus pattern (9 bp):
ATAACTTAC
Found at i:35957517 original size:16 final size:16
Alignment explanation
Indices: 35957504--35957671 Score: 55
Period size: 16 Copynumber: 10.6 Consensus size: 16
35957494 AGCCTACATG
35957504 ACTTACATAATACACA
1 ACTTACATAATACACA
* *
35957520 ACTTACATAACTTAAATA
1 ACTTACATAA--TACACA
* * *
35957538 ACTTATATGATACATA
1 ACTTACATAATACACA
*
35957554 ACTT-C--CATA-AC-
1 ACTTACATAATACACA
*
35957565 --TTACATTATACACA
1 ACTTACATAATACACA
*
35957579 ACTTACATAACTTACATA
1 ACTTACATAA--TACACA
* **
35957597 GCTTACATTCTACACA
1 ACTTACATAATACACA
* *
35957613 ACTTATATAATATACA
1 ACTTACATAATACACA
* * *
35957629 TA-ATACACAACTTACATA
1 -ACTTACATAA--TACACA
* *
35957647 ACATACATAATACATA
1 ACTTACATAATACACA
35957663 ACTTACATA
1 ACTTACATA
35957672 GCTAACATAA
Statistics
Matches: 110, Mismatches: 27, Indels: 30
0.66 0.16 0.18
Matches are distributed among these distances:
9 2 0.02
10 1 0.01
12 4 0.04
13 5 0.05
16 61 0.55
17 2 0.02
18 35 0.32
ACGTcount: A:0.46, C:0.21, G:0.01, T:0.32
Consensus pattern (16 bp):
ACTTACATAATACACA
Found at i:35957542 original size:59 final size:58
Alignment explanation
Indices: 35957469--35957713 Score: 215
Period size: 59 Copynumber: 4.3 Consensus size: 58
35957459 TTCATAACTT
* *
35957469 ACTTATAATAACTTACATAATACATAGCCTACATGACTTACATAATACACAACTTACATA
1 ACTTA-AATAACTTACATAATACATAACTTACAT-ACTTACATAATACACAACTTACATA
* * * *
35957529 ACTTAAATAACTTATATGATACATAACTTCCATAACTTACATTATACACAACTTACATA
1 ACTTAAATAACTTACATAATACATAACTTACAT-ACTTACATAATACACAACTTACATA
* * ** * * *
35957588 ACTTACATAGCTTACATTCTACACAACTTATATAATATACATAATACACAACTTACATA
1 ACTTAAATAACTTACATAATACATAACTTACATACT-TACATAATACACAACTTACATA
* * *
35957647 AC-------A--TACATAATACATAACTTACATAGCTAACATAAAACATAACTTACATA
1 ACTTAAATAACTTACATAATACATAACTTACATA-CTTACATAATACACAACTTACATA
*
35957697 ACTTATATAA--TACATAA
1 ACTTAAATAACTTACATAA
35957714 CTTACACAAT
Statistics
Matches: 150, Mismatches: 26, Indels: 21
0.76 0.13 0.11
Matches are distributed among these distances:
50 39 0.26
51 1 0.01
57 8 0.05
58 2 0.01
59 95 0.63
60 5 0.03
ACGTcount: A:0.47, C:0.20, G:0.02, T:0.31
Consensus pattern (58 bp):
ACTTAAATAACTTACATAATACATAACTTACATACTTACATAATACACAACTTACATA
Found at i:35957551 original size:25 final size:25
Alignment explanation
Indices: 35957453--35957595 Score: 109
Period size: 25 Copynumber: 5.8 Consensus size: 25
35957443 AAACTTATAT
* *
35957453 ATAACTTTCATAACTTAC-TTATA-
1 ATAACTTACATAACTTACATGATAC
*
35957476 ATAACTTACATAA--TACATAGCCTAC
1 ATAACTTACATAACTTACAT-G-ATAC
* **
35957501 ATGACTTACATAA--TACACAACTTAC
1 ATAACTTACATAACTTACATGA--TAC
* *
35957526 ATAACTTAAATAACTTATATGATAC
1 ATAACTTACATAACTTACATGATAC
* *
35957551 ATAACTTCCATAACTTACATTATAC
1 ATAACTTACATAACTTACATGATAC
*
35957576 ACAACTTACATAACTTACAT
1 ATAACTTACATAACTTACAT
35957596 AGCTTACATT
Statistics
Matches: 94, Mismatches: 18, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
21 3 0.03
22 1 0.01
23 12 0.13
24 2 0.02
25 72 0.77
27 4 0.04
ACGTcount: A:0.43, C:0.21, G:0.02, T:0.34
Consensus pattern (25 bp):
ATAACTTACATAACTTACATGATAC
Found at i:35957610 original size:25 final size:25
Alignment explanation
Indices: 35957582--35957738 Score: 172
Period size: 25 Copynumber: 6.3 Consensus size: 25
35957572 ATACACAACT
* **
35957582 TACATAACTTACATAGCTTACATTC
1 TACATAACTTACATAACTTACATAA
* *
35957607 TACACAACTTATATAA-TATACATAA
1 TACATAACTTACATAACT-TACATAA
* *
35957632 TACACAACTTACATAACATACATAA
1 TACATAACTTACATAACTTACATAA
* *
35957657 TACATAACTTACATAGCTAACATAA
1 TACATAACTTACATAACTTACATAA
* *
35957682 AACATAACTTACATAACTTATATAA
1 TACATAACTTACATAACTTACATAA
* * *
35957707 TACATAACTTACACAATTTACTTAA
1 TACATAACTTACATAACTTACATAA
35957732 TACATAA
1 TACATAA
35957739 ATATATATCA
Statistics
Matches: 110, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
24 1 0.01
25 109 0.99
ACGTcount: A:0.48, C:0.20, G:0.01, T:0.31
Consensus pattern (25 bp):
TACATAACTTACATAACTTACATAA
Found at i:35957680 original size:50 final size:50
Alignment explanation
Indices: 35957559--35957738 Score: 186
Period size: 50 Copynumber: 3.6 Consensus size: 50
35957549 ACATAACTTC
* * **
35957559 CATAACTTACAT--TATACACAACTTACATAACTTACATAGCTTACATTCTA
1 CATAACTTACATAATATACATAA--TACATAACTTACATAACTTACATAATA
* * * *
35957609 CACAACTTATATAATATACATAATACACAACTTACATAACATACATAATA
1 CATAACTTACATAATATACATAATACATAACTTACATAACTTACATAATA
* * *
35957659 CATAACTTACATAGCTA-ACATAAAACATAACTTACATAACTTATATAATA
1 CATAACTTACATA-ATATACATAATACATAACTTACATAACTTACATAATA
* * *
35957709 CATAACTTACACAATTTACTTAATACATAA
1 CATAACTTACATAATATACATAATACATAA
35957739 ATATATATCA
Statistics
Matches: 106, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
49 1 0.01
50 95 0.90
51 2 0.02
52 8 0.08
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.31
Consensus pattern (50 bp):
CATAACTTACATAATATACATAATACATAACTTACATAACTTACATAATA
Found at i:35963261 original size:21 final size:21
Alignment explanation
Indices: 35963237--35963278 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
35963227 AGTAGAGGCG
*
35963237 GCAGCGAGGGAAGCAGAGGTT
1 GCAGCGAGAGAAGCAGAGGTT
35963258 GCAGCGAGAGAAGCAGAGGTT
1 GCAGCGAGAGAAGCAGAGGTT
35963279 CAAAAGAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.14, G:0.45, T:0.10
Consensus pattern (21 bp):
GCAGCGAGAGAAGCAGAGGTT
Found at i:35963337 original size:87 final size:87
Alignment explanation
Indices: 35963186--35963362 Score: 255
Period size: 87 Copynumber: 2.0 Consensus size: 87
35963176 GACCATAGTT
* * * *
35963186 GAGGTTCAAAGGAAATATGAAGAACTCTAGCTACAACTTAAAGTAGAGGCGGCAGCGAGGGAAGC
1 GAGGTTCAAAAGAAATATGAAGAACTCTAGCAACAACTTAAAGCAGAGGCGGCAGCGAGAGAAGC
* *
35963251 AGAGGTTGCAGCGAGAGAAGCA
66 AGAGGCTGCAGCGAGAGAAACA
* * * *
35963273 GAGGTTCAAAAGAAATATGAAGAACTCTAGCAACAATTTAAAGCAGATGTGGCATCGAGAGAAGC
1 GAGGTTCAAAAGAAATATGAAGAACTCTAGCAACAACTTAAAGCAGAGGCGGCAGCGAGAGAAGC
*
35963338 AGAGGCTGCAGCGAGGGAAACA
66 AGAGGCTGCAGCGAGAGAAACA
35963360 GAG
1 GAG
35963363 CAGAGCAGAA
Statistics
Matches: 79, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
87 79 1.00
ACGTcount: A:0.40, C:0.15, G:0.32, T:0.14
Consensus pattern (87 bp):
GAGGTTCAAAAGAAATATGAAGAACTCTAGCAACAACTTAAAGCAGAGGCGGCAGCGAGAGAAGC
AGAGGCTGCAGCGAGAGAAACA
Found at i:35963829 original size:43 final size:43
Alignment explanation
Indices: 35963752--35963981 Score: 261
Period size: 43 Copynumber: 5.3 Consensus size: 43
35963742 AGAACATGAC
* * *
35963752 CTTTACCGGCGTTTGTGGGAAAAAACGCCGCTAAAAGTCATGCT
1 CTTTAGCGGCGTTTGT-GGAAAAAGCGCCGCTAAAAGTCATGTT
* *
35963796 CTATAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAAGTCATATT
1 CTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAAGTCATGTT
* *
35963839 CTTTAGCGGCGTTTGTTGG-AGAAGCACCGCTAAAAGTCATGTT
1 CTTTAGCGGCGTTTG-TGGAAAAAGCGCCGCTAAAAGTCATGTT
* * * *
35963882 CTTTAGTGGCGTTTGTGAAAAAAGCGCCGCT-AAAGAACATGTC
1 CTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAAG-TCATGTT
**
35963925 CTTTAGCGGCGTTTGTAGGAAAAA-CGCCGCTAAAGAG-CATGAC
1 CTTTAGCGGCGTTTGT-GGAAAAAGCGCCGCTAAA-AGTCATGTT
*
35963968 CTTTAGTGGCGTTT
1 CTTTAGCGGCGTTT
35963982 ATTTCTATAA
Statistics
Matches: 161, Mismatches: 19, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
42 6 0.04
43 128 0.80
44 25 0.16
45 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (43 bp):
CTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAAGTCATGTT
Found at i:35963904 original size:86 final size:86
Alignment explanation
Indices: 35963738--35963981 Score: 296
Period size: 86 Copynumber: 2.8 Consensus size: 86
35963728 AGAAGCACTT
* * * *
35963738 CTAAAGAACATGA-CCTTTACCGGCGTTTGTGGGAAAAAACGCCGCTAAAAGTCATGCTCTATAG
1 CTAAAGAACAT-ATCCTTTAGCGGCGTTTGTAGG-AAAAACGCCGCTAAAAGTCATGATCTTTAG
* *
35963802 CGGCGTTTGTGGAAAAAGCGCCG
64 TGGCGTTTGTGAAAAAAGCGCCG
* * * * * * *
35963825 CTAAA-AGTCATATTCTTTAGCGGCGTTTGTTGGAGAAGCACCGCTAAAAGTCATGTTCTTTAGT
1 CTAAAGA-ACATATCCTTTAGCGGCGTTTGTAGGAAAAACGCCGCTAAAAGTCATGATCTTTAGT
35963889 GGCGTTTGTGAAAAAAGCGCCG
65 GGCGTTTGTGAAAAAAGCGCCG
* *
35963911 CTAAAGAACATGTCCTTTAGCGGCGTTTGTAGGAAAAACGCCGCTAAAGAG-CATGACCTTTAGT
1 CTAAAGAACATATCCTTTAGCGGCGTTTGTAGGAAAAACGCCGCTAAA-AGTCATGATCTTTAGT
35963975 GGCGTTT
65 GGCGTTT
35963982 ATTTCTATAA
Statistics
Matches: 133, Mismatches: 20, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
86 105 0.79
87 28 0.21
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (86 bp):
CTAAAGAACATATCCTTTAGCGGCGTTTGTAGGAAAAACGCCGCTAAAAGTCATGATCTTTAGTG
GCGTTTGTGAAAAAAGCGCCG
Found at i:35964307 original size:9 final size:9
Alignment explanation
Indices: 35964290--35964326 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
35964280 TGGGTTTTTG
35964290 AATTCGAAT
1 AATTCGAAT
*
35964299 AACTCGAAT
1 AATTCGAAT
35964308 AATTCGAAT
1 AATTCGAAT
35964317 AATTCGAAT
1 AATTCGAAT
35964326 A
1 A
35964327 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:35964574 original size:30 final size:31
Alignment explanation
Indices: 35964540--35964599 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
35964530 AAACATTTTA
*
35964540 TTTTTCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTTCCCCAAAACTTTTACTCCCTTCCCAC
* *
35964570 TTTTTCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTTCCCCAAAACTTTTACTCCCTTCCCA
35964600 TGTCACCTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.37, G:0.00, T:0.43
Consensus pattern (31 bp):
TTTTTCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:35967154 original size:6 final size:6
Alignment explanation
Indices: 35967145--35967193 Score: 71
Period size: 6 Copynumber: 8.2 Consensus size: 6
35967135 TATTTCCTAA
* * *
35967145 TTTGAG TTTGAG TTTGAC TTTAAC TTTGAC TTTGAC TTTGAC TTTGAC
1 TTTGAC TTTGAC TTTGAC TTTGAC TTTGAC TTTGAC TTTGAC TTTGAC
35967193 T
1 T
35967194 AGCGAACCCT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.51
Consensus pattern (6 bp):
TTTGAC
Found at i:35967723 original size:15 final size:15
Alignment explanation
Indices: 35967683--35967719 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
35967673 GTAGAAAAAT
35967683 AATAATAATAATCAA
1 AATAATAATAATCAA
*
35967698 AATGATAATAAT-AA
1 AATAATAATAATCAA
35967712 AATAATAA
1 AATAATAA
35967720 ATAACATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
14 9 0.45
15 11 0.55
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.27
Consensus pattern (15 bp):
AATAATAATAATCAA
Found at i:35970810 original size:42 final size:43
Alignment explanation
Indices: 35970754--35970841 Score: 117
Period size: 42 Copynumber: 2.1 Consensus size: 43
35970744 TAGCGACATT
* * *
35970754 TTTAGAAATAAACGCCGCTAAAGGTGT-TGGTCTATAGCGGCGC
1 TTTACAAATAAACGCCGCTAAAGAT-TAGGGTCTATAGCGGCGC
*
35970797 TTTACAAA-AAACGCCGCTAAAGATTAGGGTCTTTAGCGGCGC
1 TTTACAAATAAACGCCGCTAAAGATTAGGGTCTATAGCGGCGC
35970839 TTT
1 TTT
35970842 CCCCACAAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
41 1 0.03
42 32 0.80
43 7 0.17
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.27
Consensus pattern (43 bp):
TTTACAAATAAACGCCGCTAAAGATTAGGGTCTATAGCGGCGC
Found at i:35970873 original size:43 final size:43
Alignment explanation
Indices: 35970788--35970971 Score: 189
Period size: 43 Copynumber: 4.3 Consensus size: 43
35970778 TGTTGGTCTA
* *
35970788 TAGCGGCGCTTTA-CAAAAAACGCCGCTAAAG-A--TTAGGGTCTT
1 TAGCGGCGCTTTATCCACAAACGCCGCTAAAGAACCTTA---TCTT
** * *
35970830 TAGCGGCGCTTTCCCCACAAACGCCGCAAAAGAACCTGATCTT
1 TAGCGGCGCTTTATCCACAAACGCCGCTAAAGAACCTTATCTT
** *
35970873 TAGCGGTACTTTATCCACAAACGCCGCTAAAGACCCTTATCTT
1 TAGCGGCGCTTTATCCACAAACGCCGCTAAAGAACCTTATCTT
*
35970916 TAGCGGCGCTTTATCCACAAACACCGCTAAAG-ACCATTATCTTT
1 TAGCGGCGCTTTATCCACAAACGCCGCTAAAGAACC-TTATC-TT
*
35970960 TAGCGACGCTTT
1 TAGCGGCGCTTT
35970972 TGTTGAAAAC
Statistics
Matches: 119, Mismatches: 17, Indels: 10
0.82 0.12 0.07
Matches are distributed among these distances:
42 14 0.12
43 89 0.75
44 14 0.12
46 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (43 bp):
TAGCGGCGCTTTATCCACAAACGCCGCTAAAGAACCTTATCTT
Found at i:35971410 original size:66 final size:66
Alignment explanation
Indices: 35971340--35971481 Score: 198
Period size: 66 Copynumber: 2.2 Consensus size: 66
35971330 ACGCTGCACT
* *
35971340 GCTTCTCTCGCTGCCGTATCTACTTTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGTTGAACC
1 GCTTCTCTCGCTACCGCATCTACTTTAAGCTG-TAGCTGGAGTTCTTCATATCTTT-GTTGAACC
35971403 TCA
64 TCA
* * * *
35971406 GCTTCTCTCGCTACTGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGAACCTC
1 GCTTCTCTCGCTACCGCATCTACTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGAACCTC
35971471 A
66 A
35971472 GCTTCTCTCG
1 GCTTCTCTCG
35971482 ATGTTGCCTC
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
65 1 0.01
66 63 0.93
67 4 0.06
ACGTcount: A:0.15, C:0.27, G:0.18, T:0.40
Consensus pattern (66 bp):
GCTTCTCTCGCTACCGCATCTACTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGAACCTC
A
Found at i:35971497 original size:66 final size:66
Alignment explanation
Indices: 35971374--35971504 Score: 192
Period size: 66 Copynumber: 2.0 Consensus size: 66
35971364 TTAAGCTGCT
* *
35971374 GCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGCTACTGCATCTGCTTTAAGTTGT
1 GCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGATACTGCATCCGCTTTAAGTTGT
35971439 A
66 A
* ** *
35971440 GCTGGAGTTCTTCATATCTTT-TTTGAACCTCAGCTTCTCTCGATGTTGCCTCCGCTTTAAGTTG
1 GCTGGAGTTCTTCATA-CTTTCGTTGAACCTCAGCTTCTCTCGATACTGCATCCGCTTTAAGTTG
35971504 T
65 T
35971505 GTAATTTGCT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
66 54 0.93
67 4 0.07
ACGTcount: A:0.15, C:0.25, G:0.18, T:0.41
Consensus pattern (66 bp):
GCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGATACTGCATCCGCTTTAAGTTGT
A
Found at i:35976756 original size:29 final size:28
Alignment explanation
Indices: 35976720--35976797 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
35976710 TCATGAGATT
35976720 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
35976750 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
35976777 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
35976798 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:35977015 original size:174 final size:174
Alignment explanation
Indices: 35976750--35977077 Score: 602
Period size: 174 Copynumber: 1.9 Consensus size: 174
35976740 AAATTGTACA
*
35976750 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* *
35976815 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
35976880 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
35976924 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
35976989 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
35977054 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
35977078 ACCTTGAGTT
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 148 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:35985146 original size:174 final size:174
Alignment explanation
Indices: 35984856--35985185 Score: 561
Period size: 174 Copynumber: 1.9 Consensus size: 174
35984846 GTCATGAGAT
* * * *
35984856 TGGCACTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGTGGTTGATTATTAAGCACTA
1 TGGCACTAAGTGTGCGAGTTTAAAGTGCACAGCACTAAGTGTGCGCGGTTGATTATTAAGCACTA
*
35984921 TGTGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTC
66 TGTGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTC
* *
35984986 GATTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCA
131 AATTTTGGACAGCGAAAAAGGTAAGTGTGCGAACTTGAAATGCA
* **
35985030 TGGCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTA
1 TGGCACTAAGTGTGCGAGTTTAAAGTGCACAGCACTAAGTGTGCGCGGTTGATTATTAAGCACTA
*
35985095 TGTGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTC
66 TGTGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTC
35985160 AATTTTGGACAGCGAAAAAGGTAAGT
131 AATTTTGGACAGCGAAAAAGGTAAGT
35985186 ACCTTGAGTT
Statistics
Matches: 145, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
174 145 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (174 bp):
TGGCACTAAGTGTGCGAGTTTAAAGTGCACAGCACTAAGTGTGCGCGGTTGATTATTAAGCACTA
TGTGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTC
AATTTTGGACAGCGAAAAAGGTAAGTGTGCGAACTTGAAATGCA
Found at i:35998813 original size:174 final size:174
Alignment explanation
Indices: 35998523--35998852 Score: 561
Period size: 174 Copynumber: 1.9 Consensus size: 174
35998513 GTCATGAGAT
* * * *
35998523 TGGCACTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGTGGTTGATTATTAAGCACTA
1 TGGCACTAAGTGTGCGAGTTTAAAGTGCACAGCACTAAGTGTGCGCGGTTGATTATTAAGCACTA
**
35998588 TGTGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTC
66 TGTGTGCGAACCCAATATATATTTTCTATAAATTATTTACACGAAGGGTGCGACCTTACCGAGTC
*
35998653 GATTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCA
131 AATTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCA
* **
35998697 TGGCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTA
1 TGGCACTAAGTGTGCGAGTTTAAAGTGCACAGCACTAAGTGTGCGCGGTTGATTATTAAGCACTA
*
35998762 TGTGTGCGAACCCAATATATATTTTCTATAAATTATTTACACGAAGGGTGCGACTTTACCGAGTC
66 TGTGTGCGAACCCAATATATATTTTCTATAAATTATTTACACGAAGGGTGCGACCTTACCGAGTC
35998827 AATTTTGGACAGCGGAAAAGGTAAGT
131 AATTTTGGACAGCGGAAAAGGTAAGT
35998853 ACCTTGAGTT
Statistics
Matches: 145, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
174 145 1.00
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (174 bp):
TGGCACTAAGTGTGCGAGTTTAAAGTGCACAGCACTAAGTGTGCGCGGTTGATTATTAAGCACTA
TGTGTGCGAACCCAATATATATTTTCTATAAATTATTTACACGAAGGGTGCGACCTTACCGAGTC
AATTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCA
Found at i:36002031 original size:9 final size:9
Alignment explanation
Indices: 36002017--36002353 Score: 227
Period size: 9 Copynumber: 39.8 Consensus size: 9
36002007 AATTGCACGA
36002017 GTAAGTTAT
1 GTAAGTTAT
36002026 GTAAGTTAT
1 GTAAGTTAT
*
36002035 TTAAGTTAT
1 GTAAGTTAT
*
36002044 GTAAGTTGT
1 GTAAGTTAT
36002053 GT-A-TTAT
1 GTAAGTTAT
36002060 GTAAGTTAT
1 GTAAGTTAT
*
36002069 -T-A-TTCT
1 GTAAGTTAT
36002075 GTAAGTTAT
1 GTAAGTTAT
* *
36002084 GAAAGTAAT
1 GTAAGTTAT
36002093 GT-A-TTAT
1 GTAAGTTAT
*
36002100 GTAAGTTGT
1 GTAAGTTAT
*
36002109 GT-A-TAAT
1 GTAAGTTAT
*
36002116 GTTAGTTAT
1 GTAAGTTAT
**
36002125 CAAAGTTAT
1 GTAAGTTAT
36002134 GT-A-TTAT
1 GTAAGTTAT
36002141 GTAAGTTAT
1 GTAAGTTAT
*
36002150 TTAAGTTAT
1 GTAAGTTAT
*
36002159 GTAAGTTGT
1 GTAAGTTAT
36002168 GT-A-TTAT
1 GTAAGTTAT
36002175 GTAAGTTAT
1 GTAAGTTAT
* *
36002184 GTAGGCTAT
1 GTAAGTTAT
* *
36002193 GTATGTTAA
1 GTAAGTTAT
*
36002202 GTAAGTAAT
1 GTAAGTTAT
36002211 GT-A-TTAT
1 GTAAGTTAT
*
36002218 GTAAGTTGT
1 GTAAGTTAT
*
36002227 GT-A-TAAT
1 GTAAGTTAT
*
36002234 GTTAGTTAT
1 GTAAGTTAT
**
36002243 CAAAGTTAT
1 GTAAGTTAT
36002252 GT-A-TTAT
1 GTAAGTTAT
36002259 GTAAGTTAT
1 GTAAGTTAT
*
36002268 TTAAGTTAT
1 GTAAGTTAT
*
36002277 GTAAGTTGT
1 GTAAGTTAT
36002286 GT-A-TTAT
1 GTAAGTTAT
36002293 GTAAGTTAT
1 GTAAGTTAT
* *
36002302 GTAGGCTAT
1 GTAAGTTAT
36002311 GT-A-TTAT
1 GTAAGTTAT
36002318 GTAAGTTAT
1 GTAAGTTAT
*
36002327 -TATGTTATTAT
1 GTAAG---TTAT
36002338 GTAAGTTAT
1 GTAAGTTAT
*
36002347 GCAAGTT
1 GTAAGTT
36002354 TATATATCAG
Statistics
Matches: 249, Mismatches: 52, Indels: 54
0.70 0.15 0.15
Matches are distributed among these distances:
6 3 0.01
7 52 0.21
8 24 0.10
9 163 0.65
11 4 0.02
12 3 0.01
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.47
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:36002065 original size:25 final size:26
Alignment explanation
Indices: 36002020--36002334 Score: 177
Period size: 25 Copynumber: 12.6 Consensus size: 26
36002010 TGCACGAGTA
*
36002020 AGTTATGTAAGTTATTTAAGTTATGT
1 AGTTATGTAAGTTATGTAAGTTATGT
*
36002046 AAGTTGTGT-A-TTATGTAAGTTAT-T
1 -AGTTATGTAAGTTATGTAAGTTATGT
* * *
36002070 A-TTCTGTAAGTTATGAAAGTAATGT
1 AGTTATGTAAGTTATGTAAGTTATGT
* *
36002095 A-TTATGTAAGTTGTGT-A-TAATGTT
1 AGTTATGTAAGTTATGTAAGTTATG-T
**
36002119 AGTTATCAAAGTTATGT-A-TTATGT
1 AGTTATGTAAGTTATGTAAGTTATGT
* *
36002143 AAGTTATTTAAGTTATGTAAGTTGTGT
1 -AGTTATGTAAGTTATGTAAGTTATGT
* *
36002170 A-TTATGTAAGTTATGTAGGCTATGT
1 AGTTATGTAAGTTATGTAAGTTATGT
* *
36002195 ATGTTAAGTAAGTAATGT-A-TTATGT
1 A-GTTATGTAAGTTATGTAAGTTATGT
* * * **
36002220 AAGTTGTGT-A-TAATGTTAGTTATCAA
1 -AGTTATGTAAGTTATGTAAGTTAT-GT
*
36002246 AGTTATGT-A-TTATGTAAGTTATTT
1 AGTTATGTAAGTTATGTAAGTTATGT
*
36002270 AAGTTATGTAAGTTGTGT-A-TTATGT
1 -AGTTATGTAAGTTATGTAAGTTATGT
* *
36002295 AAGTTATGTAGGCTATGT-A-TTATGT
1 -AGTTATGTAAGTTATGTAAGTTATGT
*
36002320 AAGTTAT-TATGTTAT
1 -AGTTATGTAAGTTAT
36002335 TATGTAAGTT
Statistics
Matches: 232, Mismatches: 39, Indels: 37
0.75 0.13 0.12
Matches are distributed among these distances:
22 5 0.02
23 13 0.06
24 24 0.10
25 154 0.66
26 6 0.03
27 30 0.13
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.47
Consensus pattern (26 bp):
AGTTATGTAAGTTATGTAAGTTATGT
Found at i:36002077 original size:15 final size:16
Alignment explanation
Indices: 36002022--36002304 Score: 134
Period size: 16 Copynumber: 17.0 Consensus size: 16
36002012 CACGAGTAAG
*
36002022 TTATGTAAGTTATTTAA
1 TTATGTAAGTTATGT-A
*
36002039 GTTATGTAAGTTGTGTA
1 -TTATGTAAGTTATGTA
36002056 TTATGTAAGTTAT-TA
1 TTATGTAAGTTATGTA
* *
36002071 TTCTGTAAGTTATGAAA
1 TTATGTAAGTTATG-TA
*
36002088 GTAATGT-A-TTATGTAA
1 -TTATGTAAGTTATGT-A
* *
36002104 GTTGTGT-A-TAATGTTA
1 -TTATGTAAGTTATG-TA
**
36002120 GTTATCAAAGTTATGTA
1 -TTATGTAAGTTATGTA
*
36002137 TTATGTAAGTTATTTAA
1 TTATGTAAGTTATGT-A
*
36002154 GTTATGTAAGTTGTGTA
1 -TTATGTAAGTTATGTA
36002171 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
* * *
36002187 GGCTATGTATGTTAAGTAA
1 --TTATGTAAGTTATGT-A
*
36002206 GTAATGT-A-TTATGTAA
1 -TTATGTAAGTTATGT-A
* *
36002222 GTTGTGT-A-TAATGTTA
1 -TTATGTAAGTTATG-TA
**
36002238 GTTATCAAAGTTATGTA
1 -TTATGTAAGTTATGTA
*
36002255 TTATGTAAGTTATTTAA
1 TTATGTAAGTTATGT-A
*
36002272 GTTATGTAAGTTGTGTA
1 -TTATGTAAGTTATGTA
36002289 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
36002305 GGCTATGTAT
Statistics
Matches: 207, Mismatches: 41, Indels: 36
0.73 0.14 0.13
Matches are distributed among these distances:
15 14 0.07
16 109 0.53
17 15 0.07
18 68 0.33
19 1 0.00
ACGTcount: A:0.31, C:0.01, G:0.20, T:0.47
Consensus pattern (16 bp):
TTATGTAAGTTATGTA
Found at i:36002313 original size:34 final size:34
Alignment explanation
Indices: 36002022--36002200 Score: 115
Period size: 34 Copynumber: 4.9 Consensus size: 34
36002012 CACGAGTAAG
* * *
36002022 TTATGTAAGTTATTTAAGTTATGTAAGTTGTGTA
1 TTATGTAAGTTATGTAAGCTATGTAAGTTATGTA
* * *
36002056 TTATGTAAGTTATTATTCTGTAAGTTATGAAAGTAATGTA
1 TTATGTAAG---TTA---TGTAAGCTATGTAAGTTATGTA
* * *
36002096 TTATGTAAGTTGTGTATAATGTTAGTTATCAAAGTTATGTA
1 TTATGTAAGTTATG--TAA-GCTA--TGT--AAGTTATGTA
* * *
36002137 TTATGTAAGTTATTTAAGTTATGTAAGTTGTGTA
1 TTATGTAAGTTATGTAAGCTATGTAAGTTATGTA
* *
36002171 TTATGTAAGTTATGTAGGCTATGTATGTTA
1 TTATGTAAGTTATGTAAGCTATGTAAGTTA
36002201 AGTAAGTAAT
Statistics
Matches: 115, Mismatches: 17, Indels: 26
0.73 0.11 0.16
Matches are distributed among these distances:
34 45 0.39
36 5 0.04
37 9 0.08
38 4 0.03
39 4 0.03
40 27 0.23
41 21 0.18
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.47
Consensus pattern (34 bp):
TTATGTAAGTTATGTAAGCTATGTAAGTTATGTA
Found at i:36002337 original size:20 final size:19
Alignment explanation
Indices: 36002248--36002346 Score: 73
Period size: 25 Copynumber: 5.1 Consensus size: 19
36002238 GTTATCAAAG
36002248 TTATGTATTATGTAAGTTA
1 TTATGTATTATGTAAGTTA
*
36002267 TT-T-AAGTTATGTAAG---
1 TTATGTA-TTATGTAAGTTA
*
36002282 TTGTGTATTATGTAAGTTA
1 TTATGTATTATGTAAGTTA
36002301 TGTAGGCTATGTATTATGTAAGTTA
1 --T----TATGTATTATGTAAGTTA
36002326 TTATGTTATTATGTAAGTTA
1 TTATG-TATTATGTAAGTTA
36002346 T
1 T
36002347 GCAAGTTTAT
Statistics
Matches: 64, Mismatches: 3, Indels: 25
0.70 0.03 0.27
Matches are distributed among these distances:
15 2 0.03
16 10 0.16
17 2 0.03
18 10 0.16
19 6 0.09
20 15 0.23
21 1 0.02
23 1 0.02
25 17 0.27
ACGTcount: A:0.29, C:0.01, G:0.19, T:0.51
Consensus pattern (19 bp):
TTATGTATTATGTAAGTTA
Found at i:36002362 original size:118 final size:117
Alignment explanation
Indices: 36002022--36002344 Score: 528
Period size: 118 Copynumber: 2.7 Consensus size: 117
36002012 CACGAGTAAG
* *
36002022 TTATGTAAGTTATTTAAGTTATGTAAGTTGTGTATTATGTAAGTTAT-TA--TTCTGTAAGTTAT
1 TTATGTAAGTTATTTAAGTTATGTAAGTTGTGTATTATGTAAGTTATGTAGGCTATGT-AGTTAT
*
36002084 GAAAGTAATGTATTATGTAAGTTGTGTATAATGTTAGTTATCAAAGTTATGTA
65 GTAAGTAATGTATTATGTAAGTTGTGTATAATGTTAGTTATCAAAGTTATGTA
*
36002137 TTATGTAAGTTATTTAAGTTATGTAAGTTGTGTATTATGTAAGTTATGTAGGCTATGTATGTTAA
1 TTATGTAAGTTATTTAAGTTATGTAAGTTGTGTATTATGTAAGTTATGTAGGCTATGTA-GTTAT
36002202 GTAAGTAATGTATTATGTAAGTTGTGTATAATGTTAGTTATCAAAGTTATGTA
65 GTAAGTAATGTATTATGTAAGTTGTGTATAATGTTAGTTATCAAAGTTATGTA
36002255 TTATGTAAGTTATTTAAGTTATGTAAGTTGTGTATTATGTAAGTTATGTAGGCTATGTA-TTATG
1 TTATGTAAGTTATTTAAGTTATGTAAGTTGTGTATTATGTAAGTTATGTAGGCTATGTAGTTATG
36002319 TAAGTTATTATGTTATTATGTAAGTT
66 TAAG-TA--ATG-TATTATGTAAGTT
36002345 ATGCAAGTTT
Statistics
Matches: 195, Mismatches: 5, Indels: 11
0.92 0.02 0.05
Matches are distributed among these distances:
115 47 0.24
116 10 0.05
117 3 0.02
118 119 0.61
119 3 0.02
120 13 0.07
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.47
Consensus pattern (117 bp):
TTATGTAAGTTATTTAAGTTATGTAAGTTGTGTATTATGTAAGTTATGTAGGCTATGTAGTTATG
TAAGTAATGTATTATGTAAGTTGTGTATAATGTTAGTTATCAAAGTTATGTA
Found at i:36002548 original size:121 final size:121
Alignment explanation
Indices: 36002400--36002839 Score: 808
Period size: 121 Copynumber: 3.6 Consensus size: 121
36002390 TATGTATCCT
*
36002400 ATTTATAATTATTTTTAAAATTATAAAATTTATTGACAATAAAATTGACATATAGGTTATATATC
1 ATTTACAATTATTTTTAAAATTATAAAATTTATTGACAATAAAATTGACATATAGGTTATATATC
*
36002465 CATACCATATATGGGGTGATATATTAAAAATATAAGTTTTAATATTTAAAAATAAC
66 CATACCATATATGGGGTGATATATTAAAAATATAGGTTTTAATATTTAAAAATAAC
*
36002521 ATTTACAATTATTTTTAAAATTATAAAATTTATTGACAATAAAACTGACATATAGGTTATATATC
1 ATTTACAATTATTTTTAAAATTATAAAATTTATTGACAATAAAATTGACATATAGGTTATATATC
36002586 CATACCATATATGGGGTGATATATTAAAAATATAGGTTTTAATATTTAAAAATAAC
66 CATACCATATATGGGGTGATATATTAAAAATATAGGTTTTAATATTTAAAAATAAC
36002642 ATTTACAATTATTTTTAAAATTATAAAATTTATTGACAATAAAATTGACATATAGGTTATATATC
1 ATTTACAATTATTTTTAAAATTATAAAATTTATTGACAATAAAATTGACATATAGGTTATATATC
* * *
36002707 CATACCATTTATTGGTTGATATATTAAAAATATAGGTTTTAATATTTAAAAATAAC
66 CATACCATATATGGGGTGATATATTAAAAATATAGGTTTTAATATTTAAAAATAAC
* *
36002763 ATTTACAATTATTTTTAAAATTATAAAATTTATGGACAATAAAATTGAAATATAGGTTATATATC
1 ATTTACAATTATTTTTAAAATTATAAAATTTATTGACAATAAAATTGACATATAGGTTATATATC
36002828 CATACCATATAT
66 CATACCATATAT
36002840 ATAAATTTTA
Statistics
Matches: 309, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
121 309 1.00
ACGTcount: A:0.45, C:0.07, G:0.08, T:0.40
Consensus pattern (121 bp):
ATTTACAATTATTTTTAAAATTATAAAATTTATTGACAATAAAATTGACATATAGGTTATATATC
CATACCATATATGGGGTGATATATTAAAAATATAGGTTTTAATATTTAAAAATAAC
Found at i:36002888 original size:18 final size:18
Alignment explanation
Indices: 36002859--36002953 Score: 104
Period size: 18 Copynumber: 5.1 Consensus size: 18
36002849 AAATATATAT
36002859 ATATATTTTAAGTAATGTA
1 ATATA-TTTAAGTAATGTA
36002878 ATATATTTAAGTAATGTA
1 ATATATTTAAGTAATGTA
**
36002896 AGTTATAAATTTTTGTAA-GTA
1 A--TAT--ATTTAAGTAATGTA
36002917 ATATATTTAAGTAATGTA
1 ATATATTTAAGTAATGTA
*
36002935 ATATATTTTAGTAA-GTA
1 ATATATTTAAGTAATGTA
36002952 AT
1 AT
36002954 GTAAGTAATG
Statistics
Matches: 66, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
17 13 0.20
18 30 0.45
19 8 0.12
20 3 0.05
21 4 0.06
22 8 0.12
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (18 bp):
ATATATTTAAGTAATGTA
Found at i:36002919 original size:39 final size:39
Alignment explanation
Indices: 36002858--36003062 Score: 199
Period size: 39 Copynumber: 5.3 Consensus size: 39
36002848 TAAATATATA
*
36002858 TATATATTTTAAGTAATGTAATATATTTAAGTAATGTAAGT
1 TATAAATTTT-AGTAA-GTAATATATTTAAGTAATGTAAGT
*
36002899 TATAAATTTTTGTAAGTAATATATTTAAGTAATGTAA--
1 TATAAATTTTAGTAAGTAATATATTTAAGTAATGTAAGT
* ** * *
36002936 TAT--ATTTTAGTAAGTAATGTAAGTAATGTAATATATACT
1 TATAAATTTTAGTAAGTAATATATTTAA-GTAATGTA-AGT
* * * *
36002975 T-T-AATTTTAGTAAGTCATGTATTTAAGTAATAT-ATT
1 TATAAATTTTAGTAAGTAATATATTTAAGTAATGTAAGT
*
36003011 TAAGTAAATTTTAGTAATTAATATATTTAAGTAATGTAAGT
1 T-A-TAAATTTTAGTAAGTAATATATTTAAGTAATGTAAGT
36003052 TATAAATTTTA
1 TATAAATTTTA
36003063 AAAATATATA
Statistics
Matches: 138, Mismatches: 16, Indels: 22
0.78 0.09 0.12
Matches are distributed among these distances:
35 19 0.14
36 10 0.07
37 4 0.03
38 8 0.06
39 53 0.38
40 32 0.23
41 12 0.09
ACGTcount: A:0.41, C:0.01, G:0.11, T:0.46
Consensus pattern (39 bp):
TATAAATTTTAGTAAGTAATATATTTAAGTAATGTAAGT
Found at i:36002948 original size:31 final size:31
Alignment explanation
Indices: 36002867--36002971 Score: 100
Period size: 31 Copynumber: 3.5 Consensus size: 31
36002857 ATATATATTT
36002867 TAAGTAATGTAATATA--TT--TAAGTAATG
1 TAAGTAATGTAATATATTTTAGTAAGTAATG
* * *
36002894 TAAGT--TATAA-ATTTTTGTAAGTAA-TATATT
1 TAAGTAATGTAATATATTT-T-AGTAAGTA-ATG
36002924 TAAGTAATGTAATATATTTTAGTAAGTAATG
1 TAAGTAATGTAATATATTTTAGTAAGTAATG
36002955 TAAGTAATGTAATATAT
1 TAAGTAATGTAATATAT
36002972 ACTTTAATTT
Statistics
Matches: 61, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
24 2 0.03
25 4 0.07
26 1 0.02
27 6 0.10
29 2 0.03
30 10 0.16
31 24 0.39
32 7 0.11
33 5 0.08
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.44
Consensus pattern (31 bp):
TAAGTAATGTAATATATTTTAGTAAGTAATG
Found at i:36003010 original size:13 final size:13
Alignment explanation
Indices: 36002994--36003045 Score: 61
Period size: 13 Copynumber: 3.9 Consensus size: 13
36002984 GTAAGTCATG
36002994 TATTTAAGTAATA
1 TATTTAAGTAATA
36003007 TATTTAAGTAA-A
1 TATTTAAGTAATA
* *
36003019 TTTTAGTAATTAATA
1 TATT--TAAGTAATA
36003034 TATTTAAGTAAT
1 TATTTAAGTAAT
36003046 GTAAGTTATA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
12 4 0.12
13 18 0.56
14 6 0.19
15 4 0.12
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TATTTAAGTAATA
Found at i:36003097 original size:21 final size:21
Alignment explanation
Indices: 36003073--36003112 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
36003063 AAAATATATA
* *
36003073 TATTAATAATTCATTGACATT
1 TATTAACAATTCACTGACATT
*
36003094 TATTCACAATTCACTGACA
1 TATTAACAATTCACTGACA
36003113 GTCAATCAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.17, G:0.05, T:0.40
Consensus pattern (21 bp):
TATTAACAATTCACTGACATT
Found at i:36004257 original size:12 final size:12
Alignment explanation
Indices: 36004240--36004271 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
36004230 AAAATCTCGC
*
36004240 AAAACAGACTAG
1 AAAACAAACTAG
36004252 AAAACAAACTAG
1 AAAACAAACTAG
36004264 AAAACAAA
1 AAAACAAA
36004272 ACCCAAGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.69, C:0.16, G:0.09, T:0.06
Consensus pattern (12 bp):
AAAACAAACTAG
Found at i:36006083 original size:448 final size:450
Alignment explanation
Indices: 36005246--36006139 Score: 1432
Period size: 448 Copynumber: 2.0 Consensus size: 450
36005236 ATTGCTTCCA
*
36005246 TAATTGCCAAAATTAAATTATGAAACAACACCGTTTTAAGAACCTTAAATATATATTTGTGGCGT
1 TAATTGCCAAAATTAAATTATGAAACAACACCGTTTTAAGAACCTTAAATATATAGTTGTGGCGT
* * *
36005311 TTTTAGCAAAAATGCCACTAAAAATTACCTTACTGAATAGAAACGGTGCCGTTTTAAGAAACTTT
66 TTTTA-CAAAAACGCCACTAAAAATTAACTTACTGAAAAGAAACGGTGCCGTTTTAAGAAACTTT
* *
36005376 AATCCATAGTTCCGGCGTTTTCCCAAAAAACGCCACTAAAATTTCAAGTCCTGAAGAGAAATAGT
130 AATCCATAGTTCCGGCGTTTTCCCAAAAAACGCCACTAAAATGTCAAGTCCTGAAGAGAAACAGT
*
36005441 GACGTTTTGAAAAACATTAATACATAATTGCGGCGTTTTTAGCATAAACGCCACTAATAGATTAC
195 GACGTTTTGAAAAACATTAATACATAATTGCGGCGTTTCTAGCATAAACGCCACTAATAGATTAC
* * * *
36005506 ACTCCTCTTCTGAAACAGTGTCGTTTTGAGAAATTATAATACATATTTATGGCGTTTTCCCAAAA
260 ACTACTCTTCTGAAACAGGGCCGTTTTGAGAAATTATAATACATATTTATGGCATTTTCCCAAAA
* * * **
36005571 AATGCCACAAATTAAATTAAATTTCTAAATGGGTACAACGCCGTTTTGAAAAAAATGGGTACATA
325 AACGCCACAAATTAAATTAAATTTCTAAATGGATACAACGCCATTTCCAAAAAAATGGGTACATA
36005636 GTTGCGGCGTTTCTACCCAAACGCCGCTAATGTTTTTT-TTCCTTATAATGTGGTCCTGCG
390 GTTGCGGCGTTTCTACCCAAACGCCGCTAATGTTTTTTATTCCTTATAATGTGGTCCTGCG
* ** *
36005696 TAATTGCCAAAATTAAATTCTGAAACAGTACCGTTTTAAGAACCTTCAATATATAGTTGTGGCGT
1 TAATTGCCAAAATTAAATTATGAAACAACACCGTTTTAAGAACCTTAAATATATAGTTGTGGCGT
36005761 TTTTA-AAAAACGCCACTAAAAATTAACTTACTGAAAAGAAACGGTGCCGTTTTAAGAAACTTTA
66 TTTTACAAAAACGCCACTAAAAATTAACTTACTGAAAAGAAACGGTGCCGTTTTAAGAAACTTTA
* * ** ** *
36005825 ATTCATATTTTTGGCGTTTTCCGGAAAAACGCCACTAAAATGTCAAGTCCTGAAGTGAAACAGTG
131 ATCCATAGTTCCGGCGTTTTCCCAAAAAACGCCACTAAAATGTCAAGTCCTGAAGAGAAACAGTG
** *
36005890 ACGTTTTGAAAAACATTAATACATCCTTGCGGCGTTTCTAGCATAAACGCCACTAGTAGATTACA
196 ACGTTTTGAAAAACATTAATACATAATTGCGGCGTTTCTAGCATAAACGCCACTAATAGATTACA
* * * *
36005955 CTACTCTTCTGAAACGGGGCCGTTTTGATAAATTATAATACATATTTGTGGCATTTTCCCATAAA
261 CTACTCTTCTGAAACAGGGCCGTTTTGAGAAATTATAATACATATTTATGGCATTTTCCCAAAAA
* *
36006020 ACGCCACAAATTAAATTAAATTTCTAAATGGATACGATGCCATTTCCAAAAAAATGGGTACATAG
326 ACGCCACAAATTAAATTAAATTTCTAAATGGATACAACGCCATTTCCAAAAAAATGGGTACATAG
*
36006085 TTGCGGCGTTTCTACCCAAACGCCGCTAATGTTTTTTATTTCTTATAATGTGGTC
391 TTGCGGCGTTTCTACCCAAACGCCGCTAATGTTTTTTATTCCTTATAATGTGGTC
36006140 TTAAATATCA
Statistics
Matches: 406, Mismatches: 37, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
448 325 0.80
449 16 0.04
450 65 0.16
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (450 bp):
TAATTGCCAAAATTAAATTATGAAACAACACCGTTTTAAGAACCTTAAATATATAGTTGTGGCGT
TTTTACAAAAACGCCACTAAAAATTAACTTACTGAAAAGAAACGGTGCCGTTTTAAGAAACTTTA
ATCCATAGTTCCGGCGTTTTCCCAAAAAACGCCACTAAAATGTCAAGTCCTGAAGAGAAACAGTG
ACGTTTTGAAAAACATTAATACATAATTGCGGCGTTTCTAGCATAAACGCCACTAATAGATTACA
CTACTCTTCTGAAACAGGGCCGTTTTGAGAAATTATAATACATATTTATGGCATTTTCCCAAAAA
ACGCCACAAATTAAATTAAATTTCTAAATGGATACAACGCCATTTCCAAAAAAATGGGTACATAG
TTGCGGCGTTTCTACCCAAACGCCGCTAATGTTTTTTATTCCTTATAATGTGGTCCTGCG
Found at i:36006476 original size:7 final size:7
Alignment explanation
Indices: 36006453--36006490 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
36006443 ATATAATTCT
36006453 TAACCCC
1 TAACCCC
**
36006460 TAACGTC
1 TAACCCC
36006467 TAACCCC
1 TAACCCC
36006474 TAACCCC
1 TAACCCC
36006481 TAACCCC
1 TAACCCC
36006488 TAA
1 TAA
36006491 ACCTTGAATC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.32, C:0.47, G:0.03, T:0.18
Consensus pattern (7 bp):
TAACCCC
Found at i:36006520 original size:20 final size:21
Alignment explanation
Indices: 36006482--36006522 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
36006472 CCTAACCCCT
*
36006482 AACCCCTAAACCTTGAATCCC
1 AACCCCTAAACCATGAATCCC
*
36006503 AACCCTTAAACCAT-AATCCC
1 AACCCCTAAACCATGAATCCC
36006523 TAGTCCCTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.37, C:0.41, G:0.02, T:0.20
Consensus pattern (21 bp):
AACCCCTAAACCATGAATCCC
Found at i:36007487 original size:41 final size:41
Alignment explanation
Indices: 36007416--36007613 Score: 240
Period size: 41 Copynumber: 4.8 Consensus size: 41
36007406 TAAAATGTCC
* *
36007416 TTAGCGGCGCTTTTCCGGAAAACGCCGCTAAAGGCCAAAGCA
1 TTAGCGGCGCTTTTAC-AAAAACGCCGCTAAAGGCCAAAGCA
** *
36007458 TTAGCGATGCTTTTACAAAAACACCGCTAAAGGCCAAAGCA
1 TTAGCGGCGCTTTTACAAAAACGCCGCTAAAGGCCAAAGCA
* * *
36007499 TTAGCGGCGCTTTTACAAAAACGCCGCTAAAGCCCATAGAA
1 TTAGCGGCGCTTTTACAAAAACGCCGCTAAAGGCCAAAGCA
*
36007540 TTAGCGGCGCTTATT-CAAAAACGCCGCTAAA-GCCTACAGCA
1 TTAGCGGCGCTT-TTACAAAAACGCCGCTAAAGGCC-AAAGCA
*
36007581 TTAGCGGCGCTTCTTA-ATAAAACGCCACTAAAG
1 TTAGCGGCGCTT-TTACA-AAAACGCCGCTAAAG
36007614 ACCCGAAAGG
Statistics
Matches: 135, Mismatches: 16, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
40 2 0.01
41 105 0.78
42 28 0.21
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.20
Consensus pattern (41 bp):
TTAGCGGCGCTTTTACAAAAACGCCGCTAAAGGCCAAAGCA
Found at i:36007737 original size:40 final size:39
Alignment explanation
Indices: 36007652--36007805 Score: 157
Period size: 40 Copynumber: 3.8 Consensus size: 39
36007642 GGGCTTTGGT
* ** *
36007652 TTTTTGCGGCGTTTTTTTTTAAAACCGCCGCTAATGGTTCT-
1 TTTTAGCGGCG-TTTTTAATAAAA-CGCCGCTAAT-GCTCTA
36007693 TTTTAGCGGCGTTTTTAATAAAACGCCGCTAATGCTCCTA
1 TTTTAGCGGCGTTTTTAATAAAACGCCGCTAATGCT-CTA
* * *
36007733 TTTTAGCGGCATTTTTAATAAAACGCCGCGAATGCTCGA
1 TTTTAGCGGCGTTTTTAATAAAACGCCGCTAATGCTCTA
* * *
36007772 TTTTTGCCGGCGTTTTTTATGAAAACGCCACTAA
1 TTTTAG-CGGCGTTTTTAAT-AAAACGCCGCTAA
36007806 AAGTGCCGCT
Statistics
Matches: 97, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.02
39 19 0.20
40 55 0.57
41 21 0.22
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.38
Consensus pattern (39 bp):
TTTTAGCGGCGTTTTTAATAAAACGCCGCTAATGCTCTA
Found at i:36008742 original size:42 final size:42
Alignment explanation
Indices: 36008684--36008802 Score: 202
Period size: 42 Copynumber: 2.8 Consensus size: 42
36008674 GTTTACAAAC
*
36008684 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAATA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAATA
*
36008726 AAAAACGCCGCTAAAGACCATGTTCTTTAGTGGCGCTTAATA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAATA
* *
36008768 AAAAACGCCGCTAAAGAACATGGTCTTTAGCGGCG
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCG
36008803 TTTTCTTCTA
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 72 1.00
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.24
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAATA
Found at i:36008825 original size:84 final size:83
Alignment explanation
Indices: 36008689--36009060 Score: 368
Period size: 84 Copynumber: 4.4 Consensus size: 83
36008679 CAAACAAAAA
* * ** *** * * *
36008689 CGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAATAAAAAACGCCGCTAAAGACCATGTTCTTT
1 CGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTT
* * ** ** *
36008754 AGTGGCGCTTAATAAAAAA
65 AGCGGCGTTTTTTACTAAG
* * *
36008773 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTCTTCTAAGCGCCTCTAAAGAACATGTTCTTT
1 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTT-TTCTAAGCGCCGCTAAAGAACATGGTCTTT
*
36008838 AGCAGCG-TTTTTATCTAAG
65 AGCGGCGTTTTTTA-CTAAG
* * ** * *
36008857 CACCGCTAAAGAACATGTTCTTTCGCTACGTTTTTTATTAAGCGTCGCTAAAGAACATGGTCTTT
1 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTT-CTAAGCGCCGCTAAAGAACATGGTCTTT
*
36008922 AGCGGCGTTTTTTTCTAAG
65 AGCGGCGTTTTTTACTAAG
* * ** * *
36008941 CACCACTAAAGAACATGGCCTTTAGCGGCGTTTTTTCTTAAGCTCCACTAAAGAACATGGTCTTT
1 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTC-TAAGCGCCGCTAAAGAACATGGTCTTT
*
36009006 AGCGGCGTTTTTTTCTAAG
65 AGCGGCGTTTTTTACTAAG
*
36009025 CGCCGCTAAAGAACATGTTCTTTAGCAGCGTTTTTT
1 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTT
36009061 TACAAAAAAC
Statistics
Matches: 239, Mismatches: 44, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
83 8 0.03
84 226 0.95
85 5 0.02
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (83 bp):
CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTA
GCGGCGTTTTTTACTAAG
Found at i:36008866 original size:126 final size:126
Alignment explanation
Indices: 36008733--36009058 Score: 404
Period size: 126 Copynumber: 2.6 Consensus size: 126
36008723 ATAAAAAACG
* * ** * *
36008733 CCGCTAAAGACCATGTTCTTTAGTGGCGCTTAATAAAAAACGCCGCTAAAGAACATGGTCTTTAG
1 CCGCTAAAGAACATGTTCTTTAGTGGCGTTTTTTAATAAGCGCCGCTAAAGAACATGGTCTTTAG
* * **
36008798 CGGCGTTTTCTTCTAAGCGCCTCTAAAGAACATGTTCTTTAGCAGCGTTTTTATC-TAAGCA
66 CGGCGTTTTCTTCTAAGCACCACTAAAGAACATGGCCTTTAGCAGCGTTTTT-TCTTAAGCA
* * * *
36008859 CCGCTAAAGAACATGTTCTTTCGCT-ACGTTTTTTATTAAGCGTCGCTAAAGAACATGGTCTTTA
1 CCGCTAAAGAACATGTTCTTTAG-TGGCGTTTTTTAATAAGCGCCGCTAAAGAACATGGTCTTTA
* * *
36008923 GCGGCGTTTTTTTCTAAGCACCACTAAAGAACATGGCCTTTAGCGGCGTTTTTTCTTAAGCT
65 GCGGCGTTTTCTTCTAAGCACCACTAAAGAACATGGCCTTTAGCAGCGTTTTTTCTTAAGCA
* * * ** *
36008985 CCACTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGTTCTTTAG
1 CCGCTAAAGAACATGTTCTTTAGTGGCGTTTTTTAATAAGCGCCGCTAAAGAACATGGTCTTTAG
*
36009050 CAGCGTTTT
66 CGGCGTTTT
36009059 TTTACAAAAA
Statistics
Matches: 170, Mismatches: 27, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
125 2 0.01
126 167 0.98
127 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.33
Consensus pattern (126 bp):
CCGCTAAAGAACATGTTCTTTAGTGGCGTTTTTTAATAAGCGCCGCTAAAGAACATGGTCTTTAG
CGGCGTTTTCTTCTAAGCACCACTAAAGAACATGGCCTTTAGCAGCGTTTTTTCTTAAGCA
Found at i:36009061 original size:42 final size:42
Alignment explanation
Indices: 36008773--36009061 Score: 384
Period size: 42 Copynumber: 6.9 Consensus size: 42
36008763 TAATAAAAAA
*
36008773 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTCTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
* * * *
36008815 CGCCTCTAAAGAACATGTTCTTTAGCAGCGTTTTTATCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
* * * **
36008857 CACCGCTAAAGAACATGTTCTTTCGCTACGTTTTTTAT-TAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTT-TCTAAG
*
36008899 CGTCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
* * *
36008941 CACCACTAAAGAACATGGCCTTTAGCGGCG-TTTTTTCTTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTC-TAAG
* *
36008983 CTCCACTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
* *
36009025 CGCCGCTAAAGAACATGTTCTTTAGCAGCGTTTTTTT
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTT
36009062 ACAAAAAACG
Statistics
Matches: 216, Mismatches: 27, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
41 8 0.04
42 200 0.93
43 8 0.04
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (42 bp):
CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
Found at i:36009427 original size:20 final size:21
Alignment explanation
Indices: 36009377--36009442 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
36009367 TTTTACTCTG
*
36009377 CTCTGCTTCTCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
*
36009398 CTCCGCTTCCCTCGCT-CAGTC
1 CTCTGCTTCCCTCGCTGCAG-C
36009419 C-CTGCTTCCCTCGCTGTC-GC
1 CTCTGCTTCCCTCGCTG-CAGC
36009439 CTCT
1 CTCT
36009443 TCTTTAAGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
20 18 0.47
21 19 0.50
22 1 0.03
ACGTcount: A:0.03, C:0.48, G:0.17, T:0.32
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:36011290 original size:9 final size:9
Alignment explanation
Indices: 36011276--36011309 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
36011266 TTATGTATTA
36011276 TGTAAGTAC
1 TGTAAGTAC
36011285 TGTAAGTAC
1 TGTAAGTAC
36011294 TGTAAGTTA-
1 TGTAAG-TAC
36011303 TGTAAGT
1 TGTAAGT
36011310 TACTTAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 1 0.04
9 21 0.88
10 2 0.08
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.38
Consensus pattern (9 bp):
TGTAAGTAC
Found at i:36011305 original size:27 final size:27
Alignment explanation
Indices: 36011257--36011915 Score: 677
Period size: 27 Copynumber: 24.6 Consensus size: 27
36011247 TTAAAACGCC
36011257 AGTTATGT-A-TTATGT-A-TTATGTA
1 AGTTATGTAAGTTATGTAAGTTATGTA
36011280 AG-TACTGTAAG-TACTGTAAGTTATGTA
1 AGTTA-TGTAAGTTA-TGTAAGTTATGTA
*
36011307 AGTTACT-TAATTTATGTAAGTTATGTA
1 AGTTA-TGTAAGTTATGTAAGTTATGTA
* * * *
36011334 AGATATTTAATTTTTGTAAGTTATGTA
1 AGTTATGTAAGTTATGTAAGTTATGTA
*
36011361 AGTTACT-TAATTTATGTAAGTTATGTA
1 AGTTA-TGTAAGTTATGTAAGTTATGTA
* *
36011388 AGTTATGTAAGTTATTTAATTTATGTA
1 AGTTATGTAAGTTATGTAAGTTATGTA
* *
36011415 AGTTATGTAAGATAT-TTAGTTTATGTA
1 AGTTATGTAAGTTATGTAAG-TTATGTA
* *
36011442 ATTTATGTAAGTTATGTAAGTTATTTA
1 AGTTATGTAAGTTATGTAAGTTATGTA
* *
36011469 ATTTTTGTAAGTTATGTAAGTTATGTA
1 AGTTATGTAAGTTATGTAAGTTATGTA
* *
36011496 AGTTATTTAATTTATGTAAGTTATGTA
1 AGTTATGTAAGTTATGTAAGTTATGTA
* * *
36011523 AGATAT-TTAGTTTATGTAATTTATGTA
1 AGTTATGTAAG-TTATGTAAGTTATGTA
* * *
36011550 AGTTATGTAAGTTATTTAATTTTTGTA
1 AGTTATGTAAGTTATGTAAGTTATGTA
*
36011577 AGTTATGTAAGTTACGTAAGTTACT-TA
1 AGTTATGTAAGTTATGTAAGTTA-TGTA
*
36011604 ATTTATGTAAGTTATGTAAGTTATGTA
1 AGTTATGTAAGTTATGTAAGTTATGTA
* *
36011631 AGTTATTTAATTTATGTAAGTTATGTA
1 AGTTATGTAAGTTATGTAAGTTATGTA
* * *
36011658 AGATAT-TTAGTTTATGTAATTTATGTA
1 AGTTATGTAAG-TTATGTAAGTTATGTA
* * *
36011685 AGTTATGTAAGTTATTTAATTTTTGTA
1 AGTTATGTAAGTTATGTAAGTTATGTA
*
36011712 AGTTATGTAAGTTACT-TAATTTATGTA
1 AGTTATGTAAGTTA-TGTAAGTTATGTA
* *
36011739 AGTTATGTAAGTTATTTAAGTTATTTA
1 AGTTATGTAAGTTATGTAAGTTATGTA
* * *
36011766 ATTTATGTAAGTTATGTAAGATAT-TT
1 AGTTATGTAAGTTATGTAAGTTATGTA
*
36011792 AGTTTATGTAATTTATGTAAGTTATGTA
1 AG-TTATGTAAGTTATGTAAGTTATGTA
* * *
36011820 AGTTATTTAATTTTTGTAAGTTATGTA
1 AGTTATGTAAGTTATGTAAGTTATGTA
* *
36011847 AGTTACT-TAATTTTTGTAAGTTATGTA
1 AGTTA-TGTAAGTTATGTAAGTTATGTA
*
36011874 AGTTACT-TAATTTATGTAAGTTATGTA
1 AGTTA-TGTAAGTTATGTAAGTTATGTA
36011901 A-TTAATGTAAGTTAT
1 AGTT-ATGTAAGTTAT
36011916 TTAATTTGTG
Statistics
Matches: 549, Mismatches: 61, Indels: 48
0.83 0.09 0.07
Matches are distributed among these distances:
22 2 0.00
23 5 0.01
24 3 0.01
25 3 0.01
26 16 0.03
27 498 0.91
28 22 0.04
ACGTcount: A:0.33, C:0.01, G:0.16, T:0.50
Consensus pattern (27 bp):
AGTTATGTAAGTTATGTAAGTTATGTA
Found at i:36011327 original size:36 final size:36
Alignment explanation
Indices: 36011257--36011915 Score: 677
Period size: 36 Copynumber: 18.4 Consensus size: 36
36011247 TTAAAACGCC
36011257 AGTTATGT-A-TTATGT-A-TTATGTAAG-TACTGTA
1 AGTTATGTAAGTTATGTAAGTTATGTAAGTTA-TGTA
*
36011289 AG-TACTGTAAGTTATGTAAGTTACT-TAATTTATGTA
1 AGTTA-TGTAAGTTATGTAAGTTA-TGTAAGTTATGTA
* * * *
36011325 AGTTATGTAAGATATTTAATTTTTGTAAGTTATGTA
1 AGTTATGTAAGTTATGTAAGTTATGTAAGTTATGTA
*
36011361 AGTTACT-TAATTTATGTAAGTTATGTAAGTTATGTA
1 AGTTA-TGTAAGTTATGTAAGTTATGTAAGTTATGTA
* * * *
36011397 AGTTATTTAATTTATGTAAGTTATGTAAGATAT-TT
1 AGTTATGTAAGTTATGTAAGTTATGTAAGTTATGTA
* *
36011432 AGTTTATGTAATTTATGTAAGTTATGTAAGTTATTTA
1 AG-TTATGTAAGTTATGTAAGTTATGTAAGTTATGTA
* * *
36011469 ATTTTTGTAAGTTATGTAAGTTATGTAAGTTATTTA
1 AGTTATGTAAGTTATGTAAGTTATGTAAGTTATGTA
* * *
36011505 ATTTATGTAAGTTATGTAAGATAT-TTAGTTTATGTA
1 AGTTATGTAAGTTATGTAAGTTATGTAAG-TTATGTA
* * * *
36011541 ATTTATGTAAGTTATGTAAGTTATTTAATTTTTGTA
1 AGTTATGTAAGTTATGTAAGTTATGTAAGTTATGTA
* *
36011577 AGTTATGTAAGTTACGTAAGTTACT-TAATTTATGTA
1 AGTTATGTAAGTTATGTAAGTTA-TGTAAGTTATGTA
* *
36011613 AGTTATGTAAGTTATGTAAGTTATTTAATTTATGTA
1 AGTTATGTAAGTTATGTAAGTTATGTAAGTTATGTA
* * *
36011649 AGTTATGTAAGATAT-TTAGTTTATGTAATTTATGTA
1 AGTTATGTAAGTTATGTAAG-TTATGTAAGTTATGTA
* * *
36011685 AGTTATGTAAGTTATTTAATTTTTGTAAGTTATGTA
1 AGTTATGTAAGTTATGTAAGTTATGTAAGTTATGTA
* *
36011721 AGTTACT-TAATTTATGTAAGTTATGTAAGTTATTTA
1 AGTTA-TGTAAGTTATGTAAGTTATGTAAGTTATGTA
* * * *
36011757 AGTTATTTAATTTATGTAAGTTATGTAAGATAT-TT
1 AGTTATGTAAGTTATGTAAGTTATGTAAGTTATGTA
* *
36011792 AGTTTATGTAATTTATGTAAGTTATGTAAGTTATTTA
1 AG-TTATGTAAGTTATGTAAGTTATGTAAGTTATGTA
* * * *
36011829 ATTTTTGTAAGTTATGTAAGTTACT-TAATTTTTGTA
1 AGTTATGTAAGTTATGTAAGTTA-TGTAAGTTATGTA
*
36011865 AGTTATGTAAGTTACT-TAATTTATGTAAGTTATGTA
1 AGTTATGTAAGTTA-TGTAAGTTATGTAAGTTATGTA
36011901 A-TTAATGTAAGTTAT
1 AGTT-ATGTAAGTTAT
36011916 TTAATTTGTG
Statistics
Matches: 540, Mismatches: 60, Indels: 51
0.83 0.09 0.08
Matches are distributed among these distances:
31 2 0.00
32 5 0.01
33 1 0.00
34 6 0.01
35 21 0.04
36 487 0.90
37 18 0.03
ACGTcount: A:0.33, C:0.01, G:0.16, T:0.50
Consensus pattern (36 bp):
AGTTATGTAAGTTATGTAAGTTATGTAAGTTATGTA
Found at i:36011361 original size:63 final size:63
Alignment explanation
Indices: 36011285--36011922 Score: 845
Period size: 63 Copynumber: 10.0 Consensus size: 63
36011275 ATGTAAGTAC
* *
36011285 TGTAAG-TACTGTAAGTTATGTAAGTTACTTAATTTATGTAAGTTATGTAAGATATTTAATTTT
1 TGTAAGTTA-TGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGATATTTAATTTA
* * * *
36011348 TGTAAGTTATGTAAGTTACT-TAATTTATGTAAGTTATGTAAGTTATGTAAGTTATTTAATTTA
1 TGTAAGTTATGTAAGTTA-TGTAAGTTATTTAATTTATGTAAGTTATGTAAGATATTTAATTTA
* * * * *
36011411 TGTAAGTTATGTAAGATAT-TTAGTTTATGTAATTTATGTAAGTTATGTAAGTTATTTAATTTT
1 TGTAAGTTATGTAAGTTATGTAAG-TTATTTAATTTATGTAAGTTATGTAAGATATTTAATTTA
*
36011474 TGTAAGTTATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGATATTTAGTTTA
1 TGTAAGTTATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGATATTTAATTTA
* *
36011537 TGTAATTTATGTAAGTTATGTAAGTTATTTAATTTTTGTAAGTTATGTAAGTTACGTAAGTTACT
1 TGTAAGTTATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAG--A--T-A--T--T
36011602 TAATTTA
57 TAATTTA
*
36011609 TGTAAGTTATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGATATTTAGTTTA
1 TGTAAGTTATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGATATTTAATTTA
* * * *
36011672 TGTAATTTATGTAAGTTATGTAAGTTATTTAATTTTTGTAAGTTATGTAAGTTACTTAATTTA
1 TGTAAGTTATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGATATTTAATTTA
* *
36011735 TGTAAGTTATGTAAGTTATTTAAGTTATTTAATTTATGTAAGTTATGTAAGATATTTAGTTTA
1 TGTAAGTTATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGATATTTAATTTA
* * * * *
36011798 TGTAATTTATGTAAGTTATGTAAGTTATTTAATTTTTGTAAGTTATGTAAGTTACTTAATTTT
1 TGTAAGTTATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGATATTTAATTTA
* * * *
36011861 TGTAAGTTATGTAAGTTACT-TAATTTATGTAAGTTATGTAA-TTAATGTAAGTTATTTAATTT
1 TGTAAGTTATGTAAGTTA-TGTAAGTTATTTAATTTATGTAAGTT-ATGTAAGATATTTAATTT
36011923 GTGAACCCTA
Statistics
Matches: 513, Mismatches: 47, Indels: 30
0.87 0.08 0.05
Matches are distributed among these distances:
62 5 0.01
63 437 0.85
64 7 0.01
65 2 0.00
67 2 0.00
68 2 0.00
70 2 0.00
72 56 0.11
ACGTcount: A:0.33, C:0.01, G:0.16, T:0.50
Consensus pattern (63 bp):
TGTAAGTTATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGATATTTAATTTA
Found at i:36015405 original size:14 final size:15
Alignment explanation
Indices: 36015374--36015408 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
36015364 TTTGACCCCA
*
36015374 AAATCCCTAAACCTT
1 AAATCCCTAAACCCT
36015389 AAATCCC-AAACCCT
1 AAATCCCTAAACCCT
36015403 AAATCC
1 AAATCC
36015409 ATACAAGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.43, C:0.37, G:0.00, T:0.20
Consensus pattern (15 bp):
AAATCCCTAAACCCT
Found at i:36016837 original size:113 final size:112
Alignment explanation
Indices: 36016322--36016861 Score: 412
Period size: 115 Copynumber: 4.7 Consensus size: 112
36016312 ATGCATGGTT
* * * * *
36016322 AAGACCAAAACTTTACGTTTTGGTTAAGATATTTTCCGGCGCTTCTCAAAAAGTGCCACTAATAC
1 AAGA-CAAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCAAAAA-CGCCGCTAATAC
* * * * * *
36016387 TATACTTTAGTGGCGATTTCTC-GT-GGACGCCACTAATTCCATTATACATC
64 TATGCTTTAGCGGCG-TTTCCCTATATG-CGCCACTAATTCTA-TATACATC
* * * * * * *
36016437 AAGACTTAAACACTGCATTTTTGTTAATATATTTTGCGGCGCTTCTCAAAAAGCACCGCTAATAA
1 AAGAC-AAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCAAAAA-CGCCGCTAATAC
* * *
36016502 TATGCTTTAGCGGCG-TTCCCGTATAAGCGCCACTAAGTCTAATATACCTC
64 TATGCTTTAGCGGCGTTTCCC-TATATGCGCCACTAATTCT-ATATACATC
* * * * * *
36016552 ATGAAAAAACTCTGCGTTTTGG-TGAGCATATTTTGCGGCGCTTTTTGC-CAAGCGCCGCTAATA
1 AAGACAAAACTCTGCGTTTTGGTTAAG-ATATTTTGCGGCGC-TTCT-CAAAAACGCCGCTAATA
* * * * *** *
36016615 CTATGATGTAGCAGTGTTTTTTTAATATGCGCCACTAATAACTATATACATC
63 CTATGCTTTAGCGGCGTTTCCCT-ATATGCGCCACTAAT-TCTATATACATC
* ** * * ** *
36016667 GAGACAAAAACGT-TGCGTTTTGGTTACCAAATTTTGCGGTGCTTCTCTGAAACGCCGCTAATAG
1 AAGAC-AAAAC-TCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCAAAAACGCCGCTAATAC
* *
36016731 TATGCCTTAGCGGCGTGTTCCCT-T-TGCGCCACTAATTCTAGTATACCTC
64 TATGCTTTAGCGGCGT-TTCCCTATATGCGCCACTAATTCTA-TATACATC
* * * *
36016780 AAGACCAAACTCTACGTTTTGGTTCAGATATTTTGCGGCGCTTCTCACAAAACGCCGCTAATATT
1 AAGACAAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCA-AAAACGCCGCTAATACT
36016845 ATGCTTTAGCGGCGTTT
65 ATGCTTTAGCGGCGTTT
36016862 TCCATTAAAC
Statistics
Matches: 328, Mismatches: 78, Indels: 41
0.73 0.17 0.09
Matches are distributed among these distances:
111 1 0.00
112 37 0.11
113 58 0.18
114 52 0.16
115 143 0.44
116 35 0.11
117 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (112 bp):
AAGACAAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCAAAAACGCCGCTAATACTA
TGCTTTAGCGGCGTTTCCCTATATGCGCCACTAATTCTATATACATC
Found at i:36022086 original size:61 final size:58
Alignment explanation
Indices: 36022021--36022133 Score: 163
Period size: 61 Copynumber: 1.9 Consensus size: 58
36022011 GATTACCATA
* * *
36022021 ATATTAAATTTAATTTAATGTTTATCTTATAGATAAATATTCTATTAATTTAATAAGATTT
1 ATATTAAATTTAATCTAATATTTATC-T-T-GATAAATATTATATTAATTTAATAAGATTT
*
36022082 ATATTAAATTTAATCTAATATTTATCTTGATAAGTATTATATTAATTTAATA
1 ATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATA
36022134 TTAAAGTGAT
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
58 22 0.46
59 1 0.02
60 1 0.02
61 24 0.50
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (58 bp):
ATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATAAGATTT
Found at i:36026949 original size:39 final size:37
Alignment explanation
Indices: 36026884--36026974 Score: 85
Period size: 39 Copynumber: 2.4 Consensus size: 37
36026874 CAGAATGGCA
* *
36026884 CCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGACG
1 CCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGACG
* ***
36026923 CCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGGTA
1 CCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGACG
*
36026960 CCCAGTACCTCATCG
1 CCCAGTGCCTCATCG
36026975 AATCTATCCG
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
37 18 0.42
38 2 0.05
39 20 0.47
40 3 0.07
ACGTcount: A:0.26, C:0.29, G:0.24, T:0.21
Consensus pattern (37 bp):
CCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGACG
Found at i:36027186 original size:23 final size:24
Alignment explanation
Indices: 36027142--36027187 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
36027132 TTTCTCACAT
* **
36027142 TTTCAATTCAATCATTTTTCCACC
1 TTTCAATTCAATAATTAATCCACC
36027166 TTTCAA-TCAATAATTAATCCAC
1 TTTCAATTCAATAATTAATCCAC
36027188 AATTCACACA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.33, C:0.26, G:0.00, T:0.41
Consensus pattern (24 bp):
TTTCAATTCAATAATTAATCCACC
Found at i:36028005 original size:20 final size:20
Alignment explanation
Indices: 36027982--36028019 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
36027972 TAAAAATCTA
*
36027982 TTTTTCCCTT-TTTCTTTCT
1 TTTTTTCCTTCTTTCTTTCT
*
36028001 TTTTTTTCTTCTTTCTTTC
1 TTTTTTCCTTCTTTCTTTC
36028020 CCCTGTTTCG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTTTTCCTTCTTTCTTTCT
Found at i:36028598 original size:17 final size:17
Alignment explanation
Indices: 36028555--36028601 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
36028545 TAAAACCATA
36028555 ATAATATTTA-ATAATT
1 ATAATATTTATATAATT
* *
36028571 ATACTAATTATATACA-T
1 ATAATATTTATATA-ATT
36028588 ATAATATTTATATA
1 ATAATATTTATATA
36028602 TAACCTAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
16 8 0.32
17 16 0.64
18 1 0.04
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (17 bp):
ATAATATTTATATAATT
Found at i:36030071 original size:37 final size:37
Alignment explanation
Indices: 36030021--36030095 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
36030011 AATGGAAGTG
36030021 TGTGATGATTTTGATCTTCCTTGCTAGGTTTGTAAAC
1 TGTGATGATTTTGATCTTCCTTGCTAGGTTTGTAAAC
36030058 TGTGATGATTTTGATCTTCCTTGCTAGGTTTGTAAAC
1 TGTGATGATTTTGATCTTCCTTGCTAGGTTTGTAAAC
36030095 T
1 T
36030096 TAGACATGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.19, C:0.13, G:0.21, T:0.47
Consensus pattern (37 bp):
TGTGATGATTTTGATCTTCCTTGCTAGGTTTGTAAAC
Found at i:36033760 original size:7 final size:7
Alignment explanation
Indices: 36033748--36033775 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
36033738 GCCAAGTTTA
36033748 GTTCAAT
1 GTTCAAT
36033755 GTTCAAT
1 GTTCAAT
36033762 GTTCAAT
1 GTTCAAT
36033769 GTTCAAT
1 GTTCAAT
36033776 TTATAGATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (7 bp):
GTTCAAT
Found at i:36036710 original size:115 final size:113
Alignment explanation
Indices: 36036561--36036830 Score: 285
Period size: 113 Copynumber: 2.4 Consensus size: 113
36036551 GTTTTATTTA
* * ** * * *
36036561 TTTATTCC-CAGGCAAATTCAAATTAATTCCCTCCTCATCTATTAGGAAACCGAAACTACTTTTA
1 TTTATTCCTAAGGCAACTTCAAATTAATTAGCTCCTCATCT-CT-GGAAACCAAAACTACTTTGA
* * *
36036625 ATATTTTGATCAAATAAAAAAAAAACAATTTTTTC-AGTTATTTTTTTCC-G
64 ATATTTTAATCAAA-AAAAAAAAAACAATTTTTTCAACTT-TTTTTTCCCTG
* * *
36036675 TTTATTCCTAATGCAACTTCAAATTAATTGGCTCCTCATCTCTGGGAACCAAAACTACTTTGAAT
1 TTTATTCCTAAGGCAACTTCAAATTAATTAGCTCCTCATCTCTGGAAACCAAAACTACTTTGAAT
* * * * * *
36036740 TTTTTAATTACAGAAAAAGAAACCATTTTTTCAACTTTTTTTTCCCTG
66 ATTTTAATCAAAAAAAAAAAAACAATTTTTTCAACTTTTTTTTCCCTG
* * *
36036788 TTTGTTTCTAAGGCAACTTCAAATTAATTAGCTTCTCATCTCT
1 TTTATTCCTAAGGCAACTTCAAATTAATTAGCTCCTCATCTCT
36036831 AACTACTTCT
Statistics
Matches: 130, Mismatches: 23, Indels: 7
0.81 0.14 0.04
Matches are distributed among these distances:
112 25 0.19
113 69 0.53
114 9 0.07
115 27 0.21
ACGTcount: A:0.32, C:0.20, G:0.08, T:0.40
Consensus pattern (113 bp):
TTTATTCCTAAGGCAACTTCAAATTAATTAGCTCCTCATCTCTGGAAACCAAAACTACTTTGAAT
ATTTTAATCAAAAAAAAAAAAACAATTTTTTCAACTTTTTTTTCCCTG
Found at i:36038767 original size:31 final size:32
Alignment explanation
Indices: 36038691--36038767 Score: 84
Period size: 36 Copynumber: 2.3 Consensus size: 32
36038681 AGTGCATTAG
* *
36038691 TCAGAATAGATCTGAAAGACTGCTGAACTGAA
1 TCAGAATAGATCCGAAAGACTACTGAACTGAA
*
36038723 TCAGCCAGGATAGATCCGAAAGGCTACTGAACTGAA
1 TCAG--A--ATAGATCCGAAAGACTACTGAACTGAA
36038759 T-AGAATAGA
1 TCAGAATAGA
36038768 GTTTGCTATT
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
31 5 0.13
32 4 0.11
33 1 0.03
34 1 0.03
35 2 0.05
36 25 0.66
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.19
Consensus pattern (32 bp):
TCAGAATAGATCCGAAAGACTACTGAACTGAA
Found at i:36047735 original size:26 final size:26
Alignment explanation
Indices: 36047680--36047735 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
36047670 TACATCGTTC
** *
36047680 CTCACACGAGTTGTGAAATGGATCTA
1 CTCACACGAACTGTGAAATGGACCTA
* *
36047706 CTCACACGAACTGTGAAATGGGCCTG
1 CTCACACGAACTGTGAAATGGACCTA
36047732 CTCA
1 CTCA
36047736 TATGGGCTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (26 bp):
CTCACACGAACTGTGAAATGGACCTA
Found at i:36051297 original size:43 final size:43
Alignment explanation
Indices: 36051235--36051363 Score: 145
Period size: 43 Copynumber: 3.0 Consensus size: 43
36051225 ATAGGATTTC
*
36051235 CGATATGTG-TTATCATGTAAGACCATGTCTGGGACGTTGGCAT
1 CGATATATGATTA-CATGTAAGACCATGTCTGGGACGTTGGCAT
* * * * * *
36051278 CGATTTATGTTTACGTGTAAGACCCTGTCTGGGACAG-CGACAT
1 CGATATATGATTACATGTAAGACCATGTCTGGGAC-GTTGGCAT
* *
36051321 CGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATATATGATTACATGTAAGACCATGTCTGGGACGTTGGCAT
36051364 TGTACGAGTT
Statistics
Matches: 69, Mismatches: 14, Indels: 6
0.78 0.16 0.07
Matches are distributed among these distances:
42 1 0.01
43 64 0.93
44 4 0.06
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (43 bp):
CGATATATGATTACATGTAAGACCATGTCTGGGACGTTGGCAT
Found at i:36054713 original size:24 final size:26
Alignment explanation
Indices: 36054678--36054727 Score: 61
Period size: 24 Copynumber: 2.0 Consensus size: 26
36054668 CAGTTTATTC
36054678 TTTAAAGTTTCC-CCTC-TTTCACTG
1 TTTAAAGTTTCCACCTCTTTTCACTG
36054702 TTTAACAG-TTCCGACCTCTTTTCACT
1 TTTAA-AGTTTCC-ACCTCTTTTCACT
36054728 AAAAAATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
24 9 0.41
25 2 0.09
26 4 0.18
27 7 0.32
ACGTcount: A:0.18, C:0.30, G:0.08, T:0.44
Consensus pattern (26 bp):
TTTAAAGTTTCCACCTCTTTTCACTG
Found at i:36055561 original size:8 final size:8
Alignment explanation
Indices: 36055548--36055572 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
36055538 ATATATACTA
36055548 AATAAAAT
1 AATAAAAT
36055556 AATAAAAT
1 AATAAAAT
36055564 AATAAAAT
1 AATAAAAT
36055572 A
1 A
36055573 TCATTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:36059650 original size:13 final size:13
Alignment explanation
Indices: 36059632--36059658 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
36059622 TATAAATTTG
36059632 GCCCATTGTAATT
1 GCCCATTGTAATT
36059645 GCCCATTGTAATT
1 GCCCATTGTAATT
36059658 G
1 G
36059659 GACTTTATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (13 bp):
GCCCATTGTAATT
Found at i:36062844 original size:28 final size:29
Alignment explanation
Indices: 36062821--36062882 Score: 94
Period size: 28 Copynumber: 2.2 Consensus size: 29
36062811 AAAAAACTAA
36062821 AAAAATC-TTTAAAAAA-ATATAAAAATAT
1 AAAAATCTTTTAAAAAAGATAT-AAAATAT
36062849 AAAAA-CTTTTAAAAAAGATATAAAATAT
1 AAAAATCTTTTAAAAAAGATATAAAATAT
36062877 AAAAAT
1 AAAAAT
36062883 TAAGATATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
27 1 0.03
28 26 0.84
29 4 0.13
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.27
Consensus pattern (29 bp):
AAAAATCTTTTAAAAAAGATATAAAATAT
Found at i:36062844 original size:29 final size:29
Alignment explanation
Indices: 36062812--36062881 Score: 90
Period size: 28 Copynumber: 2.4 Consensus size: 29
36062802 GTAAAAACAA
36062812 AAAAACTAAAAAAA-TCTTTAAAAAA-ATAT
1 AAAAA-TAAAAAAACT-TTTAAAAAAGATAT
*
36062841 AAAAATATAAAAACTTTTAAAAAAGATAT
1 AAAAATAAAAAAACTTTTAAAAAAGATAT
36062870 AAAATATAAAAA
1 AAAA-ATAAAAA
36062882 TTAAGATATA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
28 16 0.44
29 14 0.39
30 6 0.17
ACGTcount: A:0.70, C:0.04, G:0.01, T:0.24
Consensus pattern (29 bp):
AAAAATAAAAAAACTTTTAAAAAAGATAT
Found at i:36074068 original size:34 final size:34
Alignment explanation
Indices: 36074025--36074091 Score: 134
Period size: 34 Copynumber: 2.0 Consensus size: 34
36074015 CTTTGAATAC
36074025 ATAATTTATTCATCAATTAATTCCACTCCTAATT
1 ATAATTTATTCATCAATTAATTCCACTCCTAATT
36074059 ATAATTTATTCATCAATTAATTCCACTCCTAAT
1 ATAATTTATTCATCAATTAATTCCACTCCTAAT
36074092 ATTTTTAGTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.43
Consensus pattern (34 bp):
ATAATTTATTCATCAATTAATTCCACTCCTAATT
Found at i:36075098 original size:29 final size:29
Alignment explanation
Indices: 36075035--36075102 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
36075025 TAATCAACCG
36075035 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
36075064 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
36075093 CGCACACTTA
1 CGCACACTTA
36075103 CCTTTCCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:36075214 original size:174 final size:174
Alignment explanation
Indices: 36074924--36075251 Score: 593
Period size: 174 Copynumber: 1.9 Consensus size: 174
36074914 AACTCAAGGT
* * *
36074924 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTCCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
36074989 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
36075054 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
36075098 ACTTACCTTTCCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTCCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
36075163 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
* *
36075228 ACTTTAAACTCGCACATTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
36075252 TGTACAATTT
Statistics
Matches: 147, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 147 1.00
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTCCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:36075243 original size:29 final size:30
Alignment explanation
Indices: 36075204--36075282 Score: 101
Period size: 29 Copynumber: 2.7 Consensus size: 30
36075194 CTTAATAATC
36075204 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
* *
36075234 AACTCGCACATTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
36075263 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
36075283 ATCTCATGAC
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 31 0.76
30 4 0.10
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:36080084 original size:27 final size:27
Alignment explanation
Indices: 36080038--36080090 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
36080028 AAATGGTAGG
36080038 TAAGATCTTAAAGACGAACCTAAATCT
1 TAAGATCTTAAAGACGAACCTAAATCT
* *
36080065 TAAGATCTTAAGGACTAACCTAAATC
1 TAAGATCTTAAAGACGAACCTAAATC
36080091 CAAATGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.43, C:0.19, G:0.11, T:0.26
Consensus pattern (27 bp):
TAAGATCTTAAAGACGAACCTAAATCT
Found at i:36080541 original size:25 final size:24
Alignment explanation
Indices: 36080495--36080541 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
36080485 ATAAATATAA
**
36080495 AACATTAAAATATAGTGCATAATT
1 AACATTAAAATATAAAGCATAATT
*
36080519 AACATTAAATATATAAAGTATAA
1 AACATTAAA-ATATAAAGCATAA
36080542 ATGCAAGTGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 9 0.47
25 10 0.53
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.32
Consensus pattern (24 bp):
AACATTAAAATATAAAGCATAATT
Found at i:36081277 original size:155 final size:154
Alignment explanation
Indices: 36081030--36081454 Score: 513
Period size: 156 Copynumber: 2.8 Consensus size: 154
36081020 GCTTATTTCA
* *
36081030 AAATGGTT-AAAAAAAATTAAAACTTTGTTTTAAAATTTTAAACTTTTCTTTAAAATGACTTAAA
1 AAATAGTTCAAAAAAAATTAAAACTTTGTTTTAAAATTTTAAACTTTCCTTTAAAATGAC-TAAA
* *
36081094 AAAAC-ATATTTTTATTTTTCAAAATCTAAACTTTCTCCTTTTTTTTTTTAAAAAAATACTAATT
65 AAAACTATATTTTTATTTTTCAAAATCTAAACTTTCT-C-TTTTATTTTTAAAAAAACACTAATT
* * * * *
36081158 TTATTAAAGTTTGAAGTTTTTATTTTT
128 TTATTAAAGATTAAAGCTTTTACTTTG
*
36081185 ACATAGTTTCAAAAAAAA-TAAAACTTTGTTTTAAAATTTTACAA-TTTCCTTTAAAATGACT-A
1 AAATAG-TTCAAAAAAAATTAAAACTTTGTTTTAAAATTTTA-AACTTTCCTTTAAAATGACTAA
*
36081247 AAAAACTATATTTTTATTTTTCAAAATCTAAACTTTCTCTTTTATTTTTAAAAAAACACTATTTT
64 AAAAACTATATTTTTATTTTTCAAAATCTAAACTTTCTCTTTTATTTTTAAAAAAACACTAATTT
*
36081312 TCTTAAAGATTAAAGCTTTTACTTTG
129 TATTAAAGATTAAAGCTTTTACTTTG
* * * * * *
36081338 AAATAGTTGAAAACAAAATTAAAACTTTATTTTAAAAATTTAAATTTTCTTTTAAAATAACTAAA
1 AAATAGTTCAAAA-AAAATTAAAACTTTGTTTTAAAATTTTAAACTTTCCTTTAAAATGACTAAA
* * * * * * *
36081403 ATAAAATAAAATATTATTTATCAAAATCTAAAC--TCTGTTTTTTTTTTAAAAA
65 A-AAACTATATTTTTATTTTTCAAAATCTAAACTTTCTCTTTTATTTTTAAAAA
36081455 TTACAACTTT
Statistics
Matches: 236, Mismatches: 25, Indels: 19
0.84 0.09 0.07
Matches are distributed among these distances:
152 6 0.03
153 54 0.23
154 61 0.26
155 39 0.17
156 66 0.28
157 10 0.04
ACGTcount: A:0.42, C:0.09, G:0.04, T:0.45
Consensus pattern (154 bp):
AAATAGTTCAAAAAAAATTAAAACTTTGTTTTAAAATTTTAAACTTTCCTTTAAAATGACTAAAA
AAACTATATTTTTATTTTTCAAAATCTAAACTTTCTCTTTTATTTTTAAAAAAACACTAATTTTA
TTAAAGATTAAAGCTTTTACTTTG
Found at i:36081377 original size:20 final size:20
Alignment explanation
Indices: 36081352--36081394 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
36081342 AGTTGAAAAC
36081352 AAAATTAAAACTTTATTTTA
1 AAAATTAAAACTTTATTTTA
* * *
36081372 AAAATTTAAATTTTCTTTTA
1 AAAATTAAAACTTTATTTTA
36081392 AAA
1 AAA
36081395 TAACTAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.47
Consensus pattern (20 bp):
AAAATTAAAACTTTATTTTA
Found at i:36083421 original size:28 final size:28
Alignment explanation
Indices: 36083379--36083509 Score: 156
Period size: 28 Copynumber: 4.7 Consensus size: 28
36083369 AACACATCAA
* * *
36083379 GAAATAATAAGCCTTTGTGGCGAACAAT
1 GAAAGAATAAACCTTTGTGGCGAACTAT
*
36083407 GAAAGAATAAACCTTTGTGGCAAACTAT
1 GAAAGAATAAACCTTTGTGGCGAACTAT
*
36083435 GAAAGAATAAGCCTTTGTGGCGAACTAT
1 GAAAGAATAAACCTTTGTGGCGAACTAT
* ** *
36083463 GAAGGAATAAACCTTTGTGATGAGCTAT
1 GAAAGAATAAACCTTTGTGGCGAACTAT
* *
36083491 GAAAG-ATTAGCCTTTGTGG
1 GAAAGAATAAACCTTTGTGG
36083510 TGGACTCCGT
Statistics
Matches: 88, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 11 0.12
28 77 0.88
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.27
Consensus pattern (28 bp):
GAAAGAATAAACCTTTGTGGCGAACTAT
Found at i:36083471 original size:56 final size:56
Alignment explanation
Indices: 36083379--36083509 Score: 183
Period size: 56 Copynumber: 2.4 Consensus size: 56
36083369 AACACATCAA
* *
36083379 GAAATAATAAGCCTTTGTGGCGAACAATGAAAGAATAAACCTTTGTGGCAAACTAT
1 GAAAGAATAAGCCTTTGTGGCGAACAATGAAAGAATAAACCTTTGTGACAAACTAT
* * ** *
36083435 GAAAGAATAAGCCTTTGTGGCGAACTATGAAGGAATAAACCTTTGTGATGAGCTAT
1 GAAAGAATAAGCCTTTGTGGCGAACAATGAAAGAATAAACCTTTGTGACAAACTAT
*
36083491 GAAAG-ATTAGCCTTTGTGG
1 GAAAGAATAAGCCTTTGTGG
36083510 TGGACTCCGT
Statistics
Matches: 67, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
55 13 0.19
56 54 0.81
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.27
Consensus pattern (56 bp):
GAAAGAATAAGCCTTTGTGGCGAACAATGAAAGAATAAACCTTTGTGACAAACTAT
Found at i:36085116 original size:17 final size:17
Alignment explanation
Indices: 36085094--36085127 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
36085084 GTAAATAATG
*
36085094 TTATTATTATAATTATA
1 TTATTATAATAATTATA
*
36085111 TTATTATAATATTTATA
1 TTATTATAATAATTATA
36085128 AAACATAAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TTATTATAATAATTATA
Found at i:36086909 original size:18 final size:18
Alignment explanation
Indices: 36086886--36086926 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
36086876 AATTTGATCC
36086886 ACACGACCTCAGTTTGTT
1 ACACGACCTCAGTTTGTT
36086904 ACACGACCTCAGTTTGTT
1 ACACGACCTCAGTTTGTT
36086922 ACACG
1 ACACG
36086927 TCCTAACTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.29
Consensus pattern (18 bp):
ACACGACCTCAGTTTGTT
Found at i:36090081 original size:15 final size:15
Alignment explanation
Indices: 36090063--36090091 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
36090053 AGAAGTTGTT
36090063 TGTAGTTGATGTTGG
1 TGTAGTTGATGTTGG
36090078 TGTAGTTGATGTTG
1 TGTAGTTGATGTTG
36090092 AATTTCTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.00, G:0.38, T:0.48
Consensus pattern (15 bp):
TGTAGTTGATGTTGG
Found at i:36104984 original size:18 final size:17
Alignment explanation
Indices: 36104951--36104999 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 17
36104941 TATTCTAGAA
36104951 AATTTTTAACTTTTTTA-
1 AATTTTTAA-TTTTTTAG
36104968 ATATTCTTTAATTTTTTAG
1 A-ATT-TTTAATTTTTTAG
36104987 AATTTTTAATTTT
1 AATTTTTAATTTT
36105000 AAAAATTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
17 10 0.34
18 13 0.45
19 6 0.21
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (17 bp):
AATTTTTAATTTTTTAG
Found at i:36105036 original size:18 final size:19
Alignment explanation
Indices: 36105013--36105049 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
36105003 AATTTTAAAA
36105013 TATAAAT-TTTTGAATTTT
1 TATAAATATTTTGAATTTT
36105031 TATAAATATTTTGAATTTT
1 TATAAATATTTTGAATTTT
36105050 AAAAATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.59
Consensus pattern (19 bp):
TATAAATATTTTGAATTTT
Found at i:36105050 original size:18 final size:18
Alignment explanation
Indices: 36105013--36105066 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 18
36105003 AATTTTAAAA
36105013 TATAAAT-TTTTGAATTTT
1 TATAAATATTTTGAA-TTT
36105031 TATAAATATTTTGAATTT
1 TATAAATATTTTGAATTT
* *
36105049 TAAAAATTATTTTAAATT
1 TATAAA-TATTTTGAATT
36105067 ATTTTGTAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
18 15 0.47
19 17 0.53
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.56
Consensus pattern (18 bp):
TATAAATATTTTGAATTT
Found at i:36105166 original size:18 final size:18
Alignment explanation
Indices: 36105143--36105181 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
36105133 ATACTAATTC
*
36105143 ATTATTTGAGTTATTCAA
1 ATTATTTGACTTATTCAA
*
36105161 ATTATTTGACTTATTCTA
1 ATTATTTGACTTATTCAA
36105179 ATT
1 ATT
36105182 GTAAAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.31, C:0.08, G:0.08, T:0.54
Consensus pattern (18 bp):
ATTATTTGACTTATTCAA
Found at i:36108175 original size:40 final size:40
Alignment explanation
Indices: 36108107--36108506 Score: 448
Period size: 40 Copynumber: 10.0 Consensus size: 40
36108097 TATTATATAT
* * *
36108107 TGAAATGTACGCGCTTTCAAGCCTTACCTACTGAATCTAC
1 TGAAATGTATGCGCTTTCGAGCCATACCTACTGAATCTAC
* * *
36108147 TGAAATGTATGTGTTTTCGAGCCATACCTATTGAATCTAC
1 TGAAATGTATGCGCTTTCGAGCCATACCTACTGAATCTAC
* * * * *
36108187 TAAAATGTATGTGCTTTCGAGCCATTCCTAATAAATCTAC
1 TGAAATGTATGCGCTTTCGAGCCATACCTACTGAATCTAC
* * * *
36108227 AGAAATGTACGCGCTTTTGAGCCATACCTATTGAATCTAC
1 TGAAATGTATGCGCTTTCGAGCCATACCTACTGAATCTAC
* * *
36108267 TGAAATGTATACGCTTTCTAGCCCTACCTACTGAATCTA-
1 TGAAATGTATGCGCTTTCGAGCCATACCTACTGAATCTAC
* * * *
36108306 TCGAAATATATGCACTTTCGAGCCATACGTATTGAATCTAC
1 T-GAAATGTATGCGCTTTCGAGCCATACCTACTGAATCTAC
* * *
36108347 CGAAATGTATGTGCTTTCGAGCCATACCTACTGAATATAC
1 TGAAATGTATGCGCTTTCGAGCCATACCTACTGAATCTAC
* *
36108387 TGAAAAGTATGTGCTTTCGAGCCATACCTACTGAATCTAC
1 TGAAATGTATGCGCTTTCGAGCCATACCTACTGAATCTAC
* * * *
36108427 TGAAATGTATGCACTTTTGAGCCATACCTA-TCGATTCTCC
1 TGAAATGTATGCGCTTTCGAGCCATACCTACT-GAATCTAC
* *
36108467 TGAAA-GTATGCCCTATT-GAGCCATACCTACTGATTCTAC
1 TGAAATGTATGCGCT-TTCGAGCCATACCTACTGAATCTAC
36108506 T
1 T
36108507 AAAAGCTGCT
Statistics
Matches: 304, Mismatches: 51, Indels: 11
0.83 0.14 0.03
Matches are distributed among these distances:
39 30 0.10
40 274 0.90
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (40 bp):
TGAAATGTATGCGCTTTCGAGCCATACCTACTGAATCTAC
Found at i:36117248 original size:27 final size:27
Alignment explanation
Indices: 36117217--36117394 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
36117207 TAAATTGTAC
36117217 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
36117244 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
36117270 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
36117298 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
36117326 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
36117353 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
36117380 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
36117395 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:36117331 original size:82 final size:81
Alignment explanation
Indices: 36117218--36117373 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
36117208 AAATTGTACA
* *
36117218 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
36117282 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
36117299 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
36117364 TGCGAGTTGA
65 TGCGAATTGA
36117374 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:36117385 original size:82 final size:81
Alignment explanation
Indices: 36117214--36117394 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
36117204 GATTAAATTG
* *
36117214 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
36117279 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
36117295 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
36117359 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
36117377 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
36117395 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:36125436 original size:27 final size:27
Alignment explanation
Indices: 36125405--36125582 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
36125395 TAAATTGTAC
36125405 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
36125432 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
36125458 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
36125486 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
36125514 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
36125541 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
36125568 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
36125583 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:36125519 original size:82 final size:81
Alignment explanation
Indices: 36125406--36125561 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
36125396 AAATTGTACA
* *
36125406 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
36125470 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
36125487 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
36125552 TGCGAGTTGA
65 TGCGAATTGA
36125562 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:36125573 original size:82 final size:81
Alignment explanation
Indices: 36125402--36125582 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
36125392 GATTAAATTG
* *
36125402 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
36125467 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
36125483 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
36125547 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
36125565 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
36125583 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:36129153 original size:27 final size:27
Alignment explanation
Indices: 36129105--36129175 Score: 74
Period size: 27 Copynumber: 2.6 Consensus size: 27
36129095 CTGTTTGGCA
36129105 AGCTGGGGTTCGCCTA-TCTGTTCGA-CG
1 AGCTGGGGTTCGCC-AGTCTGTT-GAGCG
* * *
36129132 AGCTGGGGTTCGCCAGTGTGTTTAGTG
1 AGCTGGGGTTCGCCAGTCTGTTGAGCG
*
36129159 AGCTGGGGTTTGCCAGT
1 AGCTGGGGTTCGCCAGT
36129176 TGAGTTGCGA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
26 2 0.05
27 36 0.95
ACGTcount: A:0.11, C:0.20, G:0.38, T:0.31
Consensus pattern (27 bp):
AGCTGGGGTTCGCCAGTCTGTTGAGCG
Found at i:36129195 original size:25 final size:25
Alignment explanation
Indices: 36129164--36129216 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
36129154 TAGTGAGCTG
36129164 GGGTTTGCCAGTTGAGTTGCGAACT
1 GGGTTTGCCAGTTGAGTTGCGAACT
36129189 GGGTTTGCCAGTTGAGTTGCGAACT
1 GGGTTTGCCAGTTGAGTTGCGAACT
36129214 GGG
1 GGG
36129217 GGTTCGCATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.15, C:0.15, G:0.40, T:0.30
Consensus pattern (25 bp):
GGGTTTGCCAGTTGAGTTGCGAACT
Found at i:36129354 original size:19 final size:18
Alignment explanation
Indices: 36129312--36129354 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
36129302 TTCTAAACTG
36129312 ACTAGGGTTCCTAAGTCT
1 ACTAGGGTTCCTAAGTCT
*
36129330 AGTAGGGTATCCTAAGATC-
1 ACTAGGGT-TCCTAAG-TCT
36129349 ACTAGG
1 ACTAGG
36129355 TCACTTAGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 7 0.33
19 12 0.57
20 2 0.10
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (18 bp):
ACTAGGGTTCCTAAGTCT
Found at i:36130131 original size:18 final size:18
Alignment explanation
Indices: 36130103--36130146 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
36130093 ATTTTTTGTG
*
36130103 ACCCTTGTATG-ATTGCGA
1 ACCCTTATATGCA-TGCGA
*
36130121 CCCCTTATATGCATGCGA
1 ACCCTTATATGCATGCGA
36130139 ACCCTTAT
1 ACCCTTAT
36130147 GAGCGATAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 21 0.95
19 1 0.05
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.32
Consensus pattern (18 bp):
ACCCTTATATGCATGCGA
Found at i:36130404 original size:68 final size:68
Alignment explanation
Indices: 36130294--36130521 Score: 289
Period size: 68 Copynumber: 3.4 Consensus size: 68
36130284 TCTTTTATTT
* * * * * *
36130294 TGCGAACTCATGTTTTTGTGTGAATTCATGCTTATTGCTGTTATGCGAACTCATGTGTTACTTCG
1 TGCGAACTTACGTTGTTGTGTGAATTCATTCTTATTGTTGTTATGCGAACTCATGTGTTACTTAG
36130359 ATA
66 ATA
* ** *
36130362 TGCGAACTTATGTTGTTGTGAAAATTCATTCTTATTGTTGTTATGTGAACTCATGTGTTACTTAG
1 TGCGAACTTACGTTGTTGTGTGAATTCATTCTTATTGTTGTTATGCGAACTCATGTGTTACTTAG
36130427 ATA
66 ATA
* * * *
36130430 TGCGGAGC-TACGTTGTTGTGTGAATTCATGT-TTATTGTTGTTATGCAAAATCATGTGATACTT
1 TGC-GAACTTACGTTGTTGTGTGAATTCAT-TCTTATTGTTGTTATGCGAACTCATGTGTTACTT
36130493 AGATA
64 AGATA
*
36130498 TGCGAACCTACGTTGTTGTGTGAA
1 TGCGAACTTACGTTGTTGTGTGAA
36130522 CCTTAATAAT
Statistics
Matches: 140, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
67 3 0.02
68 133 0.95
69 4 0.03
ACGTcount: A:0.23, C:0.13, G:0.22, T:0.42
Consensus pattern (68 bp):
TGCGAACTTACGTTGTTGTGTGAATTCATTCTTATTGTTGTTATGCGAACTCATGTGTTACTTAG
ATA
Found at i:36131307 original size:54 final size:54
Alignment explanation
Indices: 36131182--36131325 Score: 155
Period size: 54 Copynumber: 2.7 Consensus size: 54
36131172 CGGCCCTGTC
* * * * ** *
36131182 GCAGGCCGTGTGCCAGACTGTGTAACTCTCTGACTTGTGACACATGACCGTGTT
1 GCAGGCCATGTGCTAGGCCGTGTAACTCTCTGACTTGTGACACACAACCATGTT
** *
36131236 GCAGGCTGTGTGCTAGGCCGTGTAACTCTTTGACTTGTGACACACAACCATG-T
1 GCAGGCCATGTGCTAGGCCGTGTAACTCTCTGACTTGTGACACACAACCATGTT
* * *
36131289 GCTAGGCCATGTGTTAGGCCGTGTAACACACTGACTT
1 GC-AGGCCATGTGCTAGGCCGTGTAACTCTCTGACTT
36131326 AATACACACG
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
53 3 0.04
54 72 0.96
ACGTcount: A:0.20, C:0.25, G:0.27, T:0.28
Consensus pattern (54 bp):
GCAGGCCATGTGCTAGGCCGTGTAACTCTCTGACTTGTGACACACAACCATGTT
Found at i:36132247 original size:37 final size:37
Alignment explanation
Indices: 36132205--36132310 Score: 131
Period size: 37 Copynumber: 2.9 Consensus size: 37
36132195 CGATCGCTTG
* * * *
36132205 TAAGAGCTAATCCAGCCTATAACATGTCAAATGCTCA
1 TAAGAGCTAATCCACCCAATAACACGCCAAATGCTCA
*
36132242 TAAGAGCTAATCCACCCAATAACACGCCAATTGCTCA
1 TAAGAGCTAATCCACCCAATAACACGCCAAATGCTCA
* * * *
36132279 TAAGAGCTAATCCAACCGACAACACACCAAAT
1 TAAGAGCTAATCCACCCAATAACACGCCAAAT
36132311 CAGGGAGTAT
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.41, C:0.29, G:0.11, T:0.19
Consensus pattern (37 bp):
TAAGAGCTAATCCACCCAATAACACGCCAAATGCTCA
Found at i:36132986 original size:22 final size:23
Alignment explanation
Indices: 36132934--36132989 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
36132924 TTAATCCTTT
*
36132934 AATAAAAAACTAACTAAAATCAC
1 AATACAAAACTAACTAAAATCAC
**
36132957 TTTACAAAAC-AACTAAAAATCAC
1 AATACAAAACTAACT-AAAATCAC
36132980 AAT-CAAAACT
1 AATACAAAACT
36132990 TCATACACAT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
22 10 0.38
23 16 0.62
ACGTcount: A:0.61, C:0.20, G:0.00, T:0.20
Consensus pattern (23 bp):
AATACAAAACTAACTAAAATCAC
Found at i:36139930 original size:28 final size:28
Alignment explanation
Indices: 36139890--36139947 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
36139880 AGTGTGTGAC
36139890 TGTCACTAGTTCATTTGGGGATATTGTG
1 TGTCACTAGTTCATTTGGGGATATTGTG
36139918 TGTCACTAGTTCATTTGGGGATATTGTG
1 TGTCACTAGTTCATTTGGGGATATTGTG
36139946 TG
1 TG
36139948 GGGCATTAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.17, C:0.10, G:0.29, T:0.43
Consensus pattern (28 bp):
TGTCACTAGTTCATTTGGGGATATTGTG
Found at i:36142261 original size:36 final size:36
Alignment explanation
Indices: 36142204--36142278 Score: 123
Period size: 36 Copynumber: 2.1 Consensus size: 36
36142194 TGATTCATGC
*
36142204 TTATAATGTCTGTGCCTCAATCGATCATGTTTTCAA
1 TTATAATGTCTGTGCCTCAATCAATCATGTTTTCAA
* *
36142240 TTATTATGTTTGTGCCTCAATCAATCATGTTTTCAA
1 TTATAATGTCTGTGCCTCAATCAATCATGTTTTCAA
36142276 TTA
1 TTA
36142279 AAATCAAGTC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.25, C:0.17, G:0.12, T:0.45
Consensus pattern (36 bp):
TTATAATGTCTGTGCCTCAATCAATCATGTTTTCAA
Found at i:36143111 original size:6 final size:6
Alignment explanation
Indices: 36143086--36143129 Score: 70
Period size: 6 Copynumber: 7.2 Consensus size: 6
36143076 ACAGCACCTA
*
36143086 AACAGT AATCAGT AATAGT AACAGT AACAGT AACAGT AACAGT A
1 AACAGT AA-CAGT AACAGT AACAGT AACAGT AACAGT AACAGT A
36143130 TTCAACATAG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
6 29 0.83
7 6 0.17
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.20
Consensus pattern (6 bp):
AACAGT
Found at i:36143207 original size:45 final size:45
Alignment explanation
Indices: 36143109--36143208 Score: 119
Period size: 45 Copynumber: 2.2 Consensus size: 45
36143099 AATAGTAACA
* * * * **
36143109 GTAACAGTAACAGTAACAGTATTCAACATAGACAGTGTTGAATTT
1 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTCGAATCG
* * *
36143154 GTACCAGTAACGGTAACAGTATTTAACACACAAAGTGTCGAATCG
1 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTCGAATCG
36143199 GTAACAGTAA
1 GTAACAGTAA
36143209 TAGTTGTCGG
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.25
Consensus pattern (45 bp):
GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTCGAATCG
Found at i:36144454 original size:30 final size:29
Alignment explanation
Indices: 36144420--36144476 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 29
36144410 TTATCAAATA
36144420 AATAAA-ATCTTTTAATATAATAATTTAATT
1 AATAAATATCTTTTAAT-TAA-AATTTAATT
*
36144450 AATAAATATCTTTTACTTAAAATTTAA
1 AATAAATATCTTTTAATTAAAATTTAA
36144477 GAAAATACAC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 7 0.28
30 9 0.36
31 9 0.36
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (29 bp):
AATAAATATCTTTTAATTAAAATTTAATT
Found at i:36144600 original size:17 final size:16
Alignment explanation
Indices: 36144569--36144612 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
36144559 GATTTATTTA
36144569 ATAATATAATATCATT
1 ATAATATAATATCATT
*
36144585 ATAATTTAATTATCATT
1 ATAATATAA-TATCATT
*
36144602 AATTATATAAT
1 -ATAATATAAT
36144613 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
16 8 0.35
17 8 0.35
18 7 0.30
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (16 bp):
ATAATATAATATCATT
Found at i:36163581 original size:52 final size:50
Alignment explanation
Indices: 36163466--36163583 Score: 148
Period size: 50 Copynumber: 2.3 Consensus size: 50
36163456 TAATAAAGTT
*
36163466 ATGCATTATGTAACTTCCATGCTAGTTAAGTATGCATCATAAATAATGAC
1 ATGCATTATGTAACTCCCATGCTAGTTAAGTATGCATCATAAATAATGAC
* * *
36163516 ATGCATTATGTAACTCCCATGTTAGTTTAAGTCTGCATCATTAAATTAA-GTC
1 ATGCATTATGTAACTCCCATGCTAG-TTAAGTATGCATCA-TAAA-TAATGAC
* *
36163568 TTGCATTAAGTAACTC
1 ATGCATTATGTAACTC
36163584 ATTTGTTCAT
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
50 23 0.39
51 13 0.22
52 20 0.34
53 3 0.05
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (50 bp):
ATGCATTATGTAACTCCCATGCTAGTTAAGTATGCATCATAAATAATGAC
Found at i:36164985 original size:11 final size:11
Alignment explanation
Indices: 36164969--36165006 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
36164959 GTAGGTTCGT
36164969 AAAAAAATTTG
1 AAAAAAATTTG
* *
36164980 AAAAAAAGTTC
1 AAAAAAATTTG
36164991 AAAAAAATTTG
1 AAAAAAATTTG
36165002 AAAAA
1 AAAAA
36165007 GAGGAGATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.68, C:0.03, G:0.08, T:0.21
Consensus pattern (11 bp):
AAAAAAATTTG
Found at i:36165932 original size:18 final size:18
Alignment explanation
Indices: 36165911--36165949 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
36165901 AAAAATAAAT
* *
36165911 AGAAAAATAAAGGGAAAA
1 AGAAAAAGAAAGCGAAAA
*
36165929 AGAAAAAGAAATCGAAAA
1 AGAAAAAGAAAGCGAAAA
36165947 AGA
1 AGA
36165950 GTGAGCCCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.72, C:0.03, G:0.21, T:0.05
Consensus pattern (18 bp):
AGAAAAAGAAAGCGAAAA
Done.