Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032254.1 Gossypioides kirkii chromosome KI_12
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: 43711324
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 22 of 135
Found at i:9346308 original size:6 final size:6
Alignment explanation
Indices: 9346299--9346328 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
9346289 TTGCTGGGGC
9346299 TGGGTT TGGGTT TGGGTT TGGGTT TGGGTT
1 TGGGTT TGGGTT TGGGTT TGGGTT TGGGTT
9346329 AAAGAAATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (6 bp):
TGGGTT
Found at i:9346376 original size:6 final size:6
Alignment explanation
Indices: 9346365--9346402 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
9346355 CCATTGGTAT
9346365 GGGATG GGGATG GGGATG GGGATG GGGATG GGGATG GG
1 GGGATG GGGATG GGGATG GGGATG GGGATG GGGATG GG
9346403 AATGTAGTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.16, C:0.00, G:0.68, T:0.16
Consensus pattern (6 bp):
GGGATG
Found at i:9346624 original size:22 final size:20
Alignment explanation
Indices: 9346596--9346647 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
9346586 TTCTACTTTC
9346596 TATTAATTTGATTTTAT-TTTG
1 TATTAATTT--TTTTATATTTG
9346617 TAGTTAATTTTTTTATATTTG
1 TA-TTAATTTTTTTATATTTG
9346638 TATTATATTT
1 TATTA-ATTT
9346648 ATAAATGTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
20 9 0.32
21 12 0.43
22 7 0.25
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.67
Consensus pattern (20 bp):
TATTAATTTTTTTATATTTG
Found at i:9346650 original size:17 final size:17
Alignment explanation
Indices: 9346628--9346669 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
9346618 AGTTAATTTT
9346628 TTTATATTTGTATTATA
1 TTTATATTTGTATTATA
** *
9346645 TTTATAAATGTATTGTA
1 TTTATATTTGTATTATA
9346662 TTTATATT
1 TTTATATT
9346670 AACCGTTTAT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (17 bp):
TTTATATTTGTATTATA
Found at i:9348250 original size:22 final size:23
Alignment explanation
Indices: 9348211--9348255 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
9348201 TTGATAACTG
*
9348211 CTGCTTACAACAATTAA-TACAA
1 CTGCTTACAACAACTAATTACAA
**
9348233 CTGCTTACAGTAACTAATTACAA
1 CTGCTTACAACAACTAATTACAA
9348256 TTACTTATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.42, C:0.22, G:0.07, T:0.29
Consensus pattern (23 bp):
CTGCTTACAACAACTAATTACAA
Found at i:9351140 original size:17 final size:17
Alignment explanation
Indices: 9351118--9351201 Score: 75
Period size: 17 Copynumber: 4.8 Consensus size: 17
9351108 TTTTATTTTA
9351118 TTTTATTTATTTATTAT
1 TTTTATTTATTTATTAT
* *
9351135 TTTTATGTTGTTT-GTAT
1 TTTTAT-TTATTTATTAT
9351152 TTTTATCTTCATTTAATT-T
1 TTTTAT-TT-ATTT-ATTAT
*
9351171 TATTTATTTATTGA-TAT
1 T-TTTATTTATTTATTAT
9351188 TTTTATTTATTTAT
1 TTTTATTTATTTAT
9351202 ATGCCATATT
Statistics
Matches: 53, Mismatches: 7, Indels: 14
0.72 0.09 0.19
Matches are distributed among these distances:
16 12 0.23
17 20 0.38
18 11 0.21
19 4 0.08
20 6 0.11
ACGTcount: A:0.21, C:0.02, G:0.05, T:0.71
Consensus pattern (17 bp):
TTTTATTTATTTATTAT
Found at i:9352421 original size:24 final size:25
Alignment explanation
Indices: 9352376--9352426 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
9352366 TATATATTGT
* *
9352376 TAAATAATATCATCACTCATAT-TA
1 TAAATAATATCATAACTAATATATA
9352400 TAAATAA-ATCATAATCTAATATATA
1 TAAATAATATCATAA-CTAATATATA
9352425 TA
1 TA
9352427 TATCTTAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 6 0.26
24 13 0.57
25 4 0.17
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (25 bp):
TAAATAATATCATAACTAATATATA
Found at i:9352788 original size:27 final size:28
Alignment explanation
Indices: 9352751--9352807 Score: 73
Period size: 27 Copynumber: 2.0 Consensus size: 28
9352741 ATAGAATTAA
9352751 TTTGACGAAATT-A-TTAAAATTATAAAT
1 TTTGACGAAATTAATTTAAAATT-TAAAT
*
9352778 TTTGACTAAATTAATTTTAAAATTTAAAT
1 TTTGACGAAATTAA-TTTAAAATTTAAAT
9352807 T
1 T
9352808 AAACATTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 11 0.42
28 1 0.04
29 6 0.23
30 8 0.31
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.46
Consensus pattern (28 bp):
TTTGACGAAATTAATTTAAAATTTAAAT
Found at i:9353334 original size:14 final size:15
Alignment explanation
Indices: 9353315--9353347 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
9353305 ATTAAAAGGA
*
9353315 ATTTTAGACA-AATT
1 ATTTTAAACATAATT
9353329 ATTTTAAACATAATT
1 ATTTTAAACATAATT
9353344 ATTT
1 ATTT
9353348 GATATTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.42, C:0.06, G:0.03, T:0.48
Consensus pattern (15 bp):
ATTTTAAACATAATT
Found at i:9358284 original size:14 final size:14
Alignment explanation
Indices: 9358265--9358291 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9358255 ATTTTTTTAA
9358265 TCGAGTTAAATTAT
1 TCGAGTTAAATTAT
9358279 TCGAGTTAAATTA
1 TCGAGTTAAATTA
9358292 AAAATTAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (14 bp):
TCGAGTTAAATTAT
Found at i:9377031 original size:2 final size:2
Alignment explanation
Indices: 9377026--9377064 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
9377016 AATATCAAGC
9377026 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
9377065 CAATGATACT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:9378341 original size:9 final size:9
Alignment explanation
Indices: 9378327--9378354 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
9378317 ACCAAAGAAG
9378327 AAAGAAAGA
1 AAAGAAAGA
9378336 AAAGAAAGA
1 AAAGAAAGA
9378345 AAAGAAAGA
1 AAAGAAAGA
9378354 A
1 A
9378355 GGAAGAATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (9 bp):
AAAGAAAGA
Found at i:9380251 original size:30 final size:33
Alignment explanation
Indices: 9380215--9380294 Score: 96
Period size: 33 Copynumber: 2.5 Consensus size: 33
9380205 AACATTAAAT
9380215 AACAAATCAA-TT-AAA-AATAAA-ATTAAACAA
1 AACAAAT-AACTTAAAATAATAAATATTAAACAA
9380245 AACAAATAACTTAAAATAATAAATATTAAACAA
1 AACAAATAACTTAAAATAATAAATATTAAACAA
* * *
9380278 AATATATAACTTTAAAT
1 AACAAATAACTTAAAAT
9380295 TACCAATAAG
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
29 2 0.05
30 9 0.21
31 3 0.07
32 6 0.14
33 23 0.53
ACGTcount: A:0.65, C:0.09, G:0.00, T:0.26
Consensus pattern (33 bp):
AACAAATAACTTAAAATAATAAATATTAAACAA
Found at i:9380514 original size:14 final size:13
Alignment explanation
Indices: 9380495--9380541 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
9380485 TCTCTCATTA
9380495 TTCTTTCTTTCCT
1 TTCTTTCTTTCCT
9380508 CTTC-TT-TTTCCT
1 -TTCTTTCTTTCCT
*
9380520 TTCTTTCTTTCTT
1 TTCTTTCTTTCCT
*
9380533 TTTTTTCTT
1 TTCTTTCTT
9380542 CTCTGATGCC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
11 3 0.10
12 8 0.28
13 15 0.52
14 3 0.10
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (13 bp):
TTCTTTCTTTCCT
Found at i:9380537 original size:21 final size:21
Alignment explanation
Indices: 9380497--9380535 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
9380487 TCTCATTATT
9380497 CTTTCTTTCCTCTTCTTTTTC
1 CTTTCTTTCCTCTTCTTTTTC
9380518 CTTTCTTT-CT-TTCTTTTT
1 CTTTCTTTCCTCTTCTTTTT
9380536 TTTCTTCTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.44
20 2 0.11
21 8 0.44
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (21 bp):
CTTTCTTTCCTCTTCTTTTTC
Found at i:9390279 original size:18 final size:17
Alignment explanation
Indices: 9390248--9390281 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
9390238 CCCAGTATTT
9390248 TTATTTGAAATTTGTTA
1 TTATTTGAAATTTGTTA
*
9390265 TTATTATGAATTTTGTT
1 TTATT-TGAAATTTGTT
9390282 CAGTTGAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.26, C:0.00, G:0.12, T:0.62
Consensus pattern (17 bp):
TTATTTGAAATTTGTTA
Found at i:9396138 original size:20 final size:19
Alignment explanation
Indices: 9396103--9396154 Score: 59
Period size: 22 Copynumber: 2.5 Consensus size: 19
9396093 TTAATATCGT
*
9396103 ATATATATTTTATAAATATTTA
1 ATATATA-TTTA-AATTA-TTA
9396125 ATATGATATTTAAATTATTA
1 ATAT-ATATTTAAATTATTA
9396145 ATATATATTT
1 ATATATATTT
9396155 TATTATGGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 6 0.21
20 7 0.25
21 4 0.14
22 8 0.29
23 3 0.11
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (19 bp):
ATATATATTTAAATTATTA
Found at i:9396156 original size:20 final size:22
Alignment explanation
Indices: 9396103--9396157 Score: 71
Period size: 20 Copynumber: 2.6 Consensus size: 22
9396093 TTAATATCGT
9396103 ATATATATTTTATAAATATTTA
1 ATATATATTTTATAAATATTTA
*
9396125 ATATGATA-TTTA-AATTA-TTA
1 ATAT-ATATTTTATAAATATTTA
9396145 ATATATATTTTAT
1 ATATATATTTTAT
9396158 TATGGTAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
19 3 0.10
20 11 0.38
21 4 0.14
22 8 0.28
23 3 0.10
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
ATATATATTTTATAAATATTTA
Found at i:9396691 original size:32 final size:31
Alignment explanation
Indices: 9396655--9396750 Score: 88
Period size: 32 Copynumber: 3.0 Consensus size: 31
9396645 AATCTAATAC
*
9396655 TTATTAATAGTTCAAGTATCACATTAAACATT
1 TTATTAATAGTTCAA-TATCATATTAAACATT
* * * *
9396687 TTATTAA-AATACATATACCATAATAAATCA-T
1 TTATTAATAGTTCA-ATATCATATTAAA-CATT
*
9396718 ATATTAATAGTTCAAATATCATATTAAACATT
1 TTATTAATAGTTC-AATATCATATTAAACATT
9396750 T
1 T
9396751 CATAAAAATA
Statistics
Matches: 48, Mismatches: 11, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
31 22 0.46
32 25 0.52
33 1 0.02
ACGTcount: A:0.46, C:0.11, G:0.03, T:0.40
Consensus pattern (31 bp):
TTATTAATAGTTCAATATCATATTAAACATT
Found at i:9397208 original size:26 final size:25
Alignment explanation
Indices: 9397179--9397239 Score: 65
Period size: 24 Copynumber: 2.5 Consensus size: 25
9397169 AAAAATATTT
9397179 ATTTTATTTTATTTTAATATTTAAT-A
1 ATTTTATTTTATTTT--TATTTAATGA
* *
9397205 ATTTTA-TATATTTTTATTTAGTGA
1 ATTTTATTTTATTTTTATTTAATGA
9397229 ATTTT-TTTTAT
1 ATTTTATTTTAT
9397240 ATAATCATCT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
23 7 0.23
24 10 0.33
25 7 0.23
26 6 0.20
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (25 bp):
ATTTTATTTTATTTTTATTTAATGA
Found at i:9400958 original size:17 final size:17
Alignment explanation
Indices: 9400936--9400999 Score: 92
Period size: 17 Copynumber: 3.7 Consensus size: 17
9400926 TTAAATTTTA
9400936 AATTTATTTTAAGTTTG
1 AATTTATTTTAAGTTTG
* *
9400953 AATTTATTTTAAATTTA
1 AATTTATTTTAAGTTTG
*
9400970 AACTTATTTTAAAGTTTG
1 AATTTATTTT-AAGTTTG
9400988 AATTTATTTTAA
1 AATTTATTTTAA
9401000 ATTTAAATTA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
17 26 0.65
18 14 0.35
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.56
Consensus pattern (17 bp):
AATTTATTTTAAGTTTG
Found at i:9400968 original size:35 final size:35
Alignment explanation
Indices: 9400923--9401008 Score: 147
Period size: 35 Copynumber: 2.5 Consensus size: 35
9400913 TTGAGCCCAA
9400923 ATTTTAAATTTTAAATTTATTTT-AAGTTTGAATTT
1 ATTTTAAA-TTTAAATTTATTTTAAAGTTTGAATTT
*
9400958 ATTTTAAATTTAAACTTATTTTAAAGTTTGAATTT
1 ATTTTAAATTTAAATTTATTTTAAAGTTTGAATTT
9400993 ATTTTAAATTTAAATT
1 ATTTTAAATTTAAATT
9401009 AATTAAGGAA
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
34 13 0.27
35 35 0.73
ACGTcount: A:0.37, C:0.01, G:0.05, T:0.57
Consensus pattern (35 bp):
ATTTTAAATTTAAATTTATTTTAAAGTTTGAATTT
Found at i:9402756 original size:29 final size:28
Alignment explanation
Indices: 9402678--9402950 Score: 153
Period size: 29 Copynumber: 9.4 Consensus size: 28
9402668 AATGTCCTTG
* *
9402678 AACTGTCCAAAAATCATATTTTGACCC-CTA
1 AACT-TCCAAAAATTACATTTT-ACCCTC-A
* *
9402708 AACTATTCC-AAAATTGCATTTTAACCTCA
1 AAC--TTCCAAAAATTACATTTTACCCTCA
* *
9402737 AAATTCAAAAAAATTACATTTTACCCTCA
1 AACTTC-CAAAAATTACATTTTACCCTCA
* *
9402766 AACTTCCAAAAATCACATTTTTGCCCTCA
1 AACTTCCAAAAATTACA-TTTTACCCTCA
* *
9402795 AACTTCTAAAAATTACCATTTTACCCCCA
1 AACTTCCAAAAATTA-CATTTTACCCTCA
* * *
9402824 AATTTCCAAAAATTATATTTTTACCC-CTG
1 AACTTCCAAAAATTACA-TTTTACCCTC-A
** * *
9402853 AACTTTTTAAAAATTATATTTTGTCCCT-A
1 AAC-TTCCAAAAATTACATTTT-ACCCTCA
** *
9402882 AACTTCCAAAAAATGCCATTTTGCCC-C-
1 AACTTCC-AAAAATTACATTTTACCCTCA
* *
9402909 AAGTATCCAAAAATCACCATTTTACCCTCA
1 AACT-TCCAAAAATTA-CATTTTACCCTCA
*
9402939 AATTTTCCAAAA
1 AA-CTTCCAAAA
9402951 GTTTAATTTT
Statistics
Matches: 188, Mismatches: 36, Indels: 38
0.72 0.14 0.15
Matches are distributed among these distances:
27 12 0.06
28 28 0.15
29 103 0.55
30 40 0.21
31 4 0.02
32 1 0.01
ACGTcount: A:0.38, C:0.25, G:0.03, T:0.33
Consensus pattern (28 bp):
AACTTCCAAAAATTACATTTTACCCTCA
Found at i:9402835 original size:87 final size:85
Alignment explanation
Indices: 9402678--9402950 Score: 205
Period size: 87 Copynumber: 3.1 Consensus size: 85
9402668 AATGTCCTTG
* * ** * *
9402678 AACTGTCCAAAAATCATATTTTGACCCCTAAACTATTCC--AAAATTGCATTTTAACCTCAAAAT
1 AACT-TCCAAAAATCACATTTTG-TCCCTAAAC--TTCCAAAAAATACCATTTTAACCCCAAATT
*
9402741 TCAAAAAAATTACATTTTACCCTCA
62 TC-CAAAAATTACATTTTACCCTCA
* * *
9402766 AACTTCCAAAAATCACATTTT-TGCCCTCAAACTTCTAAAAATTACCATTTTACCCCCAAATTTC
1 AACTTCCAAAAATCACATTTTGT-CCCT-AAACTTCCAAAAAATACCATTTTAACCCCAAATTTC
* *
9402830 CAAAAATTATATTTTTACCC-CTG
64 CAAAAATTACA-TTTTACCCTC-A
** * * * * * *
9402853 AACTTTTTAAAAATTATATTTTGTCCCTAAACTTCCAAAAAATGCCATTTT-GCCCCAAGTATCC
1 AAC-TTCCAAAAATCACATTTTGTCCCTAAACTTCCAAAAAATACCATTTTAACCCCAAATTTCC
*
9402917 AAAAATCACCATTTTACCCTCA
65 AAAAATTA-CATTTTACCCTCA
*
9402939 AATTTTCCAAAA
1 AA-CTTCCAAAA
9402951 GTTTAATTTT
Statistics
Matches: 146, Mismatches: 28, Indels: 24
0.74 0.14 0.12
Matches are distributed among these distances:
85 3 0.02
86 47 0.32
87 73 0.50
88 22 0.15
89 1 0.01
ACGTcount: A:0.38, C:0.25, G:0.03, T:0.33
Consensus pattern (85 bp):
AACTTCCAAAAATCACATTTTGTCCCTAAACTTCCAAAAAATACCATTTTAACCCCAAATTTCCA
AAAATTACATTTTACCCTCA
Found at i:9402987 original size:28 final size:27
Alignment explanation
Indices: 9402942--9402994 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
9402932 ACCCTCAAAT
*
9402942 TTTCCAAAAGTTTAATTTTAATCCCAA
1 TTTCCAAAACTTTAATTTTAATCCCAA
* *
9402969 TTTCCAAAAACTTTGATTTTGATCCC
1 TTTCC-AAAACTTTAATTTTAATCCC
9402995 CAAATTCCTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 5 0.23
28 17 0.77
ACGTcount: A:0.32, C:0.21, G:0.06, T:0.42
Consensus pattern (27 bp):
TTTCCAAAACTTTAATTTTAATCCCAA
Found at i:9405106 original size:17 final size:17
Alignment explanation
Indices: 9405075--9405155 Score: 108
Period size: 17 Copynumber: 4.8 Consensus size: 17
9405065 GGGCCCAACA
*
9405075 AAATTTGAATTTATTTT
1 AAATTTAAATTTATTTT
* *
9405092 AAAATTAAGTTTATTTT
1 AAATTTAAATTTATTTT
**
9405109 AAATTTAAATTTATTGG
1 AAATTTAAATTTATTTT
*
9405126 AAATTTAAATTTATTAT
1 AAATTTAAATTTATTTT
9405143 AAATTTAAATTTA
1 AAATTTAAATTTA
9405156 AATTCATTTA
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 55 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (17 bp):
AAATTTAAATTTATTTT
Found at i:9405115 original size:6 final size:6
Alignment explanation
Indices: 9405075--9405159 Score: 56
Period size: 6 Copynumber: 14.8 Consensus size: 6
9405065 GGGCCCAACA
* * * * *
9405075 AAATTT GAATTT -ATTTT AAAATT AAGTTT -ATTTT AAATTT AAATTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
*
9405121 --ATTGG AAATTT AAATTT --ATTAT AAATTT AAATTT AAATT
1 AAATT-T AAATTT AAATTT AAATT-T AAATTT AAATTT AAATT
9405160 CATTTAAATA
Statistics
Matches: 61, Mismatches: 10, Indels: 16
0.70 0.11 0.18
Matches are distributed among these distances:
4 6 0.10
5 9 0.15
6 40 0.66
7 6 0.10
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.52
Consensus pattern (6 bp):
AAATTT
Found at i:9406806 original size:29 final size:29
Alignment explanation
Indices: 9406774--9406917 Score: 93
Period size: 28 Copynumber: 4.9 Consensus size: 29
9406764 TGGACTTTCG
9406774 AGGGCAAAATGGTAATTTTTGGTAAAATT
1 AGGGCAAAATGGTAATTTTTGGTAAAATT
*
9406803 AGGGTCAAAATGG-AA-TTTTGG-AAAGTT
1 AGGG-CAAAATGGTAATTTTTGGTAAAATT
* * * * *
9406830 CGGGGGTAAAATGGTAATTTTTTGTGAAATC
1 --AGGGCAAAATGGTAATTTTTGGTAAAATT
* * *
9406861 GGGGTAAAAATGG-AA-TTTTGG-AAAGTTT
1 AGGG-CAAAATGGTAATTTTTGGTAAA-ATT
*
9406889 AGGGGTAAAATGGTAATTTTTGGTGAAAA
1 A-GGGCAAAATGGTAATTTTTGGT-AAAA
9406918 ATGGTAGTAT
Statistics
Matches: 87, Mismatches: 15, Indels: 24
0.69 0.12 0.19
Matches are distributed among these distances:
27 7 0.08
28 26 0.30
29 22 0.25
30 26 0.30
31 3 0.03
32 3 0.03
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.33
Consensus pattern (29 bp):
AGGGCAAAATGGTAATTTTTGGTAAAATT
Found at i:9406841 original size:58 final size:58
Alignment explanation
Indices: 9406770--9407008 Score: 239
Period size: 58 Copynumber: 4.2 Consensus size: 58
9406760 ATTTTGGACT
*
9406770 TTCGAGGGCAAAATGGTAATTTTTGGTAAAATTAGGGTCAAAATGGAATTTTGGAAAG
1 TTCGAGGGTAAAATGGTAATTTTTGGTAAAATTAGGGTCAAAATGGAATTTTGGAAAG
* * * ** *
9406828 TTCGGGGGTAAAATGGTAATTTTTTGTGAAATCGGGGTAAAAATGGAATTTTGGAAAG
1 TTCGAGGGTAAAATGGTAATTTTTGGTAAAATTAGGGTCAAAATGGAATTTTGGAAAG
* * *
9406886 TT-TAGGGGTAAAATGGTAATTTTTGGTGAAAA--ATGGT----A--GTATTTTGGAAAG
1 TTCGA-GGGTAAAATGGTAATTTTTGGT-AAAATTAGGGTCAAAATGGAATTTTGGAAAG
* * *
9406937 TTCGAGGGTAAAATGATAATTTTTGGTGAAATT-GGGATCAAAAATGGAATTTTGG-ATG
1 TTCGAGGGTAAAATGGTAATTTTTGGTAAAATTAGGG-TC-AAAATGGAATTTTGGAAAG
9406995 ATTCGAGGGTAAAA
1 -TTCGAGGGTAAAA
9407009 ACATAATTTT
Statistics
Matches: 147, Mismatches: 20, Indels: 27
0.76 0.10 0.14
Matches are distributed among these distances:
50 3 0.02
51 37 0.25
52 2 0.01
53 1 0.01
57 4 0.03
58 76 0.52
59 24 0.16
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.33
Consensus pattern (58 bp):
TTCGAGGGTAAAATGGTAATTTTTGGTAAAATTAGGGTCAAAATGGAATTTTGGAAAG
Found at i:9407020 original size:109 final size:109
Alignment explanation
Indices: 9406817--9407018 Score: 280
Period size: 109 Copynumber: 1.8 Consensus size: 109
9406807 TCAAAATGGA
* * * *
9406817 ATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTTGTGAAATCGGGGTAAAAATGGAATTTTGG
1 ATTTTGGAAAGTTCGAGGGTAAAATGATAATTTTTGGTGAAATCGGGATAAAAATGGAATTTTGG
* ***
9406882 AAAGTTTAGGGGTAAAATGGTAATTTTTGGTGAAAAATGGTAGT
66 AAAGATTAGGGGTAAAAACATAATTTTTGGTGAAAAATGGTAGT
*
9406926 ATTTTGGAAAGTTCGAGGGTAAAATGATAATTTTTGGTGAAATTGGGATCAAAAATGGAATTTTG
1 ATTTTGGAAAGTTCGAGGGTAAAATGATAATTTTTGGTGAAATCGGGAT-AAAAATGGAATTTTG
* *
9406991 G-ATGATTCGAGGGTAAAAACATAATTTT
65 GAAAGATTAG-GGGTAAAAACATAATTTT
9407019 GGGAAGTTTT
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
109 49 0.61
110 31 0.39
ACGTcount: A:0.35, C:0.03, G:0.28, T:0.35
Consensus pattern (109 bp):
ATTTTGGAAAGTTCGAGGGTAAAATGATAATTTTTGGTGAAATCGGGATAAAAATGGAATTTTGG
AAAGATTAGGGGTAAAAACATAATTTTTGGTGAAAAATGGTAGT
Found at i:9408811 original size:25 final size:25
Alignment explanation
Indices: 9408751--9408813 Score: 90
Period size: 25 Copynumber: 2.5 Consensus size: 25
9408741 TTGTAGCAGT
* * *
9408751 GGTGGTGGCAAAGTAGTTTGGAGCC
1 GGTGGTGGCAGAGCAGTTTAGAGCC
*
9408776 GGTGGTGGCAGAGCAGTTTAGAGTC
1 GGTGGTGGCAGAGCAGTTTAGAGCC
9408801 GGTGGTGGCAGAG
1 GGTGGTGGCAGAG
9408814 GCAACTTGCT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.19, C:0.11, G:0.48, T:0.22
Consensus pattern (25 bp):
GGTGGTGGCAGAGCAGTTTAGAGCC
Found at i:9409146 original size:6 final size:6
Alignment explanation
Indices: 9409117--9409195 Score: 54
Period size: 6 Copynumber: 13.3 Consensus size: 6
9409107 TATAATAAGT
* * * * *
9409117 TTTAAA TTCATA TATAAA TCTAAA TTTAAA -TTAAA TTTTAAT TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA -TTTAAA TTTAAA
*** *
9409165 ACAAAA TTTAAA TTTAAA -ATAAA TTTAAA TT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TT
9409196 CAAAAATCAA
Statistics
Matches: 53, Mismatches: 17, Indels: 6
0.70 0.22 0.08
Matches are distributed among these distances:
5 9 0.17
6 40 0.75
7 4 0.08
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (6 bp):
TTTAAA
Found at i:9409229 original size:18 final size:17
Alignment explanation
Indices: 9409130--9409229 Score: 101
Period size: 18 Copynumber: 5.6 Consensus size: 17
9409120 AAATTCATAT
*
9409130 ATAAATCTAAATTTAAA
1 ATAAATTTAAATTTAAA
* *
9409147 TTAAATTTTAATTTTAAA
1 ATAAA-TTTAAATTTAAA
*
9409165 ACAAAATTTAAATTTAAA
1 A-TAAATTTAAATTTAAA
*
9409183 ATAAATTTAAATTCAAAA
1 ATAAATTTAAATT-TAAA
* *
9409201 ATCAATTTAAACTTAAA
1 ATAAATTTAAATTTAAA
9409218 ATAAATCTTAAA
1 ATAAAT-TTAAA
9409230 ATGAGTTTAA
Statistics
Matches: 67, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
17 23 0.34
18 41 0.61
19 3 0.04
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (17 bp):
ATAAATTTAAATTTAAA
Found at i:9410506 original size:30 final size:30
Alignment explanation
Indices: 9410383--9410636 Score: 161
Period size: 29 Copynumber: 8.6 Consensus size: 30
9410373 GTCCCCGAAC
9410383 TTTCC-AAAATT-CTATTTTTAACCCC-AAAT
1 TTTCCAAAAATTAC-ATTTTT-ACCCCTAAAT
* * ** * *
9410412 TTCCCAAAAATTATATTTTTACCTTTGAAC
1 TTTCCAAAAATTACATTTTTACCCCTAAAT
* * * * *
9410442 TTT-CTAAAATTCCA-TTTTAACCTTAAAG
1 TTTCCAAAAATTACATTTTTACCCCTAAAT
* *
9410470 TTTCCAAAAATTACATTTGTACCCCTTAAT
1 TTTCCAAAAATTACATTTTTACCCCTAAAT
* * * *
9410500 TTTCC-AAAATTCCATTTTTAACCCTGAAC
1 TTTCCAAAAATTACATTTTTACCCCTAAAT
*
9410529 TTTCCAAAAATTACCTTTTTACCCCTAAAT
1 TTTCCAAAAATTACATTTTTACCCCTAAAT
*
9410559 TTTCC-AAAATT-CTATTTTTGA-CCCTGAAGT
1 TTTCCAAAAATTAC-ATTTTT-ACCCCT-AAAT
* * * * *
9410589 TTTCAAAAAATTATATTTTAACCTC-AAAC
1 TTTCCAAAAATTACATTTTTACCCCTAAAT
9410618 TTTCC-AAAATTACCATTTT
1 TTTCCAAAAATTA-CATTTT
9410637 GCCCCCGAAT
Statistics
Matches: 171, Mismatches: 41, Indels: 26
0.72 0.17 0.11
Matches are distributed among these distances:
28 21 0.12
29 74 0.43
30 63 0.37
31 13 0.08
ACGTcount: A:0.34, C:0.22, G:0.03, T:0.41
Consensus pattern (30 bp):
TTTCCAAAAATTACATTTTTACCCCTAAAT
Found at i:9410637 original size:59 final size:59
Alignment explanation
Indices: 9410380--9410636 Score: 268
Period size: 59 Copynumber: 4.4 Consensus size: 59
9410370 GAGGTCCCCG
* * * * ** *
9410380 AACTTTCCAAAATTCTATTTTTAACCC-CAAATTTCCCAAAAATTATATTTTTACCTTTG
1 AACTTTCCAAAATTCCATTTTTAACCCTGAAGTTT-CCAAAAATTACATTTTTACCCCTA
* * * * *
9410439 AACTTTCTAAAATTCCA-TTTTAACCTTAAAGTTTCCAAAAATTACATTTGTACCCCTT
1 AACTTTCCAAAATTCCATTTTTAACCCTGAAGTTTCCAAAAATTACATTTTTACCCCTA
* * *
9410497 AATTTTCCAAAATTCCATTTTTAACCCTGAACTTTCCAAAAATTACCTTTTTACCCCTA
1 AACTTTCCAAAATTCCATTTTTAACCCTGAAGTTTCCAAAAATTACATTTTTACCCCTA
* * * * * * *
9410556 AATTTTCCAAAATTCTATTTTTGACCCTGAAGTTTTCAAAAAATTATATTTTAACCTC-A
1 AACTTTCCAAAATTCCATTTTTAACCCTGAAG-TTTCCAAAAATTACATTTTTACCCCTA
9410615 AACTTTCCAAAATTACCATTTT
1 AACTTTCCAAAATT-CCATTTT
9410637 GCCCCCGAAT
Statistics
Matches: 166, Mismatches: 28, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
58 42 0.25
59 98 0.59
60 26 0.16
ACGTcount: A:0.34, C:0.22, G:0.03, T:0.41
Consensus pattern (59 bp):
AACTTTCCAAAATTCCATTTTTAACCCTGAAGTTTCCAAAAATTACATTTTTACCCCTA
Found at i:9410655 original size:29 final size:29
Alignment explanation
Indices: 9410620--9410700 Score: 110
Period size: 29 Copynumber: 2.8 Consensus size: 29
9410610 CCTCAAACTT
9410620 TCCAAAATTACCATTTTGCCCCCGAA-TA
1 TCCAAAATTACCATTTTGCCCCCGAAGTA
* * *
9410648 TCAGAAAATTACCATCTTACCCCCGAAGTA
1 TC-CAAAATTACCATTTTGCCCCCGAAGTA
*
9410678 TCCAAAATTACCGTTTTGCCCCC
1 TCCAAAATTACCATTTTGCCCCC
9410701 CGAGAATTCA
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
28 2 0.05
29 38 0.86
30 4 0.09
ACGTcount: A:0.31, C:0.33, G:0.09, T:0.27
Consensus pattern (29 bp):
TCCAAAATTACCATTTTGCCCCCGAAGTA
Found at i:9410715 original size:30 final size:30
Alignment explanation
Indices: 9410623--9410716 Score: 97
Period size: 29 Copynumber: 3.2 Consensus size: 30
9410613 CAAACTTTCC
9410623 AAAATTACCATTTTGCCCCC--GAATATCA
1 AAAATTACCATTTTGCCCCCGAGAATATCA
* * * *
9410651 GAAAATTACCATCTTACCCCCGA-AGTATCC
1 -AAAATTACCATTTTGCCCCCGAGAATATCA
*
9410681 AAAATTACCGTTTTGCCCCCCGAGAAT-TCA
1 AAAATTACCATTTTG-CCCCCGAGAATATCA
9410711 AAAATT
1 AAAATT
9410717 GCATTTAACC
Statistics
Matches: 52, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
29 30 0.58
30 20 0.38
31 2 0.04
ACGTcount: A:0.35, C:0.29, G:0.10, T:0.27
Consensus pattern (30 bp):
AAAATTACCATTTTGCCCCCGAGAATATCA
Found at i:9415972 original size:50 final size:49
Alignment explanation
Indices: 9415854--9416382 Score: 313
Period size: 49 Copynumber: 10.7 Consensus size: 49
9415844 TGTTTAACAA
* * * * * * * *
9415854 GGAAGGGTTGAGGCTCCAACGGCAAACTCAGTA-CTATGAAGATGTAAAT
1 GGAAAGGTTGAGGC-GCAACGGCGAACCCGGTACCTAAGAAGATGTGAAG
* * *
9415903 GGAAAGGTTGAGGCTGCAACGGTGAACCCAGTACCTAAGAAGATGTGACG
1 GGAAAGGTTGAGGC-GCAACGGCGAACCCGGTACCTAAGAAGATGTGAAG
* * * *
9415953 GGAAAGGTTGAGGACGCAACGACGAACCCAGTACC-ATGAAGATTTGAAG
1 GGAAAGGTTGAGG-CGCAACGGCGAACCCGGTACCTAAGAAGATGTGAAG
* ** * * * * *
9416002 AGAAAGGTTGATACCGCTACAGCGAACCTGGTACCTCAGAA-ATGTGATG
1 GGAAAGGTTGA-GGCGCAACGGCGAACCCGGTACCTAAGAAGATGTGAAG
* * * * *
9416051 GGAAAGATTGAGGCTGCAATGGCGAATCCGGTACC-ATGAA-ATGTGATG
1 GGAAAGGTTGAGGC-GCAACGGCGAACCCGGTACCTAAGAAGATGTGAAG
* * * *
9416099 GGAAAGGTTGAGGCTGTAACGGCGAACTCGGTACC-ATGAAGATTTGAAG
1 GGAAAGGTTGAGGC-GCAACGGCGAACCCGGTACCTAAGAAGATGTGAAG
* * * * *
9416148 AGAAAGGTTGAGGTTGCAACGGCGAACCCAGCACCTTAA-AAGATGTGACG
1 GGAAAGGTTGAGG-CGCAACGGCGAACCCGGTACC-TAAGAAGATGTGAAG
* * * * * *
9416198 GGAAAAGTTGAGACCGTAACGACGAACCCGGTACC-ATGAAGATTTGAAG
1 GGAAAGGTTGAG-GCGCAACGGCGAACCCGGTACCTAAGAAGATGTGAAG
* *** * * * *
9416247 GG-AAGGATTGAGGCCGCGACGATAAATCTGGTACCTCAGAAGATTTGAAG
1 GGAAAGG-TTGAGG-CGCAACGGCGAACCCGGTACCTAAGAAGATGTGAAG
* ** *
9416297 GGAAAGGTTGAGGTCGCAATGGTAAACCCGGTACCTTAA-AAGATATGAAG
1 GGAAAGGTTGAGG-CGCAACGGCGAACCCGGTACC-TAAGAAGATGTGAAG
* * * * **
9416347 AGAAACGTTGATGCCGTAACGGTAAACCCGGTACCT
1 GGAAAGGTTGA-GGCGCAACGGCGAACCCGGTACCT
9416383 TAAAAAATAA
Statistics
Matches: 376, Mismatches: 87, Indels: 34
0.76 0.18 0.07
Matches are distributed among these distances:
48 51 0.14
49 161 0.43
50 155 0.41
51 9 0.02
ACGTcount: A:0.33, C:0.18, G:0.30, T:0.19
Consensus pattern (49 bp):
GGAAAGGTTGAGGCGCAACGGCGAACCCGGTACCTAAGAAGATGTGAAG
Found at i:9416290 original size:99 final size:99
Alignment explanation
Indices: 9416091--9416308 Score: 231
Period size: 99 Copynumber: 2.2 Consensus size: 99
9416081 GTACCATGAA
* * * * *
9416091 ATGTGATGGGAAAGGTTGAGGCTGTAACGGCGAACTCGGTACCATGAAGATTTGAAGAGAAAGGT
1 ATGTGAAGGGAAAGGTTGAGACCGTAACGACGAACCCGGTACCATGAAGATTTGAAGAGAAAGGT
** * * *
9416156 TGAGGTTGCAACGGCGAACCCAGCACCTTAAAAG
66 TGAGGCCGCAACGACAAACCCAGCACCTCAAAAG
* * *
9416190 ATGTGACGGGAAAAGTTGAGACCGTAACGACGAACCCGGTACCATGAAGATTTGAAG-GGAAGGA
1 ATGTGAAGGGAAAGGTTGAGACCGTAACGACGAACCCGGTACCATGAAGATTTGAAGAGAAAGG-
* * * ** * *
9416254 TTGAGGCCGCGACGATAAATCTGGTACCTCAGAAG
65 TTGAGGCCGCAACGACAAACCCAGCACCTCAAAAG
*
9416289 ATTTGAAGGGAAAGGTTGAG
1 ATGTGAAGGGAAAGGTTGAG
9416309 GTCGCAATGG
Statistics
Matches: 96, Mismatches: 22, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
98 5 0.05
99 91 0.95
ACGTcount: A:0.33, C:0.16, G:0.33, T:0.19
Consensus pattern (99 bp):
ATGTGAAGGGAAAGGTTGAGACCGTAACGACGAACCCGGTACCATGAAGATTTGAAGAGAAAGGT
TGAGGCCGCAACGACAAACCCAGCACCTCAAAAG
Found at i:9416383 original size:50 final size:50
Alignment explanation
Indices: 9416137--9416387 Score: 164
Period size: 50 Copynumber: 5.0 Consensus size: 50
9416127 CGGTACCATG
* * ** ** * *
9416137 AAGATTTGAAGAGAAAGGTTGAGGTTGCAACGGCGAACCCAGCACCTTAA
1 AAGATATGAAGAGAAACGTTGAGGCCGCAACGGTAAACCCGGTACCTTAA
* * * * * * *** * *
9416187 AAGATGTGACGGGAAAAGTTGAGACCGTAACGACGAACCCGGTACCAT-G
1 AAGATATGAAGAGAAACGTTGAGGCCGCAACGGTAAACCCGGTACCTTAA
* * * * * * * * *
9416236 AAGATTTGAAG-GGAAGGATTGAGGCCGCGACGATAAATCTGGTACCTCAG
1 AAGATATGAAGAGAAACG-TTGAGGCCGCAACGGTAAACCCGGTACCTTAA
* * * * *
9416286 AAGATTTGAAGGGAAAGGTTGAGGTCGCAATGGTAAACCCGGTACCTTAA
1 AAGATATGAAGAGAAACGTTGAGGCCGCAACGGTAAACCCGGTACCTTAA
* *
9416336 AAGATATGAAGAGAAACGTTGATGCCGTAACGGTAAACCCGGTACCTTAA
1 AAGATATGAAGAGAAACGTTGAGGCCGCAACGGTAAACCCGGTACCTTAA
9416386 AA
1 AA
9416388 AATAAGATGG
Statistics
Matches: 156, Mismatches: 42, Indels: 6
0.76 0.21 0.03
Matches are distributed among these distances:
48 4 0.03
49 30 0.19
50 117 0.75
51 5 0.03
ACGTcount: A:0.35, C:0.17, G:0.29, T:0.19
Consensus pattern (50 bp):
AAGATATGAAGAGAAACGTTGAGGCCGCAACGGTAAACCCGGTACCTTAA
Found at i:9416663 original size:41 final size:41
Alignment explanation
Indices: 9416606--9416725 Score: 197
Period size: 41 Copynumber: 2.9 Consensus size: 41
9416596 ATCATTCAGT
9416606 CTTTTGCCCTTAGTCAAGAAGGGTAGATTGAAGATTCCAGC
1 CTTTTGCCCTTAGTCAAGAAGGGTAGATTGAAGATTCCAGC
9416647 CTTTTGCCCTTAGTCAAGAAGGGTAGATTGAAGATTCCAGC
1 CTTTTGCCCTTAGTCAAGAAGGGTAGATTGAAGATTCCAGC
* * *
9416688 CTTTTACCCTTCA-TCAAGAAGGGCAGAATGAAGATTCC
1 CTTTTGCCCTT-AGTCAAGAAGGGTAGATTGAAGATTCC
9416726 GATCTTTTAT
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
41 74 0.99
42 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (41 bp):
CTTTTGCCCTTAGTCAAGAAGGGTAGATTGAAGATTCCAGC
Found at i:9416853 original size:39 final size:39
Alignment explanation
Indices: 9416727--9416869 Score: 126
Period size: 39 Copynumber: 3.7 Consensus size: 39
9416717 GAAGATTCCG
* * * * *
9416727 ATCTTTTATCCCGAGCTTGGGGCAGATCACCATTAGTCA
1 ATCTCTTACCCCGAGCTTGGGGCAGATCGCCATCAATCA
* * * * * * * *
9416766 ATCTCTTACCCTGAGCATGGGGGAGATTGCAACCATTCG
1 ATCTCTTACCCCGAGCTTGGGGCAGATCGCCATCAATCA
* * *
9416805 ATCTTTTACCCCGAGCTTGGGACAGATCGCCATCAACCA
1 ATCTCTTACCCCGAGCTTGGGGCAGATCGCCATCAATCA
*
9416844 ATCTCTTACCCCAAGCTT-GGGCAGAT
1 ATCTCTTACCCCGAGCTTGGGGCAGAT
9416870 TACAATTATC
Statistics
Matches: 78, Mismatches: 26, Indels: 1
0.74 0.25 0.01
Matches are distributed among these distances:
38 7 0.09
39 71 0.91
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.27
Consensus pattern (39 bp):
ATCTCTTACCCCGAGCTTGGGGCAGATCGCCATCAATCA
Found at i:9416909 original size:77 final size:78
Alignment explanation
Indices: 9416723--9416928 Score: 225
Period size: 77 Copynumber: 2.7 Consensus size: 78
9416713 GAATGAAGAT
* * **
9416723 TCCGATCTTTTATCCCGAGCTTGGGGCAGATCACCATTAGTCAATCTCTTACCCTGAGCATGGGG
1 TCCGATCTTTTATCCCGAGCTTGGGGCAGATCACCATCAATCAATCTCTTACCCCAAGCATGGGG
* *
9416788 GAGATTGCAACCA
66 CAGATTACAACCA
* * * * * *
9416801 TTCGATCTTTTACCCCGAGCTTGGGACAGATCGCCATCAACCAATCTCTTACCCCAAGC-TTGGG
1 TCCGATCTTTTATCCCGAGCTTGGGGCAGATCACCATCAATCAATCTCTTACCCCAAGCATGGGG
**
9416865 CAGATTACAATTA
66 CAGATTACAACCA
* * * * * *
9416878 TCCGACCTTTTATCCCGACCATGGGGTAGATCACAATCATTCAATCTCTTA
1 TCCGATCTTTTATCCCGAGCTTGGGGCAGATCACCATCAATCAATCTCTTA
9416929 ACCGATCATG
Statistics
Matches: 103, Mismatches: 25, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
77 53 0.51
78 50 0.49
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (78 bp):
TCCGATCTTTTATCCCGAGCTTGGGGCAGATCACCATCAATCAATCTCTTACCCCAAGCATGGGG
CAGATTACAACCA
Found at i:9417943 original size:417 final size:417
Alignment explanation
Indices: 9416958--9418233 Score: 1871
Period size: 417 Copynumber: 3.1 Consensus size: 417
9416948 GCAGTTATCG
** ** * * *
9416958 AAGCAATAAAGCGGTC-GTCTTCCTGATGAGATACAGA-AAGTAGACTAAACCCATCTTCCTGAT
1 AAGCAATAAAATGGTCAG-CTTCCTGATGAGATACAGAGAAGCGGACCAAATCCGTCTTCCTGAT
* * * * *
9417021 GAGATACAGAGAAGTGGGTTGAAAT-AGTGATGCGGTCATCTTCCTTATGAGATACAGAGAAGTA
65 GAGATACAGAGAAGTAGATTAAAATAAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGTA
** ** * *
9417085 TACCAAATCAATGAAACAAAGTTCAATGTGAGTGAAACTTCGAATCCCAGCTTCCTGATGAGATA
130 TACCAAATCAATGAAACAAAACTCAATGTGAGCAAAACTTCGAACCCCAGCTTCCTGATGAGGTA
* * * *
9417150 CTAAGAAGTAGGTCGAAGCAATAAAATGGTC-GTCTTCCTGATAAGATACAGAAAAGTGGACCAA
195 CTGAGAAGCAGGTCGAAGCAATAAAATGGTCAG-CTTCCTGATGAGATACAGAAAA-CGGACCAA
* * * * * * *
9417214 TTTCGTCTTCCTAATAAGATACGAAGAAGTGAATTAAAACAAGTGAGGCGGTCATCTTCCTGATG
258 ATTCGTCTTCCTGATGAGATACAAAGAAGCGGATTAAAATAAGTGAGGCGGTCATCTTCCTGATG
*
9417279 AGATACAAAGAAGTATACCAAATCAATGAAACAAAGCTCAATGTGAGCAAAACTTCGAACCCCAG
323 AGATACAGAGAAGTATACCAAATCAATGAAACAAAGCTCAATGTGAGCAAAACTTCGAACCCCAG
* *
9417344 CTTCCTGATGAAGTACCGAGAAGCAGGTCG
388 CTTCCCGATGAAGTACCGAGAAGCAGGTCA
* *
9417374 AAGCAATAAAATGGTCAGCTTCTTGATGAGATACAGAGAAGCGGACCAAATCCGTCTTTCTGATG
1 AAGCAATAAAATGGTCAGCTTCCTGATGAGATACAGAGAAGCGGACCAAATCCGTCTTCCTGATG
* * *
9417439 AGATACAAAGAAGTAAATTAAAATAATTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGTAT
66 AGATACAGAGAAGTAGATTAAAATAAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGTAT
* *
9417504 ACCAAATCAATGAAACAAAACTCAATGTAAGCAAAACTTCGAACCCCAGCTTCCTGATAAGGTAC
131 ACCAAATCAATGAAACAAAACTCAATGTGAGCAAAACTTCGAACCCCAGCTTCCTGATGAGGTAC
*
9417569 TGAGAAGCAGGTCGAAGCAATAAAATGGTCAGATTCCTGATGAGATACAGAGAAACGGACCAAAT
196 TGAGAAGCAGGTCGAAGCAATAAAATGGTCAGCTTCCTGATGAGATACAGA-AAACGGACCAAAT
* *
9417634 CCGTCTTTCTGATGAGATACAAAGAAGCGGATTAAAATAAGTGAGGCGGTCATCTTCCTGATGAG
260 TCGTCTTCCTGATGAGATACAAAGAAGCGGATTAAAATAAGTGAGGCGGTCATCTTCCTGATGAG
* *
9417699 ATACAGAGAAGTATACCAAATCAATGAAACAAAGCTCAATGTGAGCAAAACTTTGCA-CCCAGCT
325 ATACAGAGAAGTATACCAAATCAATGAAACAAAGCTCAATGTGAGCAAAACTTCGAACCCCAGCT
*
9417763 TCCCGATGAGGTACCGAGAAGCAGGTCA
390 TCCCGATGAAGTACCGAGAAGCAGGTCA
*
9417791 AAGCAATAAAATGGTCAGCTTCCTGATGAGATACAGAGAAGCGGACCAAATACGTCTTCCTGATG
1 AAGCAATAAAATGGTCAGCTTCCTGATGAGATACAGAGAAGCGGACCAAATCCGTCTTCCTGATG
9417856 AGATACAGAGAAGTAGATTAAAATAAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGTAT
66 AGATACAGAGAAGTAGATTAAAATAAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGTAT
* * *
9417921 ACCAAATCAATGAAAAAAAACTCAATATGAGCAAAACTTCGAACCCCAACTTCCTGATGAGGTAC
131 ACCAAATCAATGAAACAAAACTCAATGTGAGCAAAACTTCGAACCCCAGCTTCCTGATGAGGTAC
*
9417986 TGAGAAGCAGGTCGAAGCAATAAAATGGTCAGCTTCCTGATGAGATACAGATAAGCGGACCAAAT
196 TGAGAAGCAGGTCGAAGCAATAAAATGGTCAGCTTCCTGATGAGATACAGA-AAACGGACCAAAT
* *
9418051 TCGTCTTCCTGATGAGATACAGAGAAGCGGATTAAAATAAGTGAGGCGGTCATCTTCTTGATGAG
260 TCGTCTTCCTGATGAGATACAAAGAAGCGGATTAAAATAAGTGAGGCGGTCATCTTCCTGATGAG
* * * * *
9418116 ATACAGAGAAGTATACCAAATAAATGAAACAAAGCTCAATGTGAGCAAAACCTCAAACACCATCT
325 ATACAGAGAAGTATACCAAATCAATGAAACAAAGCTCAATGTGAGCAAAACTTCGAACCCCAGCT
** * * **
9418181 TCCTAATG-AGATACTGAGAAGCAGATTG
390 TCCCGATGAAG-TACCGAGAAGCAGGTCA
* *
9418209 AAGCAATAAAGTGGTCACCTTCCTG
1 AAGCAATAAAATGGTCAGCTTCCTG
9418234 GCGAGACGCA
Statistics
Matches: 774, Mismatches: 79, Indels: 12
0.89 0.09 0.01
Matches are distributed among these distances:
416 32 0.04
417 433 0.56
418 305 0.39
419 4 0.01
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.22
Consensus pattern (417 bp):
AAGCAATAAAATGGTCAGCTTCCTGATGAGATACAGAGAAGCGGACCAAATCCGTCTTCCTGATG
AGATACAGAGAAGTAGATTAAAATAAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGTAT
ACCAAATCAATGAAACAAAACTCAATGTGAGCAAAACTTCGAACCCCAGCTTCCTGATGAGGTAC
TGAGAAGCAGGTCGAAGCAATAAAATGGTCAGCTTCCTGATGAGATACAGAAAACGGACCAAATT
CGTCTTCCTGATGAGATACAAAGAAGCGGATTAAAATAAGTGAGGCGGTCATCTTCCTGATGAGA
TACAGAGAAGTATACCAAATCAATGAAACAAAGCTCAATGTGAGCAAAACTTCGAACCCCAGCTT
CCCGATGAAGTACCGAGAAGCAGGTCA
Found at i:9418259 original size:209 final size:209
Alignment explanation
Indices: 9416955--9418233 Score: 1843
Period size: 209 Copynumber: 6.1 Consensus size: 209
9416945 ATTGCAGTTA
** ** * * *
9416955 TCGAAGCAATAAAGCGGTC-GTCTTCCTGATGAGATACAGA-AAGTAGACTAAACCCATCTTCCT
1 TCGAAGCAATAAAATGGTCAG-CTTCCTGATGAGATACAGAGAAGCGGACCAAATCCGTCTTCCT
* * * *
9417018 GATGAGATACAGAGAAGTGGGTTGAAAT-AGTGATGCGGTCATCTTCCTTATGAGATACAGAGAA
65 GATGAGATACAGAGAAGTGGATTAAAATAAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAA
* ** *
9417082 GTATACCAAATCAATGAAACAAAGTTCAATGTGAGTGAAACTTCGAATCCCAGCTTCCTGATGAG
130 GTATACCAAATCAATGAAACAAAGCTCAATGTGAGCAAAACTTCGAACCCCAGCTTCCTGATGAG
* *
9417147 ATACTAAGAAGTAGG
195 ATACTGAGAAGCAGG
* * * * *
9417162 TCGAAGCAATAAAATGGTC-GTCTTCCTGATAAGATACAGAAAAGTGGACCAATTTCGTCTTCCT
1 TCGAAGCAATAAAATGGTCAG-CTTCCTGATGAGATACAGAGAAGCGGACCAAATCCGTCTTCCT
* * * * *
9417226 AATAAGATAC-GAAGAAGTGAATTAAAACAAGTGAGGCGGTCATCTTCCTGATGAGATACAAAGA
65 GATGAGATACAG-AGAAGTGGATTAAAATAAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGA
9417290 AGTATACCAAATCAATGAAACAAAGCTCAATGTGAGCAAAACTTCGAACCCCAGCTTCCTGATGA
129 AGTATACCAAATCAATGAAACAAAGCTCAATGTGAGCAAAACTTCGAACCCCAGCTTCCTGATGA
*
9417355 -AGTACCGAGAAGCAGG
194 GA-TACTGAGAAGCAGG
* *
9417371 TCGAAGCAATAAAATGGTCAGCTTCTTGATGAGATACAGAGAAGCGGACCAAATCCGTCTTTCTG
1 TCGAAGCAATAAAATGGTCAGCTTCCTGATGAGATACAGAGAAGCGGACCAAATCCGTCTTCCTG
* ** *
9417436 ATGAGATACAAAGAAGTAAATTAAAATAATTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAG
66 ATGAGATACAGAGAAGTGGATTAAAATAAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAG
* * * *
9417501 TATACCAAATCAATGAAACAAAACTCAATGTAAGCAAAACTTCGAACCCCAGCTTCCTGATAAGG
131 TATACCAAATCAATGAAACAAAGCTCAATGTGAGCAAAACTTCGAACCCCAGCTTCCTGATGAGA
9417566 TACTGAGAAGCAGG
196 TACTGAGAAGCAGG
* * *
9417580 TCGAAGCAATAAAATGGTCAGATTCCTGATGAGATACAGAGAAACGGACCAAATCCGTCTTTCTG
1 TCGAAGCAATAAAATGGTCAGCTTCCTGATGAGATACAGAGAAGCGGACCAAATCCGTCTTCCTG
* *
9417645 ATGAGATACAAAGAAGCGGATTAAAATAAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAG
66 ATGAGATACAGAGAAGTGGATTAAAATAAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAG
* * * *
9417710 TATACCAAATCAATGAAACAAAGCTCAATGTGAGCAAAACTTTGCA-CCCAGCTTCCCGATGAGG
131 TATACCAAATCAATGAAACAAAGCTCAATGTGAGCAAAACTTCGAACCCCAGCTTCCTGATGAGA
*
9417774 TACCGAGAAGCAGG
196 TACTGAGAAGCAGG
* *
9417788 TCAAAGCAATAAAATGGTCAGCTTCCTGATGAGATACAGAGAAGCGGACCAAATACGTCTTCCTG
1 TCGAAGCAATAAAATGGTCAGCTTCCTGATGAGATACAGAGAAGCGGACCAAATCCGTCTTCCTG
*
9417853 ATGAGATACAGAGAAGTAGATTAAAATAAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAG
66 ATGAGATACAGAGAAGTGGATTAAAATAAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAG
* * * * *
9417918 TATACCAAATCAATGAAAAAAAACTCAATATGAGCAAAACTTCGAACCCCAACTTCCTGATGAGG
131 TATACCAAATCAATGAAACAAAGCTCAATGTGAGCAAAACTTCGAACCCCAGCTTCCTGATGAGA
9417983 TACTGAGAAGCAGG
196 TACTGAGAAGCAGG
* *
9417997 TCGAAGCAATAAAATGGTCAGCTTCCTGATGAGATACAGATAAGCGGACCAAATTCGTCTTCCTG
1 TCGAAGCAATAAAATGGTCAGCTTCCTGATGAGATACAGAGAAGCGGACCAAATCCGTCTTCCTG
* *
9418062 ATGAGATACAGAGAAGCGGATTAAAATAAGTGAGGCGGTCATCTTCTTGATGAGATACAGAGAAG
66 ATGAGATACAGAGAAGTGGATTAAAATAAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAG
* * * * * *
9418127 TATACCAAATAAATGAAACAAAGCTCAATGTGAGCAAAACCTCAAACACCATCTTCCTAATGAGA
131 TATACCAAATCAATGAAACAAAGCTCAATGTGAGCAAAACTTCGAACCCCAGCTTCCTGATGAGA
*
9418192 TACTGAGAAGCAGA
196 TACTGAGAAGCAGG
* * *
9418206 TTGAAGCAATAAAGTGGTCACCTTCCTG
1 TCGAAGCAATAAAATGGTCAGCTTCCTG
9418234 GCGAGACGCA
Statistics
Matches: 970, Mismatches: 94, Indels: 14
0.90 0.09 0.01
Matches are distributed among these distances:
207 38 0.04
208 230 0.24
209 701 0.72
210 1 0.00
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.22
Consensus pattern (209 bp):
TCGAAGCAATAAAATGGTCAGCTTCCTGATGAGATACAGAGAAGCGGACCAAATCCGTCTTCCTG
ATGAGATACAGAGAAGTGGATTAAAATAAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAG
TATACCAAATCAATGAAACAAAGCTCAATGTGAGCAAAACTTCGAACCCCAGCTTCCTGATGAGA
TACTGAGAAGCAGG
Found at i:9418259 original size:626 final size:626
Alignment explanation
Indices: 9416954--9418269 Score: 1913
Period size: 626 Copynumber: 2.1 Consensus size: 626
9416944 GATTGCAGTT
* ** * * *
9416954 ATCGAAGCAATAAAGCGGTCGTCTTCCTGATGAGATACAGA-AAGTAGACTAAACCCATCTTCCT
1 ATCGAAGCAATAAAGTGGTCACCTTCCTGATGAGATACAGAGAAGTAGACCAAATCCATCTTTCT
* * * * * *
9417018 GATGAGATACAGAGAAGTGGGTTGAAATAGTGATGCGGTCATCTTCCTTATGAGATACAGAGAAG
66 GATGAGATACAAAGAAGCGGATTAAAATAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAG
* ** *
9417083 TATACCAAATCAATGAAACAAAGTTCAATGTGAGTGAAACTTCGAATCCCAGCTTCCTGATGAGA
131 TATACCAAATCAATGAAACAAAGCTCAATGTGAGCAAAACTTCGAATCCCAGCTTCCCGATGAGA
* * * *
9417148 TACTAAGAAGTAGGTCGAAGCAATAAAATGGTCGTCTTCCTGATAAGATACAGAAAAGTGGACCA
196 TACCAAGAAGCAGGTCAAAGCAATAAAATGGTCGTCTTCCTGATAAGATACAGAAAAGCGGACCA
* *
9417213 ATTTCGTCTTCCTAATAAGATACGAAGAAGTGAATTAAAACAAGTGAGGCGGTCATCTTCCTGAT
261 AATACGTCTTCCTAATAAGATACGAAGAAGTGAATTAAAACAAGTGAGGCGGTCATCTTCCTGAT
* * *
9417278 GAGATACAAAGAAGTATACCAAATCAATGAAACAAAGCTCAATGTGAGCAAAACTTCGAACCCCA
326 GAGATACAAAGAAGTATACCAAATCAATGAAAAAAAACTCAATATGAGCAAAACTTCGAACCCCA
* *
9417343 GCTTCCTGATGAAGTACCGAGAAGCAGGTCGAAGCAATAAAATGGTCAGCTTCTTGATGAGATAC
391 ACTTCCTGATGAAGTACCGAGAAGCAGGTCGAAGCAATAAAATGGTCAGCTTCCTGATGAGATAC
* * *
9417408 AGAGAAGCGGACCAAATCCGTCTTTCTGATGAGATACAAAGAAGTAAATTAAAATAATTGAGGCG
456 AGAGAAGCGGACCAAATCCGTCTTCCTGATGAGATACAAAGAAGCAAATTAAAATAAGTGAGGCG
*
9417473 GTCATCTTCCTGATGAGATACAGAGAAGTATACCAAATCAATGAAACAAAACTCAATGTAAGCAA
521 GTCATCTTCCTGATGAGATACAGAGAAGTATACCAAATAAATGAAACAAAACTCAATGTAAGCAA
* * * * *
9417538 AACTTCGAACCCCAGCTTCCTGATAAGGTACTGAGAAGCAG
586 AACCTCAAACACCAGCTTCCTAATAAGATACTGAGAAGCAG
* * ** *** *
9417579 GTCGAAGCAATAAAATGGTCAGATTCCTGATGAGATACAGAGAAACGGACCAAATCCGTCTTTCT
1 ATCGAAGCAATAAAGTGGTCACCTTCCTGATGAGATACAGAGAAGTAGACCAAATCCATCTTTCT
9417644 GATGAGATACAAAGAAGCGGATTAAAATAAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAA
66 GATGAGATACAAAGAAGCGGATTAAAAT-AGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAA
* *
9417709 GTATACCAAATCAATGAAACAAAGCTCAATGTGAGCAAAACTTTGCA-CCCAGCTTCCCGATGAG
130 GTATACCAAATCAATGAAACAAAGCTCAATGTGAGCAAAACTTCGAATCCCAGCTTCCCGATGAG
* * * *
9417773 GTACCGAGAAGCAGGTCAAAGCAATAAAATGGTCAG-CTTCCTGATGAGATACAGAGAAGCGGAC
195 ATACCAAGAAGCAGGTCAAAGCAATAAAATGGTC-GTCTTCCTGATAAGATACAGAAAAGCGGAC
* * *
9417837 CAAATACGTCTTCCTGATGAGATAC-AGAGAAGT-AGATTAAAATAAGTGAGGCGGTCATCTTCC
259 CAAATACGTCTTCCTAATAAGATACGA-AGAAGTGA-ATTAAAACAAGTGAGGCGGTCATCTTCC
*
9417900 TGATGAGATACAGAGAAGTATACCAAATCAATGAAAAAAAACTCAATATGAGCAAAACTTCGAAC
322 TGATGAGATACAAAGAAGTATACCAAATCAATGAAAAAAAACTCAATATGAGCAAAACTTCGAAC
* *
9417965 CCCAACTTCCTGATGAGGTACTGAGAAGCAGGTCGAAGCAATAAAATGGTCAGCTTCCTGATGAG
387 CCCAACTTCCTGATGAAGTACCGAGAAGCAGGTCGAAGCAATAAAATGGTCAGCTTCCTGATGAG
* * * **
9418030 ATACAGATAAGCGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTAAAATAAGTGA
452 ATACAGAGAAGCGGACCAAATCCGTCTTCCTGATGAGATACAAAGAAGCAAATTAAAATAAGTGA
* * *
9418095 GGCGGTCATCTTCTTGATGAGATACAGAGAAGTATACCAAATAAATGAAACAAAGCTCAATGTGA
517 GGCGGTCATCTTCCTGATGAGATACAGAGAAGTATACCAAATAAATGAAACAAAACTCAATGTAA
* *
9418160 GCAAAACCTCAAACACCATCTTCCTAATGAGATACTGAGAAGCAG
582 GCAAAACCTCAAACACCAGCTTCCTAATAAGATACTGAGAAGCAG
* ** ** *
9418205 ATTGAAGCAATAAAGTGGTCACCTTCCTGGCGAGACGCAGAGAAGTAAACCAAATCCATCTTTCT
1 ATCGAAGCAATAAAGTGGTCACCTTCCTGATGAGATACAGAGAAGTAGACCAAATCCATCTTTCT
9418270 AGTAAAATAC
Statistics
Matches: 607, Mismatches: 79, Indels: 9
0.87 0.11 0.01
Matches are distributed among these distances:
625 37 0.06
626 493 0.81
627 77 0.13
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.22
Consensus pattern (626 bp):
ATCGAAGCAATAAAGTGGTCACCTTCCTGATGAGATACAGAGAAGTAGACCAAATCCATCTTTCT
GATGAGATACAAAGAAGCGGATTAAAATAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAG
TATACCAAATCAATGAAACAAAGCTCAATGTGAGCAAAACTTCGAATCCCAGCTTCCCGATGAGA
TACCAAGAAGCAGGTCAAAGCAATAAAATGGTCGTCTTCCTGATAAGATACAGAAAAGCGGACCA
AATACGTCTTCCTAATAAGATACGAAGAAGTGAATTAAAACAAGTGAGGCGGTCATCTTCCTGAT
GAGATACAAAGAAGTATACCAAATCAATGAAAAAAAACTCAATATGAGCAAAACTTCGAACCCCA
ACTTCCTGATGAAGTACCGAGAAGCAGGTCGAAGCAATAAAATGGTCAGCTTCCTGATGAGATAC
AGAGAAGCGGACCAAATCCGTCTTCCTGATGAGATACAAAGAAGCAAATTAAAATAAGTGAGGCG
GTCATCTTCCTGATGAGATACAGAGAAGTATACCAAATAAATGAAACAAAACTCAATGTAAGCAA
AACCTCAAACACCAGCTTCCTAATAAGATACTGAGAAGCAG
Found at i:9418689 original size:18 final size:17
Alignment explanation
Indices: 9418668--9418701 Score: 59
Period size: 17 Copynumber: 1.9 Consensus size: 17
9418658 TTGAGCCCAA
9418668 ATTTTAAATTTTAAATTT
1 ATTTTAAA-TTTAAATTT
9418686 ATTTTAAATTTAAATT
1 ATTTTAAATTTAAATT
9418702 AATTAAGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTAAATTTAAATTT
Found at i:9420595 original size:87 final size:86
Alignment explanation
Indices: 9420433--9420605 Score: 233
Period size: 87 Copynumber: 2.0 Consensus size: 86
9420423 TTGTATTTTA
*
9420433 ACCCCAAACTTCTCAAAAATCACATTTTTACCCTCGAACTTCCAAAAATCACATTTTTTCCCTCA
1 ACCCCAAACTTCTCAAAAATCACATTTTTACCCTCGAACTACCAAAAATCACATTTTTTCCCTCA
9420498 AACTTCCAAAAATTACCATTT
66 AACTTCCAAAAATTACCATTT
* * * * * *
9420519 ACCCCTAAACTTC-CAAAATTTACATTTTTACCCTTGAACTACTTAAAAATTATATTTTTGTCCC
1 ACCCC-AAACTTCTCAAAAATCACATTTTTACCCTCGAACTAC-CAAAAATCACATTTTT-TCCC
*
9420583 T-AAACTTTCAAAAATTACCATTT
63 TCAAACTTCCAAAAATTACCATTT
9420606 TACCTCGAGT
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
86 30 0.39
87 41 0.54
88 5 0.07
ACGTcount: A:0.36, C:0.27, G:0.02, T:0.35
Consensus pattern (86 bp):
ACCCCAAACTTCTCAAAAATCACATTTTTACCCTCGAACTACCAAAAATCACATTTTTTCCCTCA
AACTTCCAAAAATTACCATTT
Found at i:9420606 original size:30 final size:28
Alignment explanation
Indices: 9420427--9420606 Score: 148
Period size: 29 Copynumber: 6.2 Consensus size: 28
9420417 TCAAAATTGT
* * *
9420427 ATTTTAACCCCAAACTTCTCAAAAATCAC
1 ATTTTTACCCTAAACTTC-CAAAAATTAC
* *
9420456 ATTTTTACCCTCGAACTTCCAAAAATCAC
1 ATTTTTACCCT-AAACTTCCAAAAATTAC
*
9420485 ATTTTTTCCCTCAAACTTCCAAAAATTACC
1 ATTTTTACCCT-AAACTTCCAAAAATTA-C
*
9420515 A--TTTACCCCTAAACTTCCAAAATTTAC
1 ATTTTTA-CCCTAAACTTCCAAAAATTAC
* * * *
9420542 ATTTTTACCCTTGAACTACTTAAAAATTAT
1 ATTTTTACCC-TAAACTTC-CAAAAATTAC
* *
9420572 ATTTTTGTCCCTAAACTTTCAAAAATTACC
1 ATTTTT-ACCCTAAACTTCCAAAAATTA-C
9420602 ATTTT
1 ATTTT
9420607 ACCTCGAGTA
Statistics
Matches: 123, Mismatches: 19, Indels: 17
0.77 0.12 0.11
Matches are distributed among these distances:
27 2 0.02
28 21 0.17
29 66 0.54
30 31 0.25
31 3 0.02
ACGTcount: A:0.36, C:0.26, G:0.02, T:0.37
Consensus pattern (28 bp):
ATTTTTACCCTAAACTTCCAAAAATTAC
Found at i:9420635 original size:87 final size:85
Alignment explanation
Indices: 9420433--9420640 Score: 208
Period size: 87 Copynumber: 2.4 Consensus size: 85
9420423 TTGTATTTTA
* *
9420433 ACCCC-AAACTTCTCAAAAATCACATTTTTACCCTCGAACTTCCAAAAATCACATTTTTTCCCTC
1 ACCCCGAAAC-TC-CAAAAATAACATTTTTACCCTCGAACTACCAAAAATCACATTTTTTCCCTC
9420497 AAACTTCCAAAAATTACCATTT
64 AAACTTCCAAAAATTACCATTT
* * * * * * *
9420519 ACCCCTAAACTTCCAAAATTTACATTTTTACCCTTGAACTACTTAAAAATTATATTTTTGTCCCT
1 ACCCCGAAAC-TCCAAAAATAACATTTTTACCCTCGAACTAC-CAAAAATCACATTTTT-TCCCT
*
9420584 -AAACTTTCAAAAATTACCATTTT
63 CAAACTTCCAAAAATTACCA-TTT
* *
9420607 ACCTCGAGTA-TCCAAAAATAACCA-TTTTACCCTC
1 ACCCCGA-AACTCCAAAAATAA-CATTTTTACCCTC
9420641 AAATTTTCCA
Statistics
Matches: 102, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
86 30 0.29
87 56 0.55
88 15 0.15
89 1 0.01
ACGTcount: A:0.36, C:0.28, G:0.02, T:0.34
Consensus pattern (85 bp):
ACCCCGAAACTCCAAAAATAACATTTTTACCCTCGAACTACCAAAAATCACATTTTTTCCCTCAA
ACTTCCAAAAATTACCATTT
Found at i:9420682 original size:29 final size:28
Alignment explanation
Indices: 9420642--9420698 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
9420632 TTTACCCTCA
*
9420642 AATTTTCCAAAAGTTTAATTTTAATCCC
1 AATTTTCCAAAACTTTAATTTTAATCCC
* *
9420670 AATTTTCCAAAAACTTTGATTTTGATCCC
1 AATTTTCC-AAAACTTTAATTTTAATCCC
9420699 CAAATTCCTC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 8 0.32
29 17 0.68
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.42
Consensus pattern (28 bp):
AATTTTCCAAAACTTTAATTTTAATCCC
Found at i:9430296 original size:22 final size:22
Alignment explanation
Indices: 9430249--9430296 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
9430239 AATATTTAAT
**
9430249 ATTTTAATTGTGTTTGATAATT
1 ATTTTAATTGTGTTTGATAAAA
*
9430271 ATTTTAATTTTTGTTT-ATAAAA
1 ATTTTAA-TTGTGTTTGATAAAA
9430293 ATTT
1 ATTT
9430297 CAACAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.60
Consensus pattern (22 bp):
ATTTTAATTGTGTTTGATAAAA
Found at i:9430493 original size:17 final size:19
Alignment explanation
Indices: 9430471--9430507 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
9430461 ATATTATATT
9430471 AATAAA-ATT-AAAAAATA
1 AATAAATATTCAAAAAATA
*
9430488 AATAAATTTTCAAAAAATA
1 AATAAATATTCAAAAAATA
9430507 A
1 A
9430508 TATTTATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 6 0.35
18 2 0.12
19 9 0.53
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (19 bp):
AATAAATATTCAAAAAATA
Found at i:9439330 original size:16 final size:17
Alignment explanation
Indices: 9439309--9439341 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
9439299 TCACTGTAGT
9439309 TTTTG-ATAATATTTAA
1 TTTTGAATAATATTTAA
9439325 TTTTGACATAATATTTA
1 TTTTGA-ATAATATTTA
9439342 GAATTATCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
18 10 0.67
ACGTcount: A:0.36, C:0.03, G:0.06, T:0.55
Consensus pattern (17 bp):
TTTTGAATAATATTTAA
Found at i:9442937 original size:22 final size:22
Alignment explanation
Indices: 9442919--9442961 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
9442909 TATAATTAAT
* *
9442919 AAATATTTTATAAAAAATTACA
1 AAATAATTAATAAAAAATTACA
9442941 AAATAATTAAT-AAAAATTACA
1 AAATAATTAATAAAAAATTACA
9442962 TCTTAAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (22 bp):
AAATAATTAATAAAAAATTACA
Found at i:9444198 original size:23 final size:23
Alignment explanation
Indices: 9444150--9444198 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
9444140 CCAAATATAG
*
9444150 TTTTTATTAATTATTTTTAATTT
1 TTTTTATTAATTATTTTTAATAT
9444173 TTTTTA-TAATT-TTTTTGGAATAT
1 TTTTTATTAATTATTTTT--AATAT
9444196 TTT
1 TTT
9444199 GTCGAAGTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 5 0.22
22 5 0.22
23 13 0.57
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.71
Consensus pattern (23 bp):
TTTTTATTAATTATTTTTAATAT
Found at i:9452793 original size:17 final size:17
Alignment explanation
Indices: 9452771--9452808 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
9452761 AAACTTGATC
*
9452771 ATTTATGTA-TTTATAA
1 ATTTATATATTTTATAA
9452787 TATTTATATATTTTATAA
1 -ATTTATATATTTTATAA
9452805 ATTT
1 ATTT
9452809 GATTATTGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
ATTTATATATTTTATAA
Found at i:9455075 original size:22 final size:23
Alignment explanation
Indices: 9455049--9455091 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
9455039 TCAATAAAAA
9455049 ATTTAATACTT-AATTTTTCAGC
1 ATTTAATACTTGAATTTTTCAGC
**
9455071 ATTTAATTGTTGAATTTTTCA
1 ATTTAATACTTGAATTTTTCA
9455092 AACATATCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.30, C:0.09, G:0.07, T:0.53
Consensus pattern (23 bp):
ATTTAATACTTGAATTTTTCAGC
Found at i:9462475 original size:29 final size:29
Alignment explanation
Indices: 9462424--9462480 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
9462414 TTTTTATAAT
* *
9462424 TTTTAAATAATTAAATTAAAATTCTATTA
1 TTTTAAAAAATTAAAATAAAATTCTATTA
* *
9462453 TTTTAAAAAATTAAAATATAATTTTATT
1 TTTTAAAAAATTAAAATAAAATTCTATT
9462481 TCTACTAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (29 bp):
TTTTAAAAAATTAAAATAAAATTCTATTA
Found at i:9464724 original size:44 final size:44
Alignment explanation
Indices: 9464672--9464758 Score: 174
Period size: 44 Copynumber: 2.0 Consensus size: 44
9464662 ATTAACTAAT
9464672 AGTTAGGTGACTATTAGTATAGTTTACCCTTTTGAAATTTATTG
1 AGTTAGGTGACTATTAGTATAGTTTACCCTTTTGAAATTTATTG
9464716 AGTTAGGTGACTATTAGTATAGTTTACCCTTTTGAAATTTATT
1 AGTTAGGTGACTATTAGTATAGTTTACCCTTTTGAAATTTATT
9464759 CCTTATTATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.28, C:0.09, G:0.17, T:0.46
Consensus pattern (44 bp):
AGTTAGGTGACTATTAGTATAGTTTACCCTTTTGAAATTTATTG
Found at i:9467965 original size:23 final size:23
Alignment explanation
Indices: 9467935--9467982 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
9467925 CTTAATATTT
9467935 TCCAAAAATTTCAATCTTTCACC
1 TCCAAAAATTTCAATCTTTCACC
9467958 TCCAAAAATTTCAATCTTTCACC
1 TCCAAAAATTTCAATCTTTCACC
9467981 TC
1 TC
9467983 AACATGGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.33, C:0.31, G:0.00, T:0.35
Consensus pattern (23 bp):
TCCAAAAATTTCAATCTTTCACC
Found at i:9469263 original size:23 final size:23
Alignment explanation
Indices: 9469216--9469264 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
9469206 CTTGCTTGCC
* *
9469216 AAATGTTCATATTTATATTACTA
1 AAATATTCATATTTATACTACTA
9469239 AAATATTCATATTTCATACTA-TA
1 AAATATTCATATTT-ATACTACTA
9469262 AAA
1 AAA
9469265 CATTTATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 18 0.78
24 5 0.22
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (23 bp):
AAATATTCATATTTATACTACTA
Found at i:9469395 original size:29 final size:32
Alignment explanation
Indices: 9469356--9469416 Score: 92
Period size: 29 Copynumber: 2.0 Consensus size: 32
9469346 ATATTATATT
9469356 TTAAAATAAT-ATTAAA-ATATAT-TTTAATA
1 TTAAAATAATAATTAAATATATATATTTAATA
*
9469385 TTAAAATAATAATTAAATATGTATATTTAATA
1 TTAAAATAATAATTAAATATATATATTTAATA
9469417 ATATAAAAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 10 0.36
30 6 0.21
31 5 0.18
32 7 0.25
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (32 bp):
TTAAAATAATAATTAAATATATATATTTAATA
Found at i:9486867 original size:30 final size:30
Alignment explanation
Indices: 9486833--9486910 Score: 106
Period size: 29 Copynumber: 2.6 Consensus size: 30
9486823 AAATATTAGA
* *
9486833 AATCTAGAATTCGATTTTGTTTTGGTAAAT
1 AATCTAGAATTCGATTTTGTTTAGGTAAAC
*
9486863 AATCTAGAACTCGGA-TTT-TTTAGGTAAAC
1 AATCTAGAATTC-GATTTTGTTTAGGTAAAC
9486892 AATCTAGAATTCGATTTTG
1 AATCTAGAATTCGATTTTG
9486911 GGACTAGGGG
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
28 2 0.05
29 23 0.56
30 14 0.34
31 2 0.05
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (30 bp):
AATCTAGAATTCGATTTTGTTTAGGTAAAC
Found at i:9492463 original size:3 final size:3
Alignment explanation
Indices: 9492455--9492492 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
9492445 ACAGTACACG
*
9492455 AGA AGA AGA AGA GGA AGGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA A-GA AGA AGA AGA AGA AGA AGA A
9492493 CACAAACAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:9502303 original size:25 final size:23
Alignment explanation
Indices: 9502262--9502307 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
9502252 TCAATTAGGG
9502262 AATTATTGTTTAGATTTAATTCT
1 AATTATTGTTTAGATTTAATTCT
*
9502285 AATTATCTTTTTAGAATTTAATT
1 AATTAT-TGTTTAG-ATTTAATT
9502308 TGGATCCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.57
Consensus pattern (23 bp):
AATTATTGTTTAGATTTAATTCT
Found at i:9503757 original size:6 final size:6
Alignment explanation
Indices: 9503746--9503787 Score: 75
Period size: 6 Copynumber: 7.0 Consensus size: 6
9503736 CCGAGGTTTT
*
9503746 GGAATA GGAATA GGAATA GGAATA GGAATA GGGATA GGAATA
1 GGAATA GGAATA GGAATA GGAATA GGAATA GGAATA GGAATA
9503788 AAAGGAGCCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.48, C:0.00, G:0.36, T:0.17
Consensus pattern (6 bp):
GGAATA
Found at i:9516956 original size:30 final size:28
Alignment explanation
Indices: 9516926--9517003 Score: 86
Period size: 30 Copynumber: 2.6 Consensus size: 28
9516916 GAAGTCAAAT
9516926 TTAAAAATTTTATATTAAAAT-GTTATAAA
1 TTAAAAATTTTAT-TTAAAATAGTTA-AAA
*
9516955 TTAAATTATTATTATTTAAAATAGTTAAAA
1 TTAAA-AATT-TTATTTAAAATAGTTAAAA
9516985 TTATAAAATTTTCATTTAA
1 TTA-AAAATTTT-ATTTAA
9517004 TCAAAGATTA
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
29 7 0.17
30 25 0.60
31 10 0.24
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (28 bp):
TTAAAAATTTTATTTAAAATAGTTAAAA
Found at i:9521612 original size:20 final size:20
Alignment explanation
Indices: 9521574--9521631 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 20
9521564 GCATAAACAT
*
9521574 TATTTTAAAATT-GTAAAAA
1 TATTTTAAAATTATTAAAAA
9521593 TATTTTAAAATTATTAAAAA
1 TATTTTAAAATTATTAAAAA
* * *
9521613 AAATTTAGAATTTATTAAA
1 TATTTTA-AAATTATTAAA
9521632 CTTATAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.36
20 11 0.33
21 10 0.30
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (20 bp):
TATTTTAAAATTATTAAAAA
Found at i:9521618 original size:21 final size:21
Alignment explanation
Indices: 9521575--9521631 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
9521565 CATAAACATT
* *
9521575 ATTTTAAAATT-GT-AAAAAT
1 ATTTTAAAATTATTAAAAAAA
9521594 ATTTTAAAATTATTAAAAAAA
1 ATTTTAAAATTATTAAAAAAA
*
9521615 A-TTTAGAATTTATTAAA
1 ATTTTA-AAATTATTAAA
9521632 CTTATAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 11 0.34
20 5 0.16
21 16 0.50
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (21 bp):
ATTTTAAAATTATTAAAAAAA
Found at i:9552956 original size:29 final size:30
Alignment explanation
Indices: 9552900--9552959 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
9552890 TCCGAGAAAT
*
9552900 AAAAGTATAGAGACTAAATTCTAAATTTTAA
1 AAAAGTATAGAGACT-AATACTAAATTTTAA
* *
9552931 AAAAGTATAGAGACT-ATAGTACATTTTAA
1 AAAAGTATAGAGACTAATACTAAATTTTAA
9552960 CCTATTACTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 11 0.42
31 15 0.58
ACGTcount: A:0.50, C:0.07, G:0.12, T:0.32
Consensus pattern (30 bp):
AAAAGTATAGAGACTAATACTAAATTTTAA
Found at i:9560740 original size:23 final size:21
Alignment explanation
Indices: 9560714--9560760 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 21
9560704 TATAAAATTT
9560714 TAATAAATAAAAATATATAAAAA
1 TAATAAATAAAAA-AT-TAAAAA
* *
9560737 TAATAAGTAATAAATTAAAAA
1 TAATAAATAAAAAATTAAAAA
9560758 TAA
1 TAA
9560761 GTTTAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 9 0.41
22 2 0.09
23 11 0.50
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (21 bp):
TAATAAATAAAAAATTAAAAA
Found at i:9572074 original size:10 final size:10
Alignment explanation
Indices: 9572059--9572098 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
9572049 ATATTTAAAT
9572059 AAATTATTAA
1 AAATTATTAA
9572069 AAATTATTAA
1 AAATTATTAA
9572079 AAA-TATATAA
1 AAATTAT-TAA
*
9572089 AAATAATTAA
1 AAATTATTAA
9572099 TTTGTAAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
9 3 0.11
10 22 0.81
11 2 0.07
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
AAATTATTAA
Found at i:9575245 original size:27 final size:28
Alignment explanation
Indices: 9575201--9575254 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
9575191 TTATTCAAAG
*
9575201 TATTTAATTTATTTTTAA-TATAAATAT
1 TATTTAATGTATTTTTAACTATAAATAT
*
9575228 TATTTAA-GTATTTCTTAACTATTAATA
1 TATTTAATGTATTT-TTAACTATAAATA
9575255 GTTAAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 5 0.22
27 11 0.48
28 7 0.30
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.56
Consensus pattern (28 bp):
TATTTAATGTATTTTTAACTATAAATAT
Found at i:9579643 original size:36 final size:36
Alignment explanation
Indices: 9579602--9579673 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
9579592 TTTGTGAGTC
*
9579602 TATCATTGAAGGGAGTTAATTTTTTTGTTTATATGA
1 TATCATTGAAGGGAGTTAATTTTTCTGTTTATATGA
9579638 TATCATTGAAGGGAGTTAATTTTTCTGTTTATATGA
1 TATCATTGAAGGGAGTTAATTTTTCTGTTTATATGA
9579674 CACAATTCCT
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:0.28, C:0.04, G:0.19, T:0.49
Consensus pattern (36 bp):
TATCATTGAAGGGAGTTAATTTTTCTGTTTATATGA
Found at i:9581007 original size:20 final size:21
Alignment explanation
Indices: 9580976--9581014 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
9580966 AACTAAAAAG
9580976 TAAAATATAAATATATAGTTA
1 TAAAATATAAATATATAGTTA
*
9580997 TAAAA-ATAAATATGTAGT
1 TAAAATATAAATATATAGT
9581015 AACTACCAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (21 bp):
TAAAATATAAATATATAGTTA
Found at i:9589485 original size:2 final size:2
Alignment explanation
Indices: 9589469--9589517 Score: 71
Period size: 2 Copynumber: 24.0 Consensus size: 2
9589459 ATTCCACCTG
* *
9589469 AT AT AT CT AT CAT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9589512 AT AT AT
1 AT AT AT
9589518 TCTCTGCTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
2 40 0.95
3 2 0.05
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:9591534 original size:19 final size:19
Alignment explanation
Indices: 9591498--9591558 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 19
9591488 AAATTATTTT
9591498 TTATTATTTTAAATATAAA
1 TTATTATTTTAAATATAAA
*
9591517 TTATT-TTTTACATCATAAA
1 TTATTATTTTAAAT-ATAAA
** **
9591536 AAATTAAAATTAAATATAAA
1 TTATT-ATTTTAAATATAAA
9591556 TTA
1 TTA
9591559 AATAAAAATA
Statistics
Matches: 31, Mismatches: 8, Indels: 5
0.70 0.18 0.11
Matches are distributed among these distances:
18 7 0.23
19 13 0.42
20 6 0.19
21 5 0.16
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (19 bp):
TTATTATTTTAAATATAAA
Found at i:9591535 original size:25 final size:26
Alignment explanation
Indices: 9591487--9591535 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
9591477 ATATAACGTT
* **
9591487 TAAATTATTTTTTATTATTTTAAATA
1 TAAATTATTTTTTATCATCATAAATA
9591513 TAAATTATTTTTTA-CATCATAAA
1 TAAATTATTTTTTATCATCATAAA
9591536 AAATTAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 6 0.30
26 14 0.70
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (26 bp):
TAAATTATTTTTTATCATCATAAATA
Found at i:9593407 original size:29 final size:29
Alignment explanation
Indices: 9593277--9593535 Score: 207
Period size: 30 Copynumber: 8.7 Consensus size: 29
9593267 CGGAGGATGC
* * * *
9593277 GGGTCAAAACGTAATTTTAGAAAAGTTCGA
1 GGGTTAAAATGTAATTTTAGAGAAGTT-TA
* * * * *
9593307 GGGTCAAAATGAAATTTTGGAAAATTTTA
1 GGGTTAAAATGTAATTTTAGAGAAGTTTA
* * * *
9593336 GGGGTCAAAATGCAATTTTAGAGAAATTTTG
1 -GGGTTAAAATGTAATTTTAGAG-AAGTTTA
* *
9593367 GGGTTAAGATGTAATTTTGGAGAA-TTTA
1 GGGTTAAAATGTAATTTTAGAGAAGTTTA
*
9593395 GGTGTAAAAATGTAATTTTAGAGAAGTTTA
1 GG-GTTAAAATGTAATTTTAGAGAAGTTTA
* * *
9593425 GGGTTAGAATGTAATTTTAGAAAATTTTAA
1 GGGTTAAAATGTAATTTTAGAGAAGTTT-A
* *
9593455 GGGTTAAAATGCAATTTT-GTAGAAGGTTGA
1 GGGTTAAAATGTAATTTTAG-AGAA-GTTTA
* *
9593485 GGGTCAAAATGTAATTTTAGAGAAGTTCGA
1 GGGTTAAAATGTAATTTTAGAGAAGTT-TA
* *
9593515 GGTTTAAAATGCAATTTTAGA
1 GGGTTAAAATGTAATTTTAGA
9593536 AAATTATCGA
Statistics
Matches: 189, Mismatches: 31, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
28 5 0.03
29 48 0.25
30 127 0.67
31 9 0.05
ACGTcount: A:0.37, C:0.04, G:0.24, T:0.34
Consensus pattern (29 bp):
GGGTTAAAATGTAATTTTAGAGAAGTTTA
Found at i:9596783 original size:18 final size:19
Alignment explanation
Indices: 9596748--9596788 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
9596738 ATTAAATAGT
*
9596748 TCGAGTTATTTGAGTCAA-
1 TCGAGTTATTAGAGTCAAC
9596766 TCGAGTTATTCAGA-TCAAC
1 TCGAGTTATT-AGAGTCAAC
9596785 TCGA
1 TCGA
9596789 ATAAAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (19 bp):
TCGAGTTATTAGAGTCAAC
Found at i:9597905 original size:19 final size:19
Alignment explanation
Indices: 9597881--9597918 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
9597871 AGAAAAGGAA
* *
9597881 AAATTATTTATATTTTAAT
1 AAATTATTGATAATTTAAT
9597900 AAATTATTGATAATTTAAT
1 AAATTATTGATAATTTAAT
9597919 TTGTTTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (19 bp):
AAATTATTGATAATTTAAT
Found at i:9602695 original size:19 final size:20
Alignment explanation
Indices: 9602657--9602695 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
9602647 ATTTTCTATT
9602657 GAGTTATTTCTTTAAATTAA
1 GAGTTATTTCTTTAAATTAA
*
9602677 GAGTTATTT-TTTAATTTAA
1 GAGTTATTTCTTTAAATTAA
9602696 TGTATTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.33, C:0.03, G:0.10, T:0.54
Consensus pattern (20 bp):
GAGTTATTTCTTTAAATTAA
Found at i:9609323 original size:6 final size:6
Alignment explanation
Indices: 9609312--9609352 Score: 82
Period size: 6 Copynumber: 6.8 Consensus size: 6
9609302 CCTGATATAC
9609312 AGTTTA AGTTTA AGTTTA AGTTTA AGTTTA AGTTTA AGTTT
1 AGTTTA AGTTTA AGTTTA AGTTTA AGTTTA AGTTTA AGTTT
9609353 GAAATCAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (6 bp):
AGTTTA
Found at i:9611291 original size:14 final size:15
Alignment explanation
Indices: 9611272--9611301 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
9611262 TGAGGGAAAG
9611272 AAAAGAAAAAG-GAA
1 AAAAGAAAAAGAGAA
9611286 AAAAGAAAAAGAGAA
1 AAAAGAAAAAGAGAA
9611301 A
1 A
9611302 GAAAAGATGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (15 bp):
AAAAGAAAAAGAGAA
Found at i:9615705 original size:56 final size:56
Alignment explanation
Indices: 9615645--9615752 Score: 189
Period size: 56 Copynumber: 1.9 Consensus size: 56
9615635 TAATATGTAC
9615645 AATTTATTATCTCCAGTAATTGTATATTTATACTATTTATTAAATCTTTTATGCAT
1 AATTTATTATCTCCAGTAATTGTATATTTATACTATTTATTAAATCTTTTATGCAT
* * *
9615701 AATTTATTATCTTCAGTAATTGTATATTTATACTATTTATTAAGTTTTTTAT
1 AATTTATTATCTCCAGTAATTGTATATTTATACTATTTATTAAATCTTTTAT
9615753 TTAGTTTATA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
56 49 1.00
ACGTcount: A:0.31, C:0.08, G:0.06, T:0.55
Consensus pattern (56 bp):
AATTTATTATCTCCAGTAATTGTATATTTATACTATTTATTAAATCTTTTATGCAT
Found at i:9617526 original size:18 final size:18
Alignment explanation
Indices: 9617503--9617541 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
9617493 GTTTGAATAT
9617503 TATAATCAAAATGTAATG
1 TATAATCAAAATGTAATG
9617521 TATAATCAAAATGTAATG
1 TATAATCAAAATGTAATG
9617539 TAT
1 TAT
9617542 CGCAGTTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.49, C:0.05, G:0.10, T:0.36
Consensus pattern (18 bp):
TATAATCAAAATGTAATG
Found at i:9620246 original size:5 final size:5
Alignment explanation
Indices: 9620236--9620265 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
9620226 AGATCATTTT
9620236 ATACA ATACA ATACA ATACA ATACA ATACA
1 ATACA ATACA ATACA ATACA ATACA ATACA
9620266 TATAGTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.60, C:0.20, G:0.00, T:0.20
Consensus pattern (5 bp):
ATACA
Found at i:9624352 original size:105 final size:105
Alignment explanation
Indices: 9624138--9624376 Score: 271
Period size: 105 Copynumber: 2.3 Consensus size: 105
9624128 GAATTGGGTA
*
9624138 CCTCCATTGAAGGAGTCGACACCAAAAAAT--AAAAAAAATTCCTATATTGATGTCACTACTTAT
1 CCTCCATTGAAGGAGACGACACCAAAAAATAAAAAAAAAATTCCTATATTGATGTCACTACTTAT
9624201 AAACCTATAACCAAAAAGATTTTGTTACTGACATTTGGTG
66 AAACCTATAACCAAAAAGATTTTGTTACTGACATTTGGTG
* * * *
9624241 CCTCCATTGAAGGAGGCGACACCAAAAAATAAAAATAAAAATTTCTA-ATTGGTGCTGC-C-ATT
1 CCTCCATTGAAGGAGACGACACCAAAAAATAAAAA-AAAAATTCCTATATTGATG-T-CACTACT
* *
9624303 TATAAACCTGTAACCAAAAA-ATCATTT-TTATTGTA-ATTTGGTG
63 TATAAACCTATAACCAAAAAGAT--TTTGTTACTG-ACATTTGGTG
* * *
9624346 TCTCCATTGAAAGAGAC-ACACTAAAAAATAA
1 CCTCCATTGAAGGAGACGACACCAAAAAATAA
9624377 TAATTTTTTT
Statistics
Matches: 118, Mismatches: 10, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
103 29 0.25
104 15 0.13
105 57 0.48
106 16 0.14
107 1 0.01
ACGTcount: A:0.41, C:0.18, G:0.13, T:0.28
Consensus pattern (105 bp):
CCTCCATTGAAGGAGACGACACCAAAAAATAAAAAAAAAATTCCTATATTGATGTCACTACTTAT
AAACCTATAACCAAAAAGATTTTGTTACTGACATTTGGTG
Found at i:9631797 original size:23 final size:23
Alignment explanation
Indices: 9631768--9631888 Score: 95
Period size: 23 Copynumber: 5.2 Consensus size: 23
9631758 GGGCAACAAT
*
9631768 GAGCACACATAGTGCTAAATAGA
1 GAGCACACAAAGTGCTAAATAGA
*
9631791 GAGCACACAAAGTGCT-AATCAAA
1 GAGCACACAAAGTGCTAAAT-AGA
9631814 GAGCACACAAAGTGCT-AATAACGGA
1 GAGCACACAAAGTGCTAAAT-A--GA
* * * **
9631839 GGGCACGA-GACGTGCTAAACGGA
1 GAGCAC-ACAAAGTGCTAAATAGA
* *
9631862 AAGCACACATAGTGCTAAATAGA
1 GAGCACACAAAGTGCTAAATAGA
9631885 GAGC
1 GAGC
9631889 GCGCTAAAGT
Statistics
Matches: 75, Mismatches: 17, Indels: 12
0.72 0.16 0.12
Matches are distributed among these distances:
22 4 0.05
23 56 0.75
25 12 0.16
26 3 0.04
ACGTcount: A:0.42, C:0.20, G:0.25, T:0.13
Consensus pattern (23 bp):
GAGCACACAAAGTGCTAAATAGA
Found at i:9631844 original size:25 final size:23
Alignment explanation
Indices: 9631768--9631832 Score: 96
Period size: 23 Copynumber: 2.8 Consensus size: 23
9631758 GGGCAACAAT
* *
9631768 GAGCACACATAGTGCTAAAT-AGA
1 GAGCACACAAAGTGCT-AATCAAA
9631791 GAGCACACAAAGTGCTAATCAAA
1 GAGCACACAAAGTGCTAATCAAA
9631814 GAGCACACAAAGTGCTAAT
1 GAGCACACAAAGTGCTAAT
9631833 AACGGAGGGC
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
22 3 0.08
23 36 0.92
ACGTcount: A:0.45, C:0.20, G:0.20, T:0.15
Consensus pattern (23 bp):
GAGCACACAAAGTGCTAATCAAA
Found at i:9633388 original size:19 final size:20
Alignment explanation
Indices: 9633349--9633388 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
9633339 GAAGAAAATA
* *
9633349 TGATATTTTCATCTTTTAAT
1 TGATATTTTCATCTCTCAAT
9633369 TGAT-TTTTCATCTCTCAAT
1 TGATATTTTCATCTCTCAAT
9633388 T
1 T
9633389 TTCTAGATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.23, C:0.15, G:0.05, T:0.57
Consensus pattern (20 bp):
TGATATTTTCATCTCTCAAT
Found at i:9634130 original size:33 final size:31
Alignment explanation
Indices: 9634090--9634171 Score: 103
Period size: 33 Copynumber: 2.6 Consensus size: 31
9634080 TTTCTGGTCC
9634090 AATTTGGTACTCAAACTTGACACTTTTTTTTCT
1 AATTTGGTACTCAAACTTGACAC-TTTTTTT-T
*
9634123 AATTTGGTAC-CTAAACTTGTCACTTTTTTTT
1 AATTTGGTACTC-AAACTTGACACTTTTTTTT
* *
9634154 AAGTTGGTACTTAAACTT
1 AATTTGGTACTCAAACTT
9634172 TTTGGGATCC
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
31 16 0.36
32 8 0.18
33 20 0.45
ACGTcount: A:0.26, C:0.16, G:0.11, T:0.48
Consensus pattern (31 bp):
AATTTGGTACTCAAACTTGACACTTTTTTTT
Found at i:9634161 original size:31 final size:33
Alignment explanation
Indices: 9634093--9634171 Score: 101
Period size: 31 Copynumber: 2.5 Consensus size: 33
9634083 CTGGTCCAAT
*
9634093 TTGGTA-CTCAAACTTGACACTTTTTTTTCTAAT
1 TTGGTACCT-AAACTTGACACTTTTTTTTCTAAG
*
9634126 TTGGTACCTAAACTTGTCAC-TTTTTTT-TAAG
1 TTGGTACCTAAACTTGACACTTTTTTTTCTAAG
*
9634157 TTGGTACTTAAACTT
1 TTGGTACCTAAACTT
9634172 TTTGGGATCC
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
31 17 0.40
32 7 0.17
33 16 0.38
34 2 0.05
ACGTcount: A:0.24, C:0.16, G:0.11, T:0.48
Consensus pattern (33 bp):
TTGGTACCTAAACTTGACACTTTTTTTTCTAAG
Found at i:9634199 original size:92 final size:92
Alignment explanation
Indices: 9634030--9634226 Score: 215
Period size: 90 Copynumber: 2.1 Consensus size: 92
9634020 TTAATATAAC
* * * *
9634030 ATTTAGTACCTAAACTTGACATTTATTTTCTAATTTGGTGCCTAAACTTTTTTCTGGTCCAATTT
1 ATTTGGTACCTAAACTTGACATTTATTTTCTAAGTTGGTACCTAAACTTTTTTCGGGTCCAATTT
* * *
9634095 GGTACTCAAACTTGACACTTTTTTTTCTA
66 GATACTCAAACTTG--ACTCTTTCTTCTA
* *
9634124 ATTTGGTACCTAAACTTGTCACTTT-TTTT-TAAGTTGGTACTTAAAC-TTTTT-GGGATCCAAT
1 ATTTGGTACCTAAACTTGACA-TTTATTTTCTAAGTTGGTACCTAAACTTTTTTCGGG-TCCAAT
*
9634185 TTGATAC-CTGAACTTGACTCTTTCTTCTA
64 TTGATACTC-AAACTTGACTCTTTCTTCTA
*
9634214 ATTTGGCACCTAA
1 ATTTGGTACCTAA
9634227 TATTTTTTTT
Statistics
Matches: 89, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
90 23 0.26
91 3 0.03
92 23 0.26
93 14 0.16
94 23 0.26
95 3 0.03
ACGTcount: A:0.24, C:0.18, G:0.12, T:0.45
Consensus pattern (92 bp):
ATTTGGTACCTAAACTTGACATTTATTTTCTAAGTTGGTACCTAAACTTTTTTCGGGTCCAATTT
GATACTCAAACTTGACTCTTTCTTCTA
Found at i:9637016 original size:23 final size:23
Alignment explanation
Indices: 9636942--9637132 Score: 148
Period size: 23 Copynumber: 8.5 Consensus size: 23
9636932 AAAACGGAAC
* * *
9636942 AAACAGAGAGTAC-CGAAGTACT
1 AAACAGAGAGCACACAAAGTGCT
*
9636964 AAACAGAGAGCACA-TAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
*
9636986 GGGCAACAGAGAGCACACAAAGTGCT
1 ---AAACAGAGAGCACACAAAGTGCT
*
9637012 AAACAGAGAGTACACAAA--G-T
1 AAACAGAGAGCACACAAAGTGCT
*
9637032 --AC--TGAGCACACAAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
9637051 AATCAGAGAGCACACGAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* * *
9637074 AATCGGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
*
9637097 AATAACAGAGAGCACACACAGTGCT
1 -A-AACAGAGAGCACACAAAGTGCT
*
9637122 AATCAGAGAGC
1 AAACAGAGAGC
9637133 GCGCTAGTGT
Statistics
Matches: 137, Mismatches: 18, Indels: 27
0.75 0.10 0.15
Matches are distributed among these distances:
16 10 0.07
18 3 0.02
19 1 0.01
20 1 0.01
21 2 0.01
22 18 0.13
23 60 0.44
24 2 0.01
25 33 0.24
26 7 0.05
ACGTcount: A:0.42, C:0.21, G:0.24, T:0.12
Consensus pattern (23 bp):
AAACAGAGAGCACACAAAGTGCT
Found at i:9637050 original size:39 final size:39
Alignment explanation
Indices: 9636996--9637070 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
9636986 GGGCAACAGA
*
9636996 GAGCACACAAAGTGCTAAACAGAGAGTACACAAAGTACT
1 GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTACT
* *
9637035 GAGCACACAAAGTGCTAATCAGAGAGCACACGAAGT
1 GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGT
9637071 GCTAATCGGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (39 bp):
GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTACT
Found at i:9637109 original size:48 final size:46
Alignment explanation
Indices: 9637035--9637132 Score: 144
Period size: 48 Copynumber: 2.1 Consensus size: 46
9637025 ACAAAGTACT
*
9637035 GAGCACACAAAGTGCTAATCAGAGAGCACACGA-AGTGCTAATCGGA
1 GAGCACACAAAGTGCTAATCAGAGAGCACAC-ACAGTGCTAATCAGA
*
9637081 GAGCACACACAGTGCTAATAACAGAGAGCACACACAGTGCTAATCAGA
1 GAGCACACAAAGTGCTAAT--CAGAGAGCACACACAGTGCTAATCAGA
9637129 GAGC
1 GAGC
9637133 GCGCTAGTGT
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
46 18 0.38
47 1 0.02
48 28 0.60
ACGTcount: A:0.40, C:0.23, G:0.24, T:0.12
Consensus pattern (46 bp):
GAGCACACAAAGTGCTAATCAGAGAGCACACACAGTGCTAATCAGA
Found at i:9641478 original size:3 final size:3
Alignment explanation
Indices: 9641470--9641502 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
9641460 TTATTCCATC
9641470 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
9641503 ATATAACCAA
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:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:9644632 original size:11 final size:11
Alignment explanation
Indices: 9644594--9644632 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
9644584 TATTCATATC
9644594 AATTAAATTAA-
1 AATT-AATTAAT
9644605 AATTTAATTAAT
1 AA-TTAATTAAT
9644617 AATTAATTAAT
1 AATTAATTAAT
9644628 AATTA
1 AATTA
9644633 TTTATTTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 22 0.85
12 4 0.15
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
AATTAATTAAT
Found at i:9644956 original size:36 final size:34
Alignment explanation
Indices: 9644882--9644960 Score: 86
Period size: 34 Copynumber: 2.2 Consensus size: 34
9644872 TCTGTAAATG
* * *
9644882 AAAATCATATATATAAAATATAAATGTGTTTTTA
1 AAAATAATATATATAAAATATAAATGTATATTTA
*
9644916 AAAATAATATATATTAAATAATGAAATGTATAATTTA
1 AAAATAATATATATAAAAT-AT-AAATGTAT-ATTTA
*
9644953 AAATTAAT
1 AAAATAAT
9644961 TAATAATGAC
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
34 17 0.46
35 2 0.05
36 7 0.19
37 11 0.30
ACGTcount: A:0.54, C:0.01, G:0.05, T:0.39
Consensus pattern (34 bp):
AAAATAATATATATAAAATATAAATGTATATTTA
Found at i:9654942 original size:3 final size:3
Alignment explanation
Indices: 9654934--9654958 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
9654924 TAACAGTTGT
9654934 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
9654959 AAGCTTGAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:9662364 original size:3 final size:3
Alignment explanation
Indices: 9662356--9662386 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
9662346 TCCAAGAAAA
9662356 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
9662387 TAGTTTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:9663839 original size:2 final size:2
Alignment explanation
Indices: 9663832--9663859 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
9663822 CGTCCGTCAC
9663832 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
9663860 GTCAACTCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9664541 original size:62 final size:62
Alignment explanation
Indices: 9664447--9664576 Score: 242
Period size: 62 Copynumber: 2.1 Consensus size: 62
9664437 TTCAATTGCC
9664447 TATACACATAAATGTGTATTTATGCATACTTCATTCCAATATATATTGAATTTATATAACTA
1 TATACACATAAATGTGTATTTATGCATACTTCATTCCAATATATATTGAATTTATATAACTA
* *
9664509 TATACATATAAATGTGTATTTATGCATACTTCATTTCAATATATATTGAATTTATATAACTA
1 TATACACATAAATGTGTATTTATGCATACTTCATTCCAATATATATTGAATTTATATAACTA
9664571 TATACA
1 TATACA
9664577 AAAGGCCAAA
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 66 1.00
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.43
Consensus pattern (62 bp):
TATACACATAAATGTGTATTTATGCATACTTCATTCCAATATATATTGAATTTATATAACTA
Found at i:9665557 original size:16 final size:17
Alignment explanation
Indices: 9665526--9665563 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
9665516 GTTTTGGTGG
9665526 TTAAA-AAATTTAATTT
1 TTAAATAAATTTAATTT
9665542 TTAAATAAATTT-ATTT
1 TTAAATAAATTTAATTT
*
9665558 TAAAAT
1 TTAAAT
9665564 TTTAATCGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAAATAAATTTAATTT
Found at i:9668939 original size:7 final size:7
Alignment explanation
Indices: 9668927--9668951 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
9668917 CGATTAATTT
9668927 TTTATTA
1 TTTATTA
9668934 TTTATTA
1 TTTATTA
9668941 TTTATTA
1 TTTATTA
9668948 TTTA
1 TTTA
9668952 AATATATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTATTA
Found at i:9668970 original size:18 final size:17
Alignment explanation
Indices: 9668947--9668982 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
9668937 ATTATTTATT
9668947 ATTTAAATATATAATTTA
1 ATTTAAATATAT-ATTTA
9668965 ATTTAAATATATATTTA
1 ATTTAAATATATATTTA
9668982 A
1 A
9668983 AAAATAAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAAATATATATTTA
Found at i:9669750 original size:21 final size:22
Alignment explanation
Indices: 9669726--9669769 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
9669716 TGAGATATTA
*
9669726 TAAATTTATTTT-TAAAAAATT
1 TAAATTGATTTTATAAAAAATT
*
9669747 TAAATTGATTTTATATAAAATT
1 TAAATTGATTTTATAAAAAATT
9669769 T
1 T
9669770 TAATATGTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
TAAATTGATTTTATAAAAAATT
Found at i:9672952 original size:16 final size:18
Alignment explanation
Indices: 9672916--9672953 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
9672906 AATTTAACTT
9672916 TAATTAAATTATTTAAAA
1 TAATTAAATTATTTAAAA
*
9672934 TAATTAACTT-TTT-AAA
1 TAATTAAATTATTTAAAA
9672950 TAAT
1 TAAT
9672954 AAACAAACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 7 0.37
17 3 0.16
18 9 0.47
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
TAATTAAATTATTTAAAA
Found at i:9673330 original size:54 final size:54
Alignment explanation
Indices: 9673271--9673379 Score: 152
Period size: 54 Copynumber: 2.0 Consensus size: 54
9673261 TTTGGTGAAA
9673271 AAAAATACTTCATATTAATCCATACATTTTCTTT-ATTTTAA-TTGTTTCTAT-TTT
1 AAAAATACTTCATATTAATCCAT--ATTTT-TTTCATTTTAATTTGTTTCTATGTTT
* *
9673325 AAAAATACTTCATGTTAATTCATATTTTTTTCATTTTAATTTGTTTCTATGTTT
1 AAAAATACTTCATATTAATCCATATTTTTTTCATTTTAATTTGTTTCTATGTTT
9673379 A
1 A
9673380 TAATTTAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
51 3 0.06
52 12 0.24
53 10 0.20
54 25 0.50
ACGTcount: A:0.30, C:0.11, G:0.04, T:0.55
Consensus pattern (54 bp):
AAAAATACTTCATATTAATCCATATTTTTTTCATTTTAATTTGTTTCTATGTTT
Found at i:9673663 original size:43 final size:45
Alignment explanation
Indices: 9673589--9673672 Score: 129
Period size: 43 Copynumber: 1.9 Consensus size: 45
9673579 TTATATTTAT
9673589 ATCAAATAATAATTTTATTAATAAATAAATAAA-AATTAAAATGC
1 ATCAAATAATAATTTTATTAATAAATAAATAAATAATTAAAATGC
*
9673633 ATCAAA-AATGATTTTATT-ATAAATATAATAAATAATTAAA
1 ATCAAATAATAATTTTATTAATAAATA-AATAAATAATTAAA
9673673 TTTTGTTAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
42 7 0.19
43 17 0.46
44 13 0.35
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (45 bp):
ATCAAATAATAATTTTATTAATAAATAAATAAATAATTAAAATGC
Found at i:9682547 original size:10 final size:10
Alignment explanation
Indices: 9682517--9682575 Score: 54
Period size: 10 Copynumber: 6.1 Consensus size: 10
9682507 ATGCATTCTG
9682517 AAATTATAAA
1 AAATTATAAA
*
9682527 AAA--ACACAA
1 AAATTATA-AA
9682536 AAATTATAAA
1 AAATTATAAA
*
9682546 AAA--ACACAA
1 AAATTATA-AA
9682555 AAATTATAAA
1 AAATTATAAA
9682565 AAATTATAAA
1 AAATTATAAA
9682575 A
1 A
9682576 TTTAAAATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 12
0.71 0.07 0.22
Matches are distributed among these distances:
8 4 0.10
9 10 0.26
10 21 0.54
11 4 0.10
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (10 bp):
AAATTATAAA
Found at i:9682575 original size:19 final size:19
Alignment explanation
Indices: 9682517--9682567 Score: 102
Period size: 19 Copynumber: 2.7 Consensus size: 19
9682507 ATGCATTCTG
9682517 AAATTATAAAAAAACACAA
1 AAATTATAAAAAAACACAA
9682536 AAATTATAAAAAAACACAA
1 AAATTATAAAAAAACACAA
9682555 AAATTATAAAAAA
1 AAATTATAAAAAA
9682568 TTATAAAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.75, C:0.08, G:0.00, T:0.18
Consensus pattern (19 bp):
AAATTATAAAAAAACACAA
Found at i:9682592 original size:10 final size:9
Alignment explanation
Indices: 9682534--9682593 Score: 52
Period size: 10 Copynumber: 6.7 Consensus size: 9
9682524 AAAAAAACAC
9682534 AAAAATTAT
1 AAAAATTAT
** *
9682543 AAAAAAACAC
1 -AAAAATTAT
9682553 AAAAATTAT
1 AAAAATTAT
9682562 AAAAAATTAT
1 -AAAAATTAT
9682572 -AAAATT-T
1 AAAAATTAT
*
9682579 AAAATTTAT
1 AAAAATTAT
9682588 AAAAAT
1 AAAAAT
9682594 GATTAGAAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
7 1 0.03
8 11 0.28
9 12 0.31
10 15 0.38
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.28
Consensus pattern (9 bp):
AAAAATTAT
Found at i:9682847 original size:17 final size:17
Alignment explanation
Indices: 9682825--9682857 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
9682815 ATTAATTTAT
9682825 TTTTATAAATATTATGA
1 TTTTATAAATATTATGA
*
9682842 TTTTATAAATTTTATG
1 TTTTATAAATATTATG
9682858 GGTTTTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (17 bp):
TTTTATAAATATTATGA
Found at i:9686413 original size:20 final size:20
Alignment explanation
Indices: 9686385--9686425 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
9686375 AAACTTATTT
*
9686385 TTTATTTTTAAATAATAATA
1 TTTAATTTTAAATAATAATA
* *
9686405 TTTAATTTTAGATTATAATA
1 TTTAATTTTAAATAATAATA
9686425 T
1 T
9686426 ATAAAACTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
TTTAATTTTAAATAATAATA
Found at i:9691695 original size:25 final size:25
Alignment explanation
Indices: 9691667--9691716 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
9691657 TCATTTACAT
9691667 TTACTTTTTCTATTAAGAGTTAGAG
1 TTACTTTTTCTATTAAGAGTTAGAG
9691692 TTACTTTTTCTATTAAGAGTTAGAG
1 TTACTTTTTCTATTAAGAGTTAGAG
9691717 CTTGCCAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.08, G:0.16, T:0.48
Consensus pattern (25 bp):
TTACTTTTTCTATTAAGAGTTAGAG
Found at i:9700107 original size:17 final size:17
Alignment explanation
Indices: 9700067--9700112 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
9700057 TTTTATATTC
*
9700067 AGTTTTTATTTTCTTTT
1 AGTTTTTATTTTCTTCT
9700084 A-TATTTTGATTTTCTTCT
1 AGT-TTTT-ATTTTCTTCT
9700102 AGTTTTTATTT
1 AGTTTTTATTT
9700113 ATATTTGTGG
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
16 1 0.04
17 9 0.36
18 14 0.56
19 1 0.04
ACGTcount: A:0.15, C:0.07, G:0.07, T:0.72
Consensus pattern (17 bp):
AGTTTTTATTTTCTTCT
Found at i:9700153 original size:23 final size:23
Alignment explanation
Indices: 9700127--9700176 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
9700117 TTGTGGTACT
* * * *
9700127 TTTTTTCTCTGCTTTGTGACACG
1 TTTTTCCTCTGCCTTATAACACG
9700150 TTTTTCCTCTGCCTTATAACACG
1 TTTTTCCTCTGCCTTATAACACG
9700173 TTTT
1 TTTT
9700177 CGTCTATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.12, C:0.24, G:0.12, T:0.52
Consensus pattern (23 bp):
TTTTTCCTCTGCCTTATAACACG
Done.