Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008826.1 Hibiscus syriacus cultivar Beakdansim tig00112000_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: 3884024
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 18
Found at i:2966 original size:21 final size:19
Alignment explanation
Indices: 2934--2991 Score: 64
Period size: 21 Copynumber: 2.9 Consensus size: 19
2924 GTTAATATCG
2934 GAAATAATCATTTTCGGTAA
1 GAAATAA-CATTTTCGGTAA
*
2954 CGAAATTAACATTTCCGGTAA
1 -GAAA-TAACATTTTCGGTAA
*
2975 -AAATAACATTTTAGGTA
1 GAAATAACATTTTCGGTA
2992 GAGCTCTACC
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
18 12 0.36
19 3 0.09
21 15 0.45
22 3 0.09
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.33
Consensus pattern (19 bp):
GAAATAACATTTTCGGTAA
Found at i:3775 original size:16 final size:16
Alignment explanation
Indices: 3754--3808 Score: 53
Period size: 16 Copynumber: 3.5 Consensus size: 16
3744 GTGCTACATG
3754 TTTTATTTTTATTATA
1 TTTTATTTTTATTATA
*
3770 TTTTATTTGTATT-T-
1 TTTTATTTTTATTATA
*
3784 TTCTATATTTTTA-TAAA
1 TT-T-TATTTTTATTATA
3801 TTTTATTT
1 TTTTATTT
3809 CCCCCCATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
14 2 0.06
15 8 0.25
16 20 0.62
17 2 0.06
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.73
Consensus pattern (16 bp):
TTTTATTTTTATTATA
Found at i:4470 original size:41 final size:39
Alignment explanation
Indices: 4425--4535 Score: 114
Period size: 41 Copynumber: 3.0 Consensus size: 39
4415 GAGACAACGT
4425 TCGTGTTCGTTTATTTATTTTTAAAGGTGTTCATGTTCGGG
1 TCGTGTTCGTTTATTTATTTTTAAAGGTGTTCATGTTC--G
* *
4466 TCGTGTTCGTTTA---ATTTTTTAA--T-ATCATGTT--
1 TCGTGTTCGTTTATTTATTTTTAAAGGTGTTCATGTTCG
*
4497 T-GTGTTCGTTTATTTATTTTTAAAGGTGTTCGTGTTCG
1 TCGTGTTCGTTTATTTATTTTTAAAGGTGTTCATGTTCG
4535 T
1 T
4536 TCATTTAACG
Statistics
Matches: 57, Mismatches: 5, Indels: 19
0.70 0.06 0.23
Matches are distributed among these distances:
30 11 0.19
31 1 0.02
33 8 0.14
35 8 0.14
36 7 0.12
38 9 0.16
41 13 0.23
ACGTcount: A:0.15, C:0.09, G:0.21, T:0.55
Consensus pattern (39 bp):
TCGTGTTCGTTTATTTATTTTTAAAGGTGTTCATGTTCG
Found at i:5314 original size:18 final size:19
Alignment explanation
Indices: 5279--5314 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
5269 TCTGGTTTCA
5279 AGTATCGTATTGGATGAAC
1 AGTATCGTATTGGATGAAC
*
5298 AGTATCG-ATTGGTTGAA
1 AGTATCGTATTGGATGAA
5315 TTGGGACTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.33
Consensus pattern (19 bp):
AGTATCGTATTGGATGAAC
Found at i:7205 original size:23 final size:23
Alignment explanation
Indices: 7177--7268 Score: 103
Period size: 23 Copynumber: 4.0 Consensus size: 23
7167 GGATGTTATA
* *
7177 CGTTTAACATTCGTGAATATGTT
1 CGTTTAACGTTCGTGAACATGTT
* *
7200 TGTTTAACGTTTGTGAACATGTT
1 CGTTTAACGTTCGTGAACATGTT
* *
7223 CATTTAACGTTCGTAAACATGTT
1 CGTTTAACGTTCGTGAACATGTT
* * *
7246 CGTTTAGCGTTTGTGAAAATGTT
1 CGTTTAACGTTCGTGAACATGTT
7269 AAAAAATGTT
Statistics
Matches: 56, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 56 1.00
ACGTcount: A:0.25, C:0.12, G:0.20, T:0.43
Consensus pattern (23 bp):
CGTTTAACGTTCGTGAACATGTT
Found at i:7245 original size:46 final size:46
Alignment explanation
Indices: 7179--7268 Score: 126
Period size: 46 Copynumber: 2.0 Consensus size: 46
7169 ATGTTATACG
* * * *
7179 TTTAACATTCGTGAATATGTTTGTTTAACGTTTGTGAACATGTTCA
1 TTTAACATTCGTAAACATGTTCGTTTAACGTTTGTGAAAATGTTCA
* *
7225 TTTAACGTTCGTAAACATGTTCGTTTAGCGTTTGTGAAAATGTT
1 TTTAACATTCGTAAACATGTTCGTTTAACGTTTGTGAAAATGTT
7269 AAAAAATGTT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.26, C:0.11, G:0.19, T:0.44
Consensus pattern (46 bp):
TTTAACATTCGTAAACATGTTCGTTTAACGTTTGTGAAAATGTTCA
Found at i:7543 original size:16 final size:17
Alignment explanation
Indices: 7507--7547 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
7497 GGGTCAATCC
7507 CAACAAAATCAAGAAAA
1 CAACAAAATCAAGAAAA
* *
7524 CAACAAAATC-ATACAA
1 CAACAAAATCAAGAAAA
7540 CAACAAAA
1 CAACAAAA
7548 AACCCAAGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.68, C:0.22, G:0.02, T:0.07
Consensus pattern (17 bp):
CAACAAAATCAAGAAAA
Found at i:9355 original size:15 final size:15
Alignment explanation
Indices: 9335--9380 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
9325 TGAGTCGGTC
9335 GAGTCAACTCAGACT
1 GAGTCAACTCAGACT
9350 GAGTCAA-T----C-
1 GAGTCAACTCAGACT
9359 GAGTCAACTCAGACT
1 GAGTCAACTCAGACT
9374 GAGTCAA
1 GAGTCAA
9381 TCGAGTCAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 12
0.68 0.00 0.32
Matches are distributed among these distances:
9 7 0.28
10 2 0.08
14 2 0.08
15 14 0.56
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.20
Consensus pattern (15 bp):
GAGTCAACTCAGACT
Found at i:9409 original size:29 final size:24
Alignment explanation
Indices: 9288--9393 Score: 160
Period size: 24 Copynumber: 4.4 Consensus size: 24
9278 CTTGATACCA
**
9288 AGTCAACTC-GAACTGAGTTGATCG
1 AGTCAACTCAG-ACTGAGTCAATCG
**
9312 AGTCAACTCAGACTGAGTCGGTCG
1 AGTCAACTCAGACTGAGTCAATCG
9336 AGTCAACTCAGACTGAGTCAATCG
1 AGTCAACTCAGACTGAGTCAATCG
9360 AGTCAACTCAGACTGAGTCAATCG
1 AGTCAACTCAGACTGAGTCAATCG
9384 AGTCAACTCA
1 AGTCAACTCA
9394 AATCGAACTG
Statistics
Matches: 77, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
24 76 0.99
25 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.23, T:0.22
Consensus pattern (24 bp):
AGTCAACTCAGACTGAGTCAATCG
Found at i:17426 original size:13 final size:13
Alignment explanation
Indices: 17407--17458 Score: 54
Period size: 13 Copynumber: 4.1 Consensus size: 13
17397 GTATTGTCGG
17407 AAATATTATTTTT
1 AAATATTATTTTT
* *
17420 TAATATT-TTTGAT
1 AAATATTATTT-TT
*
17433 AAATATTA-TTTA
1 AAATATTATTTTT
17445 AAATATTATTTTT
1 AAATATTATTTTT
17458 A
1 A
17459 TCGAAAATTT
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
12 11 0.37
13 19 0.63
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (13 bp):
AAATATTATTTTT
Found at i:17501 original size:75 final size:74
Alignment explanation
Indices: 17418--17560 Score: 209
Period size: 78 Copynumber: 1.9 Consensus size: 74
17408 AATATTATTT
* *
17418 TTTAATATTTTTGATAAATA-TTATTTAAAATATTA-TTTTTATCGAAAATTTTAATATTAGACG
1 TTTAATATTTTTGATAAA-ACTTATCTAAAATATTATTTTTTATCGAAAATATTAATATT-GA-G
17481 TTATTTAAAATG
63 TTATTTAAAATG
17493 TTTAATATTTTTGATAAAACGTTATCTAAAATATTATTTTTTTATCGAAAATATTAATATTGAGT
1 TTTAATATTTTTGATAAAAC-TTATCTAAAATATTA-TTTTTTATCGAAAATATTAATATTGAGT
17558 TAT
64 TAT
17561 ACCGAAAATT
Statistics
Matches: 62, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
74 1 0.02
75 18 0.29
76 19 0.31
77 2 0.03
78 22 0.35
ACGTcount: A:0.39, C:0.03, G:0.07, T:0.50
Consensus pattern (74 bp):
TTTAATATTTTTGATAAAACTTATCTAAAATATTATTTTTTATCGAAAATATTAATATTGAGTTA
TTTAAAATG
Found at i:18046 original size:60 final size:61
Alignment explanation
Indices: 17982--18118 Score: 147
Period size: 60 Copynumber: 2.3 Consensus size: 61
17972 AATATTTTCG
* *
17982 TTTCATCCTTAAATTATGATTTTCATTCTAAATTAGTCCTCAAA-ATTTTGAACATCTC-AT
1 TTTCATCC-TAAATTATGATCTTCATTCTAAATTAGTCCCCAAACATTTTGAACATCTCAAT
** * * * *
18042 TTTCATCC-CCATGCTATGATCTTCATTCTAAATTGGTCCCCAAACTTTTTGAATATTTCAAT
1 TTTCATCCTAAAT--TATGATCTTCATTCTAAATTAGTCCCCAAACATTTTGAACATCTCAAT
18104 TTT-ATCCTAAATTAT
1 TTTCATCCTAAATTAT
18119 TCATATGTAC
Statistics
Matches: 62, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
58 2 0.03
60 38 0.61
61 15 0.24
62 7 0.11
ACGTcount: A:0.29, C:0.20, G:0.06, T:0.45
Consensus pattern (61 bp):
TTTCATCCTAAATTATGATCTTCATTCTAAATTAGTCCCCAAACATTTTGAACATCTCAAT
Found at i:18342 original size:60 final size:60
Alignment explanation
Indices: 18263--18392 Score: 172
Period size: 60 Copynumber: 2.2 Consensus size: 60
18253 TGGAAGACCT
* * * *
18263 AAAAGTTTAGGGACCAATTTAGAATGTGA-TTCATAGTTTGAGGATGAAATTTAAATGTTC
1 AAAAGTTTAAGGACCAATTTAGAATGAGAGTT-ATAGTTTAAGGATGAAATTGAAATGTTC
* * *
18323 AAAAGTTTAAGGACTAATTTAGAATGAGAGTTATAGTTTAAGGATGAAATTGGAATGTTT
1 AAAAGTTTAAGGACCAATTTAGAATGAGAGTTATAGTTTAAGGATGAAATTGAAATGTTC
*
18383 AAAAGCTTAA
1 AAAAGTTTAA
18393 AGCTTAATAA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
60 59 0.97
61 2 0.03
ACGTcount: A:0.40, C:0.05, G:0.22, T:0.34
Consensus pattern (60 bp):
AAAAGTTTAAGGACCAATTTAGAATGAGAGTTATAGTTTAAGGATGAAATTGAAATGTTC
Found at i:30204 original size:13 final size:13
Alignment explanation
Indices: 30167--30206 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 13
30157 TCGATATTGA
30167 AAAATAAATA-TT
1 AAAATAAATATTT
*
30179 AAAATAATTTATTT
1 AAAATAA-ATATTT
30193 AAAATAAATATTT
1 AAAATAAATATTT
30206 A
1 A
30207 TTTATTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 7 0.29
13 8 0.33
14 9 0.38
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAATAAATATTT
Found at i:30207 original size:17 final size:17
Alignment explanation
Indices: 30180--30224 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
30170 ATAAATATTA
30180 AAATAATTTATTTAAAAT
1 AAAT-ATTTATTTAAAAT
**
30198 AAATATTTATTTATTAT
1 AAATATTTATTTAAAAT
*
30215 ATATATTTAT
1 AAATATTTAT
30225 GACTACATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 20 0.83
18 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
AAATATTTATTTAAAAT
Found at i:31613 original size:3 final size:3
Alignment explanation
Indices: 31605--31642 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
31595 TTAAATATAT
* *
31605 ATA ATA ATA ATA ATA ATT ATA ATT ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
31643 TATTATATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
ATA
Found at i:31656 original size:15 final size:15
Alignment explanation
Indices: 31605--31645 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
31595 TTAAATATAT
*
31605 ATAATAATAATAATA
1 ATAATAATTATAATA
*
31620 ATTATAATTATAATA
1 ATAATAATTATAATA
31635 ATAATAATTAT
1 ATAATAATTAT
31646 TATATAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
ATAATAATTATAATA
Found at i:33386 original size:19 final size:19
Alignment explanation
Indices: 33362--33398 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
33352 TTTTTTTTTT
33362 TGTATTTCTCT-TCTCTCTG
1 TGTATTT-TCTGTCTCTCTG
33381 TGTATTTTCTGTCTCTCT
1 TGTATTTTCTGTCTCTCT
33399 TTTCTCTGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.05, C:0.24, G:0.11, T:0.59
Consensus pattern (19 bp):
TGTATTTTCTGTCTCTCTG
Found at i:33831 original size:3 final size:3
Alignment explanation
Indices: 33823--33902 Score: 90
Period size: 3 Copynumber: 26.7 Consensus size: 3
33813 TATATGTATT
* * * *
33823 TAA TAA TAA TAA TAA TAA TAA TAA TAT TTA TAA TAA TTA TAA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
33871 TAA TTA TAA TTA TAA TAA TAAA TAA -AA TAA TA
1 TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TA
33903 TGGGTAAAAA
Statistics
Matches: 63, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
2 2 0.03
3 58 0.92
4 3 0.05
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:34468 original size:113 final size:113
Alignment explanation
Indices: 34221--35236 Score: 1531
Period size: 113 Copynumber: 9.0 Consensus size: 113
34211 ATAGAATTAT
* * *
34221 GCAAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTT
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * * * *
34286 ATTATGAAC-ATCTCTGGAAATGCTGATCCATCAATTGAT-GAATTCA
66 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
* *
34332 TGTAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTTT
1 -GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
34397 CATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
65 CATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
** *
34446 GCAAAAGGTTGAACAAACTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * *
34511 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAATTGAT-GAATTCA
66 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
* *
34558 TGTAAAAGGTTGAATAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
1 -GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
34623 CATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
65 CATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
* *
34672 GCAAAAGGTTGAACAAGCTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * *
34737 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAATTGAT-GAATTCA
66 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
*
34784 TGTAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
1 -GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
34849 CATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
65 CATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
* *
34898 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * * * * *
34963 ATTATGAACCTTCTCTGGCAAGGCTAATTCATCAAGTGATGGATTTGA
66 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
* *
35011 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * * * * **
35076 ATTATGAACCTTCTCTGGCAAAA-ATAATCCATCAAGTGATGAATTCAA
66 ATTATGAACTTTCTCTGG-AAAAGCTGATCCATCAAATGATGGATTTGA
*
35124 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * * *
35189 ATTATGAACCTTCTCTGGCAAAA-ATAATCCATCAAATGATAGATTTGA
66 ATTATGAACTTTCTCTGG-AAAAGCTGATCCATCAAATGATGGATTTGA
35237 ATCTTTGCTA
Statistics
Matches: 836, Mismatches: 61, Indels: 13
0.92 0.07 0.01
Matches are distributed among these distances:
112 79 0.09
113 740 0.89
114 17 0.02
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.38
Consensus pattern (113 bp):
GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
Found at i:36217 original size:83 final size:83
Alignment explanation
Indices: 35942--36490 Score: 935
Period size: 83 Copynumber: 6.7 Consensus size: 83
35932 TAGTTCCTAC
* *
35942 CAAACCAGATCAGATAACTCAAAGAACTCTTCCAGAAGATGCTATGAGCACATTCATCTTCTAAA
1 CAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCTAAA
36007 TTCAATGATTGGTTCTGT
66 TTCAATGATTGGTTCTGT
* *
36025 CAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTC-CAG
1 CAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCTAAA
*
36089 TT-AATGATTGGTTCTGC
66 TTCAATGATTGGTTCTGT
* *
36106 CAAATCAGATCAGATAACCCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCTAGA
1 CAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCTAAA
36171 TTCAATGATTGGTTCTGT
66 TTCAATGATTGGTTCTGT
* *
36189 CAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTC-CAG
1 CAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCTAAA
*
36253 TT-AATGATTGGTTCTGC
66 TTCAATGATTGGTTCTGT
36270 CAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCTAAA
1 CAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCTAAA
36335 TTCAATGATTGGTTCTGT
66 TTCAATGATTGGTTCTGT
* *
36353 CCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCTAAA
1 CAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCTAAA
36418 TTCAATGATTGGTTCTGT
66 TTCAATGATTGGTTCTGT
* *
36436 CCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATT
1 CAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAGCACATT
36491 ACATTTGTTT
Statistics
Matches: 441, Mismatches: 20, Indels: 9
0.94 0.04 0.02
Matches are distributed among these distances:
81 149 0.34
82 10 0.02
83 272 0.62
84 10 0.02
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (83 bp):
CAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCTAAA
TTCAATGATTGGTTCTGT
Found at i:36218 original size:164 final size:164
Alignment explanation
Indices: 35941--36490 Score: 976
Period size: 164 Copynumber: 3.3 Consensus size: 164
35931 GTAGTTCCTA
*
35941 CCAAACCAGATCAGATAACTCAAAGAACTCTTCCAGAAGATGCTATGAGCACATTCATCTTCTAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCTAA
36006 ATTCAATGATTGGTTCTGTCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
66 ATTCAATGATTGGTTCTGTCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
36071 AGCACATTCATCTTCCAGTTAATGATTGGTTCTG
131 AGCACATTCATCTTCCAGTTAATGATTGGTTCTG
* * *
36105 CCAAATCAGATCAGATAACCCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCTAG
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCTAA
36170 ATTCAATGATTGGTTCTGTCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
66 ATTCAATGATTGGTTCTGTCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
36235 AGCACATTCATCTTCCAGTTAATGATTGGTTCTG
131 AGCACATTCATCTTCCAGTTAATGATTGGTTCTG
*
36269 CCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCTAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCTAA
* *
36334 ATTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
66 ATTCAATGATTGGTTCTGTCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
* *
36399 AGCACATTCATCTTCTAAATTCAATGATTGGTTCTG
131 AGCACATTCATCTTC-CAGTT-AATGATTGGTTCTG
36435 TCC-AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATT
1 -CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAGCACATT
36491 ACATTTGTTT
Statistics
Matches: 371, Mismatches: 11, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
164 301 0.81
165 3 0.01
166 55 0.15
167 12 0.03
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.27
Consensus pattern (164 bp):
CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCTAA
ATTCAATGATTGGTTCTGTCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
AGCACATTCATCTTCCAGTTAATGATTGGTTCTG
Found at i:36383 original size:247 final size:247
Alignment explanation
Indices: 35942--36490 Score: 942
Period size: 247 Copynumber: 2.2 Consensus size: 247
35932 TAGTTCCTAC
*
35942 CAAACCAGATCAGATAACTCAAAGAACTCTTCCAGAAGATGCTATGAGCACATTCATCTTCTAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCTAAA
*
36007 TTCAATGATTGGTTCTGTCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGA
66 TTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGA
* * *
36072 GCACATTCATCTTCCAGTTAATGATTGGTTCTGCCAAATCAGATCAGATAACCCAAAGAACACTT
131 GCACATTCATCTTCAAATTAATGATTGGTTCTGCCAAACCAGATCAGATAACCCAAAGAACACTT
*
36137 CCAGAAGATGCTATGAGCACATTCATCTTCTAGATTCAATGATTGGTTCTGT
196 CCAGAAGATGCTATGAGCACATTCATCTTCTAAATTCAATGATTGGTTCTGT
* * *
36189 CAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTC-CAG
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCTAAA
36253 TT-AATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGA
66 TTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGA
*
36317 GCACATTCATCTTCTAAATTCAATGATTGGTTCTGTCC-AACCAGATCAGATAACTCAAAGAACA
131 GCACATTCATCTTC-AAATT-AATGATTGGTTCTG-CCAAACCAGATCAGATAACCCAAAGAACA
36381 CTTCCAGAAGATGCTATGAGCACATTCATCTTCTAAATTCAATGATTGGTTCTGT
193 CTTCCAGAAGATGCTATGAGCACATTCATCTTCTAAATTCAATGATTGGTTCTGT
*
36436 CCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATT
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAGCACATT
36491 ACATTTGTTT
Statistics
Matches: 286, Mismatches: 12, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
245 75 0.26
246 6 0.02
247 193 0.67
248 12 0.04
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (247 bp):
CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCTAAA
TTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGA
GCACATTCATCTTCAAATTAATGATTGGTTCTGCCAAACCAGATCAGATAACCCAAAGAACACTT
CCAGAAGATGCTATGAGCACATTCATCTTCTAAATTCAATGATTGGTTCTGT
Found at i:37659 original size:17 final size:17
Alignment explanation
Indices: 37637--37722 Score: 108
Period size: 17 Copynumber: 5.2 Consensus size: 17
37627 CTTGACCTCC
37637 CTTTTTTTTTTCTTTTT
1 CTTTTTTTTTTCTTTTT
*
37654 CTTTTTTTTTTTTTTTT
1 CTTTTTTTTTTCTTTTT
37671 C-TTTTTTTTTC-TTTT
1 CTTTTTTTTTTCTTTTT
37686 C--TTTTTTTTCTTTTT
1 CTTTTTTTTTTCTTTTT
*
37701 CTCTCTTTTTTTCCTTTTT
1 CT-T-TTTTTTTTCTTTTT
37720 CTT
1 CTT
37723 CAAGCATAAT
Statistics
Matches: 61, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
14 9 0.15
15 10 0.16
16 9 0.15
17 17 0.28
18 1 0.02
19 15 0.25
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (17 bp):
CTTTTTTTTTTCTTTTT
Found at i:37660 original size:19 final size:19
Alignment explanation
Indices: 37641--37722 Score: 83
Period size: 20 Copynumber: 4.1 Consensus size: 19
37631 ACCTCCCTTT
*
37641 TTTTTTTCTTTTTCTTTTTTT
1 TTTTTTT-TTTTTC-TTTTTC
*
37662 TTTTTTTTTCTTTTTTTTTC
1 TTTTTTTTT-TTTCTTTTTC
37682 TTTTCTTTTTTTTCTTTTTC
1 TTTT-TTTTTTTTCTTTTTC
* * *
37702 TCTCTTTTTTTCCTTTTTC
1 TTTTTTTTTTTTCTTTTTC
37721 TT
1 TT
37723 CAAGCATAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
19 15 0.29
20 22 0.42
21 15 0.29
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (19 bp):
TTTTTTTTTTTTCTTTTTC
Found at i:37681 original size:33 final size:33
Alignment explanation
Indices: 37639--37722 Score: 125
Period size: 32 Copynumber: 2.5 Consensus size: 33
37629 TGACCTCCCT
* *
37639 TTTTTTTTTCTTTTTCTTTTTTTTTTTTTTTTC
1 TTTTTTTTTCTTTTTCTTTTTTTTCTTTTTCTC
37672 TTTTTTTTTC-TTTTCTTTTTTTTCTTTTTCTC
1 TTTTTTTTTCTTTTTCTTTTTTTTCTTTTTCTC
*
37704 TCTTTTTTTCCTTTTTCTT
1 T-TTTTTTTTCTTTTTCTT
37723 CAAGCATAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
32 21 0.46
33 18 0.39
34 7 0.15
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (33 bp):
TTTTTTTTTCTTTTTCTTTTTTTTCTTTTTCTC
Found at i:37686 original size:32 final size:32
Alignment explanation
Indices: 37639--37718 Score: 115
Period size: 33 Copynumber: 2.4 Consensus size: 32
37629 TGACCTCCCT
* *
37639 TTTTTTTTTCTTTTTCTTTTTTTTTTTTTTTTC
1 TTTTTTTTTC-TTTTCTTTTTTTTCTTTTTCTC
37672 TTTTTTTTTCTTTTCTTTTTTTTCTTTTTCTC
1 TTTTTTTTTCTTTTCTTTTTTTTCTTTTTCTC
*
37704 TCTTTTTTTCCTTTT
1 T-TTTTTTTTCTTTT
37719 TCTTCAAGCA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
32 21 0.49
33 22 0.51
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (32 bp):
TTTTTTTTTCTTTTCTTTTTTTTCTTTTTCTC
Found at i:37719 original size:1 final size:1
Alignment explanation
Indices: 37638--37700 Score: 72
Period size: 1 Copynumber: 63.0 Consensus size: 1
37628 TTGACCTCCC
* * * * * *
37638 TTTTTTTTTTCTTTTTCTTTTTTTTTTTTTTTTCTTTTTTTTTCTTTTCTTTTTTTTCTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
37701 CTCTCTTTTT
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 50 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (1 bp):
T
Found at i:41599 original size:14 final size:14
Alignment explanation
Indices: 41580--41612 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
41570 AACAAGCTGC
41580 TGTTCTACATTAAT
1 TGTTCTACATTAAT
41594 TGTTCTACATTAAT
1 TGTTCTACATTAAT
41608 TGTTC
1 TGTTC
41613 CCCCTGATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.24, C:0.15, G:0.09, T:0.52
Consensus pattern (14 bp):
TGTTCTACATTAAT
Found at i:47511 original size:28 final size:29
Alignment explanation
Indices: 47480--47552 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 29
47470 AAAATAAAAC
* *
47480 ATATAAATATTATGAAAA-TAATAAGTAA
1 ATATAAATATTATGAAAAGAAAGAAGTAA
* * *
47508 ATATAAAAATTTTGAAAAGAAAGAATTAA
1 ATATAAATATTATGAAAAGAAAGAAGTAA
47537 ATATTAAATA-TATGAA
1 ATA-TAAATATTATGAA
47553 TTTTTAATTT
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
28 16 0.44
29 15 0.42
30 5 0.14
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (29 bp):
ATATAAATATTATGAAAAGAAAGAAGTAA
Found at i:49200 original size:19 final size:19
Alignment explanation
Indices: 49176--49212 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
49166 TGTTTTTTTT
49176 TGTATTTCTCT-TCTCTCTG
1 TGTATTT-TCTGTCTCTCTG
49195 TGTATTTTCTGTCTCTCT
1 TGTATTTTCTGTCTCTCT
49213 TTTCTCTGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.05, C:0.24, G:0.11, T:0.59
Consensus pattern (19 bp):
TGTATTTTCTGTCTCTCTG
Found at i:49642 original size:3 final size:3
Alignment explanation
Indices: 49636--49718 Score: 96
Period size: 3 Copynumber: 27.7 Consensus size: 3
49626 TATATGTATT
* * * *
49636 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAT TTA TAA TAA TTA TAA AAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
49684 TAA TAA TTA TAA TTA TAA TAA TAAA TAA -AA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TA
49719 TGGGTAAAAA
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
2 2 0.03
3 61 0.92
4 3 0.05
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:50293 original size:113 final size:113
Alignment explanation
Indices: 50037--51052 Score: 1468
Period size: 113 Copynumber: 9.0 Consensus size: 113
50027 ATAGAATTAT
* * *
50037 GCAAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTT
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * * * * *
50102 ATTATGAAC-ATCTCTGGAAATGCTGATCCATCAATTGAT-AAATTCA
66 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
* *
50148 TGTAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTTT
1 -GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
*
50213 CATTATGAACTTTCTTTGGAAAAGCTGATCCATCAAATGATGGATTTGA
65 CATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
** *
50262 GCAAAAGGTTGAACAAACTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * * *
50327 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAATTAAT-GAATTCA
66 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
* *
50374 TGTAAAAGGTTTAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
1 -GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
*
50439 CATTATGAACTTTCTCTAGAAAAGCTGATCCATCAAATGATGGATTTGA
65 CATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
* *
50488 GCAAAAGGTTGAACAAGCTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * *
50553 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAATTGAT-GAATTCA
66 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
* *
50600 TGTAAAAGGTTGAACAAGTTCTTCTCATTATTAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
1 -GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
50665 CATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
65 CATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
* *
50714 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * * * * *
50779 ATTATGAACCTTCTCTGGCAAGGCTAATTCATCAAGTGATGGATTTGA
66 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
* *
50827 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * * * * **
50892 ATTATGAACCTTCTCTGGCAAAA-ATAATCCATCAAGTGATGAATTCAA
66 ATTATGAACTTTCTCTGG-AAAAGCTGATCCATCAAATGATGGATTTGA
* *
50940 GCAAAAGGTTCAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * * * *
51005 ATTATGAACCTTCTTTGGCAAAA-ATAATCCATCAAATGATAGATTTGA
66 ATTATGAACTTTCTCTGG-AAAAGCTGATCCATCAAATGATGGATTTGA
51053 ATCTTTGCTA
Statistics
Matches: 825, Mismatches: 72, Indels: 13
0.91 0.08 0.01
Matches are distributed among these distances:
112 79 0.10
113 730 0.88
114 16 0.02
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (113 bp):
GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
Found at i:51961 original size:81 final size:81
Alignment explanation
Indices: 51757--52242 Score: 828
Period size: 81 Copynumber: 5.9 Consensus size: 81
51747 GTAGTTCCTA
* *
51757 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCTAA
1 CCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTC-CA
*
51822 ATTCAATGATTGGTTCTG
65 GTT-AATGATTGGTTCTG
*
51840 TCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAG
1 CCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAG
51905 TTAATGATTGGTTCTG
66 TTAATGATTGGTTCTG
* *
51921 CTAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGAACATTCATCTTCCAG
1 CCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAG
* *
51986 TTAATGATGGGTTCTA
66 TTAATGATTGGTTCTG
52002 CCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAG
1 CCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAG
52067 TTAATGATTGGTTCTG
66 TTAATGATTGGTTCTG
*
52083 CCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCTAA
1 CCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTC-CA
*
52148 ATTCAATGATTGGTTCTG
65 GTT-AATGATTGGTTCTG
52166 TCCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCA
1 -CCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCA
*
52231 GTTAATGTTTGG
65 GTTAATGATTGG
52243 ACTAGGATAT
Statistics
Matches: 382, Mismatches: 18, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
81 229 0.60
82 14 0.04
83 77 0.20
84 62 0.16
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (81 bp):
CCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAG
TTAATGATTGGTTCTG
Found at i:53392 original size:18 final size:18
Alignment explanation
Indices: 53369--53452 Score: 111
Period size: 18 Copynumber: 4.8 Consensus size: 18
53359 TGACCTCCCC
53369 TTTTTTCTTTTTCTCTTT
1 TTTTTTCTTTTTCTCTTT
*
53387 TTTTTTCTTTTTTTCTTT
1 TTTTTTCTTTTTCTCTTT
53405 TTTTTTC--TTT-TCTTT
1 TTTTTTCTTTTTCTCTTT
*
53420 TTTTTTCTTTTTCTATCTT
1 TTTTTTCTTTTTCTCT-TT
*
53439 TTTTTCCTTTTTCT
1 TTTTTTCTTTTTCT
53453 TCAAGCATAA
Statistics
Matches: 59, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
15 12 0.20
16 3 0.05
17 3 0.05
18 26 0.44
19 15 0.25
ACGTcount: A:0.01, C:0.15, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTTTCTTTTTCTCTTT
Found at i:53395 original size:10 final size:10
Alignment explanation
Indices: 53376--53450 Score: 75
Period size: 10 Copynumber: 7.3 Consensus size: 10
53366 CCCTTTTTTC
*
53376 TTTTTCTCTT
1 TTTTTTTCTT
53386 TTTTTTTC--
1 TTTTTTTCTT
53394 TTTTTTTCTT
1 TTTTTTTCTT
53404 TTTTTTTCTT
1 TTTTTTTCTT
53414 TTCTTTTT-TT
1 TT-TTTTTCTT
53424 TTCTTTTTCTAT
1 TT-TTTTTCT-T
53436 CTTTTTTTCCTT
1 -TTTTTTT-CTT
53448 TTT
1 TTT
53451 CTTCAAGCAT
Statistics
Matches: 57, Mismatches: 1, Indels: 13
0.80 0.01 0.18
Matches are distributed among these distances:
8 8 0.14
10 29 0.51
11 9 0.16
12 7 0.12
13 4 0.07
ACGTcount: A:0.01, C:0.15, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:53450 original size:1 final size:1
Alignment explanation
Indices: 53369--53431 Score: 54
Period size: 1 Copynumber: 63.0 Consensus size: 1
53359 TGACCTCCCC
* * * * * * * *
53369 TTTTTTCTTTTTCTCTTTTTTTTTCTTTTTTTCTTTTTTTTTCTTTTCTTTTTTTTTCTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
53432 CTATCTTTTT
Statistics
Matches: 46, Mismatches: 16, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 46 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (1 bp):
T
Found at i:57319 original size:14 final size:14
Alignment explanation
Indices: 57300--57332 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
57290 AACAAGCTGC
57300 TGTTCTACATTAAT
1 TGTTCTACATTAAT
57314 TGTTCTACATTAAT
1 TGTTCTACATTAAT
57328 TGTTC
1 TGTTC
57333 CCCTGATCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.24, C:0.15, G:0.09, T:0.52
Consensus pattern (14 bp):
TGTTCTACATTAAT
Found at i:64793 original size:13 final size:13
Alignment explanation
Indices: 64777--64816 Score: 55
Period size: 12 Copynumber: 3.1 Consensus size: 13
64767 ATATAATAAA
64777 TAAATATTTATTT
1 TAAATATTTATTT
*
64790 TAAATAAATTATTT
1 TAAAT-ATTTATTT
64804 T-AATATTTATTT
1 TAAATATTTATTT
64816 T
1 T
64817 TCAATATCGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 8 0.33
13 8 0.33
14 8 0.33
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TAAATATTTATTT
Found at i:67313 original size:3 final size:3
Alignment explanation
Indices: 67307--67395 Score: 108
Period size: 3 Copynumber: 29.7 Consensus size: 3
67297 TATATGTATT
* * *
67307 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAT TTA TAA TAA TTA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
67355 TAA AAA TAA TAA TTA TAA TTA TAA TAA TAAA TAA -AA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TA
67396 TGGGTAAAAA
Statistics
Matches: 72, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
2 2 0.03
3 67 0.93
4 3 0.04
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:67961 original size:113 final size:113
Alignment explanation
Indices: 67712--68725 Score: 1578
Period size: 113 Copynumber: 9.0 Consensus size: 113
67702 TGATAGAATT
* *
67712 ATGCAAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 ATGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
* * * * * *
67777 TTATTATGAAC-ATCTCTGGAAATGCTGATCCATCAATTGATGAATTC
66 TCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGATTTG
*
67824 ATGTAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 ATGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
67889 TCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTG
66 TCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGAT-GATTTG
* *
67938 A-GCAAAAGGTTGAACAAGCTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 ATGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
* * *
68002 TCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAATTGATGAATTC
66 TCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGATTTG
* *
68050 ATGTAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTATTCCTTCTTCAGATGAGTTCTTC
1 ATGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
68115 TCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTG
66 TCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGAT-GATTTG
* *
68164 A-GCAAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 ATGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
* * *
68228 TCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAATTGATGAATTC
66 TCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGATTTG
*
68276 ATGTAAAAGGTTGAACAAGTTCTTCTCATTATGAAC-T-TTCTTCCTTCTT-AGATGAGTTCTTC
1 ATGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
*
68338 TCATTATGAACTTTCTCTGG-AAAGCTAATCCATCAAATGATGGATTTG
66 TCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGAT-GATTTG
* * * *
68386 A-GCAAAAAGTTGAACAAGCTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAAATGAGTTCTTC
1 ATGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
* * *
68450 TCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAATTGATGAATTC
66 TCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGATTTG
* *
68498 ATGTAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCATATGAGTTCTTC
1 ATGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
68563 TCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTG
66 TCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGAT-GATTTG
* *
68612 A-GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 ATGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
* ** *
68676 TCATTATGAACCTTCTCTGGAAAAAATAATCCATCAAATGATAGATTTG
66 TCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGAT-GATTTG
68725 A
1 A
68726 ATCTTTGCTA
Statistics
Matches: 828, Mismatches: 62, Indels: 23
0.91 0.07 0.03
Matches are distributed among these distances:
109 49 0.06
110 39 0.05
111 24 0.03
112 120 0.14
113 581 0.70
114 15 0.02
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (113 bp):
ATGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
TCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGATTTG
Found at i:68080 original size:226 final size:226
Alignment explanation
Indices: 67714--68717 Score: 1793
Period size: 226 Copynumber: 4.5 Consensus size: 226
67704 ATAGAATTAT
* *
67714 GCAAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTT
1 GCAAAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* *
67779 ATTATGAAC-ATCTCTGGAAATGCTGATCCATCAATTGATGAATTCATGTAAAAGGTTGAACAAG
66 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAATTGATGAATTCATGTAAAAGGTTGAACAAG
67843 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
131 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
67908 GAAAAGCTGATCCATCAAATGATGGATTTGA
196 GAAAAGCTGATCCATCAAATGATGGATTTGA
*
67939 GCAAAAGGTTGAACAAGCTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
68004 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAATTGATGAATTCATGTAAAAGGTTGAACAAG
66 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAATTGATGAATTCATGTAAAAGGTTGAACAAG
*
68069 TTCTTCTCATTATGAACTTCTTATTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
131 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
68134 GAAAAGCTGATCCATCAAATGATGGATTTGA
196 GAAAAGCTGATCCATCAAATGATGGATTTGA
*
68165 GCAAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
68230 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAATTGATGAATTCATGTAAAAGGTTGAACAAG
66 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAATTGATGAATTCATGTAAAAGGTTGAACAAG
68295 TTCTTCTCATTATGAAC-T-TTCTTCCTTCTT-AGATGAGTTCTTCTCATTATGAACTTTCTCTG
131 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
*
68357 G-AAAGCTAATCCATCAAATGATGGATTTGA
196 GAAAAGCTGATCCATCAAATGATGGATTTGA
* * *
68387 GCAAAAAGTTGAACAAGCTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAAATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
68452 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAATTGATGAATTCATGTAAAAGGTTGAACAAG
66 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAATTGATGAATTCATGTAAAAGGTTGAACAAG
*
68517 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCATATGAGTTCTTCTCATTATGAACTTTCTCTG
131 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
68582 GAAAAGCTGATCCATCAAATGATGGATTTGA
196 GAAAAGCTGATCCATCAAATGATGGATTTGA
* * *
68613 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* ** * *
68678 ATTATGAACCTTCTCTGGAAAAAATAATCCATCAAATGAT
66 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAATTGAT
68718 AGATTTGAAT
Statistics
Matches: 747, Mismatches: 27, Indels: 9
0.95 0.03 0.01
Matches are distributed among these distances:
222 171 0.23
223 34 0.05
224 23 0.03
225 104 0.14
226 415 0.56
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.38
Consensus pattern (226 bp):
GCAAAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAATTGATGAATTCATGTAAAAGGTTGAACAAG
TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
GAAAAGCTGATCCATCAAATGATGGATTTGA
Found at i:68318 original size:18 final size:18
Alignment explanation
Indices: 68295--68353 Score: 52
Period size: 18 Copynumber: 3.2 Consensus size: 18
68285 GTTGAACAAG
68295 TTCTTCTCATTATGAACT
1 TTCTTCTCATTATGAACT
*
68313 TTCTTCCTTC-TTA-GATGA-G
1 TTCTT-C-TCATTATGA--ACT
68332 TTCTTCTCATTATGAACT
1 TTCTTCTCATTATGAACT
68350 TTCT
1 TTCT
68354 CTGGAAAGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 14
0.67 0.04 0.29
Matches are distributed among these distances:
17 3 0.09
18 15 0.47
19 11 0.34
20 3 0.09
ACGTcount: A:0.19, C:0.22, G:0.08, T:0.51
Consensus pattern (18 bp):
TTCTTCTCATTATGAACT
Found at i:68430 original size:448 final size:451
Alignment explanation
Indices: 67714--68717 Score: 1818
Period size: 448 Copynumber: 2.2 Consensus size: 451
67704 ATAGAATTAT
* * *
67714 GCAAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTT
1 GCAAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* *
67779 ATTATGAACATCTCTGGAAATGCTGATCCATCAATTGATGAATTCATGTAAAAGGTTGAACAAGT
66 ATTATGAACTTCTCTGGAAAAGCTGATCCATCAATTGATGAATTCATGTAAAAGGTTGAACAAGT
67844 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
131 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
* *
67909 AAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTTATTATGAACT
196 AAAAGCTAATCCATCAAATGATGGATTTGAGCAAAAAGTTGAACAAGCTCTTCTTATTATGAACT
*
67974 TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAA
261 TCTTCTTCCTTCTTCAAATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAA
68039 TTGATGAATTCATGTAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTATTCCTTCTTCAG
326 TTGATGAATTCATGTAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTATTCCTTCTTCAG
68104 ATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
391 ATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
68165 GCAAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
68230 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAATTGATGAATTCATGTAAAAGGTTGAACAAG
66 ATTATGAAC-TTCTCTGGAAAAGCTGATCCATCAATTGATGAATTCATGTAAAAGGTTGAACAAG
68295 TTCTTCTCATTATGAAC-T-TTCTTCCTTCTT-AGATGAGTTCTTCTCATTATGAACTTTCTCTG
130 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
68357 G-AAAGCTAATCCATCAAATGATGGATTTGAGCAAAAAGTTGAACAAGCTCTTCTTATTATGAAC
195 GAAAAGCTAATCCATCAAATGATGGATTTGAGCAAAAAGTTGAACAAGCTCTTCTTATTATGAAC
68421 TTCTTCTTCCTTCTTCAAATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCA
260 TTCTTCTTCCTTCTTCAAATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCA
*
68486 ATTGATGAATTCATGTAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
325 ATTGATGAATTCATGTAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTATTCCTTCTTCA
*
68551 TATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
390 GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
* *
68613 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
** * *
68678 ATTATGAACCTTCTCTGGAAAAAATAATCCATCAAATGAT
66 ATTATGAA-CTTCTCTGGAAAAGCTGATCCATCAATTGAT
68718 AGATTTGAAT
Statistics
Matches: 535, Mismatches: 16, Indels: 7
0.96 0.03 0.01
Matches are distributed among these distances:
448 347 0.65
449 34 0.06
450 12 0.02
451 72 0.13
452 70 0.13
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.38
Consensus pattern (451 bp):
GCAAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
ATTATGAACTTCTCTGGAAAAGCTGATCCATCAATTGATGAATTCATGTAAAAGGTTGAACAAGT
TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
AAAAGCTAATCCATCAAATGATGGATTTGAGCAAAAAGTTGAACAAGCTCTTCTTATTATGAACT
TCTTCTTCCTTCTTCAAATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAA
TTGATGAATTCATGTAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTATTCCTTCTTCAG
ATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
Found at i:68546 original size:24 final size:23
Alignment explanation
Indices: 68519--68563 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
68509 TGAACAAGTT
68519 CTTC-TCATTATGAACTTCTTCTTC
1 CTTCTTCA-TATG-ACTTCTTCTTC
*
68543 CTTCTTCATATGAGTTCTTCT
1 CTTCTTCATATGACTTCTTCT
68564 CATTATGAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 8 0.42
24 8 0.42
25 3 0.16
ACGTcount: A:0.16, C:0.27, G:0.07, T:0.51
Consensus pattern (23 bp):
CTTCTTCATATGACTTCTTCTTC
Found at i:69597 original size:81 final size:81
Alignment explanation
Indices: 69421--69898 Score: 786
Period size: 81 Copynumber: 5.9 Consensus size: 81
69411 GTAGTTCCTA
* * * *
69421 CCAAACCAGATCAGATAACTC--AGAACACTTCCAGAAGATGCTATGAGCACA-TCTTC-T-AAA
1 CCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAG
69481 TTCAATGATTGGTTCTG
66 TT-AATGATTGGTTCTG
* *
69498 TCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCTAG
1 CCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAG
*
69563 TTAATGATTAGTTCTG
66 TTAATGATTGGTTCTG
69579 CCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAG
1 CCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAG
69644 TTAATGATTGGTTCTG
66 TTAATGATTGGTTCTG
*
69660 CCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGTACATTCATCTTCCAG
1 CCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAG
69725 TTAATGATTGGTTCTG
66 TTAATGATTGGTTCTG
*
69741 CCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCTAA
1 CCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTC-CA
* *
69806 ATTAAATGATTGGTTCTTT
65 GTT-AATGATTGGTTC-TG
69825 CCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAG
1 CCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAG
69890 TTAATGATT
66 TTAATGATT
69899 ATGAACTTTC
Statistics
Matches: 377, Mismatches: 16, Indels: 11
0.93 0.04 0.03
Matches are distributed among these distances:
77 19 0.05
79 30 0.08
80 4 0.01
81 233 0.62
82 13 0.03
83 15 0.04
84 63 0.17
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.28
Consensus pattern (81 bp):
CCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAG
TTAATGATTGGTTCTG
Found at i:70300 original size:113 final size:113
Alignment explanation
Indices: 69954--70356 Score: 620
Period size: 113 Copynumber: 3.6 Consensus size: 113
69944 TAGAGTCATT
* ** * *
69954 CAAAAGGTTGAATAAGCTCTTCTTATTATGAAC-T-TTC-T-CTTCTTCAGATGAATTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
*** * * * *
70015 TTATGAACTCTTTCTGGAAGAGCTAATCCATCAAATGATGAATTCAAG
66 TTATGAACTCGAACTGGAAAAGCTAATCCATCAAGTGATGGATTTAAG
* *
70063 CAAAA-GTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
70127 TTAT-AACTCGAACTGGAAAAGCTAATCCATCAAGTGATGGATTTAAG
66 TTATGAACTCGAACTGGAAAAGCTAATCCATCAAGTGATGGATTTAAG
70174 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
70239 TTATGAACTCGAACTGGAAAAGCTAATCCATCAAGTGATGGATTTAAG
66 TTATGAACTCGAACTGGAAAAGCTAATCCATCAAGTGATGGATTTAAG
* *
70287 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGATTTCTTCTTA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
70352 TTATG
66 TTATG
70357 GACTTCTTCT
Statistics
Matches: 274, Mismatches: 14, Indels: 8
0.93 0.05 0.03
Matches are distributed among these distances:
108 25 0.09
109 6 0.02
110 3 0.01
111 42 0.15
112 87 0.32
113 111 0.41
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (113 bp):
CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTCGAACTGGAAAAGCTAATCCATCAAGTGATGGATTTAAG
Found at i:70362 original size:40 final size:40
Alignment explanation
Indices: 70300--70401 Score: 168
Period size: 40 Copynumber: 2.5 Consensus size: 40
70290 AAGGTTGAAC
70300 AAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
1 AAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
* * * *
70340 GATTTCTTCTTATTATGGACTTCTTCTTCCTTCTTCAGAT
1 AAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
70380 AAATTCTTCTCATTATGAACTT
1 AAATTCTTCTCATTATGAACTT
70402 TCTCTGGAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 54 1.00
ACGTcount: A:0.22, C:0.23, G:0.07, T:0.49
Consensus pattern (40 bp):
AAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
Found at i:70473 original size:99 final size:109
Alignment explanation
Indices: 70343--70738 Score: 506
Period size: 113 Copynumber: 3.7 Consensus size: 109
70333 TTCAGATGAT
* * * * ****
70343 TTCTTCTTATTATGGACTTCTTCTTCCTTCTTCAGATAAATTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTG
* *
70408 GAAAAG-T-T-GAT-GT-T-GA-TTAAACTAAA-GTCGAACAAA
66 GAAAAGCTATCCATAGTATGGATTTAAACAAAAGGTCGAACAAA
*
70444 TTC-TCTCATTATGAAC-TCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTG
* *
70507 GAAAAGCTAATCCATCAAGTGATGGATTTAAGCAAAAGGTTGAACAAA
66 GAAAAGCT-ATCCAT--AGT-ATGGATTTAAACAAAAGGTCGAACAAA
70555 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTG
* **
70620 GAAAAGCTAATCCATCAAGTTATGGATTTAAGCAAAAGGTTAAACAAA
66 GAAAAGCT-ATCCAT--AG-TATGGATTTAAACAAAAGGTCGAACAAA
70668 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTG
70733 GAAAAG
66 GAAAAG
70739 TTGATCTATC
Statistics
Matches: 265, Mismatches: 15, Indels: 18
0.89 0.05 0.06
Matches are distributed among these distances:
99 46 0.17
100 12 0.05
101 3 0.01
102 1 0.00
103 2 0.01
106 2 0.01
108 1 0.00
109 2 0.01
110 8 0.03
111 12 0.05
112 13 0.05
113 162 0.61
114 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (109 bp):
TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTG
GAAAAGCTATCCATAGTATGGATTTAAACAAAAGGTCGAACAAA
Found at i:70593 original size:113 final size:113
Alignment explanation
Indices: 70437--70763 Score: 577
Period size: 113 Copynumber: 2.9 Consensus size: 113
70427 AACTAAAGTC
*
70437 GAACAAATTC-TCTCATTATGAAC-TCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACT
1 GAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
70500 CGAACTGGAAAAGCTAATCCATCAAGTGATGGATTTAAGCAAAAGGTT
66 CGAACTGGAAAAGCTAATCCATCAAGTGATGGATTTAAGCAAAAGGTT
70548 GAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
1 GAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
*
70613 CGAACTGGAAAAGCTAATCCATCAAGTTATGGATTTAAGCAAAAGGTT
66 CGAACTGGAAAAGCTAATCCATCAAGTGATGGATTTAAGCAAAAGGTT
*
70661 AAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
1 GAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
* * * *
70726 CGAACTGGAAAAGTTGATCTATCAAATGATGGATTTAA
66 CGAACTGGAAAAGCTAATCCATCAAGTGATGGATTTAA
70764 ATCTTTGCTA
Statistics
Matches: 206, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
111 10 0.05
112 13 0.06
113 183 0.89
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (113 bp):
GAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
CGAACTGGAAAAGCTAATCCATCAAGTGATGGATTTAAGCAAAAGGTT
Found at i:71827 original size:83 final size:83
Alignment explanation
Indices: 71599--71986 Score: 643
Period size: 83 Copynumber: 4.7 Consensus size: 83
71589 TTGGGGTTCA
71599 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
71664 AAATTCAATGACTGGTTT
66 AAATTCAATGACTGGTTT
71682 TACCAAACCAGATCAGATAACTC-AAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
* * *
71746 CAATTCAATGATTGGCTT
66 AAATTCAATGACTGGTTT
71764 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
*
71829 AAATTCAATAACTGGTTT
66 AAATTCAATGACTGGTTT
* * *
71847 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCCTCTTCC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
* * *
71912 AATTTCAATGATTGGTTC
66 AAATTCAATGACTGGTTT
* * * *
71930 TGCCAAACCTGATCAGATAACTCAAAGAACACTTCCAGAAGATGCCATGAGTACATT
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATT
71987 GTATTTGTTC
Statistics
Matches: 285, Mismatches: 19, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
82 79 0.28
83 206 0.72
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (83 bp):
TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
AAATTCAATGACTGGTTT
Found at i:71832 original size:165 final size:166
Alignment explanation
Indices: 71593--71986 Score: 677
Period size: 165 Copynumber: 2.4 Consensus size: 166
71583 ATGGTTTTGG
71593 GGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCA
1 GGTTC-TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCA
*
71658 TCTTTCAAATTCAATGACTGGTTTTACCAAACCAGATCAGATAACTC-AAGAACACTTCCAGAAG
65 TCTTTCAAATTCAATAACTGGTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
71722 ATGCTATGAGCACATTCATCTTTCCAA-TTCAATGATT
130 ATGCTATGAGCACATTCATC-TTCCAATTTCAATGATT
71759 GGCTT-TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCA
1 GG-TTCTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCA
71823 TCTTTCAAATTCAATAACTGGTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
65 TCTTTCAAATTCAATAACTGGTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
* *
71888 ATGCTATGAGCATATTCCTCTTCCAATTTCAATGATT
130 ATGCTATGAGCACATTCATCTTCCAATTTCAATGATT
* * * *
71925 GGTTCTGCCAAACCTGATCAGATAACTCAAAGAACACTTCCAGAAGATGCCATGAGTACATT
1 GGTTCTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATT
71987 GTATTTGTTC
Statistics
Matches: 217, Mismatches: 7, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
165 113 0.52
166 102 0.47
167 2 0.01
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.26
Consensus pattern (166 bp):
GGTTCTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCAT
CTTTCAAATTCAATAACTGGTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGA
TGCTATGAGCACATTCATCTTCCAATTTCAATGATT
Found at i:73140 original size:7 final size:7
Alignment explanation
Indices: 73128--73229 Score: 92
Period size: 7 Copynumber: 15.1 Consensus size: 7
73118 TTGACCCCCC
73128 TTTTTCT
1 TTTTTCT
73135 TTTTTC-
1 TTTTTCT
73141 TTTTT-T
1 TTTTTCT
*
73147 TTCTT-T
1 TTTTTCT
73153 TTTTTCT
1 TTTTTCT
73160 TTTTTCT
1 TTTTTCT
73167 TTTTTCT
1 TTTTTCT
*
73174 CTTTTCAT
1 TTTTTC-T
73182 TTTTT-T
1 TTTTTCT
73188 TCTTTT-T
1 T-TTTTCT
73195 TTTCTT-T
1 TTT-TTCT
73202 TTTTTCT
1 TTTTTCT
73209 TTTTT-T
1 TTTTTCT
* *
73215 GTCTTCT
1 TTTTTCT
73222 TTTTTCT
1 TTTTTCT
73229 T
1 T
73230 CAAGCATAAT
Statistics
Matches: 80, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
6 24 0.30
7 51 0.64
8 5 0.06
ACGTcount: A:0.01, C:0.14, G:0.01, T:0.84
Consensus pattern (7 bp):
TTTTTCT
Found at i:73148 original size:9 final size:9
Alignment explanation
Indices: 73134--73229 Score: 129
Period size: 9 Copynumber: 10.0 Consensus size: 9
73124 CCCCTTTTTC
73134 TTTTTTCTT
1 TTTTTTCTT
73143 TTTTTTCTT
1 TTTTTTCTT
73152 TTTTTTCTT
1 TTTTTTCTT
*
73161 TTTTCTTTTT
1 TTTT-TTCTT
73171 TCTCTTTTCATT
1 T-T-TTTTC-TT
73183 TTTTTTCTT
1 TTTTTTCTT
73192 TTTTTTCTT
1 TTTTTTCTT
73201 TTTTTTCTT
1 TTTTTTCTT
73210 TTTTTGTCTT
1 TTTTT-TCTT
73220 CTTTTTTCTT
1 -TTTTTTCTT
73230 CAAGCATAAT
Statistics
Matches: 79, Mismatches: 2, Indels: 11
0.86 0.02 0.12
Matches are distributed among these distances:
9 47 0.59
10 18 0.23
11 9 0.11
12 5 0.06
ACGTcount: A:0.01, C:0.14, G:0.01, T:0.84
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:73225 original size:40 final size:39
Alignment explanation
Indices: 73128--73226 Score: 128
Period size: 40 Copynumber: 2.5 Consensus size: 39
73118 TTGACCCCCC
* *
73128 TTTTTCTTTTTTCTTTTTTTTCTTTTTTTTCTTTTTTCT
1 TTTTTCTCTCTTCTTTTTTTTCTTTTTTTTCTTTTTTCT
*
73167 TTTTTCTCTTTTCATTTTTTTTCTTTTTTTTCTTTTTTTTCT
1 TTTTTCTCTCTTC-TTTTTTTTCTTTTTTTTC--TTTTTTCT
*
73209 TTTTT-TGTCTTCTTTTTT
1 TTTTTCTCTCTTCTTTTTT
73227 CTTCAAGCAT
Statistics
Matches: 54, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
39 12 0.22
40 24 0.44
41 5 0.09
42 13 0.24
ACGTcount: A:0.01, C:0.13, G:0.01, T:0.85
Consensus pattern (39 bp):
TTTTTCTCTCTTCTTTTTTTTCTTTTTTTTCTTTTTTCT
Found at i:73226 original size:1 final size:1
Alignment explanation
Indices: 73128--73214 Score: 66
Period size: 1 Copynumber: 87.0 Consensus size: 1
73118 TTGACCCCCC
* * * * * * * ** *
73128 TTTTTCTTTTTTCTTTTTTTTCTTTTTTTTCTTTTTTCTTTTTTCTCTTTTCATTTTTTTTCTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* *
73193 TTTTTCTTTTTTTTCTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTT
73215 GTCTTCTTTT
Statistics
Matches: 63, Mismatches: 23, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 63 1.00
ACGTcount: A:0.01, C:0.13, G:0.00, T:0.86
Consensus pattern (1 bp):
T
Found at i:84474 original size:13 final size:13
Alignment explanation
Indices: 84437--84476 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 13
84427 TCGATATTGA
84437 AAAATAAATA-TT
1 AAAATAAATATTT
*
84449 AAAATAATTTATTT
1 AAAATAA-ATATTT
84463 AAAATAAATATTT
1 AAAATAAATATTT
84476 A
1 A
84477 TTTATTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 7 0.29
13 8 0.33
14 9 0.38
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAATAAATATTT
Found at i:84477 original size:17 final size:17
Alignment explanation
Indices: 84450--84494 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
84440 ATAAATATTA
84450 AAATAATTTATTTAAAAT
1 AAAT-ATTTATTTAAAAT
**
84468 AAATATTTATTTATTAT
1 AAATATTTATTTAAAAT
*
84485 ATATATTTAT
1 AAATATTTAT
84495 GACTACATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 20 0.83
18 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
AAATATTTATTTAAAAT
Found at i:84594 original size:28 final size:30
Alignment explanation
Indices: 84540--84595 Score: 80
Period size: 28 Copynumber: 1.9 Consensus size: 30
84530 GTAAAATTAA
* *
84540 AATAAAATACAATTAGATATATTTAAAAGC
1 AATAAAATACAATTAAAAATATTTAAAAGC
84570 AATAAAATA-AA-TAAAAATATTTAAAA
1 AATAAAATACAATTAAAAATATTTAAAA
84596 TTATTGACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 13 0.54
29 2 0.08
30 9 0.38
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.29
Consensus pattern (30 bp):
AATAAAATACAATTAAAAATATTTAAAAGC
Found at i:85808 original size:3 final size:3
Alignment explanation
Indices: 85800--85859 Score: 77
Period size: 3 Copynumber: 20.0 Consensus size: 3
85790 TTAATATATT
* * *
85800 TAA TAA TAA TAA T-A TAT TTA TAA TAAA TTA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA
85845 TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA
85860 ATCAATATGG
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
2 2 0.04
3 44 0.90
4 3 0.06
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:87261 original size:20 final size:21
Alignment explanation
Indices: 87236--87283 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
87226 ATATATATAT
*
87236 AATAATATAATAACG-AAAAA
1 AATAATATAATAAAGTAAAAA
* *
87256 AATAATTTAATAAAGTAAAAT
1 AATAATATAATAAAGTAAAAA
87277 AATAATA
1 AATAATA
87284 ATGTAAATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (21 bp):
AATAATATAATAAAGTAAAAA
Found at i:88013 original size:36 final size:37
Alignment explanation
Indices: 87963--88032 Score: 108
Period size: 36 Copynumber: 1.9 Consensus size: 37
87953 AACATAGCAA
*
87963 AATTCTATCCTATTTTT-AGGAG-TTGAATCCTAGCGG
1 AATTCTATCATATTTTTGA-GAGTTTGAATCCTAGCGG
87999 AATTCTATCATATTTTTGAGAGTTTGAATCCTAG
1 AATTCTATCATATTTTTGAGAGTTTGAATCCTAG
88033 TAGGACGAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
36 19 0.61
37 12 0.39
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.41
Consensus pattern (37 bp):
AATTCTATCATATTTTTGAGAGTTTGAATCCTAGCGG
Found at i:88675 original size:100 final size:99
Alignment explanation
Indices: 88542--89015 Score: 396
Period size: 100 Copynumber: 4.5 Consensus size: 99
88532 GGGAAATTGT
* * * *
88542 TTGTTGACAGTCAGCCGCCCCTTCGCTT-TGAAGTTGAGCTTGTGCTGTCTCGAGTCTAATATCC
1 TTGTTGACAATCAGCCGTCCCTTCG-TTGTGAAGTTGAACTTGTGTTGTCTCGAGTC-AATATCC
*
88606 TTCGTTGTGAAGTTGAAATTGACTTTG-AACGAAATC
64 TTCGTTGTGAAGTTGAAATTG-CTATGAAACGAAATC
88642 TTGTTGACAATCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCT
1 TTGTTGACAATCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGT-CAATATCCT
* * *
88707 TCGTTGTGAAGTTGAAATTGGCTCTGAAATTTGAAAAATGT
65 TCGTTGTGAAGTTGAAATT-GCTATGAAA--CG--AAAT-C
*
88748 TTGTTGACAA-CAAGCTGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTGACACGATA
1 TTGTTGACAATC-AGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGT--CA--ATA
* * * * * **
88812 TCCTCCGTCGTGGAGTTGAAATCGCGAATGAAACTGAAAAG
61 TCCTTCGTTGTGAAGTTGAAATTGC-TATGAAAC-GAAATC
* *
88853 TTGTCGTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGGGTAGCACGAT
1 TTGT--TGACAATCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGT--CA--AT
* * * * * * ** * *
88918 ATCCTCCGTCGTGGAGTTGAAATCGGTTCTGGAATTGGGAAGTTG
60 ATCCTTCGTTGTGAAGTTGAAAT-TGCTAT-GAA--ACGAA-ATC
* *
88963 TTCGTTGACAACCAGCCGTCCTTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
1 TT-GTTGACAATCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
89016 GGTAGCACGA
Statistics
Matches: 319, Mismatches: 31, Indels: 39
0.82 0.08 0.10
Matches are distributed among these distances:
99 2 0.01
100 79 0.25
101 4 0.01
103 1 0.00
105 9 0.03
106 55 0.17
107 79 0.25
108 8 0.03
109 77 0.24
110 3 0.01
111 2 0.01
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.34
Consensus pattern (99 bp):
TTGTTGACAATCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCAATATCCTT
CGTTGTGAAGTTGAAATTGCTATGAAACGAAATC
Found at i:88679 original size:106 final size:105
Alignment explanation
Indices: 88486--89112 Score: 378
Period size: 109 Copynumber: 5.9 Consensus size: 105
88476 AATATTGTTC
* * * ** * * * *
88486 CGAGTTCAATATCCTCCGCTGTGAAGTTGAAATTGGTTCTGGAACCGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATC--GAAAATGCTTGTTGACA
* * *
88551 GTC-AGCCGCCCCTTCGCTT-TGAAGTTG-AGCTTGTGCTGTCT
64 -ACAAGCCGTCCCTTCG-TTGTGAAGTTGAAACTTGTGCTGTCT
* *
88592 CGAGTCTAATATCCTTCGTTGTGAAGTTGAAATTGACTTTG-AA-CG-AAAT-CTTGTTGACAAT
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAAAATGCTTGTTGACAA-
*
88653 C-AGCCGTCCCTTCGTTGTGAAGTTG-AACTTGTGTTGTCT
65 CAAGCCGTCCCTTCGTTGTGAAGTTGAAACTTGTGCTGTCT
* * *
88692 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTTGAAAAATGTTTGTTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAA-TCG-AAAATGCTTGTTGACA
* *
88757 ACAAGCTGTCCCTTCGTTGTGAAGTTG-AACTTGTGTTGTCT
64 ACAAGCCGTCCCTTCGTTGTGAAGTTGAAACTTGTGCTGTCT
* * * * * **
88798 CGAGTGACACGATATCCTCCGTCGTGGAGTTGAAATCG-CGAATGAAA-CTGAAAA-G-TTGTCG
1 CGAGT--C-CAATATCCTTCGTTGTGAAGTTGAAATTGAC-TCTGAAATC-GAAAATGCTTGT--
* *
88859 TGACAACCAGCCGTCCCTTCGTTGTGAAGTTG-AACTTGTGTTGTCT
59 TGACAACAAGCCGTCCCTTCGTTGTGAAGTTGAAACTTGTGCTGTCT
* * * * * * ** * * **
88905 CGGGTAGCACGATATCCTCCGTCGTGGAGTTGAAATCGGTTCTGGAATTGGGAAGTTG-TTCGTT
1 CGAGT--C-CAATATCCTTCGTTGTGAAGTTGAAATTGACTCT-GAAAT-CGAAAATGCTT-GTT
* * *
88969 GACAACCAGCCGTCCTTTCGTTGTGAAGTTG-AACTTGTGTTGTCT
60 GACAACAAGCCGTCCCTTCGTTGTGAAGTTGAAACTTGTGCTGTCT
* * * * * * ** * *
89014 CGGGTAGCACGATATCCTCCGTCGTGGAGTTGAAATCGGTTCCGAAATTGGAAAATTG-TTGTTG
1 CGAGT--C-CAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAA-TCGAAAA-TGCTTGTTG
*
89078 GCAACCAA--CGTCCCTTCGTTGTGAAGTTG-AACTTG
61 ACAA-CAAGCCGTCCCTTCGTTGTGAAGTTGAAACTTG
89113 ACTTTAGCTA
Statistics
Matches: 449, Mismatches: 47, Indels: 49
0.82 0.09 0.09
Matches are distributed among these distances:
99 2 0.00
100 80 0.18
101 5 0.01
102 1 0.00
103 1 0.00
104 1 0.00
105 11 0.02
106 87 0.19
107 110 0.24
108 20 0.04
109 126 0.28
110 3 0.01
111 2 0.00
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (105 bp):
CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAAAATGCTTGTTGACAAC
AAGCCGTCCCTTCGTTGTGAAGTTGAAACTTGTGCTGTCT
Found at i:89000 original size:216 final size:209
Alignment explanation
Indices: 88486--89112 Score: 698
Period size: 216 Copynumber: 3.0 Consensus size: 209
88476 AATATTGTTC
* **
88486 CGAGTTCAATATCCTCCG-CTGTGAAGTTGAAATTGGTTCTGGAACCGGGAAATTGTTTGTTGAC
1 CGAGTCCAATATCCTCCGTC-GTGAAGTTGAAATTGGTTCTGGAATTGGGAAATTGTTTGTTGAC
** * * * *
88550 AGTCAGCCGCCCCTTCGCTT-TGAAGTTGAGCTTGTGCTGTCTCGAGT-CTA--ATATCCTTCGT
65 AACCAGCCGTCCCTTCG-TTGTGAAGTTGAACTTGTGTTGTCTCGAGTAC-ACGATATCCTCCGT
* * * * * *
88611 TGTGAAGTTGAAATTGACTTTG-AAC-GAAATCTTGT-TGACAATCAGCCGTCCCTTCGTTGTGA
128 CGTGGAGTTGAAATCG-CGTTGAAACTGAAA-ATTGTGTGACAACCAGCCGTCCCTTCGTTGTGA
88673 AGTTGAACTTGTGTTGTCT
191 AGTTGAACTTGTGTTGTCT
* * * * * * *
88692 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTTGAAAAATGTTTGTTGACA
1 CGAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGTTCTGGAATTGGGAAATTGTTTGTTGACA
* *
88757 ACAAGCTGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTGACACGATATCCTCCGTCG
66 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGT-ACACGATATCCTCCGTCG
*
88822 TGGAGTTGAAATCGCGAATGAAACTGAAAAGTTGTCGTGACAACCAGCCGTCCCTTCGTTGTGAA
130 TGGAGTTGAAATCGCG-TTGAAACTGAAAA-TTGT-GTGACAACCAGCCGTCCCTTCGTTGTGAA
88887 GTTGAACTTGTGTTGTCT
192 GTTGAACTTGTGTTGTCT
* * * * * *
88905 CGGGTAGCACGATATCCTCCGTCGTGGAGTTGAAATCGGTTCTGGAATTGGGAAGTTGTTCGTTG
1 CGAGT--C-CAATATCCTCCGTCGTGAAGTTGAAATTGGTTCTGGAATTGGGAAATTGTTTGTTG
* *
88970 ACAACCAGCCGTCCTTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGGGTAGCACGATATCCTCCG
63 ACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTA-CACGATATCCTCCG
* * *
89035 TCGTGGAGTTGAAATCG-GTTCCGAAATTGGAAAATTGTTGTTGGCAACCA-ACGTCCCTTCGTT
127 TCGTGGAGTTGAAATCGCGTT--GAAACT-GAAAATTG-TG-TGACAACCAGCCGTCCCTTCGTT
89098 GTGAAGTTGAACTTG
187 GTGAAGTTGAACTTG
89113 ACTTTAGCTA
Statistics
Matches: 354, Mismatches: 46, Indels: 32
0.82 0.11 0.07
Matches are distributed among these distances:
205 2 0.01
206 90 0.25
207 1 0.00
208 2 0.01
209 25 0.07
210 3 0.01
211 8 0.02
213 49 0.14
214 1 0.00
215 3 0.01
216 156 0.44
217 14 0.04
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (209 bp):
CGAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGTTCTGGAATTGGGAAATTGTTTGTTGACA
ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTACACGATATCCTCCGTCGT
GGAGTTGAAATCGCGTTGAAACTGAAAATTGTGTGACAACCAGCCGTCCCTTCGTTGTGAAGTTG
AACTTGTGTTGTCT
Found at i:89013 original size:109 final size:108
Alignment explanation
Indices: 88644--89112 Score: 621
Period size: 109 Copynumber: 4.4 Consensus size: 108
88634 ACGAAATCTT
* *
88644 GTTGACAATCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGT-C-CAATATCCT
1 GTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTGCACGATATCCT
* * * * * * * *
88707 TCGTTGTGAAGTTGAAATTGGCTCTGAAATTTGAAAAATGTTT
66 CCGTCGTGGAGTTGAAATCGGTTCTGAAATTGGAAAATTGTTC
* *
88750 GTTGACAACAAGCTGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTGACACGATATCC
1 GTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTG-CACGATATCC
** *
88815 TCCGTCGTGGAGTTGAAATCGCG-AATGAAACT-GAAAAGTTG-TC
65 TCCGTCGTGGAGTTGAAATCG-GTTCTGAAATTGGAAAA-TTGTTC
*
88858 G-TGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGGGTAGCACGATATCC
1 GTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGT-GCACGATATCC
* * *
88922 TCCGTCGTGGAGTTGAAATCGGTTCTGGAATTGGGAAGTTGTTC
65 TCCGTCGTGGAGTTGAAATCGGTTCTGAAATTGGAAAATTGTTC
* *
88966 GTTGACAACCAGCCGTCCTTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGGGTAGCACGATATCC
1 GTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGT-GCACGATATCC
*
89031 TCCGTCGTGGAGTTGAAATCGGTTCCGAAATTGGAAAATTGTT-
65 TCCGTCGTGGAGTTGAAATCGGTTCTGAAATTGGAAAATTGTTC
* *
89074 GTTGGCAACCA-ACGTCCCTTCGTTGTGAAGTTGAACTTG
1 GTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTG
89113 ACTTTAGCTA
Statistics
Matches: 323, Mismatches: 30, Indels: 19
0.87 0.08 0.05
Matches are distributed among these distances:
106 51 0.16
107 113 0.35
108 25 0.08
109 133 0.41
110 1 0.00
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.32
Consensus pattern (108 bp):
GTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTGCACGATATCCT
CCGTCGTGGAGTTGAAATCGGTTCTGAAATTGGAAAATTGTTC
Found at i:89669 original size:35 final size:36
Alignment explanation
Indices: 89598--89669 Score: 101
Period size: 35 Copynumber: 2.0 Consensus size: 36
89588 TGATGCTTCA
* **
89598 AGAGAAAACTGTCTCAAGGGAGACAAAATTTGTTTC
1 AGAGAAAACTGTCTCAAGAGAGACAAAATTCATTTC
*
89634 AGAG-AAACTGTCTCAAGAGAGACGAAATTCATTTC
1 AGAGAAAACTGTCTCAAGAGAGACAAAATTCATTTC
89669 A
1 A
89670 AGGGAAATGT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 28 0.88
36 4 0.12
ACGTcount: A:0.40, C:0.15, G:0.21, T:0.24
Consensus pattern (36 bp):
AGAGAAAACTGTCTCAAGAGAGACAAAATTCATTTC
Found at i:89760 original size:63 final size:64
Alignment explanation
Indices: 89628--89802 Score: 266
Period size: 63 Copynumber: 2.8 Consensus size: 64
89618 AGACAAAATT
89628 TGTTTC-AGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAAGTTTA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAAGTTTA
* *
89691 TG-TTCAAGAGAAACTATCTCAAGAGAG-CGAAATTCATTTCAAGGGAAATGTTTTCATGTTTA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAAGTTTA
* * ** *
89753 TGTTTCAAGAGAAACTGTCTCAAGCGAGACAAAATTTGTTTCGAGGGAAA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAA
89803 CTATTCAAGA
Statistics
Matches: 101, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
62 39 0.39
63 45 0.45
64 17 0.17
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.30
Consensus pattern (64 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAAGTTTA
Found at i:89818 original size:35 final size:36
Alignment explanation
Indices: 89753--90128 Score: 181
Period size: 36 Copynumber: 10.9 Consensus size: 36
89743 TTCATGTTTA
* *
89753 TGTTTCAAGAGAAACTGTCTCAAGCGAGACAAAATT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATT
* *
89789 TGTTTCGAGGGAAACTAT-TCAAGAGAGACAAAA-T
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATT
** * * * * *
89823 CATTTCAAGGGAAA-TGTTTTC-A-A-TG-----TTT
1 TGTTTCAAGAGAAACT-ATCTCAAGAGAGACAAAATT
*
89851 ATGTTTCAAGAGAAACGTA--TCAAGGGAGACAAAATTT
1 -TGTTTCAAGAGAAAC-TATCTCAAGAGAGACAAAA-TT
* *
89888 TGTTTCAAGGGAAACTATCTCAAGAGATACAAAA-T
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATT
** * * * * *
89923 TCATTCAAG-GAAA-TGTTTCCA-A-TG-----TTT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATT
* *
89950 ATGTTTCAAGAGAAACTGTCTCAATG-GAGACAGAATTT
1 -TGTTTCAAGAGAAACTATCTCAA-GAGAGACA-AAATT
* *
89988 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAACT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATT
** * * *
90024 CATTTCAAGAGAAACTGTCTCAAGGGAGAAAAAAATT
1 TGTTTCAAGAGAAACTATCTCAAGAGAG-ACAAAATT
* *
90061 TGTTTCAA-AGAAAACTGTCTCAAGAGAGACAAAGTT
1 TGTTTCAAGAG-AAACTATCTCAAGAGAGACAAAATT
* **
90097 TGTTTCAAGGGAAACCGTCTCAAGAGAGACAA
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAA
90129 TGGTGAGCAC
Statistics
Matches: 255, Mismatches: 51, Indels: 68
0.68 0.14 0.18
Matches are distributed among these distances:
27 1 0.00
28 10 0.04
29 16 0.06
30 6 0.02
31 2 0.01
32 3 0.01
33 7 0.03
34 18 0.07
35 26 0.10
36 92 0.36
37 71 0.28
38 3 0.01
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATT
Found at i:89893 original size:99 final size:102
Alignment explanation
Indices: 89693--90037 Score: 526
Period size: 99 Copynumber: 3.5 Consensus size: 102
89683 CAAGTTTATG
* * *
89693 TTCAAGAGAAACTATCTCAAGAGAG-CGAAATTCATTTCAAGGGAAATGTTTTC-ATGTTTATGT
1 TTCAAGGGAAACTATCTCAAGAGAGACAAAACTCATTTCAAGGGAAATGTTTTCAATGTTTATGT
*
89756 TTCAAGAGAAACTGTCTCAAGCGAGACAAAA-TTTGT
66 TTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGT
*
89792 TTCGAGGGAAACTAT-TCAAGAGAGACAAAA-TCATTTCAAGGGAAATGTTTTCAATGTTTATGT
1 TTCAAGGGAAACTATCTCAAGAGAGACAAAACTCATTTCAAGGGAAATGTTTTCAATGTTTATGT
*
89855 TTCAAGAGAAAC-GTATCAAGGGAGACAAAATTTTGT
66 TTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGT
* * *
89891 TTCAAGGGAAACTATCTCAAGAGATACAAAATTCA-TTCAA-GGAAATGTTTCCAATGTTTATGT
1 TTCAAGGGAAACTATCTCAAGAGAGACAAAACTCATTTCAAGGGAAATGTTTTCAATGTTTATGT
* *
89954 TTCAAGAGAAACTGTCTCAATGGAGACAGAATTTTGT
66 TTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGT
*
89991 TTCAAGGGAAACTATCTCAAGAGAGACAAAACTCATTTCAAGAGAAA
1 TTCAAGGGAAACTATCTCAAGAGAGACAAAACTCATTTCAAGGGAAA
90038 CTGTCTCAAG
Statistics
Matches: 224, Mismatches: 14, Indels: 13
0.89 0.06 0.05
Matches are distributed among these distances:
98 47 0.21
99 92 0.41
100 73 0.33
101 8 0.04
102 4 0.02
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.29
Consensus pattern (102 bp):
TTCAAGGGAAACTATCTCAAGAGAGACAAAACTCATTTCAAGGGAAATGTTTTCAATGTTTATGT
TTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGT
Found at i:89920 original size:37 final size:37
Alignment explanation
Indices: 89852--90128 Score: 208
Period size: 36 Copynumber: 7.9 Consensus size: 37
89842 TCAATGTTTA
* * *
89852 TGTTTCAAGAGAAAC-GTATCAAGGGAGACAAAATTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
* *
89888 TGTTTCAAGGGAAACTATCTCAAGAGATACAAAA--T
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
** * **
89923 TCATTCAA-GGAAA-TGTTTC--------CAATGTTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
* *
89950 ATGTTTCAAGAGAAACTGTCTCAATG-GAGACAGAATTT
1 -TGTTTCAAGGGAAACTGTCTCAA-GAGAGACAAAATTT
* *
89988 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA-CT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
** * * * *
90024 CATTTCAAGAGAAACTGTCTCAAGGGAGAAAAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
* * *
90061 TGTTTCAAAGAAAACTGTCTCAAGAGAGAC-AAAGTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
*
90097 TGTTTCAAGGGAAACCGTCTCAAGAGAGACAA
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
90129 TGGTGAGCAC
Statistics
Matches: 184, Mismatches: 40, Indels: 33
0.72 0.16 0.13
Matches are distributed among these distances:
25 3 0.02
27 1 0.01
28 6 0.03
29 4 0.02
30 5 0.03
33 4 0.02
34 5 0.03
35 7 0.04
36 76 0.41
37 68 0.37
38 5 0.03
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.26
Consensus pattern (37 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
Found at i:90076 original size:73 final size:73
Alignment explanation
Indices: 89953--90125 Score: 220
Period size: 73 Copynumber: 2.4 Consensus size: 73
89943 AATGTTTATG
* * * * * *
89953 TTTCAAGAGAAACTGTCTCAATGGAGACAGAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGAC
1 TTTCAAGAGAAACTGTCTCAAGGGAGAAAAAAATTTGTTTCAAAGAAAACTATCTCAAGAGAGAC
90018 AAAACTCA
66 AAAACTCA
*
90026 TTTCAAGAGAAACTGTCTCAAGGGAGAAAAAAATTTGTTTCAAAGAAAACTGTCTCAAGAGAGAC
1 TTTCAAGAGAAACTGTCTCAAGGGAGAAAAAAATTTGTTTCAAAGAAAACTATCTCAAGAGAGAC
** **
90091 AAAGTTTG
66 AAAACTCA
* * *
90099 TTTCAAGGGAAACCGTCTCAAGAGAGA
1 TTTCAAGAGAAACTGTCTCAAGGGAGA
90126 CAATGGTGAG
Statistics
Matches: 86, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
73 86 1.00
ACGTcount: A:0.40, C:0.15, G:0.21, T:0.24
Consensus pattern (73 bp):
TTTCAAGAGAAACTGTCTCAAGGGAGAAAAAAATTTGTTTCAAAGAAAACTATCTCAAGAGAGAC
AAAACTCA
Found at i:90995 original size:21 final size:22
Alignment explanation
Indices: 90971--91019 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
90961 TTGTGTTTGG
90971 TCAAAGG-TTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
90992 TCAAAGGTTTGGTATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
91014 T-AAAGG
1 TCAAAGG
91020 ATTGATGGGG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 12 0.46
22 14 0.54
ACGTcount: A:0.27, C:0.10, G:0.29, T:0.35
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:91646 original size:20 final size:21
Alignment explanation
Indices: 91623--91669 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
91613 TTTGTCCCCT
*
91623 TTTTTTATTTTTGTTCTTT-C
1 TTTTTTATTCTTGTTCTTTCC
* *
91643 TTTTTTGTTCTTGTTTTTTCC
1 TTTTTTATTCTTGTTCTTTCC
91664 TTTTTT
1 TTTTTT
91670 CCTTTTTTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.02, C:0.11, G:0.06, T:0.81
Consensus pattern (21 bp):
TTTTTTATTCTTGTTCTTTCC
Found at i:103831 original size:20 final size:20
Alignment explanation
Indices: 103815--103882 Score: 127
Period size: 20 Copynumber: 3.4 Consensus size: 20
103805 CAAAGGATTA
*
103815 ATCCCTTTTCAAAAGGATTG
1 ATCCCTTTTCAAAAGGATCG
103835 ATCCCTTTTCAAAAGGATCG
1 ATCCCTTTTCAAAAGGATCG
103855 ATCCCTTTTCAAAAGGATCG
1 ATCCCTTTTCAAAAGGATCG
103875 ATCCCTTT
1 ATCCCTTT
103883 GGGAAAAGAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (20 bp):
ATCCCTTTTCAAAAGGATCG
Found at i:103861 original size:40 final size:40
Alignment explanation
Indices: 103806--103882 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
103796 TTTGTTGTAC
* *
103806 AAAGGATTAATCCCTTTTCAAAAGGATTGATCCCTTTTCA
1 AAAGGATCAATCCCTTTTCAAAAGGATCGATCCCTTTTCA
*
103846 AAAGGATCGATCCCTTTTCAAAAGGATCGATCCCTTT
1 AAAGGATCAATCCCTTTTCAAAAGGATCGATCCCTTT
103883 GGGAAAAGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.32
Consensus pattern (40 bp):
AAAGGATCAATCCCTTTTCAAAAGGATCGATCCCTTTTCA
Found at i:110933 original size:15 final size:15
Alignment explanation
Indices: 110913--110991 Score: 104
Period size: 15 Copynumber: 5.3 Consensus size: 15
110903 AGTGTTTGTC
* *
110913 TGTTATGTTATGTTA
1 TGTTATGCTATGCTA
110928 TGTTATGCTATGCTA
1 TGTTATGCTATGCTA
*
110943 TGCTATGCTATGCTA
1 TGTTATGCTATGCTA
*
110958 TGCTATGCTATGCTA
1 TGTTATGCTATGCTA
* *
110973 TGTTATGTTATGTTA
1 TGTTATGCTATGCTA
110988 TGTT
1 TGTT
110992 GATATTCGAA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 58 1.00
ACGTcount: A:0.19, C:0.10, G:0.20, T:0.51
Consensus pattern (15 bp):
TGTTATGCTATGCTA
Found at i:110991 original size:5 final size:5
Alignment explanation
Indices: 110916--110989 Score: 94
Period size: 5 Copynumber: 14.8 Consensus size: 5
110906 GTTTGTCTGT
* * *
110916 TATGT TATGT TATGT TATGC TATGC TATGC TATGC TATGC TATGC TATGC
1 TATGC TATGC TATGC TATGC TATGC TATGC TATGC TATGC TATGC TATGC
* * *
110966 TATGC TATGT TATGT TATGT TATG
1 TATGC TATGC TATGC TATGC TATG
110990 TTGATATTCG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 67 1.00
ACGTcount: A:0.20, C:0.11, G:0.20, T:0.49
Consensus pattern (5 bp):
TATGC
Found at i:113322 original size:18 final size:18
Alignment explanation
Indices: 113295--113342 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
113285 TTTTTCAGTC
* *
113295 TTCTTTCTCTCTCTCCGA
1 TTCTTCCTCTCTCCCCGA
113313 TTCTTCCTCTCTCCCCGA
1 TTCTTCCTCTCTCCCCGA
113331 TTCTTCCTCTCT
1 TTCTTCCTCTCT
113343 TTTTTCTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.04, C:0.44, G:0.04, T:0.48
Consensus pattern (18 bp):
TTCTTCCTCTCTCCCCGA
Found at i:113718 original size:16 final size:18
Alignment explanation
Indices: 113687--113723 Score: 60
Period size: 16 Copynumber: 2.2 Consensus size: 18
113677 CTACAAAATA
113687 ATTATATATATATTTTTT
1 ATTATATATATATTTTTT
113705 ATTAT-TAT-TATTTTTT
1 ATTATATATATATTTTTT
113721 ATT
1 ATT
113724 TTTGTAGGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 11 0.58
17 3 0.16
18 5 0.26
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (18 bp):
ATTATATATATATTTTTT
Found at i:114597 original size:3 final size:3
Alignment explanation
Indices: 114583--114625 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
114573 TTTTTGTCTC
*
114583 ATT ATT -TT ATT ATT ATT ATT ATT ATT ATT -TT AAT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
114626 TAATAAATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
2 4 0.11
3 32 0.89
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:114634 original size:17 final size:14
Alignment explanation
Indices: 114589--114630 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
114579 TCTCATTATT
*
114589 TTATTATTATTATTA
1 TTATTATT-TTAATA
114604 TTATTATTTTAATA
1 TTATTATTTTAATA
114618 TTATTA-TTTAATA
1 TTATTATTTTAATA
114631 AATAATTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
13 7 0.27
14 11 0.42
15 8 0.31
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
TTATTATTTTAATA
Found at i:116087 original size:93 final size:94
Alignment explanation
Indices: 115985--116165 Score: 217
Period size: 93 Copynumber: 1.9 Consensus size: 94
115975 TATCTTTCAA
* * * * *
115985 TATTAAGAAATGGCACTCTTAAAATAACTAGATGTCCATTTTTTGATATATT-T-AATAAATATC
1 TATTAAGAAATGACACTCTTAAAACAACTAGAAGT-CATTTTCTGATAT-TTCTAAATAAATA-A
*
116048 ATA-CTTTTATA-AAATATATATATATTAATC
63 ATATCTTATATATAAATATATATATATTAATC
* * *
116078 TATTAAGAAATGACAGTCTTAAAGCACCTAGAAGTCATTTTCTGATATTTCTAAATAAATAAATA
1 TATTAAGAAATGACACTCTTAAAACAACTAGAAGTCATTTTCTGATATTTCTAAATAAATAAATA
*
116143 TCTTATATATATATATATATATA
66 TCTTATATATAAATATATATATA
116166 AATTAATAGA
Statistics
Matches: 74, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
91 2 0.03
92 16 0.22
93 44 0.59
94 12 0.16
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (94 bp):
TATTAAGAAATGACACTCTTAAAACAACTAGAAGTCATTTTCTGATATTTCTAAATAAATAAATA
TCTTATATATAAATATATATATATTAATC
Found at i:118174 original size:43 final size:43
Alignment explanation
Indices: 118113--118198 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
118103 TGGCTTCAGA
* *
118113 GAAGTTAGGAGGGAAAGTTATCTCCTATATGTAAAGTTTTGTT
1 GAAGTTAAGAGGGAAAGTTATCCCCTATATGTAAAGTTTTGTT
* *
118156 GAAGTTAAGAGTGAAAGTTGTCCCCTATATGTAAAGTTTTGTT
1 GAAGTTAAGAGGGAAAGTTATCCCCTATATGTAAAGTTTTGTT
118199 TGATGCACAT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.30, C:0.08, G:0.24, T:0.37
Consensus pattern (43 bp):
GAAGTTAAGAGGGAAAGTTATCCCCTATATGTAAAGTTTTGTT
Found at i:118373 original size:6 final size:6
Alignment explanation
Indices: 118364--118398 Score: 61
Period size: 6 Copynumber: 5.7 Consensus size: 6
118354 ACATTCACAT
118364 ATTTAC ATTTAC ATTTAC ATTTAC ATTTTAC ATTT
1 ATTTAC ATTTAC ATTTAC ATTTAC A-TTTAC ATTT
118399 TTTCATTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 22 0.79
7 6 0.21
ACGTcount: A:0.31, C:0.14, G:0.00, T:0.54
Consensus pattern (6 bp):
ATTTAC
Found at i:121198 original size:8 final size:8
Alignment explanation
Indices: 121185--121236 Score: 54
Period size: 8 Copynumber: 6.6 Consensus size: 8
121175 TATACTTGAA
121185 AAAAAAAG
1 AAAAAAAG
121193 -AAAAAAG
1 AAAAAAAG
*
121200 AAAAAAGG
1 AAAAAAAG
121208 AAAAAGAA-
1 AAAAA-AAG
*
121216 AAAAAAGG
1 AAAAAAAG
*
121224 AAAAAAGG
1 AAAAAAAG
121232 AAAAA
1 AAAAA
121237 CTTGAATCAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
7 8 0.21
8 29 0.76
9 1 0.03
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:121211 original size:24 final size:24
Alignment explanation
Indices: 121182--121236 Score: 83
Period size: 24 Copynumber: 2.2 Consensus size: 24
121172 AATTATACTT
*
121182 GAAAAAAAAAGAAAAAAGAAAAAAG
1 GAAAAAGAAA-AAAAAAGAAAAAAG
*
121207 GAAAAAGAAAAAAAAGGAAAAAAG
1 GAAAAAGAAAAAAAAAGAAAAAAG
121231 GAAAAA
1 GAAAAA
121237 CTTGAATCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
24 19 0.68
25 9 0.32
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (24 bp):
GAAAAAGAAAAAAAAAGAAAAAAG
Found at i:121236 original size:7 final size:7
Alignment explanation
Indices: 121186--121219 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
121176 ATACTTGAAA
121186 AAAAAAG
1 AAAAAAG
121193 AAAAAAG
1 AAAAAAG
121200 AAAAAAG
1 AAAAAAG
*
121207 GAAAAAG
1 AAAAAAG
121214 AAAAAA
1 AAAAAA
121220 AAGGAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:122913 original size:59 final size:59
Alignment explanation
Indices: 122839--122951 Score: 174
Period size: 59 Copynumber: 1.9 Consensus size: 59
122829 GAAAAGTTTT
** *
122839 CTATCGAACCCTCCTAGTCACAATGAAAAT-GCAATTTCGATAATATGGCTCTAAGTATC
1 CTATCGAACCCTCCTAGTCACAATG-AAATGGCAAACTCAATAATATGGCTCTAAGTATC
*
122898 CTATCGAACCCTCCTAGTCACAATGAAATGGTAAACTCAATAATATGGCTCTAA
1 CTATCGAACCCTCCTAGTCACAATGAAATGGCAAACTCAATAATATGGCTCTAA
122952 CCAACCCTCC
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
58 4 0.08
59 45 0.92
ACGTcount: A:0.35, C:0.24, G:0.13, T:0.27
Consensus pattern (59 bp):
CTATCGAACCCTCCTAGTCACAATGAAATGGCAAACTCAATAATATGGCTCTAAGTATC
Found at i:127340 original size:59 final size:59
Alignment explanation
Indices: 127248--127427 Score: 281
Period size: 59 Copynumber: 3.1 Consensus size: 59
127238 AATAGATAGA
* * **
127248 TAAGTGT-TCTATCAAACCCTCTTAGTCACAATGAAAAGGCAAACTCGATAATATGGCTC
1 TAAGTGTCT-TATCGAACCCTCCTAGTTGCAATGAAAAGGCAAACTCGATAATATGGCTC
127307 TAAGTGTCTTATCGAACCCTCCTAGTTGCAATGAAAAGGCAAACTCGATAATATGGCTC
1 TAAGTGTCTTATCGAACCCTCCTAGTTGCAATGAAAAGGCAAACTCGATAATATGGCTC
* **
127366 TAAGTGTCCTATCGAACCCTCCTAGTTGCAATGAAAAATCAAACTCGATAATATGGCTC
1 TAAGTGTCTTATCGAACCCTCCTAGTTGCAATGAAAAGGCAAACTCGATAATATGGCTC
127425 TAA
1 TAA
127428 CCAACCCTAC
Statistics
Matches: 113, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
59 112 0.99
60 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.27
Consensus pattern (59 bp):
TAAGTGTCTTATCGAACCCTCCTAGTTGCAATGAAAAGGCAAACTCGATAATATGGCTC
Found at i:137159 original size:247 final size:244
Alignment explanation
Indices: 136686--137178 Score: 909
Period size: 247 Copynumber: 2.0 Consensus size: 244
136676 ATTTAAAGTC
136686 AATGGGCAACGTTTAAAGCATTATTTCAGAAACAAAGTCTGAAAGTCACTGCAAACATTAAGCGA
1 AATGGGCAACGTTTAAAGCATTATTTCAGAAACAAAGTCTGAAAGTCACTGCAAACATTAAGCGA
136751 CCCCTCTTCTTTTTAATAAGTCAATTCTTTTGACATTATTTTAAGCACTTATTTTCTTTATTTAT
66 CCCCTCTTCTTTTTAATAAGTCAATTCTTTTGACATTATTTTAAGCACTTATTTTCTTTATTTAT
*
136816 TTTTGTACAGTTTTTCGTTTGATCAATCTTAGTCATTGGTTTTATACTACACAACTCTTCACGTT
131 TTTTGTACAGGTTTTCGTTTGATCAATCTTAGTCATTGGTTTTATACTACACAACTCTTCACGTT
136881 ATAGTATACATTCATCGCTGTATGGAGCCATAACAATACAAGGATACCA
196 ATAGTATACATTCATCGCTGTATGGAGCCATAACAATACAAGGATACCA
136930 AATGGGCAACGTTTAAAGCATTATTTCCAGAAACAAAGTCTGAAAGTCACTGCAATTACATTAAG
1 AATGGGCAACGTTTAAAGCATTATTT-CAGAAACAAAGTCTGAAAGTCACTGCAA--ACATTAAG
136995 CGA-CCCTCTTCTTTTTAATAAGTCAATTCTTTTGACATTTATTTTTAAGCACTTATTTTCTTTA
63 CGACCCCTCTTCTTTTTAATAAGTCAATTCTTTTGACA-TTA-TTTTAAGCACTTATTTTCTTTA
*
137059 TTTATTTTTGTACAGGTTTTCGTTTGATCACTCTTAGTCATTGGTTTTATA-TACACAACTCTTC
126 TTTATTTTTGTACAGGTTTTCGTTTGATCAATCTTAGTCATTGGTTTTATACTACACAACTCTTC
137123 ACGTTATAGTATACATTCATCGCTGTATGGAGCCATAACAATACAAGGATACCA
191 ACGTTATAGTATACATTCATCGCTGTATGGAGCCATAACAATACAAGGATACCA
137177 AA
1 AA
137179 ATATTTTTAA
Statistics
Matches: 242, Mismatches: 2, Indels: 7
0.96 0.01 0.03
Matches are distributed among these distances:
244 26 0.11
245 28 0.12
246 34 0.14
247 83 0.34
248 71 0.29
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (244 bp):
AATGGGCAACGTTTAAAGCATTATTTCAGAAACAAAGTCTGAAAGTCACTGCAAACATTAAGCGA
CCCCTCTTCTTTTTAATAAGTCAATTCTTTTGACATTATTTTAAGCACTTATTTTCTTTATTTAT
TTTTGTACAGGTTTTCGTTTGATCAATCTTAGTCATTGGTTTTATACTACACAACTCTTCACGTT
ATAGTATACATTCATCGCTGTATGGAGCCATAACAATACAAGGATACCA
Found at i:141872 original size:13 final size:12
Alignment explanation
Indices: 141833--141873 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
141823 CCCTTTCTCA
141833 TGTTTTAGTTTAT
1 TGTTTTAGTTT-T
*
141846 TGTGTTAGTTTT
1 TGTTTTAGTTTT
141858 TGTTTTAGTTGTT
1 TGTTTTAGTT-TT
141871 TGT
1 TGT
141874 GCTTTAATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 10 0.40
13 15 0.60
ACGTcount: A:0.10, C:0.00, G:0.22, T:0.68
Consensus pattern (12 bp):
TGTTTTAGTTTT
Found at i:153230 original size:15 final size:15
Alignment explanation
Indices: 153210--153241 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
153200 GTTTAATGGA
153210 AGACGAGGATGATAG
1 AGACGAGGATGATAG
153225 AGACGAGGATGATAG
1 AGACGAGGATGATAG
153240 AG
1 AG
153242 GCTGATAGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.06, G:0.41, T:0.12
Consensus pattern (15 bp):
AGACGAGGATGATAG
Found at i:154526 original size:3 final size:3
Alignment explanation
Indices: 154520--154552 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
154510 AATAATAATA
154520 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
154553 TATACCATTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:155136 original size:33 final size:31
Alignment explanation
Indices: 155025--155145 Score: 100
Period size: 31 Copynumber: 3.8 Consensus size: 31
155015 TATAGGATTA
* *
155025 TATCACAAATAAGTACTTAAAGTATATCTTCTT
1 TATCA-AAATAAGTACCTAAAGTATTTCTT-TT
** ** * *
155058 T-TTTATTTAAGTACTTAAAGTATTTTTTTT
1 TATCAAAATAAGTACCTAAAGTATTTCTTTT
*
155088 TATGAAAATAAGTACCTAAAGTTATTTCTTTT
1 TATCAAAATAAGTACCTAAAG-TATTTCTTTT
* *
155120 TGTCAAAATAATGTACCTAAACTATT
1 TATCAAAATAA-GTACCTAAAGTATT
155146 AAAACTTTTT
Statistics
Matches: 70, Mismatches: 15, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
30 3 0.04
31 34 0.49
32 23 0.33
33 10 0.14
ACGTcount: A:0.36, C:0.11, G:0.07, T:0.45
Consensus pattern (31 bp):
TATCAAAATAAGTACCTAAAGTATTTCTTTT
Found at i:155284 original size:28 final size:28
Alignment explanation
Indices: 155227--155330 Score: 66
Period size: 28 Copynumber: 3.5 Consensus size: 28
155217 TGAAAAATTG
* * * *
155227 AATACTTTGGGTACTTTTTTTATCAGAA
1 AATACTTTAGGTACTATTTTGAACAGAA
*
155255 AATACTTTAGGTACCTATTTTGAACAAAAAA
1 AATACTTTAGGTA-CTATTTTGAAC--AGAA
* * *
155286 AGATAACTTTAGATAGTATTTTG-ACTAAAA
1 A-AT-ACTTTAGGTACTATTTTGAAC-AGAA
*
155316 AATATTTTAGGTACT
1 AATACTTTAGGTACT
155331 TAAATGAAAA
Statistics
Matches: 60, Mismatches: 11, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
28 21 0.35
29 10 0.17
30 5 0.08
31 6 0.10
32 9 0.15
33 9 0.15
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.39
Consensus pattern (28 bp):
AATACTTTAGGTACTATTTTGAACAGAA
Found at i:157422 original size:44 final size:44
Alignment explanation
Indices: 157374--157620 Score: 368
Period size: 44 Copynumber: 5.6 Consensus size: 44
157364 TATATTCTTT
157374 GCTATGTGATATGATCTATGTGAATATATGAAACTGTGATATAA
1 GCTATGTGATATGATCTATGTGAATATATGAAACTGTGATATAA
157418 GCTATGTGATATGATCTATGTGAATATATGAAACTGTGATATAA
1 GCTATGTGATATGATCTATGTGAATATATGAAACTGTGATATAA
* * *
157462 GTTATGTGATATGATCTATGTGATTATGTGAAACTGTGATATAA
1 GCTATGTGATATGATCTATGTGAATATATGAAACTGTGATATAA
* * *
157506 GCTATGTGATATGATCTATGTGATTATGTGAAATTGTGATATAA
1 GCTATGTGATATGATCTATGTGAATATATGAAACTGTGATATAA
* * *
157550 GCTATGTGATATAATCTATGTGAATATTTGAAAATGTGATATAA
1 GCTATGTGATATGATCTATGTGAATATATGAAACTGTGATATAA
* * * *
157594 GCAATATGACAATGAGCTATGTGAATA
1 GCTATGTGA-TATGATCTATGTGAATA
157621 CATGTCTATG
Statistics
Matches: 188, Mismatches: 14, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
44 174 0.93
45 14 0.07
ACGTcount: A:0.36, C:0.06, G:0.21, T:0.37
Consensus pattern (44 bp):
GCTATGTGATATGATCTATGTGAATATATGAAACTGTGATATAA
Found at i:157555 original size:22 final size:21
Alignment explanation
Indices: 157486--157558 Score: 58
Period size: 22 Copynumber: 3.3 Consensus size: 21
157476 TCTATGTGAT
157486 TATGTGAAACTGTGATATAAGC
1 TATGTGAAA-TGTGATATAAGC
* * ** *
157508 TATGTGATATGAT-CTATGTGAT
1 TATGTGAAATG-TGATATAAG-C
157530 TATGTGAAATTGTGATATAAGC
1 TATGTGAAA-TGTGATATAAGC
157552 TATGTGA
1 TATGTGA
157559 TATAATCTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 8
0.67 0.18 0.15
Matches are distributed among these distances:
21 6 0.16
22 25 0.68
23 6 0.16
ACGTcount: A:0.33, C:0.05, G:0.23, T:0.38
Consensus pattern (21 bp):
TATGTGAAATGTGATATAAGC
Found at i:157748 original size:23 final size:23
Alignment explanation
Indices: 157722--157819 Score: 79
Period size: 23 Copynumber: 4.3 Consensus size: 23
157712 GAGTCAATGG
*
157722 TTCTATGCGGTCCATCAGGACAA
1 TTCTATGCGGTCCTTCAGGACAA
**** * *
157745 TTCTACATAGTCCTTCGGGACAT
1 TTCTATGCGGTCCTTCAGGACAA
* **
157768 TTCTACGCGGTCCTTTGGGACAA
1 TTCTATGCGGTCCTTCAGGACAA
* * *
157791 TACTATGTGGTCCTTCAGGACAT
1 TTCTATGCGGTCCTTCAGGACAA
157814 TTCTAT
1 TTCTAT
157820 ATGGCACTTT
Statistics
Matches: 56, Mismatches: 19, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
23 56 1.00
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.34
Consensus pattern (23 bp):
TTCTATGCGGTCCTTCAGGACAA
Found at i:158073 original size:18 final size:18
Alignment explanation
Indices: 158050--158087 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
158040 TTTAAGTACA
*
158050 AGATTATATT-TTTTTAAT
1 AGATTA-ATTATTTTGAAT
158068 AGATTAATTATTTTGAAT
1 AGATTAATTATTTTGAAT
158086 AG
1 AG
158088 TGATAATGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.53
Consensus pattern (18 bp):
AGATTAATTATTTTGAAT
Found at i:159871 original size:64 final size:63
Alignment explanation
Indices: 159758--159907 Score: 144
Period size: 64 Copynumber: 2.4 Consensus size: 63
159748 AAGGTCCTCC
* * **
159758 ATACTCACCCTGAATATCGATACCGAAAATAACTTCGATGTCTTAAAAAATG-CATTGGTATCG
1 ATACTCACCCTGAGTATCGATACCGAAAATAACTTCAATGTCTTAAAAAATGTC-TCAGTATCG
* ** * *
159821 ATACTCTACCCTGAGTATCGATACC-AAATTTGGCTTCAATGTTTTCAAAAATGTCTCAGTATCG
1 ATACTC-ACCCTGAGTATCGATACCGAAA-ATAACTTCAATGTCTTAAAAAATGTCTCAGTATCG
* *
159885 ATATTGGACCC-GAGTATCGATAC
1 ATACT-CACCCTGAGTATCGATAC
159908 TCCTTGAAGG
Statistics
Matches: 72, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
63 21 0.29
64 50 0.69
65 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (63 bp):
ATACTCACCCTGAGTATCGATACCGAAAATAACTTCAATGTCTTAAAAAATGTCTCAGTATCG
Found at i:161428 original size:186 final size:186
Alignment explanation
Indices: 161074--161461 Score: 645
Period size: 186 Copynumber: 2.1 Consensus size: 186
161064 TATATAAAAA
* * * *
161074 TTAAATATTTTATAATT-A-AAAAAAACGTTTATACTTAATTTAAATAATACATAATTATAAAAT
1 TTAAA-ATTTTAAAATTCAGAAAAATA-GTTTACAATTAATTTAAATAATACATAATTATAAAAT
*
161137 AAAAATTTTATATAAATTTTTTAATTAATTAATATTGATTTATGTTTAAAAGTTATTGGATCTTA
64 AAAAATTTTATATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATCTTA
*
161202 AATTATTAATTGGGTTTTAAATGGTTTGGGCTAAGCCCATATGTTATATATAATATAT
129 AATTATTAATTGGGTTTTAAATGGTTTGGGATAAGCCCATATGTTATATATAATATAT
* * *
161260 TTAATATTTTTAAATTCAGAAAAATAGTTTACAATTAATTTAAATAATATATAATTATAAAATAA
1 TTAAAATTTTAAAATTCAGAAAAATAGTTTACAATTAATTTAAATAATACATAATTATAAAATAA
161325 AAATTTTATATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATCTTAAA
66 AAATTTTATATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATCTTAAA
**
161390 TTATTAATTGGGTTTTAAATGGTTTGGGATGTGCCCATATGTTATATATAATATAT
131 TTATTAATTGGGTTTTAAATGGTTTGGGATAAGCCCATATGTTATATATAATATAT
161446 TTAAAATTTTAAAATT
1 TTAAAATTTTAAAATT
161462 TATTTCGGTT
Statistics
Matches: 187, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
185 9 0.05
186 172 0.92
187 6 0.03
ACGTcount: A:0.42, C:0.04, G:0.09, T:0.46
Consensus pattern (186 bp):
TTAAAATTTTAAAATTCAGAAAAATAGTTTACAATTAATTTAAATAATACATAATTATAAAATAA
AAATTTTATATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATCTTAAA
TTATTAATTGGGTTTTAAATGGTTTGGGATAAGCCCATATGTTATATATAATATAT
Found at i:166032 original size:37 final size:36
Alignment explanation
Indices: 165991--166073 Score: 87
Period size: 37 Copynumber: 2.2 Consensus size: 36
165981 ACTTGAATCT
*
165991 GACCCGACCCGAACATCACCTTT-AAAAAACCTGACCC
1 GACCCGACCCGAA-ATCA-CTTTAAAAAAAACTGACCC
* * * *
166028 GACCCAAACCCGAAATTATTTTAAAAAAAACTGACCT
1 GACCC-GACCCGAAATCACTTTAAAAAAAACTGACCC
166065 GACCCGACC
1 GACCCGACC
166074 ATACGTAAAC
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
36 6 0.16
37 25 0.66
38 7 0.18
ACGTcount: A:0.39, C:0.35, G:0.11, T:0.16
Consensus pattern (36 bp):
GACCCGACCCGAAATCACTTTAAAAAAAACTGACCC
Found at i:167572 original size:18 final size:19
Alignment explanation
Indices: 167526--167575 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 19
167516 CTCCAATAGG
167526 GAGTATCGATACTCTACCCT
1 GAGTATCGATACTC-ACCCT
*
167546 G-GCTATCGATACTC-CCGT
1 GAG-TATCGATACTCACCCT
167564 GAGTATCGATAC
1 GAGTATCGATAC
167576 CAAATTTGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 13 0.48
19 2 0.07
20 12 0.44
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (19 bp):
GAGTATCGATACTCACCCT
Found at i:172403 original size:18 final size:19
Alignment explanation
Indices: 172380--172446 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 19
172370 GTACTAATTT
172380 TATTATAAT-TAT-TTATA
1 TATTATAATATATCTTATA
*
172397 GTATTATATATATATCTTTTA
1 -TATTATA-ATATATCTTATA
172418 TATTATAATATTAT-TTAATA
1 TATTATAATA-TATCTT-ATA
172438 TATTA-AATA
1 TATTATAATA
172447 CAATCTAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
18 7 0.17
19 11 0.26
20 20 0.48
21 4 0.10
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (19 bp):
TATTATAATATATCTTATA
Found at i:172905 original size:145 final size:147
Alignment explanation
Indices: 172751--173027 Score: 398
Period size: 145 Copynumber: 1.9 Consensus size: 147
172741 AATTGAAGGA
* *
172751 ATAAGGAGATTATG-AAAATTTGAAGGATTAAATAAAAAAATAAAAAAAATTATTATCAAAAAGA
1 ATAAGGAGATTATGAAAAAATTGAAGGACTAAATAAAAAAAT-AAAAAAATTATTATCAAAAAGA
* * * *
172815 AGAATTGAAAGTACACATGTATTCTATTATGGTTTAGGAACATGTGGCTCAAATTT-GT-AAATA
65 AGAATTGAAAGCACACATGTATTCTACTATGCTTTAGGAACATGTAGCTCAAATTTGGTAAAATA
172878 AATGACGAATTGAAAAAC
130 AATGACGAATTGAAAAAC
** * *
172896 ATAAGGAGATTATGAAAAAATTGAAGGACTAAATTGAAAAATAAAAAATTTATTATCAAAAAGAG
1 ATAAGGAGATTATGAAAAAATTGAAGGACTAAATAAAAAAATAAAAAAATTATTATCAAAAAGAA
* * * *
172961 GACTTGAAAGCACACATGTATTTTACTATGCTTTAGGAGCATGTAGTTCAAATTTGGTAAAATAA
66 GAATTGAAAGCACACATGTATTCTACTATGCTTTAGGAACATGTAGCTCAAATTTGGTAAAATAA
173026 AT
131 AT
173028 TGACTTAAAA
Statistics
Matches: 115, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
145 82 0.71
146 25 0.22
147 8 0.07
ACGTcount: A:0.48, C:0.07, G:0.16, T:0.29
Consensus pattern (147 bp):
ATAAGGAGATTATGAAAAAATTGAAGGACTAAATAAAAAAATAAAAAAATTATTATCAAAAAGAA
GAATTGAAAGCACACATGTATTCTACTATGCTTTAGGAACATGTAGCTCAAATTTGGTAAAATAA
ATGACGAATTGAAAAAC
Found at i:173675 original size:15 final size:14
Alignment explanation
Indices: 173634--173698 Score: 55
Period size: 15 Copynumber: 4.6 Consensus size: 14
173624 TTATTAATTT
173634 AAATT-AATATATA
1 AAATTAAATATATA
*
173647 AAA-TAATTAT-TA
1 AAATTAAATATATA
173659 ATAATTAAATATATA
1 A-AATTAAATATATA
* *
173674 ATATTATTATATATA
1 AAATTA-AATATATA
173689 AAATATAAAT
1 AAAT-TAAAT
173699 GTAACCGAGT
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
12 4 0.10
13 9 0.22
14 10 0.25
15 15 0.38
16 2 0.05
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
AAATTAAATATATA
Found at i:173689 original size:27 final size:26
Alignment explanation
Indices: 173635--173682 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
173625 TATTAATTTA
173635 AATTAATATATAAAATAATTATTAAT
1 AATTAATATATAAAATAATTATTAAT
*
173661 AATTAA-ATATATAAT-ATTATTA
1 AATTAATATATAAAATAATTATTA
173683 TATATAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
25 8 0.38
26 6 0.29
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (26 bp):
AATTAATATATAAAATAATTATTAAT
Found at i:174776 original size:12 final size:14
Alignment explanation
Indices: 174761--174809 Score: 64
Period size: 14 Copynumber: 3.5 Consensus size: 14
174751 AATCAATTAA
174761 ATAT-TAAATTATAT
1 ATATATAAA-TATAT
*
174775 ATATATATATATAT
1 ATATATAAATATAT
*
174789 ATATATATATATAT
1 ATATATAAATATAT
174803 ATATATA
1 ATATATA
174810 TATTTTTAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
14 30 0.91
15 3 0.09
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
ATATATAAATATAT
Found at i:174777 original size:2 final size:2
Alignment explanation
Indices: 174770--174812 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
174760 AATATTAAAT
174770 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
174812 T
1 T
174813 TTTTAACTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:175229 original size:406 final size:414
Alignment explanation
Indices: 174551--175335 Score: 1162
Period size: 406 Copynumber: 1.9 Consensus size: 414
174541 TCTAATTTAA
*
174551 GAGAAGAATTATTATTTTTAATATATTTATCAATAATAAATTATAAATTTAATTCGATTTTTGAA
1 GAGAAGAATTATTATTTTTAATATATTAATCAATAATAAATTATAAATTTAATTCGATTTTTGAA
*
174616 TATTTTTATATTATATTCTAAAAATAAATTTATTAATCTAATTATCATAATTAATCATATTTTAA
66 TATTTTTATATTATATTATAAAAATAAATTTATTAATCTAATTATCATAATTAATCATATTTTAA
* * * *
174681 ATGATCAAAAATTATTTTTTTAGTTATCATATTGTAATATCAGTTGTCAATTAAAAGTTTATAAC
131 ATGATCAAAAATCATTTTATTAGTTATCATATTGTAATATCAGGTGTCAATTAAAAGATTATAAC
*
174746 TTACCAATCAATTAAATATTAAATTATATATATATATATATATATATATATATATATATATATAT
196 TTACCAATC------------AA-TATATATATATATATATATATATAGATATATATATATATAT
*
174811 ATTTTTAACTTAAATTATTAATCAATTATTATATCATAATAATGATTTAAACTTACTAATATTTA
248 AGTTTTAACTTAAATTATTAATCAATTATTATATCATAATAATGATTTAAACTTACTAATATTTA
*
174876 AAATCATTTTATATAATCTAATTTCTAATATAATAAAATTAATAATCAATAAATTACATATTTAT
313 AAATCATTTTATATAATCTAATTTCTAATATAATAAAATTAATAACCAATAAATTACATATTTAT
174941 TATTCTAATGATTATAATTAATTATGTACCTTAAAAG
378 TATTCTAATGATTATAATTAATTATGTACCTTAAAAG
* *
174978 GAGAAGAATTGTTATTTTTAATATATTAATCAATCATAAATTATAAATTTAATTCGATTTTTGAA
1 GAGAAGAATTATTATTTTTAATATATTAATCAATAATAAATTATAAATTTAATTCGATTTTTGAA
175043 TATTTTTATATATAATATTAT-AAAATAAATTTATTAATCTAATTATCATAATTAATCATGTATT
66 TATTTTTATAT-T-ATATTATAAAAATAAATTTATTAATCTAATTATCATAATTAATCA--TATT
** * *
175107 TTAAATGATTTAAAATCATTTTATTAGTTATCATATTGTAATATCAGGTGTTAATTAACAGATTA
127 TTAAATGATCAAAAATCATTTTATTAGTTATCATATTGTAATATCAGGTGTCAATTAAAAGATTA
* *
175172 TAACTTACGAATC-A-A-GTA-A-ATAT-TA-A-AT-T-GA-ATATATATATATATAGTTTTAAC
192 TAACTTACCAATCAATATATATATATATATATATATATAGATATATATATATATATAGTTTTAAC
* *
175226 TTAAATTATTAATCAGTTATTATATCATAATAATGATTTAAACTTACTGATATTTAAAATCATTT
257 TTAAATTATTAATCAATTATTATATCATAATAATGATTTAAACTTACTAATATTTAAAATCATTT
175291 TATATAATCTAATTTCTAATATAATAAAATTAATAACCAATAAAT
322 TATATAATCTAATTTCTAATATAATAAAATTAATAACCAATAAAT
175336 GAATCATTTA
Statistics
Matches: 335, Mismatches: 19, Indels: 29
0.87 0.05 0.08
Matches are distributed among these distances:
406 129 0.39
407 1 0.00
408 1 0.00
409 2 0.01
410 1 0.00
411 2 0.01
412 4 0.01
413 1 0.00
414 2 0.01
415 1 0.00
417 1 0.00
427 73 0.22
428 38 0.11
429 6 0.02
430 73 0.22
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.45
Consensus pattern (414 bp):
GAGAAGAATTATTATTTTTAATATATTAATCAATAATAAATTATAAATTTAATTCGATTTTTGAA
TATTTTTATATTATATTATAAAAATAAATTTATTAATCTAATTATCATAATTAATCATATTTTAA
ATGATCAAAAATCATTTTATTAGTTATCATATTGTAATATCAGGTGTCAATTAAAAGATTATAAC
TTACCAATCAATATATATATATATATATATATATAGATATATATATATATATAGTTTTAACTTAA
ATTATTAATCAATTATTATATCATAATAATGATTTAAACTTACTAATATTTAAAATCATTTTATA
TAATCTAATTTCTAATATAATAAAATTAATAACCAATAAATTACATATTTATTATTCTAATGATT
ATAATTAATTATGTACCTTAAAAG
Found at i:182519 original size:46 final size:46
Alignment explanation
Indices: 182452--182542 Score: 155
Period size: 46 Copynumber: 2.0 Consensus size: 46
182442 AGATGTACAT
*
182452 ACTTACACCGATGTAAGTATGTGTTATGTGATACATTTTTTTATTC
1 ACTTACACCGATGTAAGTATGTGTTAAGTGATACATTTTTTTATTC
* *
182498 ACTTACATCGATGTAAGTATGTGTTAAGTGCTACATTTTTTTATT
1 ACTTACACCGATGTAAGTATGTGTTAAGTGATACATTTTTTTATT
182543 TTATTCCTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.26, C:0.12, G:0.15, T:0.46
Consensus pattern (46 bp):
ACTTACACCGATGTAAGTATGTGTTAAGTGATACATTTTTTTATTC
Found at i:182721 original size:11 final size:11
Alignment explanation
Indices: 182693--182730 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
182683 ATAGAACCAC
182693 AATAA-AAAAT
1 AATAATAAAAT
182703 AA-AATAAAAT
1 AATAATAAAAT
*
182713 AATATTAAAAT
1 AATAATAAAAT
182724 AATAATA
1 AATAATA
182731 TTTTTACTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
9 2 0.08
10 9 0.38
11 13 0.54
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (11 bp):
AATAATAAAAT
Found at i:187493 original size:54 final size:54
Alignment explanation
Indices: 187374--187497 Score: 162
Period size: 54 Copynumber: 2.3 Consensus size: 54
187364 TATATATTGT
* *
187374 AATTACTGTATGGGCAATGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATG
1 AATTACTGTATTGGCAATGTGTGTGCAACCCAAGAAATTCATAATAAGTTTATG
* * *
187428 AATTTA-TGTATTGGCATTGTGTGTGCAACCCCACGTAATTCATAATAAG-TTATG
1 AA-TTACTGTATTGGCAATGTGTGTGCAA-CCCAAGAAATTCATAATAAGTTTATG
*
187482 AATTACCGTATTGGCA
1 AATTACTGTATTGGCA
187498 CTACGTGTGC
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
53 3 0.05
54 38 0.62
55 20 0.33
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (54 bp):
AATTACTGTATTGGCAATGTGTGTGCAACCCAAGAAATTCATAATAAGTTTATG
Found at i:187679 original size:82 final size:82
Alignment explanation
Indices: 187584--187974 Score: 534
Period size: 81 Copynumber: 4.8 Consensus size: 82
187574 CTATTTTAAA
* * * *
187584 ATAAAAGACTAAATGCCTAGTTGTGCATTTGACAGAAAGGTGTTAATAATGCCAGTTAAATGAAT
1 ATAAAAGACTAAATGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATAATGCCAGTTAGATGAAA
*
187649 TGTTAAATGCCTTTGGG
66 GGTTAAATGCCTTTGGG
* *
187666 ATAAAAGACTAAATGCCTAGTTGTGCATTTGGCAGAAAGGTGCCAATAATGTCAGTTAGATGAAA
1 ATAAAAGACTAAATGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATAATGCCAGTTAGATGAAA
187731 GGTTAAATGCCTTTGGG
66 GGTTAAATGCCTTTGGG
* *
187748 ATAAAAGACTAAATGACTAGTTGTGCA-TTGGCAGAAAAGTGTCAATAATGCCAGTTAGATGAAA
1 ATAAAAGACTAAATGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATAATGCCAGTTAGATGAAA
* *
187812 GCTTAAATGCTTTTGGG
66 GGTTAAATGCCTTTGGG
* * * * *
187829 ATAAAATACTAAATGCCTAGTTGTTCATTT-GTAGAAAGTTGTCAATAATGACAGTTAGATGAAA
1 ATAAAAGACTAAATGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATAATGCCAGTTAGATGAAA
*
187893 GGTTAATTGCCTTTGGG
66 GGTTAAATGCCTTTGGG
* * * * * *
187910 ATAAAATATTAAATGCCTAGCTGTGCATTTTTGGCAGAAAAGGTGCCATTAATGCAAGTTAGATG
1 ATAAAAGACTAAATGCCTAGTTGTGCA--TTTGGCAG-AAAGGTGTCAATAATGCCAGTTAGATG
187975 CTAACTGTGC
Statistics
Matches: 272, Mismatches: 32, Indels: 7
0.87 0.10 0.02
Matches are distributed among these distances:
81 141 0.52
82 103 0.38
83 3 0.01
84 3 0.01
85 22 0.08
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.31
Consensus pattern (82 bp):
ATAAAAGACTAAATGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATAATGCCAGTTAGATGAAA
GGTTAAATGCCTTTGGG
Found at i:188008 original size:47 final size:49
Alignment explanation
Indices: 187930--188066 Score: 206
Period size: 49 Copynumber: 2.8 Consensus size: 49
187920 AAATGCCTAG
187930 CTGTGCATTTTTGGCAGAAAAGGTGCCATTAATGCAAGTTAGATG-CTAA
1 CTGTGCATTTTTGGCAG-AAAGGTGCCATTAATGCAAGTTAGATGTCTAA
*
187979 CTGTGC-TTTTTGGCAGAAAGGTGTCATTAATGCAAGTTAGATGTCTAA
1 CTGTGCATTTTTGGCAGAAAGGTGCCATTAATGCAAGTTAGATGTCTAA
* * * *
188027 CGGTGCACTTTTGGCAGAAAGGTGCCACTAATGCAGGTTA
1 CTGTGCATTTTTGGCAGAAAGGTGCCATTAATGCAAGTTA
188067 TATGAGGAAC
Statistics
Matches: 80, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
47 26 0.32
48 19 0.24
49 35 0.44
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (49 bp):
CTGTGCATTTTTGGCAGAAAGGTGCCATTAATGCAAGTTAGATGTCTAA
Found at i:188082 original size:49 final size:48
Alignment explanation
Indices: 187932--188098 Score: 192
Period size: 49 Copynumber: 3.4 Consensus size: 48
187922 ATGCCTAGCT
*
187932 GTGCATTTTTGGCAGAAAAGGTGCCATTAATGCAAGTTAGATGCTAACT
1 GTGCATTTTTGGCAG-AAAGGTGCCATTAATGCAAGTTAGATGCTAACA
* *
187981 GTGC-TTTTTGGCAGAAAGGTGTCATTAATGCAAGTTAGATGTCTAACG
1 GTGCATTTTTGGCAGAAAGGTGCCATTAATGCAAGTTAGATG-CTAACA
* * * * **
188029 GTGCACTTTTGGCAGAAAGGTGCCACTAATGCAGGTTATATGAGGAACA
1 GTGCATTTTTGGCAGAAAGGTGCCATTAATGCAAGTTAGATG-CTAACA
**
188078 GTGCATAGTTGGCACGAAAGG
1 GTGCATTTTTGGCA-GAAAGG
188099 ATTCCATAAA
Statistics
Matches: 101, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
47 26 0.26
48 19 0.19
49 50 0.50
50 6 0.06
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.28
Consensus pattern (48 bp):
GTGCATTTTTGGCAGAAAGGTGCCATTAATGCAAGTTAGATGCTAACA
Found at i:188130 original size:46 final size:46
Alignment explanation
Indices: 188074--188161 Score: 131
Period size: 46 Copynumber: 1.9 Consensus size: 46
188064 TTATATGAGG
* * *
188074 AACAGTGCATAGTTGGCACGAAAGGATTCCATAAATGAAAATGTAT
1 AACAGTGCATAATTGGCACGAAAGGATGCCACAAATGAAAATGTAT
* *
188120 AACAGTGCATAATTGGCATGAATGGATGCCACAAATGAAAAT
1 AACAGTGCATAATTGGCACGAAAGGATGCCACAAATGAAAAT
188162 ACATAACGGT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.42, C:0.14, G:0.22, T:0.23
Consensus pattern (46 bp):
AACAGTGCATAATTGGCACGAAAGGATGCCACAAATGAAAATGTAT
Found at i:204876 original size:9 final size:9
Alignment explanation
Indices: 204862--204895 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
204852 GGGAGAAGTG
204862 TTAAATGTT
1 TTAAATGTT
*
204871 TTAAATGTG
1 TTAAATGTT
204880 TTAAATGTT
1 TTAAATGTT
204889 TTAAATG
1 TTAAATG
204896 GGAGAAGTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (9 bp):
TTAAATGTT
Found at i:204882 original size:18 final size:18
Alignment explanation
Indices: 204859--204895 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
204849 AGGGGGAGAA
204859 GTGTTAAATGTTTTAAAT
1 GTGTTAAATGTTTTAAAT
204877 GTGTTAAATGTTTTAAAT
1 GTGTTAAATGTTTTAAAT
204895 G
1 G
204896 GGAGAAGTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.49
Consensus pattern (18 bp):
GTGTTAAATGTTTTAAAT
Done.