Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 29 of 345
Found at i:9069761 original size:18 final size:18
Alignment explanation
Indices: 9069746--9069815 Score: 86
Period size: 18 Copynumber: 3.9 Consensus size: 18
9069736 CATCAGTATT
9069746 AATCAATTATTCAGTAAC
1 AATCAATTATTCAGTAAC
* *
9069764 AGTCATTTATTCAGTAAC
1 AATCAATTATTCAGTAAC
* *
9069782 AGTCAATTATTCAGTAAT
1 AATCAATTATTCAGTAAC
* *
9069800 AATTAGTTATTCAGTA
1 AATCAATTATTCAGTA
9069816 CTTTTATTTA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 45 1.00
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.39
Consensus pattern (18 bp):
AATCAATTATTCAGTAAC
Found at i:9071868 original size:17 final size:18
Alignment explanation
Indices: 9071846--9071879 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
9071836 TTAGCATATA
9071846 TTTTTTTAAT-ATTTATG
1 TTTTTTTAATAATTTATG
9071863 TTTTTTTAATAATTTAT
1 TTTTTTTAATAATTTAT
9071880 TCAATTAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (18 bp):
TTTTTTTAATAATTTATG
Found at i:9074118 original size:2 final size:2
Alignment explanation
Indices: 9074113--9074137 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9074103 TCTATATATA
9074113 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
9074138 ATGTATTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:9086159 original size:70 final size:71
Alignment explanation
Indices: 9085882--9086233 Score: 339
Period size: 74 Copynumber: 4.9 Consensus size: 71
9085872 TTTGAGTACT
* * * * **
9085882 CTGAGGTATCTTTAATTCATGTTTTCAAAAATCAATTCATATTGTGAGAAATGAGTTGAGCCTCA
1 CTGAGGTATTTTTAATTTATG-TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
9085947 GGTCACACG
65 GG--ACACG
* ** **
9085956 CTGAGGTATTTTTAGTTTATGTTTCAAAAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTCA
1 CTGAGGTATTTTTAATTTATGTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
*
9086021 GGTCACG
65 GGACACG
* * *
9086028 CTGAGGTGTTTTTAATTCCTGTTGTTTCAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCT
1 CTGAGGTATTTTTAATT--T-ATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
*
9086093 CAAGACACG
63 CAGGACACG
* * * * *
9086102 TTGAGGTAATTTCAATTTATG-TTCCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
1 CTGAGGTATTTTTAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
* *
9086166 GGCATG
66 GACACG
* * ** * * * *
9086172 CTGAGGTAGTTTTAGTTTATGTTT-AGAAAATTGACTCATCTTGCGAAATGTGAGTTAAGCCT
1 CTGAGGTATTTTTAATTTATGTTTCA-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
9086234 TTTAATTTCT
Statistics
Matches: 228, Mismatches: 44, Indels: 15
0.79 0.15 0.05
Matches are distributed among these distances:
70 60 0.26
71 34 0.15
72 20 0.09
73 4 0.02
74 104 0.46
75 6 0.03
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (71 bp):
CTGAGGTATTTTTAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
GACACG
Found at i:9086177 original size:144 final size:145
Alignment explanation
Indices: 9085882--9086184 Score: 360
Period size: 144 Copynumber: 2.1 Consensus size: 145
9085872 TTTGAGTACT
* * * *
9085882 CTGAGGTATCTTTAATTCATGTTTTCAAAAATCAATTCATATTGTGAGAAATGAGTTGAGCCTCA
1 CTGAGGTGTTTTTAATTCATGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCA
* * * * **
9085947 GGTCACACGCTGAGGTATTTTTAGTTTATGTTTCAAAAAATTGACTCATATTGCGAGAGGTGAGT
66 AG-CACACGCTGAGGTAATTTCAATTTATGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGT
*
9086012 CAAGCCTCAGGTCACG
130 CAAGCCTCAGGGCACG
* * **
9086028 CTGAGGTGTTTTTAATTCCTGTTGTTTCAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCT
1 CTGAGGTGTTTTTAATTCATG-T-TTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCT
* *
9086093 CAAG-ACACGTTGAGGTAATTTCAATTTATG-TTC-CAAAATCAACTCATATTGCGAGAGGTGAG
64 CAAGCACACGCTGAGGTAATTTCAATTTATGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAG
** * *
9086155 TTGAGCCTCGGGGCATG
129 TCAAGCCTCAGGGCACG
9086172 CTGAGGTAGTTTT
1 CTGAGGT-GTTTT
9086185 AGTTTATGTT
Statistics
Matches: 133, Mismatches: 21, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
144 45 0.34
145 8 0.06
146 40 0.30
147 1 0.01
148 39 0.29
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.33
Consensus pattern (145 bp):
CTGAGGTGTTTTTAATTCATGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCA
AGCACACGCTGAGGTAATTTCAATTTATGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTC
AAGCCTCAGGGCACG
Found at i:9086538 original size:89 final size:87
Alignment explanation
Indices: 9086428--9086640 Score: 338
Period size: 89 Copynumber: 2.4 Consensus size: 87
9086418 TTACTTTCCT
9086428 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTGTCGATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTGTCGATTT
*
9086493 CTGCTTTCCAATTTCTGCTCTTC
66 CTACTTTCCAATTTCTG-TCTTC
*
9086516 AAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTGTCGATT
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTGTCGATT
* * *
9086581 TCTACTTTTCAGTTTCTGTTTTC
65 TCTACTTTCCAATTTCTGTCTTC
* *
9086604 -AAAAATCAACTCATATTACGAGAAGTGAGTTGAGCCT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
9086641 TGGCTCACGT
Statistics
Matches: 116, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
86 34 0.29
88 4 0.03
89 78 0.67
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (87 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTGTCGATTT
CTACTTTCCAATTTCTGTCTTC
Found at i:9086736 original size:30 final size:30
Alignment explanation
Indices: 9086700--9086761 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
9086690 CAACTCATAT
*
9086700 TGCGAGAGGTGAGTTGAGCTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGCCTTTTAATTTC
*
9086730 TGCGAGAGGTGTGTTGAGCCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGCCTTTTAATTTC
9086760 TG
1 TG
9086762 TTTTCAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.18, C:0.11, G:0.31, T:0.40
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGCCTTTTAATTTC
Found at i:9088074 original size:16 final size:16
Alignment explanation
Indices: 9088026--9088068 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 16
9088016 GTGGCCGGTG
9088026 CTCTCCCCTCTC-C--
1 CTCTCCCCTCTCTCTT
9088039 CTC-CCCCTCTCTCTT
1 CTCTCCCCTCTCTCTT
9088054 CTCTCCCCTC-CTCTT
1 CTCTCCCCTCTCTCTT
9088069 TTTCTCTCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 8 0.31
13 4 0.15
15 8 0.31
16 6 0.23
ACGTcount: A:0.00, C:0.63, G:0.00, T:0.37
Consensus pattern (16 bp):
CTCTCCCCTCTCTCTT
Found at i:9088628 original size:17 final size:17
Alignment explanation
Indices: 9088588--9088630 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
9088578 TTTTATCCAC
9088588 TTTTTATATTATTATTA
1 TTTTTATATTATTATTA
*
9088605 TTATTATATTATT-TTA
1 TTTTTATATTATTATTA
9088621 TTTTT-TATTA
1 TTTTTATATTA
9088631 CTATGGTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 5 0.21
16 7 0.29
17 12 0.50
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTTTATATTATTATTA
Found at i:9089117 original size:2 final size:2
Alignment explanation
Indices: 9089110--9089138 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
9089100 TACTATTGTT
9089110 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9089139 GTGTGTGTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9089946 original size:3 final size:3
Alignment explanation
Indices: 9089938--9089974 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
9089928 TGGGCATGTT
9089938 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
9089975 GATATGAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:9093178 original size:28 final size:29
Alignment explanation
Indices: 9093135--9093190 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 29
9093125 GTAATTTGAT
* *
9093135 AAAATTTAAAATTTAA-TCTTCATACTTG
1 AAAAGTTAAAAATTAAGTCTTCATACTTG
*
9093163 AAAAGTTAAAAATTAAGTCTTCTTACTT
1 AAAAGTTAAAAATTAAGTCTTCATACTT
9093191 TTTTTAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 14 0.58
29 10 0.42
ACGTcount: A:0.43, C:0.11, G:0.05, T:0.41
Consensus pattern (29 bp):
AAAAGTTAAAAATTAAGTCTTCATACTTG
Found at i:9102682 original size:20 final size:19
Alignment explanation
Indices: 9102633--9102683 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
9102623 AATAGATATT
9102633 ATTTAAATAATAAAAAACAA
1 ATTTAAAT-ATAAAAAACAA
* * *
9102653 AATTACATATAAAAAATCGA
1 ATTTAAATATAAAAAA-CAA
9102673 ATTTAAATATA
1 ATTTAAATATA
9102684 TTAAGTTACA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.63, C:0.06, G:0.02, T:0.29
Consensus pattern (19 bp):
ATTTAAATATAAAAAACAA
Found at i:9105634 original size:21 final size:20
Alignment explanation
Indices: 9105608--9105646 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
9105598 TTAAATTCTA
9105608 TTTTATTATAAATATAAGTAT
1 TTTTATTATAAATA-AAGTAT
*
9105629 TTTTATTATATATAAAGT
1 TTTTATTATAAATAAAGT
9105647 GGTTGATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (20 bp):
TTTTATTATAAATAAAGTAT
Found at i:9107725 original size:2 final size:2
Alignment explanation
Indices: 9107720--9107757 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
9107710 TCGTATATGC
9107720 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9107758 GTTAGAATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9113650 original size:19 final size:20
Alignment explanation
Indices: 9113628--9113666 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
9113618 TAAGTTTTCT
*
9113628 AAAATTTTAAATAT-ATTAA
1 AAAATGTTAAATATAATTAA
9113647 AAAATGTTAAATATAATTAA
1 AAAATGTTAAATATAATTAA
9113667 TTTTGAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (20 bp):
AAAATGTTAAATATAATTAA
Found at i:9113966 original size:16 final size:17
Alignment explanation
Indices: 9113917--9113980 Score: 67
Period size: 17 Copynumber: 3.6 Consensus size: 17
9113907 AAGATTTCTT
9113917 AATATATTTAAAATTTTA
1 AATATA-TTAAAATTTTA
* *
9113935 AA-AAACTTAAAAAATTTA
1 AATATA-TT-AAAATTTTA
9113953 AATATATTAAAATTTTA
1 AATATATTAAAATTTTA
*
9113970 AATATGTTAAA
1 AATATATTAAA
9113981 GAAAACGTTG
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
17 22 0.58
18 14 0.37
19 2 0.05
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (17 bp):
AATATATTAAAATTTTA
Found at i:9114057 original size:62 final size:61
Alignment explanation
Indices: 9113948--9114077 Score: 163
Period size: 62 Copynumber: 2.1 Consensus size: 61
9113938 AACTTAAAAA
* * * * *
9113948 ATTTAAATATATTAAAATTTTAAATATGTTAAAGAAAACGTTGAGTATAATCAATTTTAAAT
1 ATTT-AATATATTAAAATTTTAAACATATTAAAGAAAACGTTAAGTATAAGCAAATTTAAAT
*
9114010 ATTTAATATATTAAAATTTTGAAACATATTAAAAGAAAA-TTTAAGTATAAGCAAATTTAAAT
1 ATTTAATATATTAAAATTTT-AAACATATT-AAAGAAAACGTTAAGTATAAGCAAATTTAAAT
*
9114072 TTTTAA
1 ATTTAA
9114078 AATTTTAATA
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
61 16 0.27
62 35 0.59
63 8 0.14
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (61 bp):
ATTTAATATATTAAAATTTTAAACATATTAAAGAAAACGTTAAGTATAAGCAAATTTAAAT
Found at i:9116274 original size:21 final size:21
Alignment explanation
Indices: 9116249--9116292 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
9116239 AGCACCACCG
9116249 TTTTTCTGGAGATAAAATACT
1 TTTTTCTGGAGATAAAATACT
9116270 TTTTTCTGGAGATAAAATACT
1 TTTTTCTGGAGATAAAATACT
9116291 TT
1 TT
9116293 GGATGCGCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.32, C:0.09, G:0.14, T:0.45
Consensus pattern (21 bp):
TTTTTCTGGAGATAAAATACT
Found at i:9123882 original size:41 final size:40
Alignment explanation
Indices: 9123822--9123949 Score: 141
Period size: 41 Copynumber: 3.1 Consensus size: 40
9123812 GCAAAAATTA
* * * *
9123822 TAAAACACGGAGCAATAGCGGCGTTTTTTGTTAAAACGCCGC
1 TAAAA-ACAGAGCATTAGCGGCG-CTTTTGATAAAACGCCGC
*
9123864 TAAAAACAGAGCATTAGCGGCGCTTTTGGA-AAAACGCCAC
1 TAAAAACAGAGCATTAGCGGCGCTTTT-GATAAAACGCCGC
* * *
9123904 TAAAAACCAAAGCATTAGCGGCGCTTTCGATAAAATGCCGC
1 TAAAAA-CAGAGCATTAGCGGCGCTTTTGATAAAACGCCGC
9123945 TAAAA
1 TAAAA
9123950 GTCATATAAT
Statistics
Matches: 74, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
40 21 0.28
41 48 0.65
42 5 0.07
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.20
Consensus pattern (40 bp):
TAAAAACAGAGCATTAGCGGCGCTTTTGATAAAACGCCGC
Found at i:9125380 original size:13 final size:13
Alignment explanation
Indices: 9125362--9125395 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
9125352 ATTGGAACAT
*
9125362 CTAAAATTTCCCC
1 CTAAAATCTCCCC
*
9125375 CTAAAATCTCCCT
1 CTAAAATCTCCCC
9125388 CTAAAATC
1 CTAAAATC
9125396 GGTATCCCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.29
Consensus pattern (13 bp):
CTAAAATCTCCCC
Found at i:9125443 original size:14 final size:14
Alignment explanation
Indices: 9125424--9125453 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
9125414 CTAATTTTTC
*
9125424 CCCCAAATCGAAAT
1 CCCCAAATCAAAAT
9125438 CCCCAAATCAAAAT
1 CCCCAAATCAAAAT
9125452 CC
1 CC
9125454 TTCTACCATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.40, G:0.03, T:0.13
Consensus pattern (14 bp):
CCCCAAATCAAAAT
Found at i:9125562 original size:14 final size:14
Alignment explanation
Indices: 9125543--9125572 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
9125533 ATTTCTTGTT
9125543 TCTCTAAATCTCCA
1 TCTCTAAATCTCCA
9125557 TCTCTAAATCTCCA
1 TCTCTAAATCTCCA
9125571 TC
1 TC
9125573 CCTTTGATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.37, G:0.00, T:0.37
Consensus pattern (14 bp):
TCTCTAAATCTCCA
Found at i:9129712 original size:19 final size:19
Alignment explanation
Indices: 9129689--9129735 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
9129679 ATTTAATCTA
*
9129689 ATTTTTATTATTTA-TTTT
1 ATTTTTATTATATATTTTT
* *
9129707 AGTTTTGATTCTATATTTTT
1 A-TTTTTATTATATATTTTT
9129727 ATTTTTATT
1 ATTTTTATT
9129736 TTAATTTGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.04
19 17 0.74
20 5 0.22
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (19 bp):
ATTTTTATTATATATTTTT
Found at i:9132072 original size:44 final size:45
Alignment explanation
Indices: 9131984--9132072 Score: 144
Period size: 46 Copynumber: 2.0 Consensus size: 45
9131974 AAAACAGAAA
*
9131984 TGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGAT
1 TGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGGAT
*
9132030 TGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGGA
1 TGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGGA
9132073 ATAATTCATT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
44 20 0.49
46 21 0.51
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (45 bp):
TGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGGAT
Found at i:9132087 original size:44 final size:45
Alignment explanation
Indices: 9131977--9132110 Score: 135
Period size: 46 Copynumber: 3.0 Consensus size: 45
9131967 ACAGGACAAA
* * *
9131977 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* * *
9132023 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
** * * * *
9132067 ACAGGAATAATTCATTTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
9132111 CAGGATATTG
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
44 35 0.48
45 1 0.01
46 37 0.51
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (45 bp):
ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:9136371 original size:31 final size:33
Alignment explanation
Indices: 9136336--9136415 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 33
9136326 ATAAAACTAG
*
9136336 TGATACATAAAATATTTTAAA-ATTTTAA-AT-A
1 TGATA-ATAAAATATTTTAAATAATTTAATATAA
*
9136367 TGATAATAAGCGATA-TTTAAATAATTTAATATAA
1 TGATAATAA--AATATTTTAAATAATTTAATATAA
9136401 TGATAAATAAAATAT
1 TGAT-AATAAAATAT
9136416 AAATTAATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
30 4 0.10
31 11 0.28
32 9 0.23
33 5 0.13
34 5 0.13
35 5 0.13
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.39
Consensus pattern (33 bp):
TGATAATAAAATATTTTAAATAATTTAATATAA
Found at i:9147893 original size:4 final size:4
Alignment explanation
Indices: 9147881--9147913 Score: 57
Period size: 4 Copynumber: 8.0 Consensus size: 4
9147871 TATATAAGAA
9147881 CATC ACATC CATC CATC CATC CATC CATC CATC
1 CATC -CATC CATC CATC CATC CATC CATC CATC
9147914 AAAATCTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 24 0.86
5 4 0.14
ACGTcount: A:0.27, C:0.48, G:0.00, T:0.24
Consensus pattern (4 bp):
CATC
Found at i:9149253 original size:29 final size:32
Alignment explanation
Indices: 9149199--9149264 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 32
9149189 CTTGACCTCA
*
9149199 TAAAAAATATAAAATTACAATTTAATTC-TTT
1 TAAAAAATATAAAATTACAATTTAATACATTT
*
9149230 TAAAAATTATAAAATTA-AA-TTAATACATTT
1 TAAAAAATATAAAATTACAATTTAATACATTT
9149260 TAAAA
1 TAAAA
9149265 TATAATAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
29 6 0.19
30 10 0.31
31 16 0.50
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (32 bp):
TAAAAAATATAAAATTACAATTTAATACATTT
Found at i:9149265 original size:29 final size:30
Alignment explanation
Indices: 9149201--9149269 Score: 90
Period size: 30 Copynumber: 2.3 Consensus size: 30
9149191 TGACCTCATA
*
9149201 AAAAATATAAAATTACAATTTAATTCTTTT
1 AAAAATATAAAATTACAATTTAATACTTTT
9149231 AAAAATTATAAAATTA-AA-TTAATACATTTT
1 AAAAA-TATAAAATTACAATTTAATAC-TTTT
9149261 -AAAATATAA
1 AAAAATATAA
9149270 TAATATATGA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
28 5 0.14
29 10 0.28
30 11 0.31
31 10 0.28
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (30 bp):
AAAAATATAAAATTACAATTTAATACTTTT
Found at i:9161752 original size:13 final size:13
Alignment explanation
Indices: 9161734--9161853 Score: 111
Period size: 13 Copynumber: 10.2 Consensus size: 13
9161724 TCTTCACTCC
9161734 AACCACCCCACTA
1 AACCACCCCACTA
9161747 AACCA-CCC-C--
1 AACCACCCCACTA
9161756 AACCACCCCACTA
1 AACCACCCCACTA
* *
9161769 AACTACTCCACTA
1 AACCACCCCACTA
*
9161782 AACCA-CTC-C--
1 AACCACCCCACTA
9161791 AACCACCCCACTA
1 AACCACCCCACTA
*
9161804 AACCACCTCACTA
1 AACCACCCCACTA
*
9161817 AACCA-CTC-C--
1 AACCACCCCACTA
9161826 AACCACCCCACTA
1 AACCACCCCACTA
9161839 AACCACCCCACTA
1 AACCACCCCACTA
9161852 AA
1 AA
9161854 TCATTCCAAC
Statistics
Matches: 87, Mismatches: 8, Indels: 24
0.73 0.07 0.20
Matches are distributed among these distances:
9 15 0.17
10 7 0.08
11 6 0.07
12 7 0.08
13 52 0.60
ACGTcount: A:0.38, C:0.52, G:0.00, T:0.10
Consensus pattern (13 bp):
AACCACCCCACTA
Found at i:9161760 original size:22 final size:22
Alignment explanation
Indices: 9161732--9161848 Score: 110
Period size: 22 Copynumber: 5.1 Consensus size: 22
9161722 TATCTTCACT
9161732 CCAACCACCCCACTAAACCACC
1 CCAACCACCCCACTAAACCACC
* *
9161754 CCAACCACCCCACTAAACTACT
1 CCAACCACCCCACTAAACCACC
* ** *
9161776 CC-ACTAAACCACTCCAACCACCC
1 CCAACCACCCCACT-AAACCA-CC
* *
9161799 CACTAAACCACCTCACTAAACCACT
1 C-C--AACCACCCCACTAAACCACC
9161824 CCAACCACCCCACTAAACCACC
1 CCAACCACCCCACTAAACCACC
9161846 CCA
1 CCA
9161849 CTAAATCATT
Statistics
Matches: 73, Mismatches: 16, Indels: 12
0.72 0.16 0.12
Matches are distributed among these distances:
21 8 0.11
22 47 0.64
23 2 0.03
24 2 0.03
25 2 0.03
26 5 0.07
27 7 0.10
ACGTcount: A:0.37, C:0.54, G:0.00, T:0.09
Consensus pattern (22 bp):
CCAACCACCCCACTAAACCACC
Found at i:9161787 original size:35 final size:34
Alignment explanation
Indices: 9161734--9161872 Score: 197
Period size: 35 Copynumber: 4.0 Consensus size: 34
9161724 TCTTCACTCC
*
9161734 AACCACCCCACTAAACCACCCCAACCACCCCACTA
1 AACCA-CCCACTAAACCACTCCAACCACCCCACTA
*
9161769 AACTACTCCACTAAACCACTCCAACCACCCCACTA
1 AACCAC-CCACTAAACCACTCCAACCACCCCACTA
9161804 AACCACCTCACTAAACCACTCCAACCACCCCACTA
1 AACCACC-CACTAAACCACTCCAACCACCCCACTA
* * *
9161839 AACCACCCCACTAAATCATTCCAACCACTCCACT
1 AACCA-CCCACTAAACCACTCCAACCACCCCACT
9161873 TGCCTACAAA
Statistics
Matches: 95, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
34 2 0.02
35 91 0.96
36 2 0.02
ACGTcount: A:0.37, C:0.51, G:0.00, T:0.12
Consensus pattern (34 bp):
AACCACCCACTAAACCACTCCAACCACCCCACTA
Found at i:9161816 original size:48 final size:48
Alignment explanation
Indices: 9161728--9161853 Score: 136
Period size: 48 Copynumber: 2.7 Consensus size: 48
9161718 CAAATATCTT
**
9161728 CACTCCAACCACCCCACTAAACCA-CCC-C--AACCACCCCACTAAAC
1 CACTCCAACCAAACCACTAAACCACCCCACTAAACCACCCCACTAAAC
* * * *
9161772 TACTCC-ACTAAACCACTCCAACCACCCCACTAAACCACCTCACTAAAC
1 CACTCCAACCAAACCACT-AAACCACCCCACTAAACCACCCCACTAAAC
**
9161820 CACTCCAACCACCCCACTAAACCACCCCACTAAA
1 CACTCCAACCAAACCACTAAACCACCCCACTAAA
9161854 TCATTCCAAC
Statistics
Matches: 65, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
43 8 0.12
44 10 0.15
45 3 0.05
46 1 0.02
48 35 0.54
49 8 0.12
ACGTcount: A:0.37, C:0.52, G:0.00, T:0.10
Consensus pattern (48 bp):
CACTCCAACCAAACCACTAAACCACCCCACTAAACCACCCCACTAAAC
Found at i:9162271 original size:19 final size:18
Alignment explanation
Indices: 9162234--9162275 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
9162224 GGAGAGAGTG
*
9162234 TTATTTTTAATATTGTTA
1 TTATTTTTAATATTATTA
*
9162252 TTATTTTCTACTATTATTA
1 TTATTTT-TAATATTATTA
9162271 TTATT
1 TTATT
9162276 ACTAATACCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (18 bp):
TTATTTTTAATATTATTA
Found at i:9165841 original size:33 final size:30
Alignment explanation
Indices: 9165797--9165866 Score: 86
Period size: 33 Copynumber: 2.2 Consensus size: 30
9165787 TACTAAGAAT
*
9165797 ATATATATATATATAAATAATAGTATTAGAA
1 ATATATATATATATAAATAATAATATTA-AA
* *
9165828 ATCATATAGTATATATAACTGATAATATTAAA
1 AT-ATATA-TATATATAAATAATAATATTAAA
9165860 ATATATA
1 ATATATA
9165867 CATAATATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
31 7 0.21
32 9 0.26
33 18 0.53
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.39
Consensus pattern (30 bp):
ATATATATATATATAAATAATAATATTAAA
Found at i:9166090 original size:3 final size:3
Alignment explanation
Indices: 9166082--9166329 Score: 177
Period size: 3 Copynumber: 80.0 Consensus size: 3
9166072 ACAAGGATAT
9166082 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * ** * *
9166130 ATA ATA ATA ATA ATA ATA TTGA A-A CACA A-A AGCC ATT ATA ATA AAA
1 ATA ATA ATA ATA ATA ATA AT-A ATA -ATA ATA A-TA ATA ATA ATA ATA
* * * * *
9166176 ATA TTA A-A ATA A-A GTA ATA GA-A ACA TTA CTA CAT- ATA TATA TATA
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA -ATA ATA -ATA -ATA
* * * *
9166221 CATA CATGA AGA TATA CACTA AT- GTA TTTCA ATA ACA ATA ATA ATA ATA
1 -ATA -AT-A ATA -ATA -A-TA ATA ATA -AT-A ATA ATA ATA ATA ATA ATA
9166270 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
9166318 ATA ATA ATA ATA
1 ATA ATA ATA ATA
9166330 TTGAAATGCA
Statistics
Matches: 202, Mismatches: 25, Indels: 36
0.77 0.10 0.14
Matches are distributed among these distances:
2 10 0.05
3 163 0.81
4 25 0.12
5 4 0.02
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:9166956 original size:15 final size:16
Alignment explanation
Indices: 9166938--9166974 Score: 67
Period size: 15 Copynumber: 2.4 Consensus size: 16
9166928 TTTTTTTATA
9166938 TTTTTTTGTATAT-TT
1 TTTTTTTGTATATATT
9166953 TTTTTTTGTATATATT
1 TTTTTTTGTATATATT
9166969 TTTTTT
1 TTTTTT
9166975 ATGTTTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.14, C:0.00, G:0.05, T:0.81
Consensus pattern (16 bp):
TTTTTTTGTATATATT
Found at i:9168810 original size:15 final size:15
Alignment explanation
Indices: 9168790--9168819 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
9168780 TATATGATGC
9168790 TTGAATTGAATATAT
1 TTGAATTGAATATAT
9168805 TTGAATTGAATATAT
1 TTGAATTGAATATAT
9168820 GAAATGTATG
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:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (15 bp):
TTGAATTGAATATAT
Found at i:9169066 original size:40 final size:40
Alignment explanation
Indices: 9169005--9169142 Score: 177
Period size: 40 Copynumber: 3.5 Consensus size: 40
9168995 CTCGAGAATA
* * *
9169005 TAAAGTGGATAGGATTCGTTCCTGATTCACTATAATACCT
1 TAAAGTGGATAGGATTTGTTCCTGATTCACTATAGTAACT
* * *
9169045 CAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAATT
1 TAAAGTGGATAGGATTTGTTCCTGATTCACTATAGTAACT
* * * *
9169085 TAAAGTGAATAGGATTTATTCTTGATTCACTACAGTAACT
1 TAAAGTGGATAGGATTTGTTCCTGATTCACTATAGTAACT
*
9169125 TAAGGTGGATAGGATTTG
1 TAAAGTGGATAGGATTTG
9169143 ACCTAAAAAG
Statistics
Matches: 82, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 82 1.00
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.36
Consensus pattern (40 bp):
TAAAGTGGATAGGATTTGTTCCTGATTCACTATAGTAACT
Found at i:9169208 original size:79 final size:79
Alignment explanation
Indices: 9169119--9169344 Score: 294
Period size: 79 Copynumber: 2.9 Consensus size: 79
9169109 ATTCACTACA
* * *
9169119 GTAACTTAAGGTGGATAGGATTTGACCTAAAAAGGGTAATCCTGATTCACTACGGTTACATGATA
1 GTAACTTAAGGTGGATAGGATTTGACCTGAAAAGAGTAATCCTGATTCGCTACGGTTACATGATA
9169184 TATGATTCATTATG
66 TATGATTCATTATG
* * *
9169198 GTAACCTAAGGTGGATAGGATTTGACCTGAAATGAGTAATCCTGATTCGCTACGGTTACACGATA
1 GTAACTTAAGGTGGATAGGATTTGACCTGAAAAGAGTAATCCTGATTCGCTACGGTTACATGATA
* *
9169263 CATGATTCCTTATG
66 TATGATTCATTATG
* * * * * * *
9169277 ATAACTTAAGGT-GAGTAGGATTTGACTTGAAAA-TGTATTCCTAATTCGCTACAGTTACATGAG
1 GTAACTTAAGGTGGA-TAGGATTTGACCTGAAAAGAGTAATCCTGATTCGCTACGGTTACATGAT
9169340 ATATG
65 ATATG
9169345 TAACGACCCG
Statistics
Matches: 127, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
78 30 0.24
79 97 0.76
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (79 bp):
GTAACTTAAGGTGGATAGGATTTGACCTGAAAAGAGTAATCCTGATTCGCTACGGTTACATGATA
TATGATTCATTATG
Found at i:9169720 original size:4 final size:4
Alignment explanation
Indices: 9169713--9169746 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
9169703 TTATATTAAT
9169713 TAAA TAAA GTAAA TAAA TAAAA TAAA TAAA TAAA
1 TAAA TAAA -TAAA TAAA T-AAA TAAA TAAA TAAA
9169747 GACAAATGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:9169727 original size:9 final size:8
Alignment explanation
Indices: 9169713--9169746 Score: 50
Period size: 9 Copynumber: 4.0 Consensus size: 8
9169703 TTATATTAAT
9169713 TAAATAAA
1 TAAATAAA
9169721 GTAAATAAA
1 -TAAATAAA
9169730 TAAAATAAA
1 T-AAATAAA
9169739 TAAATAAA
1 TAAATAAA
9169747 GACAAATGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (8 bp):
TAAATAAA
Found at i:9169729 original size:13 final size:13
Alignment explanation
Indices: 9169713--9169747 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
9169703 TTATATTAAT
9169713 TAAATAAAGTAAA
1 TAAATAAAGTAAA
*
9169726 TAAATAAAATAAA
1 TAAATAAAGTAAA
9169739 TAAATAAAG
1 TAAATAAAG
9169748 ACAAATGTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (13 bp):
TAAATAAAGTAAA
Found at i:9170285 original size:17 final size:17
Alignment explanation
Indices: 9170263--9170301 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
9170253 CAAATTTAAA
9170263 TATTAAATGTAAATTAG
1 TATTAAATGTAAATTAG
9170280 TATTAAATGTAAATTAG
1 TATTAAATGTAAATTAG
9170297 TATTA
1 TATTA
9170302 TATTAATGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (17 bp):
TATTAAATGTAAATTAG
Found at i:9171256 original size:18 final size:18
Alignment explanation
Indices: 9171235--9171368 Score: 135
Period size: 18 Copynumber: 7.4 Consensus size: 18
9171225 AACTGGCTAC
*
9171235 TACTGAATAATTAACTGT
1 TACTGAATAATTGACTGT
*
9171253 TACTGAATAAATGACTGT
1 TACTGAATAATTGACTGT
* * *
9171271 TACTGAATAACTGATTAT
1 TACTGAATAATTGACTGT
9171289 TACTGAATAATTGACTGT
1 TACTGAATAATTGACTGT
* *
9171307 TACTGAATAAATGACTAT
1 TACTGAATAATTGACTGT
* * **
9171325 AACTAAATAACCGACTGT
1 TACTGAATAATTGACTGT
* *
9171343 TTCTGAACAATTGA-TCGT
1 TACTGAATAATTGACT-GT
9171361 TACTGAAT
1 TACTGAAT
9171369 GATATTGATA
Statistics
Matches: 92, Mismatches: 23, Indels: 2
0.79 0.20 0.02
Matches are distributed among these distances:
17 1 0.01
18 91 0.99
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.35
Consensus pattern (18 bp):
TACTGAATAATTGACTGT
Found at i:9171275 original size:36 final size:36
Alignment explanation
Indices: 9171217--9171349 Score: 122
Period size: 36 Copynumber: 3.7 Consensus size: 36
9171207 TAAATAAATG
* * ** * *
9171217 TACTGAATAACTGGCTACTACTGAATAATTAACTGT
1 TACTGAATAAATGACTGTTACTGAATAACTAACTAT
* *
9171253 TACTGAATAAATGACTGTTACTGAATAACTGATTAT
1 TACTGAATAAATGACTGTTACTGAATAACTAACTAT
* * *
9171289 TACTGAATAATTGACTGTTACTGAATAAATGACTAT
1 TACTGAATAAATGACTGTTACTGAATAACTAACTAT
* * ** *
9171325 AACTAAATAACCGACTGTTTCTGAA
1 TACTGAATAAATGACTGTTACTGAA
9171350 CAATTGATCG
Statistics
Matches: 81, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 81 1.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (36 bp):
TACTGAATAAATGACTGTTACTGAATAACTAACTAT
Found at i:9171293 original size:54 final size:54
Alignment explanation
Indices: 9171217--9171340 Score: 176
Period size: 54 Copynumber: 2.3 Consensus size: 54
9171207 TAAATAAATG
*
9171217 TACTGAATAACTGGCTACTACTGAATAATTAACTGTTACTGAATAAATGACTGT
1 TACTGAATAACTGACTACTACTGAATAATTAACTGTTACTGAATAAATGACTGT
* * * *
9171271 TACTGAATAACTGATTATTACTGAATAATTGACTGTTACTGAATAAATGACTAT
1 TACTGAATAACTGACTACTACTGAATAATTAACTGTTACTGAATAAATGACTGT
* * *
9171325 AACTAAATAACCGACT
1 TACTGAATAACTGACT
9171341 GTTTCTGAAC
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 61 1.00
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.33
Consensus pattern (54 bp):
TACTGAATAACTGACTACTACTGAATAATTAACTGTTACTGAATAAATGACTGT
Found at i:9171349 original size:54 final size:54
Alignment explanation
Indices: 9171235--9171368 Score: 171
Period size: 54 Copynumber: 2.5 Consensus size: 54
9171225 AACTGGCTAC
* * * * * *
9171235 TACTGAATAATTAACTGTTACTGAATAAATGACTGTTACTGAATAACTGATTAT
1 TACTGAATAATTGACTGTTACTGAATAAATGACTATAACTAAATAACCGACTAT
*
9171289 TACTGAATAATTGACTGTTACTGAATAAATGACTATAACTAAATAACCGACTGT
1 TACTGAATAATTGACTGTTACTGAATAAATGACTATAACTAAATAACCGACTAT
* *
9171343 TTCTGAACAATTGA-TCGTTACTGAAT
1 TACTGAATAATTGACT-GTTACTGAAT
9171369 GATATTGATA
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
53 1 0.01
54 69 0.99
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.35
Consensus pattern (54 bp):
TACTGAATAATTGACTGTTACTGAATAAATGACTATAACTAAATAACCGACTAT
Found at i:9173037 original size:49 final size:50
Alignment explanation
Indices: 9172965--9173062 Score: 119
Period size: 49 Copynumber: 2.0 Consensus size: 50
9172955 TCCATATAGA
* * * *
9172965 ACTATACTTCTTTTATTTTACATTAATTAGAAT-ATGGTTTTTTAACCTT
1 ACTATACTTCTTCTATTTGACATTAAGTAGAATAAAGGTTTTTTAACCTT
* *
9173014 ACTATACTT-TATCTATTTGACATTGAGTAGAATAAAGTTTTTTTAACCT
1 ACTATACTTCT-TCTATTTGACATTAAGTAGAATAAAGGTTTTTTAACCT
9173063 ATAAATAGAT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
48 1 0.02
49 27 0.66
50 13 0.32
ACGTcount: A:0.31, C:0.12, G:0.08, T:0.49
Consensus pattern (50 bp):
ACTATACTTCTTCTATTTGACATTAAGTAGAATAAAGGTTTTTTAACCTT
Found at i:9177162 original size:46 final size:46
Alignment explanation
Indices: 9177110--9177431 Score: 473
Period size: 46 Copynumber: 7.0 Consensus size: 46
9177100 AGTGTGCTCT
* **
9177110 CTGATATGAAATGTGTAAGATCATGGTTGAAAGATATTATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
9177156 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
9177202 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
9177248 CTGATTTGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
**
9177294 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** ** *
9177340 ATGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * ** *
9177386 ATAACATGAAATGAATAAGACCATGGTTGAAAGATACCATGACAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
9177432 ATGACAGAAA
Statistics
Matches: 259, Mismatches: 17, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 259 1.00
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:9177359 original size:138 final size:138
Alignment explanation
Indices: 9177110--9177506 Score: 476
Period size: 138 Copynumber: 2.9 Consensus size: 138
9177100 AGTGTGCTCT
* ** **
9177110 CTGATATGAAATGTGTAAGATCATGGTTGAAAGATATTATGGCAACCTGATATGAAATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAATAAG
* * * **
9177175 ACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACC
66 ACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAATAAGACCATGGTTGAAAGATACC
9177240 ATGGCAAC
131 ATGGCAAC
*
9177248 CTGATTTGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAATAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAATAAG
*
9177313 ACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAATAAGACCATGGTTGAAAGATACC
66 ACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAATAAGACCATGGTTGAAAGATACC
*
9177378 ATGGCAGC
131 ATGGCAAC
* * * ** * * *
9177386 ATAACATGAAATGAATAAGACCATGGTTGAAAGATACCATGACAACATGACA-GAAAATGAATGA
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AAATG-A--A
* * * * * *
9177450 GTAAGACCATAGTTGAAAGACACTATGGCATCATGTCA--AAGATAAATAAGACCATGG
62 -TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAA-ATGAATAAGACCATGG
9177507 ATGGGAGACG
Statistics
Matches: 224, Mismatches: 29, Indels: 9
0.85 0.11 0.03
Matches are distributed among these distances:
137 1 0.00
138 173 0.77
139 1 0.00
140 2 0.01
141 16 0.07
142 31 0.14
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.23
Consensus pattern (138 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAATAAG
ACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAATAAGACCATGGTTGAAAGATACC
ATGGCAAC
Found at i:9177444 original size:46 final size:46
Alignment explanation
Indices: 9177115--9177506 Score: 430
Period size: 46 Copynumber: 8.5 Consensus size: 46
9177105 GCTCTCTGAT
** * ** * *
9177115 ATGAAATGTGTAAGATCATGGTTGAAAGATATTATGGCAACCTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * *
9177161 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * *
9177207 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* ** * *
9177253 TTGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
9177299 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * *
9177345 GGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCATAAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
9177391 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGACAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * *
9177437 A-GAAAATGAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATGTC
1 ATG-AAATG-A--A-TAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
9177487 A--AAGATAAATAAGACCATGG
1 ATGAA-ATGAATAAGACCATGG
9177507 ATGGGAGACG
Statistics
Matches: 314, Mismatches: 26, Indels: 13
0.89 0.07 0.04
Matches are distributed among these distances:
45 11 0.04
46 265 0.84
47 1 0.00
48 3 0.01
49 3 0.01
50 31 0.10
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:9179135 original size:16 final size:17
Alignment explanation
Indices: 9179104--9179136 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
9179094 TTCATAAGTA
9179104 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
9179121 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
9179137 ACTTCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:9179732 original size:46 final size:46
Alignment explanation
Indices: 9179417--9179724 Score: 408
Period size: 46 Copynumber: 6.7 Consensus size: 46
9179407 TTATCTTTAA
* * * * *
9179417 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATGT
* *
9179463 CATGTTGTCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
*
9179509 CACGTTGCCATGGTATCTTTCAACCATGGTCTTATT-ATTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATGT
*
9179555 CACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
* * * *
9179601 CACGCTGCCATGGTATC-TTCAACCATAGTCTT-TTCATTTCCTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
* * ** *
9179645 CATGTTGCTATGGTATCTTTCAACCATGGTCTCACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
9179691 CATGTTGCCATGGTATCTTTCAACCATGGTCTTA
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTA
9179725 CACATTTCTT
Statistics
Matches: 233, Mismatches: 24, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
44 25 0.11
45 31 0.13
46 176 0.76
47 1 0.00
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.42
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
Found at i:9181517 original size:11 final size:11
Alignment explanation
Indices: 9181501--9181548 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
9181491 CTTTATATAC
9181501 TAATAAAATAA
1 TAATAAAATAA
*
9181512 TAATAAAATATCT
1 TAATAAAATA--A
* *
9181525 TATTAAAATAT
1 TAATAAAATAA
9181536 TAATAAAATAA
1 TAATAAAATAA
9181547 TA
1 TA
9181549 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 22 0.71
13 9 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:9187405 original size:15 final size:16
Alignment explanation
Indices: 9187385--9187414 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9187375 AAAGTTACTT
9187385 AAAA-TTAAAAATAAA
1 AAAATTTAAAAATAAA
9187400 AAAATTTAAAAATAA
1 AAAATTTAAAAATAA
9187415 TTTAATATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (16 bp):
AAAATTTAAAAATAAA
Found at i:9190460 original size:2 final size:2
Alignment explanation
Indices: 9190453--9190499 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
9190443 ATACATAGAT
9190453 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9190495 TA TA T
1 TA TA T
9190500 GCTTGGTTAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9193393 original size:43 final size:42
Alignment explanation
Indices: 9193339--9193497 Score: 171
Period size: 43 Copynumber: 3.7 Consensus size: 42
9193329 AACATATACA
* *
9193339 ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAACATTG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGTAATCAAA-ATCG
* * *
9193382 ATGCCACTGTCCCAGACAG-GGTCTTACACGAAATC-AGATACG
1 ATGCCAATGTCCCAGAC-GTGGTCTTACACGTAATCAAAAT-CG
* * *
9193424 ATGTCAATGTCCCAGACATGG-CTTTACACGTAAAACAAAAGTCG
1 ATGCCAATGTCCCAGACGTGGTC-TTACACGT-AATCAAAA-TCG
9193468 ATGCCAATGTCCCAGACGTGGTCTTACACG
1 ATGCCAATGTCCCAGACGTGGTCTTACACG
9193498 CAAAACAGAT
Statistics
Matches: 95, Mismatches: 13, Indels: 15
0.77 0.11 0.12
Matches are distributed among these distances:
41 3 0.03
42 26 0.27
43 33 0.35
44 31 0.33
45 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACGTAATCAAAATCG
Found at i:9193491 original size:86 final size:86
Alignment explanation
Indices: 9193329--9193508 Score: 215
Period size: 85 Copynumber: 2.1 Consensus size: 86
9193319 TAGCTCAGAG
* * * * * *
9193329 AACATATACAATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAACATTGATGCCACTGTCC
1 AACAGATACAATGCCAATGTCCCAGACATGGTCTTACACGTAAACAAACATCGATGCCAATGTCC
9193394 CAGACAGGGTCTTACACG-AA
66 CAGACAGGGTCTTACACGCAA
* * *
9193414 ATCAGATACGATGTCAATGTCCCAGACATGG-CTTTACACGTAAAACAAA-AGTCGATGCCAATG
1 AACAGATACAATGCCAATGTCCCAGACATGGTC-TTACACGT-AAACAAACA-TCGATGCCAATG
9193477 TCCCAGAC-GTGGTCTTACACGCAA
63 TCCCAGACAG-GGTCTTACACGCAA
9193501 AACAGATA
1 AACAGATA
9193509 TCGGAAATCC
Statistics
Matches: 80, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
84 1 0.01
85 35 0.44
86 35 0.44
87 9 0.11
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.22
Consensus pattern (86 bp):
AACAGATACAATGCCAATGTCCCAGACATGGTCTTACACGTAAACAAACATCGATGCCAATGTCC
CAGACAGGGTCTTACACGCAA
Found at i:9195655 original size:16 final size:16
Alignment explanation
Indices: 9195634--9195722 Score: 67
Period size: 16 Copynumber: 5.4 Consensus size: 16
9195624 CATTCATGAG
*
9195634 TGTTTTAATGTCTTTA
1 TGTTTTAATGTCTTAA
*
9195650 TGTTTTGTTTATGT-TTAA
1 TG--TT-TTAATGTCTTAA
*
9195668 TGCTTTT-ATGTCTTATT
1 TG-TTTTAATGTCTTA-A
9195685 TGTTTTAA-GTCTTAA
1 TGTTTTAATGTCTTAA
* *
9195700 CGTTCTAATGTCTTAA
1 TGTTTTAATGTCTTAA
9195716 TGTTTTA
1 TGTTTTA
9195723 TGTTTTTTTA
Statistics
Matches: 57, Mismatches: 9, Indels: 14
0.71 0.11 0.17
Matches are distributed among these distances:
15 10 0.18
16 29 0.51
17 5 0.09
18 7 0.12
19 6 0.11
ACGTcount: A:0.19, C:0.08, G:0.13, T:0.60
Consensus pattern (16 bp):
TGTTTTAATGTCTTAA
Found at i:9196271 original size:30 final size:30
Alignment explanation
Indices: 9196235--9196325 Score: 182
Period size: 30 Copynumber: 3.0 Consensus size: 30
9196225 TATAGCAGGT
9196235 ATGTTGGATACATGACTATTGTATGACATG
1 ATGTTGGATACATGACTATTGTATGACATG
9196265 ATGTTGGATACATGACTATTGTATGACATG
1 ATGTTGGATACATGACTATTGTATGACATG
9196295 ATGTTGGATACATGACTATTGTATGACATG
1 ATGTTGGATACATGACTATTGTATGACATG
9196325 A
1 A
9196326 CTTTACTAGT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 61 1.00
ACGTcount: A:0.31, C:0.10, G:0.23, T:0.36
Consensus pattern (30 bp):
ATGTTGGATACATGACTATTGTATGACATG
Found at i:9201379 original size:21 final size:20
Alignment explanation
Indices: 9201349--9201387 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
9201339 GTCTTCTAAA
9201349 TTTATAGAATTATCAGAATT
1 TTTATAGAATTATCAGAATT
*
9201369 TTTATCAGAATTATTAGAA
1 TTTAT-AGAATTATCAGAA
9201388 CTGCTACTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (20 bp):
TTTATAGAATTATCAGAATT
Found at i:9201435 original size:40 final size:40
Alignment explanation
Indices: 9201375--9201454 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
9201365 AATTTTTATC
*
9201375 AGAATTATTAGAACTGCTACTACTGTCTGTAGTGTCATAG
1 AGAATTATTAGAACTACTACTACTGTCTGTAGTGTCATAG
9201415 AGAATTATTAGAACTACTACTACTGTCTGTAGTGTCATAG
1 AGAATTATTAGAACTACTACTACTGTCTGTAGTGTCATAG
9201455 TTTAACATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (40 bp):
AGAATTATTAGAACTACTACTACTGTCTGTAGTGTCATAG
Found at i:9203200 original size:136 final size:137
Alignment explanation
Indices: 9202956--9203241 Score: 520
Period size: 136 Copynumber: 2.1 Consensus size: 137
9202946 TATTGGGCCT
** * *
9202956 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
9203021 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
9203085 CATATGC
131 CATATGC
9203092 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
9203157 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
9203222 CATATGC
131 CATATGC
9203229 AAGCCCATTTGGG
1 AAGCCCATTTGGG
9203242 GAGACTACTC
Statistics
Matches: 144, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
136 122 0.85
137 22 0.15
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.24
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
CATATGC
Found at i:9205064 original size:26 final size:26
Alignment explanation
Indices: 9205028--9205137 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
9205018 CATGAAATTC
9205028 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
9205054 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
9205080 TTATCATGGAATATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAACCCA
*
9205106 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
9205132 TTATCA
1 TTATCA
9205138 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:9205843 original size:42 final size:42
Alignment explanation
Indices: 9205752--9205846 Score: 127
Period size: 42 Copynumber: 2.3 Consensus size: 42
9205742 ACGTTGCTTC
* **
9205752 CTTTTTTATCTGAACCTAGATGTTGCTTTCCCAAGTTGCTTT
1 CTTTTTTGTCTGAACCTAGATGTTGCTTTCCCAAGTTGCTAA
* * * *
9205794 TTTTTTTGTCTGAACTTGGATGTTGTTTTCCCAAGTTGCTAA
1 CTTTTTTGTCTGAACCTAGATGTTGCTTTCCCAAGTTGCTAA
9205836 CTTTTTTGTCT
1 CTTTTTTGTCT
9205847 AGGCATGTAT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.15, C:0.18, G:0.16, T:0.52
Consensus pattern (42 bp):
CTTTTTTGTCTGAACCTAGATGTTGCTTTCCCAAGTTGCTAA
Found at i:9205859 original size:42 final size:42
Alignment explanation
Indices: 9205752--9205875 Score: 124
Period size: 42 Copynumber: 3.0 Consensus size: 42
9205742 ACGTTGCTTC
* * * **
9205752 CTTTTTTATCTGAACCTAGATGTTGCTTTCCCAAGTTGCTTT
1 CTTTTTTGTCTGAACATGGATGTTGCTTTCCCAAGTTGCTAA
* * *
9205794 TTTTTTTGTCTGAACTTGGATGTTGTTTTCCCAAGTTGCTAA
1 CTTTTTTGTCTGAACATGGATGTTGCTTTCCCAAGTTGCTAA
* * * *
9205836 CTTTTTTGTCT-AGGCATGTATGTTGCTTTCCTATGTTGCT
1 CTTTTTTGTCTGA-ACATGGATGTTGCTTTCCCAAGTTGCT
9205876 TCCTTGATAT
Statistics
Matches: 67, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
41 1 0.01
42 66 0.99
ACGTcount: A:0.15, C:0.18, G:0.18, T:0.50
Consensus pattern (42 bp):
CTTTTTTGTCTGAACATGGATGTTGCTTTCCCAAGTTGCTAA
Found at i:9208208 original size:21 final size:20
Alignment explanation
Indices: 9208183--9208235 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
9208173 TTTACACGTG
9208183 TATATTATATATTATAAAAA
1 TATATTATATATTATAAAAA
*
9208203 TAATATGAT-TATTTATAAAAA
1 T-ATATTATATA-TTATAAAAA
*
9208224 TATGTTATATAT
1 TATATTATATAT
9208236 ATTTTTTTCC
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
20 9 0.33
21 18 0.67
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (20 bp):
TATATTATATATTATAAAAA
Found at i:9209355 original size:15 final size:16
Alignment explanation
Indices: 9209325--9209363 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
9209315 TAATAAAAAT
9209325 ATAATTTTATTATTTTA
1 ATAA-TTTATTATTTTA
*
9209342 ATAATTTA-TATTTTT
1 ATAATTTATTATTTTA
9209357 ATAATTT
1 ATAATTT
9209364 TTAAAAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 13 0.62
16 4 0.19
17 4 0.19
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
ATAATTTATTATTTTA
Found at i:9209418 original size:32 final size:29
Alignment explanation
Indices: 9209299--9209418 Score: 72
Period size: 32 Copynumber: 4.1 Consensus size: 29
9209289 TATAATTAAA
*
9209299 TTATATATTTTTACAATAATAAAAATATAATT
1 TTATA-ATTTTTA-AA-AATCAAAATATAATT
* ** *
9209331 TTATTA-TTTT---AAT-AATTTATATTT
1 TTATAATTTTTAAAAATCAAAATATAATT
* *
9209355 TTATAATTTTTAAAAATTAAATTA-AATTT
1 TTATAATTTTTAAAAATCAAAATATAA-TT
9209384 TTATTAATTTTTAAAAAAATCAAAATATAATT
1 TTA-TAATTTTT--AAAAATCAAAATATAATT
9209416 TTA
1 TTA
9209419 CTATTATTAA
Statistics
Matches: 69, Mismatches: 9, Indels: 20
0.70 0.09 0.20
Matches are distributed among these distances:
24 13 0.19
25 7 0.10
28 4 0.06
29 10 0.14
30 12 0.17
31 1 0.01
32 20 0.29
33 2 0.03
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (29 bp):
TTATAATTTTTAAAAATCAAAATATAATT
Found at i:9210208 original size:3 final size:3
Alignment explanation
Indices: 9210200--9210241 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
9210190 AAAAAGTAAG
9210200 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
9210242 TGTTAACATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:9210676 original size:16 final size:17
Alignment explanation
Indices: 9210646--9210699 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 17
9210636 TCAATTTATA
9210646 AATATATTTTAAATTTT
1 AATATATTTTAAATTTT
*
9210663 AATA-ATTTTGAATTTT
1 AATATATTTTAAATTTT
* * *
9210679 TATGTATTTTTTAATTTT
1 AATATA-TTTTAAATTTT
9210697 AAT
1 AAT
9210700 TAAAAACTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
16 13 0.43
17 5 0.17
18 12 0.40
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (17 bp):
AATATATTTTAAATTTT
Found at i:9210716 original size:23 final size:23
Alignment explanation
Indices: 9210686--9210739 Score: 108
Period size: 23 Copynumber: 2.3 Consensus size: 23
9210676 TTTTATGTAT
9210686 TTTTTAATTTTAATTAAAAACTA
1 TTTTTAATTTTAATTAAAAACTA
9210709 TTTTTAATTTTAATTAAAAACTA
1 TTTTTAATTTTAATTAAAAACTA
9210732 TTTTTAAT
1 TTTTTAAT
9210740 CTATACTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.56
Consensus pattern (23 bp):
TTTTTAATTTTAATTAAAAACTA
Found at i:9214614 original size:18 final size:19
Alignment explanation
Indices: 9214591--9214638 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
9214581 ATCAATAAAG
9214591 TATATTCTCTATTGCT-TT
1 TATATTCTCTATTGCTCTT
* *
9214609 TATATTTTCT-TTGTTCTT
1 TATATTCTCTATTGCTCTT
*
9214627 TATTTTCTCTAT
1 TATATTCTCTAT
9214639 CTTTCTTTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 4 0.17
18 19 0.79
19 1 0.04
ACGTcount: A:0.15, C:0.15, G:0.04, T:0.67
Consensus pattern (19 bp):
TATATTCTCTATTGCTCTT
Found at i:9220001 original size:42 final size:42
Alignment explanation
Indices: 9219950--9220114 Score: 224
Period size: 42 Copynumber: 3.9 Consensus size: 42
9219940 ACCATGTCAG
*
9219950 TATGTGATTACGTGTAAGACCATAGTTGGGCTATGACATCGA
1 TATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGA
* *
9219992 TATGTGATTACGTGTAAGACTATAGTTGAGCTATGGCATCGA
1 TATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGA
* * *
9220034 TATGTGATTACGTATAAGACCATAGCTAGGCTATGGCATCGA
1 TATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGA
* * * *
9220076 TATGTGAATATGTG-AATGACCATAGTTGGACCATGGCAT
1 TATGTGATTACGTGTAA-GACCATAGTTGGGCTATGGCAT
9220115 TGGGAAAACG
Statistics
Matches: 107, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
41 2 0.02
42 105 0.98
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (42 bp):
TATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGA
Found at i:9220112 original size:84 final size:82
Alignment explanation
Indices: 9219929--9220114 Score: 225
Period size: 84 Copynumber: 2.3 Consensus size: 82
9219919 GACGGAAAAA
* * * * *
9219929 ACCATGGTTGGACCATGTCA-GTATGTGATTACGTGTAAGACCATAGTTGGGCTATGACATCGAT
1 ACCATAGTTGGACCATGGCATGTATGTGATTACGTATAAGACCATAGCTAGGCTATGACATCGAT
*
9219993 ATGTGATTACGTGTAAG
66 ATGTGAATACGTGTAAG
* * *
9220010 ACTATAGTT-GAGCTATGGCATCGATATGTGATTACGTATAAGACCATAGCTAGGCTATGGCATC
1 ACCATAGTTGGA-CCATGGCAT-G-TATGTGATTACGTATAAGACCATAGCTAGGCTATGACATC
*
9220074 GATATGTGAATATGTG-AATG
63 GATATGTGAATACGTGTAA-G
9220094 ACCATAGTTGGACCATGGCAT
1 ACCATAGTTGGACCATGGCAT
9220115 TGGGAAAACG
Statistics
Matches: 87, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
80 2 0.02
81 13 0.15
83 3 0.03
84 67 0.77
85 2 0.02
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (82 bp):
ACCATAGTTGGACCATGGCATGTATGTGATTACGTATAAGACCATAGCTAGGCTATGACATCGAT
ATGTGAATACGTGTAAG
Found at i:9222969 original size:35 final size:35
Alignment explanation
Indices: 9222930--9223001 Score: 119
Period size: 35 Copynumber: 2.1 Consensus size: 35
9222920 GTCTAAGATC
9222930 GCATATCTTTGAAGATCT-CCTTCCATATTTGCCAA
1 GCATATCTTTGAAGAT-TACCTTCCATATTTGCCAA
*
9222965 GCATATCTTTGAAGATTACTTTCCATATTTGCCAA
1 GCATATCTTTGAAGATTACCTTCCATATTTGCCAA
9223000 GC
1 GC
9223002 TCCGGAGATG
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
34 1 0.03
35 34 0.97
ACGTcount: A:0.26, C:0.24, G:0.12, T:0.38
Consensus pattern (35 bp):
GCATATCTTTGAAGATTACCTTCCATATTTGCCAA
Found at i:9228195 original size:35 final size:35
Alignment explanation
Indices: 9228156--9228227 Score: 119
Period size: 35 Copynumber: 2.1 Consensus size: 35
9228146 GTCTAAGATC
9228156 GCATATCTTTGAAGATCT-CCTTCCATATTTGCCAA
1 GCATATCTTTGAAGAT-TACCTTCCATATTTGCCAA
*
9228191 GCATATCTTTGAAGATTACTTTCCATATTTGCCAA
1 GCATATCTTTGAAGATTACCTTCCATATTTGCCAA
9228226 GC
1 GC
9228228 TCCGGAGATG
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
34 1 0.03
35 34 0.97
ACGTcount: A:0.26, C:0.24, G:0.12, T:0.38
Consensus pattern (35 bp):
GCATATCTTTGAAGATTACCTTCCATATTTGCCAA
Found at i:9229312 original size:3 final size:3
Alignment explanation
Indices: 9229306--9229659 Score: 205
Period size: 3 Copynumber: 118.3 Consensus size: 3
9229296 TTTTGTTGTT
* *
9229306 TTA TTA -TA TTA TTA CTA TTA TTA TTA -TA CTT- GTA TT- TATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA T-TA TTA
* *
9229349 TTA TTA TTA TTA CTA CTT- CTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
9229394 TTA TTA TT- TTA CTA TTA TTA TTT TTCA TATA TATA TTA TTA TT- TGTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TT-A T-TA T-TA TTA TTA TTA T-TA
* *** * * * * *
9229441 TTA TTA CTA TTA TTA ACG CTC TTA TTA TTG CTA TTA TTA TTCC TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA
** * *
9229486 TTA TTA TTA CCA TTA TTA TTA CTA TTA CTT- TTA CTT- TTA TTTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA -TTA TTA -TTA TTA
* * *
9229532 TTA TTA -TA TTA TT- TGTA TTT TCTA TTA CTA TTA TCA TTA TTA TTA
1 TTA TTA TTA TTA TTA T-TA TTA T-TA TTA TTA TTA TTA TTA TTA TTA
* * * * * * *
9229577 TTA CTA ATA TTA ATA TTC TTA TTA TTA CTA TTA TTA TTA TCA TTA GTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
9229625 TTA TT- TT- TTA CTA TTA TTA ATA TTA CTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
9229660 CGTTCTCATT
Statistics
Matches: 266, Mismatches: 60, Indels: 50
0.71 0.16 0.13
Matches are distributed among these distances:
2 23 0.09
3 219 0.82
4 23 0.09
5 1 0.00
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:9232148 original size:18 final size:18
Alignment explanation
Indices: 9232114--9232426 Score: 184
Period size: 18 Copynumber: 17.1 Consensus size: 18
9232104 TCATTAACAA
* *
9232114 TCAG-AACAATTATTTAT
1 TCAGTAACAATCAGTTAT
*
9232131 TCAGTAACAGTCAGTTAT
1 TCAGTAACAATCAGTTAT
* *
9232149 TCGGTAACAATCAATTAT
1 TCAGTAACAATCAGTTAT
* * *
9232167 TCAATAATAACCAGTTAT
1 TCAGTAACAATCAGTTAT
*
9232185 TCAGTATCGATCAATTGATCGGTTAT
1 TCAGTA---A-C-A---ATCAGTTAT
* * *
9232211 CCAGTAACAGTCAATTAT
1 TCAGTAACAATCAGTTAT
* **
9232229 TTAGTAA-AATCAAATAT
1 TCAGTAACAATCAGTTAT
* *
9232246 TCAGTAGCAATTAAGTTAT
1 TCAGTAACAA-TCAGTTAT
* * *
9232265 TTAGTAACAGTCAATTAT
1 TCAGTAACAATCAGTTAT
* *
9232283 TTAGTAA-AATCAGATAT
1 TCAGTAACAATCAGTTAT
* *
9232300 TCAGTGACAATCAGATAT
1 TCAGTAACAATCAGTTAT
*
9232318 TCAGTGACAATCAGTTAT
1 TCAGTAACAATCAGTTAT
** * *
9232336 TCAGTAATGATAATTTAT
1 TCAGTAACAATCAGTTAT
* *
9232354 TCAGTAATATTCAGTTAT
1 TCAGTAACAATCAGTTAT
*
9232372 TCAGTAACAGTCTA-TTAT
1 TCAGTAACAATC-AGTTAT
* *
9232390 TCAGTAACAGTCAATTAT
1 TCAGTAACAATCAGTTAT
* *
9232408 TCAGAAATAATCAGTTAT
1 TCAGTAACAATCAGTTAT
9232426 T
1 T
9232427 TTATACCTTT
Statistics
Matches: 228, Mismatches: 54, Indels: 27
0.74 0.17 0.09
Matches are distributed among these distances:
17 30 0.13
18 168 0.74
19 13 0.06
21 2 0.01
22 1 0.00
23 2 0.01
26 12 0.05
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.36
Consensus pattern (18 bp):
TCAGTAACAATCAGTTAT
Found at i:9232167 original size:36 final size:36
Alignment explanation
Indices: 9232114--9232426 Score: 204
Period size: 36 Copynumber: 8.5 Consensus size: 36
9232104 TCATTAACAA
* * *
9232114 TCAG-AACAATTATTTATTCAGTAACAGTCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAATCAGTTAT
* * * *
9232149 TCGGTAACAATCAATTATTCAATAATAACCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAATCAGTTAT
* * * *
9232185 TCAGTATCGATCAATTGATCGGTTATCCAGTAACAGTCAATTAT
1 TCAGTAACAATCAATT-A-----T-T-CAGTAACAATCAGTTAT
* * * *
9232229 TTAGTAA-AATCAAATATTCAGTAGCAATTAAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAA-TCAGTTAT
* * * *
9232265 TTAGTAACAGTCAATTATTTAGTAA-AATCAGATAT
1 TCAGTAACAATCAATTATTCAGTAACAATCAGTTAT
* *
9232300 TCAGTGACAATCAGA-TATTCAGTGACAATCAGTTAT
1 TCAGTAACAATCA-ATTATTCAGTAACAATCAGTTAT
** * *
9232336 TCAGTAATGAT-AATTTATTCAGTAATATTCAGTTAT
1 TCAGTAACAATCAA-TTATTCAGTAACAATCAGTTAT
* * * *
9232372 TCAGTAACAGTCTATTATTCAGTAACAGTCAATTAT
1 TCAGTAACAATCAATTATTCAGTAACAATCAGTTAT
* * *
9232408 TCAGAAATAATCAGTTATT
1 TCAGTAACAATCAATTATT
9232427 TTATACCTTT
Statistics
Matches: 209, Mismatches: 53, Indels: 31
0.71 0.18 0.11
Matches are distributed among these distances:
34 1 0.00
35 35 0.17
36 131 0.63
37 16 0.08
42 2 0.01
43 7 0.03
44 17 0.08
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.36
Consensus pattern (36 bp):
TCAGTAACAATCAATTATTCAGTAACAATCAGTTAT
Found at i:9232246 original size:17 final size:17
Alignment explanation
Indices: 9232221--9232294 Score: 76
Period size: 17 Copynumber: 4.2 Consensus size: 17
9232211 CCAGTAACAG
9232221 TCAATTATTTAGTAAAA
1 TCAATTATTTAGTAAAA
* * *
9232238 TCAAATATTCAGTAGCAA
1 TCAATTATTTAGTA-AAA
* *
9232256 TTAAGTTATTTAGTAACAG
1 TCAA-TTATTTAGTAA-AA
9232275 TCAATTATTTAGTAAAA
1 TCAATTATTTAGTAAAA
9232292 TCA
1 TCA
9232295 GATATTCAGT
Statistics
Matches: 44, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
17 16 0.36
18 16 0.36
19 12 0.27
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.38
Consensus pattern (17 bp):
TCAATTATTTAGTAAAA
Found at i:9232408 original size:54 final size:53
Alignment explanation
Indices: 9232206--9232426 Score: 212
Period size: 54 Copynumber: 4.1 Consensus size: 53
9232196 CAATTGATCG
* * * ** *
9232206 GTTATCCAGTAACAGTCAATTATTTAGTAAAATCAAATATTCAGTAGCAATTAA
1 GTTATTCAGTAACAGTCAATTATTCAGTAAAATCAATTATTCAGTAATAA-TCA
* * * *
9232260 GTTATTTAGTAACAGTCAATTATTTAGTAAAATCAGA-TATTCAGTGACAATCA
1 GTTATTCAGTAACAGTCAATTATTCAGTAAAATCA-ATTATTCAGTAATAATCA
* * * * * *
9232313 GATATTCAGTGACAATCAGTTATTCAGTAATGAT-AATTTATTCAGTAATATTCA
1 GTTATTCAGTAACAGTCAATTATTCAGTAA-AATCAA-TTATTCAGTAATAATCA
* * *
9232367 GTTATTCAGTAACAGTCTATTATTCAGTAACAGTCAATTATTCAGAAATAATCA
1 GTTATTCAGTAACAGTCAATTATTCAGTAA-AATCAATTATTCAGTAATAATCA
9232421 GTTATT
1 GTTATT
9232427 TTATACCTTT
Statistics
Matches: 137, Mismatches: 25, Indels: 10
0.80 0.15 0.06
Matches are distributed among these distances:
52 1 0.01
53 27 0.20
54 106 0.77
55 3 0.02
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (53 bp):
GTTATTCAGTAACAGTCAATTATTCAGTAAAATCAATTATTCAGTAATAATCA
Found at i:9232609 original size:45 final size:45
Alignment explanation
Indices: 9232536--9232645 Score: 148
Period size: 45 Copynumber: 2.4 Consensus size: 45
9232526 GCCAAAACAG
* **
9232536 TAACAGTAACAGTAGCAGTATTCAACACACAAAGTGTTGAATCGA
1 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGA
* * * *
9232581 TAACGGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATTGG
1 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGA
*
9232626 TAACAGAAACAGTAACAGTA
1 TAACAGTAACAGTAACAGTA
9232646 ACAGTAGTCG
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 56 1.00
ACGTcount: A:0.43, C:0.18, G:0.19, T:0.20
Consensus pattern (45 bp):
TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGA
Found at i:9232641 original size:51 final size:50
Alignment explanation
Indices: 9232531--9232660 Score: 135
Period size: 45 Copynumber: 2.7 Consensus size: 50
9232521 CCGAAGCCAA
* * **
9232531 AACAGTAACAGTAACAGTAGCAGTATTCAACACACAAAGTGTTGAATCGAT
1 AACAG-AACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGAT
* *
9232582 AAC-G----GTAACAGTAACAGTATTCGACACACAAAGTGCCGAATTGGT
1 AACAGAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGAT
* *
9232627 AACAGAAACAGTAACAGTAACAGTAGTCGGCACA
1 AACAG-AACAGTAACAGTAACAGTATTCGACACA
9232661 TAAGTGCTTG
Statistics
Matches: 65, Mismatches: 8, Indels: 12
0.76 0.09 0.14
Matches are distributed among these distances:
45 38 0.58
46 1 0.02
50 1 0.02
51 25 0.38
ACGTcount: A:0.42, C:0.19, G:0.20, T:0.18
Consensus pattern (50 bp):
AACAGAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGAT
Found at i:9234408 original size:5 final size:5
Alignment explanation
Indices: 9234398--9234435 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
9234388 ACTTATTTAT
9234398 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATA
9234436 ACAAATTCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:9235034 original size:10 final size:10
Alignment explanation
Indices: 9235019--9235080 Score: 65
Period size: 10 Copynumber: 6.1 Consensus size: 10
9235009 TCCTCCTATC
9235019 CAAATTCTCT
1 CAAATTCTCT
9235029 CAAATTCT-T
1 CAAATTCTCT
9235038 CCAAAAATTCTCT
1 -C--AAATTCTCT
*
9235051 CATATTCTCT
1 CAAATTCTCT
*
9235061 CAAATTTTCT
1 CAAATTCTCT
9235071 CAAA-TCTCT
1 CAAATTCTCT
9235080 C
1 C
9235081 TTTAATTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
9 6 0.14
10 29 0.66
12 8 0.18
13 1 0.02
ACGTcount: A:0.31, C:0.29, G:0.00, T:0.40
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:9235042 original size:20 final size:19
Alignment explanation
Indices: 9235017--9235080 Score: 65
Period size: 22 Copynumber: 3.1 Consensus size: 19
9235007 AGTCCTCCTA
9235017 TCCAAATTCTCTCAAATTC
1 TCCAAATTCTCTCAAATTC
*
9235036 TTCCAAAAATTCTCTCATATTC
1 -TCC--AAATTCTCTCAAATTC
*
9235058 TCTCAAATTTTCTCAAATCTC
1 TC-CAAATTCTCTCAAAT-TC
9235079 TC
1 TC
9235081 TTTAATTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
20 15 0.41
21 6 0.16
22 16 0.43
ACGTcount: A:0.30, C:0.30, G:0.00, T:0.41
Consensus pattern (19 bp):
TCCAAATTCTCTCAAATTC
Found at i:9235274 original size:48 final size:49
Alignment explanation
Indices: 9235222--9235320 Score: 137
Period size: 49 Copynumber: 2.0 Consensus size: 49
9235212 AGTGATAATT
** *
9235222 TTAATATTTCAATAGTATTTAA-TATTTTTTTAATTTATGCAATTTTAA
1 TTAATATTTCAATACAATTTAATTATTTTTTTAATTTATCCAATTTTAA
* * *
9235270 TTAATTTTTCAATACAATTTAATTTTTTTTTTCATTTATCCAATTTTAA
1 TTAATATTTCAATACAATTTAATTATTTTTTTAATTTATCCAATTTTAA
9235319 TT
1 TT
9235321 TTAATTTTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
48 19 0.43
49 25 0.57
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.59
Consensus pattern (49 bp):
TTAATATTTCAATACAATTTAATTATTTTTTTAATTTATCCAATTTTAA
Found at i:9235322 original size:26 final size:26
Alignment explanation
Indices: 9235239--9235322 Score: 77
Period size: 26 Copynumber: 3.3 Consensus size: 26
9235229 TTCAATAGTA
* * *
9235239 TTTAATATTTTTTTAATTTATGCAAT
1 TTTAATTTTTTTTTCATTTATACAAT
**
9235265 TTTAATTAATTTTTCA---ATACAA-
1 TTTAATTTTTTTTTCATTTATACAAT
*
9235287 TTTAATTTTTTTTTTCATTTATCCAAT
1 TTTAA-TTTTTTTTTCATTTATACAAT
9235314 TTTAATTTT
1 TTTAATTTT
9235323 AATTTTATAA
Statistics
Matches: 45, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
22 5 0.11
23 14 0.31
26 21 0.47
27 5 0.11
ACGTcount: A:0.30, C:0.07, G:0.01, T:0.62
Consensus pattern (26 bp):
TTTAATTTTTTTTTCATTTATACAAT
Found at i:9236283 original size:7 final size:7
Alignment explanation
Indices: 9236267--9236299 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
9236257 TTGTTTCGTA
9236267 TTAGTAT
1 TTAGTAT
*
9236274 TTAATAT
1 TTAGTAT
9236281 TTAGTAT
1 TTAGTAT
9236288 TTAGTAT
1 TTAGTAT
9236295 TTAGT
1 TTAGT
9236300 GTTATGTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.58
Consensus pattern (7 bp):
TTAGTAT
Found at i:9237407 original size:27 final size:27
Alignment explanation
Indices: 9237377--9237474 Score: 87
Period size: 27 Copynumber: 3.6 Consensus size: 27
9237367 TAAAATTTGT
9237377 TTTTAATATTT-TAATTATAATTTACTC
1 TTTT-ATATTTGTAATTATAATTTACTC
* * *
9237404 TTTTATATTTGTAATAAAATAAAAGTT-GT-
1 TTTTATATTTGTAAT----TATAATTTACTC
9237433 TTTTAGTATTT-TAATTATAATTTACTC
1 TTTTA-TATTTGTAATTATAATTTACTC
9237460 TTTTATATTTGTAAT
1 TTTTATATTTGTAAT
9237475 AAAATAAAAG
Statistics
Matches: 56, Mismatches: 6, Indels: 18
0.70 0.08 0.22
Matches are distributed among these distances:
25 6 0.11
26 12 0.21
27 17 0.30
29 9 0.16
30 6 0.11
31 6 0.11
ACGTcount: A:0.34, C:0.04, G:0.05, T:0.57
Consensus pattern (27 bp):
TTTTATATTTGTAATTATAATTTACTC
Found at i:9237424 original size:56 final size:56
Alignment explanation
Indices: 9237359--9237496 Score: 249
Period size: 56 Copynumber: 2.5 Consensus size: 56
9237349 TTCTTTCATT
*
9237359 TAATAAAATAAAATTTGTTTTTAATATTTTAATTATAATTTACTCTTTTATATTTG
1 TAATAAAATAAAAGTTGTTTTTAATATTTTAATTATAATTTACTCTTTTATATTTG
*
9237415 TAATAAAATAAAAGTTGTTTTTAGTATTTTAATTATAATTTACTCTTTTATATTTG
1 TAATAAAATAAAAGTTGTTTTTAATATTTTAATTATAATTTACTCTTTTATATTTG
*
9237471 TAATAAAATAAAAGTTGTTTTGAATA
1 TAATAAAATAAAAGTTGTTTTTAATA
9237497 AGGAAATATT
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 78 1.00
ACGTcount: A:0.39, C:0.03, G:0.07, T:0.51
Consensus pattern (56 bp):
TAATAAAATAAAAGTTGTTTTTAATATTTTAATTATAATTTACTCTTTTATATTTG
Found at i:9240729 original size:125 final size:123
Alignment explanation
Indices: 9240569--9240959 Score: 401
Period size: 125 Copynumber: 3.1 Consensus size: 123
9240559 AATAGGAACT
* * *
9240569 ACTGTAGAAAAAGAGCGTGTCCACTTGGGAGCTTTTCTCAGTAATTTTGCTGAAAGTACATACTG
1 ACTGTA-AAAAAAAGC--GTCCACGTGGGAGCTTTT-TCAGTAATTTTGCTGACAGTACAT-CTG
* ** * * *
9240634 CATGAAGCGTTTTTGACACTATTTGTTCAGAAAGGTCATT-TCACAATTATTTTTTCAGATATC
61 CTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATC-TTCTCAAAATTATTTTCTCAGATACC
* * * * *
9240697 ACTGTATCAAAAGAGC-TCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTCCATCCTGTT
1 ACTGTA-AAAAAAAGCGTCCACGTGGGAGC-TTTTTCAGTAATTTTGCTGACAGTACAT-CTGCT
* * *
9240761 TAAAGCGTTTTTTACACTATTTTTTCAGAAACATCTTCTCAAAATTATTTTCTCAGATACC
63 TGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTCTCAGATACC
*
9240822 ACTGTAAAAAAAAGCGTCCACGTGGGAGCATTTTTCAGTAATTTTGCTGACAGTGCATCTTGCTT
1 ACTGTAAAAAAAAGCGTCCACGTGGGAGC-TTTTTCAGTAATTTTGCTGACAGTACATC-TGCTT
* * ** * * * * *
9240887 GAAGCGTTTTGGATACTATTCCTTTAGAAACTTCTTCTTAAAATTTTTTTC-CAGATACT
64 GAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTCTCAGATACC
*
9240946 ACTGAAGAAAAAAA
1 ACTGTA-AAAAAAA
9240960 ATTATTTTAA
Statistics
Matches: 223, Mismatches: 35, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
124 22 0.10
125 183 0.82
126 4 0.02
128 14 0.06
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.36
Consensus pattern (123 bp):
ACTGTAAAAAAAAGCGTCCACGTGGGAGCTTTTTCAGTAATTTTGCTGACAGTACATCTGCTTGA
AGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTCTCAGATACC
Found at i:9241064 original size:4 final size:4
Alignment explanation
Indices: 9241055--9241122 Score: 52
Period size: 4 Copynumber: 17.2 Consensus size: 4
9241045 AAACCCGAAT
** * *
9241055 TTAA TTAA TTTT TTAA TTAA -TAT TTAA TTTAA TTAA TT-T TTAA TTAA
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA -TTAA TTAA TTAA TTAA TTAA
*
9241102 -TAT TTAA TTTAA TTAA TTAA T
1 TTAA TTAA -TTAA TTAA TTAA T
9241123 CTTACACCCT
Statistics
Matches: 49, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
3 6 0.12
4 35 0.71
5 8 0.16
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (4 bp):
TTAA
Found at i:9241085 original size:16 final size:16
Alignment explanation
Indices: 9241066--9241118 Score: 71
Period size: 16 Copynumber: 3.6 Consensus size: 16
9241056 TAATTAATTT
9241066 TTTAATTAATATTTAA
1 TTTAATTAATATTTAA
9241082 TTTAATT-A-A-TT--
1 TTTAATTAATATTTAA
9241093 TTTAATTAATATTTAA
1 TTTAATTAATATTTAA
9241109 TTTAATTAAT
1 TTTAATTAAT
9241119 TAATCTTACA
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
11 7 0.22
12 1 0.03
13 3 0.09
14 3 0.09
15 1 0.03
16 17 0.53
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTAATTAATATTTAA
Found at i:9241102 original size:27 final size:27
Alignment explanation
Indices: 9241052--9241119 Score: 127
Period size: 27 Copynumber: 2.5 Consensus size: 27
9241042 CCTAAACCCG
9241052 AATTTAATTAATTTTTTAATTAATATTT
1 AATTTAATTAA-TTTTTAATTAATATTT
9241080 AATTTAATTAATTTTTAATTAATATTT
1 AATTTAATTAATTTTTAATTAATATTT
9241107 AATTTAATTAATT
1 AATTTAATTAATT
9241120 AATCTTACAC
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 29 0.73
28 11 0.28
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (27 bp):
AATTTAATTAATTTTTAATTAATATTT
Found at i:9241184 original size:15 final size:17
Alignment explanation
Indices: 9241145--9241189 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 17
9241135 TTTAATTAAT
9241145 TAAACCCTTACAAAAACCA
1 TAAACCC-TA-AAAAACCA
9241164 TAAACCCTAAAAAACC-
1 TAAACCCTAAAAAACCA
9241180 T-AACCCTAAA
1 TAAACCCTAAA
9241190 CCATAAAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 9 0.35
16 1 0.04
17 7 0.27
18 2 0.08
19 7 0.27
ACGTcount: A:0.53, C:0.31, G:0.00, T:0.16
Consensus pattern (17 bp):
TAAACCCTAAAAAACCA
Found at i:9241189 original size:22 final size:22
Alignment explanation
Indices: 9241159--9241206 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
9241149 CCCTTACAAA
*
9241159 AACCATAAACCCTAAAAAACCT
1 AACCATAAACCATAAAAAACCT
* *
9241181 AACCCTAAACCATAAAAACCCT
1 AACCATAAACCATAAAAAACCT
9241203 AACC
1 AACC
9241207 TACCCTAACC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.52, C:0.35, G:0.00, T:0.12
Consensus pattern (22 bp):
AACCATAAACCATAAAAAACCT
Found at i:9245371 original size:3 final size:3
Alignment explanation
Indices: 9245363--9245402 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
9245353 TAAAACAGTT
9245363 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
9245403 TAAAGTTAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:9252134 original size:21 final size:21
Alignment explanation
Indices: 9252108--9252170 Score: 117
Period size: 21 Copynumber: 3.0 Consensus size: 21
9252098 CCAAACTTGA
*
9252108 TATAAGGGATAATTTGGCTAG
1 TATAAGGGATAATTTGACTAG
9252129 TATAAGGGATAATTTGACTAG
1 TATAAGGGATAATTTGACTAG
9252150 TATAAGGGATAATTTGACTAG
1 TATAAGGGATAATTTGACTAG
9252171 CATCTAGTGG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.37, C:0.05, G:0.25, T:0.33
Consensus pattern (21 bp):
TATAAGGGATAATTTGACTAG
Found at i:9254443 original size:17 final size:17
Alignment explanation
Indices: 9254421--9254456 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
9254411 GGAGGAGCAC
9254421 ATAAAAATATT-TAAAAT
1 ATAAAAA-ATTATAAAAT
9254438 ATAAAAAATTATAAAAT
1 ATAAAAAATTATAAAAT
9254455 AT
1 AT
9254457 GGTTTTTCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 3 0.17
17 15 0.83
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
ATAAAAAATTATAAAAT
Found at i:9255562 original size:11 final size:11
Alignment explanation
Indices: 9255546--9255576 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
9255536 AAAATTGAAA
9255546 ATTATAAATAT
1 ATTATAAATAT
9255557 ATTATAAATAT
1 ATTATAAATAT
9255568 A-TATAAATA
1 ATTATAAATA
9255577 CATAAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.40
11 12 0.60
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
ATTATAAATAT
Found at i:9262681 original size:24 final size:26
Alignment explanation
Indices: 9262654--9262701 Score: 66
Period size: 24 Copynumber: 1.9 Consensus size: 26
9262644 TATGAATACG
9262654 TACAT-ATAATATA-ATAT-TAAAATA
1 TACATAAT-ATATACATATATAAAATA
9262678 TACATAATATATACATATATAAAA
1 TACATAATATATACATATATAAAA
9262702 CATGTATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 10 0.48
25 6 0.29
26 5 0.24
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (26 bp):
TACATAATATATACATATATAAAATA
Found at i:9263157 original size:3 final size:3
Alignment explanation
Indices: 9263149--9263181 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
9263139 ACATTAGAAG
9263149 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
9263182 ATTAAAGTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:9263758 original size:11 final size:11
Alignment explanation
Indices: 9263744--9263769 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
9263734 TTTTTTTTAA
9263744 ATATTTGTTTT
1 ATATTTGTTTT
9263755 ATATTTGTTTT
1 ATATTTGTTTT
9263766 ATAT
1 ATAT
9263770 ATTTTAGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (11 bp):
ATATTTGTTTT
Found at i:9265033 original size:75 final size:73
Alignment explanation
Indices: 9264903--9265188 Score: 346
Period size: 75 Copynumber: 3.9 Consensus size: 73
9264893 GCAAAACATC
9264903 AATTGAAAAT-TCCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AATTGAAAATAT-CTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTT
*
9264967 TGAAGGACAGA
63 TGAAAGACAGA
* * *
9264978 AATTGAAAATA-CATTAGCGTGTCCTGAGGCTCAACTCACCTCTCGTAATAAGAGTTGATTTTTG
1 AATTGAAAATATC-TCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
* * *
9265042 AAACATATAAA
65 -AA-AGACAGA
* *
9265053 GAATTGACAATATCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTG
1 -AATTGAAAATATCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
9265117 ACAAG-CAGA
65 A-AAGACAGA
* * * * *
9265126 AATTGAAATTATCTCAGCATGTTCTGAGGCTCAACTCATCTCTCGCAATATGAGCTGATTTTT
1 AATTGAAAATATCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
9265189 TTGAAAACAG
Statistics
Matches: 181, Mismatches: 22, Indels: 18
0.82 0.10 0.08
Matches are distributed among these distances:
72 51 0.28
73 12 0.07
74 5 0.03
75 61 0.34
76 51 0.28
77 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (73 bp):
AATTGAAAATATCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
AAGACAGA
Found at i:9265097 original size:76 final size:76
Alignment explanation
Indices: 9264903--9265611 Score: 479
Period size: 76 Copynumber: 8.9 Consensus size: 76
9264893 GCAAAACATC
*
9264903 AATTGAAAATTCCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 AATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTT
** * *
9264968 G-AA-GGACAGA-
64 GAAACATAAAAAG
* * * *
9264978 AATTGAAAATACATTAGCGTGTCCTGAGGCTCAACTCACCTCTCGTAATAAGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
*
9265043 AACATATAAAG
66 AACATAAAAAG
* * *
9265054 AATTGACAATATCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTG-
1 AATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
**
9265117 -AC--AAGCAG
66 AACATAAAAAG
* * * * * *
9265125 AAATTGAAATTATCTCAGCATGTTCTGAGGCTCAACTCATCTCTCGCAATATGAGCTGATTTTTT
1 -AATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTT
9265190 TGAAAACAGAATTTGCAAAACAG
63 TG-AAAC---A--T--AAAA-AG
* ** * * *
9265213 ATTTTGAAAATACCTTGGCATGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTT
1 A-ATTGAAAATACCTCAGC--GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
*
9265278 TGAAAAGCATAAATTAAAAAACATT
63 TG-AAA-C----A-T--AAAA-A-G
* *
9265303 AATTGAAAATACCTCAGCGT-TCCCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTG
1 AATTGAAAATACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
*
9265367 AAAAGCGTAAATTGAAAAAACATC
65 -AAA-C----A-T---AAAA-A-G
* *
9265391 AATTGAAAATACCTCAACGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT--
1 AATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
**** *
9265454 TTTTTGAAGGACAG
66 AACAT-AA--AAAG
* *
9265468 AAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAGTTTTG
1 -AATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
*
9265533 AAACATGCAAAA-
65 AAACAT-AAAAAG
* * * * * * * *
9265545 AATTGACAATACCTCAGGGTGTCCCGAGGTTCAACTCACCTCTCGTAATGTGAATTGAATTTTGA
1 AATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
9265610 AA
66 AA
9265612 TAAAAACATC
Statistics
Matches: 521, Mismatches: 79, Indels: 67
0.78 0.12 0.10
Matches are distributed among these distances:
71 3 0.01
72 51 0.10
73 8 0.02
74 2 0.00
75 66 0.13
76 109 0.21
77 2 0.00
78 66 0.13
79 2 0.00
80 3 0.01
87 59 0.11
88 90 0.17
89 24 0.05
90 36 0.07
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.29
Consensus pattern (76 bp):
AATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
AACATAAAAAG
Found at i:9265169 original size:72 final size:72
Alignment explanation
Indices: 9264915--9265188 Score: 322
Period size: 72 Copynumber: 3.7 Consensus size: 72
9264905 TTGAAAATTC
*
9264915 CTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA-AGGACAGAA
1 CTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGACAAG-CAGAA
9264979 ATTGAAA-AT
63 ATTGAAATAT
* * * * *
9264988 ACATTAGCGTGTCCTGAGGCTCAACTCACCTCTCGTAATAAGAGTTGATTTTTGAAACATA-TAA
1 -C-TCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG--ACA-AGCAG
9265052 AGAATTGACAATAT
61 A-AATTGA-AATAT
*
9265066 CTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGACAAGCAGAAATT
1 CTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAGCAGAAATT
9265130 GAAATTAT
66 GAAA-TAT
* * * *
9265138 CTCAGCATGTTCTGAGGCTCAACTCATCTCTCGCAATATGAGCTGATTTTT
1 CTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
9265189 TTGAAAACAG
Statistics
Matches: 172, Mismatches: 17, Indels: 23
0.81 0.08 0.11
Matches are distributed among these distances:
71 2 0.01
72 51 0.30
73 15 0.09
74 1 0.01
75 50 0.29
76 48 0.28
77 3 0.02
78 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.31
Consensus pattern (72 bp):
CTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAGCAGAAATT
GAAATAT
Found at i:9265216 original size:13 final size:13
Alignment explanation
Indices: 9265188--9265222 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
9265178 AGCTGATTTT
9265188 TTTGAAAACAGAA
1 TTTGAAAACAGAA
*
9265201 TTTGCAAAACAGAT
1 TTTG-AAAACAGAA
9265215 TTTGAAAA
1 TTTGAAAA
9265223 TACCTTGGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.49, C:0.09, G:0.14, T:0.29
Consensus pattern (13 bp):
TTTGAAAACAGAA
Found at i:9265347 original size:87 final size:87
Alignment explanation
Indices: 9265151--9265453 Score: 364
Period size: 88 Copynumber: 3.4 Consensus size: 87
9265141 AGCATGTTCT
* * * * * *
9265151 GAGGCTCAACTCATCTCTCGCAATATGAGCTGATTTTTTTGAAAA-CAGAATTTGCAAAACAGAT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAGCATAAATTG-AAAAAACAT
** *
9265215 T--TTGAAAATACCTTGGCATGTGACCC
63 TAATTGAAAATACCTCAGC--GT-TCCC
*
9265241 GAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAGCATAAATT-AAAAAACATTAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGCATAAATTGAAAAAACATTAA
9265305 TTGAAAATACCTCAGCGTTCCCC
66 TTGAAAATACCTCAGCGTT-CCC
* * *
9265328 GAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAGCGTAAATTGAAAAAACATCAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGCATAAATTGAAAAAACATTAA
*
9265393 TTGAAAATACCTCAACGCG-TCCT
66 TTGAAAATACCTC-A-GCGTTCCC
9265416 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
9265454 TTTTTGAAGG
Statistics
Matches: 192, Mismatches: 14, Indels: 16
0.86 0.06 0.07
Matches are distributed among these distances:
87 64 0.33
88 73 0.38
89 22 0.11
90 33 0.17
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (87 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGCATAAATTGAAAAAACATTAA
TTGAAAATACCTCAGCGTTCCC
Found at i:9265364 original size:325 final size:318
Alignment explanation
Indices: 9264841--9265531 Score: 738
Period size: 311 Copynumber: 2.1 Consensus size: 318
9264831 ACGCGAGTCA
*
9264841 AGGCTCAACTCACTTCTCGCAATTTGAGTTGATTTTTTTGAAAACAGAATTTGCAAAACATCAAT
1 AGGCTCAACTCAC-TCTCGCAATATGAGTTGATTTTTTTGAAAACAGAATTTGCAAAACATCAAT
* * * *
9264906 TGAAAATTCCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAA
65 TGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAA
** * *
9264971 GGACAGAAATTGAAAATACATTAGCGTGTCCTGAGGCTCAACTCACCTCTCGTAATAAGAGTTGA
130 AAACAGAAATTGAAAATACATCAGCGTGTCCCGAGGCTCAACTCACCTCTCGTAATAAGAGTTGA
* * * * * *
9265036 TTTTTG-AAA-C-A-T-ATAA-A-GAATTGACAATATCTCAGCGTGTCCCGAGGCTCAACTCACC
195 TTTTTGAAAAGCAATTAAAAACATCAATTGAAAATACCTCAACGCGTCCCGAGGCTCAACTCACC
* * * *
9265094 TCTCGCAATATGAGTTGA-TTTTGACAAG-CAGAAATTGAAATTATCTCAGCATGTTCTG
260 TCTCGCAATATGAGTTGATTTTTGA-AAGACAGAAATTGAAAATACCTCAACATGTCCTG
* * *
9265152 AGGCTCAACTCATCTCTCGCAATATGAGCTGATTTTTTTGAAAACAGAATTTGCAAAACA-GATT
1 AGGCTCAACTCA-CTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAATTTGCAAAACATCA-A
** *
9265216 TTGAAAATACCTTGGCATGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGA
64 TTGAAAATACCTCAGC--GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT--
** *
9265281 AAAGCATAAATTAAAAAACATTAATTGAAAATACCTCAGCGT-TCCCCGAGGCTCAACTCACCTC
124 ------T---TTAAAAAACAGAAATTGAAAATACATCAGCGTGT-CCCGAGGCTCAACTCACCTC
*
9265345 TCGTAATATGAGTTGATTTTTGAAAAGCGTAAATTGAAAAAACATCAATTGAAAATACCTCAACG
179 TCGTAATAAGAGTTGATTTTTGAAAAGC---AATT--AAAAACATCAATTGAAAATACCTCAACG
* *
9265410 CGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAGGACAGAAATTGA
239 CGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-----TTTTTGAAAGACAGAAATTGA
*
9265475 AAATACCTCAACGTGTCCTG
299 AAATACCTCAACATGTCCTG
*
9265495 AGGCTCAACTCACCTCTCGCAATATGAGTTGAGTTTT
1 AGGCTCAACTCA-CTCTCGCAATATGAGTTGATTTTT
9265532 GAAACATGCA
Statistics
Matches: 309, Mismatches: 35, Indels: 40
0.80 0.09 0.10
Matches are distributed among these distances:
310 1 0.00
311 69 0.22
312 1 0.00
313 37 0.12
314 4 0.01
322 1 0.00
324 1 0.00
325 65 0.21
326 3 0.01
327 1 0.00
331 1 0.00
332 1 0.00
335 3 0.01
336 1 0.00
337 53 0.17
342 2 0.01
343 65 0.21
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (318 bp):
AGGCTCAACTCACTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAATTTGCAAAACATCAATT
GAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAA
AACAGAAATTGAAAATACATCAGCGTGTCCCGAGGCTCAACTCACCTCTCGTAATAAGAGTTGAT
TTTTGAAAAGCAATTAAAAACATCAATTGAAAATACCTCAACGCGTCCCGAGGCTCAACTCACCT
CTCGCAATATGAGTTGATTTTTGAAAGACAGAAATTGAAAATACCTCAACATGTCCTG
Found at i:9278011 original size:24 final size:26
Alignment explanation
Indices: 9277984--9278031 Score: 66
Period size: 24 Copynumber: 1.9 Consensus size: 26
9277974 TATGAATACG
9277984 TACAT-ATAATATA-ATAT-TAAAATA
1 TACATAAT-ATATACATATATAAAATA
9278008 TACATAATATATACATATATAAAA
1 TACATAATATATACATATATAAAA
9278032 CATGTATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 10 0.48
25 6 0.29
26 5 0.24
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (26 bp):
TACATAATATATACATATATAAAATA
Found at i:9278481 original size:3 final size:3
Alignment explanation
Indices: 9278473--9278499 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
9278463 ACATTAGAAG
9278473 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
9278500 ATTAAAGTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:9279107 original size:11 final size:11
Alignment explanation
Indices: 9279086--9279116 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
9279076 TTTTCTTTTT
9279086 TTTTAATATTTG
1 TTTT-ATATTTG
9279098 TTTTATATTTG
1 TTTTATATTTG
9279109 TTTTATAT
1 TTTTATAT
9279117 ATTTTAGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 15 0.79
12 4 0.21
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (11 bp):
TTTTATATTTG
Found at i:9287097 original size:2 final size:2
Alignment explanation
Indices: 9287092--9287136 Score: 81
Period size: 2 Copynumber: 22.0 Consensus size: 2
9287082 GGTTTTTTTC
9287092 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GAT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT
9287135 AT
1 AT
9287137 TTGGTCCAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 40 0.95
3 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9287337 original size:16 final size:18
Alignment explanation
Indices: 9287316--9287348 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9287306 GTATTTCATA
9287316 AATTAA-AC-AAATTTAC
1 AATTAACACTAAATTTAC
9287332 AATTAACACTAAATTTA
1 AATTAACACTAAATTTA
9287349 TTTCATTAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 2 0.13
18 7 0.47
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (18 bp):
AATTAACACTAAATTTAC
Found at i:9290303 original size:2 final size:2
Alignment explanation
Indices: 9290296--9290325 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
9290286 TGAAAATACC
9290296 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
9290326 TTTTAATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:9293166 original size:30 final size:30
Alignment explanation
Indices: 9293130--9293195 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 30
9293120 ATTTGGTTTT
* * *
9293130 ATTTGATTTTTTTTAATAATATAGGAACTA
1 ATTTGATTTTATTTAATAATAGAAGAACTA
*
9293160 ATTTGA-TTTATTTAATAGTAGAAGAACTA
1 ATTTGATTTTATTTAATAATAGAAGAACTA
9293189 ATTTGAT
1 ATTTGAT
9293196 CTGAATATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 25 0.81
30 6 0.19
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.47
Consensus pattern (30 bp):
ATTTGATTTTATTTAATAATAGAAGAACTA
Done.