Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 228 of 290
Found at i:78816422 original size:9 final size:9
Alignment explanation
Indices: 78816393--78816432 Score: 50
Period size: 8 Copynumber: 4.8 Consensus size: 9
78816383 TAATGTAACG
78816393 TCCCAAAAA
1 TCCCAAAAA
*
78816402 TCCC-GAAA
1 TCCCAAAAA
78816410 -CCCAAAAA
1 TCCCAAAAA
78816418 TCCC-AAAA
1 TCCCAAAAA
78816426 TCCCAAA
1 TCCCAAA
78816433 CTTACTTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
7 3 0.12
8 14 0.54
9 9 0.35
ACGTcount: A:0.50, C:0.38, G:0.03, T:0.10
Consensus pattern (9 bp):
TCCCAAAAA
Found at i:78817968 original size:29 final size:29
Alignment explanation
Indices: 78817923--78818041 Score: 136
Period size: 29 Copynumber: 4.2 Consensus size: 29
78817913 GTGATCATGA
*
78817923 ATAT-AATATGATTTGGGCCTAATGGGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
* *
78817951 ATATGAATGTGAATTGGGCCTAGTGGGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
* *
78817980 ATAAGAATATGAACTGGGCC-AGATGGGCC
1 ATATGAATATGAATTGGGCCTA-ATGGGCC
* * *
78818009 ATTTGAATAAG-ATTGGGCCTAGTGGGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
78818037 ATATG
1 ATATG
78818042 CATGTATGTA
Statistics
Matches: 75, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
28 22 0.29
29 53 0.71
ACGTcount: A:0.29, C:0.14, G:0.30, T:0.27
Consensus pattern (29 bp):
ATATGAATATGAATTGGGCCTAATGGGCC
Found at i:78817991 original size:58 final size:57
Alignment explanation
Indices: 78817927--78818039 Score: 156
Period size: 58 Copynumber: 2.0 Consensus size: 57
78817917 TCATGAATAT
** **
78817927 AATATGATTTGGGCCTA-ATGGGCCATATGAATGTGAATTGGGCCTAGTGGGCCATAAG
1 AATATGAACTGGGCC-AGATGGGCCATATGAATAAG-ATTGGGCCTAGTGGGCCATAAG
*
78817985 AATATGAACTGGGCCAGATGGGCCATTTGAATAAGATTGGGCCTAGTGGGCCATA
1 AATATGAACTGGGCCAGATGGGCCATATGAATAAGATTGGGCCTAGTGGGCCATA
78818040 TGCATGTATG
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
57 21 0.43
58 28 0.57
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (57 bp):
AATATGAACTGGGCCAGATGGGCCATATGAATAAGATTGGGCCTAGTGGGCCATAAG
Found at i:78819924 original size:17 final size:19
Alignment explanation
Indices: 78819882--78819927 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
78819872 ATGAAATTTT
*
78819882 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
78819901 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
78819919 AA-TATTATT
1 AATTATTATT
78819928 GTAAGTATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 7 0.28
18 4 0.16
19 14 0.56
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.43
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:78822559 original size:20 final size:20
Alignment explanation
Indices: 78822413--78822559 Score: 258
Period size: 20 Copynumber: 7.3 Consensus size: 20
78822403 ATTTTGATAA
*
78822413 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
78822433 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
78822453 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
78822473 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
78822493 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
78822513 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
78822533 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
78822553 ACATGAT
1 ACATGAT
78822560 GTAATCATAA
Statistics
Matches: 120, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 120 1.00
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:78822877 original size:31 final size:31
Alignment explanation
Indices: 78822839--78822902 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
78822829 CATTTACAGT
78822839 AAAGGCTTCAT-CCCAATAATATGAAATATGA
1 AAAGGCTTC-TGCCCAATAATATGAAATATGA
* **
78822870 AAAGGCTTCTGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCTGCCCAATAATATGAAATATGA
78822901 AA
1 AA
78822903 TATGAAATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 1 0.03
31 28 0.97
ACGTcount: A:0.41, C:0.16, G:0.17, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCTGCCCAATAATATGAAATATGA
Found at i:78822901 original size:7 final size:7
Alignment explanation
Indices: 78822889--78822916 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
78822879 TGCCCAGTGT
78822889 TATGAAA
1 TATGAAA
78822896 TATGAAA
1 TATGAAA
78822903 TATGAAA
1 TATGAAA
78822910 TATGAAA
1 TATGAAA
78822917 AGGGCTACGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.14, T:0.29
Consensus pattern (7 bp):
TATGAAA
Found at i:78826460 original size:40 final size:40
Alignment explanation
Indices: 78826377--78826639 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
78826367 TTGAATGCTG
* * * * * *
78826377 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
78826417 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
78826457 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
78826497 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
78826537 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
78826577 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
78826616 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
78826640 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:78826659 original size:79 final size:80
Alignment explanation
Indices: 78826416--78826674 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
78826406 AAGTGAATAT
* * * * * *
78826416 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
78826480 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
78826496 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
78826561 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
78826576 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
78826640 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
78826655 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
78826675 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:78834533 original size:39 final size:40
Alignment explanation
Indices: 78834329--78834551 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
78834319 TTGAATGCTG
* * * * * *
78834329 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
78834369 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
78834409 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
78834449 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
78834489 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
78834528 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
78834552 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:78834571 original size:79 final size:80
Alignment explanation
Indices: 78834404--78834586 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
78834394 GTGCGAGATA
* * *
78834404 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
78834469 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
78834484 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
78834548 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
78834563 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
78834587 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:78847245 original size:27 final size:27
Alignment explanation
Indices: 78847216--78847312 Score: 124
Period size: 27 Copynumber: 3.6 Consensus size: 27
78847206 CGATTTACAA
* *
78847216 AATTACCGAAATACCCTTTTA-GGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
78847242 AAATACCCAAAATACCCCTGTAGGGTAG
1 AATTA-CCGAAATACCCCTGTAGGGTAG
*
78847270 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
78847297 AATTACCGAGATACCC
1 AATTACCGAAATACCC
78847313 TTGTGGGGNN
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
26 4 0.07
27 47 0.78
28 9 0.15
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.24
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:78852411 original size:27 final size:26
Alignment explanation
Indices: 78852327--78852559 Score: 182
Period size: 27 Copynumber: 8.7 Consensus size: 26
78852317 TTAGTTTACC
78852327 AAAA-TACCAAAATACCCCTAGA-TTGT
1 AAAATTACCAAAATA-CCCT-GATTTGT
* * * * **
78852353 ACAATTACTAAAGTACCCTTGGTTTAC
1 AAAATTACCAAAATACCC-TGATTTGT
* * *
78852380 CAAATCACCAAAATATCCCTGGTTTGT
1 AAAATTACCAAAATA-CCCTGATTTGT
*
78852407 AAAATTACCAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCC-TGATTTGT
* *
78852434 AAAATTATCAAAATACCCCTAATTTGT
1 AAAATTACCAAAATA-CCCTGATTTGT
78852461 AAAATTACCAAAATACCCCTGATTTGT
1 AAAATTACCAAAATA-CCCTGATTTGT
* * **
78852488 GAAATTACTAAAATACCCTCGACCTGT
1 AAAATTACCAAAATACCCT-GATTTGT
*** *
78852515 AAAATTATTGAAATACCCTCGACTTGT
1 AAAATTACCAAAATACCCT-GATTTGT
*
78852542 AAAATTACCAAAGTACCC
1 AAAATTACCAAAATACCC
78852560 CTAATTTACA
Statistics
Matches: 168, Mismatches: 32, Indels: 13
0.79 0.15 0.06
Matches are distributed among these distances:
26 14 0.08
27 148 0.88
28 6 0.04
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.29
Consensus pattern (26 bp):
AAAATTACCAAAATACCCTGATTTGT
Found at i:78852471 original size:81 final size:81
Alignment explanation
Indices: 78852381--78852566 Score: 221
Period size: 81 Copynumber: 2.3 Consensus size: 81
78852371 TTGGTTTACC
* * * * ***
78852381 AAATCACCAAAATATCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTATCAAA
1 AAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTCGACCTGTAAAATTATCAAA
*
78852446 ATACCC-CTAATTTGTA
66 ATACCCTC-AACTTGTA
* * **
78852462 AAATTACCAAAATACCCCTGATTTGTGAAATTACTAAAATACCCTCGACCTGTAAAATTATTGAA
1 AAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTCGACCTGTAAAATTATCAAA
*
78852527 ATACCCTCGACTTGTA
66 ATACCCTCAACTTGTA
* *
78852543 AAATTACCAAAGTACCCCTAATTT
1 AAATTACCAAAATACCCCTGATTT
78852567 ACAGAATTAC
Statistics
Matches: 89, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
81 88 0.99
82 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.31
Consensus pattern (81 bp):
AAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTCGACCTGTAAAATTATCAAA
ATACCCTCAACTTGTA
Found at i:78852612 original size:27 final size:27
Alignment explanation
Indices: 78852515--78852615 Score: 69
Period size: 27 Copynumber: 3.7 Consensus size: 27
78852505 CTCGACCTGT
* ** * **
78852515 AAAATTATTGAAATACCCTCGACTTGT
1 AAAATTATCGAAATACCCTTAATTTAC
* *
78852542 AAAATTA-CCAAAGTACCCCTAATTTAC
1 AAAATTATCGAAA-TACCCTTAATTTAC
* * ***
78852569 AGAATTACCGTTTTACCCTTAATTTAC
1 AAAATTATCGAAATACCCTTAATTTAC
78852596 AAAATTATCGAAATACCCTT
1 AAAATTATCGAAATACCCTT
78852616 GTAGGGTAGA
Statistics
Matches: 53, Mismatches: 19, Indels: 4
0.70 0.25 0.05
Matches are distributed among these distances:
26 3 0.06
27 49 0.92
28 1 0.02
ACGTcount: A:0.39, C:0.22, G:0.07, T:0.33
Consensus pattern (27 bp):
AAAATTATCGAAATACCCTTAATTTAC
Found at i:78852634 original size:27 final size:27
Alignment explanation
Indices: 78852598--78852712 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 27
78852588 TAATTTACAA
* *
78852598 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
78852625 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
78852652 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * * *
78852679 AATTACCGAGATACCCTTATGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
78852706 AATTACC
1 AATTACC
78852713 ATTTTACCCC
Statistics
Matches: 77, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 77 1.00
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:78853003 original size:27 final size:26
Alignment explanation
Indices: 78852959--78853010 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
78852949 CTCGCTGCAA
*
78852959 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
78852986 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
78853011 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:78853048 original size:67 final size:67
Alignment explanation
Indices: 78852940--78853115 Score: 298
Period size: 67 Copynumber: 2.6 Consensus size: 67
78852930 GAGAAAGCGT
* *
78852940 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTCTTCTGGTCACTTCGTCACAA
78853005 TA
66 TA
*
78853007 TCTGGCAGCCTCGCTGCAATCTGGTAGCCTCGCCACATATATCTCTTCTGGTCACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTCTTCTGGTCACTTCGTCACAA
78853072 TA
66 TA
* * *
78853074 TCTGGCAGCCTCGCTACAATCTGGTGGCTTTGCCACATATAT
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATAT
78853116 ATATATATCT
Statistics
Matches: 102, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 102 1.00
ACGTcount: A:0.19, C:0.31, G:0.20, T:0.30
Consensus pattern (67 bp):
TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTCTTCTGGTCACTTCGTCACAA
TA
Found at i:78853307 original size:6 final size:6
Alignment explanation
Indices: 78853298--78853428 Score: 90
Period size: 6 Copynumber: 21.3 Consensus size: 6
78853288 TTGCATTCAC
* *
78853298 ATTCTG ATTCTG ATTCT- ATTACCTG ATACTG ATTCTG ATTCTG -TTACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATT--CTG
* * * * *
78853348 ATTCTG ATTCTG ATTTTG ATTTTG ATTCTG -TCACCTG ATTTTG ATTATG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
* *
78853397 ATTCTG ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
78853429 AATGTTTCTT
Statistics
Matches: 99, Mismatches: 15, Indels: 22
0.73 0.11 0.16
Matches are distributed among these distances:
5 7 0.07
6 79 0.80
7 8 0.08
8 5 0.05
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:78853329 original size:25 final size:25
Alignment explanation
Indices: 78853301--78853362 Score: 97
Period size: 25 Copynumber: 2.5 Consensus size: 25
78853291 CATTCACATT
*
78853301 CTGATTCTGATTCTATTACCTGATA
1 CTGATTCTGATTCTATTACCTAATA
* *
78853326 CTGATTCTGATTCTGTTACCTAATT
1 CTGATTCTGATTCTATTACCTAATA
78853351 CTGATTCTGATT
1 CTGATTCTGATT
78853363 TTGATTTTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.47
Consensus pattern (25 bp):
CTGATTCTGATTCTATTACCTAATA
Found at i:78853333 original size:31 final size:31
Alignment explanation
Indices: 78853298--78853407 Score: 109
Period size: 31 Copynumber: 3.5 Consensus size: 31
78853288 TTGCATTCAC
*
78853298 ATTCTGATTCTGATTCTATTACCTGATACTG
1 ATTCTGATTCTGATTCTATTACCTGATTCTG
78853329 ATTCTGATTCTG-TTACCTAATT--CTGATTCTG
1 ATTCTGATTCTGATT--CT-ATTACCTGATTCTG
* * * * *
78853360 ATTTTGATTTTGATTCTGTCACCTGATTTTG
1 ATTCTGATTCTGATTCTATTACCTGATTCTG
*
78853391 ATTATGATTCTGATTCT
1 ATTCTGATTCTGATTCT
78853408 CATTTTGATT
Statistics
Matches: 65, Mismatches: 8, Indels: 12
0.76 0.09 0.14
Matches are distributed among these distances:
29 1 0.02
30 4 0.06
31 53 0.82
32 4 0.06
33 3 0.05
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.50
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTATTACCTGATTCTG
Found at i:78853361 original size:37 final size:37
Alignment explanation
Indices: 78853320--78853407 Score: 113
Period size: 37 Copynumber: 2.4 Consensus size: 37
78853310 ATTCTATTAC
* *
78853320 CTGATACTGATTCTGATTCTGTTACCTAATTCTGATT
1 CTGATTCTGATTCTGATTCTGTCACCTAATTCTGATT
* * * *
78853357 CTGATTTTGATTTTGATTCTGTCACCTGATTTTGATT
1 CTGATTCTGATTCTGATTCTGTCACCTAATTCTGATT
*
78853394 ATGATTCTGATTCT
1 CTGATTCTGATTCT
78853408 CATTTTGATT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.19, C:0.16, G:0.15, T:0.50
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTGTCACCTAATTCTGATT
Found at i:78866684 original size:17 final size:16
Alignment explanation
Indices: 78866653--78866686 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
78866643 TTCATCCACC
78866653 GAAAACAAAAACAAAA
1 GAAAACAAAAACAAAA
*
78866669 GAAAAGAAACAACAAAA
1 GAAAACAAA-AACAAAA
78866686 G
1 G
78866687 CTAGGTTCAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.76, C:0.12, G:0.12, T:0.00
Consensus pattern (16 bp):
GAAAACAAAAACAAAA
Found at i:78868096 original size:15 final size:15
Alignment explanation
Indices: 78868076--78868105 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
78868066 CATTTAAATG
78868076 TATGTAACGCCCTAA
1 TATGTAACGCCCTAA
78868091 TATGTAACGCCCTAA
1 TATGTAACGCCCTAA
78868106 AAATAGGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (15 bp):
TATGTAACGCCCTAA
Found at i:78870381 original size:33 final size:33
Alignment explanation
Indices: 78870339--78870418 Score: 124
Period size: 33 Copynumber: 2.4 Consensus size: 33
78870329 TGCATTATGC
* *
78870339 ACTGTACTGATACTAAATAGGGCTTTGGCCTAG
1 ACTGTACTGATACTAAATAGGGCTTCGGCCCAG
* *
78870372 ACTGTACTGATATTGAATAGGGCTTCGGCCCAG
1 ACTGTACTGATACTAAATAGGGCTTCGGCCCAG
78870405 ACTGTACTGATACT
1 ACTGTACTGATACT
78870419 GTGTTGATCA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (33 bp):
ACTGTACTGATACTAAATAGGGCTTCGGCCCAG
Found at i:78877249 original size:36 final size:36
Alignment explanation
Indices: 78877202--78877273 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
78877192 ATTGTTGGGA
78877202 ATTGGTGAGTACGTAGTTAGGGGTTAACCCAAGCGT
1 ATTGGTGAGTACGTAGTTAGGGGTTAACCCAAGCGT
*
78877238 ATTGGTGAGTACGTAGTTGGGGGTTAACCCAAGCGT
1 ATTGGTGAGTACGTAGTTAGGGGTTAACCCAAGCGT
78877274 TGGAGAACTG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.24, C:0.14, G:0.35, T:0.28
Consensus pattern (36 bp):
ATTGGTGAGTACGTAGTTAGGGGTTAACCCAAGCGT
Found at i:78878227 original size:21 final size:22
Alignment explanation
Indices: 78878203--78878244 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
78878193 TATCCCCATA
*
78878203 GGTGTGCTGGTTGG-TATGGGT
1 GGTGTGCTGGATGGTTATGGGT
*
78878224 GGTGTGTTGGATGGTTATGGG
1 GGTGTGCTGGATGGTTATGGG
78878245 ATGGGTTTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.07, C:0.02, G:0.52, T:0.38
Consensus pattern (22 bp):
GGTGTGCTGGATGGTTATGGGT
Found at i:78878341 original size:33 final size:33
Alignment explanation
Indices: 78878261--78878341 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
78878251 TTCATTATGC
* * *
78878261 ACTGTACTGATACTAAATAGGGCTTTGGCCTAG
1 ACTGTACTGATACTGAATAGGGCTTCGGCCCAG
78878294 ACTGTACTGATACTGAATAGGGCTTCGGCCCAG
1 ACTGTACTGATACTGAATAGGGCTTCGGCCCAG
78878327 ACTGTACTGATACTG
1 ACTGTACTGATACTG
78878342 TGTTGATCAC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (33 bp):
ACTGTACTGATACTGAATAGGGCTTCGGCCCAG
Found at i:78881689 original size:20 final size:21
Alignment explanation
Indices: 78881664--78881705 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
78881654 TTCTGAACTG
* *
78881664 TATGATGAT-AGCGTATGAAA
1 TATGATAATGAGCATATGAAA
78881684 TATGATAATGAGCATATGAAA
1 TATGATAATGAGCATATGAAA
78881705 T
1 T
78881706 GTATAATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.43, C:0.05, G:0.21, T:0.31
Consensus pattern (21 bp):
TATGATAATGAGCATATGAAA
Found at i:78888481 original size:40 final size:40
Alignment explanation
Indices: 78888390--78888652 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
78888380 TCCTCGTTCA
* * * * *
78888390 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
78888429 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
78888469 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
78888509 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
78888549 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
78888589 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
78888629 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
78888653 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 36 0.18
40 156 0.78
41 8 0.04
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:78888661 original size:41 final size:41
Alignment explanation
Indices: 78888584--78888661 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
78888574 TTAGTATCTC
* * *
78888584 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
78888625 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
78888662 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:78895493 original size:93 final size:94
Alignment explanation
Indices: 78895384--78895597 Score: 315
Period size: 93 Copynumber: 2.3 Consensus size: 94
78895374 GTCCATAAGT
* * * *
78895384 GAACTCGAACTCAACTCAACGAGTTCGGGA-GTTCAAATCCATAAGTGAACTCAGACTCAACTCA
1 GAACTCGGACTCAACTCAATGAGTTCGGGACATCCAAATCCATAAGTGAACTCAGACTCAACTCA
*
78895448 ACGAGTTCAGATTCCTAGTTACATCTCAC
66 ACGAGTTCAGATGCCTAGTTACATCTCAC
* * ** *
78895477 GAACTCGGACTCAACTCAATGAGCTC-AGACATCCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAATGAGTTCGGGACATCCAAATCCATAAGTGAACTCAGACTCAACTCA
*
78895541 ACGAGTTCGGATGCCTAGTTACATCTCAC
66 ACGAGTTCAGATGCCTAGTTACATCTCAC
78895570 GAACTCGGACTCAACTCAATGAGTTCGG
1 GAACTCGGACTCAACTCAATGAGTTCGG
78895598 ATGCCCAAAT
Statistics
Matches: 106, Mismatches: 13, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
92 2 0.02
93 104 0.98
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.22
Consensus pattern (94 bp):
GAACTCGGACTCAACTCAATGAGTTCGGGACATCCAAATCCATAAGTGAACTCAGACTCAACTCA
ACGAGTTCAGATGCCTAGTTACATCTCAC
Found at i:78895495 original size:47 final size:47
Alignment explanation
Indices: 78895430--78895595 Score: 180
Period size: 47 Copynumber: 3.6 Consensus size: 47
78895420 ATCCATAAGT
*
78895430 GAACTCAGACTCAACTCAACGAGTTCAGATTCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCAGATTCCTAGTTACATCTCAC
* * * * *
78895477 GAACTCGGACTCAACTCAATGAGCTCAGACATCC--G---CATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCAGA-TTCCTAGTTACAT-C-TCA-C
* *
78895523 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCAGATTCCTAGTTACATCTCAC
*
78895570 GAACTCGGACTCAACTCAATGAGTTC
1 GAACTCGGACTCAACTCAACGAGTTC
78895596 GGATGCCCAA
Statistics
Matches: 96, Mismatches: 14, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 4 0.04
46 27 0.28
47 52 0.54
48 5 0.05
49 1 0.01
50 3 0.03
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.23
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCAGATTCCTAGTTACATCTCAC
Found at i:78896610 original size:25 final size:25
Alignment explanation
Indices: 78896582--78896632 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
78896572 CATGTCCAAT
78896582 TTTTGTCCATAAACTTAGAAATTGG
1 TTTTGTCCATAAACTTAGAAATTGG
*
78896607 TTTTGTCCATAAACTTATAAATTGG
1 TTTTGTCCATAAACTTAGAAATTGG
78896632 T
1 T
78896633 CAAATTTCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.43
Consensus pattern (25 bp):
TTTTGTCCATAAACTTAGAAATTGG
Found at i:78900784 original size:28 final size:27
Alignment explanation
Indices: 78900752--78900837 Score: 84
Period size: 27 Copynumber: 3.1 Consensus size: 27
78900742 CTAGCATGCT
78900752 AAAATA-TCAACATACATCACATAAGGGC
1 AAAATAGTCAACATAC--CACATAAGGGC
* * *
78900780 AAAATAGTCATCTTACCATATAAGGGC
1 AAAATAGTCAACATACCACATAAGGGC
*** *
78900807 AAAATAGTCATTTTACCACATAAGGGA
1 AAAATAGTCAACATACCACATAAGGGC
78900834 AAAA
1 AAAA
78900838 CGGTCATTAT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
27 38 0.75
28 6 0.12
29 7 0.14
ACGTcount: A:0.48, C:0.17, G:0.13, T:0.22
Consensus pattern (27 bp):
AAAATAGTCAACATACCACATAAGGGC
Found at i:78900845 original size:27 final size:27
Alignment explanation
Indices: 78900769--78900837 Score: 111
Period size: 27 Copynumber: 2.6 Consensus size: 27
78900759 CAACATACAT
*
78900769 CACATAAGGGCAAAATAGTCATCTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
*
78900796 CATATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
*
78900823 CACATAAGGGAAAAA
1 CACATAAGGGCAAAA
78900838 CGGTCATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.45, C:0.17, G:0.16, T:0.22
Consensus pattern (27 bp):
CACATAAGGGCAAAATAGTCATTTTAC
Found at i:78903945 original size:41 final size:41
Alignment explanation
Indices: 78903892--78904014 Score: 212
Period size: 41 Copynumber: 3.0 Consensus size: 41
78903882 TTTGATGTGG
78903892 AATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGA
1 AATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGA
*
78903933 AATTGTATCCGGGCTTAAAGACGCGCAGGCTTCGTGCTGG-
1 AATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGA
* *
78903973 AATTGTATCCGGGCTTAAAGACCCGTAGGCTTCATGCTGGA
1 AATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGA
78904014 A
1 A
78904015 TGACATCCGG
Statistics
Matches: 77, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
40 37 0.48
41 40 0.52
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (41 bp):
AATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGA
Found at i:78904025 original size:40 final size:40
Alignment explanation
Indices: 78903889--78904015 Score: 218
Period size: 40 Copynumber: 3.1 Consensus size: 40
78903879 TTATTTGATG
78903889 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
*
78903929 TGGAAATTGTATCCGGGCTTAAAGACGCGCAGGCTTCGTGC
1 TGG-AATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
* *
78903970 TGGAATTGTATCCGGGCTTAAAGACCCGTAGGCTTCATGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
78904010 TGGAAT
1 TGGAAT
78904016 GACATCCGGG
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
40 43 0.52
41 39 0.48
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (40 bp):
TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
Found at i:78907795 original size:28 final size:28
Alignment explanation
Indices: 78907755--78907819 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
78907745 ATGTACTAGA
*
78907755 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
78907783 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
78907811 ATACCCCTA
1 ATACCCCTA
78907820 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:78907983 original size:27 final size:27
Alignment explanation
Indices: 78907925--78908014 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
78907915 AGGAAGCGTC
78907925 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
78907953 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
78907980 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
78908009 CTGGTG
1 CTGGTG
78908015 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:78908033 original size:55 final size:56
Alignment explanation
Indices: 78907925--78908039 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
78907915 AGGAAGCGTC
* *
78907925 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
78907980 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
78908036 CTGG
1 CTGG
78908040 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.58
56 21 0.40
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:78908502 original size:19 final size:19
Alignment explanation
Indices: 78908478--78908516 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
78908468 TTTTAATTAT
* *
78908478 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
78908497 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
78908516 T
1 T
78908517 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:78918250 original size:20 final size:20
Alignment explanation
Indices: 78918225--78918280 Score: 96
Period size: 20 Copynumber: 2.8 Consensus size: 20
78918215 AAGCTTATGC
78918225 TAAGTAAATGGAATGGAAAG
1 TAAGTAAATGGAATGGAAAG
78918245 TAAGTAAAT-GAAGTGGAAAG
1 TAAGTAAATGGAA-TGGAAAG
78918265 TAAGTAAATGGAATGG
1 TAAGTAAATGGAATGG
78918281 TTCATCATCA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
19 3 0.09
20 28 0.82
21 3 0.09
ACGTcount: A:0.48, C:0.00, G:0.30, T:0.21
Consensus pattern (20 bp):
TAAGTAAATGGAATGGAAAG
Found at i:78920550 original size:46 final size:44
Alignment explanation
Indices: 78920464--78920721 Score: 243
Period size: 46 Copynumber: 5.6 Consensus size: 44
78920454 GTAAAGTGCT
* *
78920464 GATGCCATGTCCCAGACAAGGTCTTACACTGAC-ACATTTCATAGCC
1 GATG-CATGTCCCAAAC-ATGTCTTACACTGACTACATTTCA-AGCC
* * **
78920510 GATGCATGTCTCATACATGTCTTACACTGACTTACATTTCAAGGTT
1 GATGCATGTCCCAAACATGTCTTACACTGAC-TACATTTCAA-GCC
* * *
78920556 GATGCATGTCCCAAACATGTCATACACTAGCACT-CGTCTCAATGCC
1 GATGCATGTCCCAAACATGTCTTACACT-G-ACTACATTTCAA-GCC
* *
78920602 GATGCCATATCCCAGACATGGTCTTACACTGAC-ACATTTCATAGCC
1 GATG-CATGTCCCAAACAT-GTCTTACACTGACTACATTTCA-AGCC
* * * *
78920648 GATGCATGTCCCAGACATGTCTTACATTGACTTACATCTTGAGGCC
1 GATGCATGTCCCAAACATGTCTTACACTGAC-TACAT-TTCAAGCC
78920694 GATGCATGTCCCAAACATGTCTTACACT
1 GATGCATGTCCCAAACATGTCTTACACT
78920722 AGCATTCGAC
Statistics
Matches: 176, Mismatches: 24, Indels: 24
0.79 0.11 0.11
Matches are distributed among these distances:
44 26 0.15
45 24 0.14
46 96 0.55
47 19 0.11
48 11 0.06
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.28
Consensus pattern (44 bp):
GATGCATGTCCCAAACATGTCTTACACTGACTACATTTCAAGCC
Found at i:78920712 original size:138 final size:138
Alignment explanation
Indices: 78920464--78920815 Score: 483
Period size: 138 Copynumber: 2.5 Consensus size: 138
78920454 GTAAAGTGCT
* * *
78920464 GATGCCATGTCCCAGACAAGGTCTTACACTGACACATTTCATAGCCGATGCATGTCTCATACATG
1 GATGCCATATCCCAGACAAGGTCTTACACTGACACATTTCATAGCCGATGCATGTCCCAGACATG
** *
78920529 TCTTACACTGACTTACATTTCAAGGTTGATGCATGTCCCAAACATGTCATACACTAGCACTCGTC
66 TCTTACACTGACTTACATTTCAAGGCCGATGCATGTCCCAAACATGTCATACACTAGCACTCGAC
78920594 TCAATGCC
131 TCAATGCC
*
78920602 GATGCCATATCCCAGACATGGTCTTACACTGACACATTTCATAGCCGATGCATGTCCCAGACATG
1 GATGCCATATCCCAGACAAGGTCTTACACTGACACATTTCATAGCCGATGCATGTCCCAGACATG
* * * *
78920667 TCTTACATTGACTTACATCTT-GAGGCCGATGCATGTCCCAAACATGTCTTACACTAGCATTCGA
66 TCTTACACTGACTTACAT-TTCAAGGCCGATGCATGTCCCAAACATGTCATACACTAGCACTCGA
78920731 CTCAATGCC
130 CTCAATGCC
* * * * * * * *
78920740 GATGTCATATCCCAGACACGGTCTTACACTGGTTCTCATAAT-ATGGCCGATGCATATCCCAAAC
1 GATGCCATATCCCAGACAAGGTCTTACACT-G-ACACAT-TTCATAGCCGATGCATGTCCCAGAC
78920804 ATGTCTTACACT
63 ATGTCTTACACT
78920816 AGCTCACACA
Statistics
Matches: 190, Mismatches: 20, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
138 152 0.80
139 3 0.02
140 34 0.18
141 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.28
Consensus pattern (138 bp):
GATGCCATATCCCAGACAAGGTCTTACACTGACACATTTCATAGCCGATGCATGTCCCAGACATG
TCTTACACTGACTTACATTTCAAGGCCGATGCATGTCCCAAACATGTCATACACTAGCACTCGAC
TCAATGCC
Found at i:78920741 original size:46 final size:45
Alignment explanation
Indices: 78920556--78920818 Score: 173
Period size: 46 Copynumber: 5.7 Consensus size: 45
78920546 TTTCAAGGTT
* * * *
78920556 GATGCATGTCCCAAACATGTCATACACTAGCACTCGTCTCAATGCC
1 GATGCATATCCCAAACATGTCTTACACTAGCATTC-ACTCAATGCC
* *
78920602 GATGCCATATCCCAGACATGGTCTTACACT-GACA--CATTTC-ATAGCC
1 GATG-CATATCCCAAACAT-GTCTTACACTAG-CATTCA-CTCAAT-GCC
* * * ** *
78920648 GATGCATGTCCCAGACATGTCTTACA-TTG-ACTTACATCTTGAGGCC
1 GATGCATATCCCAAACATGTCTTACACTAGCA-TT-CA-CTCAATGCC
*
78920694 GATGCATGTCCCAAACATGTCTTACACTAGCATTCGACTCAATGCC
1 GATGCATATCCCAAACATGTCTTACACTAGCATTC-ACTCAATGCC
* * * * *
78920740 GATGTCATATCCCAGACACGGTCTTACACT-G-GTTCTCATAATATGGCC
1 GATG-CATATCCCAAACA-TGTCTTACACTAGCATTCAC-TCA-AT-GCC
78920788 GATGCATATCCCAAACATGTCTTACACTAGC
1 GATGCATATCCCAAACATGTCTTACACTAGC
78920819 TCACACAAGT
Statistics
Matches: 174, Mismatches: 22, Indels: 40
0.74 0.09 0.17
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
44 9 0.05
45 16 0.09
46 72 0.41
47 46 0.26
48 29 0.17
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.27
Consensus pattern (45 bp):
GATGCATATCCCAAACATGTCTTACACTAGCATTCACTCAATGCC
Found at i:78926619 original size:21 final size:20
Alignment explanation
Indices: 78926588--78926626 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
78926578 TCTTTGAAAT
78926588 AGGGCACACGCCTGTGTGGA
1 AGGGCACACGCCTGTGTGGA
78926608 AGGGCAACACGCCTGTGTG
1 AGGGC-ACACGCCTGTGTG
78926627 ACCAATTCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.21, C:0.26, G:0.38, T:0.15
Consensus pattern (20 bp):
AGGGCACACGCCTGTGTGGA
Found at i:78928033 original size:43 final size:43
Alignment explanation
Indices: 78927981--78928186 Score: 315
Period size: 43 Copynumber: 4.8 Consensus size: 43
78927971 CCTGCATTAC
78927981 GCCTGCTAGGCTCGAAGCCCGATATTAACTCACCGACATTATA
1 GCCTGCTAGGCTCGAAGCCCGATATTAACTCACCGACATTATA
* * * *
78928024 GCCTGCTAGGCTTGAAGCCAGATATTAACTCACTGGCATTATA
1 GCCTGCTAGGCTCGAAGCCCGATATTAACTCACCGACATTATA
* *
78928067 GCCTACTAGGCTCGAAACCCGATATTAACTCACC-AGCATTATA
1 GCCTGCTAGGCTCGAAGCCCGATATTAACTCACCGA-CATTATA
* * *
78928110 GCCTGCTAGGCTCGAAGCCCAATATTAACTCACAGGCATTATA
1 GCCTGCTAGGCTCGAAGCCCGATATTAACTCACCGACATTATA
78928153 GCCTGCTAGGCTCGAAGCCCGATATTAACTCACC
1 GCCTGCTAGGCTCGAAGCCCGATATTAACTCACC
78928187 AAGTTCCATA
Statistics
Matches: 144, Mismatches: 17, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
43 144 1.00
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (43 bp):
GCCTGCTAGGCTCGAAGCCCGATATTAACTCACCGACATTATA
Found at i:78935056 original size:33 final size:33
Alignment explanation
Indices: 78935019--78935092 Score: 78
Period size: 33 Copynumber: 2.2 Consensus size: 33
78935009 TTAGCCCCTC
*
78935019 TTTCAGTAGC-GAAGCAATCTGGGCCTGAGCCCA
1 TTTCAGTAACAGAAGCAATCTGGG-CTGAGCCCA
* * * *
78935052 TTTCAATAACAGTAGCAGTCTGGGCTTAGCCCA
1 TTTCAGTAACAGAAGCAATCTGGGCTGAGCCCA
*
78935085 TTTTAGTA
1 TTTCAGTA
78935093 CAGTATGCAA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
33 22 0.67
34 11 0.33
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (33 bp):
TTTCAGTAACAGAAGCAATCTGGGCTGAGCCCA
Found at i:78938711 original size:28 final size:28
Alignment explanation
Indices: 78938666--78938800 Score: 112
Period size: 28 Copynumber: 4.8 Consensus size: 28
78938656 TACATATATG
*
78938666 TATATGGCCCA-CTTGGCCCAATCTCATT
1 TATATGGCCCATC-AGGCCCAATCTCATT
**
78938694 TATATGGCCCATCAGGCCCGGT-TCATAT
1 TATATGGCCCATCAGGCCCAATCTCAT-T
* * * *
78938722 TCTTATGGCCTATCAGGCCCAAATCACCTT
1 T-ATATGGCCCATCAGGCCC-AATCTCATT
* ** *
78938752 TGTGGGGCCCATTAGGCCCAATCTCATT
1 TATATGGCCCATCAGGCCCAATCTCATT
*
78938780 TATATGGCCCATCCGGCCCAA
1 TATATGGCCCATCAGGCCCAA
78938801 ATCACATTAC
Statistics
Matches: 81, Mismatches: 21, Indels: 10
0.72 0.19 0.09
Matches are distributed among these distances:
27 4 0.05
28 42 0.52
29 30 0.37
30 3 0.04
31 2 0.02
ACGTcount: A:0.21, C:0.32, G:0.19, T:0.28
Consensus pattern (28 bp):
TATATGGCCCATCAGGCCCAATCTCATT
Found at i:78939049 original size:16 final size:16
Alignment explanation
Indices: 78939028--78939058 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
78939018 CCAAACTTTC
*
78939028 GGCTTTTCGGCATTTT
1 GGCTTTTCAGCATTTT
78939044 GGCTTTTCAGCATTT
1 GGCTTTTCAGCATTT
78939059 CAACTTTGCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.19, G:0.23, T:0.48
Consensus pattern (16 bp):
GGCTTTTCAGCATTTT
Found at i:78943066 original size:30 final size:30
Alignment explanation
Indices: 78943030--78943090 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
78943020 GCTCTCCCTA
78943030 GATCCAATCCTAGACATGCACACACCCGTT
1 GATCCAATCCTAGACATGCACACACCCGTT
78943060 GATCCAATCCTAGACATGCACACACCCGTT
1 GATCCAATCCTAGACATGCACACACCCGTT
78943090 G
1 G
78943091 CCACACCTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.30, C:0.36, G:0.15, T:0.20
Consensus pattern (30 bp):
GATCCAATCCTAGACATGCACACACCCGTT
Found at i:78943218 original size:28 final size:28
Alignment explanation
Indices: 78943187--78943311 Score: 139
Period size: 28 Copynumber: 4.4 Consensus size: 28
78943177 ACATACATGC
*
78943187 ATATGGCCCACTTA-GCCCAATCTCATTT
1 ATATGGCCCA-TCAGGCCCAATCTCATTT
*
78943215 ATATGGCCCATCA-GCCCAAT-TTATATT
1 ATATGGCCCATCAGGCCCAATCTCAT-TT
* * *
78943242 CTTATGGCCCATCAGGCCCAAATCACCTTT
1 -ATATGGCCCATCAGGCCC-AATCTCATTT
*
78943272 ATATGGCCCATTAGGCCCAATCTCATTT
1 ATATGGCCCATCAGGCCCAATCTCATTT
78943300 ATATGGCCCATC
1 ATATGGCCCATC
78943312 CGGCTCAAAT
Statistics
Matches: 81, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
26 3 0.04
27 11 0.14
28 41 0.51
29 20 0.25
30 5 0.06
31 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.13, T:0.30
Consensus pattern (28 bp):
ATATGGCCCATCAGGCCCAATCTCATTT
Found at i:78943305 original size:57 final size:57
Alignment explanation
Indices: 78943186--78943331 Score: 158
Period size: 57 Copynumber: 2.6 Consensus size: 57
78943176 TACATACATG
* * *
78943186 CATATGGCCCACTTA-GCCC-AATCTCATTTATATGGCCCATCAGCCCAATTTATATT
1 CATATGGCCCA-TCAGGCCCAAATCACATTTATATGGCCCATCAGCCCAATTCATATT
* * *
78943242 CTTATGGCCCATCAGGCCCAAATCACCTTTATATGGCCCATTAGGCCCAATCTCAT-TT
1 CATATGGCCCATCAGGCCCAAATCACATTTATATGGCCCATCA-GCCCAAT-TCATATT
* *
78943300 -ATATGGCCCATCCGGCTCAAATCACA-TTATAT
1 CATATGGCCCATCAGGCCCAAATCACATTTATAT
78943332 TCATGCTCAC
Statistics
Matches: 76, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
55 2 0.03
56 20 0.26
57 42 0.55
58 9 0.12
59 3 0.04
ACGTcount: A:0.27, C:0.31, G:0.12, T:0.30
Consensus pattern (57 bp):
CATATGGCCCATCAGGCCCAAATCACATTTATATGGCCCATCAGCCCAATTCATATT
Found at i:78943329 original size:28 final size:27
Alignment explanation
Indices: 78943187--78943331 Score: 103
Period size: 28 Copynumber: 5.1 Consensus size: 27
78943177 ACATACATGC
* * *
78943187 ATATGGCCCACTTA-GCCCAATCTCATTT
1 ATATGGCCCA-TCAGGCCAAATCACA-TT
* * * *
78943215 ATATGGCCCATCAGCCCAATTTATATT
1 ATATGGCCCATCAGGCCAAATCACATT
* *
78943242 CTTATGGCCCATCAGGCCCAAATCACCTTT
1 -ATATGGCCCATCAGG-CCAAATCA-CATT
* * *
78943272 ATATGGCCCATTAGGCCCAATCTCATTT
1 ATATGGCCCATCAGGCCAAATCACA-TT
*
78943300 ATATGGCCCATCCGGCTCAAATCACATT
1 ATATGGCCCATCAGGC-CAAATCACATT
78943328 ATAT
1 ATAT
78943332 TCATGCTCAC
Statistics
Matches: 89, Mismatches: 22, Indels: 12
0.72 0.18 0.10
Matches are distributed among these distances:
27 5 0.06
28 56 0.63
29 26 0.29
30 2 0.02
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.30
Consensus pattern (27 bp):
ATATGGCCCATCAGGCCAAATCACATT
Found at i:78956693 original size:117 final size:118
Alignment explanation
Indices: 78956462--78956699 Score: 451
Period size: 117 Copynumber: 2.0 Consensus size: 118
78956452 CTCGGCATCA
*
78956462 TCGCTATCCATAGCCTTAAATTCAGTAGCCCCATGTTTTCGGATTCTGTCAACTGGGGGCTTATT
1 TCGCTATCCATAGCCTTAAATTCAGTAGCCCCATGTTTTCGGATTCTGTCAACTGGGGGCTTATG
*
78956527 TGACCTTATTTGGTCCGTTACCGGTGGTATTGTAGGTGCGGGGGTAGTATTTG
66 TGACCTTATTTGGTCCGTTACCGGCGGTATTGTAGGTGCGGGGGTAGTATTTG
78956580 TCGCTATCCATAGCCTTAAATTCAGTAGCCCCATGTTTTCGGATTCTGTCAACT-GGGGCTTATG
1 TCGCTATCCATAGCCTTAAATTCAGTAGCCCCATGTTTTCGGATTCTGTCAACTGGGGGCTTATG
78956644 TGACCTTATTTGGTCCGTTACCGGCGGTATTGTAGGTGCGGGGGTAGTATTTG
66 TGACCTTATTTGGTCCGTTACCGGCGGTATTGTAGGTGCGGGGGTAGTATTTG
78956697 TCG
1 TCG
78956700 GGAATGGAGG
Statistics
Matches: 118, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
117 64 0.54
118 54 0.46
ACGTcount: A:0.17, C:0.20, G:0.27, T:0.36
Consensus pattern (118 bp):
TCGCTATCCATAGCCTTAAATTCAGTAGCCCCATGTTTTCGGATTCTGTCAACTGGGGGCTTATG
TGACCTTATTTGGTCCGTTACCGGCGGTATTGTAGGTGCGGGGGTAGTATTTG
Found at i:78958467 original size:39 final size:40
Alignment explanation
Indices: 78958424--78958593 Score: 234
Period size: 40 Copynumber: 4.3 Consensus size: 40
78958414 TCCTCGTTCA
* * * *
78958424 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
78958463 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
78958503 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
* * * *
78958543 AATGCCTTCGGGACTTAACCCGGATTTACTATCTCGCACA
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
78958583 AAGGCCTTCGG
1 AATGCCTTCGG
78958594 ATCTTAATCC
Statistics
Matches: 119, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 34 0.29
40 85 0.71
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
Found at i:78958522 original size:40 final size:39
Alignment explanation
Indices: 78958424--78958646 Score: 218
Period size: 40 Copynumber: 5.6 Consensus size: 39
78958414 TCCTCGTTCA
* * * ** *
78958424 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC
*
78958463 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC
*
78958502 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC
*
78958542 GAATGCCTTCGGGACTTAACCCGGATTT-ACTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAAC-AACTCGCAC
* * * * *
78958582 AAAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCAC
* *
78958623 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
78958647 CAGCATTCAA
Statistics
Matches: 158, Mismatches: 19, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
39 38 0.24
40 111 0.70
41 8 0.05
42 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC
Found at i:78958568 original size:80 final size:79
Alignment explanation
Indices: 78958422--78958646 Score: 256
Period size: 80 Copynumber: 2.8 Consensus size: 79
78958412 GCTCCTCGTT
* * * * * *
78958422 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAATGCCTTCGGGACTTAACCCGGA
78958487 TTTAAC-AACTCGCA
66 TTT-ACTAACTCGCA
*
78958501 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC-AATGCCTTCGGGACTTAACCCGG
*
78958566 ATTTACTATCTCGCA
65 ATTTACTAACTCGCA
* * * * * * * *
78958581 CAAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACAATGCCTTCGGGACTTAACCCG
78958645 GA
64 GA
78958647 CAGCATTCAA
Statistics
Matches: 125, Mismatches: 17, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
79 40 0.32
80 80 0.64
81 5 0.04
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAATGCCTTCGGGACTTAACCCGGA
TTTACTAACTCGCA
Found at i:78958714 original size:116 final size:116
Alignment explanation
Indices: 78958573--78958805 Score: 448
Period size: 116 Copynumber: 2.0 Consensus size: 116
78958563 CGGATTTACT
78958573 ATCTCGCACAAAGGCCTTCGGATCTTAATCCGGATATATTCACTTAGCACAAAGCCTTCGGGACT
1 ATCTCGCACAAAGGCCTTCGGATCTTAATCCGGATATATTCACTTAGCACAAAGCCTTCGGGACT
78958638 TAGCCCGGACAGCATTCAATTAATCATGCACATCTAACAATAATTCATAGC
66 TAGCCCGGACAGCATTCAATTAATCATGCACATCTAACAATAATTCATAGC
* *
78958689 ATCTCGCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCGCTTAGCACAAAGCCTTCGGGACT
1 ATCTCGCACAAAGGCCTTCGGATCTTAATCCGGATATATTCACTTAGCACAAAGCCTTCGGGACT
78958754 TAGCCCGGACAGCATTCAATTAATCATGCACATCTAACAATAATTCATAGC
66 TAGCCCGGACAGCATTCAATTAATCATGCACATCTAACAATAATTCATAGC
78958805 A
1 A
78958806 CATTCATATT
Statistics
Matches: 115, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
116 115 1.00
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (116 bp):
ATCTCGCACAAAGGCCTTCGGATCTTAATCCGGATATATTCACTTAGCACAAAGCCTTCGGGACT
TAGCCCGGACAGCATTCAATTAATCATGCACATCTAACAATAATTCATAGC
Found at i:78960765 original size:40 final size:39
Alignment explanation
Indices: 78960710--78960940 Score: 275
Period size: 40 Copynumber: 5.8 Consensus size: 39
78960700 CGGATGATAA
* * *
78960710 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TT
* * *
78960750 CCGGGATAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TT
* * *
78960790 CCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TT
**
78960830 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCAACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-T
* *
78960870 CTGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-T
* *
78960910 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
78960941 AGCTATATCC
Statistics
Matches: 168, Mismatches: 22, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
39 8 0.05
40 160 0.95
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATT
Found at i:78960923 original size:120 final size:119
Alignment explanation
Indices: 78960710--78960940 Score: 329
Period size: 120 Copynumber: 1.9 Consensus size: 119
78960700 CGGATGATAA
* ** *
78960710 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTTCCGGGATAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGCAACTAGTTCCGGGATAAGTCCCGAAGGCATTGG
* *
78960775 TGCGAGTTATTACATCCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
66 TGCGAGTTACTACATCCGAGCTAAGTCCCGAAGGCA-TTGAGCGAGTTATTACAT
* * *
78960830 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCAACTA-TATCTGGGCTAAGTCCCGAAGGCATTG
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGCAACTAGT-TCCGGGATAAGTCCCGAAGGCATTG
* * *
78960894 GTGCGAGTTACTATATCCGGGCTATGTCCCGAAGGCATTGAGCGAGT
65 GTGCGAGTTACTACATCCGAGCTAAGTCCCGAAGGCATTGAGCGAGT
78960941 AGCTATATCC
Statistics
Matches: 98, Mismatches: 12, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
119 10 0.10
120 88 0.90
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (119 bp):
CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGCAACTAGTTCCGGGATAAGTCCCGAAGGCATTGG
TGCGAGTTACTACATCCGAGCTAAGTCCCGAAGGCATTGAGCGAGTTATTACAT
Found at i:78966273 original size:42 final size:42
Alignment explanation
Indices: 78966226--78966312 Score: 138
Period size: 42 Copynumber: 2.1 Consensus size: 42
78966216 CAGTGTGAAT
* *
78966226 AGGCCGTGTGCCTCACACGGCCACCTAACACACTCGTGTCTC
1 AGGCCGTATGCCTCACACGGCCACCTAACACACCCGTGTCTC
* *
78966268 AGGCCGTATGCCTCACACGGCCACCTGACACGCCCGTGTCTC
1 AGGCCGTATGCCTCACACGGCCACCTAACACACCCGTGTCTC
78966310 AGG
1 AGG
78966313 TCATATGAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.18, C:0.40, G:0.24, T:0.17
Consensus pattern (42 bp):
AGGCCGTATGCCTCACACGGCCACCTAACACACCCGTGTCTC
Found at i:78967606 original size:43 final size:43
Alignment explanation
Indices: 78967558--78967661 Score: 127
Period size: 43 Copynumber: 2.4 Consensus size: 43
78967548 TCAGATATAT
* * *
78967558 TCTTACATGTTATCACATATCGATGCCACTGTCCCAGACAGGG
1 TCTTACATGTAATCACATAACGATGCCAATGTCCCAGACAGGG
* * * * *
78967601 TCTTACACGAAATCATATAACGATGCTAATGTCCCAGACATGG
1 TCTTACATGTAATCACATAACGATGCCAATGTCCCAGACAGGG
*
78967644 TTTTACATGTAATCACAT
1 TCTTACATGTAATCACAT
78967662 CTCAGTAATC
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (43 bp):
TCTTACATGTAATCACATAACGATGCCAATGTCCCAGACAGGG
Found at i:78969066 original size:201 final size:203
Alignment explanation
Indices: 78968718--78969123 Score: 753
Period size: 201 Copynumber: 2.0 Consensus size: 203
78968708 CTGTCCTTTA
78968718 TCTCAAATTGAGCTATTAAACGATAAAATTATCTCACGAAATTTTCACACATATATATTCACATG
1 TCTCAAATTGAGCTATTAAACGATAAAATTATCTCACGAAATTTTCACACATATATATTCACATG
* *
78968783 CTGTAAACATATAAAATAATATTAAAATAATTTTTTGACCTCAGATTTGTGGTCTCAAAACTACT
66 CTGTAAACA-ACAAAATAATATTAAAATAATTTTTTGACCTCAGATTTGTGGTCTCAAAACCACT
*
78968848 ATTCCAATTTAGCTAGAATCAGACTGTTACAATTTCAAACTGGGTTCTGAAAGAAATATGTGAGC
130 ATTCCAATTTAGCTAGAATCAGACTGTTACAATTTCAAACTGGGTTCTAAAAGAAATATGTGAGC
78968913 TAGAGATTC
195 TAGAGATTC
78968922 TCTCAAATTGAGCTATTAAACGATAAAATTATCTCACGAAA-TTTCACACATATATATTCACATG
1 TCTCAAATTGAGCTATTAAACGATAAAATTATCTCACGAAATTTTCACACATATATATTCACATG
*
78968986 TTGTAAAC-ACAAAATAATATTAAAATAATTTTTTGACCTCAGATTTGTGGTCTCAAAACCACTA
66 CTGTAAACAACAAAATAATATTAAAATAATTTTTTGACCTCAGATTTGTGGTCTCAAAACCACTA
78969050 TTCCAATTTAGCTAGAATCAGACTGTTACAATTTCAAACTGGGTTCTAAAAGAAATATGTGAGCT
131 TTCCAATTTAGCTAGAATCAGACTGTTACAATTTCAAACTGGGTTCTAAAAGAAATATGTGAGCT
78969115 AGAGATTC
196 AGAGATTC
78969123 T
1 T
78969124 TAGACAAGAA
Statistics
Matches: 198, Mismatches: 4, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
201 127 0.64
203 30 0.15
204 41 0.21
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.33
Consensus pattern (203 bp):
TCTCAAATTGAGCTATTAAACGATAAAATTATCTCACGAAATTTTCACACATATATATTCACATG
CTGTAAACAACAAAATAATATTAAAATAATTTTTTGACCTCAGATTTGTGGTCTCAAAACCACTA
TTCCAATTTAGCTAGAATCAGACTGTTACAATTTCAAACTGGGTTCTAAAAGAAATATGTGAGCT
AGAGATTC
Found at i:78976776 original size:22 final size:22
Alignment explanation
Indices: 78976751--78976809 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 22
78976741 CTTAAGTTGA
78976751 TGAACAGTAAGCTCTAACGAGC
1 TGAACAGTAAGCTCTAACGAGC
**
78976773 TGAA-ATGGTAAGCTCTATTGAGC
1 TGAACA--GTAAGCTCTAACGAGC
78976796 TGAACAGTAAGCTC
1 TGAACAGTAAGCTC
78976810 ATACAAGCTG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
21 1 0.03
22 12 0.38
23 18 0.56
24 1 0.03
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.24
Consensus pattern (22 bp):
TGAACAGTAAGCTCTAACGAGC
Found at i:78976783 original size:23 final size:23
Alignment explanation
Indices: 78976757--78976830 Score: 82
Period size: 23 Copynumber: 3.3 Consensus size: 23
78976747 TTGATGAACA
78976757 GTAAGCTCTAACGAGCTGAAATG
1 GTAAGCTCTAACGAGCTGAAATG
**
78976780 GTAAGCTCTATTGAGCTGAACA--
1 GTAAGCTCTAACGAGCTGAA-ATG
*
78976802 GTAAGCTC-ATACAAGCTGAAATG
1 GTAAGCTCTA-ACGAGCTGAAATG
78976825 GTAAGC
1 GTAAGC
78976831 CCCAATGATT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
21 2 0.05
22 15 0.36
23 24 0.57
24 1 0.02
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (23 bp):
GTAAGCTCTAACGAGCTGAAATG
Found at i:78976818 original size:22 final size:21
Alignment explanation
Indices: 78976751--78976821 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 21
78976741 CTTAAGTTGA
78976751 TGAACAGTAAGCTCTAACGAGC
1 TGAACAGTAAGCTCT-ACGAGC
*
78976773 TGAA-ATGGTAAGCTCTATTGAGC
1 TGAACA--GTAAGCTCTA-CGAGC
*
78976796 TGAACAGTAAGCTCATACAAGC
1 TGAACAGTAAGCTC-TACGAGC
78976818 TGAA
1 TGAA
78976822 ATGGTAAGCC
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
21 1 0.02
22 20 0.49
23 19 0.46
24 1 0.02
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.23
Consensus pattern (21 bp):
TGAACAGTAAGCTCTACGAGC
Found at i:78996292 original size:93 final size:93
Alignment explanation
Indices: 78996133--78996318 Score: 372
Period size: 93 Copynumber: 2.0 Consensus size: 93
78996123 TACAAATCGG
78996133 TGATGAAAACTTTGAGAAGATGATAAAAGCTTTTGTTTTATTTAATTAAAATTTAATTATGAAAT
1 TGATGAAAACTTTGAGAAGATGATAAAAGCTTTTGTTTTATTTAATTAAAATTTAATTATGAAAT
78996198 TACAATTTTGTCCATTTAAAAATCAACC
66 TACAATTTTGTCCATTTAAAAATCAACC
78996226 TGATGAAAACTTTGAGAAGATGATAAAAGCTTTTGTTTTATTTAATTAAAATTTAATTATGAAAT
1 TGATGAAAACTTTGAGAAGATGATAAAAGCTTTTGTTTTATTTAATTAAAATTTAATTATGAAAT
78996291 TACAATTTTGTCCATTTAAAAATCAACC
66 TACAATTTTGTCCATTTAAAAATCAACC
78996319 AAATTTCAAG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 93 1.00
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.40
Consensus pattern (93 bp):
TGATGAAAACTTTGAGAAGATGATAAAAGCTTTTGTTTTATTTAATTAAAATTTAATTATGAAAT
TACAATTTTGTCCATTTAAAAATCAACC
Found at i:78997812 original size:40 final size:40
Alignment explanation
Indices: 78997758--78997870 Score: 181
Period size: 40 Copynumber: 2.8 Consensus size: 40
78997748 CGGGATTTAG
*
78997758 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCCTAGC
1 CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCCTAGC
* * * *
78997798 CCGGATACAGCAACTCGTACAAATGCCTTCAGGTCTTAGC
1 CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCCTAGC
78997838 CCGGATATAGCAACTCGCACAAATGCCTTCGGG
1 CCGGATATAGCAACTCGCACAAATGCCTTCGGG
78997871 CCTTGGCCCG
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 65 1.00
ACGTcount: A:0.27, C:0.31, G:0.21, T:0.20
Consensus pattern (40 bp):
CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCCTAGC
Found at i:78997880 original size:40 final size:40
Alignment explanation
Indices: 78997745--78997881 Score: 179
Period size: 40 Copynumber: 3.5 Consensus size: 40
78997735 ACCCAAGTAT
** *
78997745 CTTCGGGATTTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGGCCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
78997784 CTTCGGGTCC-TAGCCCGGATACAGCAACTCGTACAAATGC
1 CTTCGGG-CCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
78997824 CTTCAGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGCCTTAGCCCGGATATAGCAACTCGCACAAATGC
*
78997864 CTTCGGGCCTTGGCCCGG
1 CTTCGGGCCTTAGCCCGG
78997882 TTATCATCCG
Statistics
Matches: 83, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
39 11 0.13
40 72 0.87
ACGTcount: A:0.24, C:0.31, G:0.23, T:0.22
Consensus pattern (40 bp):
CTTCGGGCCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:79001976 original size:27 final size:25
Alignment explanation
Indices: 79001944--79002258 Score: 204
Period size: 27 Copynumber: 11.8 Consensus size: 25
79001934 TTAGTTTACC
*
79001944 AAATTACCAAAGTACCCCTGATTTA
1 AAATTACCAAAATACCCCTGATTTA
*** *
79001969 CAGAATTACCATTTTA-CCCTCGATTAGCA
1 -A-AATTACCAAAATACCCCT-GATT--TA
*
79001998 AAATTACCAAAATA-CCCTAGTTTGTA
1 AAATTACCAAAATACCCCT-GATT-TA
* * *
79002024 AAATTACTAAAATACCCCTAGTTTGTG
1 AAATTACCAAAATACCCCT-GATT-TA
*
79002051 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGA-TT-TA
**
79002078 AAATTACTGAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCT-GA-TT-TA
* *
79002105 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGATTT--A
* *
79002132 AAATTACCAAAATACCCCTAATTTGTG
1 AAATTACCAAAATACCCCTGA-TT-TA
* * *
79002159 AAATTACTAAAATACCCTTAACTTGTA
1 AAATTACCAAAATACCCCTGA-TT-TA
*
79002186 AAATTACCAAAATACCCCTGGTTTACA
1 AAATTACCAAAATACCCCTGATTT--A
*
79002213 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCT-GATT-TA
79002240 AAATTACCAAAATACCCCT
1 AAATTACCAAAATACCCCT
79002259 ATAGGGTAGA
Statistics
Matches: 238, Mismatches: 35, Indels: 31
0.78 0.12 0.10
Matches are distributed among these distances:
25 2 0.01
26 29 0.12
27 195 0.82
28 9 0.04
29 3 0.01
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.30
Consensus pattern (25 bp):
AAATTACCAAAATACCCCTGATTTA
Found at i:79002139 original size:81 final size:81
Alignment explanation
Indices: 79001944--79002256 Score: 373
Period size: 81 Copynumber: 3.9 Consensus size: 81
79001934 TTAGTTTACC
* * * *** * *
79001944 AAATTACCAAAGTACCCCTGATTTACAGAATTACCATTTTA-CCCTCGATTAGCAAAATTACCAA
1 AAATTACCAAAATACCCCTGGTTTACAAAATTACCAAAATACCCCT-GATTTGTAAAATTACCAA
*
79002008 AATACCCTAG-TTTGTA
65 AATACCCTAGACTTGTA
* * *** * **
79002024 AAATTACTAAAATACCCCTAGTTTGTGAAATTACCAAAATACCCCTGATTTGTGAAATTACTGAA
1 AAATTACCAAAATACCCCTGGTTTACAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAA
*
79002089 ATACCCTCGACTTGTA
66 ATACCCTAGACTTGTA
* * * *
79002105 AAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTAATTTGTGAAATTACTAAA
1 AAATTACCAAAATACCCCTGGTTTACAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAA
79002170 ATACCCTTA-ACTTGTA
66 ATACCC-TAGACTTGTA
79002186 AAATTACCAAAATACCCCTGGTTTACAAAATTACCAAAATACCCCT-AGTTTGTAAAATTACCAA
1 AAATTACCAAAATACCCCTGGTTTACAAAATTACCAAAATACCCCTGA-TTTGTAAAATTACCAA
79002250 AATACCC
65 AATACCC
79002257 CTATAGGGTA
Statistics
Matches: 199, Mismatches: 30, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
80 53 0.27
81 145 0.73
82 1 0.01
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.29
Consensus pattern (81 bp):
AAATTACCAAAATACCCCTGGTTTACAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAA
ATACCCTAGACTTGTA
Found at i:79002259 original size:27 final size:27
Alignment explanation
Indices: 79001997--79002259 Score: 307
Period size: 27 Copynumber: 9.8 Consensus size: 27
79001987 CTCGATTAGC
79001997 AAAATTACCAAAATA-CCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
*
79002023 AAAATTACTAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
*
79002050 GAAATTACCAAAATACCCCT-GATTTGT
1 AAAATTACCAAAATACCCCTAG-TTTGT
* ** * *
79002077 GAAATTACTGAAATA-CCCTCGACTTGT
1 AAAATTACCAAAATACCCCTAG-TTTGT
* * **
79002104 AAAATTACCAAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCCTAGTTTGT
*
79002131 AAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
* * * **
79002158 GAAATTACTAAAATACCCTTAACTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
* **
79002185 AAAATTACCAAAATACCCCTGGTTTAC
1 AAAATTACCAAAATACCCCTAGTTTGT
79002212 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
79002239 AAAATTACCAAAATACCCCTA
1 AAAATTACCAAAATACCCCTA
79002260 TAGGGTAGAA
Statistics
Matches: 199, Mismatches: 34, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
26 19 0.10
27 176 0.88
28 4 0.02
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTAGTTTGT
Found at i:79002272 original size:54 final size:53
Alignment explanation
Indices: 79001999--79002326 Score: 233
Period size: 54 Copynumber: 6.1 Consensus size: 53
79001989 CGATTAGCAA
* **
79001999 AATTACCAAAATA-CCCTAGTTTGTAAAATTACTAAAATACCCCTAGTTTGT-G
1 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTA-TGGGTAG
* ** * * *
79002051 AAATTACCAAAATACCCCT-GATTTGTGAAATTACTGAAATACCCTCGACT-TGTAA
1 -AATTACCAAAATACCCCTAG-TTTGTAAAATTACCAAAATACCC-CTA-TGGGTAG
* * ** **
79002106 AATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTAATTTGT-G
1 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCT-ATGGGTAG
* * ** * *
79002159 AAATTACTAAAATACCCTTAACTTGTAAAATTACCAAAATACCCC--TGGTTTACAA
1 -AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTATGG-GT--AG
79002214 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTATAGGGTAG
1 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAT-GGGTAG
* * ** *
79002268 AATTACCGAAATA-CCCTTGTAGGGTAGAAA-TACCAAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTAGT-TTGTA-AAATTACCAAAATACCCCTAT-GGGTAG
79002322 AATTA
1 AATTA
79002327 TCGAGATACC
Statistics
Matches: 224, Mismatches: 34, Indels: 33
0.77 0.12 0.11
Matches are distributed among these distances:
51 1 0.00
52 1 0.00
53 22 0.10
54 189 0.84
55 7 0.03
56 2 0.01
57 2 0.01
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.28
Consensus pattern (53 bp):
AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTATGGGTAG
Found at i:79002302 original size:81 final size:81
Alignment explanation
Indices: 79001997--79002312 Score: 264
Period size: 81 Copynumber: 3.9 Consensus size: 81
79001987 CTCGATTAGC
**** * * ** ***
79001997 AAAATTACCAAAATA-CCCTAGTTTGTAAAATTACTAAAATACCCCTAGTTTGTGAAATTACCAA
1 AAAATTACCAAAATACCCCTAACGGGTAAAATTACCAAAATACCCCTGGGGTACAAAATTACCAA
*
79002061 AATACCCCTGATTTGT
66 AATACCCCTAATTTGT
* ** * ** * **
79002077 GAAATTACTGAAATA-CCCTCGACTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCA
1 AAAATTACCAAAATACCCCT-AACGGGTAAAATTACCAAAATACCCCTGGGGTACAAAATTACCA
79002141 AAATACCCCTAATTTGT
65 AAATACCCCTAATTTGT
* * * ** **
79002158 GAAATTACTAAAATACCCTTAACTTGTAAAATTACCAAAATACCCCTGGTTTACAAAATTACCAA
1 AAAATTACCAAAATACCCCTAACGGGTAAAATTACCAAAATACCCCTGGGGTACAAAATTACCAA
*
79002223 AATACCCCTAGTTTGT
66 AATACCCCTAATTTGT
* * * *
79002239 AAAATTACCAAAATACCCCTATA-GGGTAGAATTACCGAAATACCCTTGTAGGGTA-GAAA-TAC
1 AAAATTACCAAAATACCCCTA-ACGGGTAAAATTACCAAAATACCCCTG--GGGTACAAAATTAC
79002301 CAAAATACCCCT
63 CAAAATACCCCT
79002313 GTAGGGTAGA
Statistics
Matches: 202, Mismatches: 29, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
80 16 0.08
81 176 0.87
82 7 0.03
83 3 0.01
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.28
Consensus pattern (81 bp):
AAAATTACCAAAATACCCCTAACGGGTAAAATTACCAAAATACCCCTGGGGTACAAAATTACCAA
AATACCCCTAATTTGT
Found at i:79002335 original size:27 final size:27
Alignment explanation
Indices: 79002214--79002354 Score: 140
Period size: 27 Copynumber: 5.2 Consensus size: 27
79002204 TGGTTTACAA
* ** *
79002214 AATTACCAAAATACCCCTAGT-TTGTAA
1 AATTACCGAAATACCCCT-GTAGGGTAG
* *
79002241 AATTACCAAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
79002268 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
79002295 AAATACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * * *
79002322 AATTATCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
79002349 AATTAC
1 AATTAC
79002355 AATTTTGCCC
Statistics
Matches: 95, Mismatches: 18, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
26 1 0.01
27 94 0.99
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:79002336 original size:54 final size:53
Alignment explanation
Indices: 79002237--79002351 Score: 176
Period size: 54 Copynumber: 2.1 Consensus size: 53
79002227 CCCCTAGTTT
79002237 GTAAAATTACCAAAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGG
1 GTAAAA-TACCAAAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGG
* * * *
79002291 GTAGAAATACCAAAATACCCCTGTAGGGTAGAATTATCGAGATACCCTTGTGGG
1 GTA-AAATACCAAAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGG
79002345 GTAAAAT
1 GTAAAAT
79002352 TACAATTTTG
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
53 4 0.07
54 49 0.88
55 3 0.05
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.24
Consensus pattern (53 bp):
GTAAAATACCAAAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGG
Found at i:79002365 original size:27 final size:27
Alignment explanation
Indices: 79002335--79002398 Score: 65
Period size: 27 Copynumber: 2.4 Consensus size: 27
79002325 TATCGAGATA
*
79002335 CCCTTGTGGGGTAAAATTACAATTTTG
1 CCCTTGTGGGGTAAAATGACAATTTTG
** * * **
79002362 CCCTTAAGGTGTTAAATGACTGTTTTG
1 CCCTTGTGGGGTAAAATGACAATTTTG
79002389 CCCTTGTGGG
1 CCCTTGTGGG
79002399 CAAGTGACTG
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.20, C:0.17, G:0.25, T:0.38
Consensus pattern (27 bp):
CCCTTGTGGGGTAAAATGACAATTTTG
Found at i:79003882 original size:48 final size:47
Alignment explanation
Indices: 79003755--79004116 Score: 239
Period size: 48 Copynumber: 7.7 Consensus size: 47
79003745 TAGGGTATAA
* *
79003755 TGCCAATGCCATGTCCCAGACATGGTCTTACACT-AGCTCTCGCATATTCG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CAC-C-CATA-TCG
* * *
79003805 TGCTGATGCCATGTCCCAGACATGATCTTACACTGACACCCCTATACG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACCCATAT-CG
* * * * *
79003853 TGTCGATGCCATGTCCCAAACATGGTCTTATACTGACA--CATCTCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACCCATATCG
* * * * *
79003898 TAGCCGATG-CATGTCCCAGACAT-GTCTTACACT-AGCTCTCGTCTCAA
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CACCCATATC-G
* *
79003945 TGCCGATGCCATGTCCCAAACATGGTCTTACACTGACA--CATCTCG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACCCATATCG
* * * * * *
79003990 TAGTCGATG-CATGTCCCAGACAT-GTCTTACACTAACTCTCATCTCAA
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACCCATATC-G
* * * * *
79004037 TACTGATGCCATGTCCCAGACATGGTCTTAGACT-AGCTCTCATAATC-
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CACCCAT-ATCG
* *
79004084 TGGCTGATG-CATGTCCTAGACAT-GTCTTACACT
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACT
79004117 AGCATACAAA
Statistics
Matches: 258, Mismatches: 35, Indels: 42
0.77 0.10 0.13
Matches are distributed among these distances:
43 1 0.00
44 22 0.09
45 29 0.11
46 51 0.20
47 46 0.18
48 71 0.28
49 4 0.02
50 33 0.13
51 1 0.00
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (47 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACCCATATCG
Found at i:79003962 original size:92 final size:91
Alignment explanation
Indices: 79003856--79004119 Score: 357
Period size: 92 Copynumber: 2.8 Consensus size: 91
79003846 CTATACGTGT
*
79003856 CGATGCCATGTCCCAAACATGGTCTTATACTGACACATCTCATAGCCGATGCATGTCCCAGACAT
1 CGATGCCATGTCCCAAACATGGTCTTACACTGACACATCTC-TAGCCGATGCATGTCCCAGACAT
* *
79003921 GTCTTACACTAGCTCTCGTCTCAATGC
65 GTCTTACACTAGCTCTCATCTCAATAC
*
79003948 CGATGCCATGTCCCAAACATGGTCTTACACTGACACATCTCGTAGTCGATGCATGTCCCAGACAT
1 CGATGCCATGTCCCAAACATGGTCTTACACTGACACATCTC-TAGCCGATGCATGTCCCAGACAT
*
79004013 GTCTTACACTAACTCTCATCTCAATAC
65 GTCTTACACTAGCTCTCATCTCAATAC
* * * * * * * * *
79004040 TGATGCCATGTCCCAGACATGGTCTTAGACTAGCTCTCATAATCTGGCTGATGCATGTCCTAGAC
1 CGATGCCATGTCCCAAACATGGTCTTACACT-G-ACACAT-CTCTAGCCGATGCATGTCCCAGAC
79004105 ATGTCTTACACTAGC
63 ATGTCTTACACTAGC
79004120 ATACAAATAA
Statistics
Matches: 152, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
92 114 0.75
93 1 0.01
94 35 0.23
95 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (91 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTGACACATCTCTAGCCGATGCATGTCCCAGACATG
TCTTACACTAGCTCTCATCTCAATAC
Found at i:79004065 original size:140 final size:142
Alignment explanation
Indices: 79003760--79004116 Score: 398
Period size: 140 Copynumber: 2.5 Consensus size: 142
79003750 TATAATGCCA
* * * *
79003760 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGCATATTCGTGCTGATGCCATGTCCCAGA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCG-ATACTCATGCCGATGCCATGTCCCAAA
* * *
79003825 CATGATCTTACACTGACACCCCTATACGTGTCGATGCCATGTCCCAAACATGGTCTTATACTGAC
65 CATGATCTTACACTGACA-CCATATACGTGTCGATGCCATGTCCCAAACATGGTCTTACACTAAC
79003890 ACATCTCATAGCCG
129 ACATCTCATAGCCG
79003904 ATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCG-T-CTCAATGCCGATGCCATGTCCCAAA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGATACTC-ATGCCGATGCCATGTCCCAAA
* * *
79003965 CATGGTCTTACACTGACA-CATCT-CGTAGTCGATG-CATGTCCCAGACAT-GTCTTACACTAAC
65 CATGATCTTACACTGACACCATATACGT-GTCGATGCCATGTCCCAAACATGGTCTTACACTAA-
* *
79004026 TCTCATCTCAATA-CTG
128 -CACATCTC-ATAGCCG
* * * * *
79004042 ATGCCATGTCCCAGACATGGTCTTAGACTAGCTCTC-ATAATC-TGGCTGATG-CATGTCCTAGA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGATACTCAT-GCCGATGCCATGTCCCAAA
79004104 CATG-TCTTACACT
65 CATGATCTTACACT
79004117 AGCATACAAA
Statistics
Matches: 186, Mismatches: 17, Indels: 26
0.81 0.07 0.11
Matches are distributed among these distances:
136 10 0.05
137 16 0.09
138 31 0.17
139 33 0.18
140 59 0.32
141 2 0.01
142 18 0.10
143 14 0.08
144 3 0.02
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (142 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGATACTCATGCCGATGCCATGTCCCAAAC
ATGATCTTACACTGACACCATATACGTGTCGATGCCATGTCCCAAACATGGTCTTACACTAACAC
ATCTCATAGCCG
Found at i:79019254 original size:14 final size:13
Alignment explanation
Indices: 79019235--79019264 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
79019225 CCAGAAAAGT
79019235 AAATCATTTTCCAG
1 AAATCATTTTCC-G
79019249 AAATCATTTTCCG
1 AAATCATTTTCCG
79019262 AAA
1 AAA
79019265 AACATTTTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (13 bp):
AAATCATTTTCCG
Found at i:79026917 original size:46 final size:47
Alignment explanation
Indices: 79026865--79026959 Score: 174
Period size: 47 Copynumber: 2.0 Consensus size: 47
79026855 GTTGAATTTA
79026865 AAGCTTGTTAAA-TTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
*
79026911 AAGCTTGTTAAATTTGCTCTTCATATTTCCGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
79026958 AA
1 AA
79026960 AGAAAATTTT
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
46 12 0.26
47 35 0.74
ACGTcount: A:0.28, C:0.14, G:0.15, T:0.43
Consensus pattern (47 bp):
AAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
Found at i:79027828 original size:45 final size:45
Alignment explanation
Indices: 79027761--79027893 Score: 159
Period size: 45 Copynumber: 3.0 Consensus size: 45
79027751 AATATCGCAC
*
79027761 AATACTATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCCGGTGA
1 AATACTATTCGGG-CTTTCGAGCCTAGTAGGCTATAATGCCGGTGA
* * *
79027806 GATACTATTCGGGCTTTCGAGCCTAGTAGGCTATAATGTCAGTGA
1 AATACTATTCGGGCTTTCGAGCCTAGTAGGCTATAATGCCGGTGA
* *
79027851 AATGA-TA-TCGGGC-TTCAAGCCTAGTAGGC-AAAATGCCGGTGA
1 AAT-ACTATTCGGGCTTTCGAGCCTAGTAGGCTATAATGCCGGTGA
79027893 A
1 A
79027894 TGAATTCGGG
Statistics
Matches: 77, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
42 11 0.14
43 15 0.19
44 10 0.13
45 40 0.52
46 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (45 bp):
AATACTATTCGGGCTTTCGAGCCTAGTAGGCTATAATGCCGGTGA
Found at i:79028612 original size:19 final size:19
Alignment explanation
Indices: 79028590--79028628 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
79028580 TGTTCTTATA
79028590 ACAATATAATTGTACAAAT
1 ACAATATAATTGTACAAAT
**
79028609 ACAATATTTTTGTACAAAT
1 ACAATATAATTGTACAAAT
79028628 A
1 A
79028629 TCGTATTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.49, C:0.10, G:0.05, T:0.36
Consensus pattern (19 bp):
ACAATATAATTGTACAAAT
Found at i:79040130 original size:49 final size:49
Alignment explanation
Indices: 79040070--79040301 Score: 259
Period size: 49 Copynumber: 4.7 Consensus size: 49
79040060 CTAGTACGCA
* *
79040070 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGATACACG
* * * ** *
79040119 TAGGAGCCTGCACTTAGTACTACAGACGTGGCCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGATACACG
* * * * *
79040169 TAGTAGCCTACACTTAGTACTACACACATGATCGAAGTTAT-CGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGA-TACACG
* * * * *
79040220 TAGTAGCCTGCTCTTAATACTACACATGCGACCAATAATCCGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGATACACG
79040269 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
79040302 TCATAATAGA
Statistics
Matches: 145, Mismatches: 33, Indels: 10
0.77 0.18 0.05
Matches are distributed among these distances:
49 65 0.45
50 48 0.33
51 32 0.22
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGATACACG
Found at i:79040287 original size:100 final size:99
Alignment explanation
Indices: 79040070--79040301 Score: 270
Period size: 100 Copynumber: 2.3 Consensus size: 99
79040060 CTAGTACGCA
** *
79040070 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACGTAGGAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACATGACCAATTATCCGGTACACATAGGAGCCTGCACTTA
* * * * * *
79040135 GTACTACAGACGTGGCCTAACCATCTGATACACG
66 ATACTACACACGCGACCTAACAATCCGATACACG
* * * * *
79040169 TAGTAGCCTACACTTAGTACTACACACATGATCGAAGTTAT-CGAGTACGCATAGTAGCCTGCTC
1 TAGTAGCCTGCACTTAGTACTACACACATGA-CCAA-TTATCCG-GTACACATAGGAGCCTGCAC
* *
79040233 TTAATACTACACATGCGACC-AATAATCCGATACACG
63 TTAATACTACACACGCGACCTAACAATCCGATACACG
*
79040269 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACATGACC
79040302 TCATAATAGA
Statistics
Matches: 111, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
99 29 0.26
100 47 0.42
101 35 0.32
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACATGACCAATTATCCGGTACACATAGGAGCCTGCACTTA
ATACTACACACGCGACCTAACAATCCGATACACG
Found at i:79044119 original size:93 final size:93
Alignment explanation
Indices: 79043960--79044420 Score: 913
Period size: 93 Copynumber: 5.0 Consensus size: 93
79043950 TATCACATTT
79043960 TTACATCTCACGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGG
1 TTACATCTCACGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGG
79044025 ACTCAACTCAACGAGTTCGGATGCCTAG
66 ACTCAACTCAACGAGTTCGGATGCCTAG
79044053 TTACATCTCACGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGG
1 TTACATCTCACGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGG
79044118 ACTCAACTCAACGAGTTCGGATGCCTAG
66 ACTCAACTCAACGAGTTCGGATGCCTAG
79044146 TTACATCTCACGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGG
1 TTACATCTCACGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGG
79044211 ACTCAACTCAACGAGTTCGGATGCCTAG
66 ACTCAACTCAACGAGTTCGGATGCCTAG
79044239 TTACATCTCACGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGG
1 TTACATCTCACGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGG
79044304 ACTCAACTCAACGAGTTCGGATGCCTAG
66 ACTCAACTCAACGAGTTCGGATGCCTAG
*
79044332 TTACATCTCACGAACTCAGACTCAACTCAACGAGTTCGGACATTCACATCCATAAGTGAACTCGG
1 TTACATCTCACGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGG
79044397 ACTCAACTCAACGAGTTCGGATGC
66 ACTCAACTCAACGAGTTCGGATGC
79044421 TCAACCATCC
Statistics
Matches: 367, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 367 1.00
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (93 bp):
TTACATCTCACGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGG
ACTCAACTCAACGAGTTCGGATGCCTAG
Found at i:79054346 original size:49 final size:50
Alignment explanation
Indices: 79054271--79054448 Score: 232
Period size: 52 Copynumber: 3.5 Consensus size: 50
79054261 ACTAGTGACT
* *
79054271 CAAGTGTGGTACTATGTGAAGACCACTTTGAGAAG-AGATAGCTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTGGTCA
*
79054320 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGATTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGATAG-CTTGGTCA
* * *
79054372 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGGTAGCTTTGACTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTGGTC-A
* * * *
79054423 CAAGGGTGGTGCTGTGTGCAGGCCAC
1 CAAGTGTGGTACTATGTGAAGGCCAC
79054449 CAGGTATCCG
Statistics
Matches: 114, Mismatches: 11, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
49 33 0.29
50 4 0.04
51 35 0.31
52 42 0.37
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.27
Consensus pattern (50 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTGGTCA
Found at i:79054447 original size:51 final size:51
Alignment explanation
Indices: 79054266--79054448 Score: 221
Period size: 51 Copynumber: 3.6 Consensus size: 51
79054256 ATGTCACTAG
* *
79054266 TGACT-CAAGTGTGGTACTATGTGAAGACCACTTTGAGAAG-AGATAGCTT
1 TGACTACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTT
* * *
79054315 GGTC-ACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGATT
1 TGACTACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGATAGCTT
* *
79054366 TG-GTCACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGGTAGCTT
1 TGACT-ACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTT
* * * *
79054417 TGACTACAAGGGTGGTGCTGTGTGCAGGCCAC
1 TGACTACAAGTGTGGTACTATGTGAAGGCCAC
79054449 CAGGTATCCG
Statistics
Matches: 114, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
49 35 0.31
51 42 0.37
52 37 0.32
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (51 bp):
TGACTACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTT
Found at i:79066256 original size:40 final size:40
Alignment explanation
Indices: 79066212--79066473 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
79066202 GCTCCTCGTT
* *
79066212 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
79066252 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
79066292 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
79066331 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
79066370 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
79066409 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
79066450 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
79066474 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:79071952 original size:39 final size:40
Alignment explanation
Indices: 79071790--79072053 Score: 310
Period size: 40 Copynumber: 6.7 Consensus size: 40
79071780 GCTCCTCGTT
* *
79071790 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
79071830 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* * * *
79071870 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
79071910 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
79071949 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* * *
79071988 CAAATGCCTTC-GGATCTTAGTCCGG-ATATGGTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGT-ATC-TCGCA
79072029 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
79072054 CATCATTCAA
Statistics
Matches: 203, Mismatches: 12, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
38 2 0.01
39 74 0.36
40 113 0.56
41 14 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:79075090 original size:14 final size:12
Alignment explanation
Indices: 79075071--79075104 Score: 50
Period size: 12 Copynumber: 2.7 Consensus size: 12
79075061 ACAAGTTTGA
79075071 AAAAAAAATTTCTG
1 AAAAAAAA-TTC-G
79075085 AAAAAAAATTCG
1 AAAAAAAATTCG
79075097 AAAAAAAA
1 AAAAAAAA
79075105 GTGAGTTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 9 0.45
13 3 0.15
14 8 0.40
ACGTcount: A:0.71, C:0.06, G:0.06, T:0.18
Consensus pattern (12 bp):
AAAAAAAATTCG
Found at i:79082924 original size:20 final size:20
Alignment explanation
Indices: 79082899--79082937 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
79082889 TTCATTCCTA
79082899 ACCACCAGTATATTTTCTTT
1 ACCACCAGTATATTTTCTTT
79082919 ACCACCAGTATATTTTCTT
1 ACCACCAGTATATTTTCTT
79082938 CAAGTAATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.05, T:0.44
Consensus pattern (20 bp):
ACCACCAGTATATTTTCTTT
Found at i:79087616 original size:46 final size:45
Alignment explanation
Indices: 79087549--79087715 Score: 169
Period size: 46 Copynumber: 3.6 Consensus size: 45
79087539 CGCCCCTGAG
* *
79087549 TGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGAGCGTT-ACATCCATAAA
*
79087595 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-T-CA
1 TGAACTCGGACTCAACTCAACGAGTTC-GA-G-C--GTTACATCCATAAA
* * * * *
79087642 CGAACTCGGACTTAACTCAACGAGTTCGAACATTTACATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGAGC-GTTACATCCATAAA
*
79087688 TGAACTCAGACTCAACTCAACGAGTTCG
1 TGAACTCGGACTCAACTCAACGAGTTCG
79087716 GATGCTCAAC
Statistics
Matches: 101, Mismatches: 12, Indels: 16
0.78 0.09 0.12
Matches are distributed among these distances:
43 7 0.07
44 2 0.02
45 1 0.01
46 53 0.52
47 28 0.28
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGAGCGTTACATCCATAAA
Found at i:79087709 original size:93 final size:93
Alignment explanation
Indices: 79087550--79087720 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
79087540 GCCCCTGAGT
* * * *
79087550 GAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCACATCCATAAATGAACTCAGACTCAACTCAA
79087615 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
79087643 GAACTCGGACTTAACTCAACGAGTTCGAACATTTACATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCACATCCATAAATGAACTCAGACTCAACTCAA
79087708 CGAGTTCGGATGC
66 CGAGTTCGGATGC
79087721 TCAACCATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCACATCCATAAATGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:79088174 original size:30 final size:30
Alignment explanation
Indices: 79088140--79088199 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
79088130 ATTTAATACG
79088140 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
79088170 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
79088200 GGCTCAGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:79088932 original size:28 final size:28
Alignment explanation
Indices: 79088900--79088992 Score: 75
Period size: 28 Copynumber: 3.2 Consensus size: 28
79088890 ATTTTCACAC
79088900 AATCATGCAATCATATCATAAACATCAA
1 AATCATGCAATCATATCATAAACATCAA
* * * *
79088928 AATCATTGTAAAATAATTATTTC-T-ATC-TCAC
1 AATCA-TG--CAATCA-TA--TCATAAACATCAA
79088959 AATCATGCAATCATATCATAAACATCAA
1 AATCATGCAATCATATCATAAACATCAA
79088987 AATCAT
1 AATCAT
79088993 TGTAAAATAA
Statistics
Matches: 48, Mismatches: 8, Indels: 18
0.65 0.11 0.24
Matches are distributed among these distances:
25 2 0.04
26 1 0.02
27 4 0.08
28 18 0.38
29 2 0.04
30 2 0.04
31 12 0.25
32 4 0.08
33 1 0.02
34 2 0.04
ACGTcount: A:0.46, C:0.19, G:0.03, T:0.31
Consensus pattern (28 bp):
AATCATGCAATCATATCATAAACATCAA
Found at i:79088989 original size:59 final size:59
Alignment explanation
Indices: 79088897--79089016 Score: 240
Period size: 59 Copynumber: 2.0 Consensus size: 59
79088887 GAAATTTTCA
79088897 CACAATCATGCAATCATATCATAAACATCAAAATCATTGTAAAATAATTATTTCTATCT
1 CACAATCATGCAATCATATCATAAACATCAAAATCATTGTAAAATAATTATTTCTATCT
79088956 CACAATCATGCAATCATATCATAAACATCAAAATCATTGTAAAATAATTATTTCTATCT
1 CACAATCATGCAATCATATCATAAACATCAAAATCATTGTAAAATAATTATTTCTATCT
79089015 CA
1 CA
79089017 GATTTGTGGT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 61 1.00
ACGTcount: A:0.44, C:0.19, G:0.03, T:0.33
Consensus pattern (59 bp):
CACAATCATGCAATCATATCATAAACATCAAAATCATTGTAAAATAATTATTTCTATCT
Found at i:79094958 original size:19 final size:20
Alignment explanation
Indices: 79094934--79094971 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
79094924 GGTACCACCA
79094934 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
79094953 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
79094972 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:79095361 original size:93 final size:93
Alignment explanation
Indices: 79095202--79095371 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
79095192 CCCCTAAGTT
*
79095202 AACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGAGCATTCGCATCCATAAATGAACTCGGACTCAACTCAAC
79095267 GAGTTCGGATGCCTAGTTACATCTCACG
66 GAGTTCGGATGCCTAGTTACATCTCACG
* * *
79095295 AACTCGGACTCAACTCAACGAGTTCG-GACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 AACTCGGACTCAACTCAACGAGCTCGAG-CATTCGCATCCATAAATGAACTCGGACTCAACTCAA
79095359 CGAGTTCGGATGC
65 CGAGTTCGGATGC
79095372 TCAACCATCC
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 1 0.01
93 71 0.99
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGAGCATTCGCATCCATAAATGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCACG
Found at i:79095367 original size:46 final size:47
Alignment explanation
Indices: 79095196--79095368 Score: 203
Period size: 46 Copynumber: 3.7 Consensus size: 47
79095186 AATCTGCCCC
* * * *
79095196 TAAGTTAACTCGGACTCAACTCAACGAGCTC-GAGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTTGCATCCA
* * *
79095242 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-G-C-ATTTGCATCCA
* *
79095290 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA-CATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTTGCATCCA
79095335 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
79095369 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 57 0.53
47 31 0.29
48 3 0.03
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.23
Consensus pattern (47 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTTGCATCCA
Found at i:79095387 original size:46 final size:45
Alignment explanation
Indices: 79095202--79095387 Score: 132
Period size: 46 Copynumber: 4.0 Consensus size: 45
79095192 CCCCTAAGTT
* * * * * * *
79095202 AACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCCAT-AAATG
1 AACTCGGACTCAACTCAACGAGTTCG-G-ATGCTCAACCATCTAGTG
*
79095248 AACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCTCA-CG
1 AACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT-AGTG
* * *
79095295 AACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT-AAGTG
1 AACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCTAGTG
79095341 AACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGTG
1 AACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CTAGTG
79095387 A
1 A
79095388 CATGTCACTT
Statistics
Matches: 112, Mismatches: 13, Indels: 30
0.72 0.08 0.19
Matches are distributed among these distances:
43 1 0.01
44 11 0.10
45 3 0.03
46 61 0.54
47 31 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (45 bp):
AACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCTAGTG
Found at i:79099268 original size:70 final size:70
Alignment explanation
Indices: 79099193--79099481 Score: 328
Period size: 70 Copynumber: 4.1 Consensus size: 70
79099183 CAGTTATTTC
* * * * * * *
79099193 ACTAGCGATGGGCCCAATTATTTGTTGATTTATTCAACTAGTGCAAGTCACAA-TAATTGTCGGC
1 ACTAGCGCTGGGCACAATTATTTGTCGATTTATTCGACTAGTGCAGGGCACAACT-ATTGTCGGT
79099257 TATCCG
65 TATCCG
* * ** * * ** * * *
79099263 ACTAGCTCTAGGTGCAATTATTTGTTGATTTATTTGACTAAAGCAGGTCACAATTATTGTCAGTT
1 ACTAGCGCTGGGCACAATTATTTGTCGATTTATTCGACTAGTGCAGGGCACAACTATTGTCGGTT
*
79099328 ATCTG
66 ATCCG
* * *
79099333 ACTAGAGCTGGGCACAATTATTTGTCGATTTATTCGACTAGTGTAGGGCACAACTATTGTCGATT
1 ACTAGCGCTGGGCACAATTATTTGTCGATTTATTCGACTAGTGCAGGGCACAACTATTGTCGGTT
79099398 ATCCG
66 ATCCG
* * * *
79099403 ACTAGCGCTGGGTACAATTATTTATCAATTTATTTGACTAGTGCAGGGCACAACTATTGTCGGTT
1 ACTAGCGCTGGGCACAATTATTTGTCGATTTATTCGACTAGTGCAGGGCACAACTATTGTCGGTT
79099468 ATCCG
66 ATCCG
79099473 ACTAGCGCT
1 ACTAGCGCT
79099482 AGGCGTAAAA
Statistics
Matches: 183, Mismatches: 35, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
70 182 0.99
71 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (70 bp):
ACTAGCGCTGGGCACAATTATTTGTCGATTTATTCGACTAGTGCAGGGCACAACTATTGTCGGTT
ATCCG
Found at i:79099317 original size:36 final size:36
Alignment explanation
Indices: 79099277--79099460 Score: 115
Period size: 36 Copynumber: 5.2 Consensus size: 36
79099267 GCTCTAGGTG
*
79099277 CAATTATTTGTTGATTTATTTGACTAAAGCAGGTCA
1 CAATTATTTGTTGATTTATTTGACTAAAGCAGGGCA
* * * * *
79099313 CAATTA-TTG-TCAGTTATCTGACTAGAGCTGGGCA
1 CAATTATTTGTTGATTTATTTGACTAAAGCAGGGCA
* * ** *
79099347 CAATTATTTGTCGATTTATTCGACTAGTGTAGGGCA
1 CAATTATTTGTTGATTTATTTGACTAAAGCAGGGCA
* * ** ** * *
79099383 CAACTA-TTGTCGA-TTATCCGACTAGCGCTGGGTA
1 CAATTATTTGTTGATTTATTTGACTAAAGCAGGGCA
* ** **
79099417 CAATTATTTATCAATTTATTTGACTAGTGCAGGGCA
1 CAATTATTTGTTGATTTATTTGACTAAAGCAGGGCA
*
79099453 CAACTATT
1 CAATTATT
79099461 GTCGGTTATC
Statistics
Matches: 115, Mismatches: 29, Indels: 8
0.76 0.19 0.05
Matches are distributed among these distances:
34 46 0.40
35 18 0.16
36 51 0.44
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (36 bp):
CAATTATTTGTTGATTTATTTGACTAAAGCAGGGCA
Found at i:79099349 original size:34 final size:34
Alignment explanation
Indices: 79099292--79099477 Score: 126
Period size: 34 Copynumber: 5.4 Consensus size: 34
79099282 ATTTGTTGAT
* * * *
79099292 TTATTTGACTAAAGCAGGTCACAATTATTGTCAG
1 TTATCTGACTAGAGCTGGGCACAATTATTGTCAG
*
79099326 TTATCTGACTAGAGCTGGGCACAATTATTTGTCGAT
1 TTATCTGACTAGAGCTGGGCACAATTA-TTGTC-AG
* *
79099362 TTAT-TCGACTAGTG-TAGGGCACAACTATTGTC-G
1 TTATCT-GACTAGAGCT-GGGCACAATTATTGTCAG
* * * * *
79099395 ATTATCCGACTAGCGCTGGGTACAATTATTTATCAAT
1 -TTATCTGACTAGAGCTGGGCACAATTA-TTGTC-AG
* * * * *
79099432 TTATTTGACTAGTGCAGGGCACAACTATTGTCGG
1 TTATCTGACTAGAGCTGGGCACAATTATTGTCAG
*
79099466 TTATCCGACTAG
1 TTATCTGACTAG
79099478 CGCTAGGCGT
Statistics
Matches: 117, Mismatches: 25, Indels: 20
0.72 0.15 0.12
Matches are distributed among these distances:
34 53 0.45
35 21 0.18
36 43 0.37
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (34 bp):
TTATCTGACTAGAGCTGGGCACAATTATTGTCAG
Found at i:79099434 original size:140 final size:140
Alignment explanation
Indices: 79099177--79099477 Score: 370
Period size: 140 Copynumber: 2.1 Consensus size: 140
79099167 GTGTAATTGG
* * * * * *
79099177 TATTGTCAGTTATTTCACTAGCGATGGGCCCAATTATTTGTTGATTTATTCAACTAGTGCAAGTC
1 TATTGTCAGTTATCTGACTAGAGATGGGCACAATTATTTGTCGATTTATTCAACTAGTGCAAGGC
* * * * **
79099242 ACAATAATTGTCGGCTATCCGACTAGCTCTAGGTGCAATTATTTGTTGATTTATTTGACTAAAGC
66 ACAATAATTGTCGACTATCCGACTAGCGCTAGGTACAATTATTTATCAATTTATTTGACTAAAGC
* *
79099307 AGGTCACAAT
131 AGGGCACAAC
* * * *
79099317 TATTGTCAGTTATCTGACTAGAGCTGGGCACAATTATTTGTCGATTTATTCGACTAGTGTAGGGC
1 TATTGTCAGTTATCTGACTAGAGATGGGCACAATTATTTGTCGATTTATTCAACTAGTGCAAGGC
* * **
79099382 ACAACT-ATTGTCGATTATCCGACTAGCGCTGGGTACAATTATTTATCAATTTATTTGACTAGTG
66 ACAA-TAATTGTCGACTATCCGACTAGCGCTAGGTACAATTATTTATCAATTTATTTGACTAAAG
79099446 CAGGGCACAAC
130 CAGGGCACAAC
* *
79099457 TATTGTCGGTTATCCGACTAG
1 TATTGTCAGTTATCTGACTAG
79099478 CGCTAGGCGT
Statistics
Matches: 136, Mismatches: 24, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
140 135 0.99
141 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (140 bp):
TATTGTCAGTTATCTGACTAGAGATGGGCACAATTATTTGTCGATTTATTCAACTAGTGCAAGGC
ACAATAATTGTCGACTATCCGACTAGCGCTAGGTACAATTATTTATCAATTTATTTGACTAAAGC
AGGGCACAAC
Found at i:79101325 original size:33 final size:33
Alignment explanation
Indices: 79101288--79101362 Score: 91
Period size: 33 Copynumber: 2.3 Consensus size: 33
79101278 CAAGTTGCCA
* *
79101288 AATAAGACCATAGCCGGGCTATGGCAAT-TGAAT
1 AATAAGACCATAACCGAGCTATGGC-ATGTGAAT
*
79101321 AATAAGACCATAACCGAGTTATGGCATGTGAAT
1 AATAAGACCATAACCGAGCTATGGCATGTGAAT
*
79101354 GA-AAGACCA
1 AATAAGACCA
79101363 CGACAGGGCC
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
32 9 0.24
33 28 0.76
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.20
Consensus pattern (33 bp):
AATAAGACCATAACCGAGCTATGGCATGTGAAT
Found at i:79111320 original size:33 final size:33
Alignment explanation
Indices: 79111255--79111329 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 33
79111245 CAAGTTGCCA
* *
79111255 AATAAGACCATAGCTGGGCTATGACAATTGAAT
1 AATAAGACCATAACTGGGCTAAGACAATTGAAT
* *
79111288 AATAGGACCATAACTGGGTTAAGAC-ATGTGAAT
1 AATAAGACCATAACTGGGCTAAGACAAT-TGAAT
*
79111321 GA-AAGACCA
1 AATAAGACCA
79111330 CGACAGGGCC
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (33 bp):
AATAAGACCATAACTGGGCTAAGACAATTGAAT
Found at i:79117232 original size:40 final size:40
Alignment explanation
Indices: 79117168--79117304 Score: 118
Period size: 40 Copynumber: 3.3 Consensus size: 40
79117158 GATTAAGTTC
*
79117168 GGCACTAAGTGTGCG-GTTTCAAATAGCTTCGACTATAAAT
1 GGCACTAAGTGTGCGAG-TTGAAATAGCTTCGACTATAAAT
* * *
79117208 GGCACTAAGTGTGCGAGTTGAAATAGCTTCGGCTACATGA-
1 GGCACTAAGTGTGCGAGTTGAAATAGCTTCGACTATA-AAT
* * * *
79117248 GGCACTAAGTGTGTGA-TACCGAGATAGCTTCGATTTATTGAAAT
1 GGCACTAAGTGTGCGAGT--TGAAATAGCTTCGA-CTA-T-AAAT
79117292 GGCACTAAGTGTG
1 GGCACTAAGTGTG
79117305 GAGATTGTTA
Statistics
Matches: 78, Mismatches: 11, Indels: 12
0.77 0.11 0.12
Matches are distributed among these distances:
39 1 0.01
40 47 0.60
41 13 0.17
42 2 0.03
43 1 0.01
44 14 0.18
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.28
Consensus pattern (40 bp):
GGCACTAAGTGTGCGAGTTGAAATAGCTTCGACTATAAAT
Found at i:79126546 original size:30 final size:30
Alignment explanation
Indices: 79126511--79126567 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
79126501 TTTACGAGCC
*
79126511 TAGGGGCAAAAA-TGTAATTTTGACAAAGTT
1 TAGGGG-AAAAATTATAATTTTGACAAAGTT
*
79126541 TAGGGGAAAAATTATAATTTTGCCAAA
1 TAGGGGAAAAATTATAATTTTGACAAA
79126568 ATATGATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.42, C:0.07, G:0.21, T:0.30
Consensus pattern (30 bp):
TAGGGGAAAAATTATAATTTTGACAAAGTT
Found at i:79126895 original size:27 final size:27
Alignment explanation
Indices: 79126865--79126918 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
79126855 TGTCATGTGA
* *
79126865 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
79126892 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
79126919 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:79127238 original size:50 final size:50
Alignment explanation
Indices: 79127163--79127308 Score: 204
Period size: 50 Copynumber: 2.9 Consensus size: 50
79127153 ATCTATTGTG
* * **
79127163 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAATT
*
79127213 AGGTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAATT
* * * *
79127263 -GGTCGCATGTGTAGTACTAAGTGCAAGCTACTATGCGTACCAGATA
1 AGGTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATA
79127309 GCCTTGTCTA
Statistics
Matches: 86, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
49 41 0.48
50 45 0.52
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (50 bp):
AGGTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAATT
Found at i:79131374 original size:49 final size:49
Alignment explanation
Indices: 79131302--79131528 Score: 258
Period size: 49 Copynumber: 4.6 Consensus size: 49
79131292 CTGGTACGCA
*
79131302 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCAGTACACG
** ** *
79131351 TAGTAGCCTGCACTTAGTACTACACACATGACCTAACCAT-CTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCCAG-TACACG
* * * * ** *
79131401 TAGTAGCCTACACTTAGTACTACACACGTGATCGAAGTTATCGAGTATGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCCAGTACACG
* * * *
79131452 TAGTAGCTTGCACTTAGTACTACACATGCGACCAATTATTCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCAGTACACG
79131501 TAGTAGCCTGCACTTAGTACTACACACG
1 TAGTAGCCTGCACTTAGTACTACACACG
79131529 TGACGTCACA
Statistics
Matches: 144, Mismatches: 29, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
49 66 0.46
50 44 0.31
51 33 0.23
52 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCAGTACACG
Found at i:79134315 original size:44 final size:45
Alignment explanation
Indices: 79134195--79134321 Score: 186
Period size: 46 Copynumber: 2.8 Consensus size: 45
79134185 CACTGCTGTT
*
79134195 ATGTGAGCCAGTGTAAGACATGTCTGGGACATGCATCAGGCTCGAG
1 ATGT-AGCCAGTGTAAGACATGTCTGGGACATGCATCAGGCTCAAG
79134241 ATGTAAGCCAGTGTAAGACATGTCTGGGACATGCATCA-GCTACAAG
1 ATGT-AGCCAGTGTAAGACATGTCTGGGACATGCATCAGGCT-CAAG
* *
79134287 ATGT-GCTAGTGTAAGACATGTCTAGGACATGCATC
1 ATGTAGCCAGTGTAAGACATGTCTGGGACATGCATC
79134322 GGCACGGATA
Statistics
Matches: 76, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
44 29 0.38
45 3 0.04
46 44 0.58
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (45 bp):
ATGTAGCCAGTGTAAGACATGTCTGGGACATGCATCAGGCTCAAG
Found at i:79137228 original size:18 final size:17
Alignment explanation
Indices: 79137175--79137219 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 17
79137165 AATATTATTT
79137175 ATTAAATTAATTTT--A
1 ATTAAATTAATTTTCAA
79137190 ATT-AATTAATTTTCAA
1 ATTAAATTAATTTTCAA
79137206 ATTAAATT-ATTTTC
1 ATTAAATTAATTTTC
79137220 TCAACTTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 10 0.37
15 3 0.11
16 10 0.37
17 4 0.15
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTAAATTAATTTTCAA
Found at i:79137230 original size:17 final size:16
Alignment explanation
Indices: 79137179--79137230 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 16
79137169 TTATTTATTA
79137179 AATTAATTTT--AATT
1 AATTAATTTTCAAATT
79137193 AATTAATTTTCAAATT
1 AATTAATTTTCAAATT
* *
79137209 AAATTATTTTCTCAACTT
1 -AATTAATTT-TCAAATT
79137227 AATT
1 AATT
79137231 CTAATTCCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
14 10 0.31
16 4 0.12
17 12 0.38
18 6 0.19
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (16 bp):
AATTAATTTTCAAATT
Found at i:79144806 original size:22 final size:22
Alignment explanation
Indices: 79144781--79144831 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
79144771 GTCGATACAC
79144781 GGGCGTGCCCCCTGTCTCACAT
1 GGGCGTGCCCCCTGTCTCACAT
* * *
79144803 GGGCATGTCCCCTGTCTCGCAT
1 GGGCGTGCCCCCTGTCTCACAT
79144825 GGGCGTG
1 GGGCGTG
79144832 TGGCTCTATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.08, C:0.35, G:0.33, T:0.24
Consensus pattern (22 bp):
GGGCGTGCCCCCTGTCTCACAT
Found at i:79147659 original size:46 final size:47
Alignment explanation
Indices: 79147558--79147671 Score: 140
Period size: 46 Copynumber: 2.4 Consensus size: 47
79147548 CTTCGACATA
** * * *
79147558 GACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATAATATG
1 GACTTACATGGCTCATTTCTGTCTCCAAAGCCA-ATATATATAATATG
* * *
79147606 GGCTTACATGGCTCATTTCTGTCTCCAAAGCC-ATATATCTGATATG
1 GACTTACATGGCTCATTTCTGTCTCCAAAGCCAATATATATAATATG
79147652 GACTTACATGGCTCATTTCT
1 GACTTACATGGCTCATTTCT
79147672 ATCCTGTCCT
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
46 31 0.54
48 26 0.46
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (47 bp):
GACTTACATGGCTCATTTCTGTCTCCAAAGCCAATATATATAATATG
Done.