Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 316 of 378
Found at i:96180321 original size:12 final size:12
Alignment explanation
Indices: 96180304--96180329 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
96180294 AATGCATGTA
96180304 TATATTATATAT
1 TATATTATATAT
96180316 TATATTATATAT
1 TATATTATATAT
96180328 TA
1 TA
96180330 ACATTAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
TATATTATATAT
Found at i:96180366 original size:36 final size:37
Alignment explanation
Indices: 96180299--96180372 Score: 98
Period size: 36 Copynumber: 2.0 Consensus size: 37
96180289 GTAAAAATGC
* *
96180299 ATGTATATATTATATATTATATTATATATTAACATTA
1 ATGTATATATTATATATTATATAATATATTAAAATTA
*
96180336 ATGTATATA-TATTTATTATAATAATA-ATTAAAATTA
1 ATGTATATATTATATATTAT-ATAATATATTAAAATTA
96180372 A
1 A
96180373 AGTTATAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
36 19 0.58
37 14 0.42
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (37 bp):
ATGTATATATTATATATTATATAATATATTAAAATTA
Found at i:96180434 original size:9 final size:9
Alignment explanation
Indices: 96180420--96180461 Score: 68
Period size: 9 Copynumber: 4.7 Consensus size: 9
96180410 ATGCAAAATT
96180420 AAGAAAGAA
1 AAGAAAGAA
96180429 AAGAAAGAAA
1 AAGAAAG-AA
96180439 AAGAAAGAA
1 AAGAAAGAA
96180448 AA-AAAGAA
1 AAGAAAGAA
96180456 AAGAAA
1 AAGAAA
96180462 AGAGAAAGGA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
8 8 0.26
9 14 0.45
10 9 0.29
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (9 bp):
AAGAAAGAA
Found at i:96180440 original size:23 final size:23
Alignment explanation
Indices: 96180421--96180469 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
96180411 TGCAAAATTA
96180421 AGAAAGAAAAG-AAAGAAAAAGAA
1 AGAAA-AAAAGAAAAGAAAAAGAA
96180444 AGAAAAAAAGAAAAGAAAAGAGAA
1 AGAAAAAAAGAAAAGAAAA-AGAA
96180468 AG
1 AG
96180470 GAGAGAACCC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
22 5 0.21
23 13 0.54
24 6 0.25
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (23 bp):
AGAAAAAAAGAAAAGAAAAAGAA
Found at i:96180442 original size:10 final size:10
Alignment explanation
Indices: 96180420--96180469 Score: 57
Period size: 10 Copynumber: 4.7 Consensus size: 10
96180410 ATGCAAAATT
96180420 AAGAAAG-AA
1 AAGAAAGAAA
96180429 AAGAAAGAAA
1 AAGAAAGAAA
96180439 AAGAAAGAAAAA
1 AAGAAAG--AAA
96180451 AAGAAAAGAAA
1 AAG-AAAGAAA
96180462 AGAGAAAG
1 A-AGAAAG
96180470 GAGAGAACCC
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
9 7 0.19
10 9 0.25
11 8 0.22
12 8 0.22
13 4 0.11
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (10 bp):
AAGAAAGAAA
Found at i:96180467 original size:12 final size:11
Alignment explanation
Indices: 96180423--96180468 Score: 51
Period size: 12 Copynumber: 4.2 Consensus size: 11
96180413 CAAAATTAAG
96180423 AAAG-AAAAG-
1 AAAGAAAAAGA
96180432 AAAGAAAAAGA
1 AAAGAAAAAGA
*
96180443 AAGAAAAAAAGA
1 AA-AGAAAAAGA
96180455 AAAGAAAAGAGA
1 AAAGAAAA-AGA
96180467 AA
1 AA
96180469 GGAGAGAACC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
9 4 0.13
10 5 0.16
11 7 0.23
12 15 0.48
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (11 bp):
AAAGAAAAAGA
Found at i:96184885 original size:188 final size:191
Alignment explanation
Indices: 96184536--96184907 Score: 597
Period size: 188 Copynumber: 2.0 Consensus size: 191
96184526 TTTGCTGATA
*
96184536 GTGCGTCCTACTTGGAGCGTTATCTCTCTACAAATTTCAACCCTCATTTGGGACAAAAAAACCAT
1 GTGCGTCCTACTTGGAGCGTTATCTCTCTACAAATTTCAACCCTCACTTGGGACAAAAAAACCAT
* *
96184601 CGTATATATCCCGAGATATATTTTCAAAACTCATATCGTCAATATTAATGCACTGTGATAAATAA
66 CGAATATATCCCGAGATATATTTTCAAAACTCATATCATCAATATTAATGCACTGTGATAAATAA
* * * **
96184666 TTTACTAAAATATTGAATCAATCTAGTATTAAAAATGTGCAAAATTTTAAAAACCACTATT
131 TTTACTAAAATACTGAATCAAACTAGTATTAAAAATGTGAAAAAAATTAAAAACCACTATT
* *
96184727 GTGCGTCCTGCTTGGAGCGTTATCTCTCTACAAATTTCAACCCTCACTTGGGACAAAAAACCCA-
1 GTGCGTCCTACTTGGAGCGTTATCTCTCTACAAATTTCAACCCTCACTTGGGACAAAAAAACCAT
* * *
96184791 C-AATATATCCCGAGATATA-TTTCAAAACTTATCTCATCAATATTAATGCATTGTGATAAATAA
66 CGAATATATCCCGAGATATATTTTCAAAACTCATATCATCAATATTAATGCACTGTGATAAATAA
*
96184854 TTTACTAAAATACTGGATCAAACTAGTATTAAAAATGTGAAAAAAATTAAAAAC
131 TTTACTAAAATACTGAATCAAACTAGTATTAAAAATGTGAAAAAAATTAAAAAC
96184908 TAATATTTCA
Statistics
Matches: 167, Mismatches: 14, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
188 88 0.53
189 17 0.10
190 1 0.01
191 61 0.37
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (191 bp):
GTGCGTCCTACTTGGAGCGTTATCTCTCTACAAATTTCAACCCTCACTTGGGACAAAAAAACCAT
CGAATATATCCCGAGATATATTTTCAAAACTCATATCATCAATATTAATGCACTGTGATAAATAA
TTTACTAAAATACTGAATCAAACTAGTATTAAAAATGTGAAAAAAATTAAAAACCACTATT
Found at i:96185095 original size:16 final size:16
Alignment explanation
Indices: 96185066--96185099 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
96185056 ACCCATGAGA
96185066 AAAACGTTTCCAGTTG
1 AAAACGTTTCCAGTTG
* *
96185082 AAAACTTTTTCAGTTG
1 AAAACGTTTCCAGTTG
96185098 AA
1 AA
96185100 CTGTCAGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (16 bp):
AAAACGTTTCCAGTTG
Found at i:96185154 original size:17 final size:17
Alignment explanation
Indices: 96185132--96185166 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
96185122 GGTATAATGT
96185132 ACATAATTATAAAATAA
1 ACATAATTATAAAATAA
*
96185149 ACATAATTATAATATAA
1 ACATAATTATAAAATAA
96185166 A
1 A
96185167 TAATACATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (17 bp):
ACATAATTATAAAATAA
Found at i:96185326 original size:15 final size:15
Alignment explanation
Indices: 96185295--96185363 Score: 51
Period size: 13 Copynumber: 4.9 Consensus size: 15
96185285 TTTAAGAAAA
96185295 AATTATAATA-AACAT
1 AATTATAATATAA-AT
96185310 AATTATAATATAAAT
1 AATTATAATATAAAT
* *
96185325 AA-TA-CATCTAAAT
1 AATTATAATATAAAT
*
96185338 AATTA-AA-ATGAA-
1 AATTATAATATAAAT
*
96185350 AATTATAAAATAAA
1 AATTATAATATAAA
96185364 ATTAATGGTT
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
12 5 0.11
13 14 0.32
14 9 0.20
15 14 0.32
16 2 0.05
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.32
Consensus pattern (15 bp):
AATTATAATATAAAT
Found at i:96188045 original size:6 final size:6
Alignment explanation
Indices: 96188030--96188062 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
96188020 CAGATTGTTA
96188030 GTTTTT -TTTTT GTTTTT GTTTTT GTTTTT GTTT
1 GTTTTT GTTTTT GTTTTT GTTTTT GTTTTT GTTT
96188063 GCTGCATATC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (6 bp):
GTTTTT
Found at i:96199716 original size:17 final size:17
Alignment explanation
Indices: 96199694--96199726 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
96199684 AATAATTACT
96199694 ATATAGTACCTATATAC
1 ATATAGTACCTATATAC
96199711 ATATAGTACCTATATA
1 ATATAGTACCTATATA
96199727 TGGCTATGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.15, G:0.06, T:0.36
Consensus pattern (17 bp):
ATATAGTACCTATATAC
Found at i:96200212 original size:2 final size:2
Alignment explanation
Indices: 96200205--96200229 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
96200195 GTGAGTAATT
96200205 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
96200230 TTAGAAGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:96200607 original size:15 final size:15
Alignment explanation
Indices: 96200587--96200616 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
96200577 GAAGTGTCCA
*
96200587 AAATATGTTTAATTT
1 AAATATATTTAATTT
96200602 AAATATATTTAATTT
1 AAATATATTTAATTT
96200617 GGGTTGGAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (15 bp):
AAATATATTTAATTT
Found at i:96202006 original size:15 final size:16
Alignment explanation
Indices: 96201983--96202029 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
96201973 TTATAAATTT
* *
96201983 ATATATAAAA-AAGTA
1 ATATTTAAAATAAATA
96201998 ATATTTAAAATAAATA
1 ATATTTAAAATAAATA
96202014 ATATTTTATAAATAAA
1 ATA-TTTA-AAATAAA
96202030 AAGGAGTTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
15 9 0.33
16 7 0.26
17 4 0.15
18 7 0.26
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (16 bp):
ATATTTAAAATAAATA
Found at i:96202028 original size:18 final size:18
Alignment explanation
Indices: 96201986--96202029 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
96201976 TAAATTTATA
96201986 TATAAA-AAAGTAATATT
1 TATAAATAAAGTAATATT
96202003 TA-AAATAAA-TAATATTT
1 TATAAATAAAGTAATA-TT
96202020 TATAAATAAA
1 TATAAATAAA
96202030 AAGGAGTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 8 0.33
17 9 0.38
18 7 0.29
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (18 bp):
TATAAATAAAGTAATATT
Found at i:96209473 original size:20 final size:20
Alignment explanation
Indices: 96209448--96209488 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
96209438 GAGAGAGAGT
96209448 GGTCATGCCCTAATTCTTGA
1 GGTCATGCCCTAATTCTTGA
96209468 GGTCATGCCCTAATTCTTGA
1 GGTCATGCCCTAATTCTTGA
96209488 G
1 G
96209489 ATTATCAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (20 bp):
GGTCATGCCCTAATTCTTGA
Found at i:96213796 original size:3 final size:3
Alignment explanation
Indices: 96213539--96213779 Score: 235
Period size: 3 Copynumber: 78.7 Consensus size: 3
96213529 TAATGTGACG
96213539 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
96213587 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
96213635 ATA ATA ATA ATA ATA AT- ATA AGTA AAA ACCTAA ATA AT- TTGA TTT
1 ATA ATA ATA ATA ATA ATA ATA A-TA ATA A--T-A ATA ATA AT-A ATA
* * * * * *
96213680 TTA A-A AGT- ATA CA-A AGA ATGG GT- ATAA ATAA ATA GATG ATT A-A
1 ATA ATA A-TA ATA -ATA ATA AT-A ATA AT-A AT-A ATA -ATA ATA ATA
96213723 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
96213771 ATAA ATA AT
1 AT-A ATA AT
96213780 CAAACACTAA
Statistics
Matches: 207, Mismatches: 13, Indels: 36
0.81 0.05 0.14
Matches are distributed among these distances:
2 9 0.04
3 177 0.86
4 19 0.09
6 2 0.01
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:96213950 original size:21 final size:19
Alignment explanation
Indices: 96213926--96213975 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 19
96213916 AAATGAACAG
96213926 ATAAATAAAATAAAAAGAATA
1 ATAAATAAAA-AAAAAGAA-A
*
96213947 ATAAATAACAAAACAAGAAA
1 ATAAATAA-AAAAAAAGAAA
96213967 ATAAATAAA
1 ATAAATAAA
96213976 TGGATAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 1 0.04
20 9 0.33
21 15 0.56
22 2 0.07
ACGTcount: A:0.76, C:0.04, G:0.04, T:0.16
Consensus pattern (19 bp):
ATAAATAAAAAAAAAGAAA
Found at i:96216541 original size:29 final size:29
Alignment explanation
Indices: 96216499--96216558 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
96216489 CATTGTTATC
* *
96216499 TCCAGTATTGACCATAGGGTCCTTTTCTT
1 TCCAGTATGGACCATAGGGCCCTTTTCTT
96216528 TCCAGTATGGACCATAGGGCCCTTTTCTT
1 TCCAGTATGGACCATAGGGCCCTTTTCTT
96216557 TC
1 TC
96216559 TCTTGTCCAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.17, C:0.27, G:0.18, T:0.38
Consensus pattern (29 bp):
TCCAGTATGGACCATAGGGCCCTTTTCTT
Found at i:96219780 original size:16 final size:17
Alignment explanation
Indices: 96219749--96219781 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
96219739 TTCATAAGTA
96219749 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
96219766 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
96219782 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:96220224 original size:92 final size:92
Alignment explanation
Indices: 96220077--96220431 Score: 557
Period size: 92 Copynumber: 3.9 Consensus size: 92
96220067 TGCCATAATG
* * * *
96220077 TCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGATATCTTTCAACCATGGTCTTA
1 TCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
*
96220142 TTCATTTCATATCACATTGCCATGGTA
66 TTCATTTCATATCACGTTGCCATGGTA
*
96220169 TCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
1 TCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
*
96220234 TTCATTTTATATCACGTTGCCATGGTA
66 TTCATTTCATATCACGTTGCCATGGTA
*
96220261 TCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
1 TCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
*
96220326 TTCATTTCATATCAGGTTGCCATGGTA
66 TTCATTTCATATCACGTTGCCATGGTA
* *** * *
96220353 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTTCCATGGTATCTTTCAACCATGGTCTTA
1 TCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
**
96220418 CACATTTCATATCA
66 TTCATTTCATATCA
96220432 AAGAGCACAC
Statistics
Matches: 245, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
92 245 1.00
ACGTcount: A:0.21, C:0.24, G:0.13, T:0.42
Consensus pattern (92 bp):
TCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
TTCATTTCATATCACGTTGCCATGGTA
Found at i:96220418 original size:46 final size:46
Alignment explanation
Indices: 96220077--96220431 Score: 505
Period size: 46 Copynumber: 7.7 Consensus size: 46
96220067 TGCCATAATG
* * * *
96220077 TCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGATA
1 TCTTTCAACCATGGTCTTATTCA-TTTCATATCATGTTGCCATGGTA
**
96220123 TCTTTCAACCATGGTCTTATTCATTTCATATCACATTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATATCATGTTGCCATGGTA
***
96220169 TCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATATCATGTTGCCATGGTA
* *
96220215 TCTTTCAACCATGGTCTTATTCATTTTATATCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATATCATGTTGCCATGGTA
***
96220261 TCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATATCATGTTGCCATGGTA
*
96220307 TCTTTCAACCATGGTCTTATTCATTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATATCATGTTGCCATGGTA
** * *
96220353 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTTCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTCATATCATGTTGCCATGGTA
**
96220399 TCTTTCAACCATGGTCTTACACATTTCATATCA
1 TCTTTCAACCATGGTCTTATTCATTTCATATCA
96220432 AAGAGCACAC
Statistics
Matches: 280, Mismatches: 28, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 4 0.01
46 276 0.99
ACGTcount: A:0.21, C:0.24, G:0.13, T:0.42
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTATTCATTTCATATCATGTTGCCATGGTA
Found at i:96222571 original size:29 final size:30
Alignment explanation
Indices: 96222514--96222581 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
96222504 CAACCTTAAA
* * *
96222514 ATATTTGCACTATTAGTCCTTCAACTTTTC
1 ATATTTACACTATTAATCCTTCAAATTTTC
* *
96222544 ATATTTACACT-TTAATCTTTCAAATTTTG
1 ATATTTACACTATTAATCCTTCAAATTTTC
96222573 AGTATTTAC
1 A-TATTTAC
96222582 TCTTAGGCCA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.28, C:0.18, G:0.06, T:0.49
Consensus pattern (30 bp):
ATATTTACACTATTAATCCTTCAAATTTTC
Found at i:96223469 original size:20 final size:20
Alignment explanation
Indices: 96223444--96223481 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
96223434 AATTGGTACC
96223444 TAATTGATCAATTAAAGTCT
1 TAATTGATCAATTAAAGTCT
96223464 TAATTGATCAATTAAAGT
1 TAATTGATCAATTAAAGT
96223482 ACGATCCTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.39
Consensus pattern (20 bp):
TAATTGATCAATTAAAGTCT
Found at i:96224447 original size:3 final size:3
Alignment explanation
Indices: 96224189--96224430 Score: 142
Period size: 3 Copynumber: 79.7 Consensus size: 3
96224179 TGTGACGATG
96224189 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*** ** * *
96224236 ATA ATA ATA ATA ATA ATA ATA ATA GCC AT- ATA ATA ATA GGA ATG ACA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * ** * * *
96224283 ATA ATA ATA CT- ATA AGTGA A-A ACCTAA ATA ATT CGA TTT TTA A-A
1 ATA ATA ATA ATA ATA A-T-A ATA A--T-A ATA ATA ATA ATA ATA ATA
* * * * *
96224327 AGT- ATA CA-A AGA ATGG GT- ATAA ATAA ATA GATG ATT A-A ATA ATA
1 A-TA ATA -ATA ATA AT-A ATA AT-A AT-A ATA -ATA ATA ATA ATA ATA
96224371 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
96224419 ATA ATAA ATA AT
1 ATA AT-A ATA AT
96224431 CAAACACCAA
Statistics
Matches: 188, Mismatches: 31, Indels: 40
0.73 0.12 0.15
Matches are distributed among these distances:
2 13 0.07
3 156 0.83
4 15 0.08
5 2 0.01
6 2 0.01
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:96224597 original size:21 final size:19
Alignment explanation
Indices: 96224573--96224622 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 19
96224563 AAATGAACAG
96224573 ATAAATAAAATAAAAAGAATA
1 ATAAATAAAA-AAAAAGAA-A
* *
96224594 ATAAATAACAAAACAAGCAA
1 ATAAATAA-AAAAAAAGAAA
96224614 ATAAATAAA
1 ATAAATAAA
96224623 TGGATAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 1 0.04
20 9 0.35
21 14 0.54
22 2 0.08
ACGTcount: A:0.74, C:0.06, G:0.04, T:0.16
Consensus pattern (19 bp):
ATAAATAAAAAAAAAGAAA
Found at i:96229325 original size:25 final size:25
Alignment explanation
Indices: 96229291--96229359 Score: 68
Period size: 25 Copynumber: 2.8 Consensus size: 25
96229281 TAGGGTTATT
*
96229291 GTTACTCAGCTCGTATGAGCCTACC
1 GTTATTCAGCTCGTATGAGCCTACC
* * * *
96229316 GTTATTCAGCTCGGAGGAGCTTACT
1 GTTATTCAGCTCGTATGAGCCTACC
* *
96229341 GTT-TACATCTCGTATGAGC
1 GTTATTCAGCTCGTATGAGC
96229360 ATACATGTAC
Statistics
Matches: 35, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
24 12 0.34
25 23 0.66
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (25 bp):
GTTATTCAGCTCGTATGAGCCTACC
Found at i:96229590 original size:67 final size:67
Alignment explanation
Indices: 96229513--96229647 Score: 252
Period size: 67 Copynumber: 2.0 Consensus size: 67
96229503 CATGAATTAC
*
96229513 ATGAAAATGGTTTCTATATGATATATGGATACATAGTATAGATGTTACACGTATATGGAGTTTGA
1 ATGAAAATGGTTTCTATATGATATATGGATAAATAGTATAGATGTTACACGTATATGGAGTTTGA
96229578 AT
66 AT
*
96229580 ATGAAAATGGTTTCTATATGATATATGGATAAATAGTATAGATGTTACATGTATATGGAGTTTGA
1 ATGAAAATGGTTTCTATATGATATATGGATAAATAGTATAGATGTTACACGTATATGGAGTTTGA
96229645 AT
66 AT
96229647 A
1 A
96229648 GTTGTTAAAC
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.37, C:0.04, G:0.21, T:0.38
Consensus pattern (67 bp):
ATGAAAATGGTTTCTATATGATATATGGATAAATAGTATAGATGTTACACGTATATGGAGTTTGA
AT
Found at i:96230269 original size:51 final size:51
Alignment explanation
Indices: 96230190--96230292 Score: 188
Period size: 51 Copynumber: 2.0 Consensus size: 51
96230180 AACTTATAGG
*
96230190 TATATTGATGATTGGTTTAGAACGGTATATTTGGTACCAAATGGGTGAGCT
1 TATATTGATGATTGGTTTAGAACAGTATATTTGGTACCAAATGGGTGAGCT
*
96230241 TATATTGATGATTGGTTTAGAATAGTATATTTGGTACCAAATGGGTGAGCT
1 TATATTGATGATTGGTTTAGAACAGTATATTTGGTACCAAATGGGTGAGCT
96230292 T
1 T
96230293 GATGAGTGAC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.28, C:0.07, G:0.26, T:0.39
Consensus pattern (51 bp):
TATATTGATGATTGGTTTAGAACAGTATATTTGGTACCAAATGGGTGAGCT
Found at i:96236390 original size:44 final size:45
Alignment explanation
Indices: 96236300--96236428 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
96236290 GACAGAACGA
*
96236300 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
96236346 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
96236390 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
96236429 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:96243770 original size:44 final size:45
Alignment explanation
Indices: 96243680--96243808 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
96243670 GACAGAACGA
*
96243680 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
96243726 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
96243770 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
96243809 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:96246581 original size:12 final size:12
Alignment explanation
Indices: 96246564--96246590 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
96246554 ACTTTCTTAA
96246564 GTCAGATTTGGT
1 GTCAGATTTGGT
96246576 GTCAGATTTGGT
1 GTCAGATTTGGT
96246588 GTC
1 GTC
96246591 CCGAAACCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.11, G:0.33, T:0.41
Consensus pattern (12 bp):
GTCAGATTTGGT
Found at i:96257747 original size:19 final size:19
Alignment explanation
Indices: 96257719--96257755 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
96257709 ATAATGAAAA
*
96257719 TATTATATATATATTATTG
1 TATTAAATATATATTATTG
*
96257738 TATTAAATATATTTTATT
1 TATTAAATATATATTATT
96257756 TTTTCTAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (19 bp):
TATTAAATATATATTATTG
Found at i:96257769 original size:23 final size:23
Alignment explanation
Indices: 96257743--96257802 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
96257733 TATTGTATTA
*
96257743 AATATATTTTATTTTTTCTA-AAC
1 AATATA-TTTATTTTTTATATAAC
* *
96257766 AATA-ATATATTTTTTATATATC
1 AATATATTTATTTTTTATATAAC
96257788 AA-ATATTTATTTTTT
1 AATATATTTATTTTTT
96257803 TCCACCTACT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
21 12 0.39
22 15 0.48
23 4 0.13
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (23 bp):
AATATATTTATTTTTTATATAAC
Found at i:96258501 original size:22 final size:23
Alignment explanation
Indices: 96258458--96258504 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
96258448 TGTTTTTAGA
*
96258458 TTTTGAGTAATGAGTTTAATTAT
1 TTTTGAGTAATGAGTATAATTAT
96258481 TTTTGAGTTAATGA-TAT-ATTAT
1 TTTTGAG-TAATGAGTATAATTAT
96258503 TT
1 TT
96258505 AACATATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 7 0.32
23 9 0.41
24 6 0.27
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.55
Consensus pattern (23 bp):
TTTTGAGTAATGAGTATAATTAT
Found at i:96264126 original size:19 final size:21
Alignment explanation
Indices: 96264092--96264132 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
96264082 ATTTTTCTAC
*
96264092 ATTTACATTATAATATAGTAT
1 ATTTACATTATAATATAATAT
96264113 ATTTA-ATT-TAATATAATAT
1 ATTTACATTATAATATAATAT
96264132 A
1 A
96264133 AATTATATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 11 0.58
20 3 0.16
21 5 0.26
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (21 bp):
ATTTACATTATAATATAATAT
Found at i:96265419 original size:19 final size:19
Alignment explanation
Indices: 96265395--96265437 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
96265385 TACATCCCTT
96265395 AACCCCCATCATTTTCCTC
1 AACCCCCATCATTTTCCTC
*
96265414 AACCCCCATCATTTTTCTC
1 AACCCCCATCATTTTCCTC
96265433 AACCC
1 AACCC
96265438 AATACATGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.23, C:0.47, G:0.00, T:0.30
Consensus pattern (19 bp):
AACCCCCATCATTTTCCTC
Found at i:96274203 original size:30 final size:30
Alignment explanation
Indices: 96274169--96274228 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
96274159 ATTTAATACG
96274169 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
96274199 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
96274229 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:96281202 original size:46 final size:45
Alignment explanation
Indices: 96281139--96281298 Score: 231
Period size: 46 Copynumber: 3.6 Consensus size: 45
96281129 CCGCCCTAAG
*
96281139 TGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCATAA
*
96281184 GTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAA
1 -TGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCATAA
* *
96281230 -GAACTCGGACTCAACTCAACGAGTTC-GG-A-T-GCATACATCA
1 TGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCATAA
*
96281270 CGAACTCGGACTCAACTCAACGAGTTCGG
1 TGAACTCGGACTCAACTCAACGAGTTCGG
96281299 ATGCTCAACC
Statistics
Matches: 107, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
40 8 0.07
41 27 0.25
42 1 0.01
43 2 0.02
44 26 0.24
46 43 0.40
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCATAA
Found at i:96281298 original size:20 final size:20
Alignment explanation
Indices: 96281234--96281299 Score: 73
Period size: 20 Copynumber: 3.2 Consensus size: 20
96281224 CCATAAGAAC
96281234 TCGGACTCAACTCAACGAGT
1 TCGGACTCAACTCAACGAGT
**
96281254 TCGGA-TGCATACATC-ACGAAC
1 TCGGACT-CA-AC-TCAACGAGT
96281275 TCGGACTCAACTCAACGAGT
1 TCGGACTCAACTCAACGAGT
96281295 TCGGA
1 TCGGA
96281300 TGCTCAACCA
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
19 3 0.08
20 18 0.49
21 13 0.35
22 3 0.08
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.20
Consensus pattern (20 bp):
TCGGACTCAACTCAACGAGT
Found at i:96281753 original size:30 final size:30
Alignment explanation
Indices: 96281719--96281778 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
96281709 ATTTAATACG
96281719 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
96281749 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
96281779 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:96285798 original size:46 final size:46
Alignment explanation
Indices: 96285747--96285951 Score: 270
Period size: 46 Copynumber: 4.5 Consensus size: 46
96285737 ATGCCATATG
* * * *
96285747 TCTTTCAACTATGGTCTTTCTCATTTTC-TGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACA-TTTCATGTCATGCTGCCATGGTA
**
96285793 TCTTTCAACCATGGTCTTATTCATTTCATGTCATGCTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATGTCATGCTGCCATGGTA
* *
96285839 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATGTCATGCTGCCATGGTA
** * *
96285885 TCTTTCAACCATGGTCTTACACATTTCAT-AAATGGTTGTCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATGTCAT-GCTGCCATGGTA
96285931 TCTTTCAACCATGGTCTTACA
1 TCTTTCAACCATGGTCTTACA
96285952 AGCACACTCC
Statistics
Matches: 144, Mismatches: 13, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
45 5 0.03
46 139 0.97
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.40
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACACATTTCATGTCATGCTGCCATGGTA
Found at i:96288964 original size:92 final size:92
Alignment explanation
Indices: 96288807--96288975 Score: 295
Period size: 92 Copynumber: 1.8 Consensus size: 92
96288797 GGATGGTTGA
* *
96288807 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAACGCCCGAACTCGTTGAGTT
96288872 GAGTCCGAGTTCGTGAGATGTAACTAG
66 GAGTCCGAGTTCGTGAGATGTAACTAG
*
96288899 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-ACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TATGGATGCGAACGCCCGAACTCGTTGAGT
96288963 TGAGTCCGAGTTC
65 TGAGTCCGAGTTC
96288976 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 63 0.86
93 10 0.14
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAACGCCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:96288979 original size:45 final size:45
Alignment explanation
Indices: 96288811--96288980 Score: 195
Period size: 45 Copynumber: 3.7 Consensus size: 45
96288801 GGTTGAGCAT
* *
96288811 CCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-ACGC
* * * *
96288856 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGACGC
96288901 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGACGC
*
96288948 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
96288981 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
43 4 0.04
45 63 0.59
46 1 0.01
47 32 0.30
48 2 0.02
50 4 0.04
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGACGC
Found at i:96296513 original size:92 final size:92
Alignment explanation
Indices: 96296356--96296524 Score: 304
Period size: 92 Copynumber: 1.8 Consensus size: 92
96296346 GGATGGTTGA
*
96296356 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAACGTCCGAACTCGTTGAGTT
96296421 GAGTCCGAGTTCGTGAGATGTAACTAG
66 GAGTCCGAGTTCGTGAGATGTAACTAG
*
96296448 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TATGGATGCGAACGTCCGAACTCGTTGAGT
96296512 TGAGTCCGAGTTC
65 TGAGTCCGAGTTC
96296525 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 61 0.82
93 13 0.18
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAACGTCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:96296528 original size:45 final size:46
Alignment explanation
Indices: 96296359--96296529 Score: 210
Period size: 45 Copynumber: 3.7 Consensus size: 46
96296349 TGGTTGAGCA
*
96296359 TCCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
96296404 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
96296449 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
*
96296497 -CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
96296530 GGGGCGGGTT
Statistics
Matches: 108, Mismatches: 8, Indels: 20
0.79 0.06 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 63 0.58
47 29 0.27
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:96298210 original size:20 final size:19
Alignment explanation
Indices: 96298176--96298214 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
96298166 ACACCTTTGA
96298176 TTTTCCCTTTTTTTCTTTC
1 TTTTCCCTTTTTTTCTTTC
*
96298195 TTTTCTCTTTTCTTTCTTTC
1 TTTTCCCTTTT-TTTCTTTC
96298215 CTTCCCCTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTCCCTTTTTTTCTTTC
Found at i:96299443 original size:16 final size:16
Alignment explanation
Indices: 96299422--96299452 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
96299412 TTATCACCCT
96299422 ATGTACTCTTAGACAA
1 ATGTACTCTTAGACAA
96299438 ATGTACTCTTAGACA
1 ATGTACTCTTAGACA
96299453 TGGTCTATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.32
Consensus pattern (16 bp):
ATGTACTCTTAGACAA
Found at i:96306899 original size:20 final size:20
Alignment explanation
Indices: 96306876--96306921 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
96306866 TTACACTTCG
*
96306876 GTGCCTCTATTTGCAC-TTT
1 GTGCCTCTAATTGCACATTT
96306895 AGTGCCTCTAATTGCACATTT
1 -GTGCCTCTAATTGCACATTT
96306916 GTGCCT
1 GTGCCT
96306922 ATGTTACGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 21 0.88
21 3 0.12
ACGTcount: A:0.15, C:0.26, G:0.17, T:0.41
Consensus pattern (20 bp):
GTGCCTCTAATTGCACATTT
Found at i:96311963 original size:40 final size:39
Alignment explanation
Indices: 96311862--96312056 Score: 176
Period size: 40 Copynumber: 4.9 Consensus size: 39
96311852 TGAATGTGTG
* * * * * *
96311862 TTAGGGTATCAAAGTACAAACAAGTGCACGTATGTGCAA
1 TTAGGGTACCGAAGTACAAACAGGGGCACGTATGTGTAT
** * * * *
96311901 TCCGAGGTACCAAAATAAAAACAGGGGTACGTATGTGTAT
1 TTAG-GGTACCGAAGTACAAACAGGGGCACGTATGTGTAT
* *
96311941 TTAGGGATACCGAAGTACAAACAGGGGCACTTATGTGCAT
1 TTAGGG-TACCGAAGTACAAACAGGGGCACGTATGTGTAT
* * * *
96311981 TTAGGGGCACCGAAGTACATATAGGGGCATGTATGT-TCAT
1 TTA-GGGTACCGAAGTACAAACAGGGGCACGTATGTGT-AT
*
96312021 TTAGGGTACCGAAGTACAAACAGGGGCACATATGTG
1 TTAGGGTACCGAAGTACAAACAGGGGCACGTATGTG
96312057 CATTCAAGGA
Statistics
Matches: 122, Mismatches: 29, Indels: 9
0.76 0.18 0.06
Matches are distributed among these distances:
39 31 0.25
40 88 0.72
41 3 0.02
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.23
Consensus pattern (39 bp):
TTAGGGTACCGAAGTACAAACAGGGGCACGTATGTGTAT
Found at i:96311976 original size:80 final size:79
Alignment explanation
Indices: 96311862--96312058 Score: 207
Period size: 80 Copynumber: 2.5 Consensus size: 79
96311852 TGAATGTGTG
* * * * * * *
96311862 TTAGGGTATCAAAGTACAAACAAGTGCACGTATGTGCAATCCGAGGTACCAAAATAAAAACAGGG
1 TTAGGGTACCGAAGTACAAACAGGGGCACATATGTGCAATCAGAGGCACCAAAATAAAAACAGGG
*
96311927 GTACGTATGTGT-AT
66 GCACGTATGT-TCAT
* * * * * * * * *
96311941 TTAGGGATACCGAAGTACAAACAGGGGCACTTATGTGCATTTAGGGGCACCGAAGTACATATAGG
1 TTAGGG-TACCGAAGTACAAACAGGGGCACATATGTGCAATCAGAGGCACCAAAATAAAAACAGG
*
96312006 GGCATGTATGTTCAT
65 GGCACGTATGTTCAT
96312021 TTAGGGTACCGAAGTACAAACAGGGGCACATATGTGCA
1 TTAGGGTACCGAAGTACAAACAGGGGCACATATGTGCA
96312059 TTCAAGGATA
Statistics
Matches: 98, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
79 38 0.39
80 60 0.61
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.23
Consensus pattern (79 bp):
TTAGGGTACCGAAGTACAAACAGGGGCACATATGTGCAATCAGAGGCACCAAAATAAAAACAGGG
GCACGTATGTTCAT
Found at i:96311988 original size:20 final size:20
Alignment explanation
Indices: 96311963--96312026 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
96311953 AAGTACAAAC
*
96311963 AGGGGCACTTATGTGCATTT
1 AGGGGCACTTATGTACATTT
** * *
96311983 AGGGGCACCGAAGTACATAT
1 AGGGGCACTTATGTACATTT
*
96312003 AGGGGCA-TGTATGTTCATTT
1 AGGGGCACT-TATGTACATTT
96312023 AGGG
1 AGGG
96312027 TACCGAAGTA
Statistics
Matches: 33, Mismatches: 10, Indels: 2
0.73 0.22 0.04
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.25, C:0.14, G:0.33, T:0.28
Consensus pattern (20 bp):
AGGGGCACTTATGTACATTT
Found at i:96314967 original size:2 final size:2
Alignment explanation
Indices: 96314932--96314956 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
96314922 CTAATAGTGC
96314932 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
96314957 TAAAGTATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:96315060 original size:26 final size:25
Alignment explanation
Indices: 96315021--96315070 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
96315011 ATATATACAT
*
96315021 AATATATATAAAATGAAC-ATATAC
1 AATATATATAAAATAAACAATATAC
96315045 AATATATACTAGAAATAAACAATATA
1 AATATATA-TA-AAATAAACAATATA
96315071 TATATTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 8 0.36
25 2 0.09
26 7 0.32
27 5 0.23
ACGTcount: A:0.60, C:0.08, G:0.04, T:0.28
Consensus pattern (25 bp):
AATATATATAAAATAAACAATATAC
Found at i:96315075 original size:26 final size:24
Alignment explanation
Indices: 96315021--96315112 Score: 64
Period size: 24 Copynumber: 3.7 Consensus size: 24
96315011 ATATATACAT
*
96315021 AATATATATAAAATGAACATATAC
1 AATATATATAAAATAAACATATAC
96315045 AATATATACTAGAAATAAACA-ATA-
1 AATATATA-TA-AAATAAACATATAC
* * * *
96315069 TATATATTAATAATACTAAATATGTAC
1 AATATA-T-ATAA-AATAAACATATAC
96315096 -ATATATATTAAAATAAA
1 AATATATA-TAAAATAAA
96315113 TACATAATGC
Statistics
Matches: 54, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
24 20 0.37
25 18 0.33
26 16 0.30
ACGTcount: A:0.58, C:0.07, G:0.03, T:0.33
Consensus pattern (24 bp):
AATATATATAAAATAAACATATAC
Found at i:96315188 original size:2 final size:2
Alignment explanation
Indices: 96315181--96315216 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
96315171 AGTTATTAAG
96315181 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
96315217 GCATATTAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:96315297 original size:21 final size:21
Alignment explanation
Indices: 96315267--96315332 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
96315257 ATAATACTGC
*
96315267 ATAAACATATACATATATATA
1 ATAAACATATACACATATATA
* * *
96315288 TTAAAGATATATACATATATA
1 ATAAACATATACACATATATA
96315309 ATAAACATATACTA-ATA-ATA
1 ATAAACATATAC-ACATATATA
96315329 ATAA
1 ATAA
96315333 TAATTATAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
20 7 0.19
21 29 0.78
22 1 0.03
ACGTcount: A:0.58, C:0.08, G:0.02, T:0.33
Consensus pattern (21 bp):
ATAAACATATACACATATATA
Found at i:96315514 original size:22 final size:22
Alignment explanation
Indices: 96315448--96315528 Score: 64
Period size: 22 Copynumber: 3.8 Consensus size: 22
96315438 AAATATAACG
96315448 ATAT-ATAAAA-ATA-ATACTA
1 ATATAATAAAATATATATACTA
* **
96315467 TATATAA-AATATATATATACCC
1 -ATATAATAAAATATATATACTA
*
96315489 ATATAATAAAATATATGTACTA
1 ATATAATAAAATATATATACTA
96315511 ATATTAATAACAA-ATATA
1 ATA-TAATAA-AATATATA
96315529 ATAGGGATAA
Statistics
Matches: 47, Mismatches: 8, Indels: 9
0.73 0.12 0.14
Matches are distributed among these distances:
20 7 0.15
21 10 0.21
22 18 0.38
23 10 0.21
24 2 0.04
ACGTcount: A:0.57, C:0.07, G:0.01, T:0.35
Consensus pattern (22 bp):
ATATAATAAAATATATATACTA
Found at i:96315688 original size:9 final size:9
Alignment explanation
Indices: 96315674--96315733 Score: 50
Period size: 9 Copynumber: 6.2 Consensus size: 9
96315664 TAACATTAAA
96315674 AATATATAT
1 AATATATAT
96315683 AATATATAT
1 AATATATAT
96315692 ACA-ATATAT
1 A-ATATATAT
*
96315701 ACATATATTT
1 A-ATATATAT
*
96315711 AGAAATGATAAT
1 A-ATAT-AT-AT
96315723 AATATATAT
1 AATATATAT
96315732 AA
1 AA
96315734 AAAACTATTC
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
9 23 0.55
10 12 0.29
11 5 0.12
12 2 0.05
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.38
Consensus pattern (9 bp):
AATATATAT
Found at i:96315802 original size:21 final size:23
Alignment explanation
Indices: 96315753--96315805 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 23
96315743 CATACACTAC
96315753 ATAATTAATCTTAATAAAACTAAA
1 ATAATTAATCTTAAT-AAACTAAA
96315777 ATAATTAATCTTAAT-AA-TAAA
1 ATAATTAATCTTAATAAACTAAA
*
96315798 GTAATTAA
1 ATAATTAA
96315806 AAAGGATCGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 11 0.39
22 2 0.07
24 15 0.54
ACGTcount: A:0.57, C:0.06, G:0.02, T:0.36
Consensus pattern (23 bp):
ATAATTAATCTTAATAAACTAAA
Found at i:96317305 original size:21 final size:21
Alignment explanation
Indices: 96317280--96317329 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
96317270 TAAGATCTGC
*
96317280 AACTTCAATGC-GCTCCCCTGT
1 AACTTCAAT-CAGCTCCACTGT
* *
96317301 AACTTCGATCAGCTCCATTGT
1 AACTTCAATCAGCTCCACTGT
96317322 AACTTCAA
1 AACTTCAA
96317330 GATTTTGCTA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.04
21 23 0.96
ACGTcount: A:0.26, C:0.32, G:0.12, T:0.30
Consensus pattern (21 bp):
AACTTCAATCAGCTCCACTGT
Found at i:96317801 original size:72 final size:73
Alignment explanation
Indices: 96317681--96317910 Score: 261
Period size: 72 Copynumber: 3.2 Consensus size: 73
96317671 TTGAAAAACA
* * * * *
96317681 GAAACTGAAAATGCCTCAGCATGTCCCGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTT
1 GAAATTGAAAATACCTCAGCA-GTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
96317746 TGCAAAAGT
65 TGCAAAAGT
* *
96317755 GAAATTGAAAATACCTCAGC-GTCCTGAGGCTCGACTCACCTCTCGCAATATGAGTTGA-TTTTA
1 GAAATTGAAAATACCTCAGCAGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
* * **
96317818 AC-GAACC
66 GCAAAAGT
* * *
96317825 AAAATTGAAATTACCTCAGCGAGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTC
1 GAAATTGAAAATACCTCAGC-AGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT-
96317890 TTG-AAAAGT
64 TTGCAAAAGT
*
96317899 AGAAATTAAAAA
1 -GAAATTGAAAA
96317911 CAGAAATTGA
Statistics
Matches: 127, Mismatches: 23, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
70 20 0.16
71 5 0.04
72 70 0.55
73 3 0.02
74 21 0.17
75 8 0.06
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (73 bp):
GAAATTGAAAATACCTCAGCAGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
GCAAAAGT
Found at i:96318105 original size:75 final size:74
Alignment explanation
Indices: 96317984--96318194 Score: 271
Period size: 76 Copynumber: 2.8 Consensus size: 74
96317974 ATAGAAACTA
* * * *
96317984 AAAATACCTCAGTGTGTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTTATTTTTTT-AA
1 AAAATACCTCAGCGTGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAA
*
96318048 TGAACAGAAATT
64 AG-ACAGAAATT
96318060 AAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAA
1 AAAA-TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTAAA
96318125 AGACAGAAATT
64 AGACAGAAATT
* * * * *
96318136 GAAAATACATCAACGTGTCTTAAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTT
1 -AAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
96318195 GTAACAGAAA
Statistics
Matches: 121, Mismatches: 10, Indels: 9
0.86 0.07 0.06
Matches are distributed among these distances:
75 38 0.31
76 64 0.53
77 19 0.16
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (74 bp):
AAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAG
ACAGAAATT
Found at i:96319051 original size:44 final size:44
Alignment explanation
Indices: 96318989--96319105 Score: 211
Period size: 44 Copynumber: 2.7 Consensus size: 44
96318979 TCATTAGAAT
96318989 GCCC-TTTCGGGTTTTCATCCTAATCTTTTGTGTTAATCAAGAC
1 GCCCTTTTCGGGTTTTCATCCTAATCTTTTGTGTTAATCAAGAC
96319032 GCCCTTTTCGGGTTTTCATCCTAATCTTTTGTGTTAATCAAGAC
1 GCCCTTTTCGGGTTTTCATCCTAATCTTTTGTGTTAATCAAGAC
96319076 GCCCTTTTCGGGTTTTCA-CCTTAATCTTTT
1 GCCCTTTTCGGGTTTTCATCC-TAATCTTTT
96319106 CTTTTTAGGC
Statistics
Matches: 72, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
43 6 0.08
44 66 0.92
ACGTcount: A:0.16, C:0.24, G:0.15, T:0.44
Consensus pattern (44 bp):
GCCCTTTTCGGGTTTTCATCCTAATCTTTTGTGTTAATCAAGAC
Found at i:96328067 original size:39 final size:39
Alignment explanation
Indices: 96328007--96328223 Score: 326
Period size: 39 Copynumber: 5.5 Consensus size: 39
96327997 ACAAAGCATG
* * *
96328007 CGGGACTTTAAGCCCGGATATAATACTAGCACAAATGCCTT
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
*
96328048 CGGGACTTAGCTCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
96328087 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
** * *
96328126 CAAGACTTAGCCCGGATATAAAACCAGCATGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
96328165 CGGGACTTAGCCCGGATATAACACCAGCACAAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
96328204 CGGGAATTAGCCCGGATATA
1 CGGGACTTAGCCCGGATATA
96328224 TATCTCACAC
Statistics
Matches: 161, Mismatches: 15, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
39 153 0.95
40 2 0.01
41 6 0.04
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.20
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:96334342 original size:20 final size:21
Alignment explanation
Indices: 96334319--96334374 Score: 69
Period size: 20 Copynumber: 2.6 Consensus size: 21
96334309 TAATAATACT
*
96334319 AAATATGTACATATA-TATTA
1 AAATATATACATATACTATTA
*
96334339 AAATAAATACATAATACTATTA
1 AAATATATACAT-ATACTATTA
96334361 AAAGTATATACATA
1 AAA-TATATACATA
96334375 AAAGAGTGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 10 0.33
21 3 0.10
22 9 0.30
23 8 0.27
ACGTcount: A:0.55, C:0.07, G:0.04, T:0.34
Consensus pattern (21 bp):
AAATATATACATATACTATTA
Found at i:96334375 original size:23 final size:21
Alignment explanation
Indices: 96334326--96334375 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 21
96334316 ACTAAATATG
96334326 TACAT-ATATATTAAAATAAA
1 TACATAATATATTAAAATAAA
*
96334346 TACATAATACTATTAAAAGTATA
1 TACATAATA-TATTAAAA-TAAA
96334369 TACATAA
1 TACATAA
96334376 AAGAGTGTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 5 0.19
21 3 0.12
22 8 0.31
23 10 0.38
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.34
Consensus pattern (21 bp):
TACATAATATATTAAAATAAA
Found at i:96334506 original size:21 final size:21
Alignment explanation
Indices: 96334476--96334541 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
96334466 ATAATACTGC
*
96334476 ATAAACATATACATATATATA
1 ATAAACATATACACATATATA
* * *
96334497 TTAAAGATATATACATATATA
1 ATAAACATATACACATATATA
96334518 ATAAACATATACTA-ATA-ATA
1 ATAAACATATAC-ACATATATA
96334538 ATAA
1 ATAA
96334542 TAATTATAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
20 7 0.19
21 29 0.78
22 1 0.03
ACGTcount: A:0.58, C:0.08, G:0.02, T:0.33
Consensus pattern (21 bp):
ATAAACATATACACATATATA
Found at i:96334536 original size:3 final size:3
Alignment explanation
Indices: 96334530--96334565 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
96334520 AAACATATAC
*
96334530 TAA TAA TAA TAA TAA TTA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
96334566 GATGTATGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:96334691 original size:15 final size:17
Alignment explanation
Indices: 96334657--96334695 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
96334647 AAATATAACG
96334657 ATATATAAAATAATACT
1 ATATATAAAATAATACT
*
96334674 ATATATAAAA-AGTA-T
1 ATATATAAAATAATACT
96334689 ATATATA
1 ATATATA
96334696 CCCATATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.38
16 3 0.14
17 10 0.48
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (17 bp):
ATATATAAAATAATACT
Found at i:96334923 original size:11 final size:10
Alignment explanation
Indices: 96334887--96334957 Score: 51
Period size: 9 Copynumber: 7.3 Consensus size: 10
96334877 ATAACATTAA
96334887 AAATATATAT
1 AAATATATAT
*
96334897 -AATATAAAT
1 AAATATATAT
96334906 AAA-ATATAT
1 AAATATATAT
*
96334915 ACAATATATAC
1 A-AATATATAT
* * *
96334926 ATATATTTAG
1 AAATATATAT
96334936 AAATGATA-AT
1 AAAT-ATATAT
96334946 -AATATATAT
1 AAATATATAT
96334955 AAA
1 AAA
96334958 AAACTATTCA
Statistics
Matches: 46, Mismatches: 9, Indels: 12
0.69 0.13 0.18
Matches are distributed among these distances:
8 3 0.07
9 19 0.41
10 16 0.35
11 8 0.17
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (10 bp):
AAATATATAT
Found at i:96334939 original size:29 final size:27
Alignment explanation
Indices: 96334891--96334953 Score: 65
Period size: 29 Copynumber: 2.3 Consensus size: 27
96334881 CATTAAAAAT
96334891 ATATATAATATAAATAAAAT-ATATACA
1 ATATATAATATAAATAAAATGATA-ACA
** *
96334918 ATATATACATATATTTAGAAATGATAATA
1 ATATATA-ATATAAATA-AAATGATAACA
96334947 ATATATA
1 ATATATA
96334954 TAAAAAACTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
27 7 0.23
28 7 0.23
29 13 0.43
30 3 0.10
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (27 bp):
ATATATAATATAAATAAAATGATAACA
Found at i:96335027 original size:21 final size:24
Alignment explanation
Indices: 96334967--96335017 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
96334957 AAAACTATTC
96334967 ATACTAAAATAATTAATCTTAATA
1 ATACTAAAATAATTAATCTTAATA
96334991 ATACTAAAATAATTAATCTTAATA
1 ATACTAAAATAATTAATCTTAATA
96335015 ATA
1 ATA
96335018 AAGTAATTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (24 bp):
ATACTAAAATAATTAATCTTAATA
Found at i:96335612 original size:19 final size:18
Alignment explanation
Indices: 96335584--96335621 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
96335574 ATTCTCTTTC
96335584 TTTTTTTTTCTTATTATT
1 TTTTTTTTTCTTATTATT
*
96335602 TTTTATTTTTCTTTTTATT
1 TTTT-TTTTTCTTATTATT
96335621 T
1 T
96335622 ATCTATACAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.11, C:0.05, G:0.00, T:0.84
Consensus pattern (18 bp):
TTTTTTTTTCTTATTATT
Found at i:96336920 original size:64 final size:64
Alignment explanation
Indices: 96336819--96336947 Score: 258
Period size: 64 Copynumber: 2.0 Consensus size: 64
96336809 CGGACCTTAG
96336819 TAAAGTTAAGTGTTCCATTACTGCATACTAATTTTGTTTCAATTATTTTCTTCTTATTTTTTCT
1 TAAAGTTAAGTGTTCCATTACTGCATACTAATTTTGTTTCAATTATTTTCTTCTTATTTTTTCT
96336883 TAAAGTTAAGTGTTCCATTACTGCATACTAATTTTGTTTCAATTATTTTCTTCTTATTTTTTCT
1 TAAAGTTAAGTGTTCCATTACTGCATACTAATTTTGTTTCAATTATTTTCTTCTTATTTTTTCT
96336947 T
1 T
96336948 GCATCTATAT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.23, C:0.14, G:0.08, T:0.55
Consensus pattern (64 bp):
TAAAGTTAAGTGTTCCATTACTGCATACTAATTTTGTTTCAATTATTTTCTTCTTATTTTTTCT
Found at i:96338262 original size:10 final size:9
Alignment explanation
Indices: 96338246--96338270 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
96338236 TTTAAAGAAC
96338246 TAAAAAAAA
1 TAAAAAAAA
96338255 TAAAAAAAA
1 TAAAAAAAA
96338264 TAAAAAA
1 TAAAAAA
96338271 TGAAATGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (9 bp):
TAAAAAAAA
Found at i:96347276 original size:4 final size:4
Alignment explanation
Indices: 96347269--96347299 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
96347259 AATAGATAGA
*
96347269 TGCC TGCC TGCC TGCC TGCC TGCC CGCC TGC
1 TGCC TGCC TGCC TGCC TGCC TGCC TGCC TGC
96347300 ATGTGCAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.00, C:0.52, G:0.26, T:0.23
Consensus pattern (4 bp):
TGCC
Found at i:96350059 original size:31 final size:31
Alignment explanation
Indices: 96350010--96350074 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
96350000 TATAATTTGA
* *
96350010 TCACTAAATTATTTAAAAGTTTTCATTTAAG
1 TCACTAAACTATTCAAAAGTTTTCATTTAAG
*
96350041 TCACTGAACTATTCAAAAGTTTTCATTTAAG
1 TCACTAAACTATTCAAAAGTTTTCATTTAAG
96350072 TCA
1 TCA
96350075 TTAATTTTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.37, C:0.14, G:0.08, T:0.42
Consensus pattern (31 bp):
TCACTAAACTATTCAAAAGTTTTCATTTAAG
Found at i:96350844 original size:25 final size:24
Alignment explanation
Indices: 96350787--96350844 Score: 57
Period size: 25 Copynumber: 2.4 Consensus size: 24
96350777 ATCCCTTCAC
* *
96350787 TTCCTCTTCTCTTCCTCTTTACAT
1 TTCCTCTTCTCTCCCACTTTACAT
96350811 TT-CTGCTTCTACTCCCACTTCT-CAT
1 TTCCT-CTTCT-CTCCCACTT-TACAT
96350836 TTCCTCTTC
1 TTCCTCTTC
96350845 CCCTGTTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
23 2 0.07
24 7 0.25
25 16 0.57
26 3 0.11
ACGTcount: A:0.09, C:0.40, G:0.02, T:0.50
Consensus pattern (24 bp):
TTCCTCTTCTCTCCCACTTTACAT
Found at i:96353520 original size:23 final size:23
Alignment explanation
Indices: 96353480--96353525 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
96353470 TTTACATTTT
** *
96353480 TTATTTTAATTTTTAAATTTTAA
1 TTATTTTAATTTAAAAATATTAA
*
96353503 TTATTTTGATTTAAAAATATTAA
1 TTATTTTAATTTAAAAATATTAA
96353526 AAAATTCCAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (23 bp):
TTATTTTAATTTAAAAATATTAA
Found at i:96355951 original size:32 final size:32
Alignment explanation
Indices: 96355882--96355967 Score: 84
Period size: 32 Copynumber: 2.6 Consensus size: 32
96355872 ATAAAACCAT
* **
96355882 TATAAATTTAAATATATAATTTATATATCTGA
1 TATAAATTTAAATAAATAATTTATATATCCCA
* *
96355914 AATAAATTTCAATAGAATAATTT-TATATCCCA
1 TATAAATTTAAATA-AATAATTTATATATCCCA
*
96355946 TATAAATATTACATAAAATAAT
1 TATAAAT-TTAAAT-AAATAAT
96355968 AAATAAAGAT
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
32 25 0.58
33 17 0.40
34 1 0.02
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.41
Consensus pattern (32 bp):
TATAAATTTAAATAAATAATTTATATATCCCA
Found at i:96356422 original size:43 final size:44
Alignment explanation
Indices: 96356375--96356474 Score: 123
Period size: 43 Copynumber: 2.3 Consensus size: 44
96356365 ATAATATATT
* ** * *
96356375 ATTATAAGATATTAAT-TTTTAGTAATTTGATTCCTAATGAGAA
1 ATTATAAGATATTAATCTCTTAACAATTTAATTCCTAATAAGAA
* *
96356418 ATTATAAGATACT-ATCTCTTAACAATTTAATTCCTAATAAGAT
1 ATTATAAGATATTAATCTCTTAACAATTTAATTCCTAATAAGAA
96356461 ATTATAAGATATTA
1 ATTATAAGATATTA
96356475 TTGTGAAATA
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
42 2 0.04
43 45 0.96
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (44 bp):
ATTATAAGATATTAATCTCTTAACAATTTAATTCCTAATAAGAA
Found at i:96356521 original size:2 final size:2
Alignment explanation
Indices: 96356514--96356549 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
96356504 TTCCTACTTC
*
96356514 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
96356550 TTACCCTTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:96356914 original size:10 final size:10
Alignment explanation
Indices: 96356899--96356923 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
96356889 TGTGGCCTAA
96356899 TTTTTTTCTT
1 TTTTTTTCTT
96356909 TTTTTTTCTT
1 TTTTTTTCTT
96356919 TTTTT
1 TTTTT
96356924 GGGGTTAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:96362163 original size:11 final size:11
Alignment explanation
Indices: 96362147--96362195 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
96362137 AAAAAACTAT
96362147 TTTAAATTATA
1 TTTAAATTATA
*
96362158 TTTAAATTAAA
1 TTTAAATTATA
* *
96362169 TATAAAATATA
1 TTTAAATTATA
*
96362180 TTTATATTTATA
1 TTTA-AATTATA
96362192 TTTA
1 TTTA
96362196 TGCTAAACTA
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
11 21 0.70
12 9 0.30
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
TTTAAATTATA
Found at i:96374061 original size:6 final size:6
Alignment explanation
Indices: 96374050--96374074 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
96374040 ATCATGTTGC
96374050 TTGTAT TTGTAT TTGTAT TTGTAT T
1 TTGTAT TTGTAT TTGTAT TTGTAT T
96374075 ATGGTTAGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.16, T:0.68
Consensus pattern (6 bp):
TTGTAT
Found at i:96374948 original size:19 final size:19
Alignment explanation
Indices: 96374924--96374961 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
96374914 GCAAGCTTGA
96374924 ATTTCAGTGTAGTTTAATT
1 ATTTCAGTGTAGTTTAATT
96374943 ATTTCAGTGTAGTTTAATT
1 ATTTCAGTGTAGTTTAATT
96374962 TGTTTACATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.05, G:0.16, T:0.53
Consensus pattern (19 bp):
ATTTCAGTGTAGTTTAATT
Found at i:96375390 original size:13 final size:14
Alignment explanation
Indices: 96375374--96375415 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
96375364 TTTCAATTTT
96375374 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
96375387 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
96375402 ATTTTAAATAATAT
1 ATTTT-AATAATAT
96375416 TCTTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:96375400 original size:16 final size:16
Alignment explanation
Indices: 96375378--96375414 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
96375368 AATTTTATTT
96375378 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
96375395 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
96375410 TAATA
1 TAATA
96375415 TTCTTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:96376384 original size:32 final size:33
Alignment explanation
Indices: 96376330--96376396 Score: 84
Period size: 32 Copynumber: 2.1 Consensus size: 33
96376320 AATATGATTT
** *
96376330 TATTAATTTAATACAATTATTTAAGATT-ATAA
1 TATTAATTTAATACAACAATTTAACATTAATAA
96376362 TATTAATTTAATA-ATACAATTTAACATTAATAA
1 TATTAATTTAATACA-ACAATTTAACATTAATAA
96376395 TA
1 TA
96376397 ATTTTAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
31 1 0.03
32 23 0.77
33 6 0.20
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.45
Consensus pattern (33 bp):
TATTAATTTAATACAACAATTTAACATTAATAA
Found at i:96376415 original size:20 final size:21
Alignment explanation
Indices: 96376390--96376430 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
96376380 ATTTAACATT
96376390 AATAATAATT-TTAA-ATTTTA
1 AATAAT-ATTCTTAATATTTTA
96376410 AATAATATTCTTAATATTTTA
1 AATAATATTCTTAATATTTTA
96376431 TTGAAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.16
20 10 0.53
21 6 0.32
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (21 bp):
AATAATATTCTTAATATTTTA
Found at i:96378348 original size:33 final size:33
Alignment explanation
Indices: 96378310--96378375 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
96378300 TTTAATGCAA
* *
96378310 AGGTACATGCATGGATGGCTTCAATGCATGGTG
1 AGGTACATGCATGGACGACTTCAATGCATGGTG
*
96378343 AGGTACATGCATGGACGACTTCAATGTATGGTG
1 AGGTACATGCATGGACGACTTCAATGCATGGTG
96378376 TGCTGATGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.26, C:0.15, G:0.32, T:0.27
Consensus pattern (33 bp):
AGGTACATGCATGGACGACTTCAATGCATGGTG
Found at i:96378354 original size:16 final size:17
Alignment explanation
Indices: 96378310--96378357 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
96378300 TTTAATGCAA
96378310 AGGTACATGCATGGATG
1 AGGTACATGCATGGATG
* *
96378327 -GCTTCAATGCATGG-TG
1 AGGTAC-ATGCATGGATG
96378343 AGGTACATGCATGGA
1 AGGTACATGCATGGA
96378358 CGACTTCAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 6
0.71 0.12 0.18
Matches are distributed among these distances:
16 13 0.54
17 11 0.46
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.25
Consensus pattern (17 bp):
AGGTACATGCATGGATG
Found at i:96381692 original size:26 final size:25
Alignment explanation
Indices: 96381640--96381693 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 25
96381630 TCTATAGATC
* *
96381640 AAATGAAAGAAAAAGAAAAGAGTGA
1 AAATGAAAAAAAAAGAAAAGAGAGA
96381665 AAATGAAAAAGAAAAGAAAA-ATGAGA
1 AAATGAAAAA-AAAAGAAAAGA-GAGA
96381691 AAA
1 AAA
96381694 AGAGAGGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 10 0.40
26 15 0.60
ACGTcount: A:0.72, C:0.00, G:0.20, T:0.07
Consensus pattern (25 bp):
AAATGAAAAAAAAAGAAAAGAGAGA
Found at i:96381729 original size:13 final size:13
Alignment explanation
Indices: 96381713--96381768 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
96381703 AAACAACAAA
96381713 AAAAAGTGAAAAG
1 AAAAAGTGAAAAG
* * *
96381726 AAAACGAGAAAAT
1 AAAAAGTGAAAAG
96381739 AAAAAGATGAAAAAG
1 AAAAAG-TG-AAAAG
*
96381754 AAAAAG-AAAAAG
1 AAAAAGTGAAAAG
96381766 AAA
1 AAA
96381769 GTGAGAAAGT
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
12 8 0.24
13 15 0.44
14 1 0.03
15 10 0.29
ACGTcount: A:0.75, C:0.02, G:0.18, T:0.05
Consensus pattern (13 bp):
AAAAAGTGAAAAG
Found at i:96381757 original size:5 final size:6
Alignment explanation
Indices: 96381645--96381768 Score: 58
Period size: 6 Copynumber: 19.2 Consensus size: 6
96381635 AGATCAAATG
*
96381645 AAAGAA AAAGAA AAGAGTGAA AATGAA AAAG-A AAAGAA AAATGAGA AAA-AGA
1 AAAGAA AAAGAA AA-A--GAA AAAGAA AAAGAA AAAGAA AAA-GA-A AAAGA-A
* * * *
96381697 GAGGAA AAACAA CAAA-AA AAAGTGA AAAGAA AACGAGAA AATA-AA AAGATGAA
1 AAAGAA AAAGAA -AAAGAA AAAG-AA AAAGAA AA--AGAA AA-AGAA AA-A-GAA
96381750 AAAGAA AAAGAA AAAGAA A
1 AAAGAA AAAGAA AAAGAA A
96381769 GTGAGAAAGT
Statistics
Matches: 93, Mismatches: 11, Indels: 28
0.70 0.08 0.21
Matches are distributed among these distances:
5 8 0.09
6 52 0.56
7 14 0.15
8 14 0.15
9 5 0.05
ACGTcount: A:0.73, C:0.02, G:0.19, T:0.05
Consensus pattern (6 bp):
AAAGAA
Found at i:96381763 original size:20 final size:20
Alignment explanation
Indices: 96381645--96381768 Score: 66
Period size: 21 Copynumber: 6.3 Consensus size: 20
96381635 AGATCAAATG
96381645 AAAGAAAAAGAAAAGAGTGAA
1 AAAGAAAAAGAAAAGA-TGAA
*
96381666 AATGAAAAAGAAAAGA--AA
1 AAAGAAAAAGAAAAGATGAA
* * * *
96381684 AATGAGAAA-AAGAGAGGAA
1 AAAGAAAAAGAAAAGATGAA
* *
96381703 AAACAACAAAAAAAAG-TG-A
1 AAAGAA-AAAGAAAAGATGAA
* *
96381722 AAAGAAAACGAGAAA-ATAAA
1 AAAGAAAAAGA-AAAGATGAA
96381742 AAGATGAAAAAGAAAA-A-GAA
1 AA-A-GAAAAAGAAAAGATGAA
96381762 AAAGAAA
1 AAAGAAA
96381769 GTGAGAAAGT
Statistics
Matches: 80, Mismatches: 14, Indels: 21
0.70 0.12 0.18
Matches are distributed among these distances:
17 5 0.06
18 17 0.21
19 16 0.20
20 11 0.14
21 24 0.30
22 7 0.09
ACGTcount: A:0.73, C:0.02, G:0.19, T:0.05
Consensus pattern (20 bp):
AAAGAAAAAGAAAAGATGAA
Found at i:96387036 original size:34 final size:37
Alignment explanation
Indices: 96386997--96387084 Score: 101
Period size: 40 Copynumber: 2.4 Consensus size: 37
96386987 AAAATAATTA
*
96386997 TTTAAAAATATAAATATAT-ACAAATTA-T-TAAAAT
1 TTTAAAAATATAAATATATAAAAAATTATTATAAAAT
*
96387031 TTTAAAAAAATTAAAATATATAAAAAATTATTTATAAAAT
1 TTTAAAAATA-T-AAATATATAAAAAATTA-TTATAAAAT
*
96387071 TATAAAAATATAAA
1 TTTAAAAATATAAA
96387085 AAATTGATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
34 9 0.20
35 1 0.02
36 8 0.18
37 7 0.16
38 3 0.07
39 2 0.05
40 14 0.32
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.36
Consensus pattern (37 bp):
TTTAAAAATATAAATATATAAAAAATTATTATAAAAT
Found at i:96387045 original size:17 final size:18
Alignment explanation
Indices: 96387008--96387057 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
96386998 TTAAAAATAT
**
96387008 AAATATATACAAATTATTA
1 AAATATATA-AAAAAATTA
*
96387027 AAAT-TTTAAAAAAATTA
1 AAATATATAAAAAAATTA
96387044 AAATATATAAAAAA
1 AAATATATAAAAAA
96387058 TTATTTATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 11 0.42
18 11 0.42
19 4 0.15
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (18 bp):
AAATATATAAAAAAATTA
Found at i:96387084 original size:30 final size:30
Alignment explanation
Indices: 96387037--96387094 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
96387027 AAATTTTAAA
*
96387037 AAAATTAAAATATATAAAAAATT-ATTTAT
1 AAAATTAAAAAATATAAAAAATTGATTTAT
96387066 AAAATTATAAAAATATAAAAAATTGATTT
1 AAAATTA-AAAAATATAAAAAATTGATTT
96387095 TTTTTAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 7 0.27
30 15 0.58
31 4 0.15
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (30 bp):
AAAATTAAAAAATATAAAAAATTGATTTAT
Found at i:96394330 original size:33 final size:33
Alignment explanation
Indices: 96394288--96394353 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
96394278 AAATTAAGAG
96394288 TGTTTCTACCAAATAATAACATTTACAAGTCTA
1 TGTTTCTACCAAATAATAACATTTACAAGTCTA
96394321 TGTTTCTACCAAATAATAACATTTACAAGTCTA
1 TGTTTCTACCAAATAATAACATTTACAAGTCTA
96394354 ATCCTAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.39, C:0.18, G:0.06, T:0.36
Consensus pattern (33 bp):
TGTTTCTACCAAATAATAACATTTACAAGTCTA
Found at i:96400377 original size:16 final size:16
Alignment explanation
Indices: 96400356--96400390 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
96400346 TCTTTATTTA
96400356 AGTTTATTTGTAATAT
1 AGTTTATTTGTAATAT
96400372 AGTTTATTTGTAATAT
1 AGTTTATTTGTAATAT
96400388 AGT
1 AGT
96400391 GATACTTGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.54
Consensus pattern (16 bp):
AGTTTATTTGTAATAT
Found at i:96401259 original size:31 final size:32
Alignment explanation
Indices: 96401218--96401280 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
96401208 TTATTTATAA
*
96401218 AAGATATTTAT-TAATTAAATA-ATTATATTAT
1 AAGATATTTATGTAA-TAAATATATTAAATTAT
*
96401249 AAGATTTTTATGTAATAAATATATTAAATTAT
1 AAGATATTTATGTAATAAATATATTAAATTAT
96401281 GACAAGTGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 16 0.57
32 12 0.43
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (32 bp):
AAGATATTTATGTAATAAATATATTAAATTAT
Found at i:96401407 original size:15 final size:16
Alignment explanation
Indices: 96401382--96401436 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 16
96401372 AAAGTAAAAC
96401382 AAAAGAAAAAGAAATG
1 AAAAGAAAAAGAAATG
*
96401398 AAAA-AAAAAGAGATAG
1 AAAAGAAAAAGAAAT-G
*
96401414 AAAAGAAACAG-AATG
1 AAAAGAAAAAGAAATG
*
96401429 AAACGAAA
1 AAAAGAAA
96401437 CAGAGAGCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
15 17 0.52
16 11 0.33
17 5 0.15
ACGTcount: A:0.73, C:0.04, G:0.18, T:0.05
Consensus pattern (16 bp):
AAAAGAAAAAGAAATG
Found at i:96401415 original size:21 final size:21
Alignment explanation
Indices: 96401372--96401421 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
96401362 ATATATATAT
*
96401372 AAAGTAAAACAAAAGAAAAAGA
1 AAAG-AAAAAAAAAGAAAAAGA
* * *
96401394 AATGAAAAAAAAAGAGATAGA
1 AAAGAAAAAAAAAGAAAAAGA
96401415 AAAGAAA
1 AAAGAAA
96401422 CAGAATGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 20 0.87
22 3 0.13
ACGTcount: A:0.76, C:0.02, G:0.16, T:0.06
Consensus pattern (21 bp):
AAAGAAAAAAAAAGAAAAAGA
Found at i:96403025 original size:12 final size:12
Alignment explanation
Indices: 96403005--96403034 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
96402995 TATGTGCCGA
*
96403005 TTACTGTTACTG
1 TTACCGTTACTG
96403017 TTACCGTTACTG
1 TTACCGTTACTG
96403029 TTACCG
1 TTACCG
96403035 ATTCGGCACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.23, G:0.17, T:0.43
Consensus pattern (12 bp):
TTACCGTTACTG
Found at i:96403082 original size:45 final size:45
Alignment explanation
Indices: 96403012--96403116 Score: 138
Period size: 45 Copynumber: 2.3 Consensus size: 45
96403002 CGATTACTGT
* * * *
96403012 TACTGTTACCGTTACTGTTACCGATTCGGCACTTTATGTGTCGAA
1 TACTGTTACTGTTACCGTTACCGATTCAGAACTTTATGTGTCGAA
* * * *
96403057 TACTGTTACTATTACCGTTATCGATTCAGAACTTTGTGTGTTGAA
1 TACTGTTACTGTTACCGTTACCGATTCAGAACTTTATGTGTCGAA
96403102 TACTGTTACTGTTAC
1 TACTGTTACTGTTAC
96403117 TGTTCCGGAT
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 51 1.00
ACGTcount: A:0.22, C:0.19, G:0.18, T:0.41
Consensus pattern (45 bp):
TACTGTTACTGTTACCGTTACCGATTCAGAACTTTATGTGTCGAA
Found at i:96403445 original size:17 final size:19
Alignment explanation
Indices: 96403402--96403469 Score: 70
Period size: 17 Copynumber: 3.7 Consensus size: 19
96403392 AATGAATGAC
96403402 TGTTACTGAATAACTTAAT
1 TGTTACTGAATAACTTAAT
* *
96403421 TGTTACTGAATATC-TGAT
1 TGTTACTGAATAACTTAAT
* *
96403439 T-TTACTGAATAA-TTGAG
1 TGTTACTGAATAACTTAAT
*
96403456 TGTTACTGGATAAC
1 TGTTACTGAATAAC
96403470 CGATCAATTG
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
17 14 0.34
18 14 0.34
19 13 0.32
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.41
Consensus pattern (19 bp):
TGTTACTGAATAACTTAAT
Found at i:96403557 original size:18 final size:18
Alignment explanation
Indices: 96403284--96403548 Score: 180
Period size: 18 Copynumber: 14.3 Consensus size: 18
96403274 AAAGGTATAA
* *
96403284 AATAACTGATTATTACTG
1 AATAATTGATTGTTACTG
*
96403302 AATAATTGACTGTTACTG
1 AATAATTGATTGTTACTG
*
96403320 GATAATTGATTGTTACT-
1 AATAATTGATTGTTACTG
* *
96403337 AGAT-ATTAGACTGTTATTG
1 A-ATAATT-GATTGTTACTG
**
96403356 AATAATTGATCATTACTG
1 AATAATTGATTGTTACTG
* * *
96403374 GATAACTGATTGTCACTG
1 AATAATTGATTGTTACTG
*
96403392 AATGAA-TGACTGTTACTG
1 AAT-AATTGATTGTTACTG
*
96403410 AATAACTTAATTGTTACTG
1 AATAA-TTGATTGTTACTG
96403429 AAT-ATCTGATT-TTACTG
1 AATAAT-TGATTGTTACTG
*
96403446 AATAATTGAGTGTTACTGG
1 AATAATTGATTGTTACT-G
* *
96403465 ATAACCGATCAATTGATCGATACTG
1 ---A---AT-AATTGATTGTTACTG
* * *
96403490 AATAATTGGTTATTATTG
1 AATAATTGATTGTTACTG
*
96403508 AATAATTGATTGTTACCG
1 AATAATTGATTGTTACTG
* *
96403526 AATAACTGACTGTTACTG
1 AATAATTGATTGTTACTG
96403544 AATAA
1 AATAA
96403549 ATAATTGTTT
Statistics
Matches: 190, Mismatches: 39, Indels: 36
0.72 0.15 0.14
Matches are distributed among these distances:
17 19 0.10
18 133 0.70
19 22 0.12
22 2 0.01
25 3 0.02
26 11 0.06
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (18 bp):
AATAATTGATTGTTACTG
Found at i:96405236 original size:46 final size:46
Alignment explanation
Indices: 96405160--96405612 Score: 602
Period size: 46 Copynumber: 9.8 Consensus size: 46
96405150 TGATGTCATA
* * * *
96405160 GTATCTTTCAACTATGGTTTTACTCGTTTTC-TGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTC-ATTTCATATCATGTTGCCATG
* *** *
96405206 GTATCTTTCAACCATGGTCTTATTCATTTTCCCGTTATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCA-TTTCATATCATGTTGCCATG
* * *
96405253 GTATCTTTCAACCATGGTCTTATTCATTTTCCTGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCA-TTTCATATCATGTTGCCATG
* *
96405300 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCATGTTGCCATG
* *
96405346 GTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCATGTTGCCATG
* * *
96405392 GTATCTTTTAACCATGGTCTTACACATTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCATGTTGCCATG
* **
96405438 GTATCTTTCAACCATGGTCTTATTCATTTTCCCATCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCA-TTTCATATCATGTTGCCATG
*
96405485 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCATGTTGCCATG
* * *
96405531 GTATGTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCATGTTGCCATG
* * *
96405577 GTATCTTTCAACCATGATCTTACACATTCCATATCA
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCA
96405613 GAGAGCACAC
Statistics
Matches: 372, Mismatches: 32, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
46 247 0.66
47 125 0.34
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTACTCATTTCATATCATGTTGCCATG
Found at i:96405478 original size:185 final size:185
Alignment explanation
Indices: 96405160--96405612 Score: 683
Period size: 185 Copynumber: 2.4 Consensus size: 185
96405150 TGATGTCATA
* * * * *
96405160 GTATCTTTCAACTATGGTTTTACTCGTTTTC-TGTCATGTTGCCATGGTATCTTTCAACCATGGT
1 GTATCTTTCAACCATGGTCTTACTC-ATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGT
** *** * * **
96405224 CTTATTCATTTTCCCGTTATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCCTGTC
65 CTTACACA-TTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCCCATC
*
96405289 ATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGTTGCCATG
129 ATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
* *
96405346 GTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTATCTTTTAACCATGGTC
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTC
96405411 TTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCCCATCAT
66 TTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCCCATCAT
96405476 GTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
131 GTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
* * * *
96405531 GTATGTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGATC
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTC
*
96405596 TTACACATTCCATATCA
66 TTACACATTTCATATCA
96405613 GAGAGCACAC
Statistics
Matches: 242, Mismatches: 24, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
185 184 0.76
186 58 0.24
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (185 bp):
GTATCTTTCAACCATGGTCTTACTCATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTC
TTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCCCATCAT
GTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
Found at i:96405480 original size:139 final size:139
Alignment explanation
Indices: 96405160--96405604 Score: 633
Period size: 139 Copynumber: 3.2 Consensus size: 139
96405150 TGATGTCATA
* * *
96405160 GTATCTTTCAACTATGGTTTTACTCGTTTT-CTGTCATGTTGCCATGGTATCTTTCAACCATGGT
1 GTATCTTTCAACCATGGTCTTACTCATTTTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGT
*** * * ** * *
96405224 CTTATTCATTTTCCCGTTATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCCTGTC
66 CTTATTCA-TTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATC
*
96405289 ATGTTGCCATG
129 ACGTTGCCATG
* *
96405300 GTATCTTTCAACCATGGTCTTACTCA-TTTCATGTCAGGTTGCCATGGTATCTTTCAACCATGGT
1 GTATCTTTCAACCATGGTCTTACTCATTTTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGT
*
96405364 CTTATTCATTTCATATCACGTTGCCATGGTATCTTTTAACCATGGTCTTACACATTTCATATCAC
66 CTTATTCATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
96405429 GTTGCCATG
131 GTTGCCATG
* **
96405438 GTATCTTTCAACCATGGTCTTATTCATTTTCCCATCATGTTGCCATGGTATCTTTCAACCATGGT
1 GTATCTTTCAACCATGGTCTTACTCATTTTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGT
* * * *
96405503 CTTACTCATTTCATATCAGGTTGCCATGGTATGTTTCAACCATGGTCTTACACATTTCATATCAG
66 CTTATTCATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
96405568 GTTGCCATG
131 GTTGCCATG
* *
96405577 GTATCTTTCAACCATGATCTTACACATT
1 GTATCTTTCAACCATGGTCTTACTCATT
96405605 CCATATCAGA
Statistics
Matches: 274, Mismatches: 29, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
138 42 0.15
139 169 0.62
140 63 0.23
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.42
Consensus pattern (139 bp):
GTATCTTTCAACCATGGTCTTACTCATTTTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGT
CTTATTCATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
GTTGCCATG
Found at i:96408597 original size:27 final size:27
Alignment explanation
Indices: 96408558--96408619 Score: 81
Period size: 26 Copynumber: 2.3 Consensus size: 27
96408548 ATTTTAGTCC
96408558 TAATTATTTAAAAATAGAAATATATACA
1 TAATTA-TTAAAAATAGAAATATATACA
** *
96408586 -AATTATTAAAAATTTAAATATATATA
1 TAATTATTAAAAATAGAAATATATACA
96408612 TAATTATT
1 TAATTATT
96408620 TATAAAATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
26 18 0.60
27 12 0.40
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (27 bp):
TAATTATTAAAAATAGAAATATATACA
Found at i:96410531 original size:11 final size:11
Alignment explanation
Indices: 96410511--96410543 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
96410501 AATTCTTAAA
96410511 ATAATTTTTTT
1 ATAATTTTTTT
*
96410522 -TTATTTTTTT
1 ATAATTTTTTT
96410532 ATAATTTTTTT
1 ATAATTTTTTT
96410543 A
1 A
96410544 ATAAAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
ATAATTTTTTT
Found at i:96411902 original size:25 final size:26
Alignment explanation
Indices: 96411874--96411932 Score: 72
Period size: 25 Copynumber: 2.3 Consensus size: 26
96411864 ATCAACAAAT
96411874 AATTCAAAA-TTTATAAAA-A-AATCAA
1 AATTCAAAATTTTA-AAAATATAAT-AA
96411899 AATT-AAAATTTTAAAAATATAATAA
1 AATTCAAAATTTTAAAAATATAATAA
96411924 AATTCAAAA
1 AATTCAAAA
96411933 AATTTAGAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
24 8 0.27
25 15 0.50
26 7 0.23
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (26 bp):
AATTCAAAATTTTAAAAATATAATAA
Found at i:96412927 original size:103 final size:100
Alignment explanation
Indices: 96412734--96412920 Score: 268
Period size: 103 Copynumber: 1.8 Consensus size: 100
96412724 TAACTCCAAT
* *
96412734 ATGTAGAGATCCTTCAAAGTTTTTGTTTTGGAATAGCATTCCAGCTCAACAAGCCTACATTTACC
1 ATGTAGAAATCCTTCAAAGTTTTTGTTTTGGAATAGCATCCCAGCTCAACAAGCCTACATTTACC
*
96412799 TTGCCAATTGCATTATCGACAAAGTTTACTCTAAC
66 TTGCCAATTACATTATCGACAAAGTTTACTCTAAC
* * *
96412834 ATGTAGAAATCCTTGAGAGTTTTTGTTTTGGGATAGCTTTCATCCCA-CTCAACAAGCCTACATT
1 ATGTAGAAATCCTTCAAAGTTTTTGTTTTGGAATAG----CATCCCAGCTCAACAAGCCTACATT
*
96412898 TACCTTGCCAATTACTTTATCGA
62 TACCTTGCCAATTACATTATCGA
96412921 GGAAGTTCTT
Statistics
Matches: 76, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
100 32 0.42
103 38 0.50
104 6 0.08
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (100 bp):
ATGTAGAAATCCTTCAAAGTTTTTGTTTTGGAATAGCATCCCAGCTCAACAAGCCTACATTTACC
TTGCCAATTACATTATCGACAAAGTTTACTCTAAC
Found at i:96415889 original size:13 final size:13
Alignment explanation
Indices: 96415873--96415902 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
96415863 TTTTTACCTT
*
96415873 TTAATTTTCTTAG
1 TTAATTTACTTAG
96415886 TTAATTTACTTAG
1 TTAATTTACTTAG
96415899 TTAA
1 TTAA
96415903 AATCTAGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.57
Consensus pattern (13 bp):
TTAATTTACTTAG
Found at i:96423769 original size:85 final size:84
Alignment explanation
Indices: 96423622--96423777 Score: 197
Period size: 85 Copynumber: 1.8 Consensus size: 84
96423612 TGAGACATTG
* * * *
96423622 TGTAAGACCGTGTCTGGGACACAGGCCTCGATTGAGATTTACGTATAAGACCATGTCTGGGACAT
1 TGTAAGACCGTGTCTGGGACACAGGCATCGATTGAGA-TTACATATAAGACCACGTCCGGGACAT
96423687 CGGCATCGTATCTAATTTCA
65 CGGCATCGTATCTAATTTCA
** * * *
96423707 TGTAAGACTTTGTCTGGGACAGAGGCATCGATATTGAG-TTACATGTAAGACCACGTCCGGGACG
1 TGTAAGACCGTGTCTGGGACACAGGCATCG--ATTGAGATTACATATAAGACCACGTCCGGGACA
96423771 TCGGCAT
64 TCGGCAT
96423778 TGTACTTGTT
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
85 54 0.90
87 6 0.10
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (84 bp):
TGTAAGACCGTGTCTGGGACACAGGCATCGATTGAGATTACATATAAGACCACGTCCGGGACATC
GGCATCGTATCTAATTTCA
Found at i:96430956 original size:42 final size:41
Alignment explanation
Indices: 96430849--96430957 Score: 121
Period size: 43 Copynumber: 2.6 Consensus size: 41
96430839 GTCTGAGACA
* *
96430849 TCGTGTAAGACCGTGTCTGGGACATAGGCCTCAATTGAGATT
1 TCGTGTAAGACCATGTCTGGGACATAGGCATCAATT-AGATT
* * *
96430891 TACGTATAAGACCATGTCTGGGACATTGGCATCGTATCT-GATT
1 T-CGTGTAAGACCATGTCTGGGACATAGGCATC-AAT-TAGATT
*
96430934 TCGTGTAAGACCCTGTCTGGGACA
1 TCGTGTAAGACCATGTCTGGGACA
96430958 GAGACATCGA
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
42 22 0.39
43 32 0.56
44 2 0.04
45 1 0.02
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (41 bp):
TCGTGTAAGACCATGTCTGGGACATAGGCATCAATTAGATT
Done.