Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 46 of 208
Found at i:12738411 original size:23 final size:22
Alignment explanation
Indices: 12738381--12738423 Score: 77
Period size: 23 Copynumber: 1.9 Consensus size: 22
12738371 TTTAGATTGA
12738381 AAGAAGAGAAAAGAAATGAAAAG
1 AAGAAGAGAAAAGAAA-GAAAAG
12738404 AAGAAGAGAAAAGAAAGAAA
1 AAGAAGAGAAAAGAAAGAAA
12738424 TAATAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.02
Consensus pattern (22 bp):
AAGAAGAGAAAAGAAAGAAAAG
Found at i:12739303 original size:27 final size:28
Alignment explanation
Indices: 12739241--12739307 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
12739231 CAATTTTCTT
*
12739241 ACACAAGCTGTGATATTTGTATTTGCTC
1 ACACAAGCTGTGATATTTGTAGTTGCTC
* * *
12739269 ATAGAAGCTGTGATATTTG-GGTTGCTC
1 ACACAAGCTGTGATATTTGTAGTTGCTC
12739296 ACACAAGCTGTG
1 ACACAAGCTGTG
12739308 GGTTAGATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 16 0.48
28 17 0.52
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.34
Consensus pattern (28 bp):
ACACAAGCTGTGATATTTGTAGTTGCTC
Found at i:12739761 original size:20 final size:21
Alignment explanation
Indices: 12739724--12739763 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
12739714 AACTAGAAAA
12739724 ATTATAGAATATAAAAAATAT
1 ATTATAGAATATAAAAAATAT
12739745 ATTAT-GAAT-TAATAAAATA
1 ATTATAGAATATAA-AAAATA
12739764 AGTTCCATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.17
20 10 0.56
21 5 0.28
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (21 bp):
ATTATAGAATATAAAAAATAT
Found at i:12740257 original size:16 final size:16
Alignment explanation
Indices: 12740236--12740273 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
12740226 AGCATCGATG
12740236 TTAATATTTTAAAAAT
1 TTAATATTTTAAAAAT
* *
12740252 TTAATATTTTTAGAAT
1 TTAATATTTTAAAAAT
12740268 TTAATA
1 TTAATA
12740274 CTCGAGCTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
TTAATATTTTAAAAAT
Found at i:12743598 original size:14 final size:15
Alignment explanation
Indices: 12743561--12743598 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
12743551 CTTACATTAA
12743561 TAATTAAC-AAACCT
1 TAATTAACTAAACCT
12743575 TAATTAAACTAAA-CT
1 TAATT-AACTAAACCT
12743590 TAATTAACT
1 TAATTAACT
12743599 TATTCATAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 9 0.41
15 10 0.45
16 3 0.14
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (15 bp):
TAATTAACTAAACCT
Found at i:12758283 original size:30 final size:32
Alignment explanation
Indices: 12758219--12758294 Score: 93
Period size: 30 Copynumber: 2.4 Consensus size: 32
12758209 ATATTTAAAA
** *
12758219 AAATATATAAAAAAAGTTCTAAAATATGTGTAT
1 AAATAT-TAAAAAAAGTTCTAAAATAAATATAT
*
12758252 AAATTTTAAAAAAA-TTCTAAAA-AAATATAT
1 AAATATTAAAAAAAGTTCTAAAATAAATATAT
12758282 AAATATTAAAAAA
1 AAATATTAAAAAA
12758295 TAAGAAATAT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
30 17 0.45
31 8 0.21
32 8 0.21
33 5 0.13
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.32
Consensus pattern (32 bp):
AAATATTAAAAAAAGTTCTAAAATAAATATAT
Found at i:12758308 original size:18 final size:18
Alignment explanation
Indices: 12758271--12758305 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
12758261 AAAAATTCTA
*
12758271 AAAAAATATATAAATATT
1 AAAAAATATAGAAATATT
12758289 AAAAAATA-AGAAATATT
1 AAAAAATATAGAAATATT
12758306 TAAGACTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.29
Consensus pattern (18 bp):
AAAAAATATAGAAATATT
Found at i:12758465 original size:18 final size:18
Alignment explanation
Indices: 12758425--12758468 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
12758415 TAAAATATTT
* *
12758425 AAAAATATATTTAATTTC
1 AAAAAAATATTTAAATTC
* *
12758443 TAAAAAATATTTAAATTG
1 AAAAAAATATTTAAATTC
12758461 AAAAAAAT
1 AAAAAAAT
12758469 TAGAAAACAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36
Consensus pattern (18 bp):
AAAAAAATATTTAAATTC
Found at i:12765213 original size:21 final size:21
Alignment explanation
Indices: 12765163--12765214 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
12765153 CCTTGAATTA
* *
12765163 TTTTTAGT-TTCTTTATTTCC
1 TTTTTATTATTCTTTATATCC
12765183 TTTTTATTATTCTTTA-ATCC
1 TTTTTATTATTCTTTATATCC
*
12765203 TTATTTTTTATT
1 TT-TTTATTATT
12765215 TATTTATTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 12 0.44
21 15 0.56
ACGTcount: A:0.15, C:0.12, G:0.02, T:0.71
Consensus pattern (21 bp):
TTTTTATTATTCTTTATATCC
Found at i:12770473 original size:43 final size:42
Alignment explanation
Indices: 12770401--12770584 Score: 210
Period size: 43 Copynumber: 4.3 Consensus size: 42
12770391 ACGTCGCTAA
*
12770401 CTTTTGCGGCGCTTATAGAAAAAAACGCCGCTAAAGAACATGTT
1 CTTTAGCGGCGC-TA-AGAAAAAAACGCCGCTAAAGAACATGTT
* *
12770445 CTTTAGCGGCGCTAAGAAAATAAACGCCGTTAAAGATCATGTT
1 CTTTAGCGGCGCTAAGAAAA-AAACGCCGCTAAAGAACATGTT
* * *
12770488 CTTTAGCGGCGCTTAGGAAGAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGC-TAAGAAAAAAACGCCGCTAAAGAACATGTT
* ** *
12770531 CTTTAGCGGCGCT-TGGGAAAAACGCCGCTAAAAGTA-ATGTT
1 CTTTAGCGGCGCTAAGAAAAAAACGCCGCT-AAAGAACATGTT
*
12770572 CTATAGCGGCGCT
1 CTTTAGCGGCGCT
12770585 TTTTTAAAAA
Statistics
Matches: 124, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
41 29 0.23
42 11 0.09
43 67 0.54
44 17 0.14
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (42 bp):
CTTTAGCGGCGCTAAGAAAAAAACGCCGCTAAAGAACATGTT
Found at i:12770520 original size:86 final size:85
Alignment explanation
Indices: 12770401--12770585 Score: 239
Period size: 86 Copynumber: 2.2 Consensus size: 85
12770391 ACGTCGCTAA
*
12770401 CTTTTGCGGCGCTTATAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTAAGAAAAT
1 CTTTAGCGGCGCTTATAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCT-AGAAAA-
* *
12770466 AAACGCCG-TTAAAGATCATGTT
64 AAACGCCGCTAAAAG-TAATGTT
* * * * **
12770488 CTTTAGCGGCGCTTA-GGAAGAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTGGGAAAA
1 CTTTAGCGGCGCTTATAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTAGAAAAAA
12770552 ACGCCGCTAAAAGTAATGTT
66 ACGCCGCTAAAAGTAATGTT
*
12770572 CTATAGCGGCGCTT
1 CTTTAGCGGCGCTT
12770586 TTTTAAAAAA
Statistics
Matches: 87, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
84 27 0.31
85 8 0.09
86 38 0.44
87 14 0.16
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.25
Consensus pattern (85 bp):
CTTTAGCGGCGCTTATAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTAGAAAAAA
ACGCCGCTAAAAGTAATGTT
Found at i:12771014 original size:21 final size:21
Alignment explanation
Indices: 12770990--12771058 Score: 93
Period size: 21 Copynumber: 3.3 Consensus size: 21
12770980 GCTTTTATCG
*
12770990 CTGCTTCTCTCGCTGCGGCCT
1 CTGCTTCTCTCGCTGCAGCCT
* *
12771011 CTGCTTCTCTCACTGTAGCCT
1 CTGCTTCTCTCGCTGCAGCCT
* *
12771032 CTGCTTCCCTCGCTGCCGCCT
1 CTGCTTCTCTCGCTGCAGCCT
12771053 CTGCTT
1 CTGCTT
12771059 TAAGTTGTTG
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.03, C:0.43, G:0.19, T:0.35
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGCAGCCT
Found at i:12776285 original size:18 final size:18
Alignment explanation
Indices: 12776262--12776352 Score: 114
Period size: 18 Copynumber: 4.9 Consensus size: 18
12776252 AGCTAATTTT
12776262 TATTTAAGTAATGTAATA
1 TATTTAAGTAATGTAATA
12776280 TATTTAAGTAATGTAAGTTA
1 TATTTAAGTAATGTAA--TA
*
12776300 TAAATTTTAGTAA-GTAATA
1 T--ATTTAAGTAATGTAATA
12776319 TATTTAAGTAATGTAATA
1 TATTTAAGTAATGTAATA
*
12776337 TATTTTAGTAA-GTAAT
1 TATTTAAGTAATGTAAT
12776353 GTAAGTAATG
Statistics
Matches: 65, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
17 14 0.22
18 32 0.49
19 3 0.05
20 3 0.05
21 4 0.06
22 9 0.14
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.45
Consensus pattern (18 bp):
TATTTAAGTAATGTAATA
Found at i:12776323 original size:39 final size:35
Alignment explanation
Indices: 12776262--12776352 Score: 128
Period size: 39 Copynumber: 2.5 Consensus size: 35
12776252 AGCTAATTTT
*
12776262 TATTTAAGTAATGTAATATATTTAAGTAATGTAAGTTA
1 TATTTTAGTAA-GTAATATATTTAAGTAATGTAA--TA
12776300 TAAATTTTAGTAAGTAATATATTTAAGTAATGTAATA
1 T--ATTTTAGTAAGTAATATATTTAAGTAATGTAATA
12776337 TATTTTAGTAAGTAAT
1 TATTTTAGTAAGTAAT
12776353 GTAAGTAATG
Statistics
Matches: 50, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
35 15 0.30
37 3 0.06
38 1 0.02
39 22 0.44
40 9 0.18
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.45
Consensus pattern (35 bp):
TATTTTAGTAAGTAATATATTTAAGTAATGTAATA
Found at i:12779149 original size:7 final size:7
Alignment explanation
Indices: 12779137--12779214 Score: 57
Period size: 7 Copynumber: 10.4 Consensus size: 7
12779127 CCCAAATCCA
12779137 TAACCCC
1 TAACCCC
12779144 TAACCCC
1 TAACCCC
*
12779151 TTACCCC
1 TAACCCC
*
12779158 TAAATCTCC
1 T-AA-CCCC
12779167 TAACCCC
1 TAACCCC
** *
12779174 TAAAGCA
1 TAACCCC
*
12779181 TAACCCT
1 TAACCCC
12779188 TAACCCC
1 TAACCCC
12779195 TAAATCCCCC
1 T-AA--CCCC
12779205 TAACCCC
1 TAACCCC
12779212 TAA
1 TAA
12779215 ATATTAAATC
Statistics
Matches: 55, Mismatches: 11, Indels: 10
0.72 0.14 0.13
Matches are distributed among these distances:
7 39 0.71
8 5 0.09
9 6 0.11
10 5 0.09
ACGTcount: A:0.32, C:0.46, G:0.01, T:0.21
Consensus pattern (7 bp):
TAACCCC
Found at i:12779578 original size:114 final size:114
Alignment explanation
Indices: 12779435--12779867 Score: 688
Period size: 114 Copynumber: 3.8 Consensus size: 114
12779425 TTTAAATCAT
*
12779435 TGAGCATTAGCGGCGCTTTCCTAAAAACGCCGCTAAATCCCCGACAGCTCAGAAAACGGCGTCGT
1 TGAGCATTAGCGGCGCTTTCCTAAAAACGCCACTAAATCCCCGACAGCTCAGAAAACGGCGTCGT
*
12779500 TGGTCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAATCCC
66 TGGTCTTAGGTATTTTTACGGCGCTTTCCCAAAAACGCCGCTAAATCCC
* * *
12779549 TGAGAATTAGCGGCGCTTTTCTAAAAACGCCGCTAAATCCCCGACAGCTCAGAAAACGGCGTCGT
1 TGAGCATTAGCGGCGCTTTCCTAAAAACGCCACTAAATCCCCGACAGCTCAGAAAACGGCGTCGT
*
12779614 TGGTCTTAGGTATTTTTACGGCGCTTTCCCAAAAACGCCGCTAAATCCT
66 TGGTCTTAGGTATTTTTACGGCGCTTTCCCAAAAACGCCGCTAAATCCC
* *
12779663 TGAGCATTAGCGGCGCTTACCTAAAAACGCCACTAAATCCCCGACAGCTCAGAAAACAGCGTCGT
1 TGAGCATTAGCGGCGCTTTCCTAAAAACGCCACTAAATCCCCGACAGCTCAGAAAACGGCGTCGT
* * * *
12779728 TAGCCTTAGGTATTTTTATGGCGCTTTCCCAAAAACGCCGCTAAATCAC
66 TGGTCTTAGGTATTTTTACGGCGCTTTCCCAAAAACGCCGCTAAATCCC
* * * * *
12779777 TGAGCATCAGCGGCGCTTTCTTAGAAACGCCACTAAATCCCCGAAAGCTCTGAAAACGGCGTCGT
1 TGAGCATTAGCGGCGCTTTCCTAAAAACGCCACTAAATCCCCGACAGCTCAGAAAACGGCGTCGT
* *
12779842 TGGGCTTAGGTA-TTTTGCGGCGCTTT
66 TGGTCTTAGGTATTTTTACGGCGCTTT
12779868 TCTGGAAACG
Statistics
Matches: 294, Mismatches: 25, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
113 12 0.04
114 282 0.96
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (114 bp):
TGAGCATTAGCGGCGCTTTCCTAAAAACGCCACTAAATCCCCGACAGCTCAGAAAACGGCGTCGT
TGGTCTTAGGTATTTTTACGGCGCTTTCCCAAAAACGCCGCTAAATCCC
Found at i:12780805 original size:68 final size:68
Alignment explanation
Indices: 12780647--12780797 Score: 239
Period size: 68 Copynumber: 2.2 Consensus size: 68
12780637 ATAAACTTAT
* * **
12780647 GTTGTGATCTTAAATTAGCTAACCTTTATAATATCAACTGTAAACGTAGGTCAGTGAGTTGTTTA
1 GTTGTGATCTTAAATTAGCTAACCTATATAATATCAACTGCAAACGTAGGTCAACGAGTTGTTTA
12780712 GGA
66 GGA
** *
12780715 GTTGCAATCTTAAATTAGCTAACCTATATAATATCAGCTGCAAACGTAGGTCAACGAGTTGTTTA
1 GTTGTGATCTTAAATTAGCTAACCTATATAATATCAACTGCAAACGTAGGTCAACGAGTTGTTTA
12780780 GGA
66 GGA
12780783 GTTGTGATCTTAAAT
1 GTTGTGATCTTAAAT
12780798 CATCTAACTC
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
68 74 1.00
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.35
Consensus pattern (68 bp):
GTTGTGATCTTAAATTAGCTAACCTATATAATATCAACTGCAAACGTAGGTCAACGAGTTGTTTA
GGA
Found at i:12780922 original size:103 final size:105
Alignment explanation
Indices: 12780715--12781098 Score: 526
Period size: 103 Copynumber: 3.7 Consensus size: 105
12780705 TTGTTTAGGA
* * * ** *
12780715 GTTGCAATCTTAAATTAGCTAACCTATATAATATCAGCTGCAAACGTAGGTCAACGAGTTGTTTA
1 GTTGCAATCTTAAATCAGCTAACCTTTATAATATCAGTTGTGAACGTAGGTCAACGAGCTGTTTA
* *
12780780 GGAGTTGTGATCTTAAATCATCTAACTCAAATAAGCTTAG
66 GGAGTTGTGATCTTAAATCAACTAACTCAAATAAACTTAG
* * *
12780820 GTTGCGATCTTAAATCAACTAACCTTTATAATATCAGTTGTGAACGTAGGT-TA-GAGCTGTTTA
1 GTTGCAATCTTAAATCAGCTAACCTTTATAATATCAGTTGTGAACGTAGGTCAACGAGCTGTTTA
*
12780883 GGAGTTATGATCTTAAATCAACTAACTCAAATAAACTTAG
66 GGAGTTGTGATCTTAAATCAACTAACTCAAATAAACTTAG
* * * *
12780923 GTTGCAATATTAAATCAGCTAACCTTTATAATATCAGCTAG-GAACGTAGGTCAGCGAGTTGTTT
1 GTTGCAATCTTAAATCAGCTAACCTTTATAATATCAG-TTGTGAACGTAGGTCAACGAGCTGTTT
* *
12780987 A-AAGTTGCGATCTTAAAT-AAGCTAACTCAAATAAACTTAG
65 AGGAGTTGTGATCTTAAATCAA-CTAACTCAAATAAACTTAG
* * *
12781027 GTTGCGATCTTAAATCATCTAACCTTTATAATATCAGTTGTGAATGTAGGTCAACGAGCTGTTTA
1 GTTGCAATCTTAAATCAGCTAACCTTTATAATATCAGTTGTGAACGTAGGTCAACGAGCTGTTTA
12781092 GGAGTTG
66 GGAGTTG
12781099 CAATCTTCAT
Statistics
Matches: 243, Mismatches: 30, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
103 94 0.39
104 91 0.37
105 58 0.24
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (105 bp):
GTTGCAATCTTAAATCAGCTAACCTTTATAATATCAGTTGTGAACGTAGGTCAACGAGCTGTTTA
GGAGTTGTGATCTTAAATCAACTAACTCAAATAAACTTAG
Found at i:12781920 original size:27 final size:27
Alignment explanation
Indices: 12781852--12781930 Score: 99
Period size: 26 Copynumber: 3.0 Consensus size: 27
12781842 ACTAACCTAT
* *
12781852 TAATTTAAATTCCTAATTATCTTAACTA
1 TAATTTAAACTCCTAATTATCATAA-TA
*
12781880 -AATTAAAACT-CTAATTATCATAATA
1 TAATTTAAACTCCTAATTATCATAATA
*
12781905 TAATTTAAACTCCTAATTATCCTAAT
1 TAATTTAAACTCCTAATTATCATAAT
12781931 TTACACAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
25 2 0.05
26 21 0.48
27 21 0.48
ACGTcount: A:0.43, C:0.15, G:0.00, T:0.42
Consensus pattern (27 bp):
TAATTTAAACTCCTAATTATCATAATA
Found at i:12782608 original size:7 final size:7
Alignment explanation
Indices: 12782598--12782623 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
12782588 TAAGTTATAA
12782598 AAAATTT
1 AAAATTT
12782605 AAAATTT
1 AAAATTT
12782612 AAAATTT
1 AAAATTT
12782619 AAAAT
1 AAAAT
12782624 CTCAATTAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (7 bp):
AAAATTT
Found at i:12785411 original size:16 final size:16
Alignment explanation
Indices: 12785390--12785424 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
12785380 TTTTTATACG
*
12785390 TATTTTATTATTTTCA
1 TATTTTATAATTTTCA
*
12785406 TATTTTATAATTTTTA
1 TATTTTATAATTTTCA
12785422 TAT
1 TAT
12785425 ACCTACATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (16 bp):
TATTTTATAATTTTCA
Found at i:12788812 original size:25 final size:25
Alignment explanation
Indices: 12788778--12788835 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
12788768 ACATCTTTGC
*
12788778 ATTCATTTTTGAGCCAA-TATTCTTTT
1 ATTC-TTTTTGA-ACAATTATTCTTTT
*
12788804 ATTCTTTTTGAATAATTATTCTTTT
1 ATTCTTTTTGAACAATTATTCTTTT
12788829 ATT-TTTT
1 ATTCTTTT
12788836 GGATTTTCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 6 0.21
25 19 0.66
26 4 0.14
ACGTcount: A:0.22, C:0.10, G:0.05, T:0.62
Consensus pattern (25 bp):
ATTCTTTTTGAACAATTATTCTTTT
Found at i:12789559 original size:29 final size:30
Alignment explanation
Indices: 12789523--12789584 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
12789513 GATTCAATAA
** *
12789523 AAAAAGAAG-AAAAAATCAAAATCAAAATC
1 AAAAAGAAGAAAAAAAGAAAAATAAAAATC
12789552 AAAAAGAAGAAAAAAAGAAAAATAAAAATC
1 AAAAAGAAGAAAAAAAGAAAAATAAAAATC
12789582 AAA
1 AAA
12789585 GTCAAAAGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 9 0.31
30 20 0.69
ACGTcount: A:0.77, C:0.06, G:0.08, T:0.08
Consensus pattern (30 bp):
AAAAAGAAGAAAAAAAGAAAAATAAAAATC
Found at i:12789580 original size:36 final size:36
Alignment explanation
Indices: 12789520--12789610 Score: 112
Period size: 37 Copynumber: 2.5 Consensus size: 36
12789510 CCAGATTCAA
* *
12789520 TAAAAAAAGAAGAAAAAATCAAAATCAAAATCAAAAAG
1 TAAAAAAAAAAG-AAAAATAAAAATCAAAATC-AAAAG
* *
12789558 -AAGAAAAAAAGAAAAATAAAAATCAAAGTCAAAAG
1 TAAAAAAAAAAGAAAAATAAAAATCAAAATCAAAAG
12789593 TAAAATAAAAAAGAAAAA
1 TAAAA-AAAAAAGAAAAA
12789611 AATGAAAATA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
35 5 0.11
36 20 0.43
37 21 0.46
ACGTcount: A:0.76, C:0.05, G:0.09, T:0.10
Consensus pattern (36 bp):
TAAAAAAAAAAGAAAAATAAAAATCAAAATCAAAAG
Found at i:12789604 original size:13 final size:12
Alignment explanation
Indices: 12789588--12789644 Score: 57
Period size: 13 Copynumber: 4.8 Consensus size: 12
12789578 AATCAAAGTC
12789588 AAAAGTAAAATAA
1 AAAAG-AAAATAA
12789601 AAAAG--AA-AA
1 AAAAGAAAATAA
*
12789610 AAATGAAAATAA
1 AAAAGAAAATAA
12789622 AAAAGGAAAATAA
1 AAAA-GAAAATAA
12789635 AAAAGGAAAA
1 AAAA-GAAAA
12789645 AGAAAAGGAG
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
9 6 0.16
10 2 0.05
11 2 0.05
12 5 0.13
13 23 0.61
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.09
Consensus pattern (12 bp):
AAAAGAAAATAA
Found at i:12789618 original size:14 final size:13
Alignment explanation
Indices: 12789601--12789650 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
12789591 AGTAAAATAA
*
12789601 AAAAGAAAAAAATG
1 AAAA-AAAAAAAGG
*
12789615 AAAATAAAAAAGG
1 AAAAAAAAAAAGG
*
12789628 AAAATAAAAAAGG
1 AAAAAAAAAAAGG
12789641 AAAAAGAAAA
1 AAAAA-AAAA
12789651 GGAGAGGCCA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
13 24 0.75
14 8 0.25
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.06
Consensus pattern (13 bp):
AAAAAAAAAAAGG
Found at i:12789650 original size:13 final size:13
Alignment explanation
Indices: 12789607--12789653 Score: 69
Period size: 13 Copynumber: 3.7 Consensus size: 13
12789597 ATAAAAAAGA
*
12789607 AAAAAATGAAAAT
1 AAAAAAGGAAAAT
12789620 AAAAAAGGAAAAT
1 AAAAAAGGAAAAT
12789633 AAAAAAGGAAAA-
1 AAAAAAGGAAAAT
*
12789645 AGAAAAGGA
1 AAAAAAGGA
12789654 GAGGCCAAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
12 8 0.25
13 24 0.75
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.06
Consensus pattern (13 bp):
AAAAAAGGAAAAT
Found at i:12790513 original size:8 final size:8
Alignment explanation
Indices: 12790500--12790541 Score: 54
Period size: 8 Copynumber: 5.6 Consensus size: 8
12790490 CTTTGAGTCA
12790500 AAAAAATG
1 AAAAAATG
12790508 AAAAAATG
1 AAAAAATG
12790516 -AAAAA-G
1 AAAAAATG
12790522 -AAAAATG
1 AAAAAATG
*
12790529 AAAGAATG
1 AAAAAATG
12790537 AAAAA
1 AAAAA
12790542 GTAAAAATGG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 6 0.20
7 6 0.20
8 18 0.60
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.10
Consensus pattern (8 bp):
AAAAAATG
Found at i:12790519 original size:7 final size:7
Alignment explanation
Indices: 12790501--12790550 Score: 59
Period size: 7 Copynumber: 7.0 Consensus size: 7
12790491 TTTGAGTCAA
12790501 AAAAATG
1 AAAAATG
12790508 AAAAAATG
1 -AAAAATG
12790516 AAAAA-G
1 AAAAATG
12790522 AAAAATG
1 AAAAATG
12790529 AAAGAATG
1 AAA-AATG
12790537 AAAAA-G
1 AAAAATG
12790543 TAAAAATG
1 -AAAAATG
12790551 GAGAGGCTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
6 7 0.18
7 16 0.42
8 15 0.39
ACGTcount: A:0.72, C:0.00, G:0.16, T:0.12
Consensus pattern (7 bp):
AAAAATG
Found at i:12790525 original size:21 final size:22
Alignment explanation
Indices: 12790501--12790550 Score: 84
Period size: 21 Copynumber: 2.3 Consensus size: 22
12790491 TTTGAGTCAA
12790501 AAAAATGAAAAAATGAAAAAG-
1 AAAAATGAAAAAATGAAAAAGT
*
12790522 AAAAATGAAAGAATGAAAAAGT
1 AAAAATGAAAAAATGAAAAAGT
12790544 AAAAATG
1 AAAAATG
12790551 GAGAGGCTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 20 0.74
22 7 0.26
ACGTcount: A:0.72, C:0.00, G:0.16, T:0.12
Consensus pattern (22 bp):
AAAAATGAAAAAATGAAAAAGT
Found at i:12790527 original size:13 final size:15
Alignment explanation
Indices: 12790504--12790541 Score: 53
Period size: 13 Copynumber: 2.6 Consensus size: 15
12790494 GAGTCAAAAA
12790504 AATGAAAAAATGAAA-
1 AATG-AAAAATGAAAG
12790519 AA-GAAAAATGAAAG
1 AATGAAAAATGAAAG
12790533 AATGAAAAA
1 AATGAAAAA
12790542 GTAAAAATGG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 10 0.48
14 3 0.14
15 8 0.38
ACGTcount: A:0.74, C:0.00, G:0.16, T:0.11
Consensus pattern (15 bp):
AATGAAAAATGAAAG
Found at i:12792038 original size:45 final size:44
Alignment explanation
Indices: 12791980--12792088 Score: 121
Period size: 44 Copynumber: 2.5 Consensus size: 44
12791970 GGTCTTAACC
* * * *
12791980 CCCTGAAGTTGCAGTGGGGCAGATCGAAGATGGCA-AATCTTATCT
1 CCCTGAAGATGCAGTGGAGCAGATCGAAG-TCG-ATAATCCTATCT
* *
12792025 CCCTGAGGATGCAGTGGAGCAGATTGAAGTCGATAATCCTATCT
1 CCCTGAAGATGCAGTGGAGCAGATCGAAGTCGATAATCCTATCT
* *
12792069 CCCTGAAGTTGCAGAGGAGC
1 CCCTGAAGATGCAGTGGAGC
12792089 GGATTAAAGT
Statistics
Matches: 54, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
43 1 0.02
44 28 0.52
45 25 0.46
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (44 bp):
CCCTGAAGATGCAGTGGAGCAGATCGAAGTCGATAATCCTATCT
Found at i:12792136 original size:218 final size:218
Alignment explanation
Indices: 12791751--12793266 Score: 2480
Period size: 218 Copynumber: 7.0 Consensus size: 218
12791741 TTCATTATAT
*
12791751 AGGTCTTAACCCCCTGAAGTTGCAGTGGGGCAGATCGAAGATGGCAAATCTTATCTCTCTGAGGT
1 AGGTCTTAACCCCCTGAAGTTGCAGTGGGGCAGATCGAAGATGGCAAATCTTATCTCCCTGAGGT
*
12791816 TGCAGTGGAGCAGATTGAAGTCGATAATCCTATCTCCCTGAAGTTGCAGAGGAGCGGATTAAAGT
66 TGCAGTGGAGCAGATTGAAGCCGATAATCCTATCTCCCTGAAGTTGCAGAGGAGCGGATTAAAGT
* *
12791881 AATAGATCTTATCTCTCTAAAGTTGCAATAGAGTAGATCGCATCAGGTCTTCTCTCCCTGAAGTT
131 AATAGATCTTATCTCTCTAAAGTTGCAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAAGTT
12791946 GCAGCGGAGCAGACTGAGTAATC
196 GCAGCGGAGCAGACTGAGTAATC
*
12791969 AGGTCTTAACCCCCTGAAGTTGCAGTGGGGCAGATCGAAGATGGCAAATCTTATCTCCCTGAGGA
1 AGGTCTTAACCCCCTGAAGTTGCAGTGGGGCAGATCGAAGATGGCAAATCTTATCTCCCTGAGGT
*
12792034 TGCAGTGGAGCAGATTGAAGTCGATAATCCTATCTCCCTGAAGTTGCAGAGGAGCGGATTAAAGT
66 TGCAGTGGAGCAGATTGAAGCCGATAATCCTATCTCCCTGAAGTTGCAGAGGAGCGGATTAAAGT
* * * *
12792099 AATAGATCTTATCTCTCTAAAGTTGCAGTAAAGTAGATCGTATCAGGTTTTATCTTCCTGAAGTT
131 AATAGATCTTATCTCTCTAAAGTTGCAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAAGTT
*
12792164 GCAGCAGAGCAGACTGAGTAATC
196 GCAGCGGAGCAGACTGAGTAATC
* *
12792187 AGGTCTTAACCCCCTGAAGTTGCAGTGGGGCAGATCGAAGATGGCAAATCGTATCTCCCTAAGGT
1 AGGTCTTAACCCCCTGAAGTTGCAGTGGGGCAGATCGAAGATGGCAAATCTTATCTCCCTGAGGT
* * *
12792252 TGTAGTGGAGCAGATTGAAGCCGATAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAG-
66 TGCAGTGGAGCAGATTGAAGCCGATAATCCTATCTCCCTGAAGTTGCAGAGGAGCGGATTAAAGT
* * *
12792316 AAGTAGATCTTATCTCTCTTAAGTTGCAGTAGAGTGGATCGCATCAGGTCTTATCTCTCTGAAGT
131 AA-TAGATCTTATCTCTCTAAAGTTGCAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAAGT
* *
12792381 TGCAGCAGAGCAGACTGAGTAAGC
195 TGCAGCGGAGCAGACTGAGTAATC
** * *
12792405 AGGTCTTATTCGCCTGAAGTTGCAGTAGGGCAGATCGAAGATGGCAAATCTTATCTCCCTGAGGT
1 AGGTCTTAACCCCCTGAAGTTGCAGTGGGGCAGATCGAAGATGGCAAATCTTATCTCCCTGAGGT
* * * *
12792470 TGCAGTGGAGCAGATTGAAGCCAATAATCCTATCTCCCTGAAGTTGCAAAGGAGCGTACTAAAGT
66 TGCAGTGGAGCAGATTGAAGCCGATAATCCTATCTCCCTGAAGTTGCAGAGGAGCGGATTAAAGT
*
12792535 AATAGATCTTATCTCTCTAAAGTTGCAGTAGAGTAGATCGCATTAGGTCTTATCTCCCTGAAGTT
131 AATAGATCTTATCTCTCTAAAGTTGCAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAAGTT
12792600 GCAGCGGAGCAGACTGAGTAATC
196 GCAGCGGAGCAGACTGAGTAATC
* *
12792623 AGGTCTTAACCCACTGAAGTTACAGTGGGGCAGATCGAAGATGGCAAATCTTATCTCCCTGAGGT
1 AGGTCTTAACCCCCTGAAGTTGCAGTGGGGCAGATCGAAGATGGCAAATCTTATCTCCCTGAGGT
* * *
12792688 TGCAGTGGAGCAGATTGAGGCCGATAATCCTATTTCCCTGAAGTTGCAGAGGAGCGAATTAAAGT
66 TGCAGTGGAGCAGATTGAAGCCGATAATCCTATCTCCCTGAAGTTGCAGAGGAGCGGATTAAAGT
*
12792753 AATAGATCTTATCTCTCTAAAGTTGCAGTATAGTAGATCGCATCAGGTCTTATCTCCCTGAAGTT
131 AATAGATCTTATCTCTCTAAAGTTGCAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAAGTT
*
12792818 GCAGCGGAGCAGATTGAGTAATC
196 GCAGCGGAGCAGACTGAGTAATC
12792841 AGGTCTTAACCCCCTGAAGTTGCAGTGGGGCAGATCGAAGATGGCAAATCTTATCT-CCTGGAGG
1 AGGTCTTAACCCCCTGAAGTTGCAGTGGGGCAGATCGAAGATGGCAAATCTTATCTCCCT-GAGG
* *
12792905 TTGCAGTGGAGCAGATTGAAGCCAATAATCCTATCTCCCTGAAGTTGCAGAGGAGCGGATTAAAT
65 TTGCAGTGGAGCAGATTGAAGCCGATAATCCTATCTCCCTGAAGTTGCAGAGGAGCGGATTAAAG
** * * *
12792970 TAATAGATCTTATCTCTCTAAAGTTATAGTAGAGTGGATCGCATCAGGTCTTATCTCTCTAAAGT
130 TAATAGATCTTATCTCTCTAAAGTTGCAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAAGT
* *
12793035 TGTAGCGGAGCAGACTGAGTAATA
195 TGCAGCGGAGCAGACTGAGTAATC
* *
12793059 AGGTCTTAACCCCCTGAAGTTGCAGTGGGGCAGATCGAAGATGGCAAATCGTATCTCCCTGAGGA
1 AGGTCTTAACCCCCTGAAGTTGCAGTGGGGCAGATCGAAGATGGCAAATCTTATCTCCCTGAGGT
* *
12793124 TGCAGTGGAGCAGATTGAAGCCGATAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGT
66 TGCAGTGGAGCAGATTGAAGCCGATAATCCTATCTCCCTGAAGTTGCAGAGGAGCGGATTAAAGT
* * * *
12793189 AGTATATCTTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCATCAGGTCTTATCTCCCTG-AGAT
131 AATAGATCTTATCTCTCTAAAGTTGCAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAAG-T
**
12793253 TATAGCGGAGCAGA
195 TGCAGCGGAGCAGA
12793267 TTGAAGCTAG
Statistics
Matches: 1205, Mismatches: 88, Indels: 10
0.92 0.07 0.01
Matches are distributed among these distances:
217 7 0.01
218 1193 0.99
219 5 0.00
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (218 bp):
AGGTCTTAACCCCCTGAAGTTGCAGTGGGGCAGATCGAAGATGGCAAATCTTATCTCCCTGAGGT
TGCAGTGGAGCAGATTGAAGCCGATAATCCTATCTCCCTGAAGTTGCAGAGGAGCGGATTAAAGT
AATAGATCTTATCTCTCTAAAGTTGCAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAAGTT
GCAGCGGAGCAGACTGAGTAATC
Found at i:12792265 original size:45 final size:44
Alignment explanation
Indices: 12792198--12792306 Score: 123
Period size: 44 Copynumber: 2.5 Consensus size: 44
12792188 GGTCTTAACC
* * ** *
12792198 CCCTGAAGTTGCAGTGGGGCAGATCGAAGATGGCA-AATCGTATCT
1 CCCTGAAGTTGTAGTGGAGCAGATCGAAG-CCG-ATAATCCTATCT
*
12792243 CCCT-AAGGTTGTAGTGGAGCAGATTGAAGCCGATAATCCTATCT
1 CCCTGAA-GTTGTAGTGGAGCAGATCGAAGCCGATAATCCTATCT
12792287 CCCTGAAGTTGTAGTGGAGC
1 CCCTGAAGTTGTAGTGGAGC
12792307 GGATTAAAGA
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.02
44 29 0.53
45 25 0.45
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (44 bp):
CCCTGAAGTTGTAGTGGAGCAGATCGAAGCCGATAATCCTATCT
Found at i:12795112 original size:16 final size:16
Alignment explanation
Indices: 12795091--12795125 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
12795081 TTTTTATACG
*
12795091 TATTTTATTATTTTCA
1 TATTTTATAATTTTCA
*
12795107 TATTTTATAATTTTTA
1 TATTTTATAATTTTCA
12795123 TAT
1 TAT
12795126 ACCTACATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (16 bp):
TATTTTATAATTTTCA
Found at i:12796657 original size:25 final size:25
Alignment explanation
Indices: 12796623--12796688 Score: 91
Period size: 25 Copynumber: 2.6 Consensus size: 25
12796613 GATTTTCTTC
*
12796623 TCCTAGTTAAACTTTGTTTTTAGTT
1 TCCTACTTAAACTTTGTTTTTAGTT
12796648 T-CTCACTTAAA-TTATGTTTTTAGTT
1 TCCT-ACTTAAACTT-TGTTTTTAGTT
12796673 TCCTACTTAAACTTTG
1 TCCTACTTAAACTTTG
12796689 ATTAGTGTAG
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
24 4 0.11
25 28 0.78
26 4 0.11
ACGTcount: A:0.23, C:0.15, G:0.09, T:0.53
Consensus pattern (25 bp):
TCCTACTTAAACTTTGTTTTTAGTT
Found at i:12797512 original size:21 final size:22
Alignment explanation
Indices: 12797487--12797534 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
12797477 CCTGCCACTG
12797487 CCGCCCAACGTCACG-CCGCCA
1 CCGCCCAACGTCACGTCCGCCA
*
12797508 CCG-CCAACGTCACGTCGGCCA
1 CCGCCCAACGTCACGTCCGCCA
12797529 CC-CCCA
1 CCGCCCA
12797535 CTTGCACCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.19, C:0.56, G:0.19, T:0.06
Consensus pattern (22 bp):
CCGCCCAACGTCACGTCCGCCA
Found at i:12798523 original size:3 final size:3
Alignment explanation
Indices: 12798517--12798612 Score: 113
Period size: 3 Copynumber: 31.7 Consensus size: 3
12798507 TAATGTTACC
12798517 ATT ATT AATT 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 ATT
* * * * * *
12798563 ATT ATC ATCT -TT ATT GTT ATT GTT ATT AAT ATT AAT ATT AAT ATT
1 ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
12798608 ATT AT
1 ATT AT
12798613 CATGTTTCCA
Statistics
Matches: 78, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
2 1 0.01
3 74 0.95
4 3 0.04
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:12799232 original size:21 final size:18
Alignment explanation
Indices: 12799199--12799238 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
12799189 ATTTTTTTGT
12799199 TCATTTTTTATTCACATTA
1 TCATTTTTTATTC-CATTA
12799218 TCATGTTTATTATTCCATTA
1 TCAT-TTT-TTATTCCATTA
12799238 T
1 T
12799239 GCATATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 9 0.47
21 6 0.32
ACGTcount: A:0.25, C:0.15, G:0.03, T:0.57
Consensus pattern (18 bp):
TCATTTTTTATTCCATTA
Found at i:12799472 original size:109 final size:109
Alignment explanation
Indices: 12799276--12799807 Score: 805
Period size: 109 Copynumber: 4.9 Consensus size: 109
12799266 AAATTTTTCT
* * * * * *
12799276 AAATGAGGCAATATTTAGCATTTGGAAATTCGAGGAAACGTGCCCTAAGGTGCTGGGTGTCGATT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
*
12799341 TTTCTCGTTCAGCCAAATAGCTAAATATCCTTCTAAAAATTCCA
66 TTTCTCGTTCAACCAAATAGCTAAATATCCTTCTAAAAATTCCA
*
12799385 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAAAATGCCCTAAGGTGCTGGGTGTCGATT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
*
12799450 TTTCTCGTTCAACCAAATAGCTAAATACCCTTCTAAAAATTCCA
66 TTTCTCGTTCAACCAAATAGCTAAATATCCTTCTAAAAATTCCA
* *
12799494 AAATAAGGCAATGTTTTGCGTTTAGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCAATT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
* * * **
12799559 TTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTA
66 TTTCTCGTTCAACCAAATAGCTAAATATCCTTCTAAAAATTCCA
* *
12799603 AAATAAGGCAATGTTTTGCATTTAGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
* * **
12799668 TTTCTCGTTCAACCAAAT-GACTTAATATCCTTTTAAAAATTTTA
66 TTTCTCGTTCAACCAAATAG-CTAAATATCCTTCTAAAAATTCCA
* *
12799712 AAATAAGACAATGTTTTGCGTTTGGAAATTTGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
* * *
12799777 TTTCTCGTTTAACCAAATTGCCAAATATCCT
66 TTTCTCGTTCAACCAAATAGCTAAATATCCT
12799808 CTTGAATTTT
Statistics
Matches: 394, Mismatches: 27, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
108 1 0.00
109 392 0.99
110 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (109 bp):
AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
TTTCTCGTTCAACCAAATAGCTAAATATCCTTCTAAAAATTCCA
Found at i:12801051 original size:19 final size:18
Alignment explanation
Indices: 12801004--12801051 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
12800994 GATATTGTAT
**
12801004 AATTATATAAAATATATTG
1 AATTATA-AAAATATATAA
12801023 AATTAT-AAAATATATAAA
1 AATTATAAAAATATAT-AA
12801041 AATTATAAAAA
1 AATTATAAAAA
12801052 ATTAAAAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 9 0.36
18 6 0.24
19 10 0.40
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (18 bp):
AATTATAAAAATATATAA
Found at i:12806074 original size:23 final size:23
Alignment explanation
Indices: 12806044--12806107 Score: 110
Period size: 23 Copynumber: 2.8 Consensus size: 23
12806034 CTACCATGTT
*
12806044 TTGGACAGCATTTATATATCAAA
1 TTGGACAGCATTTATACATCAAA
12806067 TTGGACAGCATTTATACATCAAA
1 TTGGACAGCATTTATACATCAAA
*
12806090 TTGGACAGCATTAATACA
1 TTGGACAGCATTTATACA
12806108 ACTTAAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (23 bp):
TTGGACAGCATTTATACATCAAA
Found at i:12806604 original size:56 final size:57
Alignment explanation
Indices: 12806424--12806603 Score: 281
Period size: 57 Copynumber: 3.2 Consensus size: 57
12806414 CTATTCATGC
* *
12806424 GTCTTTTCTTACAGGGAATATTTACTGTTTTTGTCAGAGAATATTTTCTGCTCACTT
1 GTCTTTTCTTACAGGGAATATTTACTGTTTTTGCCAGAGAATATTTCCTGCTCACTT
* ** * *
12806481 GTCTTTTCTTACAGGGAATATTTATTGTTTACGCCAGAGAATATTTCATGTTCACTT
1 GTCTTTTCTTACAGGGAATATTTACTGTTTTTGCCAGAGAATATTTCCTGCTCACTT
*
12806538 GTCTTTTCTTGCA-GGAATATTTACTGTTTTTGCCAGAGAATATTTCCTGCTCACTT
1 GTCTTTTCTTACAGGGAATATTTACTGTTTTTGCCAGAGAATATTTCCTGCTCACTT
12806594 GTCTTTTCTT
1 GTCTTTTCTT
12806604 GTATCATCTT
Statistics
Matches: 110, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
56 48 0.44
57 62 0.56
ACGTcount: A:0.21, C:0.17, G:0.16, T:0.47
Consensus pattern (57 bp):
GTCTTTTCTTACAGGGAATATTTACTGTTTTTGCCAGAGAATATTTCCTGCTCACTT
Found at i:12813746 original size:56 final size:57
Alignment explanation
Indices: 12813659--12813781 Score: 169
Period size: 56 Copynumber: 2.2 Consensus size: 57
12813649 AAAGATGATA
**
12813659 CAAGAAAAGACAAGTGAACAAGAAATATTCTCT-AGGGAAAACAATAAATATTC-CTG
1 CAAGAAAAGACAAGTGAACAAGAAATATTCTCTGA-CAAAAACAATAAATATTCTCTG
* * * *
12813715 TAAGAAAAGACAAGTGACCAGGAAATATTCTCTGACAAAAACAGTAAATATTCTCTG
1 CAAGAAAAGACAAGTGAACAAGAAATATTCTCTGACAAAAACAATAAATATTCTCTG
12813772 CAAGAAAAGA
1 CAAGAAAAGA
12813782 TGCATGAATA
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
56 45 0.78
57 13 0.22
ACGTcount: A:0.50, C:0.15, G:0.16, T:0.20
Consensus pattern (57 bp):
CAAGAAAAGACAAGTGAACAAGAAATATTCTCTGACAAAAACAATAAATATTCTCTG
Found at i:12814196 original size:23 final size:23
Alignment explanation
Indices: 12814166--12814359 Score: 246
Period size: 23 Copynumber: 8.4 Consensus size: 23
12814156 GTCTGGTATT
12814166 ACAGCATTAATACATCAAATTGG
1 ACAGCATTAATACATCAAATTGG
* *
12814189 ACAGCATTTATACATCAAATTGC
1 ACAGCATTAATACATCAAATTGG
* *
12814212 ATAGCATTAATACATTAAATTGG
1 ACAGCATTAATACATCAAATTGG
*
12814235 ACAGCATTAATATATCAAATTGG
1 ACAGCATTAATACATCAAATTGG
* * *
12814258 ATAGCATTTATACATTAAATTGG
1 ACAGCATTAATACATCAAATTGG
* *
12814281 ACAACATTAATACATCAAATTTG
1 ACAGCATTAATACATCAAATTGG
*
12814304 ACAGCATTTATACATCAAATTGG
1 ACAGCATTAATACATCAAATTGG
* *
12814327 GCAGCATTAATATGC-TCAAAATGG
1 ACAGCATTAATA--CATCAAATTGG
12814351 ACAGCATTA
1 ACAGCATTA
12814360 TAACATGTAA
Statistics
Matches: 144, Mismatches: 25, Indels: 3
0.84 0.15 0.02
Matches are distributed among these distances:
23 127 0.88
24 16 0.11
25 1 0.01
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.30
Consensus pattern (23 bp):
ACAGCATTAATACATCAAATTGG
Found at i:12815115 original size:41 final size:41
Alignment explanation
Indices: 12815068--12815199 Score: 135
Period size: 41 Copynumber: 3.2 Consensus size: 41
12815058 CATCGTATAA
* * *
12815068 CCGAAGCTATTATAATCTCGGACACTAAGTGCCTTACATAG
1 CCGAAGCTATTATAATCTCGCACACTAAGTGCCATAAATAG
* * **
12815109 CCGAAGCTA-TATTAGTCTCGCACACTAAGTGTCATATTTAG
1 CCGAAGCTATTA-TAATCTCGCACACTAAGTGCCATAAATAG
* * *
12815150 TCGAAGCTATT-TCAA-ATCGCACACTAAGTGCAATAAATAG
1 CCGAAGCTATTAT-AATCTCGCACACTAAGTGCCATAAATAG
12815190 CCGAAGCTAT
1 CCGAAGCTAT
12815200 CCCAAATTTC
Statistics
Matches: 74, Mismatches: 14, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
40 32 0.43
41 41 0.55
42 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (41 bp):
CCGAAGCTATTATAATCTCGCACACTAAGTGCCATAAATAG
Found at i:12815195 original size:40 final size:40
Alignment explanation
Indices: 12815089--12815199 Score: 109
Period size: 40 Copynumber: 2.7 Consensus size: 40
12815079 ATAATCTCGG
* * **
12815089 ACACTAAGTGCCTTACATAGCCGAAGCTATATTAGTCTCGC
1 ACACTAAGTG-CATAAATAGCCGAAGCTATATTAGAATCGC
** *
12815130 ACACTAAGTGTCATATTTAGTCGAAGCTAT-TTCA-AATCGC
1 ACACTAAGTG-CATAAATAGCCGAAGCTATATT-AGAATCGC
12815170 ACACTAAGTGCAATAAATAGCCGAAGCTAT
1 ACACTAAGTGC-ATAAATAGCCGAAGCTAT
12815200 CCCAAATTTC
Statistics
Matches: 58, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
39 1 0.02
40 31 0.53
41 26 0.45
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (40 bp):
ACACTAAGTGCATAAATAGCCGAAGCTATATTAGAATCGC
Found at i:12815206 original size:40 final size:39
Alignment explanation
Indices: 12815126--12815224 Score: 101
Period size: 40 Copynumber: 2.5 Consensus size: 39
12815116 TATATTAGTC
** * **
12815126 TCGCACACTAAGTGTCATATTTAGTCGAAGCTATTTCAAA
1 TCGCACACTAAGTG-CATAAATAGCCGAAGCTATCCCAAA
12815166 TCGCACACTAAGTGCAATAAATAGCCGAAGCTATCCCAAA
1 TCGCACACTAAGTGC-ATAAATAGCCGAAGCTATCCCAAA
** *
12815206 TTTCATACTAAGTGC-TAAA
1 TCGCACACTAAGTGCATAAA
12815225 GATAGTCAAT
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
38 4 0.08
39 1 0.02
40 45 0.90
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.27
Consensus pattern (39 bp):
TCGCACACTAAGTGCATAAATAGCCGAAGCTATCCCAAA
Found at i:12817661 original size:64 final size:64
Alignment explanation
Indices: 12817556--12817676 Score: 179
Period size: 64 Copynumber: 1.9 Consensus size: 64
12817546 AGCCTATATT
* * * * *
12817556 AGGATGCTCATAAAGAGCTGCGGTATGTCTACAATATATGCAGGATCAATACCGATCATATAAC
1 AGGATGCTCACAAAGAGCTGCGATATGTCCACAACACATGCAGGATCAATACCGATCATATAAC
* *
12817620 AGGATGCTCACAAAGAGCTGCGATATTTCCGCAACACATGCAGGATCAATACCGATC
1 AGGATGCTCACAAAGAGCTGCGATATGTCCACAACACATGCAGGATCAATACCGATC
12817677 GAGATGCTCG
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
64 50 1.00
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (64 bp):
AGGATGCTCACAAAGAGCTGCGATATGTCCACAACACATGCAGGATCAATACCGATCATATAAC
Found at i:12818072 original size:11 final size:11
Alignment explanation
Indices: 12818056--12818088 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
12818046 TATTTTAATA
*
12818056 CAATTCACATT
1 CAATTCACATC
12818067 CAATTC-CATC
1 CAATTCACATC
12818077 CAATTCACATC
1 CAATTCACATC
12818088 C
1 C
12818089 TAGGCAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.33, C:0.36, G:0.00, T:0.30
Consensus pattern (11 bp):
CAATTCACATC
Found at i:12822180 original size:33 final size:33
Alignment explanation
Indices: 12822142--12822245 Score: 95
Period size: 33 Copynumber: 3.1 Consensus size: 33
12822132 GTTTCTCATC
12822142 CTCAAAAATGAGCTTGTCCTTTGATTTTTAAAA
1 CTCAAAAATGAGCTTGTCCTTTGATTTTTAAAA
** * ** **
12822175 CTCAAAAATGAG-TTAG-GATATGATGTTTCCCATC
1 CTCAAAAATGAGCTT-GTCCTTTGAT-TTT-TAAAA
*
12822209 CTAAAAAATGAGCTTGTCCTTTGATTTTTAAAA
1 CTCAAAAATGAGCTTGTCCTTTGATTTTTAAAA
12822242 CTCA
1 CTCA
12822246 TACAATAAAT
Statistics
Matches: 50, Mismatches: 16, Indels: 10
0.66 0.21 0.13
Matches are distributed among these distances:
32 7 0.14
33 20 0.40
34 16 0.32
35 7 0.14
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (33 bp):
CTCAAAAATGAGCTTGTCCTTTGATTTTTAAAA
Found at i:12822222 original size:67 final size:67
Alignment explanation
Indices: 12822114--12822245 Score: 246
Period size: 67 Copynumber: 2.0 Consensus size: 67
12822104 AATGTCACCC
* *
12822114 AATGAGTTAGGATATGATGTTTCTCATCCTCAAAAATGAGCTTGTCCTTTGATTTTTAAAACTCA
1 AATGAGTTAGGATATGATGTTTCCCATCCTAAAAAATGAGCTTGTCCTTTGATTTTTAAAACTCA
12822179 AA
66 AA
12822181 AATGAGTTAGGATATGATGTTTCCCATCCTAAAAAATGAGCTTGTCCTTTGATTTTTAAAACTCA
1 AATGAGTTAGGATATGATGTTTCCCATCCTAAAAAATGAGCTTGTCCTTTGATTTTTAAAACTCA
12822246 TACAATAAAT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 63 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (67 bp):
AATGAGTTAGGATATGATGTTTCCCATCCTAAAAAATGAGCTTGTCCTTTGATTTTTAAAACTCA
AA
Found at i:12822667 original size:20 final size:20
Alignment explanation
Indices: 12822654--12822691 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
12822644 AAAATAATTT
12822654 ATAAAATATTAAAATAAAGA
1 ATAAAATATTAAAATAAAGA
*
12822674 ATCAAATATTAAAATAAA
1 ATAAAATATTAAAATAAA
12822692 AATGAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (20 bp):
ATAAAATATTAAAATAAAGA
Found at i:12824475 original size:44 final size:45
Alignment explanation
Indices: 12824411--12824519 Score: 121
Period size: 45 Copynumber: 2.4 Consensus size: 45
12824401 GTCTGTTTCG
* * * * *
12824411 CTGTAATTTCAGGGATATAAGACTT-ATGGCTTCAATCTGCCCCA
1 CTGTAACTTCAGAGAGATAAGACTTGATAGCTTCAACCTGCCCCA
* * * * *
12824455 CTGTAACTTTAGAGGGATAAGATTTGATATCTTCAACCTGCTCCA
1 CTGTAACTTCAGAGAGATAAGACTTGATAGCTTCAACCTGCCCCA
12824500 CTGTAACTTCAGAGAGATAA
1 CTGTAACTTCAGAGAGATAA
12824520 ATTTTGATAT
Statistics
Matches: 52, Mismatches: 12, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
44 19 0.37
45 33 0.63
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.31
Consensus pattern (45 bp):
CTGTAACTTCAGAGAGATAAGACTTGATAGCTTCAACCTGCCCCA
Found at i:12824502 original size:45 final size:45
Alignment explanation
Indices: 12824440--12824534 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
12824430 AGACTTATGG
* * *
12824440 CTTCAATCTGCCCCACTGTAACTTTAGAGGGATAAGA-TTTGATAT
1 CTTCAACCTGCCCCACTGTAACTTCAGAGAGATAA-ATTTTGATAT
*
12824485 CTTCAACCTGCTCCACTGTAACTTCAGAGAGATAAATTTTGATAT
1 CTTCAACCTGCCCCACTGTAACTTCAGAGAGATAAATTTTGATAT
12824530 CTTCA
1 CTTCA
12824535 GTCTGTTACA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 1 0.02
45 44 0.98
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (45 bp):
CTTCAACCTGCCCCACTGTAACTTCAGAGAGATAAATTTTGATAT
Found at i:12824547 original size:45 final size:45
Alignment explanation
Indices: 12824453--12824566 Score: 131
Period size: 45 Copynumber: 2.5 Consensus size: 45
12824443 CAATCTGCCC
* * *
12824453 CACTGTAACTTTAGAGGGATAAGATTTGATATCTTCAACCTGCTC
1 CACTGTAACTTCAGAGAGATAAGATTTGATATCTTCAACCTGCTA
** *
12824498 CACTGTAACTTCAGAGAGATAA-ATTTTGATATCTTCAGTCTGTTA
1 CACTGTAACTTCAGAGAGATAAGA-TTTGATATCTTCAACCTGCTA
* * *
12824543 CACTGCAATTTCAGGGAGATAAGA
1 CACTGTAACTTCAGAGAGATAAGA
12824567 CTTGTTATAG
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
44 1 0.02
45 56 0.97
46 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (45 bp):
CACTGTAACTTCAGAGAGATAAGATTTGATATCTTCAACCTGCTA
Found at i:12824673 original size:44 final size:44
Alignment explanation
Indices: 12824625--12824836 Score: 185
Period size: 44 Copynumber: 4.7 Consensus size: 44
12824615 GATTCATCAT
* *
12824625 TTTAATCTGTTCCACTGCAACTTCAGGGAGA-GAGGACTTGTATC
1 TTTAATCTGCTCCACTACAACTTCAGGGAGATGA-GACTTGTATC
*
12824669 TTTAATCTGCTCCACTACAACTTCAGAGAGATGAGA-TATGTAATTTAGC
1 TTTAATCTGCTCCACTACAACTTCAGGGAGATGAGACT-TGT-A--T--C
* * * *
12824718 TTTACTCTGCTCCACTGCAACTTCAGGGAAATGAGATTTGCTATC
1 TTTAATCTGCTCCACTACAACTTCAGGGAGATGAGACTTG-TATC
* * * * * **
12824763 TTCAGTCTGCTCCACTACAACTTTAGGGATATAAGACTTGTGGC
1 TTTAATCTGCTCCACTACAACTTCAGGGAGATGAGACTTGTATC
* * *
12824807 TTCAATCTACCCCACTACAACTTCAGGGAG
1 TTTAATCTGCTCCACTACAACTTCAGGGAG
12824837 GGTAAGATTA
Statistics
Matches: 138, Mismatches: 21, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 60 0.43
45 37 0.27
47 2 0.01
49 36 0.26
50 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.31
Consensus pattern (44 bp):
TTTAATCTGCTCCACTACAACTTCAGGGAGATGAGACTTGTATC
Found at i:12824859 original size:45 final size:44
Alignment explanation
Indices: 12824729--12824861 Score: 115
Period size: 45 Copynumber: 3.0 Consensus size: 44
12824719 TTACTCTGCT
* * * * ** * * *
12824729 CCACTGCAACTTCAGGGAAATGAGATTTGCTATCTTCAGTCTGCT
1 CCACTACAACTTCAGGGAGATAAGACTTG-TGGCTTCAATCTACC
* *
12824774 CCACTACAACTTTAGGGATATAAGACTTGTGGCTTCAATCTACC
1 CCACTACAACTTCAGGGAGATAAGACTTGTGGCTTCAATCTACC
* *
12824818 CCACTACAACTTCAGGGAGGGTAAGA-TTAGTGGCTTTAATCTAC
1 CCACTACAACTTCAGGGA-GATAAGACTT-GTGGCTTCAATCTAC
12824862 TCCGCTGTAA
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
44 29 0.40
45 43 0.60
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (44 bp):
CCACTACAACTTCAGGGAGATAAGACTTGTGGCTTCAATCTACC
Found at i:12836787 original size:12 final size:11
Alignment explanation
Indices: 12836764--12836794 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
12836754 TGGAAATTTG
12836764 AAATAAATTAA
1 AAATAAATTAA
12836775 AAATAAGATTAA
1 AAATAA-ATTAA
12836787 AAATAAAT
1 AAATAAAT
12836795 ACTACATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (11 bp):
AAATAAATTAA
Found at i:12839886 original size:20 final size:20
Alignment explanation
Indices: 12839863--12839910 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
12839853 AATACTTAGA
* *
12839863 AAAATAATTTATAAAATATT
1 AAAATAAATAATAAAATATT
*
12839883 AAAATAAATAATCAAATATT
1 AAAATAAATAATAAAATATT
12839903 AAAATAAA
1 AAAATAAA
12839911 AAATGAAATG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAATAAATAATAAAATATT
Found at i:12839919 original size:20 final size:20
Alignment explanation
Indices: 12839876--12839919 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
12839866 ATAATTTATA
*
12839876 AAATATTAAAATAAATAATC
1 AAATATTAAAATAAAAAATC
*
12839896 AAATATTAAAATAAAAAATG
1 AAATATTAAAATAAAAAATC
12839916 AAAT
1 AAAT
12839920 GCGGAATACA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.27
Consensus pattern (20 bp):
AAATATTAAAATAAAAAATC
Found at i:12845879 original size:13 final size:13
Alignment explanation
Indices: 12845861--12845885 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12845851 TGATTGCAGA
12845861 TTTTTCTTCTTTC
1 TTTTTCTTCTTTC
12845874 TTTTTCTTCTTT
1 TTTTTCTTCTTT
12845886 GGATTCTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTCTTCTTTC
Found at i:12846783 original size:24 final size:24
Alignment explanation
Indices: 12846756--12846816 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
12846746 GAAGTTATCG
*
12846756 TGTATTATTATTCTA-AAATTATTA
1 TGTATTATTATT-TATAAATTATGA
* * *
12846780 TGTATTATTACTTATAAGTTATGC
1 TGTATTATTATTTATAAATTATGA
12846804 TGTATTATTATTT
1 TGTATTATTATTT
12846817 TATTATTTGT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
23 2 0.06
24 29 0.94
ACGTcount: A:0.31, C:0.05, G:0.08, T:0.56
Consensus pattern (24 bp):
TGTATTATTATTTATAAATTATGA
Found at i:12849156 original size:17 final size:18
Alignment explanation
Indices: 12849111--12849156 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
12849101 AACTATACGT
*
12849111 ATAATAA-TAATATTAAA
1 ATAATAACTAATAATAAA
*
12849128 ATGATAAC-AATAAT-AA
1 ATAATAACTAATAATAAA
12849144 ATAATAACTAATA
1 ATAATAACTAATA
12849157 CTATAATGCA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 9 0.38
17 15 0.62
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.30
Consensus pattern (18 bp):
ATAATAACTAATAATAAA
Found at i:12856101 original size:22 final size:22
Alignment explanation
Indices: 12856076--12856136 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 22
12856066 TCAACTGTTG
* *
12856076 TTTGTTGTTGTTTTTTTGTCAT
1 TTTGCTGTTGTTTTTTTGCCAT
* *
12856098 TTTGCTATTGTTTTGTTGCCAT
1 TTTGCTGTTGTTTTTTTGCCAT
* *
12856120 TGTACTGTTGTTTTTTT
1 TTTGCTGTTGTTTTTTT
12856137 TATCATTGTT
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.07, C:0.08, G:0.18, T:0.67
Consensus pattern (22 bp):
TTTGCTGTTGTTTTTTTGCCAT
Found at i:12859090 original size:27 final size:26
Alignment explanation
Indices: 12859059--12859113 Score: 83
Period size: 27 Copynumber: 2.1 Consensus size: 26
12859049 TAACTAAAAT
12859059 TAAATTGAATTAGAGAAACATATTAAA
1 TAAATTGAATTAGAG-AACATATTAAA
* *
12859086 TAAATTGGATTAGAGAATATATTAAA
1 TAAATTGAATTAGAGAACATATTAAA
12859112 TA
1 TA
12859114 TGAATGAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 12 0.46
27 14 0.54
ACGTcount: A:0.53, C:0.02, G:0.13, T:0.33
Consensus pattern (26 bp):
TAAATTGAATTAGAGAACATATTAAA
Found at i:12859343 original size:2 final size:2
Alignment explanation
Indices: 12859336--12859363 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
12859326 TATACAGGTA
12859336 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
12859364 TATTTTGCAA
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:12862338 original size:18 final size:18
Alignment explanation
Indices: 12862307--12862341 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
12862297 AATAGATTAA
*
12862307 GTTTACTATTTTTAAGTT
1 GTTTACTATGTTTAAGTT
*
12862325 GTTTATTATGTTTAAGT
1 GTTTACTATGTTTAAGT
12862342 GGCCATTAGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.03, G:0.14, T:0.60
Consensus pattern (18 bp):
GTTTACTATGTTTAAGTT
Found at i:12868289 original size:16 final size:17
Alignment explanation
Indices: 12868250--12868291 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
12868240 GATTACTAAT
12868250 ATTTTAATTTGTTTACA
1 ATTTTAATTTGTTTACA
* *
12868267 ATATTAATTT-TTTATA
1 ATTTTAATTTGTTTACA
12868283 ATTTTAATT
1 ATTTTAATT
12868292 CAATATACTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (17 bp):
ATTTTAATTTGTTTACA
Found at i:12868360 original size:29 final size:25
Alignment explanation
Indices: 12868313--12868364 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 25
12868303 ATTTAAAGTA
12868313 AATATATATAATAAAAATCTAAATAT
1 AATATATATAATAAAAATC-AAATAT
12868339 AATATAATATAATATAATAATCAAAT
1 AATAT-ATATAATA-AA-AATCAAAT
12868365 TAAGCCAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 5 0.22
27 8 0.35
28 6 0.26
29 4 0.17
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (25 bp):
AATATATATAATAAAAATCAAATAT
Found at i:12870339 original size:14 final size:13
Alignment explanation
Indices: 12870315--12870344 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
12870305 TAATTAATCA
12870315 TAATTAATTTAAT
1 TAATTAATTTAAT
12870328 TAATTAAGTTTAAT
1 TAATTAA-TTTAAT
12870342 TAA
1 TAA
12870345 AAAATAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (13 bp):
TAATTAATTTAAT
Found at i:12870343 original size:33 final size:32
Alignment explanation
Indices: 12870283--12870344 Score: 88
Period size: 33 Copynumber: 1.9 Consensus size: 32
12870273 GTCATTAGCT
* *
12870283 TAATTAATTAAATAGTTATGTTTAATTAATCA
1 TAATTAATTAAATAATTAAGTTTAATTAATCA
*
12870315 TAATTAATTTAATTAATTAAGTTTAATTAA
1 TAATTAA-TTAAATAATTAAGTTTAATTAA
12870345 AAAATAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 7 0.27
33 19 0.73
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (32 bp):
TAATTAATTAAATAATTAAGTTTAATTAATCA
Found at i:12877131 original size:14 final size:15
Alignment explanation
Indices: 12877112--12877147 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
12877102 ACTTTAACTT
12877112 TTAATTAAACA-TAA
1 TTAATTAAACATTAA
*
12877126 TTAATTAAATATTAA
1 TTAATTAAACATTAA
12877141 TTAATTA
1 TTAATTA
12877148 GGACTTAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (15 bp):
TTAATTAAACATTAA
Found at i:12878452 original size:40 final size:40
Alignment explanation
Indices: 12878392--12878470 Score: 113
Period size: 40 Copynumber: 2.0 Consensus size: 40
12878382 TACGTGGACA
*
12878392 CAAAGCGCGCTTACGAGGACGCGATTTGTTCCCACGTAGG
1 CAAAGCGCGCTGACGAGGACGCGATTTGTTCCCACGTAGG
* * * *
12878432 CAAAGCGCGCTGACGTGGACGCGTTTTGTTGCCATGTAG
1 CAAAGCGCGCTGACGAGGACGCGATTTGTTCCCACGTAG
12878471 CGCGCCCCTG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.20, C:0.25, G:0.32, T:0.23
Consensus pattern (40 bp):
CAAAGCGCGCTGACGAGGACGCGATTTGTTCCCACGTAGG
Found at i:12878634 original size:11 final size:11
Alignment explanation
Indices: 12878618--12878651 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
12878608 TCAATTATTT
12878618 TCTCAATTTCC
1 TCTCAATTTCC
*
12878629 TCTCAATTTGC
1 TCTCAATTTCC
12878640 TCTCAATTTCC
1 TCTCAATTTCC
12878651 T
1 T
12878652 TCCAAATTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.18, C:0.32, G:0.03, T:0.47
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:12878646 original size:22 final size:22
Alignment explanation
Indices: 12878614--12878667 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
12878604 TCTCTCAATT
12878614 ATTT-TCTCAATTTCC-TCTC-A
1 ATTTCTCTCAATTTCCTTC-CAA
12878634 ATTTGCTCTCAATTTCCTTCCAA
1 ATTT-CTCTCAATTTCCTTCCAA
12878657 ATTTCTCTCAA
1 ATTTCTCTCAA
12878668 ATCCATATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
20 4 0.13
22 19 0.63
23 7 0.23
ACGTcount: A:0.22, C:0.30, G:0.02, T:0.46
Consensus pattern (22 bp):
ATTTCTCTCAATTTCCTTCCAA
Found at i:12878707 original size:22 final size:22
Alignment explanation
Indices: 12878618--12878715 Score: 61
Period size: 22 Copynumber: 4.1 Consensus size: 22
12878608 TCAATTATTT
* *
12878618 TCTCAATTTCCTCTCAATTTGC
1 TCTCAATTTCCTCTTAATTTTC
**
12878640 TCTCAATTTCCTTCCAAATTTCTC
1 TCTCAATTTCC-TCTTAATTT-TC
** *
12878664 TCAAATCCATATTTAATTTTAATTTTC
1 TC---T-CA-ATTTCCTCTTAATTTTC
*
12878691 TCTCAATTTCCTCTTAAATTTC
1 TCTCAATTTCCTCTTAATTTTC
12878713 TCT
1 TCT
12878716 TAAATCCCTA
Statistics
Matches: 57, Mismatches: 12, Indels: 14
0.69 0.14 0.17
Matches are distributed among these distances:
22 27 0.47
23 9 0.16
24 4 0.07
27 5 0.09
28 8 0.14
29 4 0.07
ACGTcount: A:0.23, C:0.27, G:0.01, T:0.49
Consensus pattern (22 bp):
TCTCAATTTCCTCTTAATTTTC
Found at i:12880564 original size:18 final size:18
Alignment explanation
Indices: 12880541--12880583 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
12880531 TGCCAGGTGC
* *
12880541 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
12880559 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
12880577 GTTTCCT
1 GTATCCT
12880584 TTTTCGAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:12881113 original size:12 final size:12
Alignment explanation
Indices: 12881092--12881122 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
12881082 TATAAATTTA
*
12881092 TAATTTATAATT
1 TAATTGATAATT
12881104 TAATTGATAATT
1 TAATTGATAATT
12881116 TAATTGA
1 TAATTGA
12881123 CAAACCCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (12 bp):
TAATTGATAATT
Found at i:12881228 original size:64 final size:65
Alignment explanation
Indices: 12881149--12881347 Score: 282
Period size: 64 Copynumber: 3.1 Consensus size: 65
12881139 CCCTAACCCT
* * *
12881149 AACCCT-ATCCCTTAACTTAAAAACCCTAA-CATTAACTTAAAAACCTTAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCATAAACCCTTAACTTAAA
* * *
12881212 AACCCTAAACCCTTAACTT-AAAACCATAAACCCTTAACTTAAAAACCCT-AACCTTTAACTTAA
1 AACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAAAAACCATAAACCCTTAACTTAA
12881275 A
65 A
* *
12881276 AACCCTAAACCCTTAACTTAAAAAGCCTAACCCTTAACTT-AAAATCATAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCATAAACCCTTAACTTAAA
12881340 AACCCTAA
1 AACCCTAA
12881348 CCGTAACCCT
Statistics
Matches: 121, Mismatches: 10, Indels: 9
0.86 0.07 0.06
Matches are distributed among these distances:
63 19 0.16
64 80 0.66
65 22 0.18
ACGTcount: A:0.45, C:0.29, G:0.01, T:0.25
Consensus pattern (65 bp):
AACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCATAAACCCTTAACTTAAA
Found at i:12881249 original size:43 final size:43
Alignment explanation
Indices: 12881157--12881349 Score: 302
Period size: 43 Copynumber: 4.5 Consensus size: 43
12881147 CTAACCCTAT
* *
12881157 CCCTTAACTTAAAAACCCTAA-CATTAACTTAAAAACCTTAAA
1 CCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCATAAA
12881199 CCCTTAACTTAAAAACCCTAAACCCTTAACTT-AAAACCATAAA
1 CCCTTAACTTAAAAACCCT-AACCCTTAACTTAAAAACCATAAA
* *
12881242 CCCTTAACTTAAAAACCCTAACCTTTAACTTAAAAACCCTAAA
1 CCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCATAAA
* *
12881285 CCCTTAACTTAAAAAGCCTAACCCTTAACTT-AAAATCATAAA
1 CCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCATAAA
12881327 CCCTTAACTTAAAAACCCTAACC
1 CCCTTAACTTAAAAACCCTAACC
12881350 GTAACCCTTA
Statistics
Matches: 139, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
42 61 0.44
43 70 0.50
44 8 0.06
ACGTcount: A:0.45, C:0.30, G:0.01, T:0.25
Consensus pattern (43 bp):
CCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCATAAA
Found at i:12881349 original size:21 final size:22
Alignment explanation
Indices: 12881149--12881347 Score: 277
Period size: 21 Copynumber: 9.4 Consensus size: 22
12881139 CCCTAACCCT
*
12881149 AACCCT-ATCCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
*
12881170 AACCCT-AA-CATTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
*
12881190 AACCTTAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
12881212 AACCCTAAACCCTTAACTT-AA
1 AACCCTAAACCCTTAACTTAAA
*
12881233 AACCATAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
*
12881255 AACCCT-AACCTTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
12881276 AACCCTAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
*
12881298 AAGCCT-AACCCTTAACTT-AA
1 AACCCTAAACCCTTAACTTAAA
* *
12881318 AATCATAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
12881340 AACCCTAA
1 AACCCTAA
12881348 CCGTAACCCT
Statistics
Matches: 158, Mismatches: 14, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
20 22 0.14
21 73 0.46
22 63 0.40
ACGTcount: A:0.45, C:0.29, G:0.01, T:0.25
Consensus pattern (22 bp):
AACCCTAAACCCTTAACTTAAA
Found at i:12881356 original size:27 final size:27
Alignment explanation
Indices: 12881325--12881410 Score: 88
Period size: 27 Copynumber: 3.2 Consensus size: 27
12881315 TAAAATCATA
*
12881325 AACCCTTAACTTAAAAACCCTAACCGT
1 AACCCTTAACTTAAAAACCCTAACCCT
** *
12881352 AACCCTTAACTTAAAAATACCAAAACCTT
1 AACCCTTAACTT-AAAA-ACCCTAACCCT
*
12881381 AA-TCTTAAC--AAAAACCCTAACCCT
1 AACCCTTAACTTAAAAACCCTAACCCT
12881405 AACCCT
1 AACCCT
12881411 AACCCTAATA
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
24 10 0.21
25 6 0.12
27 12 0.25
28 10 0.21
29 10 0.21
ACGTcount: A:0.44, C:0.33, G:0.01, T:0.22
Consensus pattern (27 bp):
AACCCTTAACTTAAAAACCCTAACCCT
Found at i:12881402 original size:6 final size:6
Alignment explanation
Indices: 12881393--12881418 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
12881383 TCTTAACAAA
12881393 AACCCT AACCCT AACCCT AACCCT AA
1 AACCCT AACCCT AACCCT AACCCT AA
12881419 TATGATATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.38, C:0.46, G:0.00, T:0.15
Consensus pattern (6 bp):
AACCCT
Found at i:12881566 original size:112 final size:111
Alignment explanation
Indices: 12881416--12881628 Score: 372
Period size: 112 Copynumber: 1.9 Consensus size: 111
12881406 ACCCTAACCC
12881416 TAATATGATATAATTTGATAAATTTACTAACAATTAATACAATTAACAATTAATAATTTGACTAA
1 TAATATGATATAATTTGATAAATTTACTAACAATTAATACAATTAACAATTAATAATTTGA-TAA
12881481 CAAAATGTTAGATTTTACAAAATGTTTTGACTGGTACTAACAATTAA
65 CAAAATGTTAGATTTTACAAAATGTTTTGACTGGTACTAACAATTAA
* * * * *
12881528 TAATTTGATATAATTTGGTCATTTTACTAACAATTAATACAATTAACAATTAATAATTTTATAAC
1 TAATATGATATAATTTGATAAATTTACTAACAATTAATACAATTAACAATTAATAATTTGATAAC
12881593 AAAATGTTAGATTTTACAAAATGTTTTGACTGGTAC
66 AAAATGTTAGATTTTACAAAATGTTTTGACTGGTAC
12881629 AAAAAAATAT
Statistics
Matches: 96, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
111 40 0.42
112 56 0.58
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.39
Consensus pattern (111 bp):
TAATATGATATAATTTGATAAATTTACTAACAATTAATACAATTAACAATTAATAATTTGATAAC
AAAATGTTAGATTTTACAAAATGTTTTGACTGGTACTAACAATTAA
Found at i:12884899 original size:126 final size:125
Alignment explanation
Indices: 12884637--12884937 Score: 494
Period size: 126 Copynumber: 2.4 Consensus size: 125
12884627 CCCAAACATG
* * * * * *
12884637 CTACTGTAGCAAACGCGTGTCCACGAGGGCGCGATTTCATAAATTCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTTTTTTGATAAAGCATCCTGC
*
12884702 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
66 TTGAAGCGTTTTTTATACTATTTACTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
* * *
12884762 TTACTGTAGCAAAAGCGCGTCCACGTGAGCGTGATTTCAGAAATTTTTTTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTTTTTTGATAAAGCATCCTGC
*
12884827 TTGAAGTGTTTTTTTATACTATTTACTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
66 TTGAAGCG-TTTTTTATACTATTTACTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
12884888 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTTTTTT
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTTTTTT
12884938 TTTGTTAAAA
Statistics
Matches: 161, Mismatches: 14, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
125 63 0.39
126 98 0.61
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTTTTTTGATAAAGCATCCTGC
TTGAAGCGTTTTTTATACTATTTACTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
Found at i:12885092 original size:40 final size:40
Alignment explanation
Indices: 12885015--12885093 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 40
12885005 CAGGGGCGCG
* *
12885015 CTACGTGGTAACAAAACGCGTCCACGTCAGCGTGCTTTGC
1 CTACGTGGTAACAAAACGCGTCCACGTAAGCGCGCTTTGC
* * **
12885055 CTACGTTGTAACAAATCGCGTCCTTGTAAGCGCGCTTTG
1 CTACGTGGTAACAAAACGCGTCCACGTAAGCGCGCTTTG
12885094 TGTCCACGTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.27
Consensus pattern (40 bp):
CTACGTGGTAACAAAACGCGTCCACGTAAGCGCGCTTTGC
Found at i:12890721 original size:2 final size:2
Alignment explanation
Indices: 12890714--12890739 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
12890704 TTAAACTAAC
12890714 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
12890740 GTATTTGTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:12897470 original size:18 final size:18
Alignment explanation
Indices: 12897447--12897488 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
12897437 GCCAGGTGCA
*
12897447 TATCCTAGCCCTTATATG
1 TATCCTAACCCTTATATG
12897465 TATCCTAACCCTTATATG
1 TATCCTAACCCTTATATG
*
12897483 TTTCCT
1 TATCCT
12897489 TTTCCTAGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.21, C:0.29, G:0.07, T:0.43
Consensus pattern (18 bp):
TATCCTAACCCTTATATG
Found at i:12898872 original size:14 final size:14
Alignment explanation
Indices: 12898850--12898886 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
12898840 TATTAGTGGC
12898850 AATTAAATATTACA
1 AATTAAATATTACA
*
12898864 AATTGAATATTACA
1 AATTAAATATTACA
*
12898878 AATGAAATA
1 AATTAAATA
12898887 ATATTAGTGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.32
Consensus pattern (14 bp):
AATTAAATATTACA
Found at i:12900525 original size:50 final size:50
Alignment explanation
Indices: 12900450--12900592 Score: 196
Period size: 50 Copynumber: 2.8 Consensus size: 50
12900440 ATTTGGGTAA
*
12900450 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
12900500 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGACATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** *
12900550 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
12900593 TGTTATTATC
Statistics
Matches: 79, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
50 46 0.58
51 33 0.42
ACGTcount: A:0.26, C:0.24, G:0.30, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:12902114 original size:25 final size:25
Alignment explanation
Indices: 12902027--12902116 Score: 121
Period size: 25 Copynumber: 3.6 Consensus size: 25
12902017 ACCAACACCC
12902027 AACTTCTTCAATTT-ATATTCTTCTG
1 AACTTCTTCAATTTCA-ATTCTTCTG
* *
12902052 AACTTCTTCAATTTCTATTTTTCTG
1 AACTTCTTCAATTTCAATTCTTCTG
*
12902077 AACTTCTTCAATTTCAATTCTTATG
1 AACTTCTTCAATTTCAATTCTTCTG
12902102 AACTTCTAT-AATTTC
1 AACTTCT-TCAATTTC
12902117 TCTTGCTATA
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
25 57 0.98
26 1 0.02
ACGTcount: A:0.26, C:0.20, G:0.03, T:0.51
Consensus pattern (25 bp):
AACTTCTTCAATTTCAATTCTTCTG
Found at i:12902407 original size:125 final size:126
Alignment explanation
Indices: 12902185--12902858 Score: 940
Period size: 126 Copynumber: 5.4 Consensus size: 126
12902175 AAGCAGGATG
* * * * *
12902185 TACTGTAGAAAAAGAGCATCCAGGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCAACTTAC
1 TACTGTAGAAAAAGAGCGTCTAGGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCCTGC
* *
12902250 TTGAAGTGTTTTTGACACTATTTTTTCAGAACCATCTTCTCAAAATCATTTTTT-AGAAAC
66 TTGAAGCGTTTTTGACACTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTTCAGAAAC
* *
12902310 TACTGCAGAAAAAGAGCGTCTAGGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGAATCCTGC
1 TACTGTAGAAAAAGAGCGTCTAGGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCCTGC
** * * *
12902375 TTGAAGTTTTTTTGACATTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTCCAGAAAT
66 TTGAAGCGTTTTTGACACTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTTCAGAAAC
* * * * *
12902436 TACTGTAGAAAAAGAGCGTCAATGTGAGAGCTTTTTTCAGTACTTTTGCTAATAGTGCATCCTGC
1 TACTGTAGAAAAAGAGCGTCTAGGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCCTGC
* *
12902501 TTGAAGCATTTTTGACACTATTTTTTCAGAACCATCTTCTCAAAGTTATTTTTTCAGAAAC
66 TTGAAGCGTTTTTGACACTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTTCAGAAAC
12902562 TACTGTAGAAAAAGAGCGT-TAAGGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCCTG
1 TACTGTAGAAAAAGAGCGTCT-AGGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCCTG
* * *
12902626 CTGGAAGAGTTTTTGACACTATTTTTTCAGAATCATCTTCTCAAAATTATTTTTTCAGAAAC
65 CTTGAAGCGTTTTTGACACTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTTCAGAAAC
* * ** ** * * * * * *
12902688 TACTATAGAAAAATAAAGTCTATATGGGTG-TTTTTTTAGTACTTTTGCTAAAAGTGCATTCTCC
1 TACTGTAGAAAAAGAGCGTCTAGGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCCTGC
* * *
12902752 TTGAAGCGTTTTTAAGACTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTTCAAAAAC
66 TTGAAGCGTTTTTGACACTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTTCAGAAAC
* * *
12902813 TACTGTAGAAAAAGAGAGTCCAGGTGGGAGCTTTTTTCACTACTTT
1 TACTGTAGAAAAAGAGCGTCTAGGTGGGAGCTTTTTTCAGTACTTT
12902859 CGCCGACTAA
Statistics
Matches: 483, Mismatches: 62, Indels: 7
0.88 0.11 0.01
Matches are distributed among these distances:
125 215 0.45
126 267 0.55
127 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.38
Consensus pattern (126 bp):
TACTGTAGAAAAAGAGCGTCTAGGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCCTGC
TTGAAGCGTTTTTGACACTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTTCAGAAAC
Found at i:12902731 original size:251 final size:251
Alignment explanation
Indices: 12902212--12902858 Score: 929
Period size: 251 Copynumber: 2.6 Consensus size: 251
12902202 ATCCAGGTGG
* * * * *
12902212 GAGCTTTTTTCAGTACTTTTGCTGACAGTGCAACTTACTTGAAGTGTTTTTGACACTATTTTTTC
1 GAGCTTTTTTCAGTACTTTTGCTAAAAGTGCATCCTACTTGAAGCGTTTTTGACACTATTTTTTC
* *
12902277 AGAACCATCTTCTCAAAATCATTTTTT-AGAAACTACTGCAGAAAAAGAGCGTCTAGGTGGGAGC
66 AGAACCATCTTCTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCGT-TAGGTGGGAGC
* ** *
12902341 TTTTTTCAGTACTTTTGCTGACAGTGAATCCTGCTTGAAGTTTTTTTGACATTATTTTTTCAGAA
130 TTTTTTCAGTACTTTTGCTGACAGTGAATCCTGCTGGAAGAGTTTTTGACACTATTTTTTCAGAA
* * ** *
12902406 CCATCTTCTCAAAATTATTTTTCCAGAAATTACTGTAGAAAAAGAGCGTCAATGTGA
195 CCATCTTCTCAAAATTATTTTTCCAGAAACTACTATAGAAAAAGAAAGTCAATATGA
* * *
12902463 GAGCTTTTTTCAGTACTTTTGCTAATAGTGCATCCTGCTTGAAGCATTTTTGACACTATTTTTTC
1 GAGCTTTTTTCAGTACTTTTGCTAAAAGTGCATCCTACTTGAAGCGTTTTTGACACTATTTTTTC
*
12902528 AGAACCATCTTCTCAAAGTTATTTTTTCAGAAACTACTGTAGAAAAAGAGCGTTAAGGTGGGAGC
66 AGAACCATCTTCTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCGTT-AGGTGGGAGC
*
12902593 TTTTTTCAGTACTTTTGCTGACAGTGCATCCTGCTGGAAGAGTTTTTGACACTATTTTTTCAGAA
130 TTTTTTCAGTACTTTTGCTGACAGTGAATCCTGCTGGAAGAGTTTTTGACACTATTTTTTCAGAA
* * * * *
12902658 TCATCTTCTCAAAATTATTTTTTCAGAAACTACTATAGAAAAATAAAGTCTATATGG
195 CCATCTTCTCAAAATTATTTTTCCAGAAACTACTATAGAAAAAGAAAGTCAATATGA
* * * * * *
12902715 GTG-TTTTTTTAGTACTTTTGCTAAAAGTGCATTCTCCTTGAAGCGTTTTTAAGACTATTTTTTC
1 GAGCTTTTTTCAGTACTTTTGCTAAAAGTGCATCCTACTTGAAGCGTTTTTGACACTATTTTTTC
* * *
12902779 AGAACCATCTTCTCAAAATTATTTTTTCAAAAACTACTGTAGAAAAAGAGAGTCCAGGTGGGAGC
66 AGAACCATCTTCTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCGT-TAGGTGGGAGC
*
12902844 TTTTTTCACTACTTT
130 TTTTTTCAGTACTTT
12902859 CGCCGACTAA
Statistics
Matches: 355, Mismatches: 38, Indels: 6
0.89 0.10 0.02
Matches are distributed among these distances:
251 212 0.60
252 143 0.40
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.39
Consensus pattern (251 bp):
GAGCTTTTTTCAGTACTTTTGCTAAAAGTGCATCCTACTTGAAGCGTTTTTGACACTATTTTTTC
AGAACCATCTTCTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCGTTAGGTGGGAGCT
TTTTTCAGTACTTTTGCTGACAGTGAATCCTGCTGGAAGAGTTTTTGACACTATTTTTTCAGAAC
CATCTTCTCAAAATTATTTTTCCAGAAACTACTATAGAAAAAGAAAGTCAATATGA
Found at i:12903014 original size:28 final size:28
Alignment explanation
Indices: 12902948--12903080 Score: 117
Period size: 28 Copynumber: 4.6 Consensus size: 28
12902938 TAAAAACCCT
* * *
12902948 AAAACCTTAAACACAAATTTA-TTTTTA
1 AAAACCATAAACCCTAATTTATTTTTTA
*
12902975 AAAATCCCTAAACCCTAATTTATTTTTTA
1 AAAA-CCATAAACCCTAATTTATTTTTTA
* * *
12903004 TAAACAATAAATCCTAATTTAATTTATTTTTTA
1 AAAACCATAAA-CC----CTAATTTATTTTTTA
*
12903037 AAAACCATAAACCATAATTTA-TTTTTA
1 AAAACCATAAACCCTAATTTATTTTTTA
*
12903064 AAAACCCTAAACCCTAA
1 AAAACCATAAACCCTAA
12903081 ACATATAAAA
Statistics
Matches: 87, Mismatches: 12, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
27 25 0.29
28 26 0.30
29 11 0.13
32 2 0.02
33 23 0.26
ACGTcount: A:0.45, C:0.17, G:0.00, T:0.38
Consensus pattern (28 bp):
AAAACCATAAACCCTAATTTATTTTTTA
Found at i:12903032 original size:33 final size:33
Alignment explanation
Indices: 12902990--12903057 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
12902980 CCCTAAACCC
*
12902990 TAATTTATTTTTTATAAACAATAAATCC-TAATT
1 TAATTTATTTTTTAAAAACAATAAA-CCATAATT
*
12903023 TAATTTATTTTTTAAAAACCATAAACCATAATT
1 TAATTTATTTTTTAAAAACAATAAACCATAATT
12903056 TA
1 TA
12903058 TTTTTAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
32 2 0.06
33 30 0.94
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (33 bp):
TAATTTATTTTTTAAAAACAATAAACCATAATT
Found at i:12903939 original size:27 final size:27
Alignment explanation
Indices: 12903885--12903939 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
12903875 ATTTTAGTTT
* **
12903885 AATAGTTAACAGTAATTTTTTTTAAAA
1 AATAGTTAACAATAATTTACTTTAAAA
12903912 AATAGTTAACAATAATTTAACTTTAAAA
1 AATAGTTAACAATAATTT-ACTTTAAAA
12903940 TATAAAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 17 0.71
28 7 0.29
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.40
Consensus pattern (27 bp):
AATAGTTAACAATAATTTACTTTAAAA
Found at i:12914713 original size:19 final size:22
Alignment explanation
Indices: 12914689--12914745 Score: 75
Period size: 23 Copynumber: 2.7 Consensus size: 22
12914679 AAACCCTAAA
12914689 CCAAAACCCTAA-AACA-A-AC
1 CCAAAACCCTAATAACATACAC
12914708 CCAAAACCCTAATTAACATACAC
1 CCAAAACCCTAA-TAACATACAC
*
12914731 CCAAAACCGTAATAA
1 CCAAAACCCTAATAA
12914746 TAAAATCATT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
19 12 0.36
21 4 0.12
22 4 0.12
23 13 0.39
ACGTcount: A:0.53, C:0.33, G:0.02, T:0.12
Consensus pattern (22 bp):
CCAAAACCCTAATAACATACAC
Found at i:12914801 original size:18 final size:19
Alignment explanation
Indices: 12914778--12914815 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
12914768 CTAAAACACT
12914778 AATT-AATA-AACACTTAAA
1 AATTAAATAGAACAC-TAAA
12914796 AATTAAATAGAACACTAAA
1 AATTAAATAGAACACTAAA
12914815 A
1 A
12914816 CCCTAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
19 9 0.50
20 5 0.28
ACGTcount: A:0.63, C:0.11, G:0.03, T:0.24
Consensus pattern (19 bp):
AATTAAATAGAACACTAAA
Found at i:12914871 original size:41 final size:42
Alignment explanation
Indices: 12914806--12914888 Score: 114
Period size: 41 Copynumber: 2.0 Consensus size: 42
12914796 AATTAAATAG
* * * * *
12914806 AACACTAAAACCCTAATTTTATAAACCTTAAGCCCTAATTAA
1 AACACTAAAACCCCAATTTAATAAACCCTAAACCATAATTAA
12914848 AACACT-AAACCCCAATTTAATAAACCCTAAACCATAATTAA
1 AACACTAAAACCCCAATTTAATAAACCCTAAACCATAATTAA
12914889 CCAATTTAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 30 0.83
42 6 0.17
ACGTcount: A:0.48, C:0.25, G:0.01, T:0.25
Consensus pattern (42 bp):
AACACTAAAACCCCAATTTAATAAACCCTAAACCATAATTAA
Found at i:12914872 original size:22 final size:22
Alignment explanation
Indices: 12914796--12914886 Score: 73
Period size: 22 Copynumber: 4.2 Consensus size: 22
12914786 AACACTTAAA
*
12914796 AATTAAATAGAACACTAAAACCCT
1 AATTTAATA-AACACT-AAACCCT
* *
12914820 AATTTTATAAAC-CTTAAGCCCT
1 AATTTAATAAACAC-TAAACCCT
*
12914842 AA-TT-A-AAACACTAAACCCC
1 AATTTAATAAACACTAAACCCT
* *
12914861 AATTTAATAAACCCTAAACCAT
1 AATTTAATAAACACTAAACCCT
12914883 AATT
1 AATT
12914887 AACCAATTTA
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
19 12 0.22
20 4 0.07
21 3 0.06
22 24 0.44
23 4 0.07
24 7 0.13
ACGTcount: A:0.48, C:0.23, G:0.02, T:0.26
Consensus pattern (22 bp):
AATTTAATAAACACTAAACCCT
Found at i:12915882 original size:39 final size:38
Alignment explanation
Indices: 12915808--12915886 Score: 97
Period size: 39 Copynumber: 2.1 Consensus size: 38
12915798 TACAACGAAA
***
12915808 AAATAATTAACATTTTATTGTAATAAAATTTTAGAATT
1 AAATAATTAACATTTTATTGTAATAAAAGAATAGAATT
*
12915846 AAATAATTAAC-TTTATAATTTTAATAAAAGAATAGAATT
1 AAATAATTAACATTT-T-ATTGTAATAAAAGAATAGAATT
12915885 AA
1 AA
12915887 GCATTTGATT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
37 3 0.09
38 12 0.34
39 20 0.57
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.41
Consensus pattern (38 bp):
AAATAATTAACATTTTATTGTAATAAAAGAATAGAATT
Found at i:12920275 original size:27 final size:27
Alignment explanation
Indices: 12920237--12920290 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
12920227 TTGAATATGC
12920237 ATGAATGCATAGAATTGCCAAAACAAT
1 ATGAATGCATAGAATTGCCAAAACAAT
12920264 ATGAATGCATAGAATTGCCAAAACAAT
1 ATGAATGCATAGAATTGCCAAAACAAT
12920291 CAATCACCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.48, C:0.15, G:0.15, T:0.22
Consensus pattern (27 bp):
ATGAATGCATAGAATTGCCAAAACAAT
Found at i:12923251 original size:41 final size:41
Alignment explanation
Indices: 12923208--12923402 Score: 203
Period size: 41 Copynumber: 4.8 Consensus size: 41
12923198 GATACCATAT
* * ** *
12923208 CGGCATAAAGCCTACTAGACACAAATCCAAATATGATACAT
1 CGGCATAAAGCCTGCTAGACACAAAGCCTGATATGATACAC
* * * *
12923249 CGGCACAAAGCCTGCTAGGCATAAAGCCTGATATGGTACAC
1 CGGCATAAAGCCTGCTAGACACAAAGCCTGATATGATACAC
* * * *
12923290 CGGCATGAAGCCTGCTAGGCATAAAGCCTGATATAATTA-AC
1 CGGCATAAAGCCTGCTAGACACAAAGCCTGATATGA-TACAC
* * *
12923331 CGGCATAAAGCCTGCTAGACACAAAGCCTGTTATAATTCAC
1 CGGCATAAAGCCTGCTAGACACAAAGCCTGATATGATACAC
* * *
12923372 CGACATAAAGCCTGCTAGGCATAAAGCCTGA
1 CGGCATAAAGCCTGCTAGACACAAAGCCTGA
12923403 ATATTACTGA
Statistics
Matches: 130, Mismatches: 22, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
40 1 0.01
41 127 0.98
42 2 0.02
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.19
Consensus pattern (41 bp):
CGGCATAAAGCCTGCTAGACACAAAGCCTGATATGATACAC
Found at i:12923345 original size:82 final size:82
Alignment explanation
Indices: 12923249--12923402 Score: 227
Period size: 82 Copynumber: 1.9 Consensus size: 82
12923239 TATGATACAT
* * ** * *
12923249 CGGCACAAAGCCTGCTAGGCATAAAGCCTGATATGGTACACCGGCATGAAGCCTGCTAGGCATAA
1 CGGCACAAAGCCTGCTAGACACAAAGCCTGATATAATACACCGACATAAAGCCTGCTAGGCATAA
12923314 AGCCTGATATAATTAAC
66 AGCCTGATATAATTAAC
* * *
12923331 CGGCATAAAGCCTGCTAGACACAAAGCCTGTTATAATTCACCGACATAAAGCCTGCTAGGCATAA
1 CGGCACAAAGCCTGCTAGACACAAAGCCTGATATAATACACCGACATAAAGCCTGCTAGGCATAA
12923396 AGCCTGA
66 AGCCTGA
12923403 ATATTACTGA
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
82 63 1.00
ACGTcount: A:0.34, C:0.25, G:0.21, T:0.19
Consensus pattern (82 bp):
CGGCACAAAGCCTGCTAGACACAAAGCCTGATATAATACACCGACATAAAGCCTGCTAGGCATAA
AGCCTGATATAATTAAC
Found at i:12923862 original size:28 final size:26
Alignment explanation
Indices: 12923830--12923881 Score: 77
Period size: 28 Copynumber: 1.9 Consensus size: 26
12923820 TTTTTAATGT
12923830 TTATTATAACATAATAATATATTATACC
1 TTATTATAACAT--TAATATATTATACC
*
12923858 TTATTATAACATTTATATATTATA
1 TTATTATAACATTAATATATTATA
12923882 TTAATAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 11 0.48
28 12 0.52
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (26 bp):
TTATTATAACATTAATATATTATACC
Found at i:12929541 original size:21 final size:21
Alignment explanation
Indices: 12929511--12929553 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
12929501 CTAAAATTGA
*
12929511 TTAAACAATAATCTAAAAAAT
1 TTAAAAAATAATCTAAAAAAT
* *
12929532 TTAAAAAATATTTTAAAAAAT
1 TTAAAAAATAATCTAAAAAAT
12929553 T
1 T
12929554 AATTTTAAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (21 bp):
TTAAAAAATAATCTAAAAAAT
Found at i:12929546 original size:12 final size:14
Alignment explanation
Indices: 12929531--12929562 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
12929521 ATCTAAAAAA
12929531 TTTAAAAAA-T-AT
1 TTTAAAAAATTAAT
12929543 TTTAAAAAATTAAT
1 TTTAAAAAATTAAT
12929557 TTTAAA
1 TTTAAA
12929563 GATTTTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 9 0.50
13 1 0.06
14 8 0.44
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TTTAAAAAATTAAT
Found at i:12930171 original size:35 final size:35
Alignment explanation
Indices: 12930130--12930201 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
12930120 TTTTTACATG
12930130 ATTTGAGAGTCAATTAAAGTATTTTTATCAATGTC
1 ATTTGAGAGTCAATTAAAGTATTTTTATCAATGTC
12930165 ATTTGAGAGTCAATTAAAGTATTTTTATCAATGTC
1 ATTTGAGAGTCAATTAAAGTATTTTTATCAATGTC
12930200 AT
1 AT
12930202 CTTCTTCCAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.35, C:0.08, G:0.14, T:0.43
Consensus pattern (35 bp):
ATTTGAGAGTCAATTAAAGTATTTTTATCAATGTC
Found at i:12936418 original size:67 final size:67
Alignment explanation
Indices: 12936310--12936956 Score: 701
Period size: 67 Copynumber: 9.7 Consensus size: 67
12936300 ATAGGCTATA
** * *
12936310 ATGGGGTATAATGTGTAAGATTATAGCTCGACTATGGCAACATAGAGACTCCTCCAAGACATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTTCTCCAAGACATTAA
12936375 AC
66 AC
* *
12936377 ATGGGTTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAG-TCTGCCAGGACATTA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTTCT-CCAAGACATTA
12936441 AAC
65 AAC
* *
12936444 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGAAACATAGAGAG-TCTACCACGACATTA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTTCT-CCAAGACATTA
12936508 AAC
65 AAC
* * *
12936511 ATGGGGCATAATGTGTAAGACCATAGCTTGACTATGGCAACATAGAGAGTTCGCC-AGAACATTA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTTCTCCAAG-ACATTA
12936575 AAC
65 AAC
* * * * * * * * * *
12936578 ATGGGATATAATGTGTAAAACCATAGCTCAACAATTGCAATATAGAGAGTTTTCTAGGATATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTTCTCCAAGACATTAA
*
12936643 AT
66 AC
* * * * * * * *
12936645 ATGGGGTATAATCTGTGACACCATAGCTTGACTATGACAACATAGAAAATTCTCTAAGACATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTTCTCCAAGACATTAA
12936710 AC
66 AC
* * * * * *
12936712 ATAGGGTATAATGTGTAAAACCATATCTCGACTATGGTAACATAGAGAGTCCGT-CAGGACATTA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTTC-TCCAAGACATTA
12936776 AAC
65 AAC
** ** * * * *
12936779 ATAAGGTATAATGTGTAAGGTCATAGCTCGACTATGGAAAAATAAAGAGTTCGCCAAGACATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTTCTCCAAGACATTAA
12936844 AC
66 AC
* * * * * * * *
12936846 ATGGGATATAATGCGTAAGACCATAGCTTGGCTATGGAAACATAAAG-GGTCTGTCAAGACATTA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTTCT-CCAAGACATTA
12936910 AAC
65 AAC
* * * * *
12936913 ATGGGGTATGACGTGTAAGACCAAAGCTCGGCTATGGCAGCATA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATA
12936957 CGAACTCCAC
Statistics
Matches: 484, Mismatches: 89, Indels: 14
0.82 0.15 0.02
Matches are distributed among these distances:
66 6 0.01
67 474 0.98
68 4 0.01
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (67 bp):
ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTTCTCCAAGACATTAA
AC
Found at i:12950911 original size:67 final size:67
Alignment explanation
Indices: 12950803--12951118 Score: 323
Period size: 67 Copynumber: 4.7 Consensus size: 67
12950793 ATGGGTTATA
* * * *
12950803 ATGGGGTATAATGTGTAAGACCATAGCTTGGTTATGGCAACATAGAGAGTTTGCTAGAACATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGGCTATGGCAACATAGAGAGTCTGCCAGAACATTAA
12950868 AC
66 AC
* * * ** * * *
12950870 ATGGGGTTTAATGTGTAAGACCACATCTCAACTATGGCAACATAGAGAGTTTGCTAGGACATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGGCTATGGCAACATAGAGAGTCTGCCAGAACATTAA
12950935 AC
66 AC
* *** * *
12950937 ATAGGGTATAATGTGTAAGATTGT-GCTCGGCTATGGCAACATAGAGAGTCTGCCGGGACATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGGCTATGGCAACATAGAGAGTCTGCCAGAACATTAA
12951001 AC
66 AC
* * * * * * * ** *
12951003 ATGAGGTATAATATGTAAGATCATAGCTCAGCTATGGAAACATAAATAGTCCACCA-AGATATTA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGGCTATGGCAACATAGAGAGTCTGCCAGA-ACATTA
*
12951067 AGC
65 AAC
*
12951070 ATGGGGTATAATGTGTAAGACCATAGCTCGAG-TATGACAACATAGAGAG
1 ATGGGGTATAATGTGTAAGACCATAGCTCG-GCTATGGCAACATAGAGAG
12951119 CGAAACAATC
Statistics
Matches: 203, Mismatches: 43, Indels: 6
0.81 0.17 0.02
Matches are distributed among these distances:
66 55 0.27
67 147 0.72
68 1 0.00
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.26
Consensus pattern (67 bp):
ATGGGGTATAATGTGTAAGACCATAGCTCGGCTATGGCAACATAGAGAGTCTGCCAGAACATTAA
AC
Found at i:12951045 original size:133 final size:134
Alignment explanation
Indices: 12950806--12951118 Score: 351
Period size: 133 Copynumber: 2.3 Consensus size: 134
12950796 GGTTATAATG
* * * *
12950806 GGGTATAATGTGTAAGACCATAGCTTGGTTATGGCAACATAGAGAGTTTGCTAGAACATTAAACA
1 GGGTATAATGTGTAAGACCATAGCTCGGCTATGGCAACATAGAGAGTCTGCCAGAACATTAAACA
* * * * *
12950871 TGGGGTTTAATGTGTAAGACCACATCTCAACTATGGCAACATAGAGAGTTTGCTAGGACATTAAA
66 TGAGGTATAATATGTAAGACCACAGCTCAACTATGGAAACATAGAGAGTTTGCTAGGACATTAAA
12950936 CATA
131 CATA
*** * *
12950940 GGGTATAATGTGTAAGATTGT-GCTCGGCTATGGCAACATAGAGAGTCTGCCGGGACATTAAACA
1 GGGTATAATGTGTAAGACCATAGCTCGGCTATGGCAACATAGAGAGTCTGCCAGAACATTAAACA
* * * * * *** * * * *
12951004 TGAGGTATAATATGTAAGATCATAGCTCAGCTATGGAAACATAAATAGTCCACCAAGATATTAAG
66 TGAGGTATAATATGTAAGACCACAGCTCAACTATGGAAACATAGAGAGTTTGCTAGGACATTAAA
*
12951069 CATG
131 CATA
*
12951073 GGGTATAATGTGTAAGACCATAGCTCGAG-TATGACAACATAGAGAG
1 GGGTATAATGTGTAAGACCATAGCTCG-GCTATGGCAACATAGAGAG
12951119 CGAAACAATC
Statistics
Matches: 146, Mismatches: 31, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
133 106 0.73
134 39 0.27
135 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.26
Consensus pattern (134 bp):
GGGTATAATGTGTAAGACCATAGCTCGGCTATGGCAACATAGAGAGTCTGCCAGAACATTAAACA
TGAGGTATAATATGTAAGACCACAGCTCAACTATGGAAACATAGAGAGTTTGCTAGGACATTAAA
CATA
Found at i:12961801 original size:14 final size:14
Alignment explanation
Indices: 12961783--12961815 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
12961773 TTATTTTAAT
12961783 ATTTTT-TAATCTA
1 ATTTTTGTAATCTA
*
12961796 ATTTTTGTATTCTA
1 ATTTTTGTAATCTA
12961810 ATTTTT
1 ATTTTT
12961816 CGTTTGTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.24, C:0.06, G:0.03, T:0.67
Consensus pattern (14 bp):
ATTTTTGTAATCTA
Found at i:12973766 original size:21 final size:21
Alignment explanation
Indices: 12973742--12973783 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
12973732 TGATAGACCT
*
12973742 TTTTGACATAT-TCAATTTAAA
1 TTTTGAAATATAT-AATTTAAA
*
12973763 TTTTTAAATATATAATTTAAA
1 TTTTGAAATATATAATTTAAA
12973784 AAAAAATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (21 bp):
TTTTGAAATATATAATTTAAA
Found at i:12979327 original size:43 final size:43
Alignment explanation
Indices: 12979279--12979479 Score: 193
Period size: 43 Copynumber: 4.7 Consensus size: 43
12979269 CTGGTAAGTG
12979279 TTTTCGTGTAAGACCACGTCTGGGACGTTGG-ATTCGACTTGTA
1 TTTTCGTGTAAGACCACGTCTGGGACGTTGGCA-TCGACTTGTA
*
12979322 TTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATTTGTA
1 TTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTA
* *
12979365 TTTTCGTGTAAGACC-CTGTCTAGGACAG-TGACATCGA-TT-TA
1 TTTTCGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGACTTGTA
* * * *
12979406 TGATTACATATAA-ACCACGTCTGGGACAG-TGGCATCGATTTGTGA
1 T--TTTCGTGTAAGACCACGTCTGGGAC-GTTGGCATCGACTTGT-A
* * *
12979451 -TTACATGTAAAACCACGTCTGGGACGTTG
1 TTTTCGTGTAAGACCACGTCTGGGACGTTG
12979480 ACGTTGTACA
Statistics
Matches: 138, Mismatches: 9, Indels: 22
0.82 0.05 0.13
Matches are distributed among these distances:
41 3 0.02
42 34 0.25
43 97 0.70
44 3 0.02
45 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.32
Consensus pattern (43 bp):
TTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTA
Found at i:12990858 original size:54 final size:53
Alignment explanation
Indices: 12990734--12990860 Score: 141
Period size: 53 Copynumber: 2.4 Consensus size: 53
12990724 ACTTTCAAAG
* *
12990734 TTGGGACACAC-GACCGTATCCCAGCCTGTGTCATTGCCTGTGCAACTACTAAC
1 TTGGGACACACAG-CCGTGTCCCAGCCTGTGTCATTGCCCGTGCAACTACTAAC
* * * * *
12990787 TTGAGACACACAACCGTGTCCCAGCCTGTGTC-TCTGCCCGTGTAACTCTCTGAC
1 TTGGGACACACAGCCGTGTCCCAGCCTGTGTCAT-TGCCCGTGCAACT-ACTAAC
*
12990841 TTGGGTCACACAGCCGTGTC
1 TTGGGACACACAGCCGTGTC
12990861 GCAGGTCGTG
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
52 1 0.02
53 39 0.64
54 21 0.34
ACGTcount: A:0.20, C:0.33, G:0.22, T:0.25
Consensus pattern (53 bp):
TTGGGACACACAGCCGTGTCCCAGCCTGTGTCATTGCCCGTGCAACTACTAAC
Found at i:12993027 original size:15 final size:15
Alignment explanation
Indices: 12993009--12993046 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
12992999 TTCCATTTTA
12993009 ATTATTATTAATA-AT
1 ATTATTA-TAATACAT
12993024 ATTATTATAATACAT
1 ATTATTATAATACAT
12993039 ATATATTA
1 AT-TATTA
12993047 AAACTATCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 5 0.24
15 11 0.52
16 5 0.24
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTATTATAATACAT
Found at i:13003846 original size:52 final size:52
Alignment explanation
Indices: 13003768--13003872 Score: 192
Period size: 52 Copynumber: 2.0 Consensus size: 52
13003758 CTAGTGACAT
*
13003768 TGCCTCCCCGGAAACGGTGCCAACAACTTGATTGCCTCCGGACGTACTAACA
1 TGCCTCCCCAGAAACGGTGCCAACAACTTGATTGCCTCCGGACGTACTAACA
*
13003820 TGCCTCCCCAGCAACGGTGCCAACAACTTGATTGCCTCCGGACGTACTAACA
1 TGCCTCCCCAGAAACGGTGCCAACAACTTGATTGCCTCCGGACGTACTAACA
13003872 T
1 T
13003873 CTAGAGTGTG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.25, C:0.35, G:0.20, T:0.20
Consensus pattern (52 bp):
TGCCTCCCCAGAAACGGTGCCAACAACTTGATTGCCTCCGGACGTACTAACA
Found at i:13005610 original size:134 final size:133
Alignment explanation
Indices: 13005251--13005710 Score: 469
Period size: 134 Copynumber: 3.4 Consensus size: 133
13005241 AATTGACAAT
* * * * * * * * *
13005251 CTCTAATTGAATTGTGCATGATCGTAAATGAATAAACTTAAGCTATGATCGTAAACCAATGAGCT
1 CTCTAATTGAATCGTTCATGATCATAAATAAATGAACTTAAGCTGTGATCGTAAATCAGTGAACT
*
13005316 TTAATAATAT-GAGTTGTGATCGTAAATCAGCAAACTGTTTGAATGGAGTTGTGATCATAAATCG
66 TTAATAATATCGA-TTGTGATCGTAAATCAACAAACTGTTTGAATGGAGTTGTGATCATAAATCG
13005380 GTGAA
130 G-GAA
* * * * * * *
13005385 CTCTAATTGAATTGTTCATTATCATAAATCAATGAACTTAAGTTTTGATCGTAAATTAG-CAATC
1 CTCTAATTGAATCGTTCATGATCATAAATAAATGAACTTAAGCTGTGATCGTAAATCAGTGAA-C
* * * * ** * *
13005449 TTTAATAATACCAATTTTCATTTTAAATCATCAAACTGTTTGAATGGAGTTGTGATCGTAAATCA
65 TTTAATAATATCGATTGTGATCGTAAATCAACAAACTGTTTGAATGGAGTTGTGATCATAAATC-
13005514 GGGAA
129 GGGAA
*
13005519 CTCTAAGTGAATCGTTCATGATCATAAATAAATGAACTTAAGCTGTGATCGTAAATCAGTGAACT
1 CTCTAATTGAATCGTTCATGATCATAAATAAATGAACTTAAGCTGTGATCGTAAATCAGTGAACT
* * * * * * *
13005584 TTAATAATATCGATTGTGAACGTAAATCAAAAAATTGTTTGAATAGA-TTTTCATTCATAAATTG
66 TTAATAATATCGATTGTGATCGTAAATCAACAAACTGTTTGAATGGAGTTGTGA-TCATAAATCG
**
13005648 AATAA
130 -GGAA
* * * * *
13005653 CGCTAATTGAATTC-TTCATGATCGTAAATTAATGAACTTAAGGTGTGATTGTAAATCA
1 CTCTAATTGAA-TCGTTCATGATCATAAATAAATGAACTTAAGCTGTGATCGTAAATCA
13005711 ACAAACTGTT
Statistics
Matches: 268, Mismatches: 51, Indels: 14
0.80 0.15 0.04
Matches are distributed among these distances:
133 6 0.02
134 255 0.95
135 7 0.03
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (133 bp):
CTCTAATTGAATCGTTCATGATCATAAATAAATGAACTTAAGCTGTGATCGTAAATCAGTGAACT
TTAATAATATCGATTGTGATCGTAAATCAACAAACTGTTTGAATGGAGTTGTGATCATAAATCGG
GAA
Found at i:13008890 original size:42 final size:44
Alignment explanation
Indices: 13008831--13008950 Score: 131
Period size: 42 Copynumber: 2.8 Consensus size: 44
13008821 TCAAATATCG
* * *
13008831 ATGCCACTATCCCAGACAGGGTCTTACACGAAATTA-TATA-CA
1 ATGCCAATGTCCCAGACAGGGTCTTACACGAAATTATTAAATCA
* * *
13008873 ATGCCAATGTCCCAGACATGGTCTTACAC-ATAAATATTAAATCG
1 ATGCCAATGTCCCAGACAGGGTCTTACACGA-AATTATTAAATCA
*
13008917 ATGCCAACGTCCCAGAC-GAGGTCTTACACGAAAT
1 ATGCCAATGTCCCAGACAG-GGTCTTACACGAAAT
13008951 CACATATCAG
Statistics
Matches: 64, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
41 1 0.02
42 30 0.47
43 3 0.05
44 29 0.45
45 1 0.02
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (44 bp):
ATGCCAATGTCCCAGACAGGGTCTTACACGAAATTATTAAATCA
Done.