Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008522.1 Hibiscus syriacus cultivar Beakdansim tig00111390_pilon, whole genome shotgun sequence
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: 1416293
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 8
Found at i:936252 original size:13 final size:13
Alignment explanation
Indices: 936125--936254 Score: 61
Period size: 13 Copynumber: 9.6 Consensus size: 13
936115 ATTAAAAACA
936125 ATTATA-ATATAT
1 ATTATATATATAT
936137 ATATATATATATAT
1 AT-TATATATATAT
*
936151 ATTAATAAACTATAT
1 ATT-ATATA-TATAT
*
936166 AGTTCAT-TAGTATAC
1 A-TT-ATATA-TATAT
**
936181 A-TA-AGCTATAT
1 ATTATATATATAT
* *
936192 AGTATATATAAACT
1 ATTATATATATA-T
936206 ATTTATATAGTATAT
1 A-TTATATA-TATAT
* * *
936221 ACTACATATATAA
1 ATTATATATATAT
*
936234 ACTATATATATAT
1 ATTATATATATAT
936247 ATTATATA
1 ATTATATA
936255 GTTTACATAT
Statistics
Matches: 88, Mismatches: 19, Indels: 21
0.69 0.15 0.16
Matches are distributed among these distances:
11 5 0.06
12 5 0.06
13 32 0.36
14 19 0.22
15 20 0.23
16 7 0.08
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (13 bp):
ATTATATATATAT
Found at i:936278 original size:24 final size:24
Alignment explanation
Indices: 936251--936297 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
936241 ATATATATTA
936251 TATAGTTTACAT-ATGAACTATATC
1 TATAGTTTA-ATAATGAACTATATC
*
936275 TATAGTTTATTAATGAACTATAT
1 TATAGTTTAATAATGAACTATAT
936298 AAACTATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.45
Consensus pattern (24 bp):
TATAGTTTAATAATGAACTATATC
Found at i:936477 original size:54 final size:54
Alignment explanation
Indices: 936375--936478 Score: 145
Period size: 54 Copynumber: 1.9 Consensus size: 54
936365 TATGAACTAT
* * * *
936375 ATATATATATACTATATACTATAGTTGATATTTATATACTATATACTATAGTTG
1 ATATATATATACTATATAATATAGTTGATACTTATATAATATAGACTATAGTTG
* * *
936429 ATATTTATATACTATATAATATAGTTTATACTTATATAATTTAGACTATA
1 ATATATATATACTATATAATATAGTTGATACTTATATAATATAGACTATA
936479 TAAATTCAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 43 1.00
ACGTcount: A:0.40, C:0.07, G:0.06, T:0.47
Consensus pattern (54 bp):
ATATATATATACTATATAATATAGTTGATACTTATATAATATAGACTATAGTTG
Found at i:936478 original size:20 final size:19
Alignment explanation
Indices: 936436--936478 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
936426 TTGATATTTA
**
936436 TATACTATATAATATAGTT
1 TATACTATATAATATAGAC
*
936455 TATACTTATATAATTTAGAC
1 TATAC-TATATAATATAGAC
936475 TATA
1 TATA
936479 TAAATTCAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.47
Consensus pattern (19 bp):
TATACTATATAATATAGAC
Found at i:936478 original size:27 final size:27
Alignment explanation
Indices: 936375--936466 Score: 148
Period size: 27 Copynumber: 3.4 Consensus size: 27
936365 TATGAACTAT
*
936375 ATATATATATACTATATACTATAGTTG
1 ATATTTATATACTATATACTATAGTTG
936402 ATATTTATATACTATATACTATAGTTG
1 ATATTTATATACTATATACTATAGTTG
* *
936429 ATATTTATATACTATATAATATAGTTT
1 ATATTTATATACTATATACTATAGTTG
*
936456 ATACTTATATA
1 ATATTTATATA
936467 ATTTAGACTA
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 61 1.00
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.48
Consensus pattern (27 bp):
ATATTTATATACTATATACTATAGTTG
Found at i:936614 original size:13 final size:13
Alignment explanation
Indices: 936593--936632 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
936583 TATATCTTAC
*
936593 ATAAGAACTATAT
1 ATAAAAACTATAT
936606 ATAAAAACTATAT
1 ATAAAAACTATAT
* *
936619 ATATAAAGTATAT
1 ATAAAAACTATAT
936632 A
1 A
936633 AACTATAGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (13 bp):
ATAAAAACTATAT
Found at i:936662 original size:25 final size:26
Alignment explanation
Indices: 936616--936691 Score: 75
Period size: 27 Copynumber: 2.9 Consensus size: 26
936606 ATAAAAACTA
*
936616 TATATATAAAGTATATAAACTATAGTT
1 TATATATAAACTATAT-AACTATAGTT
*
936643 TATATATAAACTGTAT-ACTATAGTT
1 TATATATAAACTATATAACTATAGTT
* *
936668 GATATTTATATACTATATAA-TATA
1 --TATATATAAACTATATAACTATA
936692 TATAGTTTAT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
25 9 0.22
27 31 0.76
28 1 0.02
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (26 bp):
TATATATAAACTATATAACTATAGTT
Found at i:936702 original size:29 final size:31
Alignment explanation
Indices: 936656--936715 Score: 72
Period size: 29 Copynumber: 2.0 Consensus size: 31
936646 ATATAAACTG
*
936656 TATACTATAGTTGATATTTAT-ATACTATATAA
1 TATACTATAGTT-ATATTAATGA-ACTATATAA
936688 TATA-TATAGTT-TATTAATGAACTATATA
1 TATACTATAGTTATATTAATGAACTATATA
936716 TAGTGTATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
29 14 0.54
30 1 0.04
31 7 0.27
32 4 0.15
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.47
Consensus pattern (31 bp):
TATACTATAGTTATATTAATGAACTATATAA
Found at i:936713 original size:22 final size:22
Alignment explanation
Indices: 936688--936737 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
936678 TACTATATAA
*
936688 TATATATAGTTTATTAATGAAC
1 TATATATAGTGTATTAATGAAC
936710 TATATATAGTGTATTAATGAAC
1 TATATATAGTGTATTAATGAAC
936732 TATATA
1 TATATA
936738 ATTATTTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.42, C:0.04, G:0.10, T:0.44
Consensus pattern (22 bp):
TATATATAGTGTATTAATGAAC
Found at i:936749 original size:2 final size:2
Alignment explanation
Indices: 936732--936987 Score: 70
Period size: 2 Copynumber: 124.0 Consensus size: 2
936722 ATTAATGAAC
* *
936732 TA TA TA -A T- TA TT TA TA TA GTA TA TA T- TA TA TA TA TA AA CTA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA
* * * * *
936773 AA TA TA TA AA T- TA TA GTT TA TA TT TA TA TA CTA TA TA -A TG TA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA
* * * *
936815 GT- TA -A TA TT TA TA TA CTA TA TA T- TA TG TA TA TA AA CTC TA
1 -TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA
* * * *
936855 TA TA CTA TA TA GTT TA CA CA TGA -A CTA TA TA TA -A AA CTA TA TA
1 TA TA -TA TA TA -TA TA TA TA T-A TA -TA TA TA TA TA TA -TA TA TA
*
936898 TA TA TA TA TA TA TA TA TA TA TA AA CTA TA TA CTA TA GT- TGA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA -TA T-A TA
* *
936941 TT TA TA TA CTA TA TA CTA TA GT- TGA TA TT TA TA TA CTA TA TA -A
1 TA TA TA TA -TA TA TA -TA TA -TA T-A TA TA TA TA TA -TA TA TA TA
936984 TA TA
1 TA TA
936988 GTTTATACTT
Statistics
Matches: 187, Mismatches: 33, Indels: 68
0.65 0.11 0.24
Matches are distributed among these distances:
1 13 0.07
2 146 0.78
3 28 0.15
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (2 bp):
TA
Found at i:936756 original size:7 final size:6
Alignment explanation
Indices: 936732--936987 Score: 70
Period size: 7 Copynumber: 41.3 Consensus size: 6
936722 ATTAATGAAC
* * *
936732 TATATA -AT-TA TTTATA TAGTATA TAT-TA TATATA TAAACTA AATATA
1 TATATA TATATA TATATA TA-TATA TATATA TATATA TATA-TA TATATA
* * * * *
936779 TAAAT- TATAGTT TATATT TATATA CTATATA -ATGTA GT-TA-A TATTTA
1 TATATA TATA-TA TATATA TATATA -TATATA TATATA -TATATA TATATA
* * * * * *
936826 TATACTA TATAT- TATGTA TATAAA CTCTATA TACTATA TAGTTTA CACATGA
1 TATA-TA TATATA TATATA TATATA -TATATA TA-TATA TA-TATA TATAT-A
* *
936878 -ACTATA TATA-A AACTATA TATATA TATATA TATATA TATATA AACTATA
1 TA-TATA TATATA TA-TATA TATATA TATATA TATATA TATATA TA-TATA
* *
936927 TACTATA GT-TGATA TTTATA TACTATA TACTATA GT-TGATA TTTATA
1 TA-TATA -TAT-ATA TATATA TA-TATA TA-TATA -TAT-ATA TATATA
936974 TACTATA TA-ATA TA
1 TA-TATA TATATA TA
936988 GTTTATACTT
Statistics
Matches: 189, Mismatches: 31, Indels: 61
0.67 0.11 0.22
Matches are distributed among these distances:
4 3 0.02
5 28 0.15
6 75 0.40
7 81 0.43
8 2 0.01
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (6 bp):
TATATA
Found at i:936807 original size:27 final size:27
Alignment explanation
Indices: 936777--937002 Score: 100
Period size: 27 Copynumber: 8.0 Consensus size: 27
936767 AAACTAAATA
*
936777 TATAAATTATAGTTTATATTTATATAC
1 TATAAATTATAGTTAATATTTATATAC
*
936804 TATATAA-TGTAGTTAATATTTATATAC
1 TATA-AATTATAGTTAATATTTATATAC
* * *
936831 TATATATTAT-GTATATAAACTCTATATAC
1 TATAAATTATAGT-TA-ATA-TTTATATAC
* * * * * *
936860 TATATAGTTTACACATGAACTATATATAAAAC
1 TATA-A-ATTATA-GTTAA-TATTTAT-ATAC
* *
936892 TATATATATATATA-TATATATATATATAAAC
1 TATA-A-AT-TATAGT-TA-ATATTTATATAC
* * *
936923 TATATACTATAGTTGATATTTATATAC
1 TATAAATTATAGTTAATATTTATATAC
* * *
936950 TATATACTATAGTTGATATTTATATAC
1 TATAAATTATAGTTAATATTTATATAC
* *
936977 TATATAA-TATAGTTTATACTTATATA
1 TATA-AATTATAGTTAATATTTATATA
937003 ATTTATACTA
Statistics
Matches: 157, Mismatches: 26, Indels: 32
0.73 0.12 0.15
Matches are distributed among these distances:
26 3 0.02
27 88 0.56
28 10 0.06
29 14 0.09
31 17 0.11
32 20 0.13
33 5 0.03
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.46
Consensus pattern (27 bp):
TATAAATTATAGTTAATATTTATATAC
Found at i:937007 original size:15 final size:14
Alignment explanation
Indices: 936983--937022 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
936973 ATACTATATA
*
936983 ATATAGTTTATACTT
1 ATATAATTTATAC-T
936998 ATATAATTTATACT
1 ATATAATTTATACT
937012 ATATAAATTTA
1 ATAT-AATTTA
937023 GGGGCCCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 5 0.22
15 18 0.78
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (14 bp):
ATATAATTTATACT
Found at i:937009 original size:27 final size:27
Alignment explanation
Indices: 936892--937014 Score: 146
Period size: 27 Copynumber: 4.7 Consensus size: 27
936882 TATATAAAAC
*
936892 TATATA-TATATA-TATA-TAT-ATATA
1 TATATACTATATACTATAGT-TGATATT
*
936916 TATAAACTATATACTATAGTTGATATT
1 TATATACTATATACTATAGTTGATATT
936943 TATATACTATATACTATAGTTGATATT
1 TATATACTATATACTATAGTTGATATT
* * *
936970 TATATACTATATAATATAGTTTATACT
1 TATATACTATATACTATAGTTGATATT
* *
936997 TATATAATTTATACTATA
1 TATATACTATATACTATA
937015 TAAATTTAGG
Statistics
Matches: 86, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
24 5 0.06
25 6 0.07
26 5 0.06
27 70 0.81
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.48
Consensus pattern (27 bp):
TATATACTATATACTATAGTTGATATT
Found at i:937581 original size:139 final size:140
Alignment explanation
Indices: 937331--937610 Score: 544
Period size: 139 Copynumber: 2.0 Consensus size: 140
937321 TGTTCGTTGT
937331 CGAGCGAGGAACAAAACCCCTCAAAGCTTTTGTCGAGAATTGTCACCGTTCATCGTTAATTTCAG
1 CGAGCGAGGAACAAAACCCCTCAAAGCTTTTGTCGAGAATTGTCACCGTTCATCGTTAATTTCAG
937396 TCGGAAGTATCGTCGGTAATAACTCAATTTCAATTGGTTTTTCATCGATTCACGACGA-CGAGCA
66 TCGGAAGTATCGTCGGTAATAACTCAATTTCAATTGGTTTTTCATCGATTCACGACGACCGAGCA
937460 TCCGTTTACG
131 TCCGTTTACG
937470 CGAGCGAGGAACAAAACCCCTCAAAGCTTTTGTCGAGAATTGTCACCGTTCATCGTTAATTTCAG
1 CGAGCGAGGAACAAAACCCCTCAAAGCTTTTGTCGAGAATTGTCACCGTTCATCGTTAATTTCAG
937535 TCGGAAGTATCGTCGGTAATAACTCAATTTCAATTGGTTTTTCATCGATTCACGACGATCCGAGC
66 TCGGAAGTATCGTCGGTAATAACTCAATTTCAATTGGTTTTTCATCGATTCACGACGA-CCGAGC
937600 ATCCGTTTACG
130 ATCCGTTTACG
937611 ATACCTCCCG
Statistics
Matches: 139, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
139 123 0.88
141 16 0.12
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (140 bp):
CGAGCGAGGAACAAAACCCCTCAAAGCTTTTGTCGAGAATTGTCACCGTTCATCGTTAATTTCAG
TCGGAAGTATCGTCGGTAATAACTCAATTTCAATTGGTTTTTCATCGATTCACGACGACCGAGCA
TCCGTTTACG
Found at i:937928 original size:18 final size:18
Alignment explanation
Indices: 937905--937945 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
937895 ACCGGTCACA
*
937905 ACCCGACCCGACCCGTTG
1 ACCCGACCCAACCCGTTG
*
937923 ACCCGACCCAATCCGTTG
1 ACCCGACCCAACCCGTTG
937941 ACCCG
1 ACCCG
937946 TTGACCAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.20, C:0.49, G:0.20, T:0.12
Consensus pattern (18 bp):
ACCCGACCCAACCCGTTG
Found at i:939246 original size:17 final size:18
Alignment explanation
Indices: 939224--939257 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
939214 TTGAAAGGTC
*
939224 TGGAA-TAAATGATAAGT
1 TGGAATTAAATAATAAGT
939241 TGGAATTAAATAATAAG
1 TGGAATTAAATAATAAG
939258 ACAGAATAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.50, C:0.00, G:0.21, T:0.29
Consensus pattern (18 bp):
TGGAATTAAATAATAAGT
Found at i:940438 original size:24 final size:23
Alignment explanation
Indices: 940411--940497 Score: 102
Period size: 24 Copynumber: 3.7 Consensus size: 23
940401 TCTGATTTGA
* *
940411 ATTCTGTTATGATAGCTAACATGG
1 ATTCTGATATGATA-CTGACATGG
* *
940435 ATTCTGATCTGATATTGACATGG
1 ATTCTGATATGATACTGACATGG
* *
940458 ATTCTGATCTGATACATGACCTGG
1 ATTCTGATATGATAC-TGACATGG
940482 ATTCTGATATGATACT
1 ATTCTGATATGATACT
940498 TGACTTGAAT
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
23 22 0.40
24 33 0.60
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.38
Consensus pattern (23 bp):
ATTCTGATATGATACTGACATGG
Found at i:940471 original size:47 final size:48
Alignment explanation
Indices: 940411--940501 Score: 114
Period size: 47 Copynumber: 1.9 Consensus size: 48
940401 TCTGATTTGA
* *
940411 ATTCTGTTATGATAGC-TAACATGGATTCTGATCTGATA-TTGACATGG
1 ATTCTGATATGATA-CATAACATGGATTCTGATATGATACTTGACATGG
* * *
940458 ATTCTGATCTGATACATGACCTGGATTCTGATATGATACTTGAC
1 ATTCTGATATGATACATAACATGGATTCTGATATGATACTTGAC
940502 TTGAATTATG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
46 1 0.03
47 31 0.84
48 5 0.14
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.37
Consensus pattern (48 bp):
ATTCTGATATGATACATAACATGGATTCTGATATGATACTTGACATGG
Found at i:940518 original size:24 final size:24
Alignment explanation
Indices: 940429--940501 Score: 112
Period size: 24 Copynumber: 3.1 Consensus size: 24
940419 ATGATAGCTA
940429 ACATGGATTCTGATCTGATA-TTG
1 ACATGGATTCTGATCTGATACTTG
*
940452 ACATGGATTCTGATCTGATACATG
1 ACATGGATTCTGATCTGATACTTG
* *
940476 ACCTGGATTCTGATATGATACTTG
1 ACATGGATTCTGATCTGATACTTG
940500 AC
1 AC
940502 TTGAATTATG
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
23 20 0.44
24 25 0.56
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.36
Consensus pattern (24 bp):
ACATGGATTCTGATCTGATACTTG
Found at i:940626 original size:35 final size:35
Alignment explanation
Indices: 940580--940653 Score: 112
Period size: 35 Copynumber: 2.1 Consensus size: 35
940570 GGAGGAAGAA
* * *
940580 TACTTGGAGGCTCCTCGGCTTTGTGGTCAGGGCCT
1 TACTTGCAGGCTCCTCGACTTTGTGCTCAGGGCCT
*
940615 TACTTGCAGGCTCCTCGACTTTGTGCTCAGGGTCT
1 TACTTGCAGGCTCCTCGACTTTGTGCTCAGGGCCT
940650 TACT
1 TACT
940654 ATTCGTGACG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.11, C:0.27, G:0.28, T:0.34
Consensus pattern (35 bp):
TACTTGCAGGCTCCTCGACTTTGTGCTCAGGGCCT
Found at i:941355 original size:18 final size:18
Alignment explanation
Indices: 941324--941358 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
941314 ACATTAATTA
**
941324 ATAAACTATTTATATAAT
1 ATAAACTACATATATAAT
941342 ATAAACTACATATATAA
1 ATAAACTACATATATAA
941359 ACTATATATA
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:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (18 bp):
ATAAACTACATATATAAT
Found at i:941366 original size:9 final size:9
Alignment explanation
Indices: 941334--941436 Score: 52
Period size: 9 Copynumber: 10.8 Consensus size: 9
941324 ATAAACTATT
941334 TATATAATA
1 TATATAATA
*
941343 TAAACTACATA
1 TATA-TA-ATA
941354 TATA-AACTA
1 TATATAA-TA
941363 TATATAATA
1 TATATAATA
*
941372 TATAGT-TTA
1 TATA-TAATA
*
941381 CATATGAACTA
1 TATAT-AA-TA
941392 TATATAA-A
1 TATATAATA
*
941400 AACTATATATA
1 TA-TATA-ATA
941411 TATATATATA
1 TATATA-ATA
941421 TATATAA-A
1 TATATAATA
941429 GTATATAA
1 -TATATAA
941437 AGTATAGTTT
Statistics
Matches: 74, Mismatches: 8, Indels: 24
0.70 0.08 0.23
Matches are distributed among these distances:
8 5 0.07
9 33 0.45
10 22 0.30
11 14 0.19
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (9 bp):
TATATAATA
Found at i:941433 original size:27 final size:28
Alignment explanation
Indices: 941334--941578 Score: 102
Period size: 29 Copynumber: 8.7 Consensus size: 28
941324 ATAAACTATT
* *
941334 TATATA-ATATAAACTACATATATAAAC
1 TATATATATATAAACTATATATATATAC
* * * *
941361 TATATATAATATATAGTTTACATATGA-AC
1 TATATAT-ATATAAACTATATATAT-ATAC
941390 TATATATA-A-AAACTATATATATATA-
1 TATATATATATAAACTATATATATATAC
* * *
941415 TATATATATATAAAGTATATAAAGTATAG
1 TATATATATATAAACTATATATA-TATAC
* *
941444 T-T-TATATATAAACTGTA-A-ACTATAG
1 TATATATATATAAACTATATATA-TATAC
* *
941469 T-TGATATTTATATACTATATACTATATA-
1 TAT-ATATATATAAACTATATA-TATATAC
* * * * *
941497 TAGTTTACATATGAACTATATATAGTTTAT
1 TA-TATATATATAAACTATATATA-TATAC
941527 TA-ATGAACTATATAAACTATTTATATAGTATA-
1 TATAT--A-TATATAAACTA--TATATA-TATAC
941559 TATTATATATATAAACTATA
1 TA-TATATATATAAACTATA
941579 GTTTATATTT
Statistics
Matches: 167, Mismatches: 27, Indels: 46
0.70 0.11 0.19
Matches are distributed among these distances:
25 17 0.10
26 12 0.07
27 42 0.25
28 11 0.07
29 44 0.26
30 6 0.04
31 20 0.12
32 3 0.02
33 10 0.06
34 2 0.01
ACGTcount: A:0.47, C:0.06, G:0.05, T:0.42
Consensus pattern (28 bp):
TATATATATATAAACTATATATATATAC
Found at i:941514 original size:22 final size:22
Alignment explanation
Indices: 941489--941540 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
941479 TATACTATAT
941489 ACTATATATAGTTTACAT-ATGA
1 ACTATATATAGTTTA-ATAATGA
*
941511 ACTATATATAGTTTATTAATGA
1 ACTATATATAGTTTAATAATGA
941533 ACTATATA
1 ACTATATA
941541 AACTATTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
21 1 0.04
22 27 0.96
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (22 bp):
ACTATATATAGTTTAATAATGA
Found at i:941569 original size:29 final size:30
Alignment explanation
Indices: 941392--941578 Score: 100
Period size: 27 Copynumber: 6.5 Consensus size: 30
941382 ATATGAACTA
*
941392 TATATAAAAACTATATATATA-TATA-TA-
1 TATATATAAACTATATATATAGTATAGTAT
*
941419 TATATATAAAGTATATA-A-AGTATAGT-T
1 TATATATAAACTATATATATAGTATAGTAT
* *
941446 TATATATAAACTGTAAACTATAGT-T-GATAT
1 TATATATAAACTATATA-TATAGTATAG-TAT
941476 T-TATAT--ACTATATACTATA-TATAGT-T
1 TATATATAAACTATATA-TATAGTATAGTAT
* * * *
941502 TACATATGAAC--TATATATAGTTTATTAAT
1 TATATATAAACTATATATATAGTATAGT-AT
* *
941531 GAACTATATAAACTATTTATATAGTATA-TATT
1 -TA-TATATAAACTATATATATAGTATAGTA-T
941563 ATATATATAAACTATA
1 -TATATATAAACTATA
941579 GTTTATATTT
Statistics
Matches: 121, Mismatches: 18, Indels: 38
0.68 0.10 0.21
Matches are distributed among these distances:
25 1 0.01
26 12 0.10
27 55 0.45
28 2 0.02
29 11 0.09
30 6 0.05
31 20 0.17
32 3 0.02
33 11 0.09
ACGTcount: A:0.46, C:0.05, G:0.06, T:0.43
Consensus pattern (30 bp):
TATATATAAACTATATATATAGTATAGTAT
Found at i:941571 original size:20 final size:20
Alignment explanation
Indices: 941548--941602 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
941538 ATAAACTATT
*
941548 TATATAGTATATATTATATA
1 TATATACTATATATTATATA
* *
941568 TATAAACTATAGT-TTATATT
1 TATATACTATA-TATTATATA
*
941588 TTTATACTATATATT
1 TATATACTATATATT
941603 GTAGTTGATA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
19 1 0.04
20 26 0.93
21 1 0.04
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.53
Consensus pattern (20 bp):
TATATACTATATATTATATA
Found at i:941585 original size:27 final size:27
Alignment explanation
Indices: 941550--941674 Score: 121
Period size: 27 Copynumber: 4.7 Consensus size: 27
941540 AAACTATTTA
*
941550 TATAGTATATA-TTATATA-TATAAAC
1 TATAGTTTATATTTATATACTATAAAC
* * *
941575 TATAGTTTATATTTTTATACTATATAT
1 TATAGTTTATATTTATATACTATAAAC
* * *
941602 TGTAGTTGATATTTATATACTATATAC
1 TATAGTTTATATTTATATACTATAAAC
* *
941629 TACAGTTGATATTTATATACTATATAA-
1 TATAGTTTATATTTATATACTATA-AAC
* *
941656 TATAGCTTATACTTATATA
1 TATAGTTTATATTTATATA
941675 ATTTATACTA
Statistics
Matches: 82, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
25 10 0.12
26 6 0.07
27 65 0.79
28 1 0.01
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.49
Consensus pattern (27 bp):
TATAGTTTATATTTATATACTATAAAC
Found at i:941719 original size:15 final size:15
Alignment explanation
Indices: 941701--941733 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
941691 TTCAAAGTAT
941701 ATATTATAT-GTATGA
1 ATATTATATAGT-TGA
941716 ATATTATATAGTTGA
1 ATATTATATAGTTGA
941731 ATA
1 ATA
941734 CTTTAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 15 0.88
16 2 0.12
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.45
Consensus pattern (15 bp):
ATATTATATAGTTGA
Found at i:942672 original size:16 final size:15
Alignment explanation
Indices: 942642--942714 Score: 55
Period size: 16 Copynumber: 4.9 Consensus size: 15
942632 CTAACATGCA
942642 AACTATATAGTATATATT
1 AACTATATA--ATATA-T
942660 AACTATATAATATA-
1 AACTATATAATATAT
*
942674 AACTATGTAATATACT
1 AACTATATAATATA-T
* *
942690 AATTATTTAATATA-
1 AACTATATAATATAT
942704 AA--ATATAATAT
1 AACTATATAATAT
942715 GCAATTATTT
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
12 8 0.16
14 15 0.31
16 17 0.35
18 9 0.18
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (15 bp):
AACTATATAATATAT
Found at i:942701 original size:30 final size:30
Alignment explanation
Indices: 942641--942744 Score: 97
Period size: 30 Copynumber: 3.5 Consensus size: 30
942631 TCTAACATGC
* * *
942641 AAACTATATAGTATATATTAACTATATAATAT
1 AAACTATATA--ATATACTAATTATTTAATAT
*
942673 AAACTATGTAATATACTAATTATTTAATAT
1 AAACTATATAATATACTAATTATTTAATAT
* *
942703 AAA--ATATAATATGC-AATTATTTGATAT
1 AAACTATATAATATACTAATTATTTAATAT
*
942730 GAAACTATATGATAT
1 -AAACTATATAATAT
942745 GCAATGCAAC
Statistics
Matches: 61, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
27 12 0.20
28 12 0.20
30 28 0.46
32 9 0.15
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.40
Consensus pattern (30 bp):
AAACTATATAATATACTAATTATTTAATAT
Found at i:943398 original size:14 final size:14
Alignment explanation
Indices: 943381--943412 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
943371 TTGAAGATTT
*
943381 ATAACATAAGAATC
1 ATAAAATAAGAATC
943395 ATAAAATAAGAATC
1 ATAAAATAAGAATC
943409 ATAA
1 ATAA
943413 TTAATATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.62, C:0.09, G:0.06, T:0.22
Consensus pattern (14 bp):
ATAAAATAAGAATC
Found at i:944793 original size:20 final size:21
Alignment explanation
Indices: 944768--944901 Score: 130
Period size: 21 Copynumber: 6.5 Consensus size: 21
944758 TTTTCCCAAT
*
944768 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
944788 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
944809 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
944829 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
944850 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* * **
944870 TCACAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
944891 TCGCAATGCGA
1 TCGCAATGCGA
944902 TACTGACTAT
Statistics
Matches: 88, Mismatches: 23, Indels: 5
0.76 0.20 0.04
Matches are distributed among these distances:
20 42 0.48
21 46 0.52
ACGTcount: A:0.41, C:0.18, G:0.24, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:944813 original size:41 final size:41
Alignment explanation
Indices: 944768--944901 Score: 259
Period size: 41 Copynumber: 3.3 Consensus size: 41
944758 TTTTCCCAAT
944768 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
944809 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
*
944850 TCGCAATGCGAATAAGTAAATCACAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
944891 TCGCAATGCGA
1 TCGCAATGCGA
944902 TACTGACTAT
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
41 92 1.00
ACGTcount: A:0.41, C:0.18, G:0.24, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:944915 original size:20 final size:20
Alignment explanation
Indices: 944890--945004 Score: 115
Period size: 20 Copynumber: 5.7 Consensus size: 20
944880 AATTGGGAAA
*
944890 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * *
944910 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
* *
944931 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
944951 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
944971 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
944991 TTCGCAACGCGATA
1 ATCGCAACGCGATA
945005 ATACATAATC
Statistics
Matches: 81, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
19 2 0.02
20 64 0.79
21 13 0.16
22 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:944932 original size:41 final size:41
Alignment explanation
Indices: 944887--945024 Score: 154
Period size: 41 Copynumber: 3.4 Consensus size: 41
944877 GCGAATTGGG
* * *
944887 AAAATCGCAATGCGATACTGACTATCGCAATGCGATAATAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
* * *
944928 AAAATCGCAACGAGATACTTACTTTCGCAACGCGATACTGAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAAT-AC
** *
944970 --TTTCGCAACGCGATTCTGACTTTCGCAACGCGATAATAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
* *
945009 ATAATCGCAATGCGAT
1 AAAATCGCAACGCGAT
945025 TTTCAAAGCG
Statistics
Matches: 79, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
39 2 0.03
40 31 0.39
41 44 0.56
42 2 0.03
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (41 bp):
AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
Found at i:945342 original size:68 final size:64
Alignment explanation
Indices: 945230--945356 Score: 177
Period size: 62 Copynumber: 1.9 Consensus size: 64
945220 ACTCCCTATC
*
945230 TCCATCTCTCAGAGCCACCCTCACAGCAATGGAAAATCCCAAATCAACC-ACG-GGGTTTTGTT
1 TCCATCTCTCAGAGCCACCCTCACAGAAATGGAAAATCCCAAATCAACCAACGAGGGTTTTGTT
945292 TCCATCTCTCAGAGCCACCCTCACAATCAGAAATGGAAAATCAACCAAATCAACCAACGAGGGTT
1 TCCATCTCTCAGAGCCACCCT--C-A-CAGAAATGGAAAATC--CCAAATCAACCAACGAGGGTT
945357 AGTTTTTTAA
Statistics
Matches: 56, Mismatches: 1, Indels: 8
0.86 0.02 0.12
Matches are distributed among these distances:
62 21 0.38
64 1 0.02
65 1 0.02
66 14 0.25
68 11 0.20
69 3 0.05
70 5 0.09
ACGTcount: A:0.34, C:0.31, G:0.15, T:0.20
Consensus pattern (64 bp):
TCCATCTCTCAGAGCCACCCTCACAGAAATGGAAAATCCCAAATCAACCAACGAGGGTTTTGTT
Found at i:945555 original size:20 final size:20
Alignment explanation
Indices: 945530--945567 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
945520 CGATTCTCTC
945530 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
945550 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
945568 AGAAACTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:945758 original size:25 final size:24
Alignment explanation
Indices: 945704--945758 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
945694 TGTTTATTAT
* *
945704 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
945728 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
945754 TGTTT
1 TGTTT
945759 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:946899 original size:18 final size:18
Alignment explanation
Indices: 946878--946922 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
946868 TCCACTTCGG
**
946878 GAGCCATCACCTTGCCCA
1 GAGCCATCACCTCACCCA
*
946896 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
946914 GAGCCATCA
1 GAGCCATCA
946923 TCTGATCGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.42, G:0.16, T:0.16
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:947418 original size:20 final size:20
Alignment explanation
Indices: 947393--947438 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
947383 TAGTTTACTT
947393 TCGCAACACGAAAATGACTA
1 TCGCAACACGAAAATGACTA
** * *
947413 TCGCAATGCGGAAATGGCTA
1 TCGCAACACGAAAATGACTA
947433 TCGCAA
1 TCGCAA
947439 TGCGAAATGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (20 bp):
TCGCAACACGAAAATGACTA
Found at i:947447 original size:19 final size:20
Alignment explanation
Indices: 947404--947459 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
947394 CGCAACACGA
947404 AAATGACTATCGCAATGCGG
1 AAATGACTATCGCAATGCGG
*
947424 AAATGGCTATCGCAATGC-G
1 AAATGACTATCGCAATGCGG
**
947443 AAATGAAAATCGCAATG
1 AAATGACTATCGCAATG
947460 ACAAAATCGC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 15 0.47
20 17 0.53
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.20
Consensus pattern (20 bp):
AAATGACTATCGCAATGCGG
Found at i:947474 original size:33 final size:33
Alignment explanation
Indices: 947432--947524 Score: 143
Period size: 32 Copynumber: 2.8 Consensus size: 33
947422 GGAAATGGCT
*
947432 ATCGCAATGCGAAATGAAAATCGCAATGACAAA
1 ATCGCAATGCGAAATGAAAATTGCAATGACAAA
* *
947465 ATCGCAATGCAAAATG-AAATTGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATTGCAATGACAAA
*
947497 ATCGCAACGCGAAATGAAAATTGCAATG
1 ATCGCAATGCGAAATGAAAATTGCAATG
947525 CGATTTGTGT
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
32 28 0.53
33 25 0.47
ACGTcount: A:0.47, C:0.18, G:0.18, T:0.16
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATTGCAATGACAAA
Found at i:947479 original size:13 final size:13
Alignment explanation
Indices: 947444--947479 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 13
947434 CGCAATGCGA
947444 AATG-AAAATCGC
1 AATGCAAAATCGC
947456 AATGACAAAATCGC
1 AATG-CAAAATCGC
947470 AATGCAAAAT
1 AATGCAAAAT
947480 GAAATTGCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.18
13 6 0.27
14 12 0.55
ACGTcount: A:0.53, C:0.17, G:0.14, T:0.17
Consensus pattern (13 bp):
AATGCAAAATCGC
Found at i:947558 original size:14 final size:14
Alignment explanation
Indices: 947539--947596 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
947529 TTGTGTTTCG
947539 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
947553 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
947569 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
947585 CGTTGCGATTTT
1 CGTTGCGATTTT
947597 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 23 0.61
16 4 0.11
18 11 0.29
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:947573 original size:32 final size:33
Alignment explanation
Indices: 947534--947612 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
947524 GCGATTTGTG
947534 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
947566 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
*
947599 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
947613 AGCCATTTCC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 27 0.60
33 18 0.40
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.47
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
Found at i:947611 original size:19 final size:17
Alignment explanation
Indices: 947534--947612 Score: 62
Period size: 14 Copynumber: 4.8 Consensus size: 17
947524 GCGATTTGTG
947534 TTTCGCGTTGCGATTT--
1 TTTCGC-TTGCGATTTCA
*
947550 TGTCG-TTGCGATTTCA
1 TTTCGCTTGCGATTTCA
947566 TTTCGCGTTGCGATTT--
1 TTTCGC-TTGCGATTTCA
*
947582 TGTCG-TTGCGATTTTCA
1 TTTCGCTTGCGA-TTTCA
947599 TTTCGCATTGCGAT
1 TTTCGC-TTGCGAT
947613 AGCCATTTCC
Statistics
Matches: 50, Mismatches: 4, Indels: 16
0.71 0.06 0.23
Matches are distributed among these distances:
14 15 0.30
15 3 0.06
16 12 0.24
17 4 0.08
18 10 0.20
19 6 0.12
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.47
Consensus pattern (17 bp):
TTTCGCTTGCGATTTCA
Found at i:947631 original size:20 final size:19
Alignment explanation
Indices: 947597--947648 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 19
947587 TTGCGATTTT
*
947597 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
947616 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
947636 CATTTTCGCGTTG
1 CA-TTTCGCGTTG
947649 TGATTTTAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 5 0.17
20 21 0.72
21 3 0.10
ACGTcount: A:0.15, C:0.25, G:0.23, T:0.37
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:948473 original size:14 final size:14
Alignment explanation
Indices: 948454--948490 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
948444 GGAAATGACT
948454 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
948468 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
948482 ATCGCAACG
1 ATCGCAACG
948491 CGAAATGACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.41, C:0.24, G:0.27, T:0.08
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:948505 original size:47 final size:48
Alignment explanation
Indices: 948431--948523 Score: 143
Period size: 47 Copynumber: 2.0 Consensus size: 48
948421 CGAGATAATT
* * *
948431 AGAATCGCAACGCGGAAATGACTATCGCAACGAGAGAATCGCAACGAG
1 AGAATCGCAACGCGGAAATGACTATCGCAACCAGACAATCACAACGAG
*
948479 AGAATCGCAACGC-GAAATGACTATCGCGACCAGACAATCACAACG
1 AGAATCGCAACGCGGAAATGACTATCGCAACCAGACAATCACAACG
948524 CGAAATGAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 28 0.68
48 13 0.32
ACGTcount: A:0.40, C:0.26, G:0.24, T:0.11
Consensus pattern (48 bp):
AGAATCGCAACGCGGAAATGACTATCGCAACCAGACAATCACAACGAG
Found at i:948536 original size:19 final size:19
Alignment explanation
Indices: 948514--948583 Score: 97
Period size: 19 Copynumber: 3.7 Consensus size: 19
948504 GCGACCAGAC
*
948514 AATCACAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
948533 AATCGCAACCGCG-AATAAA
1 AATCGCAA-CGCGAAATGAA
948552 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
948571 AATCGCAATGCGA
1 AATCGCAACGCGA
948584 TTTTTGTTTC
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
18 4 0.09
19 37 0.82
20 4 0.09
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:948538 original size:33 final size:33
Alignment explanation
Indices: 948467--948578 Score: 98
Period size: 33 Copynumber: 3.2 Consensus size: 33
948457 GCAACGAGAG
* * * *
948467 AATCGCAACGAGAGAATCGCAACGCGAAATGAC
1 AATCGCAACCAGACAATCACAACGCGAAATGAA
* *
948500 TATCGCGACCAGACAATCACAACGCGAAATGAA
1 AATCGCAACCAGACAATCACAACGCGAAATGAA
* * *
948533 AATCGCAACCGCGAATAAAAATCGCAACGCGAAATGAA
1 AATCGCAA-C-C--A-GACAATCACAACGCGAAATGAA
948571 AATCGCAA
1 AATCGCAA
948579 TGCGATTTTT
Statistics
Matches: 63, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
33 33 0.52
34 1 0.02
35 1 0.02
37 1 0.02
38 27 0.43
ACGTcount: A:0.45, C:0.25, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACCAGACAATCACAACGCGAAATGAA
Found at i:948601 original size:19 final size:19
Alignment explanation
Indices: 948579--948623 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
948569 AAAATCGCAA
* *
948579 TGCGATTTTTGTTTCGCGT
1 TGCGATTTTTATTTCACGT
*
948598 TGCGTTTTTTATTTCACGT
1 TGCGATTTTTATTTCACGT
948617 TGCGATT
1 TGCGATT
948624 CTCTCGTTGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.09, C:0.16, G:0.22, T:0.53
Consensus pattern (19 bp):
TGCGATTTTTATTTCACGT
Found at i:949192 original size:20 final size:20
Alignment explanation
Indices: 949168--949281 Score: 113
Period size: 20 Copynumber: 5.7 Consensus size: 20
949158 CGCTATGTAA
* *
949168 ATCGCATTGCGAAAGTCAGA
1 ATCGCATTGCGATAGTCAGT
* *
949188 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * * *
949208 ATCTCGTTGCGATTTTGT-ATT
1 ATCGCATTGCGA--TAGTCAGT
*
949229 ATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGATAGTCAGT
949249 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
*
949269 ATCGTATTGCGAT
1 ATCGCATTGCGAT
949282 TTTCCCAATT
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
19 3 0.04
20 62 0.78
21 12 0.15
22 2 0.03
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:949266 original size:61 final size:61
Alignment explanation
Indices: 949168--949284 Score: 164
Period size: 61 Copynumber: 1.9 Consensus size: 61
949158 CGCTATGTAA
* * *
949168 ATCGCATTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATC-TCGTTGCGATTTTGTATT
1 ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGT-ATTGCGATTTTGTATT
* * *
949229 ATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATCGTATTGCGATTTT
1 ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGTATTGCGATTTT
949285 CCCAATTCGC
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
61 48 0.98
62 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (61 bp):
ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGTATTGCGATTTTGTATT
Found at i:950028 original size:42 final size:42
Alignment explanation
Indices: 949965--950064 Score: 121
Period size: 42 Copynumber: 2.4 Consensus size: 42
949955 TCAACTCGAG
* * * *
949965 CTTGA-ACTCAACTCGAGTTCTTAACTAGTCGAAACGAGCAA
1 CTTGATACTCAACTCGAGTTCTTAACAAGTAGAAACAAACAA
* * * *
950006 CTTGATACTTAACTTGATTTCTTAACAAGTAGAAACAAACTA
1 CTTGATACTCAACTCGAGTTCTTAACAAGTAGAAACAAACAA
950048 CTTGATACTCAACTCGA
1 CTTGATACTCAACTCGA
950065 AAAGCTAGCC
Statistics
Matches: 48, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
41 5 0.10
42 43 0.90
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (42 bp):
CTTGATACTCAACTCGAGTTCTTAACAAGTAGAAACAAACAA
Found at i:950988 original size:182 final size:181
Alignment explanation
Indices: 950575--951678 Score: 1520
Period size: 182 Copynumber: 6.1 Consensus size: 181
950565 GATACAATGA
* * * * * * *
950575 AAAATGGATCGACCCATAGCAATATTACAGGTACAAATATGACAAAATC-GGTC-CCAAAATGAC
1 AAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAA-CAGGTCTCAAAAATGAC
* * *
950638 AAAACTGGTAAAATGCTACCGGATATGTGTCG--AGTGTCGATAATTTAATCTAAGTATCAGA-A
65 AAAACCGG-AAAAAGCTACCGGATATGT-T-GAAAGTGTCGATAATTTAATATAAGTATC-GACA
*
950700 CTTTCTAAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATG
126 CTTTCTGAATTTAAAAGAGAAGAAGTTATAGC-CCTAAAAAGTGTCGACACTTTATG
* * *
950757 AAAAT-TATCGATCCTTACCAGTATAACAGGTAAAAATATGATAAAACAGGTCTCAAAAATGACA
1 AAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACAGGTCTCAAAAATGACA
* * *
950821 AAACCGGAAAAAGTTACCGGATATGTTAAAAGTGTCGATAATTTAATATAAGTATCGACACTTTT
66 AAACCGGAAAAAGCTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTC
* * * *
950886 TGAATTTAAAAGAGAAAAAGTTATTGCCCTTAAAAAGTGTTGATACTTTATG
131 TGAATTTAAAAGAGAAGAAGTTATAGCCC-TAAAAAGTGTCGACACTTTATG
*
950938 AAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACAGGTCTCAAAATTGACA
1 AAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACAGGTCTCAAAAATGACA
* * * *
951003 AAACC-AATAAAACGCTACCGGATATATTGAAAGTGTCGATAATTTAATATAAGTATTGAAACTT
66 AAACCGGA-AAAA-GCTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTT
* * * **
951067 TCTGAATTTAAAAGAGAAGAAGTTATAGTGCCTATAAAGTGTCGATACTTTAAA
129 TCTGAATTTAAAAGAGAAGAAGTTATAG-CCCTAAAAAGTGTCGACACTTTATG
* *
951121 AAAATATATCGATCCACAACAATATAACAGGTAAAAATATGATAAAACAGGTCTCAAAAATGACA
1 AAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACAGGTCTCAAAAATGACA
* * *** * * *
951186 AAACCGAAAAAAGTTATTAGTTATGTTAAAAGTGTCGATAATTTAATATAAGTATCGGCACTTTC
66 AAACCGGAAAAAGCTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTC
*
951251 TGAATTTAAAAGAGAAGAAGTTATAGTACCTAAAAAGTGTCGACACTTTATG
131 TGAATTTAAAAGAGAAGAAGTTATAG-CCCTAAAAAGTGTCGACACTTTATG
*
951303 AAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACAGGTCTCAAAATTGACA
1 AAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACAGGTCTCAAAAATGACA
* * * *
951368 AAACCAGTAAAATGCTACCGGATATATTGAAAGTGTCGATAATTTAATATTAGTATCGACACTTT
66 AAACC-GGAAAAAGCTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTT
*
951433 CTGAATTTAAAAGAGAAGAAGTTATAGCGGCTAAAAAGTGTCGACACTTTATG
130 CTGAATTTAAAAGAGAAGAAGTTATAGC-CCTAAAAAGTGTCGACACTTTATG
* * *
951486 AAAATGTATCGATCCTTACCAATATAACAGGTAAAAATATGATAAAACAGGTCTCAAAAATGATA
1 AAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACAGGTCTCAAAAATGACA
* * * *
951551 AAACCGGAAAAAGTTACCGAATATGTTGAAAGTGTTGATAATTTAATACAAGTATCGACACTTTC
66 AAACCGGAAAAAGCTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTC
* *
951616 TGAATTTAAAAGAAAAGAAGTTATAGCGCTTAAAAAGTGTCGACACTTTATG
131 TGAATTTAAAAGAGAAGAAGTTATAGC-CCTAAAAAGTGTCGACACTTTATG
951668 AAAATGTATCG
1 AAAATGTATCG
951679 CGTAATAAAT
Statistics
Matches: 822, Mismatches: 87, Indels: 26
0.88 0.09 0.03
Matches are distributed among these distances:
180 6 0.01
181 134 0.16
182 354 0.43
183 324 0.39
184 4 0.00
ACGTcount: A:0.44, C:0.13, G:0.16, T:0.28
Consensus pattern (181 bp):
AAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACAGGTCTCAAAAATGACA
AAACCGGAAAAAGCTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTC
TGAATTTAAAAGAGAAGAAGTTATAGCCCTAAAAAGTGTCGACACTTTATG
Found at i:951240 original size:365 final size:363
Alignment explanation
Indices: 950575--951678 Score: 1655
Period size: 365 Copynumber: 3.0 Consensus size: 363
950565 GATACAATGA
* * * * * * *
950575 AAAATGGATCGACCCATAGCAATATTACAGGTACAAATATGACAAAATC-GGTCCCAAAA-TGAC
1 AAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAA-CAGGTCTCAAAATTGAC
** * * *
950638 AAAACTGGTAAAATGCTACCGGATATGTGTCG--AGTGTCGATAATTTAATCTAAGTA-TCAGAA
65 AAAACCAGTAAAATGCTACCGGATATAT-T-GAAAGTGTCGATAATTTAATATAAGTATTGA-AA
*
950700 CTTTCTAAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATGAAAATTAT
127 CTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATGAAAATTAT
*
950765 CGATCCTTACCAGTATAACAGGTAAAAATATGATAAAACAGGTCTCAAAAATGACAAAACCGGAA
192 CGATCCTTACCAATATAACAGGTAAAAATATGATAAAACAGGTCTCAAAAATGACAAAACCGGAA
* *
950830 AAAGTTACCGGATATGTTAAAAGTGTCGATAATTTAATATAAGTATCGACACTTTTTGAATTTAA
257 AAAGTTA-CAGATATGTTAAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAA
* * *
950895 AAGAGAAAAAGTTATTGCCCTTAAAAAGTGTTGATACTTTATG
321 AAGAGAAAAAGTTATAGCCCTTAAAAAGTGTCGACACTTTATG
950938 AAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACAGGTCTCAAAATTGACA
1 AAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACAGGTCTCAAAATTGACA
* *
951003 AAACCAATAAAACGCTACCGGATATATTGAAAGTGTCGATAATTTAATATAAGTATTGAAACTTT
66 AAACCAGTAAAATGCTACCGGATATATTGAAAGTGTCGATAATTTAATATAAGTATTGAAACTTT
* * * **
951068 CTGAATTTAAAAGAGAAGAAGTTATAGTGCCTATAAAGTGTCGATACTTTAAAAAAATATATCGA
131 CTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATGAAAAT-TATCGA
** * *
951133 TCCACAACAATATAACAGGTAAAAATATGATAAAACAGGTCTCAAAAATGACAAAACCGAAAAAA
195 TCCTTACCAATATAACAGGTAAAAATATGATAAAACAGGTCTCAAAAATGACAAAACCGGAAAAA
* * *
951198 GTTATTAGTTATGTTAAAAGTGTCGATAATTTAATATAAGTATCGGCACTTTCTGAATTTAAAAG
260 GTTA-CAGATATGTTAAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAG
* *
951263 AGAAGAAGTTATAGTACC-TAAAAAGTGTCGACACTTTATG
324 AGAAAAAGTTATAG-CCCTTAAAAAGTGTCGACACTTTATG
951303 AAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACAGGTCTCAAAATTGACA
1 AAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACAGGTCTCAAAATTGACA
* * *
951368 AAACCAGTAAAATGCTACCGGATATATTGAAAGTGTCGATAATTTAATATTAGTATCGACACTTT
66 AAACCAGTAAAATGCTACCGGATATATTGAAAGTGTCGATAATTTAATATAAGTATTGAAACTTT
*
951433 CTGAATTTAAAAGAGAAGAAGTTATAGCGGCTAAAAAGTGTCGACACTTTATGAAAATGTATCGA
131 CTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATGAAAAT-TATCGA
*
951498 TCCTTACCAATATAACAGGTAAAAATATGATAAAACAGGTCTCAAAAATGATAAAACCGGAAAAA
195 TCCTTACCAATATAACAGGTAAAAATATGATAAAACAGGTCTCAAAAATGACAAAACCGGAAAAA
* * * *
951563 GTTACCGAATATGTTGAAAGTGTTGATAATTTAATACAAGTATCGACACTTTCTGAATTTAAAAG
260 GTTACAG-ATATGTTAAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAG
*
951628 A-AAAGAAGTTATAGCGCTTAAAAAGTGTCGACACTTTATG
324 AGAAA-AAGTTATAGCCCTTAAAAAGTGTCGACACTTTATG
951668 AAAATGTATCG
1 AAAATGTATCG
951679 CGTAATAAAT
Statistics
Matches: 668, Mismatches: 63, Indels: 18
0.89 0.08 0.02
Matches are distributed among these distances:
362 2 0.00
363 51 0.08
364 112 0.17
365 501 0.75
366 2 0.00
ACGTcount: A:0.44, C:0.13, G:0.16, T:0.28
Consensus pattern (363 bp):
AAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACAGGTCTCAAAATTGACA
AAACCAGTAAAATGCTACCGGATATATTGAAAGTGTCGATAATTTAATATAAGTATTGAAACTTT
CTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATGAAAATTATCGAT
CCTTACCAATATAACAGGTAAAAATATGATAAAACAGGTCTCAAAAATGACAAAACCGGAAAAAG
TTACAGATATGTTAAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAG
AAAAAGTTATAGCCCTTAAAAAGTGTCGACACTTTATG
Found at i:952072 original size:18 final size:19
Alignment explanation
Indices: 952042--952090 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
952032 CTTTTAGTTA
952042 ATATTTATAGGTA-AAAATG
1 ATATTT-TAGGTAGAAAATG
952061 ATATTTTAGGTAGAAAATG
1 ATATTTTAGGTAGAAAATG
952080 ATATTTTAGGT
1 ATATTTTAGGT
952091 TGCATAAATG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.21
19 23 0.79
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (19 bp):
ATATTTTAGGTAGAAAATG
Found at i:952363 original size:18 final size:18
Alignment explanation
Indices: 952340--952378 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
952330 TTGAAATGGT
952340 AATTGAATTA-AAACTTTA
1 AATTGAA-TACAAACTTTA
*
952358 AATTGAATACAAATTTTA
1 AATTGAATACAAACTTTA
952376 AAT
1 AAT
952379 GTTGACAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 2 0.11
18 17 0.89
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.38
Consensus pattern (18 bp):
AATTGAATACAAACTTTA
Found at i:954103 original size:22 final size:18
Alignment explanation
Indices: 954054--954092 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
954044 GAAAAAATTT
*
954054 GAAGAAGAGAAGATGGAG
1 GAAGAAGAAAAGATGGAG
954072 GAAGAAGAAAAGATGGAG
1 GAAGAAGAAAAGATGGAG
954090 GAA
1 GAA
954093 ATGAGGAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.41, T:0.05
Consensus pattern (18 bp):
GAAGAAGAAAAGATGGAG
Found at i:955592 original size:19 final size:19
Alignment explanation
Indices: 955566--955614 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
955556 AAATGCATGG
955566 TTAA-TTTGTATAAGATTT
1 TTAATTTTGTATAAGATTT
*
955584 TTAATTTTGTATACGATTT
1 TTAATTTTGTATAAGATTT
*
955603 ATAATTTTGTAT
1 TTAATTTTGTAT
955615 GTGAATTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
18 4 0.14
19 24 0.86
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TTAATTTTGTATAAGATTT
Found at i:956299 original size:199 final size:199
Alignment explanation
Indices: 955959--957250 Score: 2172
Period size: 199 Copynumber: 6.5 Consensus size: 199
955949 GTAAACTTAT
* *
955959 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
1 GTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACTATAATTATAATGTAATA
* * * *
956024 GGTAAATTACCAATATAACCGGTCTAATTATACCAGTTTTTGAGAAAACAAGTGTAAAAAAAGTA
66 GGTAGATTAGCAATATAACCGGTCTAAATATACCAGTTTTTGAGAAAACATGTGTAAAAAAAGTA
* * * *
956089 TCGACACAAATCGAACAAGTGTCGATACTTTTGGTCCATAATGTATTTCAAAACCAAGTGCACTA
131 TCGACACAAATCAAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAACCAAGTGCCCTA
956154 AAAA
196 AAAA
*
956158 GTGTCGATACATTTGTAACAAGTGTCGATCCTAAAAACATCGAAAACTATAATTATAATGTAATA
1 GTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACTATAATTATAATGTAATA
* *
956223 GGTAGATTAGCAATATTACCGGTCTAAATATACCGGTTTTTGAGAAAACATGTGTAAAAAAAGTA
66 GGTAGATTAGCAATATAACCGGTCTAAATATACCAGTTTTTGAGAAAACATGTGTAAAAAAAGTA
*
956288 TCGACACAAATCAAACAAGTGTCGATACTTTTTGTCCATAATGTATTTCAAAACCAAGTGCCCTA
131 TCGACACAAATCAAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAACCAAGTGCCCTA
956353 AAAA
196 AAAA
956357 GTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACTATAATTATAATGTAATA
1 GTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACTATAATTATAATGTAATA
* ** *
956422 GGTAGATTAGCAATATAATCGGTCTAAATATACTGGTTTTTGAGAAAACAGGTGTAAAAAAAGTA
66 GGTAGATTAGCAATATAACCGGTCTAAATATACCAGTTTTTGAGAAAACATGTGTAAAAAAAGTA
* * * *
956487 TCGACACAAATCGAACAAGTGTCGATACTTTTGGTCCATAATGTATTTCAAAACCAAGTGCACTA
131 TCGACACAAATCAAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAACCAAGTGCCCTA
956552 AAAA
196 AAAA
956556 GTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACTATAATTATAATGTAATA
1 GTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACTATAATTATAATGTAATA
* *
956621 GGTAGATTAGCAATATTACCGGTCTAAATATACCGGTTTTTGAGAAAACATGTGTAAAAAAAGTA
66 GGTAGATTAGCAATATAACCGGTCTAAATATACCAGTTTTTGAGAAAACATGTGTAAAAAAAGTA
956686 TCGACACAAATCAAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAACCAAGTGCCCTA
131 TCGACACAAATCAAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAACCAAGTGCCCTA
956751 AAAA
196 AAAA
* *
956755 GTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCAAAAACTATAATTATGATGTAATA
1 GTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACTATAATTATAATGTAATA
* * *
956820 GGTAGATTAGCAATATAACCGGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTACAAACAGTA
66 GGTAGATTAGCAATATAACCGGTCTAAATATACCAGTTTTTGAGAAAACATGTGTAAAAAAAGTA
*
956885 TTGACACAAATCAAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAACCAAGTGCCCTA
131 TCGACACAAATCAAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAACCAAGTGCCCTA
956950 AAAA
196 AAAA
* ** *
956954 GTGTCAATACATTTGTAACAAGTAACGATCCCAAAAATATCGAAAA-TCATAATTATAATGTAAT
1 GTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACT-ATAATTATAATGTAAT
* * * *
957018 ACGTAGATTAGCAATATAACTGGTCTAAATATACCAGTTTTTGAGAAAACATGTGTACAAACAGT
65 AGGTAGATTAGCAATATAACCGGTCTAAATATACCAGTTTTTGAGAAAACATGTGTAAAAAAAGT
* *
957083 ATCGACACAAATCAAACAAGTGTCAATACTTTTTTTCCAGAATGTATTTCAAAACCAAGTGCCCT
130 ATCGACACAAATCAAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAACCAAGTGCCCT
957148 AAAAA
195 AAAAA
* *
957153 GTGTCGATACATTTGTAACAAGTGTCGATCCCCAAAACATCGAAAACCATAATTATAATGTAATA
1 GTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACTATAATTATAATGTAATA
* *
957218 GGTAAATTAGCAATATAACCAGTCTAAATATAC
66 GGTAGATTAGCAATATAACCGGTCTAAATATAC
957251 TGATTTAAAT
Statistics
Matches: 1033, Mismatches: 58, Indels: 4
0.94 0.05 0.00
Matches are distributed among these distances:
198 1 0.00
199 1032 1.00
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.28
Consensus pattern (199 bp):
GTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACTATAATTATAATGTAATA
GGTAGATTAGCAATATAACCGGTCTAAATATACCAGTTTTTGAGAAAACATGTGTAAAAAAAGTA
TCGACACAAATCAAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAACCAAGTGCCCTA
AAAA
Found at i:957625 original size:15 final size:16
Alignment explanation
Indices: 957605--957641 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
957595 TTTCTCAAAT
957605 CTCTTCTC-AACCCAC
1 CTCTTCTCAAACCCAC
*
957620 CTCTTC-CAAACCCAG
1 CTCTTCTCAAACCCAC
957635 CTCTTCT
1 CTCTTCT
957642 GAGGAAATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 1 0.05
15 18 0.95
ACGTcount: A:0.19, C:0.49, G:0.03, T:0.30
Consensus pattern (16 bp):
CTCTTCTCAAACCCAC
Found at i:960226 original size:19 final size:21
Alignment explanation
Indices: 960181--960226 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
960171 TAACACAAAT
*
960181 AAAACAAGTGTCGATACATTT
1 AAAACAAGTGTCGATACATTA
960202 AAAACAAGTGTCGAT-CA-TA
1 AAAACAAGTGTCGATACATTA
960221 AAAACA
1 AAAACA
960227 TCGAAAAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 7 0.29
20 2 0.08
21 15 0.62
ACGTcount: A:0.50, C:0.15, G:0.13, T:0.22
Consensus pattern (21 bp):
AAAACAAGTGTCGATACATTA
Found at i:960526 original size:199 final size:197
Alignment explanation
Indices: 960186--963625 Score: 4861
Period size: 199 Copynumber: 17.3 Consensus size: 197
960176 CAAATAAAAC
**
960186 AAGTGTCGATACATTTAAAACAAGTGTCGATCATAAAAACATCGAAAAACATAATTATAATGTAA
1 AAGTGTCGATACATTTAAAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAA
* **
960251 TAGGTAAATTATTCATGTAAACGGTCTAAATATATCATTTTTTGAGAAAACAGGTGTA-AAACAA
66 TAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAC-A
* *
960315 GTATCAACACAAATCAAACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCAAAACCAAGTGCA
130 GTATCGACACAAAT-AAACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCAGAACCAAGTGCA
960380 CTAAA
194 C-AAA
* *
960385 AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
1 AAGTGTCGATACATTTAAAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAA
* *** * * *
960450 TAAGTAAATTAGAAATATAACCGGTCTAAATATACTGGTTTTTGAGAAAACAGGTGTACAAACAG
66 TAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAACAG
*
960515 TATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAGAACCAAGTGCAC
131 TATCGACACAAAT-AAACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCAGAACCAAGTGCAC
960580 ATAA
195 A-AA
*
960584 AAGTGTCGATACATTTAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAA
1 AAGTGTCGATACATTTAAAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAA
* ** *
960649 TAGGTAAATTATTCATGTAAACGGTCTTAATATACCATTTTTTTAGAAAACAGGTGTACAAACAG
66 TAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAACAG
* * * *
960714 TATCAACACAAATAGAATAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAGAACCAAGTGCAC
131 TATCGACACAAATA-AACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCAGAACCAAGTGCAC
960779 ATAA
195 A-AA
* *
960783 AAGTGTCGATACATTTAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATATTGTAA
1 AAGTGTCGATACATTTAAAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAA
* * * *
960848 TAGGTAAATT-TTCATGTAAACGGTCTAAATATACCGGTTTTTCAGAAAACATGTGTAAAAAAAG
66 TAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAACAG
* * * *
960912 TATCGATACAAATTAAACAATTGTCGATACTTTTGGTCCAAAATATATTTCAAAACCAAGTGCAC
131 TATCGACACAAA-TAAACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCAGAACCAAGTGCAC
960977 TAAA
195 -AAA
* * *
960981 AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGATAACCATAATTATAATGTAA
1 AAGTGTCGATACATTTAAAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAA
* * * * *
961046 TAGGTAGATTA-GCAATATAACCTGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAACA
66 TAGGTAAATTATTC-ATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAACA
* *
961110 TTATCGACACAAATAGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAGAACCAAGTGCA
130 GTATCGACACAAATA-AACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCAGAACCAAGTGCA
961175 CATAA
194 CA-AA
* *
961180 AAGTGTCGATACATTTAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATATTGTAA
1 AAGTGTCGATACATTTAAAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAA
* *
961245 TAGGTAAATTATTCATGTAAACGGTCTAAATATACTGGTTTTTGAGAAAACAGGTGTA-AAAAAG
66 TAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAACA-
* * *
961309 GTATCGATACAAATCAAACAATTGTCGATACTTTTGGTCCAAAATGTATTTCAAAACCAAGTGCA
130 GTATCGACACAAAT-AAACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCAGAACCAAGTGCA
961374 CTAAA
194 C-AAA
* * *
961379 AAGTGTTGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
1 AAGTGTCGATACATTTAAAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAA
*** * * * * *
961444 TAGGTAAATTAGAAATATAATCGGTCTAAATATATCGATTTTTGAGAAAACAGGTGTACAAACAA
66 TAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAACAG
* *
961509 TATCGACACAAATAGAACAAGTGTCGATACTTTTGGTACATAATGTATTTCAGAACCAAGTGCAC
131 TATCGACACAAATA-AACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCAGAACCAAGTGCAC
961574 ATAA
195 A-AA
* * *
961578 AAGTGTCGATACATTTAAAACAAGTGTCGATCTCGAAAACATCAAAAAACATAATTATAATGTAA
1 AAGTGTCGATACATTTAAAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAA
* * *
961643 TAGGTATATTATTCATGTAAACGGTCTAAATATACCGTTTTTTGAGAAAACAGGTGTA-AAAAAG
66 TAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAACAG
* *
961707 TATCGACACAAATCAAACAAGTGTAGATACTTTTGGTCCAAAATGTATTTCAAAACCAAGTGCAC
131 TATCGACACAAAT-AAACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCAGAACCAAGTGCAC
961772 TAAA
195 -AAA
** *
961776 AAGTGTCGATACATTTCTAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAA
1 AAGTGTCGATACATTTAAAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAA
* * * * * *
961841 TAGGTAGATTATTCATGTAAACGGTCTTAATATACTGGTTTTTTAGAAAACAGGTGTAGAAACAA
66 TAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAACAG
* * *
961906 TATCGACACAAATAGAATAAGTGTCGATACTTTTTGTCCATAATGTATTTCAGAACCAAGTGCAC
131 TATCGACACAAATA-AACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCAGAACCAAGTGCAC
961971 ATAA
195 A-AA
*
961975 AAGTGTCGATACATTTAAAACAAGTGTCGATCCCGAAAACATCGAAAAA-ATTAATTATAATGTA
1 AAGTGTCGATACATTTAAAACAAGTGTCGATCCCAAAAACATCGAAAAACA-TAATTATAATGTA
* * *
962039 ATAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTAAGAAAACAGGTGTAAAAAAA
65 ATAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAACA
*
962104 GTATCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCAAAACCAAGTGCA
130 GTATCGACACAAAT-AAACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCAGAACCAAGTGCA
962169 CTAAA
194 C-AAA
* *
962174 AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
1 AAGTGTCGATACATTTAAAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAA
*** * * * * *
962239 TAGGTAAATTAGAAATATAACCGGTCTACATATACCGGTTTTTTAGAAAACAGGTGTAAAAACAG
66 TAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAACAG
* * *
962304 TATCGACACAAATAGAATAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAGAACCAAGTGCAC
131 TATCGACACAAATA-AACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCAGAACCAAGTGCAC
962369 ATAA
195 A-AA
* * *
962373 AAGTGTCGATACATTTAAAACAAGTGTCGATCCCGAAAACATCAAAAAACATAATTATATTGTAA
1 AAGTGTCGATACATTTAAAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAA
* * *
962438 TAGGTAAATTATTCATGTAAACAGTCTAAATATACCGATTTTTGAGAAAACAGGTGTA-AAAAAG
66 TAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAACAG
* * *
962502 TATCGATACAAATCAAACAATTGTCGATACTTTTGGTCCAAAATGTATTTCAAAACCAAGTGCAC
131 TATCGACACAAAT-AAACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCAGAACCAAGTGCAC
962567 TAAA
195 -AAA
* * *
962571 AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGATAACCATAATTATAATGTAA
1 AAGTGTCGATACATTTAAAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAA
* * * * * * *
962636 TAGGTAGATTA-GCAATATAACCGGTCTAAATATACCAGTTTTTAAGAAAACAGGTGTACAAGCA
66 TAGGTAAATTATTC-ATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAACA
* * *
962700 GAATCAACACAAATAGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAGAACCAAGTGCA
130 GTATCGACACAAATA-AACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCAGAACCAAGTGCA
962765 CATAA
194 CA-AA
* * *
962770 AAGTGTCGATACATTTAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATATTTTAA
1 AAGTGTCGATACATTTAAAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAA
* *
962835 TAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTAAAAAAAG
66 TAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAACAG
* * * * *
962900 TATCGATACAAATCAATCAATTTTCGATACTTTTGGTCCAAAATGTATTTCAAAACCAAGTGCAC
131 TATCGACACAAAT-AAACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCAGAACCAAGTGCAC
962965 TAAA
195 -AAA
**
962969 AAGTGTCGATACATTTCTAACAAGTGTCGATCCCAAAAACATCG-AAAACTATAATTATAATGTA
1 AAGTGTCGATACATTTAAAACAAGTGTCGATCCCAAAAACATCGAAAAAC-ATAATTATAATGTA
* * * * * * *
963033 ATAGGTAGATTA-GCAATATAACCGGTCTAAATATACCAGTTTTTAAGAAAACAGATGTACAAAC
65 ATAGGTAAATTATTC-ATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAC
* * *
963097 AGTATCAACACAAATAGAACAAGTATCGATACTTTTGGTCCAGAATGTATTTCAGAACCAAGTGC
129 AGTATCGACACAAATA-AACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCAGAACCAAGTGC
963162 ACATAA
193 ACA-AA
** * * *
963168 AAGTGTCGATACATTTAAAACAAGTGTCGATATCGAAAATATCAAAAAACATAATTATAATGTAA
1 AAGTGTCGATACATTTAAAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAA
* * * * *
963233 TAGGTAAATTATTCATGTAAACGGCCTAGATATACCGGTTTTTAAGAAAACAGGTGTAAAAAAAG
66 TAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAACAG
* *
963298 TATCGACACAAATCAAACAAGTGTCGATACTTTTTGTCCAAAATGTATTTCAAAACCAAGTGCAC
131 TATCGACACAAAT-AAACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCAGAACCAAGTGCAC
963363 TAAA
195 -AAA
*
963367 AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATC-AAAAACCATAATTATAATGTA
1 AAGTGTCGATACATTTAAAACAAGTGTCGATCCCAAAAACATCGAAAAA-CATAATTATAATGTA
*** * * *
963431 ATAGGTAAATTAGAAATATAAGCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAATA
65 ATAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAACA
* *
963496 GTATCGACACAAATAGAATAAGTGTCGATACTTTTTGTCCAAAATGTATTTCAGAACCAAGTGCA
130 GTATCGACACAAATA-AACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCAGAACCAAGTGCA
963561 CAACA
194 CAA-A
* * *
963566 AAGTTTCGATATATTTATAAC-AGTTGTCGATCCCAAAAACATCGAAAAACATAATTATAA
1 AAGTGTCGATACATTTAAAACAAG-TGTCGATCCCAAAAACATCGAAAAACATAATTATAA
963626 CGAAATGTCT
Statistics
Matches: 2892, Mismatches: 300, Indels: 98
0.88 0.09 0.03
Matches are distributed among these distances:
197 1 0.00
198 559 0.19
199 2302 0.80
200 30 0.01
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (197 bp):
AAGTGTCGATACATTTAAAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAA
TAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAACAG
TATCGACACAAATAAACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCAGAACCAAGTGCACA
AA
Found at i:960761 original size:398 final size:397
Alignment explanation
Indices: 960186--963625 Score: 5367
Period size: 398 Copynumber: 8.6 Consensus size: 397
960176 CAAATAAAAC
* **
960186 AAGTGTCGATACATTTAAAACAAGTGTCGATCATAAAAACATCGAAAAACATAATTATAATGTAA
1 AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAA
* * * * *
960251 TAGGTAAATTATTCATGTAAACGGTCTAAATATATCATTTTTTGAGAAAACAGGTGTA-AAACAA
66 TAGGTAAATTA-ACATATAACCGGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTACAAAC-A
* * *
960315 GTATCAACACAAATCA-AACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCAAAACCAAGTGC
129 GTATCGACACAAAT-AGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAGAACCAAGTGC
* * *
960379 AC-TAAAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTAT
193 ACAT-AAAAGTGTCGATACATTTAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTAT
* *** * * *
960443 AATGTAATAAGTAAATTAGAAATATAACCGGTCTAAATATACTGGTTTTTGAGAAAACAGGTGTA
257 AATGTAATAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTA
* * * * *
960508 CAAACAGTATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAGAACCA
322 AAAAAAGTATCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCAAAACCA
960573 AGTGCAC-ATAA
387 AGTGCACTA-AA
* *
960584 AAGTGTCGATACATTTAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAA
1 AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAA
* * * * * *
960649 TAGGTAAATTATTCATGTAAACGGTCTTAATATACCATTTTTTTAGAAAACAGGTGTACAAACAG
66 TAGGTAAATTA-ACATATAACCGGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTACAAACAG
* * *
960714 TATCAACACAAATAGAATAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAGAACCAAGTGCAC
130 TATCGACACAAATAGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAGAACCAAGTGCAC
*
960779 ATAAAAGTGTCGATACATTTAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATATT
195 ATAAAAGTGTCGATACATTTAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAAT
* *
960844 GTAATAGGTAAATT-TTCATGTAAACGGTCTAAATATACCGGTTTTTCAGAAAACATGTGTAAAA
260 GTAATAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTAAAA
* * * *
960908 AAAGTATCGATACAAATTAAACAATTGTCGATACTTTTGGTCCAAAATATATTTCAAAACCAAGT
325 AAAGTATCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCAAAACCAAGT
960973 GCACTAAA
390 GCACTAAA
* *
960981 AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGATAACCATAATTATAATGTAA
1 AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAA
* * * * *
961046 TAGGTAGATTAGCAATATAACCTGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAACAT
66 TAGGTAAATTAAC-ATATAACCGGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTACAAACAG
961111 TATCGACACAAATAGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAGAACCAAGTGCAC
130 TATCGACACAAATAGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAGAACCAAGTGCAC
*
961176 ATAAAAGTGTCGATACATTTAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATATT
195 ATAAAAGTGTCGATACATTTAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAAT
*
961241 GTAATAGGTAAATTATTCATGTAAACGGTCTAAATATACTGGTTTTTGAGAAAACAGGTGTAAAA
260 GTAATAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTAAAA
* * *
961306 AAGGTATCGATACAAATCAAACAATTGTCGATACTTTTGGTCCAAAATGTATTTCAAAACCAAGT
325 AAAGTATCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCAAAACCAAGT
961371 GCACTAAA
390 GCACTAAA
* *
961379 AAGTGTTGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
1 AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAA
* * *
961444 TAGGTAAATTAGAAATATAATCGGTCTAAATATATC-GATTTTTGAGAAAACAGGTGTACAAACA
66 TAGGTAAATTA-ACATATAACCGGTCTAAATATACCAG-TTTTTGAGAAAACAGGTGTACAAACA
* * *
961508 ATATCGACACAAATAGAACAAGTGTCGATACTTTTGGTACATAATGTATTTCAGAACCAAGTGCA
129 GTATCGACACAAATAGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAGAACCAAGTGCA
* *
961573 CATAAAAGTGTCGATACATTTAAAACAAGTGTCGATCTCGAAAACATCAAAAAACATAATTATAA
194 CATAAAAGTGTCGATACATTTAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAA
* *
961638 TGTAATAGGTATATTATTCATGTAAACGGTCTAAATATACCGTTTTTTGAGAAAACAGGTGT-AA
259 TGTAATAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTAAA
*
961702 AAAAGTATCGACACAAATCAAACAAGTGTAGATACTTTTGGTCCAAAATGTATTTCAAAACCAAG
324 AAAAGTATCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCAAAACCAAG
961767 TGCACTAAA
389 TGCACTAAA
* *
961776 AAGTGTCGATACATTTCTAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAA
1 AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAA
* * * * * ** * * *
961841 TAGGTAGATTATTCATGTAAACGGTCTTAATATACTGGTTTTTTAGAAAACAGGTGTAGAAACAA
66 TAGGTAAATTA-ACATATAACCGGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTACAAACAG
* * *
961906 TATCGACACAAATAGAATAAGTGTCGATACTTTTTGTCCATAATGTATTTCAGAACCAAGTGCAC
130 TATCGACACAAATAGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAGAACCAAGTGCAC
961971 ATAAAAGTGTCGATACATTTAAAACAAGTGTCGATCCCGAAAACATCGAAAAA-ATTAATTATAA
195 ATAAAAGTGTCGATACATTTAAAACAAGTGTCGATCCCGAAAACATCGAAAAACA-TAATTATAA
*
962035 TGTAATAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTAAGAAAACAGGTGTAAA
259 TGTAATAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTAAA
962100 AAAAGTATCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCAAAACCAAG
324 AAAAGTATCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCAAAACCAAG
962165 TGCACTAAA
389 TGCACTAAA
*
962174 AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
1 AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAA
* * * * *
962239 TAGGTAAATTAGAAATATAACCGGTCTACATATACCGGTTTTTTAGAAAACAGGTGTAAAAACAG
66 TAGGTAAATTA-ACATATAACCGGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTACAAACAG
* *
962304 TATCGACACAAATAGAATAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAGAACCAAGTGCAC
130 TATCGACACAAATAGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAGAACCAAGTGCAC
* *
962369 ATAAAAGTGTCGATACATTTAAAACAAGTGTCGATCCCGAAAACATCAAAAAACATAATTATATT
195 ATAAAAGTGTCGATACATTTAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAAT
* *
962434 GTAATAGGTAAATTATTCATGTAAACAGTCTAAATATACCGATTTTTGAGAAAACAGGTGT-AAA
260 GTAATAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTAAAA
* *
962498 AAAGTATCGATACAAATCAAACAATTGTCGATACTTTTGGTCCAAAATGTATTTCAAAACCAAGT
325 AAAGTATCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCAAAACCAAGT
962563 GCACTAAA
390 GCACTAAA
* *
962571 AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGATAACCATAATTATAATGTAA
1 AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAA
* * * *
962636 TAGGTAGATTAGCAATATAACCGGTCTAAATATACCAGTTTTTAAGAAAACAGGTGTACAAGCAG
66 TAGGTAAATTAAC-ATATAACCGGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTACAAACAG
* *
962701 AATCAACACAAATAGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAGAACCAAGTGCAC
130 TATCGACACAAATAGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAGAACCAAGTGCAC
*
962766 ATAAAAGTGTCGATACATTTAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATATT
195 ATAAAAGTGTCGATACATTTAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAAT
*
962831 TTAATAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTAAAA
260 GTAATAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTAAAA
* * * *
962896 AAAGTATCGATACAAATCAATCAATTTTCGATACTTTTGGTCCAAAATGTATTTCAAAACCAAGT
325 AAAGTATCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCAAAACCAAGT
962961 GCACTAAA
390 GCACTAAA
*
962969 AAGTGTCGATACATTTCTAACAAGTGTCGATCCCAAAAACATCG-AAAACTATAATTATAATGTA
1 AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAAAC-ATAATTATAATGTA
* * * *
963033 ATAGGTAGATTAGCAATATAACCGGTCTAAATATACCAGTTTTTAAGAAAACAGATGTACAAACA
65 ATAGGTAAATTAAC-ATATAACCGGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTACAAACA
* *
963098 GTATCAACACAAATAGAACAAGTATCGATACTTTTGGTCCAGAATGTATTTCAGAACCAAGTGCA
129 GTATCGACACAAATAGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAGAACCAAGTGCA
** * *
963163 CATAAAAGTGTCGATACATTTAAAACAAGTGTCGATATCGAAAATATCAAAAAACATAATTATAA
194 CATAAAAGTGTCGATACATTTAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAA
* * *
963228 TGTAATAGGTAAATTATTCATGTAAACGGCCTAGATATACCGGTTTTTAAGAAAACAGGTGTAAA
259 TGTAATAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTAAA
*
963293 AAAAGTATCGACACAAATCAAACAAGTGTCGATACTTTTTGTCCAAAATGTATTTCAAAACCAAG
324 AAAAGTATCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCAAAACCAAG
963358 TGCACTAAA
389 TGCACTAAA
963367 AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATC-AAAAACCATAATTATAATGTA
1 AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAAA-CATAATTATAATGTA
* * * *
963431 ATAGGTAAATTAGAAATATAAGCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAATA
65 ATAGGTAAATTA-ACATATAACCGGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTACAAACA
* * *
963496 GTATCGACACAAATAGAATAAGTGTCGATACTTTTTGTCCAAAATGTATTTCAGAACCAAGTGCA
129 GTATCGACACAAATAGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAGAACCAAGTGCA
* * * *
963561 CA-ACAAAGTTTCGATATATTTATAAC-AGTTGTCGATCCCAAAAACATCGAAAAACATAATTAT
194 CATA-AAAGTGTCGATACATTTAAAACAAG-TGTCGATCCCGAAAACATCGAAAAACATAATTAT
963624 AA
257 AA
963626 CGAAATGTCT
Statistics
Matches: 2839, Mismatches: 183, Indels: 40
0.93 0.06 0.01
Matches are distributed among these distances:
396 2 0.00
397 1111 0.39
398 1719 0.61
399 7 0.00
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (397 bp):
AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAA
TAGGTAAATTAACATATAACCGGTCTAAATATACCAGTTTTTGAGAAAACAGGTGTACAAACAGT
ATCGACACAAATAGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAGAACCAAGTGCACA
TAAAAGTGTCGATACATTTAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATG
TAATAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTAAAAA
AAGTATCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCAAAACCAAGTG
CACTAAA
Found at i:961738 original size:795 final size:796
Alignment explanation
Indices: 960186--963625 Score: 5502
Period size: 795 Copynumber: 4.3 Consensus size: 796
960176 CAAATAAAAC
* ** *
960186 AAGTGTCGATACATTTAAAACAAGTGTCGATCATAAAAACATCGAAAAACATAATTATAATGTAA
1 AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
* * * * **
960251 TAGGTAAATTATTC-ATGTAAACGGTCTAAATATATCATTTTTTGAGAAAACAGGTGTA-AAACA
66 TAGGTAGATTA-GCAATATAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAC-
* *
960314 AGTATCAACACAAATCA-AACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCAAAACCAAGTG
129 AGTATCGACACAAAT-AGAACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCAGAACCAAGTG
* * *
960378 CAC-TAAAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTA
193 CACAT-AAAAGTGTCGATACATTTAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTA
* *** * * *
960442 TAATGTAATAAGTAAATTAGAAATATAACCGGTCTAAATATACTGGTTTTTGAGAAAACAGGTGT
257 TAATGTAATAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGT
* * * * *
960507 ACAAACAGTATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAGAACC
322 AAAAAAAGTATCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCAAAACC
* * *
960572 AAGTGCAC-ATAAAAGTGTCGATACATTTAAAACAAGTGTCGATCCCGAAAACATCGAAAAACAT
387 AAGTGCACTA-AAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCAT
*** * * * *
960636 AATTATAATGTAATAGGTAAATTATTCATGTAAACGGTCTTAATATACCATTTTTTTAGAAAACA
451 AATTATAATGTAATAGGTAAATTAGAAATATAACCGGTCTAAATATACCAGTTTTTTAGAAAACA
* *
960701 GGTGTACAAACAGTATCAACACAAATAGAATAAGTGTCGATACTTTTTGTCCAGAATGTATTTCA
516 GGTGTACAAACAGTATCAACACAAATAGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCA
*
960766 GAACCAAGTGCACATAAAAGTGTCGATACATTTAAAACAAGTGTCGATCCCGAAAACATCGAAAA
581 GAACCAAGTGCACATAAAAGTGTCGATACATTTAAAACAAGTGTCGATCCCGAAAACATCAAAAA
* *
960831 ACATAATTATATTGTAATAGGTAAATT-TTCATGTAAACGGTCTAAATATACCGGTTTTTCAGAA
646 ACATAATTATAATGTAATAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAA
* * * * *
960895 AACATGTGTAAAAAAAGTATCGATACAAATTAAACAATTGTCGATACTTTTGGTCCAAAATATAT
711 AACAGGTGTAAAAAAAGTATCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAAAATGTAT
960960 TTCAAAACCAAGTGCACTAAA
776 TTCAAAACCAAGTGCACTAAA
*
960981 AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGATAACCATAATTATAATGTAA
1 AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
* * *
961046 TAGGTAGATTAGCAATATAACCTGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAACAT
66 TAGGTAGATTAGCAATATAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAACAG
*
961111 TATCGACACAAATAGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAGAACCAAGTGCAC
131 TATCGACACAAATAGAACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCAGAACCAAGTGCAC
*
961176 ATAAAAGTGTCGATACATTTAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATATT
196 ATAAAAGTGTCGATACATTTAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAAT
*
961241 GTAATAGGTAAATTATTCATGTAAACGGTCTAAATATACTGGTTTTTGAGAAAACAGGTGTAAAA
261 GTAATAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTAAAA
* * *
961306 AAGGTATCGATACAAATCAAACAATTGTCGATACTTTTGGTCCAAAATGTATTTCAAAACCAAGT
326 AAAGTATCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCAAAACCAAGT
*
961371 GCACTAAAAAGTGTTGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTA
391 GCACTAAAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTA
* * *
961436 TAATGTAATAGGTAAATTAGAAATATAATCGGTCTAAATATATC-GATTTTTGAGAAAACAGGTG
456 TAATGTAATAGGTAAATTAGAAATATAACCGGTCTAAATATACCAG-TTTTTTAGAAAACAGGTG
* * * *
961500 TACAAACAATATCGACACAAATAGAACAAGTGTCGATACTTTTGGTACATAATGTATTTCAGAAC
520 TACAAACAGTATCAACACAAATAGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAGAAC
*
961565 CAAGTGCACATAAAAGTGTCGATACATTTAAAACAAGTGTCGATCTCGAAAACATCAAAAAACAT
585 CAAGTGCACATAAAAGTGTCGATACATTTAAAACAAGTGTCGATCCCGAAAACATCAAAAAACAT
* *
961630 AATTATAATGTAATAGGTATATTATTCATGTAAACGGTCTAAATATACCGTTTTTTGAGAAAACA
650 AATTATAATGTAATAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACA
*
961695 GGTGT-AAAAAAGTATCGACACAAATCAAACAAGTGTAGATACTTTTGGTCCAAAATGTATTTCA
715 GGTGTAAAAAAAGTATCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCA
961759 AAACCAAGTGCACTAAA
780 AAACCAAGTGCACTAAA
* * *
961776 AAGTGTCGATACATTTCTAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAA
1 AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
* * * * * *
961841 TAGGTAGATTATTC-ATGTAAACGGTCTTAATATACTGGTTTTTTAGAAAACAGGTGTAGAAACA
66 TAGGTAGATTA-GCAATATAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAACA
* * * *
961905 ATATCGACACAAATAGAATAAGTGTCGATACTTTTTGTCCATAATGTATTTCAGAACCAAGTGCA
130 GTATCGACACAAATAGAACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCAGAACCAAGTGCA
961970 CATAAAAGTGTCGATACATTTAAAACAAGTGTCGATCCCGAAAACATCGAAAAA-ATTAATTATA
195 CATAAAAGTGTCGATACATTTAAAACAAGTGTCGATCCCGAAAACATCGAAAAACA-TAATTATA
*
962034 ATGTAATAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTAAGAAAACAGGTGTAA
259 ATGTAATAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTAA
962099 AAAAAGTATCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCAAAACCAA
324 AAAAAGTATCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCAAAACCAA
962164 GTGCACTAAAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAAT
389 GTGCACTAAAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAAT
* *
962229 TATAATGTAATAGGTAAATTAGAAATATAACCGGTCTACATATACCGGTTTTTTAGAAAACAGGT
454 TATAATGTAATAGGTAAATTAGAAATATAACCGGTCTAAATATACCAGTTTTTTAGAAAACAGGT
* * * *
962294 GTAAAAACAGTATCGACACAAATAGAATAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAGAA
519 GTACAAACAGTATCAACACAAATAGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAGAA
962359 CCAAGTGCACATAAAAGTGTCGATACATTTAAAACAAGTGTCGATCCCGAAAACATCAAAAAACA
584 CCAAGTGCACATAAAAGTGTCGATACATTTAAAACAAGTGTCGATCCCGAAAACATCAAAAAACA
* * *
962424 TAATTATATTGTAATAGGTAAATTATTCATGTAAACAGTCTAAATATACCGATTTTTGAGAAAAC
649 TAATTATAATGTAATAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAAC
* *
962489 AGGTGT-AAAAAAGTATCGATACAAATCAAACAATTGTCGATACTTTTGGTCCAAAATGTATTTC
714 AGGTGTAAAAAAAGTATCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAAAATGTATTTC
962553 AAAACCAAGTGCACTAAA
779 AAAACCAAGTGCACTAAA
*
962571 AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGATAACCATAATTATAATGTAA
1 AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
* * * *
962636 TAGGTAGATTAGCAATATAACCGGTCTAAATATACCAGTTTTTAAGAAAACAGGTGTACAAGCAG
66 TAGGTAGATTAGCAATATAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAACAG
* * *
962701 AATCAACACAAATAGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAGAACCAAGTGCAC
131 TATCGACACAAATAGAACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCAGAACCAAGTGCAC
*
962766 ATAAAAGTGTCGATACATTTAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATATT
196 ATAAAAGTGTCGATACATTTAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAAT
*
962831 TTAATAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTAAAA
261 GTAATAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTAAAA
* * * *
962896 AAAGTATCGATACAAATCAATCAATTTTCGATACTTTTGGTCCAAAATGTATTTCAAAACCAAGT
326 AAAGTATCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCAAAACCAAGT
* *
962961 GCACTAAAAAGTGTCGATACATTTCTAACAAGTGTCGATCCCAAAAACATCGAAAACTATAATTA
391 GCACTAAAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTA
* * * *
963026 TAATGTAATAGGTAGATTAGCAATATAACCGGTCTAAATATACCAGTTTTTAAGAAAACAGATGT
456 TAATGTAATAGGTAAATTAGAAATATAACCGGTCTAAATATACCAGTTTTTTAGAAAACAGGTGT
*
963091 ACAAACAGTATCAACACAAATAGAACAAGTATCGATACTTTTGGTCCAGAATGTATTTCAGAACC
521 ACAAACAGTATCAACACAAATAGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAGAACC
** *
963156 AAGTGCACATAAAAGTGTCGATACATTTAAAACAAGTGTCGATATCGAAAATATCAAAAAACATA
586 AAGTGCACATAAAAGTGTCGATACATTTAAAACAAGTGTCGATCCCGAAAACATCAAAAAACATA
* * *
963221 ATTATAATGTAATAGGTAAATTATTCATGTAAACGGCCTAGATATACCGGTTTTTAAGAAAACAG
651 ATTATAATGTAATAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAG
*
963286 GTGTAAAAAAAGTATCGACACAAATCAAACAAGTGTCGATACTTTTTGTCCAAAATGTATTTCAA
716 GTGTAAAAAAAGTATCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCAA
963351 AACCAAGTGCACTAAA
781 AACCAAGTGCACTAAA
*
963367 AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCAAAAACCATAATTATAATGTAA
1 AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
* * * *
963432 TAGGTAAATTAGAAATATAAGCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAATAG
66 TAGGTAGATTAGCAATATAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAACAG
* *
963497 TATCGACACAAATAGAATAAGTGTCGATACTTTTTGTCCAAAATGTATTTCAGAACCAAGTGCAC
131 TATCGACACAAATAGAACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCAGAACCAAGTGCAC
* * * *
963562 A-ACAAAGTTTCGATATATTTATAAC-AGTTGTCGATCCCAAAAACATCGAAAAACATAATTATA
196 ATA-AAAGTGTCGATACATTTAAAACAAG-TGTCGATCCCGAAAACATCGAAAAACATAATTATA
963625 A
259 A
963626 CGAAATGTCT
Statistics
Matches: 2453, Mismatches: 177, Indels: 29
0.92 0.07 0.01
Matches are distributed among these distances:
794 4 0.00
795 2089 0.85
796 360 0.15
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (796 bp):
AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
TAGGTAGATTAGCAATATAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAACAG
TATCGACACAAATAGAACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCAGAACCAAGTGCAC
ATAAAAGTGTCGATACATTTAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAAT
GTAATAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTAAAA
AAAGTATCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCAAAACCAAGT
GCACTAAAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTA
TAATGTAATAGGTAAATTAGAAATATAACCGGTCTAAATATACCAGTTTTTTAGAAAACAGGTGT
ACAAACAGTATCAACACAAATAGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAGAACC
AAGTGCACATAAAAGTGTCGATACATTTAAAACAAGTGTCGATCCCGAAAACATCAAAAAACATA
ATTATAATGTAATAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAG
GTGTAAAAAAAGTATCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCAA
AACCAAGTGCACTAAA
Found at i:966661 original size:182 final size:182
Alignment explanation
Indices: 966355--966807 Score: 775
Period size: 182 Copynumber: 2.5 Consensus size: 182
966345 ATATGTTGAT
*
966355 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATAAAACAGGTAAAAA-ATGACAAAAC
1 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAAC
* * * *
966419 CAGTCT-ATAAATGACAAAACAGGTAAAGCGCTACCGGATATGTTGATAGTGTCGATACTTTATT
66 CGGTCTCA-AAATGACAAAACCGGTAAAGAGATACCGGATATGTTGATAGTGTCGATACTTTATT
* *
966483 ATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAATAA
130 ATAAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCCAATAA
966536 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAAC
1 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAAC
*
966601 CGGTCTCAAAATGACAAAACCGGTAAAGAGATACCTGATATGTTGATAGTGTCGATACTTTATTA
66 CGGTCTCAAAATGACAAAACCGGTAAAGAGATACCGGATATGTTGATAGTGTCGATACTTTATTA
966666 TAAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCCAATAA
131 TAAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCCAATAA
* *
966718 AGTGTCAATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAAT
1 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAAC
* *
966783 CGATCTCGAAATGACAAAACCGGTA
66 CGGTCTCAAAATGACAAAACCGGTA
966808 GTAAAAAAGT
Statistics
Matches: 258, Mismatches: 12, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
181 53 0.21
182 204 0.79
183 1 0.00
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (182 bp):
AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAAC
CGGTCTCAAAATGACAAAACCGGTAAAGAGATACCGGATATGTTGATAGTGTCGATACTTTATTA
TAAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCCAATAA
Found at i:967456 original size:23 final size:23
Alignment explanation
Indices: 967427--967474 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
967417 AAATAGGTAA
* * *
967427 ATATAAGCGCTACCTATTATTTT
1 ATATAAGAGCTACCTAATATATT
967450 ATATAAGAGCTACCTAATATATT
1 ATATAAGAGCTACCTAATATATT
967473 AT
1 AT
967475 TGTACTTGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.40
Consensus pattern (23 bp):
ATATAAGAGCTACCTAATATATT
Found at i:971798 original size:127 final size:127
Alignment explanation
Indices: 971572--972187 Score: 1027
Period size: 127 Copynumber: 4.9 Consensus size: 127
971562 TCTATAACCA
971572 GGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTTATGTC
1 GGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTTATGTC
* * *
971637 CCCCGGGAACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGTGAAGGCGCATTCCTG
66 CCCCGGGAACTATTCATATCAATACCTATTATTCCTTAGGGGACCGTGAAGGCGCGTTCCCG
* *
971699 GGGGCGCGCCTTCTATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTTTTGTC
1 GGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTTATGTC
*
971764 CCCCGGGAACTATTCATATCAATACATATTATTCCTTAGGGGACCGTGAAGGCGCGTTCCCG
66 CCCCGGGAACTATTCATATCAATACCTATTATTCCTTAGGGGACCGTGAAGGCGCGTTCCCG
971826 GGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTTATGTC
1 GGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTTATGTC
* *
971891 CCCCGGGAACTATTCATATCAATACCTATTATTCCTTATGGGACCGTTAAGGCGCGTTCCCG
66 CCCCGGGAACTATTCATATCAATACCTATTATTCCTTAGGGGACCGTGAAGGCGCGTTCCCG
* * *
971953 GGGGCGCGCTTTCCATTATTTTGTCAGAGAATATGTTATCATTTCCCTATTATGTCACTTATATC
1 GGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTTATGTC
* * * * *
972018 CCCCGGGAACTATTCATGTCAATACATATTATTCCTTAGGGGAGCGTGAAGGTGCGTTCTCG
66 CCCCGGGAACTATTCATATCAATACCTATTATTCCTTAGGGGACCGTGAAGGCGCGTTCCCG
* * * * * *
972080 GGGGCGCGCCTTCTATTCTTTTGTC-TAGAATATGTTATAATTTCCCTATTATGTCTCTTATGTC
1 GGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTTATGTC
972144 CCCCGGGAACTATTCATATCAATACCTATTATTCCTTAGGGGAC
66 CCCCGGGAACTATTCATATCAATACCTATTATTCCTTAGGGGAC
972188 TTTAAAGCGC
Statistics
Matches: 458, Mismatches: 31, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
126 76 0.17
127 382 0.83
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.35
Consensus pattern (127 bp):
GGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTTATGTC
CCCCGGGAACTATTCATATCAATACCTATTATTCCTTAGGGGACCGTGAAGGCGCGTTCCCG
Found at i:972492 original size:14 final size:14
Alignment explanation
Indices: 972473--972502 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
972463 GATAAGTTGA
972473 TTTTAATATATATG
1 TTTTAATATATATG
972487 TTTTAATATATATG
1 TTTTAATATATATG
972501 TT
1 TT
972503 AATGATAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (14 bp):
TTTTAATATATATG
Found at i:972654 original size:34 final size:34
Alignment explanation
Indices: 972616--972716 Score: 114
Period size: 34 Copynumber: 3.0 Consensus size: 34
972606 GAATTTAATG
* *
972616 TTAAATTTCGAATATTATAAATTATATTTTAAAT
1 TTAAATTTTGAATAATATAAATTATATTTTAAAT
* * *
972650 TTAAATTTTGAATAATAT-TATTTTAATTTTAATT
1 TTAAATTTTGAATAATATAAATTAT-ATTTTAAAT
* * *
972684 TTAAATTTTGAATACTATAATTTGTATTTTAAA
1 TTAAATTTTGAATAATATAAATTATATTTTAAA
972717 AACATTTATT
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
33 4 0.07
34 48 0.87
35 3 0.05
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (34 bp):
TTAAATTTTGAATAATATAAATTATATTTTAAAT
Found at i:973267 original size:21 final size:20
Alignment explanation
Indices: 973240--973309 Score: 104
Period size: 21 Copynumber: 3.4 Consensus size: 20
973230 AGTATAAAAC
973240 CCTGCGGGCTAGGAATGTAA
1 CCTGCGGGCTAGGAATGTAA
973260 CCTGGCGGGCTAGGAATGTAA
1 CCT-GCGGGCTAGGAATGTAA
*
973281 CCCTGCAGGCTAGGAATGTAA
1 -CCTGCGGGCTAGGAATGTAA
973302 CCCTGCGG
1 -CCTGCGG
973310 AGATGACATA
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
20 3 0.07
21 40 0.87
22 3 0.07
ACGTcount: A:0.23, C:0.24, G:0.34, T:0.19
Consensus pattern (20 bp):
CCTGCGGGCTAGGAATGTAA
Found at i:975123 original size:25 final size:25
Alignment explanation
Indices: 975093--975140 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
975083 TTAGCACAAA
*
975093 AAATAATTAATTAATTA-ATAAATTT
1 AAATAAATAA-TAATTATATAAATTT
975118 AAATAAATAATAATTATATAAAT
1 AAATAAATAATAATTATATAAAT
975141 ATTATTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (25 bp):
AAATAAATAATAATTATATAAATTT
Found at i:975160 original size:30 final size:30
Alignment explanation
Indices: 975114--975194 Score: 83
Period size: 30 Copynumber: 2.6 Consensus size: 30
975104 TAATTAATAA
* *
975114 ATTTAAATAAATAATAATTATATAAAT-ATT
1 ATTTTAATAAAAAATAA-TATATAAATAATT
* *
975144 ATTTTAATAAAAAATAATATTTATATAATT
1 ATTTTAATAAAAAATAATATATAAATAATT
*
975174 ATGTTAATATAAAATATAATA
1 ATTTTAATA-AAAA-ATAATA
975195 ACTATTTAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
29 7 0.16
30 26 0.60
31 4 0.09
32 6 0.14
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (30 bp):
ATTTTAATAAAAAATAATATATAAATAATT
Found at i:975221 original size:16 final size:16
Alignment explanation
Indices: 975181--975224 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 16
975171 ATTATGTTAA
975181 TATAAAATATAATAAC
1 TATAAAATATAATAAC
975197 TATTTAAAATAATAATAAC
1 TA--TAAAAT-ATAATAAC
*
975216 TAAAAAATA
1 TATAAAATA
975225 AATTTCTTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
16 3 0.12
17 5 0.21
18 6 0.25
19 10 0.42
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.32
Consensus pattern (16 bp):
TATAAAATATAATAAC
Found at i:975501 original size:60 final size:60
Alignment explanation
Indices: 975407--975541 Score: 157
Period size: 61 Copynumber: 2.2 Consensus size: 60
975397 GTGTCCCCGG
* *
975407 GGGATGCACCTTTCACACGTGGCAACTGAATCAGC-AAAATAAAGGTAAAGCGCATCCCCA
1 GGGATGCGCCTTTCACACGTGGCAACTCAATCAGCGAAAA-AAAGGTAAAGCGCATCCCCA
* * ** * *
975467 TGGATGCGCCTTTCACACGTGGCATC-CAACTCAGCGTAAAACCAGGTAAAGCGCATCCTCG
1 GGGATGCGCCTTTCACACGTGGCAACTCAA-TCAGCG-AAAAAAAGGTAAAGCGCATCCCCA
975528 GGGATGCGCCTTTC
1 GGGATGCGCCTTTC
975542 GCCACCTCAC
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
59 2 0.03
60 28 0.44
61 29 0.46
62 4 0.06
ACGTcount: A:0.28, C:0.29, G:0.24, T:0.19
Consensus pattern (60 bp):
GGGATGCGCCTTTCACACGTGGCAACTCAATCAGCGAAAAAAAGGTAAAGCGCATCCCCA
Found at i:976754 original size:60 final size:60
Alignment explanation
Indices: 976645--976757 Score: 138
Period size: 60 Copynumber: 1.9 Consensus size: 60
976635 TCAAGTGATC
* * * * *
976645 ATTTTGTAACTTTTAATAGTTGAGAGACTCAAAAAAATAATAACTTATAATCGATAGACT
1 ATTTTATAACTTTTAATAGTGGAGAAACTCAAAAAAATAACAACATATAATCGATAGACT
* * *
976705 ATTTTATAACTTTTAATAGTCGGA-AAACTTAACAAAATAACACCATATAATCG
1 ATTTTATAACTTTTAATAGT-GGAGAAACTCAAAAAAATAACAACATATAATCG
976758 GAGACCATTT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
60 42 0.95
61 2 0.05
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.34
Consensus pattern (60 bp):
ATTTTATAACTTTTAATAGTGGAGAAACTCAAAAAAATAACAACATATAATCGATAGACT
Found at i:977584 original size:5 final size:5
Alignment explanation
Indices: 977574--977706 Score: 55
Period size: 5 Copynumber: 25.6 Consensus size: 5
977564 AAATACATAA
* * *
977574 AAAAT AAAAT AAAGAT AAAAA ACTAAAT AAAAT -AAAG AACAT AAAA-
1 AAAAT AAAAT AAA-AT AAAAT A--AAAT AAAAT AAAAT AAAAT AAAAT
* *
977620 AACAA- AAGAAA AAAAT GAAGA- AAAAT -AAAT AAAAT --AAT CAAAAT
1 AA-AAT AA-AAT AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT
*
977664 AAAGAT AACGAGT AAAAT AAAAT AAAAAT AAGAAT AAAAT AAA
1 AAA-AT AA--AAT AAAAT AAAAT -AAAAT AA-AAT AAAAT AAA
977707 GGAAAATACT
Statistics
Matches: 99, Mismatches: 12, Indels: 34
0.68 0.08 0.23
Matches are distributed among these distances:
3 3 0.03
4 12 0.12
5 49 0.49
6 27 0.27
7 7 0.07
8 1 0.01
ACGTcount: A:0.74, C:0.04, G:0.07, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:977591 original size:18 final size:17
Alignment explanation
Indices: 977570--977706 Score: 71
Period size: 18 Copynumber: 7.3 Consensus size: 17
977560 AAGAAAATAC
977570 ATAAAAAATAAAATAAA
1 ATAAAAAATAAAATAAA
977587 GATAAAAAACT-AAATAAA
1 -ATAAAAAA-TAAAATAAA
*
977605 ATAAAGAACATAAAAAACAAA
1 ATAAA-AA-AT--AAAATAAA
* *
977626 AGAAAAAAATGAAGAAAAATAA
1 A-TAAAAAAT--A-AAATA-AA
977648 ATAAAATAATCAAAATAAA
1 ATAAAA-AAT-AAAATAAA
** *
977667 GATAACGAGTAAAATAAA
1 -ATAAAAAATAAAATAAA
977685 AT-AAAAATAAGAATAAA
1 ATAAAAAATAA-AATAAA
977702 ATAAA
1 ATAAA
977707 GGAAAATACT
Statistics
Matches: 93, Mismatches: 13, Indels: 26
0.70 0.10 0.20
Matches are distributed among these distances:
16 5 0.05
17 15 0.16
18 28 0.30
19 6 0.06
20 12 0.13
21 18 0.19
22 9 0.10
ACGTcount: A:0.74, C:0.04, G:0.07, T:0.15
Consensus pattern (17 bp):
ATAAAAAATAAAATAAA
Found at i:977699 original size:12 final size:11
Alignment explanation
Indices: 977573--977706 Score: 50
Period size: 11 Copynumber: 11.8 Consensus size: 11
977563 AAAATACATA
977573 AAAAATAAAAT
1 AAAAATAAAAT
*
977584 AAAGATAAAA-
1 AAAAATAAAAT
977594 AACTAAATAAAAT
1 AA--AAATAAAAT
977607 AAAGAACATAAAA-
1 -AA-AA-ATAAAAT
*
977620 AACAAA-AGAA-
1 AA-AAATAAAAT
* *
977630 AAAAAT-GAAG
1 AAAAATAAAAT
977640 AAAAAT-AAAT
1 AAAAATAAAAT
977650 AAAATAATCAAAAT
1 -AAA-AAT-AAAAT
* *
977664 AAAGATAACGAGT
1 AAAAATAA--AAT
977677 -AAAATAAAAT
1 AAAAATAAAAT
977687 AAAAATAAGAAT
1 AAAAATAA-AAT
977699 -AAAATAAA
1 AAAAATAAA
977707 GGAAAATACT
Statistics
Matches: 97, Mismatches: 11, Indels: 31
0.70 0.08 0.22
Matches are distributed among these distances:
9 6 0.06
10 18 0.19
11 29 0.30
12 25 0.26
13 7 0.07
14 12 0.12
ACGTcount: A:0.75, C:0.04, G:0.07, T:0.15
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:977801 original size:18 final size:17
Alignment explanation
Indices: 977758--977805 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
977748 CAAGAGGAAA
977758 ATAAAAATGAAAACAAAT
1 ATAAAAAT-AAAACAAAT
* *
977776 ATATAAATAAAACTAAT
1 ATAAAAATAAAACAAAT
977793 ATAAAAAATAAAA
1 AT-AAAAATAAAA
977806 TAAGAAAAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 10 0.38
18 16 0.62
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.21
Consensus pattern (17 bp):
ATAAAAATAAAACAAAT
Found at i:977820 original size:16 final size:15
Alignment explanation
Indices: 977795--977846 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
977785 AAACTAATAT
977795 AAAA-AATAAAATAAG
1 AAAAGAATAAAA-AAG
977810 AAAAGAAT-AAAAAG
1 AAAAGAATAAAAAAG
977824 AAAAAGAA-AAGAAAAG
1 -AAAAGAATAA-AAAAG
977840 AAAAGAA
1 AAAAGAA
977847 AAGAAAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
14 3 0.09
15 22 0.67
16 8 0.24
ACGTcount: A:0.81, C:0.00, G:0.13, T:0.06
Consensus pattern (15 bp):
AAAAGAATAAAAAAG
Found at i:977840 original size:10 final size:10
Alignment explanation
Indices: 977807--977853 Score: 69
Period size: 10 Copynumber: 4.7 Consensus size: 10
977797 AAAATAAAAT
977807 AAGAAAAGAA
1 AAGAAAAGAA
*
977817 TA-AAAAGAAA
1 AAGAAAAG-AA
977827 AAGAAAAGAA
1 AAGAAAAGAA
977837 AAGAAAAGAA
1 AAGAAAAGAA
977847 AAGAAAA
1 AAGAAAA
977854 AAACATATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
9 5 0.15
10 23 0.70
11 5 0.15
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (10 bp):
AAGAAAAGAA
Found at i:977891 original size:20 final size:22
Alignment explanation
Indices: 977793--977892 Score: 70
Period size: 22 Copynumber: 4.6 Consensus size: 22
977783 TAAAACTAAT
*
977793 ATAAAAAATAAAATAAGAAAAGA
1 ATAAAAAGT-AAATAAGAAAAGA
977816 ATAAAAAG-AAA-AAGAAAAGA
1 ATAAAAAGTAAATAAGAAAAGA
* * *
977836 AAAGAAAAGAAAAGAA-AAAA-A
1 ATA-AAAAGTAAATAAGAAAAGA
977857 CATATAAAA-TAAAATAAG-AAA-A
1 -ATA-AAAAGT-AAATAAGAAAAGA
977879 ATAAAAAGTAAATA
1 ATAAAAAGTAAATA
977893 TGTGGAAAAT
Statistics
Matches: 64, Mismatches: 6, Indels: 17
0.74 0.07 0.20
Matches are distributed among these distances:
20 20 0.31
21 13 0.20
22 22 0.34
23 9 0.14
ACGTcount: A:0.78, C:0.01, G:0.10, T:0.11
Consensus pattern (22 bp):
ATAAAAAGTAAATAAGAAAAGA
Found at i:979929 original size:45 final size:45
Alignment explanation
Indices: 979873--979993 Score: 129
Period size: 51 Copynumber: 2.6 Consensus size: 45
979863 ATTCAGCCGA
979873 AAAT-AGGTTCTTCACGGATCTCTTCCTGGGTTTGAGTCTCACCT
1 AAATCAGGTTCTTCACGGATCTCTTCCTGGGTTTGAGTCTCACCT
* ** *
979917 AAAT-TGTGTTCTTCACCGTCACGGATCTCTAACTGGGTTTGGGTCTCACCT
1 AAATCAG-GTTC-T-----TCACGGATCTCTTCCTGGGTTTGAGTCTCACCT
979968 AAATCAGGTTCTTCACGGATCTCTTC
1 AAATCAGGTTCTTCACGGATCTCTTC
979994 TTCGGGTTCT
Statistics
Matches: 62, Mismatches: 7, Indels: 15
0.74 0.08 0.18
Matches are distributed among these distances:
44 5 0.08
45 16 0.26
46 1 0.02
50 1 0.02
51 38 0.61
52 1 0.02
ACGTcount: A:0.19, C:0.26, G:0.20, T:0.36
Consensus pattern (45 bp):
AAATCAGGTTCTTCACGGATCTCTTCCTGGGTTTGAGTCTCACCT
Found at i:979979 original size:51 final size:51
Alignment explanation
Indices: 979884--979983 Score: 148
Period size: 51 Copynumber: 2.0 Consensus size: 51
979874 AATAGGTTCT
** *
979884 TCACGGATCTCTTCCTGGGTTTGAGTCTCACCTAAATTGTGTTCTTCACCG
1 TCACGGATCTCTAACTGGGTTTGAGTCTCACCTAAATAGTGTTCTTCACCG
*
979935 TCACGGATCTCTAACTGGGTTTGGGTCTCACCTAAATCAG-GTTCTTCAC
1 TCACGGATCTCTAACTGGGTTTGAGTCTCACCTAAAT-AGTGTTCTTCAC
979984 GGATCTCTTC
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 43 0.98
52 1 0.02
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.35
Consensus pattern (51 bp):
TCACGGATCTCTAACTGGGTTTGAGTCTCACCTAAATAGTGTTCTTCACCG
Found at i:984403 original size:17 final size:16
Alignment explanation
Indices: 984381--984412 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
984371 ATATTTTTTT
984381 AATTTTTTAAGTATTTA
1 AATTTTTTAA-TATTTA
984398 AATTTTTTAATATTT
1 AATTTTTTAATATTT
984413 TTTAATTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (16 bp):
AATTTTTTAATATTTA
Found at i:993413 original size:42 final size:41
Alignment explanation
Indices: 993336--993584 Score: 214
Period size: 42 Copynumber: 5.9 Consensus size: 41
993326 TTGAGAAAAA
* * *
993336 AAACGCCGCTAAAGGTTGAGATCTATAGCAGCGTTTTTGGAAC
1 AAACACCGCTAAAGG-TCAGATCTATAGCGGCGTTTTT-GAAC
* * *
993379 AAACGCCGCTAAAGGTCAGATCTATAGTGGCGTTTTTCAAGC
1 AAACACCGCTAAAGGTCAGATCTATAGCGGCGTTTTTGAA-C
* * *
993421 AAACACCG-TAAAAGGTCAGATCGATAGCGACGTTTTTAGAAT
1 AAACACCGCT-AAAGGTCAGATCTATAGCGGCGTTTTT-GAAC
* * * *
993463 AAACATCG-TAAAAGATTAATATCTATAGCGGCGTTTTTGGAAC
1 AAACACCGCT-AAAG-GTCAGATCTATAGCGGCGTTTTT-GAAC
** *
993506 AAACACCGCTAAAGGTCAGATCTATAGCGATGTTTTTCAAGC
1 AAACACCGCTAAAGGTCAGATCTATAGCGGCGTTTTTGAA-C
** * * *
993548 AAATGCCGCAAAAGGTCAGACCTATAGCGGCATTTTT
1 AAACACCGCTAAAGGTCAGATCTATAGCGGCGTTTTT
993585 TAAATACAAA
Statistics
Matches: 168, Mismatches: 32, Indels: 13
0.79 0.15 0.06
Matches are distributed among these distances:
41 5 0.03
42 113 0.67
43 49 0.29
44 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (41 bp):
AAACACCGCTAAAGGTCAGATCTATAGCGGCGTTTTTGAAC
Found at i:993584 original size:127 final size:127
Alignment explanation
Indices: 993356--993584 Score: 350
Period size: 127 Copynumber: 1.8 Consensus size: 127
993346 AAAGGTTGAG
* * *
993356 ATCTATAGCAGCGTTTTTGGAACAAACGCCGCTAAAGGTCAGATCTATAGTGGCGTTTTTCAAGC
1 ATCTATAGCAGCGTTTTTGGAACAAACACCGCTAAAGGTCAGATCTATAGCGACGTTTTTCAAGC
* * *
993421 AAACACCGTAAAAGGTCAGATCGATAGCGACGTTTTTAGAATAAACATCGTAAAAGATTAAT
66 AAACACCGCAAAAGGTCAGACCGATAGCGACATTTTTAGAATAAACATCGTAAAAGATTAAT
* *
993483 ATCTATAGCGGCGTTTTTGGAACAAACACCGCTAAAGGTCAGATCTATAGCGATGTTTTTCAAGC
1 ATCTATAGCAGCGTTTTTGGAACAAACACCGCTAAAGGTCAGATCTATAGCGACGTTTTTCAAGC
** * *
993548 AAATGCCGCAAAAGGTCAGACCTATAGCGGCATTTTT
66 AAACACCGCAAAAGGTCAGACCGATAGCGACATTTTT
993585 TAAATACAAA
Statistics
Matches: 90, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
127 90 1.00
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (127 bp):
ATCTATAGCAGCGTTTTTGGAACAAACACCGCTAAAGGTCAGATCTATAGCGACGTTTTTCAAGC
AAACACCGCAAAAGGTCAGACCGATAGCGACATTTTTAGAATAAACATCGTAAAAGATTAAT
Found at i:996306 original size:41 final size:40
Alignment explanation
Indices: 996196--996363 Score: 119
Period size: 41 Copynumber: 4.1 Consensus size: 40
996186 CTAAAGATAC
* * *
996196 TTTAGCGGTGTTTGTCGAATAAACGCCACTAAAGTACGAGT
1 TTTAGCGGCGTTTGTCTAA-AAAAGCCACTAAAGTACGAGT
* * * *
996237 TTTAGCGGCGGTTT-TACTTAAAAGGCCACTATAGTACTAGGT
1 TTTAGCGGC-GTTTGT-CTAAAAAAGCCACTAAAGTACGA-GT
* *
996279 TTTAGCGGCGTTTGTCTAAAAAAGCCACAATATATGTAC-TGT
1 TTTAGCGGCGTTTGTCTAAAAAAGCCAC--TA-AAGTACGAGT
* * * *
996321 ATT-GCGACGTTTATTTAAAAACA-CCACTAAAGTACGAGT
1 TTTAGCGGCGTTTGTCTAAAAA-AGCCACTAAAGTACGAGT
996360 TTTA
1 TTTA
996364 ACAGCATTTG
Statistics
Matches: 99, Mismatches: 18, Indels: 21
0.72 0.13 0.15
Matches are distributed among these distances:
38 5 0.05
39 6 0.06
41 59 0.60
42 23 0.23
43 2 0.02
44 4 0.04
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (40 bp):
TTTAGCGGCGTTTGTCTAAAAAAGCCACTAAAGTACGAGT
Found at i:998942 original size:32 final size:32
Alignment explanation
Indices: 998906--998977 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 32
998896 CCCATGATTA
* * *
998906 ACCCAAGGAAGTGCCTTGGGGCATGAGATCCT
1 ACCCAAGGAAGTGCCTCGGGGCATCAGAGCCT
* ** *
998938 ACCCAAGAAAGTTTCTCGGGGCCTCAGAGCCT
1 ACCCAAGGAAGTGCCTCGGGGCATCAGAGCCT
998970 ACCCAAGG
1 ACCCAAGG
998978 GTCATCTTTG
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.26, C:0.29, G:0.28, T:0.17
Consensus pattern (32 bp):
ACCCAAGGAAGTGCCTCGGGGCATCAGAGCCT
Found at i:999948 original size:27 final size:27
Alignment explanation
Indices: 999918--999986 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
999908 TATTCCATTT
999918 CTTT-GAGACATTTTAGGTCATTTTACA
1 CTTTAGAGACATTTT-GGTCATTTTACA
* *
999945 CTTTAGGGGCATTTTGGTCATTTTACA
1 CTTTAGAGACATTTTGGTCATTTTACA
* *
999972 CTTTAGGGTCATTTT
1 CTTTAGAGACATTTT
999987 ATAATTCTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.79
28 8 0.21
ACGTcount: A:0.20, C:0.14, G:0.19, T:0.46
Consensus pattern (27 bp):
CTTTAGAGACATTTTGGTCATTTTACA
Found at i:1001384 original size:189 final size:191
Alignment explanation
Indices: 1001060--1001443 Score: 747
Period size: 189 Copynumber: 2.0 Consensus size: 191
1001050 ATCTATCAAA
1001060 GTCA-ACGAGTTGAATCAGTGAGTTAACTCAACCAAGTTGACTCACGATTAGGTCGGTCAAGCGG
1 GTCAGACGAGTTGAATCAGTGAGTTAACTCAACCAAGTTGACTCACGATTAGGTCGGTCAAGCGG
1001124 GTCTAGTTGGGTCAGACTGGTCAGGTCAACCAGACCCAGTTCTAGAAATTTCCCAAGGCCAAATC
66 GTCTAGTTGGGTCAGACTGGTCAGGTCAACCAGACCCAGTTCTAGAAATTTCCCAAGGCCAAATC
1001189 AAGTCCAACGCGCATACGACGACGC-TGGTGGCACATGACAACGGCGAAAGCCTC-GGGTG
131 AAGTCCAACGCGCATACGACGACGCGTGGTGGCACATGACAACGGCGAAAGCCTCGGGGTG
1001248 GTCAGACGAGTTGAATCAGTGAGTTAACTCAACCAAGTTGACTCACGATTAGGTCGGTCAAGCGG
1 GTCAGACGAGTTGAATCAGTGAGTTAACTCAACCAAGTTGACTCACGATTAGGTCGGTCAAGCGG
1001313 GTCTAGTTGGGTCAGACTGGTCAGGTCAACCAGACCCAGTTCTAGAAATTTCCCAAGGCCAAATC
66 GTCTAGTTGGGTCAGACTGGTCAGGTCAACCAGACCCAGTTCTAGAAATTTCCCAAGGCCAAATC
1001378 AAGTCCAACGCGCATACGACGACGCGTGGTGGCACATGACAACGGCGAAAGCCTCGGGGTG
131 AAGTCCAACGCGCATACGACGACGCGTGGTGGCACATGACAACGGCGAAAGCCTCGGGGTG
1001439 GTCAG
1 GTCAG
1001444 CCGATTACGC
Statistics
Matches: 193, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
188 4 0.02
189 150 0.78
190 29 0.15
191 10 0.05
ACGTcount: A:0.28, C:0.25, G:0.28, T:0.20
Consensus pattern (191 bp):
GTCAGACGAGTTGAATCAGTGAGTTAACTCAACCAAGTTGACTCACGATTAGGTCGGTCAAGCGG
GTCTAGTTGGGTCAGACTGGTCAGGTCAACCAGACCCAGTTCTAGAAATTTCCCAAGGCCAAATC
AAGTCCAACGCGCATACGACGACGCGTGGTGGCACATGACAACGGCGAAAGCCTCGGGGTG
Found at i:1002938 original size:54 final size:54
Alignment explanation
Indices: 1002880--1003131 Score: 333
Period size: 54 Copynumber: 4.7 Consensus size: 54
1002870 ATGTATCGTA
* *
1002880 ACTAAGTGTGCAACCCACGGAATTCATAATAAGTGTACGAACAACCGTATCGGC
1 ACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACAACCGTATCGGC
** *
1002934 ACTAAGTGTGCAACCCACATAATTCATAATAAGTTTATGAACAACCGTATCGGA
1 ACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACAACCGTATCGGC
* *** * * * *
1002988 ACTAACTGTGCAACCCATATAATTTATAATAAGTTTATGAACGACTGTATCAGC
1 ACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACAACCGTATCGGC
* * *
1003042 ATTAAGTGTGCAACCCATGGAATTCATAATAAGTTTATGAACGACCGTATCGGC
1 ACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACAACCGTATCGGC
* **
1003096 ATTAAGTGTGCAACAAACGGAATTCATAATAAGTTT
1 ACTAAGTGTGCAACCCACGGAATTCATAATAAGTTT
1003132 TTTGATAACT
Statistics
Matches: 176, Mismatches: 22, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 176 1.00
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (54 bp):
ACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACAACCGTATCGGC
Found at i:1003571 original size:87 final size:87
Alignment explanation
Indices: 1003475--1003645 Score: 315
Period size: 87 Copynumber: 2.0 Consensus size: 87
1003465 ATGATCAGAA
* *
1003475 TTTTTTTACTAGTTTTCTTTTAAAAGCGGAAAGTTTTAAAAAAATTATGTTGCATCTGTGACTCG
1 TTTTTTTACTAGTTTTCTTTTAAAAGAGGAAAGTTTTAAAAAAATTATGTGGCATCTGTGACTCG
1003540 TGTACGGAAACGTATACGGAAT
66 TGTACGGAAACGTATACGGAAT
1003562 TTTTTTTACTAGTTTTCTTTTAAAAGAGGAAAGTTTTAAAAAAATTATGTGGCATCTGTGACTCG
1 TTTTTTTACTAGTTTTCTTTTAAAAGAGGAAAGTTTTAAAAAAATTATGTGGCATCTGTGACTCG
*
1003627 TGTATGGAAACGTATACGG
66 TGTACGGAAACGTATACGG
1003646 GAAATGGGTG
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 81 1.00
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (87 bp):
TTTTTTTACTAGTTTTCTTTTAAAAGAGGAAAGTTTTAAAAAAATTATGTGGCATCTGTGACTCG
TGTACGGAAACGTATACGGAAT
Found at i:1003717 original size:14 final size:14
Alignment explanation
Indices: 1003698--1003724 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1003688 CCTAAGTCGT
1003698 TAGAAAACTTAAGA
1 TAGAAAACTTAAGA
1003712 TAGAAAACTTAAG
1 TAGAAAACTTAAG
1003725 TTAACTTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.07, G:0.15, T:0.22
Consensus pattern (14 bp):
TAGAAAACTTAAGA
Found at i:1006068 original size:27 final size:27
Alignment explanation
Indices: 1006030--1006081 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
1006020 ATACCTTAGA
1006030 TCATTTTACACTTTAGGGGAATTTTGG
1 TCATTTTACACTTTAGGGGAATTTTGG
* *
1006057 TCATTTTACACTTTATGGGCATTTT
1 TCATTTTACACTTTAGGGGAATTTT
1006082 ATAATTCCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.17, T:0.48
Consensus pattern (27 bp):
TCATTTTACACTTTAGGGGAATTTTGG
Found at i:1007093 original size:22 final size:22
Alignment explanation
Indices: 1007067--1007108 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
1007057 TTGGTCAAAG
*
1007067 TCAAAGTCAACGGTCTGACCTA
1 TCAAAGTCAACGGTCAGACCTA
*
1007089 TCAAAGTCAATGGTCAGACC
1 TCAAAGTCAACGGTCAGACC
1007109 GGTCAACGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.21
Consensus pattern (22 bp):
TCAAAGTCAACGGTCAGACCTA
Found at i:1007114 original size:22 final size:22
Alignment explanation
Indices: 1007066--1007114 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
1007056 TTTGGTCAAA
* *
1007066 GTCAAAGTCAACGGTCTGACCT
1 GTCAAAGTCAACGGTCAGACCG
* *
1007088 ATCAAAGTCAATGGTCAGACCG
1 GTCAAAGTCAACGGTCAGACCG
1007110 GTCAA
1 GTCAA
1007115 CGGGTTGACT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.33, C:0.24, G:0.22, T:0.20
Consensus pattern (22 bp):
GTCAAAGTCAACGGTCAGACCG
Found at i:1007173 original size:9 final size:9
Alignment explanation
Indices: 1007156--1007193 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
1007146 CTCAACAACT
*
1007156 AGGTCGGTC
1 AGGTGGGTC
1007165 AGGTGGGTC
1 AGGTGGGTC
1007174 AGGTGGGTC
1 AGGTGGGTC
1007183 AGGTTGGGTC
1 AGG-TGGGTC
1007193 A
1 A
1007194 ACTAGGCCCG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
9 20 0.74
10 7 0.26
ACGTcount: A:0.13, C:0.13, G:0.50, T:0.24
Consensus pattern (9 bp):
AGGTGGGTC
Found at i:1010237 original size:13 final size:12
Alignment explanation
Indices: 1010214--1010252 Score: 53
Period size: 11 Copynumber: 3.2 Consensus size: 12
1010204 ATTATATTTC
1010214 TTATGTTTATAATA
1 TTAT-TTTATAA-A
1010228 TTATTTTAT-AA
1 TTATTTTATAAA
1010239 TTATTTTATAAA
1 TTATTTTATAAA
1010251 TT
1 TT
1010253 TTTAATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 10 0.42
12 5 0.21
13 5 0.21
14 4 0.17
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (12 bp):
TTATTTTATAAA
Found at i:1011285 original size:18 final size:16
Alignment explanation
Indices: 1011261--1011305 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 16
1011251 TTTGTTATGT
1011261 TTATAATATTAATTATA
1 TTATAATATTAATTA-A
* *
1011278 TTTTTAATATTTATTAA
1 -TTATAATATTAATTAA
1011295 TTATAATATTA
1 TTATAATATTA
1011306 TTTTATAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 9 0.39
17 1 0.04
18 13 0.57
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TTATAATATTAATTAA
Found at i:1013648 original size:13 final size:13
Alignment explanation
Indices: 1013630--1013654 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1013620 ATAATGTAAC
1013630 TTTTGAAAACATT
1 TTTTGAAAACATT
1013643 TTTTGAAAACAT
1 TTTTGAAAACAT
1013655 ATAATATATA
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:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (13 bp):
TTTTGAAAACATT
Found at i:1013683 original size:38 final size:38
Alignment explanation
Indices: 1013630--1013884 Score: 194
Period size: 38 Copynumber: 6.9 Consensus size: 38
1013620 ATAATGTAAC
1013630 TTTT-GAAAACATTTTTTGAAAACATATAATATATAGT
1 TTTTAGAAAACATTTTTTGAAAACATATAATATATAGT
* *
1013667 TTTTAGAAAACGTTTTTTGAAAGCATATAATATATAGT
1 TTTTAGAAAACATTTTTTGAAAACATATAATATATAGT
* ** * *
1013705 TTTTAAAAAATCGGTTTTTGAAAATATAT-A-ATAT-GC
1 TTTTAGAAAA-CATTTTTTGAAAACATATAATATATAGT
* *
1013741 ATTT-G-AAACTATTTTTTGAAAACATATATTATATAG-
1 TTTTAGAAAAC-ATTTTTTGAAAACATATAATATATAGT
** *
1013777 TTTT-GAAAACACAATTTTGAAAACGTATAATATACATAG-
1 TTTTAGAAAACA-TTTTTTGAAAACATATAATAT--ATAGT
* * * * *
1013816 TTTTA-AAAATAATTTTTAAAAACGT-TTATAATATAGT
1 TTTTAGAAAACATTTTTTGAAAACATATAAT-ATATAGT
* *
1013853 TTTGA-AAAACATATTTTGAAAACATAT-ATATA
1 TTTTAGAAAACATTTTTTGAAAACATATAATATA
1013885 GTTTTTTAAA
Statistics
Matches: 176, Mismatches: 28, Indels: 29
0.76 0.12 0.12
Matches are distributed among these distances:
33 1 0.01
34 17 0.10
36 20 0.11
37 54 0.31
38 56 0.32
39 28 0.16
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.41
Consensus pattern (38 bp):
TTTTAGAAAACATTTTTTGAAAACATATAATATATAGT
Found at i:1013849 original size:40 final size:39
Alignment explanation
Indices: 1013773--1013884 Score: 110
Period size: 37 Copynumber: 3.0 Consensus size: 39
1013763 CATATATTAT
*
1013773 ATAGTTTTGAAAACACAATTTTGAAAACGTATAATATAC
1 ATAGTTTTGAAAACACAATTTTAAAAACGTATAATATAC
* * *
1013812 ATAGTTTT-AAAA-ATAATTTTTAAAAACGT-TTATA-AT
1 ATAGTTTTGAAAACACAA-TTTTAAAAACGTATAATATAC
* *
1013848 ATAGTTTTGAAAA-ACATATTTTGAAAACATAT-ATATA
1 ATAGTTTTGAAAACACA-ATTTTAAAAACGTATAATATA
1013885 GTTTTTTAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
36 9 0.15
37 26 0.43
38 18 0.30
39 8 0.13
ACGTcount: A:0.47, C:0.06, G:0.08, T:0.38
Consensus pattern (39 bp):
ATAGTTTTGAAAACACAATTTTAAAAACGTATAATATAC
Found at i:1013907 original size:75 final size:75
Alignment explanation
Indices: 1013630--1013884 Score: 206
Period size: 75 Copynumber: 3.5 Consensus size: 75
1013620 ATAATGTAAC
** ** * *
1013630 TTTTGAAAACA-TTTTTTGAAAACATATAATAT--ATAGTTTTTAGAAAACGTTTTTTGAAAGCA
1 TTTTGAAAACACAATTTTGAAAACATATAATATACATAG-TTTTA-AAAATATTTTTTAAAAACA
1013692 TATA-ATATATAG
64 TATATA-ATATAG
* * ** * * * * *
1013704 TTTTTAAAAAATCGGTTTTTGAAAATATATAATATGC--A--TTTGAAACTATTTTTTGAAAACA
1 TTTTGAAAACA-C-AATTTTGAAAACATATAATATACATAGTTTTAAAAATATTTTTTAAAAACA
*
1013765 TATATTATATAG
64 TATATAATATAG
* * * *
1013777 TTTTGAAAACACAATTTTGAAAACGTATAATATACATAGTTTTAAAAATAATTTTTAAAAACGTT
1 TTTTGAAAACACAATTTTGAAAACATATAATATACATAGTTTTAAAAATATTTTTTAAAAACATA
1013842 TATAATATAG
66 TATAATATAG
1013852 TTTTGAAAA-ACATATTTTGAAAACATAT-ATATA
1 TTTTGAAAACACA-ATTTTGAAAACATATAATATA
1013885 GTTTTTTAAA
Statistics
Matches: 145, Mismatches: 25, Indels: 22
0.76 0.13 0.11
Matches are distributed among these distances:
71 18 0.12
72 1 0.01
73 35 0.24
74 20 0.14
75 51 0.35
77 20 0.14
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.41
Consensus pattern (75 bp):
TTTTGAAAACACAATTTTGAAAACATATAATATACATAGTTTTAAAAATATTTTTTAAAAACATA
TATAATATAG
Found at i:1013985 original size:17 final size:18
Alignment explanation
Indices: 1013965--1014000 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
1013955 GAAAATATAG
1013965 TATTATATAGTT-TTTAT
1 TATTATATAGTTATTTAT
*
1013982 TATTATATATTTATTTAT
1 TATTATATAGTTATTTAT
1014000 T
1 T
1014001 TAATTTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (18 bp):
TATTATATAGTTATTTAT
Found at i:1013998 original size:4 final size:4
Alignment explanation
Indices: 1013984--1014039 Score: 69
Period size: 4 Copynumber: 13.8 Consensus size: 4
1013974 GTTTTTATTA
* *
1013984 TTAT ATAT TTAT TTAT TTAAT TTAT TTA- TTAT ATAT TTATT TTAT TTAT
1 TTAT TTAT TTAT TTAT TT-AT TTAT TTAT TTAT TTAT TTA-T TTAT TTAT
1014033 TTAT TTA
1 TTAT TTA
1014040 ACCATTTCAG
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
3 3 0.07
4 34 0.76
5 8 0.18
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (4 bp):
TTAT
Found at i:1014008 original size:24 final size:24
Alignment explanation
Indices: 1013984--1014037 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
1013974 GTTTTTATTA
*
1013984 TTATATATTTATTTATTTAATTTAT
1 TTAT-TATATATTTATTTAATTTAT
*
1014009 TTATTATATATTTATTTTATTTAT
1 TTATTATATATTTATTTAATTTAT
1014033 TTATT
1 TTATT
1014038 TAACCATTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 23 0.85
25 4 0.15
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (24 bp):
TTATTATATATTTATTTAATTTAT
Found at i:1014013 original size:28 final size:28
Alignment explanation
Indices: 1013977--1014039 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
1013967 TTATATAGTT
1013977 TTTA-TTATTATATATTTA-TTTATTTAA
1 TTTATTTATTATATATTTATTTTATTT-A
1014004 TTTATTTATTATATATTTATTTTATTTA
1 TTTATTTATTATATATTTATTTTATTTA
1014032 TTTATTTA
1 TTTATTTA
1014040 ACCATTTCAG
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
27 4 0.12
28 23 0.68
29 7 0.21
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (28 bp):
TTTATTTATTATATATTTATTTTATTTA
Found at i:1015185 original size:19 final size:19
Alignment explanation
Indices: 1015161--1015197 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
1015151 CCCCTTTAAC
1015161 TTAAATTTTCT-TTTATTTA
1 TTAAA-TTTCTATTTATTTA
1015180 TTAAATTTCTATTTATTT
1 TTAAATTTCTATTTATTT
1015198 TAATATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (19 bp):
TTAAATTTCTATTTATTTA
Found at i:1016267 original size:12 final size:12
Alignment explanation
Indices: 1016245--1016280 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
1016235 GTGGGGTAGG
*
1016245 AATTTTTATTTT
1 AATTATTATTTT
*
1016257 CATTATTATTTT
1 AATTATTATTTT
1016269 AATTATTATTTT
1 AATTATTATTTT
1016281 TATCTTACTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (12 bp):
AATTATTATTTT
Found at i:1017361 original size:22 final size:22
Alignment explanation
Indices: 1017333--1017429 Score: 162
Period size: 22 Copynumber: 4.5 Consensus size: 22
1017323 TACTGAAGGG
*
1017333 AGTATCGATACCATAATATAGA
1 AGTATCGATACCATAGTATAGA
1017355 AGTATCGATACCATAGTATAGA
1 AGTATCGATACCATAGTATAGA
1017377 AGTATCGATACCATAGTATAGA
1 AGTATCGATACCATAGTATAGA
1017399 AGTATCGATACCATAGTAT-G-
1 AGTATCGATACCATAGTATAGA
*
1017419 GGTATCGATAC
1 AGTATCGATAC
1017430 TATTGAGTCT
Statistics
Matches: 73, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
20 10 0.14
21 1 0.01
22 62 0.85
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (22 bp):
AGTATCGATACCATAGTATAGA
Found at i:1017830 original size:55 final size:55
Alignment explanation
Indices: 1017753--1018154 Score: 564
Period size: 55 Copynumber: 7.3 Consensus size: 55
1017743 TTATGTGTGC
* *
1017753 TATCGGCACTAAGTGTGCAAAACCACGAAATTCATAATATGTTTATGAATGACCG
1 TATCGACACTAAGTGTGCAAAACCACGAAATTCATAATATGTTTATGAACGACCG
1017808 TATCGACACTAAGTGT-CTAAAACCACGAAATTCATAATATGTTTATGAACGACCG
1 TATCGACACTAAGTGTGC-AAAACCACGAAATTCATAATATGTTTATGAACGACCG
* * * * * *
1017863 TATCGGCACTAAGTGTGTAAAACCATGAAATTTATAATATATTTATGAACAACCG
1 TATCGACACTAAGTGTGCAAAACCACGAAATTCATAATATGTTTATGAACGACCG
*
1017918 TATCGACACTAAGTGTGCAAAACCACGAAATTCATAATATGCTTATGAACGACCG
1 TATCGACACTAAGTGTGCAAAACCACGAAATTCATAATATGTTTATGAACGACCG
* * *
1017973 TATCGGCACTAAGTGTACAAAACCAC-AGAATTCATTATATGTTTATGAACGACCG
1 TATCGACACTAAGTGTGCAAAACCACGA-AATTCATAATATGTTTATGAACGACCG
* *
1018028 TATCAGA-ACTAAGTGTGCAAAACCACGGAGTTCATAATATGTTTATGAACGACCG
1 TATC-GACACTAAGTGTGCAAAACCACGAAATTCATAATATGTTTATGAACGACCG
* ** *
1018083 TATCGACACTAA--GTGCAAAACCACGGAATTCATAATAAATTTATGAACGACCA
1 TATCGACACTAAGTGTGCAAAACCACGAAATTCATAATATGTTTATGAACGACCG
1018136 TATCGACAC-AACGTGTGCA
1 TATCGACACTAA-GTGTGCA
1018155 CCTTAAAGAA
Statistics
Matches: 310, Mismatches: 28, Indels: 18
0.87 0.08 0.05
Matches are distributed among these distances:
52 2 0.01
53 46 0.15
54 4 0.01
55 257 0.83
56 1 0.00
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.26
Consensus pattern (55 bp):
TATCGACACTAAGTGTGCAAAACCACGAAATTCATAATATGTTTATGAACGACCG
Found at i:1024299 original size:19 final size:19
Alignment explanation
Indices: 1024275--1024320 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
1024265 TTTTATACAC
1024275 CGATGCACAGACCATGCAT
1 CGATGCACAGACCATGCAT
1024294 CGATGCACAGACCATGCAT
1 CGATGCACAGACCATGCAT
1024313 CGATGCAC
1 CGATGCAC
1024321 TCCTGGCTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.30, C:0.33, G:0.22, T:0.15
Consensus pattern (19 bp):
CGATGCACAGACCATGCAT
Found at i:1025904 original size:15 final size:15
Alignment explanation
Indices: 1025884--1025912 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1025874 CTACAAGAGA
1025884 TGAGAGTGATTCAGG
1 TGAGAGTGATTCAGG
1025899 TGAGAGTGATTCAG
1 TGAGAGTGATTCAG
1025913 ATGACGATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.07, G:0.38, T:0.28
Consensus pattern (15 bp):
TGAGAGTGATTCAGG
Found at i:1032477 original size:26 final size:26
Alignment explanation
Indices: 1032441--1032493 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
1032431 AGTAAGGGGG
1032441 AGTAATTTTACAAAATTGATTTCAAA
1 AGTAATTTTACAAAATTGATTTCAAA
1032467 AGTAATTTTACAAAATTGATTTCAAA
1 AGTAATTTTACAAAATTGATTTCAAA
1032493 A
1 A
1032494 ATTATTTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.38
Consensus pattern (26 bp):
AGTAATTTTACAAAATTGATTTCAAA
Found at i:1032480 original size:14 final size:14
Alignment explanation
Indices: 1032441--1032481 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
1032431 AGTAAGGGGG
1032441 AGTAATTTTACAAA
1 AGTAATTTTACAAA
* *
1032455 ATTGA-TTT-CAAA
1 AGTAATTTTACAAA
1032467 AGTAATTTTACAAA
1 AGTAATTTTACAAA
1032481 A
1 A
1032482 TTGATTTCAA
Statistics
Matches: 21, Mismatches: 4, Indels: 4
0.72 0.14 0.14
Matches are distributed among these distances:
12 7 0.33
13 6 0.29
14 8 0.38
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.37
Consensus pattern (14 bp):
AGTAATTTTACAAA
Done.