Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 65 of 211
Found at i:17306038 original size:19 final size:19
Alignment explanation
Indices: 17306014--17306052 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
17306004 GTAATGTATG
17306014 TTATGTAAGT-TGTAAGTTA
1 TTATGT-AGTATGTAAGTTA
*
17306033 TTATGTATTATGTAAGTTA
1 TTATGTAGTATGTAAGTTA
17306052 T
1 T
17306053 GTAAGTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 2 0.11
19 16 0.89
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (19 bp):
TTATGTAGTATGTAAGTTA
Found at i:17306146 original size:88 final size:88
Alignment explanation
Indices: 17306049--17306249 Score: 357
Period size: 88 Copynumber: 2.3 Consensus size: 88
17306039 ATTATGTAAG
*
17306049 TTATGTAAGTTATTTAAGTTATGTAAGTTAAATGTATTATGTAGGTTATGTAAGTTGTGTAAGAT
1 TTATGTAAGTTATGTAAGTTATGTAAGTTAAATGTATTATGTAGGTTATGTAAGTTGTGTAAGAT
17306114 ATTTAAGTTATGTAAGTTTTGCA
66 ATTTAAGTTATGTAAGTTTTGCA
17306137 TTATGTAAGTTATGTAAGTTATGTAAGTTAAATGTATTATGTAGGTTATGTAAGTTGTGTAAGAT
1 TTATGTAAGTTATGTAAGTTATGTAAGTTAAATGTATTATGTAGGTTATGTAAGTTGTGTAAGAT
* *
17306202 ATTTAAGTTATGTGAGTTTTGTA
66 ATTTAAGTTATGTAAGTTTTGCA
* *
17306225 TTATGTAAGTTATGTATGCTATGTA
1 TTATGTAAGTTATGTAAGTTATGTA
17306250 TTATGTAAGT
Statistics
Matches: 108, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
88 108 1.00
ACGTcount: A:0.31, C:0.01, G:0.21, T:0.47
Consensus pattern (88 bp):
TTATGTAAGTTATGTAAGTTATGTAAGTTAAATGTATTATGTAGGTTATGTAAGTTGTGTAAGAT
ATTTAAGTTATGTAAGTTTTGCA
Found at i:17306393 original size:16 final size:16
Alignment explanation
Indices: 17306368--17306405 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
17306358 ATTTTTTTTA
*
17306368 TAAGTGATGTATTATG
1 TAAGTTATGTATTATG
17306384 TAAGTTATGTATTATG
1 TAAGTTATGTATTATG
17306400 TAAGTT
1 TAAGTT
17306406 TACATATAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.47
Consensus pattern (16 bp):
TAAGTTATGTATTATG
Found at i:17306627 original size:13 final size:13
Alignment explanation
Indices: 17306609--17306760 Score: 119
Period size: 13 Copynumber: 11.5 Consensus size: 13
17306599 TAAATCTTAG
*
17306609 TAAGTAATGTATT
1 TAAGTAATATATT
*
17306622 TAAGTAACATATT
1 TAAGTAATATATT
*
17306635 TAAGTAATAAATT
1 TAAGTAATATATT
** *
17306648 TAAACAA-ATTTT
1 TAAGTAATATATT
*
17306660 AGTAAGTAATGTATT
1 --TAAGTAATATATT
*
17306675 TAAGTAACATATT
1 TAAGTAATATATT
*
17306688 TAAGTAATAAATT
1 TAAGTAATATATT
** *
17306701 TAACCAA-ATTTT
1 TAAGTAATATATT
*
17306713 AGTAAGTAATGTATT
1 --TAAGTAATATATT
17306728 TAAGTAATATATT
1 TAAGTAATATATT
*
17306741 CAAGTAATATATT
1 TAAGTAATATATT
*
17306754 AAAGTAA
1 TAAGTAA
17306761 ATTTTAGTAA
Statistics
Matches: 106, Mismatches: 27, Indels: 12
0.73 0.19 0.08
Matches are distributed among these distances:
12 6 0.06
13 84 0.79
14 10 0.09
15 6 0.06
ACGTcount: A:0.47, C:0.04, G:0.10, T:0.39
Consensus pattern (13 bp):
TAAGTAATATATT
Found at i:17306668 original size:27 final size:27
Alignment explanation
Indices: 17306635--17306722 Score: 99
Period size: 27 Copynumber: 3.3 Consensus size: 27
17306625 GTAACATATT
17306635 TAAGTAATAAATTTAAACAAATTTTAG
1 TAAGTAATAAATTTAAACAAATTTTAG
** ** *
17306662 TAAGTAATGTATTTAAGTAACATATT--
1 TAAGTAATAAATTTAAACAA-ATTTTAG
*
17306688 TAAGTAATAAATTTAACCAAATTTTAG
1 TAAGTAATAAATTTAAACAAATTTTAG
17306715 TAAGTAAT
1 TAAGTAAT
17306723 GTATTTAAGT
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
25 4 0.08
26 16 0.33
27 24 0.50
28 4 0.08
ACGTcount: A:0.48, C:0.05, G:0.09, T:0.39
Consensus pattern (27 bp):
TAAGTAATAAATTTAAACAAATTTTAG
Found at i:17306670 original size:53 final size:53
Alignment explanation
Indices: 17306600--17306770 Score: 272
Period size: 53 Copynumber: 3.2 Consensus size: 53
17306590 ATATATACTT
*
17306600 AAATCTTAGTAAGTAATGTATTTAAGTAACATATTTAAGTAATAAATTTAAAC
1 AAATTTTAGTAAGTAATGTATTTAAGTAACATATTTAAGTAATAAATTTAAAC
*
17306653 AAATTTTAGTAAGTAATGTATTTAAGTAACATATTTAAGTAATAAATTTAACC
1 AAATTTTAGTAAGTAATGTATTTAAGTAACATATTTAAGTAATAAATTTAAAC
* * * *
17306706 AAATTTTAGTAAGTAATGTATTTAAGTAATATATTCAAGTAATATA-TTAAAGT
1 AAATTTTAGTAAGTAATGTATTTAAGTAACATATTTAAGTAATAAATTTAAA-C
17306759 AAATTTTAGTAA
1 AAATTTTAGTAA
17306771 AAAATATGTT
Statistics
Matches: 110, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
52 4 0.04
53 106 0.96
ACGTcount: A:0.46, C:0.04, G:0.10, T:0.40
Consensus pattern (53 bp):
AAATTTTAGTAAGTAATGTATTTAAGTAACATATTTAAGTAATAAATTTAAAC
Found at i:17306892 original size:18 final size:17
Alignment explanation
Indices: 17306828--17306909 Score: 69
Period size: 18 Copynumber: 4.8 Consensus size: 17
17306818 AATTGTTATT
* *
17306828 TAAGTAATGTAAG-ATA
1 TAAGTTATGTAAGTATG
*
17306844 TAAATTATGTAAGTCATG
1 TAAGTTATGTAAGT-ATG
** *
17306862 TAAAATATTTAAGTAATG
1 TAAGTTATGTAAGT-ATG
17306880 TAAGTTATGTAAGT-TG
1 TAAGTTATGTAAGTATG
*
17306896 TAAGTTTTGTAAGT
1 TAAGTTATGTAAGT
17306910 TGTGTATTAT
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
16 26 0.48
18 28 0.52
ACGTcount: A:0.40, C:0.01, G:0.18, T:0.40
Consensus pattern (17 bp):
TAAGTTATGTAAGTATG
Found at i:17306899 original size:16 final size:16
Alignment explanation
Indices: 17306828--17306912 Score: 62
Period size: 16 Copynumber: 5.1 Consensus size: 16
17306818 AATTGTTATT
* * *
17306828 TAAGTAATGTAAGATA
1 TAAGTTATGTAAGTTG
*
17306844 TAAATTATGTAAGTCATG
1 TAAGTTATGTAAGT--TG
** *
17306862 TAAAATATTTAAGTAATG
1 TAAGTTATGTAAGT--TG
17306880 TAAGTTATGTAAGTTG
1 TAAGTTATGTAAGTTG
*
17306896 TAAGTTTTGTAAGTTG
1 TAAGTTATGTAAGTTG
17306912 T
1 T
17306913 GTATTATGTG
Statistics
Matches: 56, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
16 29 0.52
18 27 0.48
ACGTcount: A:0.39, C:0.01, G:0.19, T:0.41
Consensus pattern (16 bp):
TAAGTTATGTAAGTTG
Found at i:17308110 original size:6 final size:6
Alignment explanation
Indices: 17308099--17308123 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
17308089 GCAGAGAGCA
17308099 ACGGTG ACGGTG ACGGTG ACGGTG A
1 ACGGTG ACGGTG ACGGTG ACGGTG A
17308124 TGCAGTAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.16, G:0.48, T:0.16
Consensus pattern (6 bp):
ACGGTG
Found at i:17310373 original size:114 final size:114
Alignment explanation
Indices: 17310128--17311023 Score: 1039
Period size: 114 Copynumber: 7.9 Consensus size: 114
17310118 CCCAAAACGT
* * * * * * *
17310128 GCCGCTAATAATATGTTTTACCGGCGTTTTCCCGTAAGCGCCACTACTACTAATATACATCAAGA
1 GCCGCTAATACTATGCTTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACCTCAAGA
* * * * * * *
17310193 CCAAAGCGCTGCGTTTTTGTTAAGATATTTTACGGTGCTTTTCACCAAGC
66 CCAAA-CTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTGACAAATC
* *
17310243 ACCGCTAATACTATGCGTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACCTCAAGA
1 GCCGCTAATACTATGCTTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACCTCAAGA
* * *
17310308 CCAAACTCTGCGTTTTGGTTAAGATATTTTGTGGCGCTTTTGACTATTC
66 CCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTGACAAATC
* *
17310357 GCCGCTAATACTATGCGTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACCTCAAAA
1 GCCGCTAATACTATGCTTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACCTCAAGA
** * * **
17310422 CCAAACTCTGCACTTTGGTTAAGATATTTTGCGGCGCTTCTGACGACGC
66 CCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTGACAAATC
* * * * *
17310471 GCCGCTAATACTATGCGTTAGCGACGTTTTCCAATAAGCGCCGCTAATTCTAATATATCTCAAGA
1 GCCGCTAATACTATGCTTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACCTCAAGA
* * **
17310536 CCAAACTCTGCATTTTGGTTAAGATATGTTGCGGCGCTTTTGACGACGT-
66 CCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTGAC-AAATC
* *
17310585 GCCGCTAATACTATGCTTTAGCGGCGTTTTCCAATAAGCGTCACTAATTCTAATATACCTCAAGA
1 GCCGCTAATACTATGCTTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACCTCAAGA
* * **
17310650 CCAAACTCTGCATTTTGGTTAAGATATGTTGCGGCGCTTTTGACAACGC
66 CCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTGACAAATC
* * *
17310699 GCCGCTAATACTTTCCTTTAGCGGCGTTTTCCAATAAGCGCCACTAATTCTAATATACCTCAAGA
1 GCCGCTAATACTATGCTTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACCTCAAGA
* * *
17310764 CCAAACTCTGCGTTTTGGTTTATATATTTTGCGGCGCTTTTCACAAATC
66 CCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTGACAAATC
* ** * * * *
17310813 GCCGCTAATACT-TGCTTTAGCGGCATTTTTTTCGTATGCGCCACTAATTCTAATATACATAAAG
1 GCCGCTAATACTATGCTTTAGCGGC-GTTTTCCCATAAGCGCCACTAATTCTAATATACCTCAAG
*** * * * *
17310877 ACCAAAAAGATGTGTTTTCGTTAAGACT-TTTTGCGGCGCTGTT--CATGATC
65 ACC-AAACTCTGCGTTTTGGTTAAGA-TATTTTGCGGCGCTTTTGACA-AATC
* * * * * * *
17310927 GCCGCTAGTACT-TTCTTTAACGGCGTTTTCCCATAATCGCCACTAATTCTAGTATACATCTAGA
1 GCCGCTAATACTATGCTTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACCTCAAGA
* * *
17310991 CCAAAACGCTGCGTTTTGATTAAGAGATTTTGC
66 CC-AAACTCTGCGTTTTGGTTAAGATATTTTGC
17311024 AGCGGTTGAT
Statistics
Matches: 681, Mismatches: 93, Indels: 16
0.86 0.12 0.02
Matches are distributed among these distances:
113 71 0.10
114 519 0.76
115 90 0.13
116 1 0.00
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (114 bp):
GCCGCTAATACTATGCTTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACCTCAAGA
CCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTGACAAATC
Found at i:17314710 original size:14 final size:14
Alignment explanation
Indices: 17314691--17314724 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
17314681 ATTGAAAATT
*
17314691 AAATTTGGATTTTA
1 AAATTTGAATTTTA
*
17314705 AAATTTTAATTTTA
1 AAATTTGAATTTTA
17314719 AAATTT
1 AAATTT
17314725 ATGATTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (14 bp):
AAATTTGAATTTTA
Found at i:17315223 original size:61 final size:59
Alignment explanation
Indices: 17315100--17315223 Score: 133
Period size: 59 Copynumber: 2.1 Consensus size: 59
17315090 CCTAAATATA
** * * *
17315100 AAAAAAATCAACAAATTTAGCCCTCAATGTTTACAAAATGTCATTTTAGTTCTAATTTT
1 AAAAAAATCAACAAATTTAGCCCTCAACATTTACAAAATGTCAATTTAGTTCTAACTCT
* * * *
17315159 AAAAAAGTCAATAAATTTAGCCCTCAGCATTTGCAAAAGTTGTCAATTTAG-TCTTAACTCT
1 AAAAAAATCAACAAATTTAGCCCTCAACATTTACAAAA--TGTCAATTTAGTTC-TAACTCT
17315220 AAAA
1 AAAA
17315224 TAAAAAAAAC
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
59 32 0.60
60 2 0.04
61 19 0.36
ACGTcount: A:0.41, C:0.16, G:0.09, T:0.34
Consensus pattern (59 bp):
AAAAAAATCAACAAATTTAGCCCTCAACATTTACAAAATGTCAATTTAGTTCTAACTCT
Found at i:17317307 original size:28 final size:28
Alignment explanation
Indices: 17317252--17317315 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 28
17317242 AAACTGTTGC
* *
17317252 TTTTTTTTTTACTGTTCTTGCTTCTTTT
1 TTTTTTTTTTACTGTTCTTGCCTATTTT
* * *
17317280 TTTTTTTTTTACTTTTTTTTCCTATTTT
1 TTTTTTTTTTACTGTTCTTGCCTATTTT
*
17317308 TTTGTTTT
1 TTTTTTTT
17317316 GTTTTCACTA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.05, C:0.11, G:0.05, T:0.80
Consensus pattern (28 bp):
TTTTTTTTTTACTGTTCTTGCCTATTTT
Found at i:17317309 original size:21 final size:22
Alignment explanation
Indices: 17317283--17317329 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
17317273 TTCTTTTTTT
17317283 TTTTTTTACTTTT-TTTTC-CTA
1 TTTTTTT-CTTTTGTTTTCACTA
*
17317304 TTTTTTTGTTTTGTTTTCACTA
1 TTTTTTTCTTTTGTTTTCACTA
17317326 TTTT
1 TTTT
17317330 GCTACCATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 4 0.17
21 12 0.52
22 7 0.30
ACGTcount: A:0.09, C:0.11, G:0.04, T:0.77
Consensus pattern (22 bp):
TTTTTTTCTTTTGTTTTCACTA
Found at i:17318249 original size:40 final size:39
Alignment explanation
Indices: 17318162--17318251 Score: 112
Period size: 40 Copynumber: 2.3 Consensus size: 39
17318152 TAAAAATATA
* *
17318162 TTTAATACAATAAAATATTTATTATATTTATTTGTGTTT
1 TTTAATATAATAAAATATTTATTATATTTATTAGTGTTT
17318201 TTTAAATATAAT-AAATATTTTATTATATTTA-TAGTAGTGTT
1 TTT-AATATAATAAAATA-TTTATTATATTTATTAGT-GT-TT
17318242 TTTAATATAA
1 TTTAATATAA
17318252 ATACTTTTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
39 11 0.24
40 29 0.64
41 5 0.11
ACGTcount: A:0.39, C:0.01, G:0.06, T:0.54
Consensus pattern (39 bp):
TTTAATATAATAAAATATTTATTATATTTATTAGTGTTT
Found at i:17323463 original size:3 final size:3
Alignment explanation
Indices: 17323455--17323488 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
17323445 TGCATTAATG
17323455 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
17323489 ATAACTCTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:17324225 original size:11 final size:10
Alignment explanation
Indices: 17324198--17324593 Score: 129
Period size: 10 Copynumber: 40.6 Consensus size: 10
17324188 TATTTTTCTC
*
17324198 ATAAAAAATG
1 ATAAAAAATT
*
17324208 ATTAAAAATT
1 ATAAAAAATT
17324218 ACT-AAAAATT
1 A-TAAAAAATT
*
17324228 AGTAAAATATT
1 A-TAAAAAATT
*
17324239 ATAAAATA-T
1 ATAAAAAATT
*
17324248 -TAAAATATT
1 ATAAAAAATT
*
17324257 GAT-ATAAATT
1 -ATAAAAAATT
*
17324267 -TATAAAATT
1 ATAAAAAATT
*
17324276 ATAAAAAATA
1 ATAAAAAATT
* *
17324286 ATAATAACTT
1 ATAAAAAATT
*
17324296 AT-AAATATT
1 ATAAAAAATT
17324305 AT--AAAATT
1 ATAAAAAATT
* * *
17324313 CTAATAAGTT
1 ATAAAAAATT
17324323 AT-AAAAATT
1 ATAAAAAATT
* *
17324332 TTATAAAATT
1 ATAAAAAATT
*
17324342 A-ATAAAATTT
1 ATA-AAAAATT
**
17324352 ATTTAAAATT
1 ATAAAAAATT
*
17324362 TTATAAAAATGT
1 ATA-AAAAAT-T
*
17324374 AT-AAGAATT
1 ATAAAAAATT
*
17324383 CTTAAAAAATT
1 -ATAAAAAATT
*
17324394 -TTAAAAA-T
1 ATAAAAAATT
*
17324402 AT-TAAAATT
1 ATAAAAAATT
* *
17324411 GATATAAACTT
1 -ATAAAAAATT
17324422 AT-AAAAATT
1 ATAAAAAATT
17324431 ATAAAAAAATT
1 AT-AAAAAATT
*
17324442 ATAAAAACTTT
1 ATAAAAA-ATT
* *
17324453 TTTAAAAATT
1 ATAAAAAATT
17324463 AT-AAAAA-T
1 ATAAAAAATT
* *
17324471 CT-AATAATT
1 ATAAAAAATT
*
17324480 ATAAAAAACT
1 ATAAAAAATT
17324490 AT--AAAATT
1 ATAAAAAATT
*
17324498 A-ATAAAATAT
1 ATAAAAAAT-T
**
17324508 ATTTAAAATT
1 ATAAAAAATT
*
17324518 CTATAAAAATT
1 ATA-AAAAATT
17324529 AATAAAAAATT
1 -ATAAAAAATT
*
17324540 ATAAATAA-T
1 ATAAAAAATT
*
17324549 AT-AAAATTT
1 ATAAAAAATT
* * *
17324558 TTAATAAACT
1 ATAAAAAATT
17324568 ATAAAAAATT
1 ATAAAAAATT
17324578 ATAAAAATATT
1 ATAAAAA-ATT
17324589 A-AAAA
1 ATAAAA
17324594 TATAAAATTT
Statistics
Matches: 283, Mismatches: 69, Indels: 68
0.67 0.16 0.16
Matches are distributed among these distances:
8 34 0.12
9 53 0.19
10 127 0.45
11 65 0.23
12 4 0.01
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (10 bp):
ATAAAAAATT
Found at i:17324226 original size:20 final size:19
Alignment explanation
Indices: 17324201--17324600 Score: 97
Period size: 19 Copynumber: 21.2 Consensus size: 19
17324191 TTTTCTCATA
17324201 AAAAATGATTAAAA-ATTACT
1 AAAAAT-ATTAAAATATTA-T
*
17324221 AAAAATTAGTAAAATATTAT
1 AAAAA-TATTAAAATATTAT
17324241 -AAAATATTAAAATATTGAT
1 AAAAATATTAAAATATT-AT
*
17324260 ATAAAT-TTATAAA-ATTAT
1 AAAAATATTA-AAATATTAT
17324278 AAAAA-A-TAATAATAACTTAT
1 AAAAATATTAA-AAT-A-TTAT
*
17324298 --AAATATTATAAA-ATTCT
1 AAAAATATTA-AAATATTAT
* * *
17324315 AATAAGTTATAAAAATTTTAT
1 AA-AA-ATATTAAAATATTAT
* *
17324336 AAAATTAATAAAAT-TTATT
1 AAAAATATTAAAATATTA-T
* * *
17324355 TAAAATTTTATAAAAATGTAT
1 AAAAATATTA-AAATAT-TAT
* * * *
17324376 AAGAATTCTTAAAAAATTTT
1 AA-AAATATTAAAATATTAT
*
17324396 AAAAATATTAAAAT-TGAT
1 AAAAATATTAAAATATTAT
*
17324414 ATAAACT-TATAAAA-ATTAT
1 A-AAAATAT-TAAAATATTAT
* *
17324433 AAAAAAATTATAAAAACTT-T
1 AAAAATATTA-AAATA-TTAT
17324453 -----T-TTAAAA-ATTAT
1 AAAAATATTAAAATATTAT
* *
17324465 AAAAAT-CTAATA-ATTAT
1 AAAAATATTAAAATATTAT
*
17324482 AAAAA-ACTATAAAAT-TAAT
1 AAAAATA-T-TAAAATATTAT
17324501 AAAATATATTTAAAAT-TCTAT
1 AAAA-ATA-TTAAAATAT-TAT
* *
17324522 AAAAATTAATAAAAAATTAT
1 AAAAA-TATTAAAATATTAT
*
17324542 AAATAATA-TAAAAT-TTTT
1 AAA-AATATTAAAATATTAT
*
17324560 AATAAACTA-TAAAAAATTAT
1 AA-AAA-TATTAAAATATTAT
17324580 AAAAATATTAAAA-A-TAT
1 AAAAATATTAAAATATTAT
17324597 AAAA
1 AAAA
17324601 TTTTAAATTT
Statistics
Matches: 287, Mismatches: 43, Indels: 103
0.66 0.10 0.24
Matches are distributed among these distances:
11 2 0.01
12 2 0.01
13 3 0.01
14 3 0.01
16 1 0.00
17 29 0.10
18 43 0.15
19 87 0.30
20 70 0.24
21 39 0.14
22 8 0.03
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (19 bp):
AAAAATATTAAAATATTAT
Found at i:17324408 original size:156 final size:156
Alignment explanation
Indices: 17324231--17324527 Score: 422
Period size: 156 Copynumber: 1.9 Consensus size: 156
17324221 AAAAATTAGT
* *
17324231 AAAATATTATAAAATATTAAAATATTGATATAAATTTAT-AAAATTAT-AAAAAATAATAATAAC
1 AAAATATTATAAAATATT-AAA-ATTGATATAAACTTATAAAAATTATAAAAAAATAATAAAAAC
* * ** *
17324294 -TTATAAATATTATAAAATTCTAATAAGTTATAAAAATTTTATAAAATTAATAAAATTTATTTAA
64 TTTATAAAAATTATAAAAATCTAATAA-TTATAAAAA-ACTATAAAATTAATAAAATATATTTAA
*
17324358 AATTTTATAAAAATGTATAAGAATTCTTAA
127 AATTCTATAAAAATGTATAAGAATTCTTAA
* *
17324388 AAAATTTTA-AAAATATTAAAATTGATATAAACTTATAAAAATTATAAAAAAATTATAAAAACTT
1 AAAATATTATAAAATATTAAAATTGATATAAACTTATAAAAATTATAAAAAAATAATAAAAAC-T
*
17324452 TTTTAAAAATTATAAAAATCTAATAATTATAAAAAACTATAAAATTAATAAAATATATTTAAAAT
65 TTATAAAAATTATAAAAATCTAATAATTATAAAAAACTATAAAATTAATAAAATATATTTAAAAT
17324517 TCTATAAAAAT
130 TCTATAAAAAT
17324528 TAATAAAAAA
Statistics
Matches: 125, Mismatches: 11, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
154 15 0.12
155 11 0.09
156 59 0.47
157 17 0.14
158 23 0.18
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.38
Consensus pattern (156 bp):
AAAATATTATAAAATATTAAAATTGATATAAACTTATAAAAATTATAAAAAAATAATAAAAACTT
TATAAAAATTATAAAAATCTAATAATTATAAAAAACTATAAAATTAATAAAATATATTTAAAATT
CTATAAAAATGTATAAGAATTCTTAA
Found at i:17324435 original size:28 final size:28
Alignment explanation
Indices: 17324211--17324600 Score: 137
Period size: 29 Copynumber: 13.5 Consensus size: 28
17324201 AAAAATGATT
*
17324211 AAAAATTACTAAAAATTAGTAAAATATTATA
1 AAAAATTA-TAAAAATTA-TAAAAT-TCATA
* *
17324242 AAATATTA-AAATATTGATATAAATT--TA
1 AAAAATTATAAAAATT-ATA-AAATTCATA
* *
17324269 TAAAATTATAAAAAATAATAATAACTT-AT-
1 AAAAATTAT-AAAAATTATAA-AA-TTCATA
* *
17324298 AAATATTAT-AAAATTCTAATAAGTT-AT-
1 AAAAATTATAAAAATTATAA-AA-TTCATA
* *
17324325 AAAAATTTTATAAAATTAATAAAATTTATTTA
1 AAAAATTATA-AAAATT-ATAAAATTCA--TA
** *
17324357 AAATTTTATAAAAATGTATAAGAATTCTTA
1 AAAAATTATAAAAAT-TATAA-AATTCATA
* *
17324387 AAAAATTTTAAAAA-TATTAAAATTGATA
1 AAAAATTATAAAAATTA-TAAAATTCATA
* *
17324415 TAAACTTATAAAAATTATAAAAAAATT-ATA
1 AAAAATTATAAAAATTAT---AAAATTCATA
* * *
17324445 AAAACTTTTTTAAAAATTATAAAAATC-T-
1 AAAA--ATTATAAAAATTATAAAATTCATA
* * *
17324473 AATAATTATAAAAAACTATAAAATTAATA
1 AAAAATTAT-AAAAATTATAAAATTCATA
* *
17324502 AAATATATT-TAAAATTCTATAAAAATTAATA
1 AAA-A-ATTATAAAAAT-TAT-AAAATTCATA
**
17324533 AAAAATTATAAATAA-TATAAAATTTTTA
1 AAAAATTATAAA-AATTATAAAATTCATA
* * * *
17324561 ATAAACTATAAAAAATTATAAAAAT-ATT
1 AAAAATTAT-AAAAATTATAAAATTCATA
17324589 AAAAA-TATAAAA
1 AAAAATTATAAAA
17324601 TTTTAAATTT
Statistics
Matches: 275, Mismatches: 49, Indels: 75
0.69 0.12 0.19
Matches are distributed among these distances:
26 7 0.03
27 47 0.17
28 53 0.19
29 66 0.24
30 38 0.14
31 40 0.15
32 24 0.09
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (28 bp):
AAAAATTATAAAAATTATAAAATTCATA
Found at i:17324548 original size:17 final size:18
Alignment explanation
Indices: 17324455--17324599 Score: 77
Period size: 17 Copynumber: 7.7 Consensus size: 18
17324445 AAAACTTTTT
*
17324455 TAAAAATTATAAA-AATC
1 TAAAAATTATAAATAATA
* *
17324472 TAATAATTATAAAAAACTA
1 TAAAAATTATAAATAA-TA
*
17324491 T-AAAATTAATAAAATATATT
1 TAAAAATT-AT-AAATA-ATA
*
17324511 TAAAATTCTATAAA-AATTAA
1 TAAAAAT-TATAAATAA-T-A
17324531 TAAAAAATTATAAATAATA
1 T-AAAAATTATAAATAATA
* *
17324550 T-AAAATTTTTAATAAACTA
1 TAAAAATTATAAAT-AA-TA
17324569 TAAAAAATTATAAA-AATA
1 T-AAAAATTATAAATAATA
17324587 TTAAAAA-TATAAA
1 -TAAAAATTATAAA
17324600 ATTTTAAATT
Statistics
Matches: 100, Mismatches: 12, Indels: 32
0.69 0.08 0.22
Matches are distributed among these distances:
17 28 0.28
18 17 0.17
19 14 0.14
20 17 0.17
21 23 0.23
22 1 0.01
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (18 bp):
TAAAAATTATAAATAATA
Found at i:17324580 original size:156 final size:153
Alignment explanation
Indices: 17324210--17324600 Score: 420
Period size: 156 Copynumber: 2.5 Consensus size: 153
17324200 AAAAAATGAT
* * *
17324210 TAAAAATTACTAAAAATTAGTAAAATATTATAAAATATTAAAATATTGATATAAATTTAT-AAAA
1 TAAAAATTAATAAAAATTA-T-AAATAATATAAAATATTAAAA-ATTGATATAAAATTATAAAAA
* * * * **
17324274 TTATAAAAAATAATAATAACTTATAAATATTATAAAATTCTAATAAGTTATAAAAATTTTATAAA
63 TTATAAAAAATTATAAAAACTTATAAAAATTATAAAAATCTAATAAGTTATAAAAATACTATAAA
* *
17324339 ATTAATAAAATTTATTTAAAATTTTA
128 ATTAATAAAATATATTTAAAATTCTA
* * * * *
17324365 TAAAAATGT-ATAAGAATTCTTAAAAAATTTTAAAAATATT-AAAATTGATATAAACTTATAAAA
1 TAAAAAT-TAATAAAAATT-ATAAATAA-TAT-AAAATATTAAAAATTGATATAAAATTATAAAA
*
17324428 ATTATAAAAAAATTATAAAAACTTTTTTAAAAATTATAAAAATCTAATAA-TTATAAAAA-ACTA
62 ATTAT-AAAAAATTATAAAAAC--TTATAAAAATTATAAAAATCTAATAAGTTATAAAAATACTA
17324491 TAAAATTAATAAAATATATTTAAAATTCTA
124 TAAAATTAATAAAATATATTTAAAATTCTA
* * *
17324521 TAAAAATTAATAAAAAATTATAAATAATATAAAATTTTTAATAAACT-ATAAAAAATTATAAAAA
1 TAAAAATTAAT-AAAAATTATAAATAATATAAAA-TATTAA-AAATTGATATAAAATTATAAAAA
*
17324585 -TATTAAAAA-TATAAAA
63 TTATAAAAAATTATAAAA
17324601 TTTTAAATTT
Statistics
Matches: 198, Mismatches: 25, Indels: 28
0.79 0.10 0.11
Matches are distributed among these distances:
153 7 0.04
154 28 0.14
155 37 0.19
156 84 0.42
157 19 0.10
158 23 0.12
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.37
Consensus pattern (153 bp):
TAAAAATTAATAAAAATTATAAATAATATAAAATATTAAAAATTGATATAAAATTATAAAAATTA
TAAAAAATTATAAAAACTTATAAAAATTATAAAAATCTAATAAGTTATAAAAATACTATAAAATT
AATAAAATATATTTAAAATTCTA
Found at i:17331135 original size:134 final size:134
Alignment explanation
Indices: 17330882--17331127 Score: 280
Period size: 134 Copynumber: 1.8 Consensus size: 134
17330872 CAAAACTATC
* ** * * *
17330882 ATTTTTAAAGCTCGCTAATTTATGATCACTACTTCAGTTCATTGATTTACGATCATAAACACGTC
1 ATTTTTAAAGCTCGCTAAGTTACAATCACAACTCCAATTCATTGATTTACGATCATAAACACGTC
* * * * *
17330947 ATTAAGTGTTCATCGAGTTACGATCGCTACTTCACTTAAATAGTTCGCTAATTTATAATCATAAC
66 ATTAAGAGTTCATCGAGTTACGATCGCTACTCCACTTAAACAGGTCACTAATTTATAATCATAAC
17331012 TTTT
131 TTTT
* * * **
17331016 ATTTTTAAAGCTCGTTAAGTTACAATCACAACTCCAATTGATTGATTTACGATCATGAACATTTC
1 ATTTTTAAAGCTCGCTAAGTTACAATCACAACTCCAATTCATTGATTTACGATCATAAACACGTC
* * * *
17331081 ATTAAGAGTTCGTCGATTTATGATCG-TAACTCCA-TTGAAGCAGGTCA
66 ATTAAGAGTTCATCGAGTTACGATCGCT-ACTCCACTT-AAACAGGTCA
17331128 TTGATTTAGG
Statistics
Matches: 90, Mismatches: 20, Indels: 4
0.79 0.18 0.04
Matches are distributed among these distances:
133 3 0.03
134 87 0.97
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.37
Consensus pattern (134 bp):
ATTTTTAAAGCTCGCTAAGTTACAATCACAACTCCAATTCATTGATTTACGATCATAAACACGTC
ATTAAGAGTTCATCGAGTTACGATCGCTACTCCACTTAAACAGGTCACTAATTTATAATCATAAC
TTTT
Found at i:17333643 original size:568 final size:570
Alignment explanation
Indices: 17331056--17335531 Score: 4372
Period size: 572 Copynumber: 7.9 Consensus size: 570
17331046 ACTCCAATTG
* * ** * * *
17331056 ATTGATTTACGATCATGAACATTTCATTAAGAGTTCGTCGATTTATGATCGTAACTCCA-TTGAA
1 ATTGATTTACAATCATGAACACTTCATTAAGAGTTCACCAATTTACGATCGCAACTCCACTT-AA
** * * * * * * *
17331120 GCAGGTCATTGATTTAGGATCACAATTGTCATTTTTAAAGTTCACTGATTTACAATCACGACTTT
65 ATAGTTCGTTGATTTACGATCACAACTGTCATTTTTAAAGCTCGCTGATTTACAATCACGACTTC
* * * * * * * * *
17331185 AGTTCAATGATTTATGGTAATGAACACTTCTTGATTTACAAGGAATATAAATTTGCTAAACTAGT
130 AATTCATTGATTTACGATCATGAACACTTCTTGGTTCACAAGGAATGTAAATTTGCTGAACTAGT
* ** * *
17331250 TCCAAGCAAGGGTAGAGATGATTTTCAACTA-CTTAATTCTGACCTCTCTGCCTTTCAGAGCAAG
195 TCCAAGCATGGCCAGAGATGATTTTCAACTAGC-TAATTCTGACCTCTCTGCCCTTCAAAGCAAG
* * *
17331314 TTAGATGCTAGAGATGATAAATATAGACGTGTCGAGGAAGAACTCTAAACTGACCTTGAAAGAAA
259 TTAGATGCTAGAGATGATAAATAAAGACGTGTTGAGGAAGAACTCAAAACTGACCTTGAAA-AAA
* * *
17331379 -GAGAATAGAGGAACCAATTTTGTTACATTGTCTTTATGATGCTGAAGCTACTTCTCTTCACAAT
323 GGAGGATAGAGGAATCAATTTTGTTACATTGTCTTTATGAGGCTGAAGCTACTTCTCTTCAC-AT
* * * * * * *
17331443 ATGTCTGAAACGAGGCTTAAAATGGATC-AATTTGC-TAAAAA-AAGGAACTTTCTAAAAAGCTT
387 ACGTCTGAAACGAGGCTTGAAATGGATCGATTTTCCAAAAAAACAAGGAACTTTTTGAAAAGCTT
* * * ** **
17331505 TAATTGATTTACGATCACGACTTTCTACTTACAGGATTTTATTAATCTCATGGTCTACTGATTTA
452 TAACTGATTTACGATCATGACCTTCTACTTACAGGATTTTACGAATCTCATGGTCCGCTGATTTA
* * * * * * * * * * *
17331570 CAATCA-AAATTTTTATTTTTAAAGTTCGTTAATTTATGATCAC-GACTTCAATTA
517 CGATCATAACTGTCT-TTTTTACAGCTCGTTAATTTACGTTTACAG-CTTCAGTTC
** * * * *
17331624 ATTGATTTATGATCGTGAACCCTTCATTAA-ATGTTCACCATTTTACGATCGTAACTCCACTTAA
1 ATTGATTTACAATCATGAACACTTCATTAAGA-GTTCACCAATTTACGATCGCAACTCCACTTAA
** * * *
17331688 ATAGTTCGTTGATTTATTATTATAACTGTCATTTTTAAAGCTCGCTGATTAACAATCAC-AGCTT
65 ATAGTTCGTTGATTTACGATCACAACTGTCATTTTTAAAGCTCGCTGATTTACAATCACGA-CTT
* * *
17331752 CAATTCATTGATTTATGATCATGAACACTTCTTGGTTCAAAAGGAATATAAATTTGCTGAACTAG
129 CAATTCATTGATTTACGATCATGAACACTTCTTGGTTCACAAGGAATGTAAATTTGCTGAACTAG
* * * *
17331817 TTCCAAGCATGGTCAGAGATGATTTTCAACTAGCTAATT-TGTCCTCTTTGCCCTTCAGAGCAAG
194 TTCCAAGCATGGCCAGAGATGATTTTCAACTAGCTAATTCTGACCTCTCTGCCCTTCAAAGCAAG
* * * * * *
17331881 TTAGATGTTAGAGATGATAAATAAAGGCGTGTTAAGGAAGAACTAAAAACTAACCTTGAAAGAAG
259 TTAGATGCTAGAGATGATAAATAAAGACGTGTTGAGGAAGAACTCAAAACTGACCTTGAAAAAAG
* * * * * *
17331946 AAGGATAGAGGAATCAATTTTGTTACATTGTCTTTATGAGGTTGAAACTACTTTTC-TAAAATAG
324 GAGGATAGAGGAATCAATTTTGTTACATTGTCTTTATGAGGCTGAAGCTACTTCTCTTCACAT--
* * *
17332010 ACGTTTGAAACGAGGCTCGAAATGGA-CTGATTTTTTC-AAAAAACAAGGAACTTTTTGAAAAGC
387 ACGTCTGAAACGAGGCTTGAAATGGATC-GA-TTTTCCAAAAAAACAAGGAACTTTTTGAAAAGC
* * * * *
17332073 TTTAGCTGATTTACGATCACGACCTTGTACTTACAAGATTTTACGAATCTCATGGTCC-ATGGAT
450 TTTAACTGATTTACGATCATGACCTTCTACTTACAGGATTTTACGAATCTCATGGTCCGCT-GAT
* * * *
17332137 TTACACGATCAAAACTGTCTTTTTTACTGCTTGCTAATTTACGTTTACAGCTTCAGTTC
514 TT--ACGATCATAACTGTCTTTTTTACAGCTCGTTAATTTACGTTTACAGCTTCAGTTC
* * * * * * *
17332196 ATTAATTTACAATTAAGAACACTTCATTAAGGGTTCGCCGATTTACGATCGCTACTCCACTTAAA
1 ATTGATTTACAATCATGAACACTTCATTAAGAGTTCACCAATTTACGATCGCAACTCCACTTAAA
* * * * * *
17332261 TAGTTCGTTGATTTACGATCATAATTGTCAATTTTAAAGCTCACTTATTTACAATCATGACTTCA
66 TAGTTCGTTGATTTACGATCACAACTGTCATTTTTAAAGCTCGCTGATTTACAATCACGACTTCA
* * * * *
17332326 TTTCATTTATTTACGATCACGAACACTTCTTGGTTCATAAGGAACGTAAATTTGCTGAACTAGTT
131 ATTCATTGATTTACGATCATGAACACTTCTTGGTTCACAAGGAATGTAAATTTGCTGAACTAGTT
** ** * * *
17332391 CCAAGTGTGGCCAGAGATGATTTTTTACTAGCTAATTTTGACCTCTCTACCCTTTAAAGCAAGCT
196 CCAAGCATGGCCAGAGATGATTTTCAACTAGCTAATTCTGACCTCTCTGCCCTTCAAAGCAAG-T
* * * * * * *
17332456 CA-ATGCTAGAGATGATAAATATAGACGTGTTGAGGAAGAACTTAAAACTAACATTGAAAGAGGG
260 TAGATGCTAGAGATGATAAATAAAGACGTGTTGAGGAAGAACTCAAAACTGACCTTGAAAAAAGG
* * * * *
17332520 AGGATAGAGGAATCAATTTTGTTAAATTGTCTTTGTGATGCTGAAGCTACATCTCTTCACCATAT
325 AGGATAGAGGAATCAATTTTGTTACATTGTCTTTATGAGGCTGAAGCTACTTCTCTTCA-CATAC
* * * * ** * * *
17332585 GTTTCAAATGAGGCTTGCAATGGATCGATCTTTTGAAAAAAACAAGGAACTATTTGAAAAACTTC
389 GTCTGAAACGAGGCTTGAAATGGATCGAT-TTTCCAAAAAAACAAGGAACTTTTTGAAAAGCTTT
* ** * **
17332650 AACTGATTTATGATCACAACCTTCTACTTACAGGATTTTACGAATCTCACGGTTTGC-GAGTTTA
453 AACTGATTTACGATCATGACCTTCTACTTACAGGATTTTACGAATCTCATGGTCCGCTGA-TTTA
** * * * * *
17332714 CGATCATAA-TAGTCAATTGT-CAAGCTCGTTGATTTACGTATACAACTTTAGTTC
517 CGATCATAACT-GTCTTTTTTAC-AGCTCGTTAATTTACGTTTACAGCTTCAGTTC
* ** * * * * *
17332768 -TCTTATTTATGATAATGAACACTTAATTAAGAGTTCACCGATTTACGATCACAACTCCATTTAA
1 AT-TGATTTACAATCATGAACACTTCATTAAGAGTTCACCAATTTACGATCGCAACTCCACTTAA
* ** * *
17332832 ATAGTTCTTTGATTTATAATCACAACTGTCATTTTTAAAGCTCGTTGATTTACAATCACGGCTTC
65 ATAGTTCGTTGATTTACGATCACAACTGTCATTTTTAAAGCTCGCTGATTTACAATCACGACTTC
** * * ** * * * * *
17332897 AATTCATCAATTTACGATAATTAACAGGTCCTAGTTTACAAAGAAAGTAAATTTGCTGAACTAGT
130 AATTCATTGATTTACGATCATGAACACTTCTTGGTTCACAAGGAATGTAAATTTGCTGAACTAGT
* * * * *
17332962 TCCAAGCGTGACCAGAGATGATTTTCAACTAGCTAATTCTGACCTCTCTACCGTTCAAAACAAGT
195 TCCAAGCATGGCCAGAGATGATTTTCAACTAGCTAATTCTGACCTCTCTGCCCTTCAAAGCAAGT
* * * *
17333027 TAGATGCTAGACATGATTAATAAAGGCGTGTTGAGGAAGAACTCAAAACTGACATTGAAAAAAGG
260 TAGATGCTAGAGATGATAAATAAAGACGTGTTGAGGAAGAACTCAAAACTGACCTTGAAAAAAGG
* * * *
17333092 AAGATAG-GGTAATAAATTTTGTTACTTTGTCTTTATGAGGCTGAAGCTACTTCTCTTCACAGTC
325 AGGATAGAGG-AATCAATTTTGTTACATTGTCTTTATGAGGCTGAAGCTACTTCTCTTCACA-TA
* * ** * ** * *
17333156 CATCTGAAACAAGGCTTGAAATGGATTAATTTGCCAAAAAAACAAGGAACTTCCT-CAAA-TTTT
388 CGTCTGAAACGAGGCTTGAAATGGATCGATTTTCCAAAAAAACAAGGAACTTTTTGAAAAGCTTT
* * * * * * *
17333219 AGCTGATTTACGATCATGACCTTGTACTTATAGGATTATACAAATCT-GTGGATCCACTGATTTA
453 AACTGATTTACGATCATGACCTTCTACTTACAGGATTTTACGAATCTCATGG-TCCGCTGATTTA
* * * * * *
17333283 CTATCTTAACTGTCTTTTTTACATCTTGTTGATTTACATTTACAGCTTCAGTTC
517 CGATCATAACTGTCTTTTTTACAGCTCGTTAATTTACGTTTACAGCTTCAGTTC
* *
17333337 ATTGATTTACAATCATGAACACTTCATTAGGAGTTCACCAATTTACGATCACAACTCCACTTAAA
1 ATTGATTTACAATCATGAACACTTCATTAAGAGTTCACCAATTTACGATCGCAACTCCACTTAAA
* ** * * *
17333402 TAGTTCATTGATTTACGATCACAACTGAGATTTTTAAAGCTCGTTGA-TTACAATCACGGCTCCA
66 TAGTTCGTTGATTTACGATCACAACTGTCATTTTTAAAGCTCGCTGATTTACAATCACGACTTCA
* * * * *
17333466 GTTCATTGATTTACGATCATGAACACTT-TCGGGTTCATAAGAAATTTAAATTTGCTGAACTAGT
131 ATTCATTGATTTACGATCATGAACACTTCT-TGGTTCACAAGGAATGTAAATTTGCTGAACTAGT
* ** * *
17333530 TCCAAGCGTGGTTAGAGATGATTTTCAACTAGCTAATTTTGACCTCTCTGTCCTTCAAAGCAAGT
195 TCCAAGCATGGCCAGAGATGATTTTCAACTAGCTAATTCTGACCTCTCTGCCCTTCAAAGCAAGT
* * * * * * * *
17333595 GAGATGTTGGAGATGATGAATATAGACGTATTGAGGAAGAACTCAAAACTGACTTTGAAAGAAGG
260 TAGATGCTAGAGATGATAAATAAAGACGTGTTGAGGAAGAACTCAAAACTGACCTTGAAAAAAGG
* * * * *
17333660 -GCGATAGATGAATCAATTTTGTTACATTGTTTTTGTGATGCTGAAGCTATTTCTCTTCATCATA
325 AG-GATAGAGGAATCAATTTTGTTACATTGTCTTTATGAGGCTGAAGCTACTTCTCTTCA-CATA
* * * * * *
17333724 CATCTAAAACGAGGC-TGAAAATGGATCGATCTACTCAAAAAAAAAAGGAAATTTTTGAAAAGCT
388 CGTCTGAAACGAGGCTTG-AAATGGATCGATTTTC-CAAAAAAACAAGGAACTTTTTGAAAAGCT
* ** * * * * * *
17333788 TCAGTTGATTTATGGTCATGACCTTCTACTTACAAGATTTTATGAATCTCACGGTCCGTTGATTT
451 TTAACTGATTTACGATCATGACCTTCTACTTACAGGATTTTACGAATCTCATGGTCCGCTGATTT
* * * * ** * * *
17333853 ACGATCAAAACTGTCATTTTTAAAACTCACTAATTTACGATCAC-GACTTCAATTC
516 ACGATCATAACTGTCTTTTTTACAGCTCGTTAATTTACGTTTACAG-CTTCAGTTC
* * * *
17333908 ATTGATTTACAATCATGAATC-TTTCATTAAGAGTTCACCGATTTACAATCGTAACTCCACTTAA
1 ATTGATTTACAATCATGAA-CACTTCATTAAGAGTTCACCAATTTACGATCGCAACTCCACTTAA
* * * * * * * * *
17333972 ATAGTTTGTTTATTAACTATCACAACTGTTATTTTTAAAGTTTGTTGATTTACAATCACAACTTC
65 ATAGTTCGTTGATTTACGATCACAACTGTCATTTTTAAAGCTCGCTGATTTACAATCACGACTTC
* * **
17334037 AATTCATTGATTTACGATCATGAACACTTCTTGGTTTACAAGGAATATAAATTTTTTGAACTAGT
130 AATTCATTGATTTACGATCATGAACACTTCTTGGTTCACAAGGAATGTAAATTTGCTGAACTAGT
* * * * * * *
17334102 T-TAAGCATTGCCGGAGATGATTTTCAACTAGCTAATTCTGGCCTCTCTACCCTTCAGAGTAAGT
195 TCCAAGCATGGCCAGAGATGATTTTCAACTAGCTAATTCTGACCTCTCTGCCCTTCAAAGCAAGT
* * * * * *
17334166 TAGATGCTAGAGATAATGAATATAGACGTGCTGTA-AAAGAACTCAAAACTAACCTTG---AAAG
260 TAGATGCTAGAGATGATAAATAAAGACGTGTTG-AGGAAGAACTCAAAACTGACCTTGAAAAAAG
* * * * ** * *
17334227 GAGGATAGAGGAATCAATTTTTTTAAATTGTATTTGTGATACTAAAGCTACATCTCTTCACCATA
324 GAGGATAGAGGAATCAATTTTGTTACATTGTCTTTATGAGGCTGAAGCTACTTCTCTTCA-CATA
* * * * * * * *
17334292 CGTTTGAAATGAGGTTTGAAATGGATCGATCTTCTCAAAATAGA-AAGGAACTATCTAAAAAGCT
388 CGTCTGAAACGAGGCTTGAAATGGATCGATTTTC-CAAAA-AAACAAGGAACTTTTTGAAAAGCT
* * *
17334356 TCAACTAATTTACGATCATGACCTTCTACTTACAGGATTTTACGAATCTCATGGTCTGC-GAATT
451 TTAACTGATTTACGATCATGACCTTCTACTTACAGGATTTTACGAATCTCATGGTCCGCTG-ATT
* * * * * ** * * * *
17334420 TACTATCATAATTGTCATTTGTAAAGCTCACTGATTTATGTATACAACTTCAGTTC
515 TACGATCATAACTGTCTTTTTTACAGCTCGTTAATTTACGTTTACAGCTTCAGTTC
* * * * *
17334476 ATTTATTTATAATTATGAACACTTAATTAAGAG----------T-CG--CG--ACTACACTTAAA
1 ATTGATTTACAATCATGAACACTTCATTAAGAGTTCACCAATTTACGATCGCAACTCCACTTAAA
* * * * * **
17334526 CAGTTTGTTGATTTATGATCACAACTATCAGTTTTAAAGCTTACTGATTTACAATCACGACTTCA
66 TAGTTCGTTGATTTACGATCACAACTGTCATTTTTAAAGCTCGCTGATTTACAATCACGACTTCA
* * * *
17334591 ATTCATTGATTTACGATCATGAACACTTCTTGGTCCACAAGGAATGTAAATTTTCTAAACTGGTT
131 ATTCATTGATTTACGATCATGAACACTTCTTGGTTCACAAGGAATGTAAATTTGCTGAACTAGTT
* * * * * * * *
17334656 TCAAGCGTGGTCAGAGATGATTTTCAACTAGCTAGTTCTGTCATCTCTACCCTTCAGAGCAAGTT
196 CCAAGCATGGCCAGAGATGATTTTCAACTAGCTAATTCTGACCTCTCTGCCCTTCAAAGCAAGTT
* * * * *
17334721 AGATGCTAGACATGATAAATAAAGGCATGTTTAGGAAGAACTCAAAACTGACCTTGAAAGAAGGA
261 AGATGCTAGAGATGATAAATAAAGACGTGTTGAGGAAGAACTCAAAACTGACCTTGAAAAAAGGA
* * * *
17334786 GGATAGAGGAATCAATTTTGTTACATTGTCTTTATGAGGTTGAAGCTACTTCTTTTCACCGTCCG
326 GGATAGAGGAATCAATTTTGTTACATTGTCTTTATGAGGCTGAAGCTACTTCTCTTCA-CATACG
* * * *
17334851 TCTAAAACGAGGCTTAAAATGAATCGATTTTCTAAAAAAGACAAGGAACTTTTTGAAAAGCTTTA
390 TCTGAAACGAGGCTTGAAATGGATCGATTTTCCAAAAAA-ACAAGGAACTTTTTGAAAAGCTTTA
* * * * * * *
17334916 ACTAATTTACGATCATGACCTTATACTTATAGGATTATACGAATCTAACGGTCCGCAGATTTACG
454 ACTGATTTACGATCATGACCTTCTACTTACAGGATTTTACGAATCTCATGGTCCGCTGATTTACG
* * * * *
17334981 ATCATAAGTGTCTTTTTTACAGCTTGTTTATTTACGTTTACAACTTTAGTTC
519 ATCATAACTGTCTTTTTTACAGCTCGTTAATTTACGTTTACAGCTTCAGTTC
* * *
17335033 TTTGATTTACAATCATGAACACTTCATTAAGAGTTCACCAATTTACAATTGCAACTCCACTTAAA
1 ATTGATTTACAATCATGAACACTTCATTAAGAGTTCACCAATTTACGATCGCAACTCCACTTAAA
* * * * * * *
17335098 TAGTTCGTTGAGTTACAATCACAACTATTATTTTTAAAGCTCACTGATTCACAATCACGGCTTCA
66 TAGTTCGTTGATTTACGATCACAACTGTCATTTTTAAAGCTCGCTGATTTACAATCACGACTTCA
* *
17335163 GTTCATTAATTTACGATCATGAACAC-TCTTTGGTTCACAAGGAATGTAAATTTGCTGAACTAGT
131 ATTCATTGATTTACGATCATGAACACTTC-TTGGTTCACAAGGAATGTAAATTTGCTGAACTAGT
* * * *
17335227 TCCAAGCATGGCTAGAGATGATTTTCAGCTAGCTAACTCTGACTTCTCTGCCCTTCAAAGCAAGT
195 TCCAAGCATGGCCAGAGATGATTTTCAACTAGCTAATTCTGACCTCTCTGCCCTTCAAAGCAAGT
* *
17335292 TAGATGCTAGAGATGATAAATAAAGGCGTGTTGAGGAAGAACTCAAAACTGACATT---AAAAGG
260 TAGATGCTAGAGATGATAAATAAAGACGTGTTGAGGAAGAACTCAAAACTGACCTTGAAAAAAGG
* * *
17335354 AGGATAGAGGAATCAATTTTGTTACATTGTCTTTATGAGGTTGAAGCTACTT-T-TTGGAACCGT
325 AGGATAGAGGAATCAATTTTGTTACATTGTCTTTATGAGGCTGAAGCTACTTCTCTT--CA-CAT
* ** * * * *
17335417 ACGTCTAAAACGAGGCTCAAAATTGATCGATTTGCTC-AATAAACAAGGAATTTTTTGAAAAGCT
387 ACGTCTGAAACGAGGCTTGAAATGGATCGATTTTC-CAAAAAAACAAGGAACTTTTTGAAAAGCT
* ** * * *
17335481 TCAGTTGATTTACGATCACGACCTTGTACTTACAGGGTTTTACGAATCTCA
451 TTAACTGATTTACGATCATGACCTTCTACTTACAGGATTTTACGAATCTCA
17335532 CTGATTTATG
Statistics
Matches: 3214, Mismatches: 609, Indels: 170
0.80 0.15 0.04
Matches are distributed among these distances:
553 124 0.04
554 99 0.03
555 3 0.00
556 5 0.00
557 228 0.07
558 2 0.00
565 2 0.00
566 5 0.00
567 155 0.05
568 731 0.23
569 317 0.10
570 85 0.03
571 310 0.10
572 906 0.28
573 159 0.05
574 81 0.03
575 2 0.00
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (570 bp):
ATTGATTTACAATCATGAACACTTCATTAAGAGTTCACCAATTTACGATCGCAACTCCACTTAAA
TAGTTCGTTGATTTACGATCACAACTGTCATTTTTAAAGCTCGCTGATTTACAATCACGACTTCA
ATTCATTGATTTACGATCATGAACACTTCTTGGTTCACAAGGAATGTAAATTTGCTGAACTAGTT
CCAAGCATGGCCAGAGATGATTTTCAACTAGCTAATTCTGACCTCTCTGCCCTTCAAAGCAAGTT
AGATGCTAGAGATGATAAATAAAGACGTGTTGAGGAAGAACTCAAAACTGACCTTGAAAAAAGGA
GGATAGAGGAATCAATTTTGTTACATTGTCTTTATGAGGCTGAAGCTACTTCTCTTCACATACGT
CTGAAACGAGGCTTGAAATGGATCGATTTTCCAAAAAAACAAGGAACTTTTTGAAAAGCTTTAAC
TGATTTACGATCATGACCTTCTACTTACAGGATTTTACGAATCTCATGGTCCGCTGATTTACGAT
CATAACTGTCTTTTTTACAGCTCGTTAATTTACGTTTACAGCTTCAGTTC
Found at i:17337216 original size:572 final size:566
Alignment explanation
Indices: 17335534--17337432 Score: 2043
Period size: 572 Copynumber: 3.3 Consensus size: 566
17335524 GAATCTCACT
* *
17335534 GATTTATGATCGCAACTAC-ACTTAAACAGTTT-GTTGATTTATGATCA-AACTGTCATTTTCAA
1 GATTTACGATCGCAACTACTACTTAAACA-TTTCGTTGATTTATGATCACAACTGTCATTTTTAA
* * * * *
17335596 AGCTCACTGATTTACAAT-TTGGCTTCAGTTCATTGATTTATGATCATGAACACTTGTTGGTTCA
65 AGCTCACTGAGTTACAATCATGACTTCAGTTCATTGATTTATAATCATGAACACTTATTGGTTCA
* *
17335660 CT-AGGAATGTAAATTTGCTGAACTAGTTCTAAGCGTGGTCAGAGATGATTTTCAACTAGCTAAT
130 -TAAGGAATGTAAATTTACTGAACTAGTTC-AAGCGTGGCCAGAGATGATTTTCAACTAGCTAAT
* * * *
17335724 TCTGACCTCTTTTCCCTTCATAGCAAGTTAAATTCTAGAGATGATAAATAAAGACGTGTTGAGGA
193 TCTGACCTCTCTTCCCTTCAAAGCAAGTTAGATACTAGAGATGATAAATAAAGACGTGTTGAGGA
* * *
17335789 AGAACTCAAAACTAACCTTGAAAGGCA-GAGGATAGAGGAATCAATTTTGTTAAATTTTTCTTTA
258 AGAACTCAAAACTAACCTTGAAA-GAAGGAGGATAAAGGAATCAATTTTGTTAAA-TTGTCTTTA
* * * *
17335853 TTAGGCTGAAGCTACTTCTCTTCACCTTCCGTCTGAAACAAGGCTTGAAATGGATCGACCTGT-T
321 TTA-GCTGAAGCTACTTCTCTTCACCATACGTCTGAAACGAGGCTTGAAATGGATCGATCT-TCT
* * * * *
17335917 CAAAAGAAGAAGAAATTGTTCT-AAAAGTTTTAATTGATTTACAATCACAACCTTCTACTTATAG
384 CAAAA-AA-AAG-AACT-TTCTGAAAAGCTTTAGTTGATTTACAATCACGACCTTTTACTTATAG
* * * * * *
17335981 GATTTTACGAATCTCACGGTCCGCAGATTTACGATCATAAC-AGTCAATTGTAAAGCTCGCTGAT
445 GATTTTATGAATCTCATGGTCTGCAGATTTACGATCATAACTA-TCATTTTTAAAGCTCGTTGAT
* * * * * *
17336045 TTATGTATACAAATTTAGTTCATTTATTTAC-GACCATGAACATTTAATTAAGAGTTCACC
509 TTACGTATAC-ATTTTAGTTCATTGATTTACAG-TCATGAACACTTCATTAAGAGTTC-CC
* * * * * * *
17336105 GATTTACGATCGCAACTCCT-TTTAAACAGTTCGTTGATTTACGATTATAACTGTTATTTTTAAA
1 GATTTACGATCGCAACTACTACTTAAACATTTCGTTGATTTATGATCACAACTGTCATTTTTAAA
* * * * * * * **
17336169 GTTCAATGATTTATAATCACGACTTTAGTTTATTGATTTATAATCATGAACACTCCTT-GTTACA
66 GCTCACTGAGTTACAATCATGACTTCAGTTCATTGATTTATAATCATGAACACTTATTGGTT-CA
* * * * **
17336233 TGAGGAATGTAAATTTACTAAACTAGTTCAAGCGTGGCCAGAAATAATTTTCAACTAATTAATTC
130 TAAGGAATGTAAATTTACTGAACTAGTTCAAGCGTGGCCAGAGATGATTTTCAACTAGCTAATTC
* * *
17336298 TGACCTCTCTGCCCTTCAAAGTAAGTTAGATACTAGAGATAATAAATAAATG-CGTGTTGAGGAA
195 TGACCTCTCTTCCCTTCAAAGCAAGTTAGATACTAGAGATGATAAATAAA-GACGTGTTGAGGAA
* * * * * *
17336362 GAACTTAAAACTCACCTTGAAAGAAGTATGATATAGGAATCAATTTTGTTACATTGTCTTTATTA
259 GAACTCAAAACTAACCTTGAAAGAAGGAGGATAAAGGAATCAATTTTGTTAAATTGTCTTTATTA
* * * ** * * * *
17336427 GCCCGAAGCTATTTTTCTGAATCGTATGTCTGAAATGAGGCTTGAAATGGATCGAT-TTGCT--A
324 G-CTGAAGCTACTTCTCTTCACCATACGTCTGAAACGAGGCTTGAAATGGATCGATCTT-CTCAA
* * *
17336489 AAAAAAGAACTTTCTGAAAAGCTTCAGTTGATTTACGATCACGACCTTTTACTTACAGGATTTTA
387 AAAAAAGAACTTTCTGAAAAGCTTTAGTTGATTTACAATCACGACCTTTTACTTATAGGATTTTA
* * * * * * * * *
17336554 TGAATTTCATGGTCTGCAGATTTACAATCAAAATTATCTTTTTTATAGCTCATTAATTTACGTTT
452 TGAATCTCATGGTCTGCAGATTTACGATCATAACTATCATTTTTAAAGCTCGTTGATTTACGTAT
* * * *
17336619 ACATCTTCAATTCATTGATTTACAGTCATAAACACTTCATTAAGAGTTCTTC
517 ACAT-TTTAGTTCATTGATTTACAGTCATGAACACTTCATTAAGAGTTC-CC
* * *
17336671 GATTTACAATTGCAACT-CTACTTAAACATTTCGTTGATTTATGATCACAACTGTCAGTTTTAAA
1 GATTTACGATCGCAACTACTACTTAAACATTTCGTTGATTTATGATCACAACTGTCATTTTTAAA
* * *
17336735 GCTCGCTGAGTTACAATCATGGCTTCAGTTCATTGATTTACAATCATGAACACTTAATT-GTTC-
66 GCTCACTGAGTTACAATCATGACTTCAGTTCATTGATTTATAATCATGAACACTT-ATTGGTTCA
* * ** * *
17336798 TCAAGGAATGCAAATTTACTGAAGTAGTTCCAAGCGTGGATAGAGATGACTTTCAGCTAGCTAAT
130 T-AAGGAATGTAAATTTACTGAACTAGTT-CAAGCGTGGCCAGAGATGATTTTCAACTAGCTAAT
* * * *
17336863 TCTAACCTCTCTTCCCTTTAGAGCAAGTTAGATGCTAGAGATGATAAATAAAGACGTGTTGAGGA
193 TCTGACCTCTCTTCCCTTCAAAGCAAGTTAGATACTAGAGATGATAAATAAAGACGTGTTGAGGA
* * * *
17336928 AGAACTCAAAACTGACCTTGACAGAAGGAGGATAAAGAAATCAAAATTTT-TTAAATTGTCTTTG
258 AGAACTCAAAACTAACCTTGAAAGAAGGAGGATAAAGGAATC--AATTTTGTTAAATTGTCTTTA
* * * * * *
17336992 TGATG-TAGAAGTTACATCTATTCACCATACGTCTAAAACGAGGCTTG-AATGGGTCGATCTTCT
321 TTA-GCT-GAAGCTACTTCTCTTCACCATACGTCTGAAACGAGGCTTGAAATGGATCGATCTTCT
* *
17337055 CAAATAAACAATGAACTATCTGAAAAGCTTTAGCTGATTTACAATCACGACCTTTTACTTATAGG
384 CAAA-AAA-AA-GAACTTTCTGAAAAGCTTTAGTTGATTTACAATCACGACCTTTTACTTATAGG
* * *
17337120 ATTTTATGAATCTCATGGTTTACAGATTTATGATCATAACTATCATTTTTAAAGCTCGTTGATTT
446 ATTTTATGAATCTCATGGTCTGCAGATTTACGATCATAACTATCATTTTTAAAGCTCGTTGATTT
* *
17337185 ACGTATACAGTTTTAGTTCATTGATTTACAGTCATGAACCCTTCATTAAGAGTTCGCA
511 ACGTATACA-TTTTAGTTCATTGATTTACAGTCATGAACACTTCATTAAGAGTTC-CC
* * * *
17337243 GATTTACGATCGTAACT-CCACTTAATA-A-TTCATTG-TTTAACT-ATCACAAACTGTTATTTT
1 GATTTACGATCGCAACTACTACTTAA-ACATTTCGTTGATTT-A-TGATCAC-AACTGTCATTTT
* * * *
17337303 TAAAGCTCACTTAGTTACAATCATGACTTCAATTCATTGATTTATGATTATGAACACTTATTGGT
62 TAAAGCTCACTGAGTTACAATCATGACTTCAGTTCATTGATTTATAATCATGAACACTTATTGGT
* *
17337368 TCATAAGGAATGTAAATTTGCTGAACTAGTTCAACGAGTGGCCAGAGATGATTTTCAACTAGCTA
127 TCATAAGGAATGTAAATTTACTGAACTAGTTCAA-GCGTGGCCAGAGATGATTTTCAACTAGCTA
17337433 CTTTTCTTAT
Statistics
Matches: 1093, Mismatches: 197, Indels: 75
0.80 0.14 0.05
Matches are distributed among these distances:
565 8 0.01
566 251 0.23
567 140 0.13
568 46 0.04
569 13 0.01
570 10 0.01
571 113 0.10
572 449 0.41
573 63 0.06
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (566 bp):
GATTTACGATCGCAACTACTACTTAAACATTTCGTTGATTTATGATCACAACTGTCATTTTTAAA
GCTCACTGAGTTACAATCATGACTTCAGTTCATTGATTTATAATCATGAACACTTATTGGTTCAT
AAGGAATGTAAATTTACTGAACTAGTTCAAGCGTGGCCAGAGATGATTTTCAACTAGCTAATTCT
GACCTCTCTTCCCTTCAAAGCAAGTTAGATACTAGAGATGATAAATAAAGACGTGTTGAGGAAGA
ACTCAAAACTAACCTTGAAAGAAGGAGGATAAAGGAATCAATTTTGTTAAATTGTCTTTATTAGC
TGAAGCTACTTCTCTTCACCATACGTCTGAAACGAGGCTTGAAATGGATCGATCTTCTCAAAAAA
AAGAACTTTCTGAAAAGCTTTAGTTGATTTACAATCACGACCTTTTACTTATAGGATTTTATGAA
TCTCATGGTCTGCAGATTTACGATCATAACTATCATTTTTAAAGCTCGTTGATTTACGTATACAT
TTTAGTTCATTGATTTACAGTCATGAACACTTCATTAAGAGTTCCC
Found at i:17338051 original size:21 final size:20
Alignment explanation
Indices: 17338035--17338073 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
17338025 TCTCACTATC
*
17338035 TGCTAATTTATTATCACAAT
1 TGCTAATTTATGATCACAAT
*
17338055 TGTTAATTTATGATCACAA
1 TGCTAATTTATGATCACAA
17338074 CTTAAGTTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.13, G:0.08, T:0.44
Consensus pattern (20 bp):
TGCTAATTTATGATCACAAT
Found at i:17338645 original size:19 final size:20
Alignment explanation
Indices: 17338603--17338646 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
17338593 TGATCTGCTC
17338603 AAAAAATAAGGAAATTTCTG
1 AAAAAATAAGGAAATTTCTG
*
17338623 AAAAAATAAGGAACTTTCT-
1 AAAAAATAAGGAAATTTCTG
17338642 AAAAA
1 AAAAA
17338647 GATTCACCTG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.59, C:0.07, G:0.11, T:0.23
Consensus pattern (20 bp):
AAAAAATAAGGAAATTTCTG
Found at i:17338958 original size:19 final size:20
Alignment explanation
Indices: 17338915--17338958 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
17338905 GATCTGCTCA
17338915 AAAAAATAAGGAAATTTCTG
1 AAAAAATAAGGAAATTTCTG
*
17338935 AAAAAATAAGGAACTTTCTG
1 AAAAAATAAGGAAATTTCTG
17338955 AAAA
1 AAAA
17338959 GATTCACCTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.57, C:0.07, G:0.14, T:0.23
Consensus pattern (20 bp):
AAAAAATAAGGAAATTTCTG
Found at i:17339062 original size:312 final size:311
Alignment explanation
Indices: 17338434--17339216 Score: 1361
Period size: 312 Copynumber: 2.5 Consensus size: 311
17338424 TCCTTGAGAT
* * * * *
17338434 CAAGTTAGATGCTAGAGATGATGAATATA-GAAGTGTTGAGGAAGAACTCAAAAGTGACCTTGAA
1 CAAGTTAAATGCTAAAGATGACGAATATAGGCA-TGTTGAGGAAGAACTCAAAACTGACCTTGAA
* *
17338498 AGAAAGAGGCTAGAGGAATCAATTTCCTTACATTGTTTTTGTTAGACTGATGCTACTTCTCTTTA
65 AGAAGGAGGATAGAGGAATCAATTTCCTTACATTGTTTTTGTTAGACTGATGCTACTTCTCTTTA
17338563 CCGTACGTTTGAAACAAGTCTTAAATGGATTGATCTGCTCAAAAAATAAGGAAATTTCTGAAAAA
130 CCGTACGTTTGAAACAAGTCTTAAATGGATTGATCTGCTCAAAAAATAAGGAAATTTCTGAAAAA
17338628 ATAAGGAACTTTCTAAAAAGATTCACCTGATTTAAGATATTAACCTTCTACTTATAGGATTTATG
195 ATAAGGAACTTTCTAAAAAGATTCACCTGATTTAAGATATTAACCTTCTACTTATAGGATTTATG
17338693 AATCTCACGGTCTGCTTCAACTAGCAAATTTTGACCTCTCTTCTCATTAGAG
260 AATCTCACGGTCTGCTTCAACTAGCAAATTTTGACCTCTCTTCTCATTAGAG
* *
17338745 CAAGTTAAATGCTAAAGATGACGAATATAGGCATGTTGAGGAAGAACTAAAAATTGACCTTGAAA
1 CAAGTTAAATGCTAAAGATGACGAATATAGGCATGTTGAGGAAGAACTCAAAACTGACCTTGAAA
17338810 GAAGGAGGATAGAGGAATCAATTTCCTTACATTGTTTTTGTTAGACTGATGCTACTTCTCTTTAC
66 GAAGGAGGATAGAGGAATCAATTTCCTTACATTGTTTTTGTTAGACTGATGCTACTTCTCTTTAC
17338875 CGTACGTTTGAAACAAGTCTTAAATGGATTGATCTGCTCAAAAAAATAAGGAAATTTCTGAAAAA
131 CGTACGTTTGAAACAAGTCTTAAATGGATTGATCTGCTC-AAAAAATAAGGAAATTTCTGAAAAA
* *
17338940 ATAAGGAACTTTCTGAAAAGATTCACCTGATTTACGATATTAACCTTCTACTTATAGGATTTATG
195 ATAAGGAACTTTCTAAAAAGATTCACCTGATTTAAGATATTAACCTTCTACTTATAGGATTTATG
*
17339005 AATCTCATGGTCTGCTTCAACTAGCAAATTTTGACCTCTCTTCTCATTAGAG
260 AATCTCACGGTCTGCTTCAACTAGCAAATTTTGACCTCTCTTCTCATTAGAG
17339057 CAAGTTAAATGCTAAAGATGACGAATATAGGCATGTTGAGGAAGAACTCAAAACTGACCTTGAAA
1 CAAGTTAAATGCTAAAGATGACGAATATAGGCATGTTGAGGAAGAACTCAAAACTGACCTTGAAA
* * *
17339122 GAAGGAGGATAGAGGAATCAATTTCCTTACATTATTTTTGTTAGGCTGATGATACTTCTCTTTAC
66 GAAGGAGGATAGAGGAATCAATTTCCTTACATTGTTTTTGTTAGACTGATGCTACTTCTCTTTAC
* * * *
17339187 CATATGTTTGAAACGAGGCTTGAAATGGAT
131 CGTACGTTTGAAACAAGTCTT-AAATGGAT
17339217 CGATTTACCC
Statistics
Matches: 449, Mismatches: 20, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
311 158 0.35
312 283 0.63
313 8 0.02
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (311 bp):
CAAGTTAAATGCTAAAGATGACGAATATAGGCATGTTGAGGAAGAACTCAAAACTGACCTTGAAA
GAAGGAGGATAGAGGAATCAATTTCCTTACATTGTTTTTGTTAGACTGATGCTACTTCTCTTTAC
CGTACGTTTGAAACAAGTCTTAAATGGATTGATCTGCTCAAAAAATAAGGAAATTTCTGAAAAAA
TAAGGAACTTTCTAAAAAGATTCACCTGATTTAAGATATTAACCTTCTACTTATAGGATTTATGA
ATCTCACGGTCTGCTTCAACTAGCAAATTTTGACCTCTCTTCTCATTAGAG
Found at i:17341171 original size:572 final size:569
Alignment explanation
Indices: 17339020--17341284 Score: 2165
Period size: 571 Copynumber: 4.0 Consensus size: 569
17339010 CATGGTCTGC
* * * *
17339020 TTCAACTAGCAAATTTTGACCTCTCT-TCTCATTAGAGCAAGTTAAATGCTAAAGATGACGAATA
1 TTCAACTAGCTAATTTTGACCTCTCTGCCTCATTAGAGCAAGTTAGATGCTAAAGATGATGAATA
* * * **
17339084 TAGGCATGTTGAGGAAGAACTCAAAACTGACCTTGAAAGAAGGAGGATAGAGGAATCAATTTCCT
66 TAGACGTGTTGAGGAAGAACTCAAAACTAACCTTGAAAGAAGGAGGATAGAGGAATCAATTTTGT
* * * * * * * * *
17339149 TACATTATTTTTGTTAGGCTGATGATACTTCTCTTTACCATATGTTTGAAACGAGGCTTGAAATG
131 TACATTGTCTTTGTGAGGCTGAAGCTACTTCTCTTAACTACATGTTTGAAATGAGGCTTGAAATG
* * * *
17339214 GATCGATTTACCCCAAAAAAAA-AA-GATCTTTTTGAAAAGCTTCAGCTGATTTATAATCATGAC
196 GATCGATTT--GCTAAAAAAAACAAGGAACTTTTTGAAAAGCTTCAGCTGATTTACAATCATGAC
* * * ** * * * *
17339277 TTTCTACTTACAAGATTTTATGAA-CTTTACTTTCCGCTGATTTACTATCCCAAC--TACCATTT
259 CTTCTACTTACAAGATTTTACGAATC-TCACGGTCCACTGATTTACAATCACAACTGTAAC-TTT
* * * * * *
17339339 CTGAAGCTCGTTGAGTTATGAACACA-ACTTAAGTTTATTGATTTATGATCATTAACACTTCATT
322 -TAAAACTCGTTGATTTA-GAAC-CATACTTCAGTTCATTGATTTATGATCATGAACACTTCATT
*** * * * * **
17339403 AAGAGTTCAACGATTTACGATCGTGACTCCATTTAAACAGTTCAATTATTTACAATCACAA-TTG
384 AAGAGTTC-ACGATTTACGATCACAACTCCACTTAAACAATTCACTGATTTATGATCACAACTT-
* * * * **
17339467 TCATTTTTAAAGCTCGCTGAATTACAATCATGACTTCAATTGATTGATTTACGATCATGAACACG
447 TCATTTTTAAAGCTCGCTGATTTACAATCATGACTTCAGTTAATTGATTTACGATCATGAAAATT
** * *
17339532 ACTTGGTTCACAAGATATGTTTATTTGCTGAACTAGTTCCAAGCATTGCCAGAGATGATT
512 A-TTGGTTCACAAGA-ATGTAAATTTGCTGAACTAGTTCCAAGCATAGCCAGAGACGATT
* * ** * ** * * *
17339592 TTCAACTAGCTAATTCTAACCTCT-TTACTGACCAGAACAAGCTAGATGCTAGAA-ATGATAAAT
1 TTCAACTAGCTAATTTTGACCTCTCTGCCTCATTAGAGCAAGTTAGATGCTA-AAGATGATGAAT
* *
17339655 ATATG-CGTGTTGAGGAAGAACTCAAAACTAACCTTAAAAGAAAGAGGATAGAGGAATCAATTTT
65 ATA-GACGTGTTGAGGAAGAACTCAAAACTAACCTTGAAAGAAGGAGGATAGAGGAATCAATTTT
* * * * ** **
17339719 GTTACATTGTCTCTATGAGGCTGAAGCTACTTCTCTTCACTATACATTTGAAATGAGGCTACAAA
129 GTTACATTGTCTTTGTGAGGCTGAAGCTACTTCTCTTAACTACATGTTTGAAATGAGGCTTGAAA
* * * * * * *
17339784 TGGAACGATTTACTTAAAAACATAAGGAACTTTTTAAAAAGCTTTAGCT--TTTA-ATGAT-ATT
194 TGGATCGATTTGCTAAAAAAAACAAGGAACTTTTTGAAAAGCTTCAGCTGATTTACA--ATCA-T
* * * ** * * * * *
17339845 GAACTGCTACTTACACGATTTTTTGAATATCACGATCCACTGATTTACGATCACAACTGTTATTT
256 GACCTTCTACTTACAAGATTTTACGAATCTCACGGTCCACTGATTTACAATCACAACTGTAACTT
* * * * *
17339910 TTAAAGCACGCTGATTTAGGATCACA-ACTTCAGTTCATTAATTTATGATCATGAACACTTCATT
321 TTAAAACTCGTTGATTTA-GAAC-CATACTTCAGTTCATTGATTTATGATCATGAACACTTCATT
* * * * *
17339974 AAGAGTTCACAAGTTTAGGATCACAACTCCACTTAAATAGTTCACTGATTTATGATCACAAGTGT
384 AAGAGTTCACGA-TTTACGATCACAACTCCACTTAAACAATTCACTGATTTATGATCACAACT-T
* * * * * * * *
17340039 T-AGTTTTAAAGCTCGTTGTTTTACAATCATGGCTTCAGATAATTGATTTAAGACCATGAATAGT
447 TCATTTTTAAAGCTCGCTGATTTACAATCATGACTTCAGTTAATTGATTTACGATCATGAA-AAT
* * * * * * * * * *
17340103 TCTTTGTCCAGAAGTAATGTTAATTTCCTAAATTAGTTCTAAGCATAGCCAAAGATC-ATT
511 TATTGGTTCACAAG-AATGTAAATTTGCTGAACTAGTTCCAAGCATAGCCAGAGA-CGATT
* * * * *
17340163 TTCAAATAGTTAATTTTGACCTATCTGCACT--TTGGAGCAAGTTAGATG-TCACAGATGATGAA
1 TTCAACTAGCTAATTTTGACCTCTCTGC-CTCATTAGAGCAAGTTAGATGCT-AAAGATGATGAA
* * * * * * *
17340225 TATATATGTGTTGAGAAAGAGCTCAAAACTAATCTTGAAAGAAGAAGGATAGAGGGATCAATTTT
64 TATAGACGTGTTGAGGAAGAACTCAAAACTAACCTTGAAAGAAGGAGGATAGAGGAATCAATTTT
* * *
17340290 GTTACATTGTCTTTGTGAGGCTAAAGCTACTTCTCTTAACTGCACGTTTGAAATGAGGCTTGAAA
129 GTTACATTGTCTTTGTGAGGCTGAAGCTACTTCTCTTAACTACATGTTTGAAATGAGGCTTGAAA
* * * * *
17340355 TGGATTGATTTGC-CAAAAAAACAAGGAACTTTCTGAAAAG-TGTCAGCTAATTTACGATCATGA
194 TGGATCGATTTGCTAAAAAAAACAAGGAACTTTTTGAAAAGCT-TCAGCTGATTTACAATCATGA
* ***
17340418 CCTTCTACTTACAAGATTTTACGAATCTCACGGTCCACTGATTTACAATCACAACTATCTTTTTT
258 CCTTCTACTTACAAGATTTTACGAATCTCACGGTCCACTGATTTACAATCACAACTGTAACTTTT
* *
17340483 AAAACTCGTTGATTTATG-ATCATAGCTTCAGTTCATTGATTTAGGATCATGAACACTTCATTAA
323 AAAACTCGTTGATTTA-GAACCATA-CTTCAGTTCATTGATTTATGATCATGAACACTTCATTAA
* * ***
17340547 GAGTTCATCGATTTACGATCACAACTCCACTTAAACAATTCGCTGGTTTATGATTGGAACTTTCA
386 GAGTTCA-CGATTTACGATCACAACTCCACTTAAACAATTCACTGATTTATGATCACAACTTTCA
* *
17340612 TTTTTAAAGCTCGTTGATTTATAATCACT-ACTTCAGTTAATTGATTTACGATCATGAAAATTTA
450 TTTTTAAAGCTCGCTGATTTACAATCA-TGACTTCAGTTAATTGATTTACGATCATGAAAA-TTA
* * * *
17340676 TTGGTTCACAAGCAATGTAAATTTGCTGAACTAATTCCAAGCATGGCTAGAGACGACT
513 TTGGTTCACAAG-AATGTAAATTTGCTGAACTAGTTCCAAGCATAGCCAGAGACGATT
** * * *
17340734 TTCAACTAGCTAATTTTTCCCTCTCTGCCT-TTTAGAGCGAGTTAGATGCTAAAGATGATGAATT
1 TTCAACTAGCTAATTTTGACCTCTCTGCCTCATTAGAGCAAGTTAGATGCTAAAGATGATGAATA
* * * * * *
17340798 TAGACGTGTTAAGGAAGAACTTAAAATTGACCTTTAAAGAAGGAGGATAGAGGAATCAATTTTGA
66 TAGACGTGTTGAGGAAGAACTCAAAACTAACCTTGAAAGAAGGAGGATAGAGGAATCAATTTTGT
* * *
17340863 TACATTGCCTTTGTAAGGCTGAAGCTACTTCTCTTAACTACATGTTCGAAATGAGGCTTGAAATG
131 TACATTGTCTTTGTGAGGCTGAAGCTACTTCTCTTAACTACATGTTTGAAATGAGGCTTGAAATG
* * * ** *
17340928 GACCGATCTGCTAAAAAAAACAAGGAACTTTTTGAAAAGCTTAAATTGATTTACAATCACGACCT
196 GATCGATTTGCTAAAAAAAACAAGGAACTTTTTGAAAAGCTTCAGCTGATTTACAATCATGACCT
* * * * * *
17340993 TTTACTTACAGGATTTTACGAATCTCATGGTCCGCTAATTTACAATCACAACTGTAACTTTTCAA
261 TCTACTTACAAGATTTTACGAATCTCACGGTCCACTGATTTACAATCACAACTGTAACTTTTAAA
* * * * *
17341058 ACTCGTTGCTTTACAACCATATCTTCAGTTCATTGATTTACGATCATGAACCCTTAATTAAGAGT
326 ACTCGTTGATTTAGAACCATA-CTTCAGTTCATTGATTTATGATCATGAACACTTCATTAAGAGT
* * * *
17341123 TCACCGATTTACAATCACTACTTCACTTAAACAATTC-CTTGATTTATGATCACAACTGTCATTT
390 TCA-CGATTTACGATCACAACTCCACTTAAACAATTCAC-TGATTTATGATCACAACTTTCATTT
* * * * * *
17341187 TTAAAGCCCGCTGATTTAAAATGACGACTTCAGTTAATTGATTTACCATTC-TGAAAACTTCTTG
453 TTAAAGCTCGCTGATTTACAATCATGACTTCAGTTAATTGATTTACGA-TCATGAAAA-TTATTG
* * * *
17341251 TTTCAAAAGGAATGTAAATTTGCAGATCTAGTTC
516 GTTCACAA-GAATGTAAATTTGCTGAACTAGTTC
17341285 TTACCGTGGC
Statistics
Matches: 1376, Mismatches: 274, Indels: 86
0.79 0.16 0.05
Matches are distributed among these distances:
569 4 0.00
570 51 0.04
571 824 0.60
572 486 0.35
573 11 0.01
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (569 bp):
TTCAACTAGCTAATTTTGACCTCTCTGCCTCATTAGAGCAAGTTAGATGCTAAAGATGATGAATA
TAGACGTGTTGAGGAAGAACTCAAAACTAACCTTGAAAGAAGGAGGATAGAGGAATCAATTTTGT
TACATTGTCTTTGTGAGGCTGAAGCTACTTCTCTTAACTACATGTTTGAAATGAGGCTTGAAATG
GATCGATTTGCTAAAAAAAACAAGGAACTTTTTGAAAAGCTTCAGCTGATTTACAATCATGACCT
TCTACTTACAAGATTTTACGAATCTCACGGTCCACTGATTTACAATCACAACTGTAACTTTTAAA
ACTCGTTGATTTAGAACCATACTTCAGTTCATTGATTTATGATCATGAACACTTCATTAAGAGTT
CACGATTTACGATCACAACTCCACTTAAACAATTCACTGATTTATGATCACAACTTTCATTTTTA
AAGCTCGCTGATTTACAATCATGACTTCAGTTAATTGATTTACGATCATGAAAATTATTGGTTCA
CAAGAATGTAAATTTGCTGAACTAGTTCCAAGCATAGCCAGAGACGATT
Found at i:17345841 original size:134 final size:135
Alignment explanation
Indices: 17345542--17345848 Score: 304
Period size: 134 Copynumber: 2.3 Consensus size: 135
17345532 TGATTACAAT
* * * * * *
17345542 TATGAGTTC-AGTTCATTGATTTATGATCATGAACACTTCATTAGGAGTTTATCGATTTATGATC
1 TATGACTTCTAGTTCATTGATTTATGATCATGAACACTTTATTAAGAGTGTACCAATTTATGATC
* * ** *
17345606 GCAACTCCACATGAATAGTTCACTAAATTACGATCACAACTGTCATTTTTAATGCTCGCTGGTTT
66 GCAACTCCACATGAACAGTTCACTAAATTACGATCACAACTATCATTTTTAAAACTCGCTGATTT
*
17345671 ATAAC
131 AGAAC
* * * ** * * *
17345676 TATGACTTCTA-CTCATTAATATACAAGCATGAAAACTTTATTAAGAGTGTGCCAATTTAAT-AT
1 TATGACTTCTAGTTCATTGATTTATGATCATGAACACTTTATTAAGAGTGTACCAATTT-ATGAT
* * * *
17345739 CGCAACTCCAC-TTAAGCAGTT-AGCTGATTTACGATCACAACTATCATTTTTAAAACTCGTTGA
65 CGCAACTCCACATGAA-CAGTTCA-CTAAATTACGATCACAACTATCATTTTTAAAACTCGCTGA
17345802 TTTAGAA-
128 TTTAGAAC
*
17345809 TCATGGCTT-TAGTTCATTGATTTATGATCATGAACACTTT
1 T-ATGACTTCTAGTTCATTGATTTATGATCATGAACACTTT
17345849 TTGGTTCACA
Statistics
Matches: 135, Mismatches: 32, Indels: 12
0.75 0.18 0.07
Matches are distributed among these distances:
133 7 0.05
134 125 0.93
135 3 0.02
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.37
Consensus pattern (135 bp):
TATGACTTCTAGTTCATTGATTTATGATCATGAACACTTTATTAAGAGTGTACCAATTTATGATC
GCAACTCCACATGAACAGTTCACTAAATTACGATCACAACTATCATTTTTAAAACTCGCTGATTT
AGAAC
Found at i:17348288 original size:29 final size:29
Alignment explanation
Indices: 17348248--17348313 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 29
17348238 TGATGAATGG
17348248 AAAGGGATAGCTGTGGCTATCG-TATACGA
1 AAAGGGATAGCTGTGGCTATCGAT-TACGA
* * *
17348277 AAAGGGATAGCTTTGGCTATTGATTATGA
1 AAAGGGATAGCTGTGGCTATCGATTACGA
17348306 AAAGGGAT
1 AAAGGGAT
17348314 GGTGACGACC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 32 0.97
30 1 0.03
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.27
Consensus pattern (29 bp):
AAAGGGATAGCTGTGGCTATCGATTACGA
Found at i:17348334 original size:29 final size:30
Alignment explanation
Indices: 17348302--17348374 Score: 103
Period size: 29 Copynumber: 2.5 Consensus size: 30
17348292 GCTATTGATT
*
17348302 ATGAAAAGGGATGGTGACGACCA-TCAGCA
1 ATGAAAAGGGATGGTGACGACCATTCAACA
* * *
17348331 ATGAAAAGGGATGGTGATGACCATTGAACT
1 ATGAAAAGGGATGGTGACGACCATTCAACA
17348361 ATGAAAAGGGATGG
1 ATGAAAAGGGATGG
17348375 CTTCGACTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 22 0.56
30 17 0.44
ACGTcount: A:0.38, C:0.11, G:0.33, T:0.18
Consensus pattern (30 bp):
ATGAAAAGGGATGGTGACGACCATTCAACA
Found at i:17348367 original size:30 final size:30
Alignment explanation
Indices: 17348301--17348402 Score: 111
Period size: 30 Copynumber: 3.4 Consensus size: 30
17348291 GGCTATTGAT
* * *
17348301 TATGAAAAGGGATGGTGACGACCA-TCAGC
1 TATGAAAAGGGATGGTGATGACCATTGAAC
*
17348330 AATGAAAAGGGATGGTGATGACCATTGAAC
1 TATGAAAAGGGATGGTGATGACCATTGAAC
* *
17348360 TATGAAAAGGGATGGCT--TCGACTATTGATC
1 TATGAAAAGGGATGG-TGAT-GACCATTGAAC
17348390 TATGAAAAGGGAT
1 TATGAAAAGGGAT
17348403 AGCTTCAGCT
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
29 23 0.37
30 39 0.62
31 1 0.02
ACGTcount: A:0.36, C:0.12, G:0.29, T:0.23
Consensus pattern (30 bp):
TATGAAAAGGGATGGTGATGACCATTGAAC
Found at i:17348408 original size:30 final size:29
Alignment explanation
Indices: 17348275--17348408 Score: 94
Period size: 30 Copynumber: 4.5 Consensus size: 29
17348265 TATCGTATAC
* * *
17348275 GAAAAGGGATAGCTTTGGCTATTGAT-TAT
1 GAAAAGGGAT-GCTTCGACCATTGATCTAT
* * * * *
17348304 GAAAAGGGATGGTGACGACCA-TCAGCAAT
1 GAAAAGGGATGCT-TCGACCATTGATCTAT
* *
17348333 GAAAAGGGATGGTGAT-GACCATTGAACTAT
1 GAAAAGGGATGCT--TCGACCATTGATCTAT
*
17348363 GAAAAGGGATGGCTTCGACTATTGATCTAT
1 GAAAAGGGAT-GCTTCGACCATTGATCTAT
17348393 GAAAAGGGATAGCTTC
1 GAAAAGGGAT-GCTTC
17348409 AGCTATCAAT
Statistics
Matches: 82, Mismatches: 17, Indels: 11
0.75 0.15 0.10
Matches are distributed among these distances:
28 4 0.05
29 34 0.41
30 42 0.51
31 2 0.02
ACGTcount: A:0.34, C:0.12, G:0.29, T:0.25
Consensus pattern (29 bp):
GAAAAGGGATGCTTCGACCATTGATCTAT
Found at i:17348424 original size:30 final size:30
Alignment explanation
Indices: 17348359--17348432 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 30
17348349 GACCATTGAA
* **
17348359 CTATGAAAAGGGATGGCTTCGACTATTGAT
1 CTATGAAAAGGGATAGCTTCGACTATCAAT
17348389 CTATGAAAAGGGATAGCTTC-AGCTATCAAT
1 CTATGAAAAGGGATAGCTTCGA-CTATCAAT
* *
17348419 TTATGAAAAAGGAT
1 CTATGAAAAGGGAT
17348433 GGTGACAACC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
29 1 0.03
30 37 0.97
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.28
Consensus pattern (30 bp):
CTATGAAAAGGGATAGCTTCGACTATCAAT
Found at i:17348447 original size:30 final size:30
Alignment explanation
Indices: 17348413--17348490 Score: 84
Period size: 30 Copynumber: 2.6 Consensus size: 30
17348403 AGCTTCAGCT
*
17348413 ATCAATTTATGAAAAAGGATGGTGACAACC
1 ATCAAATTATGAAAAAGGATGGTGACAACC
** * **
17348443 ATCAAACAATGAAAAGGGATGGTGATGACC
1 ATCAAATTATGAAAAAGGATGGTGACAACC
* *
17348473 CTCAAATTATAAAAAAGG
1 ATCAAATTATGAAAAAGG
17348491 TTAGCTTCGA
Statistics
Matches: 37, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.46, C:0.13, G:0.21, T:0.21
Consensus pattern (30 bp):
ATCAAATTATGAAAAAGGATGGTGACAACC
Found at i:17348468 original size:120 final size:118
Alignment explanation
Indices: 17348275--17348528 Score: 328
Period size: 120 Copynumber: 2.1 Consensus size: 118
17348265 TATCGTATAC
** ** * * *
17348275 GAAAAGGGATAGCTTTGGCTATTGATTATGAAAAGGGATGGTGACGACCATCAGCAATGAAAAGG
1 GAAAAGGGATAGCTTCAGCTATCAATTATGAAAAAGGATGGTGACAACCATCAACAATGAAAAGG
** * * * *
17348340 GATGGTGATGACCATTGAACTATGAAAAGGGATGGCTTCGACTATTGATCTAT
66 GATGGTGATGACCATCAAACTATAAAAAAGGATAGCTTCGACTATTGAACTAT
17348393 GAAAAGGGATAGCTTCAGCTATCAATTTATGAAAAAGGATGGTGACAACCATCAAACAATGAAAA
1 GAAAAGGGATAGCTTCAGCTATCAA-TTATGAAAAAGGATGGTGACAACCATC-AACAATGAAAA
* * * *
17348458 GGGATGGTGATGACCCTCAAATTATAAAAAAGGTTAGCTTCGACTGTTGAACTAT
64 GGGATGGTGATGACCATCAAACTATAAAAAAGGATAGCTTCGACTATTGAACTAT
*
17348513 GAAAAGGGATAACTTC
1 GAAAAGGGATAGCTTC
17348529 GATTATCGAA
Statistics
Matches: 116, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
118 21 0.18
119 25 0.22
120 70 0.60
ACGTcount: A:0.37, C:0.13, G:0.25, T:0.24
Consensus pattern (118 bp):
GAAAAGGGATAGCTTCAGCTATCAATTATGAAAAAGGATGGTGACAACCATCAACAATGAAAAGG
GATGGTGATGACCATCAAACTATAAAAAAGGATAGCTTCGACTATTGAACTAT
Found at i:17349545 original size:12 final size:12
Alignment explanation
Indices: 17349528--17349557 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
17349518 TCAGGCTGTT
17349528 ACACGGCCTAGC
1 ACACGGCCTAGC
*
17349540 ACACGGCCTGGC
1 ACACGGCCTAGC
17349552 ACACGG
1 ACACGG
17349558 GCGTGTGGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.40, G:0.30, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:17357869 original size:27 final size:26
Alignment explanation
Indices: 17357835--17357885 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
17357825 AACTTCACTT
** *
17357835 AATTAGTTTGTTGATTTACTATCACA
1 AATTAGTTCATTGATTTACGATCACA
17357861 AATTCAGTTCATTGATTTACGATCA
1 AATT-AGTTCATTGATTTACGATCA
17357886 TGAACACTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 4 0.19
27 17 0.81
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.43
Consensus pattern (26 bp):
AATTAGTTCATTGATTTACGATCACA
Found at i:17363621 original size:134 final size:134
Alignment explanation
Indices: 17363367--17363669 Score: 326
Period size: 134 Copynumber: 2.3 Consensus size: 134
17363357 TACTCAAAAA
* * * ** *
17363367 AAAGCTCATTGATTTACGATCACGGCTTCAATTCATTGATTTACAATAATGAACACTTCATTAAG
1 AAAGCTCACTGATTTACAAACACAACTTCAGTTCATTGATTTACAATAATGAACACTTCATTAAG
* * * *
17363432 AATTCACCTATTTACGATCGTAACTCCACTTAAACTATTCGTTGAATTACGATCACAACTGTCAT
66 AATTCACCAATTTACGATCGCAACTCCACTTAAACTATTCGCTGAATTACAATCACAACTGTCAT
17363497 TTTT
131 TTTT
* * * * *
17363501 AAAGCTCA-TTAGTTTACAAACACAACTTCAGTTTATTGATTTACGATCATGAACACTTTATTAA
1 AAAGCTCACTGA-TTTACAAACACAACTTCAGTTCATTGATTTACAATAATGAACACTTCATTAA
* ** * *
17363565 -AAGTTCGCCAATTTATTATCGCAACTCCACTTAAGC-AGTTCGCTG-ATATACAATCACAATTG
65 GAA-TTCACCAATTTACGATCGCAACTCCACTTAAACTA-TTCGCTGAAT-TACAATCACAACTG
*
17363627 TCTTTTTT
127 TCATTTTT
* * *
17363635 AAAGTTTACTGATTTACAATCACAACTTCAGTTCA
1 AAAGCTCACTGATTTACAAACACAACTTCAGTTCA
17363670 CAAGGATTGT
Statistics
Matches: 139, Mismatches: 25, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
133 7 0.05
134 130 0.94
135 2 0.01
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.36
Consensus pattern (134 bp):
AAAGCTCACTGATTTACAAACACAACTTCAGTTCATTGATTTACAATAATGAACACTTCATTAAG
AATTCACCAATTTACGATCGCAACTCCACTTAAACTATTCGCTGAATTACAATCACAACTGTCAT
TTTT
Found at i:17366062 original size:570 final size:571
Alignment explanation
Indices: 17364843--17368232 Score: 2144
Period size: 570 Copynumber: 6.1 Consensus size: 571
17364833 ATGTTCACAA
* * * * * *
17364843 CTTCAATTTATTGATTTACAATCATGAACACTTATTGATTCACAAGGAATGTAAATTTG-TTGAA
1 CTTCAGTTCATTGATTTACGATCATGAACACTTCTTGGTTCACAAGAAATGTAAA-TTGCTTGAA
* * * * * *
17364907 CTAGTTCCAAGCATGGCCAAAGATAATTTTCAACTAGCTAATTCTGACCTCTCTGCCTTTTAGAG
65 CTAGTTCCAAGCATGGCCAGAGATGATTTTCAACTAACTAATTCTGAACTCTCTACCTTTCAGAG
* * * * *
17364972 CAAGTTAGATGCTAGAGATGATGAATATAAGCGTGTTGAAGAAGAGCTCAAAATTCACCTTGAAA
130 CAAGTTAGATGCTAGAGATGATGAATATAGGCATGTTGAGGAAGAACTCAAAATTGACCTTGAAA
* * *
17365037 G--GAGGA-AAGAGTAATCAATTTTGTTATATTGTCTTTGTGAGGCTGAAGCTACTTCT-TTTAA
195 GAAGAAGATAA-AGGAATCAATTTTGTTACATTGTCTTTGTGAGGCTGAAGCTACTTCTCTTT-A
* * * *
17365098 CCGTACGTCT-AAAATGAGGCTTGAAATGGATCAATCTGTTAAAAAAA-AA-GAACCTACTTAAA
258 CCGTACGTCTGAAAATGAGGCTTGAAATGGATCGATCTGCTAAAAAAATAAGGAACTTTCTTAAA
* * * * ** * * *
17365160 AGCTTTAACTTATTGATGATCACAATCTTCTACTCACAAGATTTTATGAATCTCACGGTCTGCTG
323 AGCTTTAGCTGATTTACGATCATGACCTTCTACTTACAAGATTTTACGAATCTCACGGTCTGCTG
* * * * * *
17365225 ATTTACGATCAAAACTATC-TTTTATAAAGCTC-CTTGATTTATGATCACGACTTCAGTTAATTG
388 ATTTACGATTACAACTGTCATTTT-TAAAGCTCAC-TGATTTAT-ATCACGGCTTCAATTCATTG
* ** *
17365288 ATTTACGATCATGAACACTTCATTAAGAGATT-GCCCATTTATGATCGCAACTCCACTTAAACAA
450 ATTTACGATCATGAACACTTCATTAAGAG-TTCGCCGATTTACAATCGCAACTCCACTTAAACAG
* * *
17365352 TTCA-CTGAATTATGATCATAACTGTCATTTTTAAAGCTCAT-TGATTTACAATCACGG
514 TTCAGCTGATTTACGATCACAACTGTCATTTTTAAAGCTC-TCTGATTTACAATCACGG
* * **
17365409 CTTCAGTTAATTGATTTACGATCATGAACACTAT-TTGGTTCACATGAAATGTAAATTTTTTGAA
1 CTTCAGTTCATTGATTTACGATCATGAACACT-TCTTGGTTCACAAGAAATGTAAATTGCTTGAA
* * * * * * *
17365473 CTACTTCCAAGCGTGGCTAGAGATTATTTTCAACTAACTAATTCTGAACTTTTTACCTTTAAGAG
65 CTAGTTCCAAGCATGGCCAGAGATGATTTTCAACTAACTAATTCTGAACTCTCTACCTTTCAGAG
* * * * *
17365538 CAAGTTAGATGCTAGAGATAATTAATATAGGCGTATTGAGGAAGAACTTAAAATTGACCTTGAAA
130 CAAGTTAGATGCTAGAGATGATGAATATAGGCATGTTGAGGAAGAACTCAAAATTGACCTTGAAA
* * *
17365603 GAATGAAGATAAAGGAATAAATTTTGTTACATTGTCTTCGTGAGCCTGAAGCTACTTCTCTTTAC
195 GAA-GAAGATAAAGGAATCAATTTTGTTACATTGTCTTTGTGAGGCTGAAGCTACTTCTCTTTAC
* *
17365668 CGTACGTCT-AAATTGAGGCTTGAAATGGATCGATAC-GCTAAAAAAATAAGGAACTTTCCTAAA
259 CGTACGTCTGAAAATGAGGCTTGAAATGGATCGAT-CTGCTAAAAAAATAAGGAACTTTCTTAAA
* * * *
17365731 AG-TATTAGCTGATTTACGTTCATGACCTTTTACTTATAGGATTTTACGAATCTCACGGTCTGCT
323 AGCT-TTAGCTGATTTACGATCATGACCTTCTACTTACAAGATTTTACGAATCTCACGGTCTGCT
* * * **
17365795 GCTTTACGATTACAGCTGTCACTTTTAAATTTCACTGATTTATGATCACGGCTTCAATTCATTGA
387 GATTTACGATTACAACTGTCATTTTTAAAGCTCACTGATTTAT-ATCACGGCTTCAATTCATTGA
* * ** * * **
17365860 GTTACGATCATGAACACTTCATTAAGAGTTTGTTGATTTATAATCGCAACTCCACCTAAGTAGTT
451 TTTACGATCATGAACACTTCATTAAGAGTTCGCCGATTTACAATCGCAACTCCACTTAAACAGTT
* * * * *
17365925 -AGCCGA-TTACGATCACAATTGTCATTTTTAAAGCTCTTTCACTTACAATCACGG
516 CAGCTGATTTACGATCACAACTGTCATTTTTAAAGCTCTCTGATTTACAATCACGG
* *
17365979 CTTTAGTTCATTGATTTACGATCATGAACACTTCTTGGTTCACAAGAAATGTAAATAGCTTGAAC
1 CTTCAGTTCATTGATTTACGATCATGAACACTTCTTGGTTCACAAGAAATGTAAATTGCTTGAAC
* * * * * * *
17366044 TAGTTCTAAGCATGGCTAGAAATGAATTTGAACTAGA-TAATTTTG-ACATCTCTACCTTTCATA
66 TAGTTCCAAGCATGGCCAGAGATGATTTTCAACTA-ACTAATTCTGAAC-TCTCTACCTTTCAGA
** * * * * *
17366107 GCAAGTTAGATTTTAGAGATGATAAATTTAGGAATGTTGAGGAAGAACCCGAAATTGACC-TGAA
129 GCAAGTTAGATGCTAGAGATGATGAATATAGGCATGTTGAGGAAGAACTCAAAATTGACCTTGAA
* * * * ** * **
17366171 CAGAAGGAGGA-AAAGGAACCAATTTTGTTACATTGCCTTGGTGAGGCTGAAATTAATTCTCTAA
194 -AGAA-GAAGATAAAGGAATCAATTTTGTTACATTGTCTTTGTGAGGCTGAAGCTACTTCTCTTT
* * * * * * * * * *
17366235 ACTGTACGTTTG-AAATAAGGATTCAAATGGTTCGATCTACTCAAAGAAATAAAGAATTTTCTTA
257 ACCGTACGTCTGAAAATGAGGCTTGAAATGGATCGATCTGCT-AAAAAAATAAGGAACTTTCTTA
* * * ** * ** *
17366299 AAAGCTTTAGCTAATTTACGATCACGACCTTTTACTCCCAGGATTTTATAAATCTCACGGTTTGC
321 AAAGCTTTAGCTGATTTACGATCATGACCTTCTACTTACAAGATTTTACGAATCTCACGGTCTGC
* * * * * ** * * * *
17366364 TGATCTACGATCAAAATTGTCATTTTAAAAGCTTTCTGATTTACGATCATGAACACTTCCTTAAG
386 TGATTTACGATTACAACTGTCATTTTTAAAGCTCACTGATTTA-TATCACG---GCTT-C--AAT
** * * * * * * * * * * * *
17366429 GGATCGCCCATTTATGTTCA-CAA-A-TCCACTTAAACAGTTCACTGATTT-CTGACCACAATTG
444 TCATTG---ATTTACGATCATGAACACTTCA-TT-AAGAGTTCGCCGATTTAC-AATCGCAACT-
** * * * *** * *
17366490 TAATTTTTAAA-GGTT--GCTGATTTACAATCATGGCT-TCA--GTT-AA----T-TGGTTTACA
502 CCA--CTTAAACAGTTCAGCTGATTTACGATCACAACTGTCATTTTTAAAGCTCTCTGATTTACA
* *
17366543 ATTA-TG
565 ATCACGG
** * * * * * * * * * **
17366549 -AACACTTC-TTG-GTT-C-A-CAAGGA-A-TGTATAT--TT-GC-TG-AA-CT-AGTT-C-CAA
1 CTTCAGTTCATTGATTTACGATCATGAACACT-TCT-TGGTTCACAAGAAATGTAAATTGCTTGA
* * * ** * * * *
17366597 AC--GTGGCCAA--A--G--A-TGAT-TTTCAACTA--GA-TAATTCTG-ACATATCTGCTCTTT
64 ACTAGT-TCCAAGCATGGCCAGAGATGATT-TTCAACTAACTAATTCTGAAC-TCTCTAC-CTTT
* * * * * * * *
17366648 -AAAGTAAGTTAGAAGCTAGAGATGATGAAAATAGGCATGTTGAGGAAGAACTAAAAACTCACGT
125 CAGAGCAAGTTAGATGCTAGAGATGATGAATATAGGCATGTTGAGGAAGAACTCAAAATTGACCT
*
17366712 TGAAAGAAGAAGAATAGAGGAATCAATTTTGTTACATTGTCTTTGTGAGGCTGAAGCTACTTCTC
190 TGAAAGAAGAAG-ATAAAGGAATCAATTTTGTTACATTGTCTTTGTGAGGCTGAAGCTACTTCTC
* * * * * * * *
17366777 TTCACCGTACATCTG-AAACGAGGCTTGTAATGGATCGATATGCT-TAAAAA-AAGGGACTTTTT
254 TTTACCGTACGTCTGAAAATGAGGCTTGAAATGGATCGATCTGCTAAAAAAATAAGGAACTTTCT
* * ** * * * * *
17366839 CTAAAAGCATCAATTGATTTACAATCATGACCATCTACTTACAGGATTTTACGAATCTAATGGTC
319 -TAAAAGCTTTAGCTGATTTACGATCATGACCTTCTACTTACAAGATTTTACGAATCTCACGGTC
* * * * * * * * *
17366904 CGTTGATTTATGATCACAATTGTCATTTTTAAAGCTCACTAATTTAATATTATGGCTTCAACTCA
383 TGCTGATTTACGATTACAACTGTCATTTTTAAAGCTCACTGATTT-ATATCACGGCTTCAATTCA
* * * * * *
17366969 TTGAGTTACAATCATGAACACTTTATTAAGAGTTCACCGATTTACAATCACAACTCCACTTAATC
447 TTGATTTACGATCATGAACACTTCATTAAGAGTTCGCCGATTTACAATCGCAACTCCACTTAAAC
* * * ** * * *
17367034 AGTT-AGCTTATTTATGATCATAACAATAAATTTTAAAGCT-TCCTGATTTACTATCACGG
512 AGTTCAGCTGATTTACGATCACAACTGTCATTTTTAAAGCTCT-CTGATTTACAATCACGG
* * * * * *
17367093 CTTCAATTCATTGATTAACGATCATGAACACTTCATGGTTCACAAGGAATATAAATTTAC-TGAA
1 CTTCAGTTCATTGATTTACGATCATGAACACTTCTTGGTTCACAAGAAATGTAAA-TTGCTTGAA
* * * * * ** * * * *
17367157 CTAGCTCCAAGCATGACCAGAAATGATTTCCAACGAGTTAATT-TTAACTTCTCTACCCTCCTGA
65 CTAGTTCCAAGCATGGCCAGAGATGATTTTCAACTAACTAATTCTGAAC-TCTCTACCTTTCAGA
* * * * * *
17367221 TCAAGTTATATGTTAGAGATGATAAATATAGGCATGTTGAGGAAAAACTTAAAATTGACCTTGAA
129 GCAAGTTAGATGCTAGAGATGATGAATATAGGCATGTTGAGGAAGAACTCAAAATTGACCTTGAA
* * * * *
17367286 AGAAGAAGGATAGAGGAATCAATTTTGTTACATTAT-TTTTTGAGGCTGGAGCTACTTCTCTTAA
194 AGAAGAA-GATAAAGGAATCAATTTTGTTACATTGTCTTTGTGAGGCTGAAGCTACTTCTCTTTA
* * *
17367350 CTGTACTTCT-AAAATGAGGCTTGAAATGGATTGATCTGCT-AAAAAAT--GGAACTTT-TTGAA
258 CCGTACGTCTGAAAATGAGGCTTGAAATGGATCGATCTGCTAAAAAAATAAGGAACTTTCTT-AA
* * ** ** *
17367410 AAGCTTT-GACTGATTTACGAT-A-GCAACCTTCTATTTACAAGATTTCATAAATCTCATTGTCC
322 AAGCTTTAG-CTGATTTACGATCATG--ACCTTCTACTTACAAGATTTTACGAATCTCACGGTCT
** * * ** * * * *
17367472 GCTTCTTTACGATTAGAACTGTCATTTTAAAAGCTTGCTTAATTAATATCACGGCCTCAGTTCAT
384 GCTGATTTACGATTACAACTGTCATTTTTAAAGCTCAC-TGATTTATATCACGGCTTCAATTCAT
* *** * * *
17367537 TGATTTACGATCATGAACACTTTATTAAGAGTTCATTGATTTACGATCGCAACTCTACGTAAACA
448 TGATTTACGATCATGAACACTTCATTAAGAGTTCGCCGATTTACAATCGCAACTCCACTTAAACA
*
17367602 GTTC-GTTGATTTACGATCACAACTGTCATTTTTAAA-------G-----C--TCA---
513 GTTCAGCTGATTTACGATCACAACTGTCATTTTTAAAGCTCTCTGATTTACAATCACGG
* * * **
17367643 ---C---T-A---ATTTACAATCATGAGCACTTCTTGGTTCTCAAGAAATGTAAATTTTTTGAAC
1 CTTCAGTTCATTGATTTACGATCATGAACACTTCTTGGTTCACAAGAAATGTAAATTGCTTGAAC
* * ** * * *
17367698 TAGTTCCAAGCATGGCTAGAGATGATTTTCAAATTGCTAATT-TTAACCTCTTTACCCTTCAGAG
66 TAGTTCCAAGCATGGCCAGAGATGATTTTCAACTAACTAATTCTGAA-CTCTCTACCTTTCAGAG
* * * * * *
17367762 AAAGTTAGATACTAGAGAT-ACTGAATATAGGCATGTTGAGAAACAACTCAAAATTTATCTTGAA
130 CAAGTTAGATGCTAGAGATGA-TGAATATAGGCATGTTGAGGAAGAACTCAAAATTGACCTTGAA
* * * * *
17367826 AGAAAAAGGATAGAGGAATCAATTTTGTTATATTGCCTTTGTGAGGCTGAAGCTACTTCACTTTA
194 AGAAGAA-GATAAAGGAATCAATTTTGTTACATTGTCTTTGTGAGGCTGAAGCTACTTCTCTTTA
* * * * * ** * *
17367891 CCGTACATCTGAAAAAG-GGTTTGAGAT-GATTCGATTTGCTAAAAAAACGAGGAACTTTATGAA
258 CCGTACGTCTGAAAATGAGGCTTGAAATGGA-TCGATCTGCTAAAAAAATAAGGAACTTTCTTAA
* * *
17367954 AAG-TGTCAGGTGATTTACGATCATGACCTTTTACTTACAAGATTTTACGAATCCTC-C-GT-T-
322 AAGCT-TTAGCTGATTTACGATCATGACCTTCTACTTACAAGATTTTACGAAT-CTCACGGTCTG
* * * *
17368014 -T-ATTTACAATTACAACTGTCATTTTTAAAGCTCGCTGATTTAAGATCACGGATTCAATTCATT
385 CTGATTTACGATTACAACTGTCATTTTTAAAGCTCACTGATTT-ATATCACGGCTTCAATTCATT
* * * * * * **
17368077 GATTTATGATCATGAAAACTTTATTAAGAGTTCGTCGATTTACAATCGAAACTCCACCTAAGGAG
449 GATTTACGATCATGAACACTTCATTAAGAGTTCGCCGATTTACAATCGCAACTCCACTTAAACAG
* * * ** * * * *
17368142 TTCA-CTGATTTAC-ATTCAGAACAGTCACTTTCCAAGCTCGCTAATTAACAATCACAG
514 TTCAGCTGATTTACGA-TCACAACTGTCATTTTTAAAGCTCTCTGATTTACAATCACGG
*
17368199 CTTCAGTTCATTGATTTACGATAATGAACACTTC
1 CTTCAGTTCATTGATTTACGATCATGAACACTTC
17368233 ATTAAGTGTT
Statistics
Matches: 2156, Mismatches: 515, Indels: 306
0.72 0.17 0.10
Matches are distributed among these distances:
532 4 0.00
533 3 0.00
534 22 0.01
535 25 0.01
536 4 0.00
537 9 0.00
538 7 0.00
539 131 0.06
540 179 0.08
541 50 0.02
542 19 0.01
543 110 0.05
544 119 0.06
545 93 0.04
546 5 0.00
547 5 0.00
548 2 0.00
549 1 0.00
550 6 0.00
551 3 0.00
552 4 0.00
553 9 0.00
554 4 0.00
555 6 0.00
556 2 0.00
557 3 0.00
558 3 0.00
559 7 0.00
560 6 0.00
561 2 0.00
562 5 0.00
563 4 0.00
564 5 0.00
565 4 0.00
566 186 0.09
567 180 0.08
568 18 0.01
569 240 0.11
570 421 0.20
571 175 0.08
572 5 0.00
573 3 0.00
574 1 0.00
576 10 0.00
577 5 0.00
578 20 0.01
579 16 0.01
580 12 0.01
581 3 0.00
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (571 bp):
CTTCAGTTCATTGATTTACGATCATGAACACTTCTTGGTTCACAAGAAATGTAAATTGCTTGAAC
TAGTTCCAAGCATGGCCAGAGATGATTTTCAACTAACTAATTCTGAACTCTCTACCTTTCAGAGC
AAGTTAGATGCTAGAGATGATGAATATAGGCATGTTGAGGAAGAACTCAAAATTGACCTTGAAAG
AAGAAGATAAAGGAATCAATTTTGTTACATTGTCTTTGTGAGGCTGAAGCTACTTCTCTTTACCG
TACGTCTGAAAATGAGGCTTGAAATGGATCGATCTGCTAAAAAAATAAGGAACTTTCTTAAAAGC
TTTAGCTGATTTACGATCATGACCTTCTACTTACAAGATTTTACGAATCTCACGGTCTGCTGATT
TACGATTACAACTGTCATTTTTAAAGCTCACTGATTTATATCACGGCTTCAATTCATTGATTTAC
GATCATGAACACTTCATTAAGAGTTCGCCGATTTACAATCGCAACTCCACTTAAACAGTTCAGCT
GATTTACGATCACAACTGTCATTTTTAAAGCTCTCTGATTTACAATCACGG
Found at i:17368764 original size:27 final size:27
Alignment explanation
Indices: 17368699--17368765 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 27
17368689 CACGGCCCCC
*
17368699 TGATTTACGATCACGACTTTAATTTAT
1 TGATTTACGATCACGACTTCAATTTAT
* * * * *
17368726 AGATGTATGATCACGACTTCAGTTTGT
1 TGATTTACGATCACGACTTCAATTTAT
*
17368753 TGATTTAGGATCA
1 TGATTTACGATCA
17368766 TAACTGTCAT
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.28, C:0.13, G:0.18, T:0.40
Consensus pattern (27 bp):
TGATTTACGATCACGACTTCAATTTAT
Found at i:17369503 original size:34 final size:36
Alignment explanation
Indices: 17369456--17369522 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 36
17369446 ACCAATCTTG
*
17369456 AACTCAACTTTAAG-AGTTCGCCAATTTATGATTGC
1 AACTCAACTTTAAGTAGTTCACCAATTTATGATTGC
* *
17369491 AACTCCAC-TTAAGTAGTTCACTAATTTATGAT
1 AACTCAACTTTAAGTAGTTCACCAATTTATGAT
17369523 CACAACTGTC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 5 0.18
35 23 0.82
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (36 bp):
AACTCAACTTTAAGTAGTTCACCAATTTATGATTGC
Found at i:17370258 original size:134 final size:134
Alignment explanation
Indices: 17370009--17370258 Score: 335
Period size: 134 Copynumber: 1.9 Consensus size: 134
17369999 GGTCCAGTTC
17370009 ATTGATTTACGATAATGAACACTTAGTTAAGAGTTTTCTGATTTACGATCGCAACTCCACTTAAA
1 ATTGATTTACGATAATGAACACTTAGTTAAGAGTTTTCTGATTTACGATCGCAACTCCACTTAAA
* * * *
17370074 CAGTTTGTTGATTTAAGATCACAACCGTCATTTTTAAAGCTCACTGATTTAGGATTACAACTTCC
66 CAGTTTGCTGATTTAAGATCACAACCATCATTTTTAAAGCCCACTAATTTAGGATTACAACTTCC
17370139 GCTT
131 GCTT
* * * * *
17370143 ATTGATTTAGGATCATGAACACTTCA-TTAAGAGTTTGTC-GATTTATGATCGCAACTCTATTTA
1 ATTGATTTACGATAATGAACACTT-AGTTAAGAGTTT-TCTGATTTACGATCGCAACTCCACTTA
** * *
17370206 AACTA-TTTGCTGATTTACTATCACAACTATCATTTTTAAAGCCCATTAATTTA
64 AAC-AGTTTGCTGATTTAAGATCACAACCATCATTTTTAAAGCCCACTAATTTA
17370259 CAGCCATGGC
Statistics
Matches: 100, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
134 96 0.96
135 4 0.04
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (134 bp):
ATTGATTTACGATAATGAACACTTAGTTAAGAGTTTTCTGATTTACGATCGCAACTCCACTTAAA
CAGTTTGCTGATTTAAGATCACAACCATCATTTTTAAAGCCCACTAATTTAGGATTACAACTTCC
GCTT
Found at i:17371098 original size:134 final size:133
Alignment explanation
Indices: 17370817--17371118 Score: 329
Period size: 134 Copynumber: 2.3 Consensus size: 133
17370807 ATAATTATGG
* * * *
17370817 CTTCAGTTCATTGATTTACGATCATGAACACTTCATTAAGAGTTTGACGATTTACAATTACAACT
1 CTTCAGTTCATTGATTTACGATCATGAACACTTCATTAAGAGATTCACGATTTACAATCACAAAT
** * * * * *
17370882 CTTCTTACACAGTTACCTGATTTACAATCACAATTGTTATTTTTAAAGCTCATTTATTTACTACC
66 CCACTTAAACAGTTACCTGATTTACAATCACAAATCTAATTTTTAAA-CTCATTTATTTACAACC
17370947 ACAA
130 ACAA
* * * * * * *
17370951 CTTTAATTAATTGAATTGCGATCAGGAACACTTCATTAAGA-ATTCATCGATTTACGATCACAAA
1 CTTCAGTTCATTGATTTACGATCATGAACACTTCATTAAGAGATTCA-CGATTTACAATCACAAA
* * * *
17371015 TCCACTTAAACTGTTAGCTGATTTACGATCACAAATCTAATTTTTAAA-TCTTTCTAATTTACAA
65 TCCACTTAAACAGTTACCTGATTTACAATCACAAATCTAATTTTTAAACTCATT-T-ATTTACAA
* *
17371079 TCACGA
128 CCACAA
*
17371085 CTTCAGTTCATTGATTTAAGATCATGAACACTTC
1 CTTCAGTTCATTGATTTACGATCATGAACACTTC
17371119 TTGGTTTACA
Statistics
Matches: 134, Mismatches: 31, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
132 4 0.03
133 4 0.03
134 126 0.94
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (133 bp):
CTTCAGTTCATTGATTTACGATCATGAACACTTCATTAAGAGATTCACGATTTACAATCACAAAT
CCACTTAAACAGTTACCTGATTTACAATCACAAATCTAATTTTTAAACTCATTTATTTACAACCA
CAA
Found at i:17371718 original size:134 final size:134
Alignment explanation
Indices: 17371468--17371822 Score: 428
Period size: 134 Copynumber: 2.6 Consensus size: 134
17371458 TCACGGTCTA
* * * * *
17371468 TTGATTTACGATCAAAACTGTCCTTTTTAAAGCTCTTTGATTTACGATCACATG-TTCAGTTCAT
1 TTGATTTACGATCACAACTGTCATTTTTAAAGCTCATTGATTTACAATCAC-GGCTTCAGTTCAT
* * ** *
17371532 TGATTTACA-ATCATGAACACTTCATTAAGAGTTTGTCGACTTACGATTGCAACTCCACTTAAAC
65 TGATTTA-AGATCATGAACACTTCATTAAGAGTTCGTCGAATTACGACCGCAACTACACTTAAAC
17371596 AGTTCG
129 AGTTCG
* * ** *
17371602 TTGATTTACGACCACAACTGTCATTTTTAAAGCTCGTTGATTTACAATCACGGCTTTTGTTCATC
1 TTGATTTACGATCACAACTGTCATTTTTAAAGCTCATTGATTTACAATCACGGCTTCAGTTCATT
* * *
17371667 GATTTAAGATCTTGAACACTTCATTAAGAGTTCGTC-AATTCATGACCGCAACTACACTTAAATA
66 GATTTAAGATCATGAACACTTCATTAAGAGTTCGTCGAATT-ACGACCGCAACTACACTTAAACA
17371731 GTTCG
130 GTTCG
* ** * * *
17371736 CTGATTTACGATCACAACTGTCATTTTTAAAAATCACTAATTTACAATCACGACTTCAGTTCATT
1 TTGATTTACGATCACAACTGTCATTTTTAAAGCTCATTGATTTACAATCACGGCTTCAGTTCATT
* *
17371801 AATTCAAGATCATGAACACTTC
66 GATTTAAGATCATGAACACTTC
17371823 TTGGTTCATA
Statistics
Matches: 187, Mismatches: 31, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
133 5 0.03
134 182 0.97
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (134 bp):
TTGATTTACGATCACAACTGTCATTTTTAAAGCTCATTGATTTACAATCACGGCTTCAGTTCATT
GATTTAAGATCATGAACACTTCATTAAGAGTTCGTCGAATTACGACCGCAACTACACTTAAACAG
TTCG
Found at i:17371778 original size:704 final size:702
Alignment explanation
Indices: 17370551--17371891 Score: 1665
Period size: 704 Copynumber: 1.9 Consensus size: 702
17370541 CGTCTAGAGG
* * *
17370551 AAGAACTCAAAACTAATCTTGAAAGAAGGAGGATAGAGGAATCATTTATATTACATTGTCTTTGT
1 AAGAACTCAAAACTAACCTTGAAAGAAGGAAGATAGAGGAATCATTTACATTACATTGTCTTTGT
* * * * *
17370616 AAGGCTTAAGCTGCTTCTATTCACCGTACGTCTAAAATGTGGCTTGAAATGGATCAATCTAATAA
66 AAGGCTGAAGCTACTTCCATTCACCGTACGTCTAAAATGAGGCTTCAAATGGATCAATCTAATAA
* *
17370681 AAAACAAGGAACTTTCTAAAAAGCTTCAGTGGACTTACAATCATAACCTTCTACTTACAGGATTT
131 AAAACAAGGAACTTTCTAAAAAGCTTCAGTGGACTTACAATCACAACCTTCTACTTACAAGATTT
* * * * * *
17370746 TATGAATCTTACGGTCCGCTGATTTACGATTAAAATTGTCATTTTTAAAGCTAGCTTATTTATAA
196 TACGAATCTCACGGTCCACTGATTTACGATCAAAACTGTCATTTTTAAAGCTA-CTTATTTACAA
* * *
17370811 TTATGGCTTCAGTTCATTGATTTACGATCATGAACACTTCATTAAGAGTTTGACGATTTACAATT
260 TCATGGCTTCAGTTCATTGATTTACAATCATGAACACTTCATTAAGAGTTTGACGACTTACAATT
** * * * * *
17370876 ACAACTCTTCTTACACAGTTACCTGATTTACAATCACAATTGTTATTTTTAAAGCTCATTTATTT
325 ACAACTCCACTTAAACAGTTACCTGATTTACAACCACAACTGTCATTTTTAAAGCTCATTGATTT
* * ** * *
17370941 ACTACCACAACTTTAATTAATTGAATTGCGATCAGGAACACTTCATTAAGAATTCATCGATTTAC
390 ACAACCACAACTTTAATTAATCGAATTAAGATCAGGAACACTTCATTAAGAATTCATCAATTCAC
* * ** **
17371006 GATCACAAATCCACTTAAACTGTTAGCTGATTTACGATCACAAATCTAATTTTTAAATCTTTCTA
455 GACCACAAATACACTTAAACTGTTAGCTGATTTACGATCACAAATCTAATTTTTAAAAATCACTA
* * *
17371071 ATTTACAATCACGACTTCAGTTCATTGATTTAAGATCATGAACACTTCTTGGTTTACAAGAATTG
520 ATTTACAATCACGACTTCAGTTCATTAATTCAAGATCATGAACACTTCTTGGTTCACAAGAA-TG
* *
17371136 TAAATTTTCTGAGCTAGCTCTAAGCATGGCCAGAGATGA-TTTCAACTAGCTAATTATGACCTCT
584 TAAATTTTCTGAACTAGCTCTAAGCATGGCCAAAGATGATTTTCAACTAGCTAATTATGACCTCT
17371200 CTAGCCTTCAAAGCAGGTTAGATGCTAGAGATTATGAATATAAGCGTGTTGAGA
649 CTAGCCTTCAAAGCAGGTTAGATGCTAGAGATTATGAATATAAGCGTGTTGAGA
* * *
17371254 AAGAACTCAAAACTGACCTTGAAAGAATGAAGATAGAGTG-ATCAATTT-CGTTACATTGTCTTT
1 AAGAACTCAAAACTAACCTTGAAAGAAGGAAGATAGAG-GAATC-ATTTACATTACATTGTCTTT
* * * * * * * **
17371317 GTGAGGCTGAAGCTACTTCCCTTCATCGTACGTTTGAAATGAGGCTTCAAATGGATCGATTTGCT
64 GTAAGGCTGAAGCTACTTCCATTCACCGTACGTCTAAAATGAGGCTTCAAATGGATCAATCTAAT
* * * * * * **
17371382 AAAAAAACAAGGAACTTTTTGAAAAGGTTCAGCT-GATTTACAATCACGACCTTTTACTTTGAAG
129 -AAAAAACAAGGAACTTTCTAAAAAGCTTCAG-TGGACTTACAATCACAACCTTCTACTTACAAG
* * *
17371446 ATTTTACGAATCTCACGGTCTATTGATTTACGATCAAAACTGTCCTTTTTAAAGCT-CTTTGATT
192 ATTTTACGAATCTCACGGTCCACTGATTTACGATCAAAACTGTCATTTTTAAAGCTAC-TT-ATT
* *
17371510 TACGATCACAT-G-TTCAGTTCATTGATTTACAATCATGAACACTTCATTAAGAGTTTGTCGACT
255 TACAAT--CATGGCTTCAGTTCATTGATTTACAATCATGAACACTTCATTAAGAGTTTGACGACT
* * * *
17371573 TACGATTGCAACTCCACTTAAACAGTT-CGTTGATTTACGACCACAACTGTCATTTTTAAAGCTC
318 TACAATTACAACTCCACTTAAACAGTTAC-CTGATTTACAACCACAACTGTCATTTTTAAAGCTC
* * ** ** * * ** * *
17371637 GTTGATTTACAATCACGGCTTTTGTTCATCGATTTAAGATCTTGAACACTTCATTAAGAGTTCGT
382 ATTGATTTACAACCACAACTTTAATTAATCGAATTAAGATCAGGAACACTTCATTAAGAATTCAT
* * * * * * *
17371702 CAATTCATGACCGCAACTACACTTAAA-TAGTTCGCTGATTTACGATCACAACTGTCATTTTTAA
447 CAATTCACGACCACAAATACACTTAAACT-GTTAGCTGATTTACGATCACAAATCTAATTTTTAA
17371766 AAATCACTAATTTACAATCACGACTTCAGTTCATTAATTCAAGATCATGAACACTTCTTGGTTCA
511 AAATCACTAATTTACAATCACGACTTCAGTTCATTAATTCAAGATCATGAACACTTCTTGGTTCA
* * *
17371831 TAGGAATGTAAATTTTCTGAACTAGTTCTAAGCATGGCCAAAGATGATTTTCAACTAGCTA
576 CAAGAATGTAAATTTTCTGAACTAGCTCTAAGCATGGCCAAAGATGATTTTCAACTAGCTA
17371892 TGTAACACCC
Statistics
Matches: 533, Mismatches: 94, Indels: 21
0.82 0.15 0.03
Matches are distributed among these distances:
702 1 0.00
703 143 0.27
704 385 0.72
705 2 0.00
706 2 0.00
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.35
Consensus pattern (702 bp):
AAGAACTCAAAACTAACCTTGAAAGAAGGAAGATAGAGGAATCATTTACATTACATTGTCTTTGT
AAGGCTGAAGCTACTTCCATTCACCGTACGTCTAAAATGAGGCTTCAAATGGATCAATCTAATAA
AAAACAAGGAACTTTCTAAAAAGCTTCAGTGGACTTACAATCACAACCTTCTACTTACAAGATTT
TACGAATCTCACGGTCCACTGATTTACGATCAAAACTGTCATTTTTAAAGCTACTTATTTACAAT
CATGGCTTCAGTTCATTGATTTACAATCATGAACACTTCATTAAGAGTTTGACGACTTACAATTA
CAACTCCACTTAAACAGTTACCTGATTTACAACCACAACTGTCATTTTTAAAGCTCATTGATTTA
CAACCACAACTTTAATTAATCGAATTAAGATCAGGAACACTTCATTAAGAATTCATCAATTCACG
ACCACAAATACACTTAAACTGTTAGCTGATTTACGATCACAAATCTAATTTTTAAAAATCACTAA
TTTACAATCACGACTTCAGTTCATTAATTCAAGATCATGAACACTTCTTGGTTCACAAGAATGTA
AATTTTCTGAACTAGCTCTAAGCATGGCCAAAGATGATTTTCAACTAGCTAATTATGACCTCTCT
AGCCTTCAAAGCAGGTTAGATGCTAGAGATTATGAATATAAGCGTGTTGAGA
Found at i:17374226 original size:19 final size:21
Alignment explanation
Indices: 17374194--17374232 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
17374184 TACATTATTT
*
17374194 TTTTAAATTATTATTAATATG
1 TTTTAAATTATTATCAATATG
17374215 TTTT-AATT-TTATCAATAT
1 TTTTAAATTATTATCAATAT
17374233 TACTTTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 4 0.24
21 4 0.24
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (21 bp):
TTTTAAATTATTATCAATATG
Found at i:17379709 original size:35 final size:36
Alignment explanation
Indices: 17379670--17379753 Score: 100
Period size: 36 Copynumber: 2.4 Consensus size: 36
17379660 AAGTCCTTCA
*
17379670 ATTTATGATCACAACT-CCA-TTTAAATAGTTCATTG
1 ATTTATGATCACAACTGCCATTTTAAA-AGCTCATTG
* * *
17379705 ATTTACGATCACAACTGTCATTTTTAAAGCTCATTG
1 ATTTATGATCACAACTGCCATTTTAAAAGCTCATTG
*
17379741 ATTTATAATCACA
1 ATTTATGATCACA
17379754 GTTTCTGTTC
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
35 15 0.37
36 21 0.51
37 5 0.12
ACGTcount: A:0.35, C:0.18, G:0.08, T:0.39
Consensus pattern (36 bp):
ATTTATGATCACAACTGCCATTTTAAAAGCTCATTG
Found at i:17379904 original size:133 final size:134
Alignment explanation
Indices: 17379589--17379921 Score: 361
Period size: 134 Copynumber: 2.5 Consensus size: 134
17379579 TCAAAACTGT
* * * * *
17379589 CATTTTTAAAGTTCTCTAATTTATGATCACGGCTTCAGTTTATTGATTTACA-ATCATGAACACT
1 CATTTTTAAAGCTCACTAATTTATAATCACGGCTTTAGTTTAATGATTTA-AGATCATGAACACT
** * * *
17379653 TCATTAAAAGTCCTTCAATTTATGATCACAACTCCATTTAAATAGTTCATTGATTTACGATCACA
65 TCATTAAAAGTCCACCAATTTATGATCACAACTACACTTAAATAGTTCACTGATTTACGATCACA
**
17379718 ACTGT
130 ACTAA
* * * * *
17379723 CATTTTTAAAGCTCATTGATTTATAATCACAG-TTT-CTGTTCATCGATTTAAGA-CATTGAACA
1 CATTTTTAAAGCTCACTAATTTATAATCACGGCTTTAGT-TTAAT-GATTTAAGATCA-TGAACA
* ** * * * *
17379785 CTTCATTAAGAGTTGACCAATTTATGATCGCAACTACACTT-AGTAGTTCACTGATTTATGATCC
63 CTTCATTAAAAGTCCACCAATTTATGATCACAACTACACTTAAATAGTTCACTGATTTACGATCA
17379849 CAACTAA
128 CAACTAA
* *
17379856 CATTTTTAAAGCTCACTAATTTACAATCATGGCTTTAGTTTAATGATTTAAGATCATGAACACTT
1 CATTTTTAAAGCTCACTAATTTATAATCACGGCTTTAGTTTAATGATTTAAGATCATGAACACTT
17379921 C
66 C
17379922 TTGGTTCATA
Statistics
Matches: 161, Mismatches: 31, Indels: 15
0.78 0.15 0.07
Matches are distributed among these distances:
132 1 0.01
133 78 0.48
134 81 0.50
135 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.38
Consensus pattern (134 bp):
CATTTTTAAAGCTCACTAATTTATAATCACGGCTTTAGTTTAATGATTTAAGATCATGAACACTT
CATTAAAAGTCCACCAATTTATGATCACAACTACACTTAAATAGTTCACTGATTTACGATCACAA
CTAA
Found at i:17380523 original size:134 final size:133
Alignment explanation
Indices: 17380293--17380568 Score: 356
Period size: 134 Copynumber: 2.1 Consensus size: 133
17380283 CGATAATGGT
* *
17380293 TTCAGTTCATTGATTTACGATCATGAACACTTCATTAAGAGTTCATCGATTTACGATCGCAACTC
1 TTCAGTTCATTGATTTACGATCATGAACACTTCATTAAGAATTCATCAATTTACGATCGCAACTC
* ** * ** *
17380358 TACTTAACCAGTTTGCTAATTTACGACCACAACTGTCACTTTTAAAACTCGTTGATTTACAATGA
66 CACTTAACCAGTTCACTAATTTACAACCACAACTGTCACTTTTAAAACTCACT-ATTTACAATCA
*
17380423 CGGC
130 CGAC
** *
17380427 TTCAGTTCATTGATTTACGATCATGAACACTTCATTAA-ATATTGGTCAATTTATGATCGCAACT
1 TTCAGTTCATTGATTTACGATCATGAACACTTCATTAAGA-ATTCATCAATTTACGATCGCAACT
* * * * *
17380491 CCACTTAAGCAGTTCACTGATTTACAATCACAACTGTCATTTTTAAAGCTCACTATTTACAATCA
65 CCACTTAACCAGTTCACTAATTTACAACCACAACTGTCACTTTTAAAACTCACTATTTACAATCA
*
17380556 CGAT
130 CGAC
17380560 TTCAGTTCA
1 TTCAGTTCA
17380569 CCGATTTATG
Statistics
Matches: 122, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
133 22 0.18
134 100 0.82
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.36
Consensus pattern (133 bp):
TTCAGTTCATTGATTTACGATCATGAACACTTCATTAAGAATTCATCAATTTACGATCGCAACTC
CACTTAACCAGTTCACTAATTTACAACCACAACTGTCACTTTTAAAACTCACTATTTACAATCAC
GAC
Found at i:17380587 original size:97 final size:98
Alignment explanation
Indices: 17380475--17380655 Score: 285
Period size: 97 Copynumber: 1.9 Consensus size: 98
17380465 ATATTGGTCA
*
17380475 ATTTATGATCGCAACTCCACTTAAGCAGTTCACT-GATTTACAATCACAACTGTCATTTTTAAAG
1 ATTTATGATCGCAACTCCACTTAAGCAGTTCA-TAGATCTACAATCACAACTGTCATTTTTAAAG
17380539 CTCACT-ATTTACAATCACGATTTCAGTTCACCG
65 CTCACTGATTTACAATCACGATTTCAGTTCACCG
* * * *
17380572 ATTTATGATCGCAACTCCATTTATGCAGTTTATAGATCTACGATCACAACTGTCATTTTTAAAGC
1 ATTTATGATCGCAACTCCACTTAAGCAGTTCATAGATCTACAATCACAACTGTCATTTTTAAAGC
*
17380637 TCATTGATTTACAATCACG
66 TCACTGATTTACAATCACG
17380656 GCTTTTGTTC
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
96 1 0.01
97 62 0.82
98 13 0.17
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.35
Consensus pattern (98 bp):
ATTTATGATCGCAACTCCACTTAAGCAGTTCATAGATCTACAATCACAACTGTCATTTTTAAAGC
TCACTGATTTACAATCACGATTTCAGTTCACCG
Found at i:17380782 original size:231 final size:231
Alignment explanation
Indices: 17380332--17380788 Score: 616
Period size: 231 Copynumber: 2.0 Consensus size: 231
17380322 CTTCATTAAG
* * * *
17380332 AGTTCATCGATTTACGATCGCAACTCTACTTAACCAGTTTGCTAATTTACGACCACAACTGTCAC
1 AGTTCACCGATTTACGATCGCAACTCCACTTAACCAGTTTGATAATCTACGACCACAACTGTCAC
* * * *
17380397 TTTTAAAACTCGTTGATTTACAATGACGGCTTCAGTTCATTGATTTACGATCATGAACACTTCAT
66 TTTTAAAACTCATTGATTTACAATCACGGCTTCAGTTCATCGATTTACGACCATGAACACTTCAT
* * *
17380462 TAAATATTGGTCAATTTATGATCGCAACTCCACTTAAGCAGTTCACTGATTTACAATCACAACTG
131 TAAATATTGGCCAATTTATGATCGCAACTACACTTAAGCAGTTCACTGATTTACAATCACAACTA
17380527 TCATTTTTAAAGCTCACTATTTACAATCACGATTTC
196 TCATTTTTAAAGCTCACTATTTACAATCACGATTTC
* * ** *
17380563 AGTTCACCGATTTATGATCGCAACTCCATTTATGCAGTTT-ATAGATCTACGATCACAACTGTCA
1 AGTTCACCGATTTACGATCGCAACTCCACTTAACCAGTTTGATA-ATCTACGACCACAACTGTCA
* * ** *
17380627 TTTTTAAAGCTCATTGATTTACAATCACGGCTTTTGTTCATCGATTT-CAGACCTTGAACACTTC
65 CTTTTAAAACTCATTGATTTACAATCACGGCTTCAGTTCATCGATTTAC-GACCATGAACACTTC
* * ** *
17380691 ATTAAGA-GTTGGCCAATTTATGATCGCAACTACACTTAA-TAGTTCACTGATTTATGATCCCAA
129 ATTAA-ATATTGGCCAATTTATGATCGCAACTACACTTAAGCAGTTCACTGATTTACAATCACAA
17380754 CTATCATTTTTAAAGCTCACTAATTTACAATCACG
193 CTATCATTTTTAAAGCTCACT-ATTTACAATCACG
17380789 GCTTTAGTTT
Statistics
Matches: 196, Mismatches: 26, Indels: 8
0.85 0.11 0.03
Matches are distributed among these distances:
230 43 0.22
231 152 0.78
232 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.35
Consensus pattern (231 bp):
AGTTCACCGATTTACGATCGCAACTCCACTTAACCAGTTTGATAATCTACGACCACAACTGTCAC
TTTTAAAACTCATTGATTTACAATCACGGCTTCAGTTCATCGATTTACGACCATGAACACTTCAT
TAAATATTGGCCAATTTATGATCGCAACTACACTTAAGCAGTTCACTGATTTACAATCACAACTA
TCATTTTTAAAGCTCACTATTTACAATCACGATTTC
Found at i:17382941 original size:8 final size:8
Alignment explanation
Indices: 17382928--17383013 Score: 52
Period size: 8 Copynumber: 10.8 Consensus size: 8
17382918 TTTAGATACA
17382928 TATATTTT
1 TATATTTT
17382936 TATATTTT
1 TATATTTT
*
17382944 ATATTTTATT
1 -TATATT-TT
*
17382954 TAATACTTT
1 T-ATATTTT
* * * *
17382963 AAAAATTA
1 TATATTTT
17382971 TATATTTT
1 TATATTTT
17382979 TATATTTT
1 TATATTTT
17382987 T-TA-TTT
1 TATATTTT
*
17382993 TAAATTTT
1 TATATTTT
*
17383001 TAAATTTT
1 TATATTTT
17383009 T-TATT
1 TATATT
17383014 AAAAGTTTAT
Statistics
Matches: 60, Mismatches: 13, Indels: 11
0.71 0.15 0.13
Matches are distributed among these distances:
6 4 0.07
7 6 0.10
8 37 0.62
9 8 0.13
10 5 0.08
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (8 bp):
TATATTTT
Found at i:17384624 original size:16 final size:16
Alignment explanation
Indices: 17384603--17384654 Score: 95
Period size: 16 Copynumber: 3.2 Consensus size: 16
17384593 TTTGGTTCGC
17384603 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
17384619 TGTATTGGATTAGAAG
1 TGTATTGGATTAGAGG
17384635 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
17384651 TGTA
1 TGTA
17384655 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.27, C:0.00, G:0.35, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:17384724 original size:44 final size:43
Alignment explanation
Indices: 17384668--17384764 Score: 157
Period size: 39 Copynumber: 2.3 Consensus size: 43
17384658 GCAAATCAAC
17384668 TGTTTGGTTGAATGTAATGGAATAGAGGCGTAATAGTAATCTTG
1 TGTTTGGTTGAATG-AATGGAATAGAGGCGTAATAGTAATCTTG
17384712 TGTTTGG-T---TGAATGGAATAGAGGCGTAATAGTAATCTTG
1 TGTTTGGTTGAATGAATGGAATAGAGGCGTAATAGTAATCTTG
17384751 TGTTTGGTTGAATG
1 TGTTTGGTTGAATG
17384765 GAATAGAGGT
Statistics
Matches: 49, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
39 36 0.73
40 3 0.06
43 3 0.06
44 7 0.14
ACGTcount: A:0.27, C:0.04, G:0.31, T:0.38
Consensus pattern (43 bp):
TGTTTGGTTGAATGAATGGAATAGAGGCGTAATAGTAATCTTG
Found at i:17384737 original size:39 final size:39
Alignment explanation
Indices: 17384683--17384781 Score: 189
Period size: 39 Copynumber: 2.5 Consensus size: 39
17384673 GGTTGAATGT
17384683 AATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTG
1 AATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTG
17384722 AATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTG
1 AATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTG
*
17384761 AATGGAATAGAGGTGTAATAG
1 AATGGAATAGAGGCGTAATAG
17384782 CATAGTGGAA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 59 1.00
ACGTcount: A:0.31, C:0.04, G:0.31, T:0.33
Consensus pattern (39 bp):
AATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTG
Found at i:17384947 original size:16 final size:16
Alignment explanation
Indices: 17384910--17384951 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
17384900 TTAATCATAT
*
17384910 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
17384926 TT-AAATATATTATAA
1 TTAAAATATATTATAA
17384941 TTAAAATATAT
1 TTAAAATATAT
17384952 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:17384958 original size:14 final size:15
Alignment explanation
Indices: 17384919--17384960 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
17384909 TTTAAACATA
*
17384919 ATTATTATTAAATAT
1 ATTATAATTAAATAT
17384934 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
17384948 A-TATAATTTAATA
1 ATTATAATTAAATA
17384961 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:17385155 original size:26 final size:28
Alignment explanation
Indices: 17385126--17385186 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
17385116 CATGAATTTG
*
17385126 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
17385152 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
17385180 TAAAATT
1 TATAATT
17385187 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:17399290 original size:16 final size:17
Alignment explanation
Indices: 17399265--17399296 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
17399255 ATATACCTAC
17399265 TTATATATTTTTATATT
1 TTATATATTTTTATATT
17399282 TTATA-ATTTTTATAT
1 TTATATATTTTTATAT
17399297 ACATATATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
TTATATATTTTTATATT
Found at i:17399398 original size:2 final size:2
Alignment explanation
Indices: 17399393--17399440 Score: 51
Period size: 2 Copynumber: 24.0 Consensus size: 2
17399383 TACTCGTGTT
* * * * *
17399393 TA TA TA TA TA TA TA AA TT TA TA TA TA TA TA TC TA CA TA TA TC
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17399435 TA TA TA
1 TA TA TA
17399441 CCTATTTTAT
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:17404673 original size:6 final size:6
Alignment explanation
Indices: 17404662--17404709 Score: 55
Period size: 6 Copynumber: 7.8 Consensus size: 6
17404652 AACATTTCAT
17404662 AAAAAG AAAAAG AAAAAG -AAAAG -AAAAG AAAAGAAG AAAAAAG AAAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG -AAA-AAG -AAAAAG AAAAA
17404710 CGAGAGGCCA
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
5 10 0.26
6 17 0.44
7 5 0.13
8 7 0.18
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:17404677 original size:5 final size:5
Alignment explanation
Indices: 17404663--17404708 Score: 58
Period size: 5 Copynumber: 8.8 Consensus size: 5
17404653 ACATTTCATA
17404663 AAAAG AAAAAG AAAAAG AAAAG AAAAG AAAAG AAGAA- AAAAG AAAA
1 AAAAG -AAAAG -AAAAG AAAAG AAAAG AAAAG AA-AAG AAAAG AAAA
17404709 ACGAGAGGCC
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
4 2 0.05
5 23 0.61
6 13 0.34
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:17406273 original size:252 final size:252
Alignment explanation
Indices: 17405828--17406336 Score: 946
Period size: 252 Copynumber: 2.0 Consensus size: 252
17405818 ATTGCAGCGG
*
17405828 AGTAGATTAAAGCTGAAGGCAACGAATCTTATCTCCCTGACACAGACTGAAGATGGCGAATCTTA
1 AGTAGATTAAAGCTGAAGGCAACGAATCTTATCTCCCTGACACAGACTGAAGACGGCGAATCTTA
17405893 TCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAGTTCTATCTCCCTGAGTAGCAGTGGAG
66 TCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAGTTCTATCTCCCTGAGTAGCAGTGGAG
* *
17405958 TAGGTCGAAGATTATAGATCTCGTCTTCCTGTGCTGGCAGTGAAGCAAATCGAAAGCACCAGCCT
131 TAGGTCGAAGATTATAGATCTCGTCTTCCTGTACTGGCAATGAAGCAAATCGAAAGCACCAGCCT
* * *
17406023 TATCTTCTTGGGCAGTAGTGGAGAAGGTTGAAGATTACAGATCATGTCTCCCTAAGC
196 TATCTTCTTGGGCAGCAGTGGAGAAAGTTGAAGATTACAAATCATGTCTCCCTAAGC
*
17406080 AGTAGATTAAAGCTGAAGGCAGCGAATCTTATCTCCCTGACACAGACTGAAGACGGCGAATCTTA
1 AGTAGATTAAAGCTGAAGGCAACGAATCTTATCTCCCTGACACAGACTGAAGACGGCGAATCTTA
17406145 TCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAGTTCTATCTCCCTGAGTAGCAGTGGAG
66 TCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAGTTCTATCTCCCTGAGTAGCAGTGGAG
*
17406210 TAGGTCGAAGATTGTAGATCTCGTCTTCCTGTACTGGCAATGAAGCAAATCGAAAGCACCAGCCT
131 TAGGTCGAAGATTATAGATCTCGTCTTCCTGTACTGGCAATGAAGCAAATCGAAAGCACCAGCCT
17406275 TATCTTCTTGGGCAGCAGTGGAGAAAGTTGAAGATTACAAATCATGTCTCCCTAAGC
196 TATCTTCTTGGGCAGCAGTGGAGAAAGTTGAAGATTACAAATCATGTCTCCCTAAGC
17406332 AGTAG
1 AGTAG
17406337 TTGAGCAAAT
Statistics
Matches: 249, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
252 249 1.00
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.25
Consensus pattern (252 bp):
AGTAGATTAAAGCTGAAGGCAACGAATCTTATCTCCCTGACACAGACTGAAGACGGCGAATCTTA
TCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAGTTCTATCTCCCTGAGTAGCAGTGGAG
TAGGTCGAAGATTATAGATCTCGTCTTCCTGTACTGGCAATGAAGCAAATCGAAAGCACCAGCCT
TATCTTCTTGGGCAGCAGTGGAGAAAGTTGAAGATTACAAATCATGTCTCCCTAAGC
Found at i:17406672 original size:44 final size:43
Alignment explanation
Indices: 17406534--17406672 Score: 129
Period size: 44 Copynumber: 3.2 Consensus size: 43
17406524 AATCACTAAC
* * * *
17406534 CTTATCCCCCTAAAGTTGCAGTGGGGCA-AGTTGAAGATACGAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TT-AAGATACAAGT
* * * *
17406578 CTTATCTTCCTGAAGTTGCAGTGGAGCAGACTAAAGAGAGCAA-A
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAAGATA-CAAGT
*
17406622 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAACTATACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA-GATACAAGT
*
17406666 CATATCT
1 CTTATCT
17406673 TTCTGAAGCG
Statistics
Matches: 76, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
43 6 0.08
44 66 0.87
45 4 0.05
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (43 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGATACAAGT
Found at i:17406679 original size:44 final size:44
Alignment explanation
Indices: 17406567--17406680 Score: 131
Period size: 44 Copynumber: 2.6 Consensus size: 44
17406557 GGGCAAGTTG
*
17406567 AAGATACGAGTCTTATCTTCCTGAAGTTGCAGTGGAGCAGACTA
1 AAGATACAAGTCTTATCTTCCTGAAGTTGCAGTGGAGCAGACTA
* * * *
17406611 AAGAGAGCAA-ACTTATCTCCCTGAAGTTGCAGTGGAGCAGATTA
1 AAGATA-CAAGTCTTATCTTCCTGAAGTTGCAGTGGAGCAGACTA
** * *
17406655 ACTATACAAGTCATATCTTTCTGAAG
1 AAGATACAAGTCTTATCTTCCTGAAG
17406681 CGCGATGGAA
Statistics
Matches: 56, Mismatches: 12, Indels: 4
0.78 0.17 0.06
Matches are distributed among these distances:
43 3 0.05
44 51 0.91
45 2 0.04
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.27
Consensus pattern (44 bp):
AAGATACAAGTCTTATCTTCCTGAAGTTGCAGTGGAGCAGACTA
Found at i:17408208 original size:15 final size:15
Alignment explanation
Indices: 17408190--17408226 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
17408180 GTTATTATTG
17408190 TTATTATTATAATAA
1 TTATTATTATAATAA
* *
17408205 TTATTATTATTATAG
1 TTATTATTATAATAA
17408220 TTATTAT
1 TTATTAT
17408227 CATTGTATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (15 bp):
TTATTATTATAATAA
Found at i:17408512 original size:18 final size:19
Alignment explanation
Indices: 17408491--17408535 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
17408481 TATATACACC
*
17408491 TACTTATAT-ATTTTTTTA
1 TACTTATATAATTTTTATA
17408509 TACTT-TATAATTTTTATA
1 TACTTATATAATTTTTATA
*
17408527 TACATATAT
1 TACTTATAT
17408536 TCATACGTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 3 0.13
18 17 0.74
19 3 0.13
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (19 bp):
TACTTATATAATTTTTATA
Found at i:17410773 original size:32 final size:30
Alignment explanation
Indices: 17410720--17410783 Score: 83
Period size: 32 Copynumber: 2.1 Consensus size: 30
17410710 ACTTATTTTA
*
17410720 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
* *
17410750 TTGTTAATTTATTATTATTATTTTAGAGGCAT
1 TTGTTAA-TT-TTATTATTATTTTAAAGACAT
17410782 TT
1 TT
17410784 ACTTGTTAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 7 0.24
31 2 0.07
32 20 0.69
ACGTcount: A:0.28, C:0.03, G:0.11, T:0.58
Consensus pattern (30 bp):
TTGTTAATTTTATTATTATTTTAAAGACAT
Found at i:17417279 original size:24 final size:24
Alignment explanation
Indices: 17417252--17417297 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
17417242 AGAACAATCC
* *
17417252 CAAAAGGAAATGCAGGAGCAGCTT
1 CAAAAGCAAATGAAGGAGCAGCTT
*
17417276 CAAAAGCAAATGAATGAGCAGC
1 CAAAAGCAAATGAAGGAGCAGC
17417298 AAAAGATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.11
Consensus pattern (24 bp):
CAAAAGCAAATGAAGGAGCAGCTT
Found at i:17425349 original size:44 final size:42
Alignment explanation
Indices: 17425286--17425875 Score: 251
Period size: 44 Copynumber: 13.6 Consensus size: 42
17425276 CAGATCGAGT
*
17425286 TTATCTCCCTGAAGTTGCAGTGGAGCGGACTAAGTAAGGAAGTC
1 TTATCT-CCTGAAGTTGCAGTGGAGCAGACTAAG-AAGGAAGTC
* *
17425330 TTATCCTCCTGAAGTTGCAGT-GAGGCAGACTGAAGAGGGCAAATC
1 TTAT-CTCCTGAAGTTGCAGTGGA-GCAGACT-AAGAAGG-AAGTC
* **
17425375 TTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCTGGTAA-TC
1 TTATCTCC-TGAAGTTGCAGTGGAGCAGACT-AAGAAGG-AAGTC
* * * * * ***
17425419 CTATCTCGTTGAAGTTACAGTGG-GCGGATTAA-AACCTTAGATC
1 TTATCTC-CTGAAGTTGCAGTGGAGCAGACTAAGAA-GGAAG-TC
* * * * * ***
17425462 TTATCTCTCTGAAATTGTAG-AGAGCAGA-T-CGCATCTAGTC
1 TTATCTC-CTGAAGTTGCAGTGGAGCAGACTAAGAAGGAAGTC
* *
17425502 TTATCTCCCTGAAGTTGCAGTGGAGCGGACTAAGTAAGCAAGTC
1 TTATCT-CCTGAAGTTGCAGTGGAGCAGACTAAG-AAGGAAGTC
* *
17425546 TTATCCTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGCAAATC
1 TTAT-CTCCTGAAGTTGCAGTGGA-GCAGACT-AAGAAGG-AAGTC
* *
17425591 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAA-TAA-TC
1 TTATCT-CCTGAAGTTGCAGTGGAGCAGACT-AAG--AAGGAAGTC
* * ***
17425635 CTATCTCGCTGAAGTTGCAGTGG-GCAGATTAA-AACTTTAGATC
1 TTATCTC-CTGAAGTTGCAGTGGAGCAGACTAAGAA-GGAAG-TC
* * * * * *** *
17425678 TTATCTCTCTGAAATTGTAG-AGAGCAGA-T-CGCATCTAGTA
1 TTATCTC-CTGAAGTTGCAGTGGAGCAGACTAAGAAGGAAGTC
* *
17425718 TTATCTCTCTGAAGTTGCAGTGGAGCGGACTAAGTAAGCAAGTC
1 TTATCTC-CTGAAGTTGCAGTGGAGCAGACTAAG-AAGGAAGTC
* * *
17425762 TTATCCTCCTGAAGTTGCAGT-GAGGCAGATTGAAGATGGCAAATC
1 TTAT-CTCCTGAAGTTGCAGTGGA-GCAGACT-AAGAAGG-AAGTC
* * **
17425807 TTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCTGGTAA-TC
1 TTATCT-CCTGAAGTTGCAGTGGAGCAGACT-AAGAAGG-AAGTC
* *
17425851 CTATCTCCCTGAAGTTTCAGTGGAG
1 TTATCT-CCTGAAGTTGCAGTGGAG
17425876 AGGATTGAAA
Statistics
Matches: 427, Mismatches: 77, Indels: 84
0.73 0.13 0.14
Matches are distributed among these distances:
39 2 0.00
40 37 0.09
41 23 0.05
42 12 0.03
43 65 0.15
44 163 0.38
45 118 0.28
46 6 0.01
47 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (42 bp):
TTATCTCCTGAAGTTGCAGTGGAGCAGACTAAGAAGGAAGTC
Found at i:17425651 original size:89 final size:88
Alignment explanation
Indices: 17425500--17425662 Score: 224
Period size: 89 Copynumber: 1.8 Consensus size: 88
17425490 TCGCATCTAG
* * *
17425500 TCTTATCTCCCTGAAGTTGCAGTGGAGCGGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAGTCCTATCCTCCTGAAGTTGCA
17425565 GTGAGGCAGACTGAAGATGGCAAA
66 GTG-GGCAGACTGAAGATGGCAAA
* *
17425589 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAA-TAA-TCCTAT-CTCGCTGAAGTT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAG-CAAGCAAGTCCTATCCTC-CTGAAGTT
17425651 GCAGTGGGCAGA
63 GCAGTGGGCAGA
17425663 TTAAAACTTT
Statistics
Matches: 66, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
88 9 0.14
89 50 0.76
90 5 0.08
91 2 0.03
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.26
Consensus pattern (88 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAGTCCTATCCTCCTGAAGTTGCA
GTGGGCAGACTGAAGATGGCAAA
Found at i:17425667 original size:216 final size:216
Alignment explanation
Indices: 17425286--17425969 Score: 1100
Period size: 216 Copynumber: 3.2 Consensus size: 216
17425276 CAGATCGAGT
*
17425286 TTATCTCCCTGAAGTTGCAGTGGAGCGGACTAAGTAAGGAAGTCTTATCCTCCTGAAGTTGCAGT
1 TTATCTCCCTGAAGTTGCAGTGGAGCGGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGT
* *
17425351 GAGGCAGACTGAAGAGGGCAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCTGGTA
66 GAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTGGTA
* *
17425416 ATCCTATCTCGTTGAAGTTACAGTGGGCGGATTAAAACCTTAGATCTTATCTCTCTGAAATTGTA
131 ATCCTATCTCGCTGAAGTTACAGTGGGCAGATTAAAACCTTAGATCTTATCTCTCTGAAATTGTA
17425481 GAGAGCAGATCGCATCTAGTC
196 GAGAGCAGATCGCATCTAGTC
17425502 TTATCTCCCTGAAGTTGCAGTGGAGCGGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGT
1 TTATCTCCCTGAAGTTGCAGTGGAGCGGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGT
***
17425567 GAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATA
66 GAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTGGTA
* *
17425632 ATCCTATCTCGCTGAAGTTGCAGTGGGCAGATTAAAACTTTAGATCTTATCTCTCTGAAATTGTA
131 ATCCTATCTCGCTGAAGTTACAGTGGGCAGATTAAAACCTTAGATCTTATCTCTCTGAAATTGTA
*
17425697 GAGAGCAGATCGCATCTAGTA
196 GAGAGCAGATCGCATCTAGTC
*
17425718 TTATCTCTCTGAAGTTGCAGTGGAGCGGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGT
1 TTATCTCCCTGAAGTTGCAGTGGAGCGGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGT
* *
17425783 GAGGCAGATTGAAGATGGCAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCTGGTA
66 GAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTGGTA
* * * * ** * *
17425848 ATCCTATCTCCCTGAAGTTTCAGTGGAG-AGGATTGAAATCACAGATCTTATCTCTCTGAAGTTA
131 ATCCTATCTCGCTGAAGTTACAGTGG-GCA-GATTAAAACCTTAGATCTTATCTCTCTGAAATTG
* *
17425912 CAGAGAGCAGATCGCATTTAGTC
194 TAGAGAGCAGATCGCATCTAGTC
* *
17425935 TTATTTCCCTGAAGATTGCAGTGGAGCAGACTAAG
1 TTATCTCCCTGAAG-TTGCAGTGGAGCGGACTAAG
17425970 ATAGCAAATT
Statistics
Matches: 433, Mismatches: 32, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
216 354 0.82
217 60 0.14
218 19 0.04
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (216 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCGGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGT
GAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTGGTA
ATCCTATCTCGCTGAAGTTACAGTGGGCAGATTAAAACCTTAGATCTTATCTCTCTGAAATTGTA
GAGAGCAGATCGCATCTAGTC
Found at i:17434060 original size:2 final size:2
Alignment explanation
Indices: 17434055--17434109 Score: 87
Period size: 2 Copynumber: 28.5 Consensus size: 2
17434045 GGAGTTATGT
17434055 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
17434097 TT TA -A T- TA TA TA T
1 TA TA TA TA TA TA TA T
17434110 TAATTCTTTT
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
1 2 0.04
2 47 0.96
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:17434444 original size:9 final size:9
Alignment explanation
Indices: 17434430--17434498 Score: 50
Period size: 10 Copynumber: 7.1 Consensus size: 9
17434420 GCCCATTTTT
17434430 ATTTTAAAA
1 ATTTTAAAA
17434439 ATTTTAAAAA
1 ATTTT-AAAA
*
17434449 ATTTAAAAAAA
1 ATTT--TAAAA
17434460 TATTTTAAAAA
1 -ATTTT-AAAA
17434471 ATTTT-AAA
1 ATTTTAAAA
**
17434479 ATTAAAAAA
1 ATTTTAAAA
17434488 ATTTTTAAAA
1 A-TTTTAAAA
17434498 A
1 A
17434499 ATGTATTTTA
Statistics
Matches: 47, Mismatches: 6, Indels: 13
0.71 0.09 0.20
Matches are distributed among these distances:
8 6 0.13
9 9 0.19
10 20 0.43
11 8 0.17
12 4 0.09
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (9 bp):
ATTTTAAAA
Found at i:17434488 original size:40 final size:41
Alignment explanation
Indices: 17434429--17434613 Score: 243
Period size: 43 Copynumber: 4.4 Consensus size: 41
17434419 GGCCCATTTT
*
17434429 TATTTTAAAAATTTTAAAAAATTTAAAAAAA-TATTTTAAAAA
1 TATTTT-AAAA-TTAAAAAAATTTAAAAAAAGTATTTTAAAAA
*
17434471 -ATTTTAAAATTAAAAAAATTTTTAAAAAATGTATTTTAAAAA
1 TATTTTAAAATTAAAAAAA--TTTAAAAAAAGTATTTTAAAAA
17434513 TATTTTAAAATTAAAAAAA-TTAAAAAAAGTATTTTAAAAA
1 TATTTTAAAATTAAAAAAATTTAAAAAAAGTATTTTAAAAA
* *
17434553 TATTTTAAAATT-AAAAAATTTAAAAAAAAAAGTATGTAAAAAA
1 TATTTTAAAATTAAAAAAATTT---AAAAAAAGTATTTTAAAAA
17434596 TATTTTAAAATTAAAAAA
1 TATTTTAAAATTAAAAAA
17434614 TATATATATT
Statistics
Matches: 129, Mismatches: 5, Indels: 16
0.86 0.03 0.11
Matches are distributed among these distances:
39 14 0.11
40 38 0.29
41 14 0.11
42 11 0.09
43 47 0.36
44 5 0.04
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (41 bp):
TATTTTAAAATTAAAAAAATTTAAAAAAAGTATTTTAAAAA
Found at i:17434499 original size:11 final size:10
Alignment explanation
Indices: 17434430--17434562 Score: 73
Period size: 11 Copynumber: 12.9 Consensus size: 10
17434420 GCCCATTTTT
17434430 ATTTT-AAAA
1 ATTTTAAAAA
17434439 ATTTTAAAAA
1 ATTTTAAAAA
*
17434449 ATTTAAAAAAA
1 ATTT-TAAAAA
17434460 TATTTTAAAAA
1 -ATTTTAAAAA
17434471 ATTTT--AAA
1 ATTTTAAAAA
*
17434479 A-TTAAAAAA
1 ATTTTAAAAA
17434488 ATTTTTAAAAAA
1 A-TTTT-AAAAA
17434500 TGTATTTTAAAAA
1 ---ATTTTAAAAA
17434513 TATTTT--AAA
1 -ATTTTAAAAA
*
17434522 A-TTAAAAAA
1 ATTTTAAAAA
**
17434531 ATTAAAAAAA
1 ATTTTAAAAA
17434541 GTATTTTAAAAA
1 --ATTTTAAAAA
17434553 TATTTTAAAA
1 -ATTTTAAAA
17434563 TTAAAAAATT
Statistics
Matches: 100, Mismatches: 8, Indels: 30
0.72 0.06 0.22
Matches are distributed among these distances:
7 4 0.04
8 5 0.05
9 16 0.16
10 20 0.20
11 28 0.28
12 17 0.17
13 5 0.05
14 4 0.04
15 1 0.01
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (10 bp):
ATTTTAAAAA
Found at i:17434562 original size:83 final size:81
Alignment explanation
Indices: 17434442--17434613 Score: 256
Period size: 83 Copynumber: 2.1 Consensus size: 81
17434432 TTTAAAAATT
* ** * *
17434442 TTAAAAAATTTAAAAAAATATTTTAAAAAATTTTAAAATTAAAAAAATTT-TTAAAAAATGTATT
1 TTAAAAAAATTAAAAAAATATTTTAAAAAATTTTAAAATT-AAAAAATTTAAAAAAAAAAGTATG
*
17434506 TTAAAAATATTTTAAAA
65 TAAAAAATATTTTAAAA
17434523 TTAAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAATTTAAAAAAAAAAGTAT
1 TTAAAAAAATTAAAAAAA-TATTTTAAAAA-ATTTTAAAATTAAAAAATTTAAAAAAAAAAGTAT
17434588 GTAAAAAATATTTTAAAA
64 GTAAAAAATATTTTAAAA
17434606 TTAAAAAA
1 TTAAAAAA
17434614 TATATATATT
Statistics
Matches: 82, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
81 17 0.21
82 20 0.24
83 45 0.55
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (81 bp):
TTAAAAAAATTAAAAAAATATTTTAAAAAATTTTAAAATTAAAAAATTTAAAAAAAAAAGTATGT
AAAAAATATTTTAAAA
Found at i:17434579 original size:17 final size:17
Alignment explanation
Indices: 17434546--17434578 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
17434536 AAAAAGTATT
*
17434546 TTAAAAATATTTTAAAA
1 TTAAAAATATTTAAAAA
17434563 TTAAAAA-ATTTAAAAA
1 TTAAAAATATTTAAAAA
17434579 AAAAAGTATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
TTAAAAATATTTAAAAA
Found at i:17438400 original size:18 final size:18
Alignment explanation
Indices: 17438377--17438419 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
17438367 TGCCAGGTGC
* *
17438377 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
17438395 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
17438413 GTTTCCT
1 GTATCCT
17438420 TTTTCTAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:17438884 original size:47 final size:46
Alignment explanation
Indices: 17438827--17438920 Score: 152
Period size: 47 Copynumber: 2.0 Consensus size: 46
17438817 TTGTACAAAC
17438827 ATTTTAAATATTTTTATATTATTTCATGTAATAAAATAAAAGACAAT
1 ATTTTAAATATTTTTATATTATTTCATGTAATAAAATAAAA-ACAAT
* * *
17438874 ATTTTGAATATTTTTATATTATTTCATTTAATAAAATATAAACAAT
1 ATTTTAAATATTTTTATATTATTTCATGTAATAAAATAAAAACAAT
17438920 A
1 A
17438921 CAACATAGTT
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
46 6 0.14
47 38 0.86
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (46 bp):
ATTTTAAATATTTTTATATTATTTCATGTAATAAAATAAAAACAAT
Found at i:17442148 original size:126 final size:126
Alignment explanation
Indices: 17441921--17442314 Score: 601
Period size: 126 Copynumber: 3.1 Consensus size: 126
17441911 GCCAAATAGG
* *
17441921 AACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTCTTTTAGTACTTTTGCTGACATTGCATCA
1 AACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTTAGTACTTTTGCTGACATTGCATCC
*
17441986 TGCTTGAAGCGTTTTTGACACTATTTGCTCAAAAACATCTTCTCAAAATTATTTTTTCAAA
66 TGCTTGAAGCGTTTTTGACACTATTTGCTCAAAAACATCTTCTCAAAATTATTTTTTCAGA
* * * *
17442047 AACTACTGTAGCAAAAGAGCGTTCATGTGGGAGCTT-TTTTCAGTATTTTTGCTGACATTGTATC
1 AACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTT-AGTACTTTTGCTGACATTGCATC
* *
17442111 CTGCTTGAAGCGTTTTTGACATTATTTGCTCATAAACATCTTCTCAAAATTATTTTTTCAGA
65 CTGCTTGAAGCGTTTTTGACACTATTTGCTCAAAAACATCTTCTCAAAATTATTTTTTCAGA
* * * * *
17442173 AACTACTGTAGCGAAACAGCGTCCACGTGGAAGCTTCTTTTAGTACTTTTACTGACAATGCATCC
1 AACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTTAGTACTTTTGCTGACATTGCATCC
* * * * *
17442238 TGCTTAAAGCATTTTTGACACTATTTGCTCAGAAACGTCTTCTCAAAATTATTTTTTCAGG
66 TGCTTGAAGCGTTTTTGACACTATTTGCTCAAAAACATCTTCTCAAAATTATTTTTTCAGA
17442299 AACTACTGTAGCAAAA
1 AACTACTGTAGCAAAA
17442315 AAAATGTCCA
Statistics
Matches: 241, Mismatches: 25, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
125 4 0.02
126 233 0.97
127 4 0.02
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (126 bp):
AACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTTAGTACTTTTGCTGACATTGCATCC
TGCTTGAAGCGTTTTTGACACTATTTGCTCAAAAACATCTTCTCAAAATTATTTTTTCAGA
Found at i:17442404 original size:41 final size:41
Alignment explanation
Indices: 17442359--17442497 Score: 181
Period size: 41 Copynumber: 3.4 Consensus size: 41
17442349 CACCAAAACA
*
17442359 GGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCTG
1 GGCTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATGCTCTG
* ** * *
17442400 GGCTTTCGCGATGTTTTTGAATAAGTGCCACTAATGCT-TAG
1 GGCTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATGCTCT-G
* * *
17442441 GGCTTTAGTGGCGTTTTTGAATAGGCGCCGCTAATGCTCAG
1 GGCTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATGCTCTG
17442482 GGCTTTAGCGGCGTTT
1 GGCTTTAGCGGCGTTT
17442498 AATGCTCTGG
Statistics
Matches: 81, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
40 1 0.01
41 80 0.99
ACGTcount: A:0.17, C:0.19, G:0.30, T:0.33
Consensus pattern (41 bp):
GGCTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATGCTCTG
Found at i:17442537 original size:66 final size:66
Alignment explanation
Indices: 17442431--17442563 Score: 187
Period size: 66 Copynumber: 2.0 Consensus size: 66
17442421 TAAGTGCCAC
* * * * *
17442431 TAATGCTTAGGGCTTTAGTGGCGTTTTTGAATAGGCGCCGCTAATGCTCAGGGCTTTAGCGGCGT
1 TAATGCTTAGGGATTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGT
17442496 T
66 T
* *
17442497 TAATGCTCT-GGGATTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGTTCAGGGTTTTAGCGGCG
1 TAATGCT-TAGGGATTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCG
17442561 TT
65 TT
17442563 T
1 T
17442564 TTAAAGAAGT
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
66 58 0.98
67 1 0.02
ACGTcount: A:0.18, C:0.17, G:0.31, T:0.34
Consensus pattern (66 bp):
TAATGCTTAGGGATTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGT
T
Found at i:17442555 original size:41 final size:41
Alignment explanation
Indices: 17442497--17442664 Score: 228
Period size: 41 Copynumber: 4.1 Consensus size: 41
17442487 TAGCGGCGTT
* *
17442497 TAATGCTCTGGGATTTAGCGGCATTTTTGAAGAAGCGCCGC
1 TAATGCTCAGGGATTTAGCGGCGTTTTTGAAGAAGCGCCGC
* * * *
17442538 TAATGTTCAGGGTTTTAGCGGCGTTTTTAAAGAAGTGCCGC
1 TAATGCTCAGGGATTTAGCGGCGTTTTTGAAGAAGCGCCGC
* * *
17442579 TAATGCTCAGGGCTTTAGCGGCGTTTTTGAAGAAGTGTCGC
1 TAATGCTCAGGGATTTAGCGGCGTTTTTGAAGAAGCGCCGC
* *
17442620 TAATGCTCGGGGATTTAGCGGCGTTTTTGGAAAAAGCGCCGC
1 TAATGCTCAGGGATTTAGCGGCGTTTTT-GAAGAAGCGCCGC
17442662 TAA
1 TAA
17442665 AACATTTTAT
Statistics
Matches: 111, Mismatches: 15, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
41 98 0.88
42 13 0.12
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.30
Consensus pattern (41 bp):
TAATGCTCAGGGATTTAGCGGCGTTTTTGAAGAAGCGCCGC
Found at i:17442578 original size:107 final size:107
Alignment explanation
Indices: 17442390--17442604 Score: 288
Period size: 107 Copynumber: 2.0 Consensus size: 107
17442380 GAAGCGCCGC
* * ** * * *
17442390 TAATGCTCTGGGCTTTCGCGATGTTTTTGAATAAGTGCCACTAATGCTTAGGGCTTTAGTGGCGT
1 TAATGCTCTGGGATTTAGCGACATTTTTGAAGAAGCGCCACTAATGCTTAGGGCTTTAGCGGCGT
* * *
17442455 TTTTGAATAGGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTT
66 TTTTAAAGAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTT
* * *
17442497 TAATGCTCTGGGATTTAGCGGCATTTTTGAAGAAGCGCCGCTAATG-TTCAGGGTTTTAGCGGCG
1 TAATGCTCTGGGATTTAGCGACATTTTTGAAGAAGCGCCACTAATGCTT-AGGGCTTTAGCGGCG
*
17442561 TTTTTAAAGAAGTGCCGCTAATGCTCAGGGCTTTAGCGGCGTT
65 TTTTTAAAGAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTT
17442604 T
1 T
17442605 TTGAAGAAGT
Statistics
Matches: 93, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
106 2 0.02
107 91 0.98
ACGTcount: A:0.19, C:0.18, G:0.29, T:0.33
Consensus pattern (107 bp):
TAATGCTCTGGGATTTAGCGACATTTTTGAAGAAGCGCCACTAATGCTTAGGGCTTTAGCGGCGT
TTTTAAAGAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTT
Found at i:17442637 original size:148 final size:148
Alignment explanation
Indices: 17442362--17442645 Score: 406
Period size: 148 Copynumber: 1.9 Consensus size: 148
17442352 CAAAACAGGC
* * * * * *
17442362 TTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCTGGGCTTTCGCGATGTTTTTGAATAAGTG
1 TTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGCTCAGGGCTTTAGCGACGTTTTTAAAGAAGTG
* * * * *
17442427 CCACTAATGCTTAGGGCTTTAGTGGCGTTTTTGAATAGGCGCCGCTAATGCTCAGGGCTTTAGCG
66 CCACTAATGCTCAGGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGGGATTTAGCG
17442492 GCGTTTAATGCTCTGGGA
131 GCGTTTAATGCTCTGGGA
* * *
17442510 TTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGTTCAGGGTTTTAGCGGCGTTTTTAAAGAAGTG
1 TTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGCTCAGGGCTTTAGCGACGTTTTTAAAGAAGTG
* * * *
17442575 CCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAAGAAGTGTCGCTAATGCTCGGGGATTTAGCG
66 CCACTAATGCTCAGGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGGGATTTAGCG
17442640 GCGTTT
131 GCGTTT
17442646 TTGGAAAAAG
Statistics
Matches: 118, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
148 118 1.00
ACGTcount: A:0.19, C:0.18, G:0.30, T:0.33
Consensus pattern (148 bp):
TTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGCTCAGGGCTTTAGCGACGTTTTTAAAGAAGTG
CCACTAATGCTCAGGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGGGATTTAGCG
GCGTTTAATGCTCTGGGA
Found at i:17442809 original size:26 final size:26
Alignment explanation
Indices: 17442758--17442814 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
17442748 AAAATAGATA
* * *
17442758 AATTTGAAATAATAACATGTAGAAAT
1 AATTTGAAATAAAAAAATGTAAAAAT
17442784 AATTTGAAATAAAAAAATAG-AAAAAT
1 AATTTGAAATAAAAAAAT-GTAAAAAT
17442810 -ATTTG
1 AATTTG
17442815 TTAAAAATAG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 5 0.19
26 21 0.78
27 1 0.04
ACGTcount: A:0.58, C:0.02, G:0.11, T:0.30
Consensus pattern (26 bp):
AATTTGAAATAAAAAAATGTAAAAAT
Found at i:17443078 original size:14 final size:15
Alignment explanation
Indices: 17443050--17443082 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
17443040 AAGGTTTATA
17443050 GATTATGGAATTAGG
1 GATTATGGAATTAGG
17443065 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
17443079 GATT
1 GATT
17443083 TTGGTTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:17443194 original size:7 final size:7
Alignment explanation
Indices: 17443182--17443228 Score: 51
Period size: 7 Copynumber: 6.9 Consensus size: 7
17443172 TAAATAAGGT
*
17443182 TTAGGGG
1 TTAGGGA
*
17443189 TTAGGGG
1 TTAGGGA
*
17443196 TCAGGGA
1 TTAGGGA
17443203 TTAGGGA
1 TTAGGGA
17443210 TTAGGGA
1 TTAGGGA
*
17443217 TTTGGG-
1 TTAGGGA
17443223 TTAGGG
1 TTAGGG
17443229 TTTAAGGTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
6 5 0.14
7 30 0.86
ACGTcount: A:0.19, C:0.02, G:0.49, T:0.30
Consensus pattern (7 bp):
TTAGGGA
Found at i:17443240 original size:27 final size:28
Alignment explanation
Indices: 17443176--17443240 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 28
17443166 TTATGTTAAA
*
17443176 TAAGGTTTAGGGGTTAGGGGTCAGGGAT
1 TAAGGTTTAGGGATTAGGGGTCAGGGAT
* * * * *
17443204 TAGGGATTAGGGATT-TGGGTTAGGGTT
1 TAAGGTTTAGGGATTAGGGGTCAGGGAT
17443231 TAAGGTTTAG
1 TAAGGTTTAG
17443241 ATTAATTAGT
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
27 17 0.59
28 12 0.41
ACGTcount: A:0.22, C:0.02, G:0.43, T:0.34
Consensus pattern (28 bp):
TAAGGTTTAGGGATTAGGGGTCAGGGAT
Found at i:17448405 original size:23 final size:22
Alignment explanation
Indices: 17448353--17448405 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
17448343 TCCACGTCTT
*
17448353 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
17448375 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
17448398 TTTCTTTT
1 TTTCTTTT
17448406 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:17453272 original size:42 final size:43
Alignment explanation
Indices: 17453213--17453326 Score: 133
Period size: 43 Copynumber: 2.7 Consensus size: 43
17453203 AATATTTTTT
* * **
17453213 TAAAAGTCATG-TTTTTAGCGGTGTTTGT-CAAAAAGCGTCGC
1 TAAAGGTCATGATCTTTAGCGGTGTTTGTGCAAAAAGCACCGC
* ** *
17453254 TAAAGTTCATGATCTTTAGCGGTGTTTGTGGGAGAAGCACCGC
1 TAAAGGTCATGATCTTTAGCGGTGTTTGTGCAAAAAGCACCGC
*
17453297 TAAAGGTCATGATCTTTAGCGGCGTTTGTG
1 TAAAGGTCATGATCTTTAGCGGTGTTTGTG
17453327 GGATAAGCGC
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
41 9 0.15
42 16 0.26
43 36 0.59
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.33
Consensus pattern (43 bp):
TAAAGGTCATGATCTTTAGCGGTGTTTGTGCAAAAAGCACCGC
Found at i:17453309 original size:43 final size:43
Alignment explanation
Indices: 17453251--17453339 Score: 142
Period size: 43 Copynumber: 2.1 Consensus size: 43
17453241 CAAAAAGCGT
* *
17453251 CGCTAAAGTTCATGATCTTTAGCGGTGTTTGTGGGAGAAGCAC
1 CGCTAAAGGTCATGATCTTTAGCGGCGTTTGTGGGAGAAGCAC
* *
17453294 CGCTAAAGGTCATGATCTTTAGCGGCGTTTGTGGGATAAGCGC
1 CGCTAAAGGTCATGATCTTTAGCGGCGTTTGTGGGAGAAGCAC
17453337 CGC
1 CGC
17453340 AAATGTTTGC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.28
Consensus pattern (43 bp):
CGCTAAAGGTCATGATCTTTAGCGGCGTTTGTGGGAGAAGCAC
Found at i:17457571 original size:13 final size:13
Alignment explanation
Indices: 17457553--17457585 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
17457543 TATTATAAAA
17457553 TTAAATA-ATTATT
1 TTAAATATATT-TT
17457566 TTAAATATATTTT
1 TTAAATATATTTT
17457579 TTAAATA
1 TTAAATA
17457586 CAAGTCTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 16 0.84
14 3 0.16
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TTAAATATATTTT
Found at i:17457805 original size:51 final size:53
Alignment explanation
Indices: 17457700--17457815 Score: 130
Period size: 52 Copynumber: 2.2 Consensus size: 53
17457690 AATATTACAC
* * ** *
17457700 AAATATATAATGCTAAAATATGAATTTATAATCGTATAATATTATTCATTC-A
1 AAATATATAATACTAAAATATGAATTTATAATCGCATAATATTAAACATGCAA
* * *
17457752 AAATATATAATACT-AAATATG-ATTATTTAATTGCATATTATTAAACATGCAA
1 AAATATATAATACTAAAATATGAATT-TATAATCGCATAATATTAAACATGCAA
17457804 AAATATATAATA
1 AAATATATAATA
17457816 AAATTTTTCA
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
50 3 0.06
51 25 0.46
52 26 0.48
ACGTcount: A:0.49, C:0.07, G:0.05, T:0.39
Consensus pattern (53 bp):
AAATATATAATACTAAAATATGAATTTATAATCGCATAATATTAAACATGCAA
Found at i:17458094 original size:22 final size:22
Alignment explanation
Indices: 17458066--17458108 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
17458056 ATTTTAATAC
17458066 CATACAAACATATAATATTAAG
1 CATACAAACATATAATATTAAG
*
17458088 CATACAAATATATAATATTAA
1 CATACAAACATATAATATTAA
17458109 AATTTACCAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.56, C:0.12, G:0.02, T:0.30
Consensus pattern (22 bp):
CATACAAACATATAATATTAAG
Found at i:17458784 original size:20 final size:22
Alignment explanation
Indices: 17458759--17458801 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
17458749 TAATCTCTAA
*
17458759 TTTTTAT-AATTT-ATATAATT
1 TTTTTATAAATTTCATACAATT
17458779 TTTTTATAAATTTCATACAATT
1 TTTTTATAAATTTCATACAATT
17458801 T
1 T
17458802 AAAAAGTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 7 0.35
21 5 0.25
22 8 0.40
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (22 bp):
TTTTTATAAATTTCATACAATT
Found at i:17458849 original size:11 final size:9
Alignment explanation
Indices: 17458756--17459010 Score: 92
Period size: 9 Copynumber: 27.0 Consensus size: 9
17458746 TTGTAATCTC
17458756 TAATTTTTA
1 TAATTTTTA
*
17458765 TAATTTATA
1 TAATTTTTA
17458774 TAATTTTTTTA
1 TAA--TTTTTA
* *
17458785 TAAATTTCA
1 TAATTTTTA
* *
17458794 TACAATTTAA
1 TA-ATTTTTA
* *
17458804 AAAGTTATTA
1 TAA-TTTTTA
*
17458814 GAATTTTT-
1 TAATTTTTA
17458822 TATATTTTTA
1 TA-ATTTTTA
17458832 TAATTTTGTA
1 TAATTTT-TA
17458842 TGAATTTTTA
1 T-AATTTTTA
*
17458852 TAGGTTTTTA
1 TA-ATTTTTA
* *
17458862 TAAAATATTA
1 T-AATTTTTA
17458872 -AATATTTTA
1 TAAT-TTTTA
17458881 T-ATGTTTTA
1 TAAT-TTTTA
*
17458890 TTCA-TTTTA
1 -TAATTTTTA
****
17458899 TAAAAAATA
1 TAATTTTTA
17458908 -ATATTTTTCA
1 TA-ATTTTT-A
17458918 TAGATTTTTA
1 TA-ATTTTTA
*
17458928 TAATATTTA
1 TAATTTTTA
17458937 TAAGTTTTTA
1 TAA-TTTTTA
*
17458947 TGATTTTTTA
1 T-AATTTTTA
*
17458957 TATTTTTTA
1 TAATTTTTA
*
17458966 TAAGTTTATA
1 TAA-TTTTTA
*
17458976 CTAATTTTAA
1 -TAATTTTTA
17458986 T-ATTTTT-
1 TAATTTTTA
*
17458993 TAATTTTAA
1 TAATTTTTA
17459002 TAATTTTTA
1 TAATTTTTA
17459011 CGAATTTTAA
Statistics
Matches: 184, Mismatches: 38, Indels: 48
0.68 0.14 0.18
Matches are distributed among these distances:
7 1 0.01
8 16 0.09
9 82 0.45
10 58 0.32
11 27 0.15
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (9 bp):
TAATTTTTA
Found at i:17458944 original size:29 final size:29
Alignment explanation
Indices: 17458912--17458972 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
17458902 AAAATAATAT
17458912 TTTTCATAGA-TTTTTATAATATTTATAAG
1 TTTTCAT-GATTTTTTATAATATTTATAAG
* * *
17458941 TTTTTATGATTTTTTATATTTTTTATAAG
1 TTTTCATGATTTTTTATAATATTTATAAG
17458970 TTT
1 TTT
17458973 ATACTAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 2 0.07
29 26 0.93
ACGTcount: A:0.28, C:0.02, G:0.07, T:0.64
Consensus pattern (29 bp):
TTTTCATGATTTTTTATAATATTTATAAG
Found at i:17458954 original size:10 final size:9
Alignment explanation
Indices: 17458908--17458999 Score: 51
Period size: 10 Copynumber: 9.8 Consensus size: 9
17458898 ATAAAAAATA
*
17458908 ATATTTTTC
1 ATATTTTTT
*
17458917 ATAGATTTTT
1 ATA-TTTTTT
* *
17458927 ATAATATTT
1 ATATTTTTT
*
17458936 ATAAGTTTTT
1 AT-ATTTTTT
17458946 ATGATTTTTT
1 AT-ATTTTTT
17458956 ATATTTTTT
1 ATATTTTTT
* *
17458965 ATAAGTTTAT
1 AT-ATTTTTT
* *
17458975 ACTAATTTTA
1 A-TATTTTTT
17458985 ATATTTTTT
1 ATATTTTTT
17458994 A-ATTTT
1 ATATTTT
17459000 AATAATTTTT
Statistics
Matches: 65, Mismatches: 14, Indels: 9
0.74 0.16 0.10
Matches are distributed among these distances:
8 5 0.08
9 26 0.40
10 33 0.51
11 1 0.02
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.63
Consensus pattern (9 bp):
ATATTTTTT
Found at i:17458983 original size:29 final size:29
Alignment explanation
Indices: 17458921--17458994 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
17458911 TTTTTCATAG
* * *
17458921 ATTTTTATAATATTTATAAGTTTTTATGA
1 ATTTTTATATTTTTTATAAGTTTATATGA
*
17458950 TTTTTTATATTTTTTATAAGTTTATACT-A
1 ATTTTTATATTTTTTATAAGTTTATA-TGA
*
17458979 ATTTTAATATTTTTTA
1 ATTTTTATATTTTTTA
17458995 ATTTTAATAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 37 0.97
30 1 0.03
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.64
Consensus pattern (29 bp):
ATTTTTATATTTTTTATAAGTTTATATGA
Found at i:17459016 original size:19 final size:18
Alignment explanation
Indices: 17458978--17459034 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 18
17458968 AGTTTATACT
*
17458978 AATTTTAAT-ATTTTT-T
1 AATTTTAATAATTTTTAG
17458994 AATTTTAATAATTTTTACG
1 AATTTTAATAATTTTTA-G
17459013 AATTTTAATGATATTTTTAG
1 AATTTTAAT-A-ATTTTTAG
17459033 AA
1 AA
17459035 AAAATATAAG
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
16 9 0.26
17 6 0.17
19 9 0.26
20 4 0.11
21 7 0.20
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (18 bp):
AATTTTAATAATTTTTAG
Found at i:17459385 original size:15 final size:16
Alignment explanation
Indices: 17459352--17459385 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
17459342 AGTTTGTGAA
17459352 AAAATTTGAGTTAAAG
1 AAAATTTGAGTTAAAG
17459368 AAAATTTGAGTT-AAG
1 AAAATTTGAGTTAAAG
17459383 AAA
1 AAA
17459386 GTTCGAGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.53, C:0.00, G:0.18, T:0.29
Consensus pattern (16 bp):
AAAATTTGAGTTAAAG
Found at i:17466236 original size:17 final size:18
Alignment explanation
Indices: 17466215--17466255 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
17466205 AGGTCAAAAT
*
17466215 GAAAATGAAAGAAAAAGA
1 GAAAAAGAAAGAAAAAGA
*
17466233 -AAAAAGAACGAAAAAGA
1 GAAAAAGAAAGAAAAAGA
17466250 GAAAAA
1 GAAAAA
17466256 CCAAGATGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.76, C:0.02, G:0.20, T:0.02
Consensus pattern (18 bp):
GAAAAAGAAAGAAAAAGA
Found at i:17467193 original size:15 final size:15
Alignment explanation
Indices: 17467143--17467195 Score: 61
Period size: 15 Copynumber: 3.4 Consensus size: 15
17467133 TTTGAGTCAA
17467143 AAAAATGATGAAAAGT
1 AAAAATGAT-AAAAGT
* * *
17467159 GAAAAATGACAAATGA
1 -AAAAATGATAAAAGT
17467175 AAAAATGATAAAAGT
1 AAAAATGATAAAAGT
17467190 AAAAAT
1 AAAAAT
17467196 AGAGAGGCTA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
15 18 0.60
16 4 0.13
17 8 0.27
ACGTcount: A:0.66, C:0.02, G:0.15, T:0.17
Consensus pattern (15 bp):
AAAAATGATAAAAGT
Found at i:17468613 original size:87 final size:87
Alignment explanation
Indices: 17468423--17468848 Score: 618
Period size: 87 Copynumber: 4.9 Consensus size: 87
17468413 CAGATCAGTG
* * *
17468423 AAGATAGTAGATCTTGCCTTCTTGCATTGACAACGAAGCATATCGAAGAAACAAAGCCTTGCCTC
1 AAGATAGTAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCG-A-AAACAAAGCCTTGCCTC
* * * *
17468488 CCTTGGTTGCAGTGGAGCAGGTTG
64 CATCGGTTGCAGTGGAGCTGGTTA
* *
17468512 AAGATAGTAGATCTTGCCTTTCTGCATTGACAACGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
1 AAGATAGTAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
17468577 TCGGTTGCAGTGGAGCTGGTTA
66 TCGGTTGCAGTGGAGCTGGTTA
* * * *
17468599 AAGATAGCAGATCTTGCCTTCCTACATTGACAGCGGAGCAGATCGAAAATAAAGCCTTGCCTCCA
1 AAGATAGTAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
*
17468664 TCGGTTGCAGTGGAGCGGGTTA
66 TCGGTTGCAGTGGAGCTGGTTA
* * *
17468686 AAGATAGCAGATCTTGTCTTCCTGCATTGACAGCGAAGCAGATTGAAAACAAAGCCTTGCCTCCA
1 AAGATAGTAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
* * *
17468751 TCAGTTTCAATGGAGCTGGTTA
66 TCGGTTGCAGTGGAGCTGGTTA
* **
17468773 AAGATAGTAGATCTTGCCTTCCTGCATTGACAGCGAAACAGATAAAAAACAAAGCCTTGCCTCCC
1 AAGATAGTAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACAAAGCCTTGCCT-CC
17468838 ATCGGTTGCAG
65 ATCGGTTGCAG
17468849 CGGAATAGGT
Statistics
Matches: 305, Mismatches: 31, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
87 252 0.83
88 11 0.04
89 42 0.14
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (87 bp):
AAGATAGTAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
TCGGTTGCAGTGGAGCTGGTTA
Found at i:17469052 original size:44 final size:43
Alignment explanation
Indices: 17468999--17469337 Score: 265
Period size: 44 Copynumber: 7.8 Consensus size: 43
17468989 GGAAGAAGCA
* *
17468999 AATCTTATCTCCCTGAGGTTGCAGTGGAGTAGATTGAAGTCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGT-AAT
* * * * *
17469043 AATCCTATCTCCCTGAGGTTGTAGTGGAGCGGATTAAAGTAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTAAT
* * * ** * ** *
17469086 CGATCTTATCTCTCTGAAGTTGCAGTAGAGTGGATCG-CCTCA-
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTAAT
** * * *
17469128 GGTCTTATTTCCCTGAGGTTGCAGTGGAGCAGACTG-AGTAAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGT-AAT
* ** * * *
17469171 AGATCTTATCCCCCTGAAGTCACAGTGGGGCAGATCGAAG-AAGCA
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTAA--T
17469216 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGT-AAT
* * * *
17469260 AATCATATCTCCCT-AAGGTTGTAGTGGAGCGGATTAAAGTAAT
1 AATCTTATCTCCCTGAA-GTTGCAGTGGAGCAGATTGAAGTAAT
* *
17469303 AGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGAT
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
17469338 CGCATCAAGT
Statistics
Matches: 228, Mismatches: 55, Indels: 24
0.74 0.18 0.08
Matches are distributed among these distances:
41 28 0.12
42 1 0.00
43 13 0.06
44 179 0.79
45 5 0.02
46 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTAAT
Found at i:17471998 original size:40 final size:40
Alignment explanation
Indices: 17471945--17472079 Score: 134
Period size: 40 Copynumber: 3.4 Consensus size: 40
17471935 GTTTGGACAA
* *
17471945 AAAACGCCACTAAAAATCGAGCATTAGCGGCGCTT-TACGT
1 AAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTCTA-GG
* * *
17471985 AAAACGCCGCTAAAGATCGAGCATTAGCAGCGTTTCTAGG
1 AAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTCTAGG
* * * *
17472025 AAAGCGCCGCTAAAAAAT--AGCATTAGCGGCGTTTTTTAGA
1 AAAACGCCGCT-AAAAATCGAGCATTAGCGGCG-CTTCTAGG
17472065 AAAACGCCGC-AAAAA
1 AAAACGCCGCTAAAAA
17472080 GTCTAAGCCC
Statistics
Matches: 81, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
38 5 0.06
39 12 0.15
40 57 0.70
41 7 0.09
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.19
Consensus pattern (40 bp):
AAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTCTAGG
Found at i:17472057 original size:39 final size:39
Alignment explanation
Indices: 17471927--17472059 Score: 126
Period size: 40 Copynumber: 3.3 Consensus size: 39
17471917 AGTGGCATTT
* ** *
17471927 TTAGCGGCGTTTGGACAAAAAACGCCACTAAAAATCGAGCA
1 TTAGCGGCGTTT-TACGGAAAACGCCGCTAAAAATC-AGCA
* * *
17471968 TTAGCGGCGCTTTACGTAAAACGCCGCTAAAGATCGAGCA
1 TTAGCGGCGTTTTACGGAAAACGCCGCTAAAAATC-AGCA
* *
17472008 TTAGCAGCGTTTCTA-GGAAAGCGCCGCTAAAAAAT-AGCA
1 TTAGCGGCGTTT-TACGGAAAACGCCGCT-AAAAATCAGCA
17472047 TTAGCGGCGTTTT
1 TTAGCGGCGTTTT
17472060 TTAGAAAAAC
Statistics
Matches: 78, Mismatches: 12, Indels: 7
0.80 0.12 0.07
Matches are distributed among these distances:
38 1 0.01
39 15 0.19
40 44 0.56
41 18 0.23
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.22
Consensus pattern (39 bp):
TTAGCGGCGTTTTACGGAAAACGCCGCTAAAAATCAGCA
Found at i:17472198 original size:41 final size:41
Alignment explanation
Indices: 17472116--17472368 Score: 391
Period size: 41 Copynumber: 6.1 Consensus size: 41
17472106 ACCTTACAAT
* *
17472116 TCTTTAGCGGCG-TTTTGAAAAAAAGTGCCGCTAATGCTCAGA
1 TCTTTAGCGGCGTTTTTG--AGAAAGCGCCGCTAATGCTCAGA
17472158 TCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGA
1 TCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGA
* * *
17472199 TCTTTAGCGGCATTTTTGAGAAAGCGCCGCTAGTACTCAGA
1 TCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGA
* * *
17472240 TCTTTAGCGGCGTTTTTAAGAATGCGCCGCTAATGCTTAGA
1 TCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGA
*
17472281 TCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTTAGA
1 TCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGA
*
17472322 TCTCTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGA
1 TCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGA
17472363 TCTTTA
1 TCTTTA
17472369 ATTGAACATT
Statistics
Matches: 194, Mismatches: 16, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
41 177 0.91
42 12 0.06
43 5 0.03
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (41 bp):
TCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGA
Found at i:17472751 original size:14 final size:15
Alignment explanation
Indices: 17472724--17472755 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
17472714 AGGTTTATAA
17472724 ATTATGGAATTAGGG
1 ATTATGGAATTAGGG
17472739 ATTATGG-ATTAGGG
1 ATTATGGAATTAGGG
17472753 ATT
1 ATT
17472756 TTGATTTAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.31, C:0.00, G:0.31, T:0.38
Consensus pattern (15 bp):
ATTATGGAATTAGGG
Found at i:17472928 original size:82 final size:82
Alignment explanation
Indices: 17472842--17473003 Score: 245
Period size: 82 Copynumber: 2.0 Consensus size: 82
17472832 TTTAGTGTTA
* *
17472842 GGTTAGGGTTTAGGATTTAGATTAATTAATGTGTTTTAATTTATATATCAAATAATGTTTAGGGG
1 GGTTAGGGTTTAGGATTTAGATTAATTAATGTGTTTTAATTTATATATCAAATAAGGTTTAGAGG
17472907 TTAG-GGATTTGGGGTCG
66 TTAGTGG-TTTGGGGTCG
* * * * *
17472924 GGTTAGGGTTTATGATTTAGATTAATTAGTGTTTTTTAATTTCTATATTAAATAAGGTTTAGAGG
1 GGTTAGGGTTTAGGATTTAGATTAATTAATGTGTTTTAATTTATATATCAAATAAGGTTTAGAGG
17472989 TTAGTGGTTTGGGGT
66 TTAGTGGTTTGGGGT
17473004 TTGGGGTTAA
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
82 70 0.97
83 2 0.03
ACGTcount: A:0.26, C:0.02, G:0.27, T:0.45
Consensus pattern (82 bp):
GGTTAGGGTTTAGGATTTAGATTAATTAATGTGTTTTAATTTATATATCAAATAAGGTTTAGAGG
TTAGTGGTTTGGGGTCG
Found at i:17473412 original size:17 final size:16
Alignment explanation
Indices: 17473379--17473412 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
17473369 ATATTAGATT
*
17473379 TAAAAAAATTAATAAA
1 TAAAAAAATTAACAAA
17473395 TAAAAAAATGTAACAAA
1 TAAAAAAAT-TAACAAA
17473412 T
1 T
17473413 TGATACGGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (16 bp):
TAAAAAAATTAACAAA
Found at i:17473723 original size:12 final size:12
Alignment explanation
Indices: 17473706--17473738 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
17473696 AAATCAATTT
17473706 ATAAAAAATAAA
1 ATAAAAAATAAA
*
17473718 ATAAAAAAT-TA
1 ATAAAAAATAAA
17473729 ATAAAAAATA
1 ATAAAAAATA
17473739 CGAACATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (12 bp):
ATAAAAAATAAA
Found at i:17478414 original size:43 final size:43
Alignment explanation
Indices: 17478366--17478570 Score: 191
Period size: 43 Copynumber: 4.8 Consensus size: 43
17478356 TCTTTATTGT
* * * *
17478366 GGCGTTTGTTGTATAAGGGTCGCTAAAGGTCGTGGCCTTTAAT
1 GGCGTTTGTTGTAAAAGCGCCGCTAAAGGTCGTGGCCTTTAAC
* * * *
17478409 GGCGTTT-TTGGGAAAAGCGTCGCTAAAGATCGTGGCCTTTAGC
1 GGCGTTTGTT-GTAAAAGCGCCGCTAAAGGTCGTGGCCTTTAAC
* * * *
17478452 GGTGTTT-TT-TAGAAATGCGCCGCTAAAGGTCATGGTCTTTAGC
1 GGCGTTTGTTGTA-AAA-GCGCCGCTAAAGGTCGTGGCCTTTAAC
* * * * * *
17478495 GGCGTTTGTGGGATAAGCGCCGCTAAAAGTCATGGTCTTTAAC
1 GGCGTTTGTTGTAAAAGCGCCGCTAAAGGTCGTGGCCTTTAAC
*
17478538 GGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCGT
1 GGCGTTTGTTGTAAAAGCGCCGCTAAAGGTCGT
17478571 TTTTAGAAAC
Statistics
Matches: 135, Mismatches: 22, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
41 1 0.01
42 5 0.04
43 125 0.93
44 3 0.02
45 1 0.01
ACGTcount: A:0.21, C:0.17, G:0.32, T:0.30
Consensus pattern (43 bp):
GGCGTTTGTTGTAAAAGCGCCGCTAAAGGTCGTGGCCTTTAAC
Found at i:17478492 original size:86 final size:86
Alignment explanation
Indices: 17478336--17478568 Score: 217
Period size: 86 Copynumber: 2.7 Consensus size: 86
17478326 GTGTTTGTTA
** * * * * *
17478336 AAAAGCGCCGCTAAAAGTCAT---CTTTATTGTGGCGTTTGTTGTATAAGGGTCGCTAAAGGTCG
1 AAAAGCGCCGCTAAAAGTCATGGCCTTTA--ACGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCA
* *
17478398 TGGCCTTTAATGGCGTTTTTGGG
64 TGGCCTTTAACGGCGTTTGTGGG
* * * * *
17478421 AAAAGCGTCGCT-AAAGATCGTGGCCTTTAGCGGTGTTT-T-TTAGAAATGCGCCGCTAAAGGTC
1 AAAAGCGCCGCTAAAAG-TCATGGCCTTTAACGGCGTTTGTGGTA-AAA-GCGCCGCTAAAGGTC
* *
17478483 ATGGTCTTTAGCGGCGTTTGTGGG
63 ATGGCCTTTAACGGCGTTTGTGGG
* *
17478507 ATAAGCGCCGCTAAAAGTCATGGTCTTTAACGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTC
1 AAAAGCGCCGCTAAAAGTCATGGCCTTTAACGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTC
17478569 GTTTTTAGAA
Statistics
Matches: 119, Mismatches: 20, Indels: 17
0.76 0.13 0.11
Matches are distributed among these distances:
84 6 0.05
85 17 0.14
86 81 0.68
87 8 0.07
88 7 0.06
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.30
Consensus pattern (86 bp):
AAAAGCGCCGCTAAAAGTCATGGCCTTTAACGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCATG
GCCTTTAACGGCGTTTGTGGG
Found at i:17478554 original size:129 final size:126
Alignment explanation
Indices: 17478319--17478570 Score: 308
Period size: 129 Copynumber: 2.0 Consensus size: 126
17478309 AAGTCATGTT
* * * *
17478319 TTTAGCGGTGTTTGTTAAAAAGCGCCGCTAAAAGTCATCTTTATTGTGGCGTTTGTTGTATAAGG
1 TTTAGCGGTGTTTGTTAAAAAGCGCCGCTAAAAGTCATCTTTA-TGCGGCGTTTGTGGGATAAGC
* * * * * *
17478384 GTCGCTAAAGGTCGTGGCCTTTAATGGCGTTTTTGGGAAAAGCGTCGCTAAAGATCGTGGCC
65 GCCGCTAAAAGTCATGGCCTTTAACGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCGTGGCC
* * *
17478446 TTTAGCGGTGTTTTTTAGAAATGCGCCGCTAAAGGTCATGGTCTTTA-GCGGCGTTTGTGGGATA
1 TTTAGCGGTGTTTGTTA-AAAAGCGCCGCTAAAAGTCA---TCTTTATGCGGCGTTTGTGGGATA
* * *
17478510 AGCGCCGCTAAAAGTCATGGTCTTTAACGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCGT
62 AGCGCCGCTAAAAGTCATGGCCTTTAACGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCGT
17478571 TTTTAGAAAC
Statistics
Matches: 105, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
127 16 0.15
128 18 0.17
129 65 0.62
131 6 0.06
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.32
Consensus pattern (126 bp):
TTTAGCGGTGTTTGTTAAAAAGCGCCGCTAAAAGTCATCTTTATGCGGCGTTTGTGGGATAAGCG
CCGCTAAAAGTCATGGCCTTTAACGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCGTGGCC
Done.