Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 276 of 378
Found at i:83112064 original size:27 final size:26
Alignment explanation
Indices: 83112004--83112065 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
83111994 ATAAGACTCC
83112004 ATTTTATTAGGATAATTAATATTAAG
1 ATTTTATTAGGATAATTAATATTAAG
* * * *
83112030 ATAATTATTAGGATTATTTAATTTTAGG
1 AT-TTTATTAGGA-TAATTAATATTAAG
83112058 ATTTTATT
1 ATTTTATT
83112066 TTAATTATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 2 0.07
27 14 0.48
28 13 0.45
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:83113947 original size:17 final size:17
Alignment explanation
Indices: 83113925--83113972 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
83113915 GATAAGTATA
83113925 CATTGTCATTGCATTTT
1 CATTGTCATTGCATTTT
* *
83113942 CATTGTCATTCCATATT
1 CATTGTCATTGCATTTT
*
83113959 CA-TGTCAGTGCATT
1 CATTGTCATTGCATT
83113973 GGGGATAATG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
16 9 0.35
17 17 0.65
ACGTcount: A:0.21, C:0.21, G:0.12, T:0.46
Consensus pattern (17 bp):
CATTGTCATTGCATTTT
Found at i:83114490 original size:1 final size:1
Alignment explanation
Indices: 83114484--83114523 Score: 80
Period size: 1 Copynumber: 40.0 Consensus size: 1
83114474 CTTATTCCGT
83114484 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
83114524 CCTCATCCAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:83117967 original size:6 final size:6
Alignment explanation
Indices: 83117941--83117987 Score: 58
Period size: 6 Copynumber: 7.7 Consensus size: 6
83117931 ACAGTACCTA
* * *
83117941 AACAGT AATCAGA AACAGT AGCAGT AGCAGT AACAGT AACAGT AACA
1 AACAGT AA-CAGT AACAGT AACAGT AACAGT AACAGT AACAGT AACA
83117988 ATATTCGACA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
6 31 0.86
7 5 0.14
ACGTcount: A:0.49, C:0.17, G:0.19, T:0.15
Consensus pattern (6 bp):
AACAGT
Found at i:83119197 original size:17 final size:17
Alignment explanation
Indices: 83119166--83119199 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
83119156 ATTCCCTAAT
83119166 ATAAAATCAATTAAATA
1 ATAAAATCAATTAAATA
83119183 ATAATAATCAA-TAAATA
1 ATAA-AATCAATTAAATA
83119200 TCTTTTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (17 bp):
ATAAAATCAATTAAATA
Found at i:83119331 original size:2 final size:2
Alignment explanation
Indices: 83119319--83119358 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
83119309 ACATAACATA
*
83119319 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
83119359 AATAATTAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:83125587 original size:18 final size:19
Alignment explanation
Indices: 83125558--83125595 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
83125548 ACAAAAAAGC
83125558 ATTTTGGGTATCAATATTG
1 ATTTTGGGTATCAATATTG
*
83125577 ATTTT-GGTATCAATCTTG
1 ATTTTGGGTATCAATATTG
83125595 A
1 A
83125596 AGGCCAAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.26, C:0.08, G:0.18, T:0.47
Consensus pattern (19 bp):
ATTTTGGGTATCAATATTG
Found at i:83127314 original size:10 final size:10
Alignment explanation
Indices: 83127274--83127319 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
83127264 AAAAAGGAAT
83127274 GAGCTGAAAC
1 GAGCTGAAAC
*
83127284 GAGCTAAAATC
1 GAGCTGAAA-C
* *
83127295 AAGCTCAAAC
1 GAGCTGAAAC
83127305 GAGCTGAAAC
1 GAGCTGAAAC
83127315 GAGCT
1 GAGCT
83127320 CAAGTGAACT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
10 22 0.73
11 8 0.27
ACGTcount: A:0.41, C:0.22, G:0.24, T:0.13
Consensus pattern (10 bp):
GAGCTGAAAC
Found at i:83128136 original size:20 final size:19
Alignment explanation
Indices: 83128111--83128162 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
83128101 ACAAATAATT
83128111 ATTATATTTTAATAAATATA
1 ATTATA-TTTAATAAATATA
*
83128131 ATTATA-TTAATTAATATA
1 ATTATATTTAATAAATATA
*
83128149 TTTATAATTTAATA
1 ATTAT-ATTTAATA
83128163 TATTTGGCTC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 15 0.56
19 1 0.04
20 11 0.41
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
ATTATATTTAATAAATATA
Found at i:83129262 original size:19 final size:18
Alignment explanation
Indices: 83129238--83129274 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
83129228 TAGTTATAAC
*
83129238 TAATTAATTAGTTTAATTT
1 TAATTAATT-GTTAAATTT
83129257 TAATTAATTGTTAAATTT
1 TAATTAATTGTTAAATTT
83129275 ATTTATTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (18 bp):
TAATTAATTGTTAAATTT
Found at i:83131685 original size:137 final size:137
Alignment explanation
Indices: 83131439--83131726 Score: 531
Period size: 137 Copynumber: 2.1 Consensus size: 137
83131429 CAAGTCAGCT
**
83131439 CAAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTAGGCCT
1 CAAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTAGGCCT
83131504 TAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAA
66 TAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAA
83131569 ACATATG
131 ACATATG
* *
83131576 CAAGCTCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCT
1 CAAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTAGGCCT
*
83131641 TAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCGGTAA
66 TAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAA
83131706 ACATATG
131 ACATATG
83131713 CAAGCCCATTTGGG
1 CAAGCCCATTTGGG
83131727 GAGACTACTC
Statistics
Matches: 145, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
137 145 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (137 bp):
CAAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTAGGCCT
TAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAA
ACATATG
Found at i:83132011 original size:25 final size:27
Alignment explanation
Indices: 83131974--83132026 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
83131964 TCAAACATGC
83131974 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
83132000 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
83132026 A
1 A
83132027 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:83133548 original size:26 final size:26
Alignment explanation
Indices: 83133510--83133567 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
83133500 CATGAAATTC
83133510 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
83133536 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
83133562 TTATCA
1 TTATCA
83133568 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:83134740 original size:43 final size:44
Alignment explanation
Indices: 83134623--83134741 Score: 120
Period size: 43 Copynumber: 2.8 Consensus size: 44
83134613 TCATACAATG
* * * * *
83134623 CCGACGTCCCAGACGTGGTCTTACATAT-AACCAAATATCGATG
1 CCGATGTCCCAGACATGGTCTTACACATAAATCAAATATCGATA
* * * *
83134666 TC-ACTGTCCTAGACAGGGTCTTACAC-GAAATCAAATA-CGATA
1 CCGA-TGTCCCAGACATGGTCTTACACATAAATCAAATATCGATA
83134708 CCGATGTCCCAGACATGGTCTTACACATAAATCA
1 CCGATGTCCCAGACATGGTCTTACACATAAATCA
83134742 TAAGTCGATG
Statistics
Matches: 59, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
42 26 0.44
43 33 0.56
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.24
Consensus pattern (44 bp):
CCGATGTCCCAGACATGGTCTTACACATAAATCAAATATCGATA
Found at i:83136324 original size:2 final size:2
Alignment explanation
Indices: 83136317--83136366 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
83136307 TCACTTTAAA
83136317 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
83136359 AT AT AT AT
1 AT AT AT AT
83136367 GCTTCATTCA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:83138241 original size:21 final size:21
Alignment explanation
Indices: 83138217--83138258 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
83138207 CTTGGTCACT
83138217 TAATT-TTAAAATATTGTAAAA
1 TAATTATTAAAATATT-TAAAA
*
83138238 TAATTATTAAATTATTTAAAA
1 TAATTATTAAAATATTTAAAA
83138259 GTTTTCATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (21 bp):
TAATTATTAAAATATTTAAAA
Found at i:83138620 original size:31 final size:31
Alignment explanation
Indices: 83138582--83138640 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
83138572 TAACAGCCAA
83138582 TGACTTAAATAAAAACTTTTAAATAGTTCAG
1 TGACTTAAATAAAAACTTTTAAATAGTTCAG
* *
83138613 TGACTTAAATGAAAACTTTTGAATAGTT
1 TGACTTAAATAAAAACTTTTAAATAGTT
83138641 TAATGACAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.37
Consensus pattern (31 bp):
TGACTTAAATAAAAACTTTTAAATAGTTCAG
Found at i:83141708 original size:33 final size:33
Alignment explanation
Indices: 83141666--83141732 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
83141656 ATCAAAATGA
83141666 TATGCCAGTACGATTAAACACTAAAATATTATG
1 TATGCCAGTACGATTAAACACTAAAATATTATG
83141699 TATGCCAGTACGATTAAACACTAAAATATTATG
1 TATGCCAGTACGATTAAACACTAAAATATTATG
83141732 T
1 T
83141733 CGGTGGGAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.31
Consensus pattern (33 bp):
TATGCCAGTACGATTAAACACTAAAATATTATG
Found at i:83143385 original size:93 final size:93
Alignment explanation
Indices: 83143273--83143444 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
83143263 GCCCATAAGT
* *
83143273 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
83143338 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
83143366 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
83143431 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
83143445 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:83143440 original size:46 final size:46
Alignment explanation
Indices: 83143265--83143440 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
83143255 TGTAACCCGC
* * *
83143265 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
83143311 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
83143361 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
83143404 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
83143441 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:83145870 original size:30 final size:30
Alignment explanation
Indices: 83145826--83145914 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
83145816 CAAAGATAAC
83145826 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
83145855 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
83145885 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
83145915 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:83145874 original size:15 final size:15
Alignment explanation
Indices: 83145826--83145905 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
83145816 CAAAGATAAC
*
83145826 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
83145840 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
83145855 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
83145870 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
83145885 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
83145900 AAGAAA
1 AAGAAA
83145906 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:83145914 original size:15 final size:15
Alignment explanation
Indices: 83145837--83145914 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
83145827 AGAAAACCGA
83145837 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
83145852 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
83145866 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
83145881 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
83145897 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
83145912 ATA
1 ATA
83145915 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:83148975 original size:93 final size:93
Alignment explanation
Indices: 83148863--83149034 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
83148853 GCCCATAAGT
* *
83148863 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
83148928 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
83148956 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
83149021 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
83149035 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:83149030 original size:46 final size:46
Alignment explanation
Indices: 83148855--83149030 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
83148845 TGTAACCCGC
* * *
83148855 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
83148901 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
83148951 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
83148994 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
83149031 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:83150623 original size:25 final size:26
Alignment explanation
Indices: 83150577--83150625 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
83150567 GTTTTTAATT
*
83150577 TATTCTAAAGTTATTTTGTTAGTTAC
1 TATTATAAAGTTATTTTGTTAGTTAC
83150603 TATTATAAA-TTA-TTTGTTTAGTT
1 TATTATAAAGTTATTTTG-TTAGTT
83150626 TGATGTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 4 0.19
25 9 0.43
26 8 0.38
ACGTcount: A:0.29, C:0.04, G:0.10, T:0.57
Consensus pattern (26 bp):
TATTATAAAGTTATTTTGTTAGTTAC
Found at i:83150691 original size:105 final size:104
Alignment explanation
Indices: 83150568--83150829 Score: 323
Period size: 108 Copynumber: 2.5 Consensus size: 104
83150558 TTTTATGTTG
* * * *
83150568 TTTTTAATTTATTCTAAAGTTATTTTGTTAGTTACTATTATAAATTATTTGTTTAGTTT-GATGT
1 TTTTTAATTTATTTTAAAGTTATTTTGTTAGTAACTATTATAAATTAATTGTTT-GTTTAG-GGT
*
83150632 TTATTGCGATTTGTTAGGTTATGAATGTAAAT-TTTTATTAA
64 TTATTGCGATTTGTTAGGTTATGAATGT-AATCTTTTAATAA
* * **
83150673 TTTTTAATTTATTTTAAAGTTATTTTGTTAGTAAGTTTTGTGATTAGGTTAATTGTTTGTTTAGG
1 TTTTTAATTTATTTTAAAGTTATTTTGTTAGTAA-CTAT-T-A-TAAATTAATTGTTTGTTTAGG
* *
83150738 GTTTATTGTGATTTGTTAGGTTATGAATGTAATCTTTTAATAT
62 GTTTATTGCGATTTGTTAGGTTATGAATGTAATCTTTTAATAA
* *
83150781 TTTTTAATTTATTTGAAAGTTA-TTTGTTAGTAAGTATTATAAATTAATT
1 TTTTTAATTTATTTTAAAGTTATTTTGTTAGTAACTATTATAAATTAATT
83150830 ATTGGTTAGT
Statistics
Matches: 135, Mismatches: 16, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
103 8 0.06
104 1 0.01
105 33 0.24
106 4 0.03
107 15 0.11
108 62 0.46
109 12 0.09
ACGTcount: A:0.27, C:0.02, G:0.15, T:0.56
Consensus pattern (104 bp):
TTTTTAATTTATTTTAAAGTTATTTTGTTAGTAACTATTATAAATTAATTGTTTGTTTAGGGTTT
ATTGCGATTTGTTAGGTTATGAATGTAATCTTTTAATAA
Found at i:83152576 original size:38 final size:38
Alignment explanation
Indices: 83152492--83152568 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
83152482 ACGTATGATA
83152492 GAAGATCATTGAAAACTTGATTCCAAATCCATCTGTAC
1 GAAGATCATTGAAAACTTGATTCCAAATCCATCTGTAC
83152530 GAAGATCATTGAAAACTTGATTCCAAATCCATCTGTAC
1 GAAGATCATTGAAAACTTGATTCCAAATCCATCTGTAC
83152568 G
1 G
83152569 TGCATCATGC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (38 bp):
GAAGATCATTGAAAACTTGATTCCAAATCCATCTGTAC
Found at i:83154446 original size:11 final size:12
Alignment explanation
Indices: 83154419--83154448 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
83154409 CATGAGTAAC
*
83154419 AAAAAACACAGT
1 AAAAAACACAAT
83154431 AAAAAACACAAT
1 AAAAAACACAAT
83154443 AAAAAA
1 AAAAAA
83154449 TCTCATAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.77, C:0.13, G:0.03, T:0.07
Consensus pattern (12 bp):
AAAAAACACAAT
Found at i:83155002 original size:105 final size:103
Alignment explanation
Indices: 83154875--83155250 Score: 378
Period size: 99 Copynumber: 3.6 Consensus size: 103
83154865 CAAAATAACT
* * * * *
83154875 TTAAAATAATTAAAAAATTTACATTCATAAAAAATAACAATAAACACTAAACTCAACACGAAC-A
1 TTAAAA-AAATAAAAAAATTACATTCATAAAAAATTAC-A-AAACACTAAACTAAACACAAACAA
* **
83154939 A-AACCTAATTATAAATTACTTGCAAAATAACTTTCAAATAA
63 ATAACCTAATCATAAATTACTAACAAAATAACTTT-AAATAA
*
83154980 TTAAAAAAATAAAAAAACTTACATTCATAAAAAATTACAATAAACATTAAACTAAACACAAACAA
1 TTAAAAAAATAAAAAAA-TTACATTCATAAAAAATTAC-A-AAACACTAAACTAAACACAAAC-A
* * *
83155045 TTAATAACCTAACCATAAATTACTAAAAAAATGAC-TTAAA-AA
62 --AATAACCTAATCATAAATTACTAACAAAATAACTTTAAATAA
83155087 -T----AAATAAAAAAATTACATTCATAAAAAATTACAAAACACTAAACTAAACACAAACAATTT
1 TTAAAAAAATAAAAAAATTACATTCATAAAAAATTACAAAACACTAAACTAAACACAAACAA---
* * *
83155147 ATAACGTAATCAGAAATTACTAACAAAATAACTATAAAATAA
63 ATAACCTAATCATAAATTACTAACAAAATAACT-TTAAATAA
* *
83155189 TTTAAAAAACA-AAAAAAAATACATTCAT-AAAAATCACAAAACACTAAACTAAACACAAACAA
1 -TTAAAAAA-ATAAAAAAATTACATTCATAAAAAATTACAAAACACTAAACTAAACACAAACAA
83155251 TTTATAATAA
Statistics
Matches: 231, Mismatches: 21, Indels: 36
0.80 0.07 0.12
Matches are distributed among these distances:
96 1 0.00
98 1 0.00
99 48 0.21
100 1 0.00
101 24 0.10
102 13 0.06
104 10 0.04
105 47 0.20
106 1 0.00
107 35 0.15
108 21 0.09
109 5 0.02
110 24 0.10
ACGTcount: A:0.61, C:0.15, G:0.01, T:0.23
Consensus pattern (103 bp):
TTAAAAAAATAAAAAAATTACATTCATAAAAAATTACAAAACACTAAACTAAACACAAACAAATA
ACCTAATCATAAATTACTAACAAAATAACTTTAAATAA
Found at i:83155004 original size:206 final size:205
Alignment explanation
Indices: 83154714--83155257 Score: 670
Period size: 206 Copynumber: 2.6 Consensus size: 205
83154704 TAATACACGT
* * *
83154714 TAAACTAAACA-AAAAAATTATAACCTAATTATAAATTAC-TAAAAAAAACTTTAAAATAATTTA
1 TAAACTAAACACAAACAA-TATAACCTAATTATAAATTACTTCAAAATAACTTTAAAATAA-TTA
* * * * * *
83154777 AAAACACAAAAAAATTTACATTTATAACAAGTCACAATAAAAACTAAACTAAATACAAACAATTT
64 AAAAAACAAAAAAAATTACATTCATAA-AAATCACAATAAACACTAAACTAAACACAAACAATTT
* * * * *
83154842 ATAACCTAATCATAAATTACTAACAAAATAACTTTAAAATAATTAAAAAATTTACATTCATAAAA
128 ATAACCTAACCATAAATTACTAAAAAAATAACTTAAAAATAAATAAAAAAATTACATTCATAAAA
83154907 AATAACAATAAACAC
193 AATAAC-A-AAACAC
* * *
83154922 TAAACTCAACACGAAC-A-A-AACCTAATTATAAATTACTTGCAAAATAACTTTCAAATAATTAA
1 TAAACTAAACACAAACAATATAACCTAATTATAAATTACTT-CAAAATAACTTTAAAATAATTAA
* * * * *
83154984 AAAAATAAAAAAACTTACATTCATAAAAAATTACAATAAACATTAAACTAAACACAAACAATTAA
65 AAAAACAAAAAAAATTACATTCAT-AAAAATCACAATAAACACTAAACTAAACACAAACAATTTA
*
83155049 TAACCTAACCATAAATTACTAAAAAAATGACTTAAAAATAAATAAAAAAATTACATTCATAAAAA
129 TAACCTAACCATAAATTACTAAAAAAATAACTTAAAAATAAATAAAAAAATTACATTCATAAAAA
*
83155114 ATTACAAAACAC
194 ATAACAAAACAC
* * * * *
83155126 TAAACTAAACACAAACAATTTATAACGTAATCAGAAATTACTAACAAAATAACTATAAAATAATT
1 TAAACTAAACACAAACAA--TATAACCTAATTATAAATTACT-TCAAAATAACTTTAAAATAATT
* *
83155191 TAAAAAACAAAAAAAAATACATTCATAAAAATCAC-A-AAACACTAAACTAAACACAAACAATTT
63 AAAAAAACAAAAAAAATTACATTCATAAAAATCACAATAAACACTAAACTAAACACAAACAATTT
83155254 ATAA
128 ATAA
83155258 TAATTAATAA
Statistics
Matches: 288, Mismatches: 38, Indels: 22
0.83 0.11 0.06
Matches are distributed among these distances:
204 20 0.07
205 20 0.07
206 150 0.52
207 19 0.07
208 20 0.07
209 59 0.20
ACGTcount: A:0.60, C:0.14, G:0.01, T:0.25
Consensus pattern (205 bp):
TAAACTAAACACAAACAATATAACCTAATTATAAATTACTTCAAAATAACTTTAAAATAATTAAA
AAAACAAAAAAAATTACATTCATAAAAATCACAATAAACACTAAACTAAACACAAACAATTTATA
ACCTAACCATAAATTACTAAAAAAATAACTTAAAAATAAATAAAAAAATTACATTCATAAAAAAT
AACAAAACAC
Found at i:83155143 original size:99 final size:104
Alignment explanation
Indices: 83154714--83155257 Score: 518
Period size: 101 Copynumber: 5.2 Consensus size: 104
83154704 TAATACACGT
* *
83154714 TAAACTAAACA-AAA-AAATTATAACCTAATTATAAATTACTAA-AAAA-AACTTTAAAATAATT
1 TAAACTAAACACAAACAATTTATAACCTAATCATAAATTACTAACAAAATAAC-TTAAAATAA-T
* * * * * *
83154775 TAAAAACACAAAAAAATTTACATTTATAACAAGTCACAATAAAAAC
64 T--AAA-ATAAAAAAA-TTACATTCATAAAAAATTACAA-AAACAC
*
83154821 TAAACTAAATACAAACAATTTATAACCTAATCATAAATTACTAACAAAATAACTTTAAAATAA-T
1 TAAACTAAACACAAACAATTTATAACCTAATCATAAATTACTAACAAAATAAC-TTAAAATAATT
* *
83154885 ----TAAAAAATTTACATTCATAAAAAATAACAATAAACAC
65 AAAATAAAAAAATTACATTCATAAAAAATTACAA-AAACAC
* * * ** *
83154922 TAAACTCAACACGAAC-A---A-AACCTAATTATAAATTACTTGCAAAATAACTTTCAAATAATT
1 TAAACTAAACACAAACAATTTATAACCTAATCATAAATTACTAACAAAATAAC-TTAAAATAATT
*
83154982 AAAAAAATAAAAAAACTTACATTCATAAAAAATTACAATAAACAT
65 ---AAAATAAAAAAA-TTACATTCATAAAAAATTACAA-AAACAC
* * * *
83155027 TAAACTAAACACAAACAATTAATAACCTAACCATAAATTACTAAAAAAATGACTT-AAA-AA-T-
1 TAAACTAAACACAAACAATTTATAACCTAATCATAAATTACTAACAAAATAACTTAAAATAATTA
83155088 AAATAAAAAAATTACATTCATAAAAAATTAC-AAAACAC
66 AAATAAAAAAATTACATTCATAAAAAATTACAAAAACAC
* *
83155126 TAAACTAAACACAAACAATTTATAACGTAATCAGAAATTACTAACAAAATAACTATAAAATAATT
1 TAAACTAAACACAAACAATTTATAACCTAATCATAAATTACTAACAAAATAACT-TAAAATAA-T
* * *
83155191 TAAAAAACAAAAAAAAATACATTCAT-AAAAATCAC-AAAACAC
64 T--AAAA-TAAAAAAATTACATTCATAAAAAATTACAAAAACAC
83155233 TAAACTAAACACAAACAATTTATAA
1 TAAACTAAACACAAACAATTTATAA
83155258 TAATTAATAA
Statistics
Matches: 372, Mismatches: 38, Indels: 54
0.80 0.08 0.12
Matches are distributed among these distances:
96 36 0.10
97 2 0.01
99 53 0.14
100 3 0.01
101 60 0.16
102 19 0.05
104 8 0.02
105 41 0.11
106 2 0.01
107 55 0.15
108 22 0.06
109 30 0.08
110 28 0.08
111 13 0.03
ACGTcount: A:0.60, C:0.14, G:0.01, T:0.25
Consensus pattern (104 bp):
TAAACTAAACACAAACAATTTATAACCTAATCATAAATTACTAACAAAATAACTTAAAATAATTA
AAATAAAAAAATTACATTCATAAAAAATTACAAAAACAC
Found at i:83156989 original size:49 final size:49
Alignment explanation
Indices: 83156688--83157056 Score: 342
Period size: 49 Copynumber: 7.8 Consensus size: 49
83156678 CACTTATGTG
* * * * * *
83156688 AGCTAGTGTAAGA-AATGTCTAGCACAT-GCATCGGCCAC-AATATGAG
1 AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAAGATGAT
* * * ** *
83156734 AGCCAGTGTAAGACCATGTCTGGAACATGACATCGGTATTGAA-ATGAGT
1 AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAAGATGA-T
* *
83156783 -GCTAGTGTAA-AACATGTCTGGGACAT-GCATCGGCCTCG-AGACG-T
1 AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAAGATGAT
* *
83156827 AAGCCAGTGTAAGA-TATGTCTGGGACAT-GCATCGG-CTGCG-AGATG-T
1 -AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGAAGATGAT
* * * * *
83156873 -G-TAAGTGTAAGACCATGTCTGGGACATAGCATTGGCACGGT-TATG-TGAG
1 AGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGC-C--TCGAAGATGAT
* *
83156922 AGCTAGTGTAAGATCATGTCGGGGACATGGCATCGGCCTCGAAGATGAT
1 AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAAGATGAT
83156971 AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAAGATGAT
1 AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAAGATGAT
83157020 AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
83157057 GCCTTACCCA
Statistics
Matches: 265, Mismatches: 36, Indels: 41
0.77 0.11 0.12
Matches are distributed among these distances:
44 11 0.04
45 16 0.06
46 64 0.24
47 27 0.10
48 24 0.09
49 91 0.34
50 31 0.12
51 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (49 bp):
AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAAGATGAT
Found at i:83158672 original size:9 final size:9
Alignment explanation
Indices: 83158658--83158720 Score: 55
Period size: 9 Copynumber: 7.4 Consensus size: 9
83158648 ATTTTTGGCT
83158658 GAAGAAAGA
1 GAAGAAAGA
83158667 GAAGAAAGA
1 GAAGAAAGA
83158676 GAAG---GA
1 GAAGAAAGA
*
83158682 GAAAAAAGA
1 GAAGAAAGA
*
83158691 AAAG-AAGA
1 GAAGAAAGA
83158699 GAAG-AAGAA
1 GAAGAAAG-A
*
83158708 GAAGAAGGA
1 GAAGAAAGA
83158717 GAAG
1 GAAG
83158721 GAGAGGGCGG
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
6 5 0.11
8 10 0.23
9 27 0.61
10 2 0.05
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (9 bp):
GAAGAAAGA
Found at i:83158702 original size:23 final size:24
Alignment explanation
Indices: 83158662--83158707 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
83158652 TTGGCTGAAG
* *
83158662 AAAGAGAAGAAAGAGAAGGAGAAA
1 AAAGAAAAGAAAGAGAAGAAGAAA
83158686 AAAGAAAAG-AAGAGAAGAAGAA
1 AAAGAAAAGAAAGAGAAGAAGAA
83158708 GAAGAAGGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (24 bp):
AAAGAAAAGAAAGAGAAGAAGAAA
Found at i:83159401 original size:2 final size:2
Alignment explanation
Indices: 83159394--83159425 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
83159384 TTCTATGCAA
83159394 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
83159426 TGACAATAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:83160799 original size:14 final size:14
Alignment explanation
Indices: 83160782--83160815 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
83160772 AATATTTTTT
83160782 TTCTAATGATACTA
1 TTCTAATGATACTA
83160796 TTCTAATGATACTA
1 TTCTAATGATACTA
83160810 TTCTAA
1 TTCTAA
83160816 CATGTAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.35, C:0.15, G:0.06, T:0.44
Consensus pattern (14 bp):
TTCTAATGATACTA
Found at i:83161927 original size:14 final size:14
Alignment explanation
Indices: 83161908--83161940 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
83161898 AAATTGGAAC
83161908 AAATTTTGTAATAT
1 AAATTTTGTAATAT
*
83161922 AAATTTTGTTATAT
1 AAATTTTGTAATAT
83161936 AAATT
1 AAATT
83161941 AAATATATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (14 bp):
AAATTTTGTAATAT
Found at i:83161964 original size:62 final size:62
Alignment explanation
Indices: 83161829--83162050 Score: 309
Period size: 62 Copynumber: 3.5 Consensus size: 62
83161819 ATTAAACAAC
* * * * *
83161829 TAAAACTTGTAACAAACTTTATAATATAACTTTTGTTTATAATATAAATTAAATACATTACATCA
1 TAAAAATTGGAACAAACTTTGTAATATAAATTTTG--T-T-ATATAAATTAAATACATTACAACA
*
83161894 C
62 T
* *
83161895 TAAAAATTGGAACAAATTTTGTAATATAAATTTTGTTATATAAATTAAATATATTACAACAT
1 TAAAAATTGGAACAAACTTTGTAATATAAATTTTGTTATATAAATTAAATACATTACAACAT
* * *
83161957 TAAAAATTGGAACAAACTTTGCAATATAAATTTTTTTATATAAATTAAATACATTATAACAT
1 TAAAAATTGGAACAAACTTTGTAATATAAATTTTGTTATATAAATTAAATACATTACAACAT
83162019 TAAAAATTGGAACAAACTTTGTAATATAAATT
1 TAAAAATTGGAACAAACTTTGTAATATAAATT
83162051 AGGTACATTG
Statistics
Matches: 142, Mismatches: 14, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
62 110 0.77
63 1 0.01
64 1 0.01
66 30 0.21
ACGTcount: A:0.48, C:0.08, G:0.05, T:0.39
Consensus pattern (62 bp):
TAAAAATTGGAACAAACTTTGTAATATAAATTTTGTTATATAAATTAAATACATTACAACAT
Found at i:83164985 original size:10 final size:10
Alignment explanation
Indices: 83164972--83165004 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
83164962 TTTCTAATAT
*
83164972 AAAAACTTTA
1 AAAAATTTTA
83164982 AAAAATTTTA
1 AAAAATTTTA
83164992 AAAAATTTTA
1 AAAAATTTTA
83165002 AAA
1 AAA
83165005 CATAACATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (10 bp):
AAAAATTTTA
Found at i:83165629 original size:20 final size:21
Alignment explanation
Indices: 83165604--83165673 Score: 74
Period size: 20 Copynumber: 3.3 Consensus size: 21
83165594 AATACATGCC
83165604 TTCTTTCTTTCTT-TCTTT-CT
1 TTCTTTCTTTCTTCT-TTTCCT
83165624 TTCTTTC-TTCTTCTTTTCCT
1 TTCTTTCTTTCTTCTTTTCCT
* *
83165644 TTCTTTCTTCTCCTTCCTCTCCT
1 TTCTTTCTT-T-CTTCTTTTCCT
83165667 TTCTTTC
1 TTCTTTC
83165674 CCTCTTTTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
19 8 0.19
20 17 0.40
21 1 0.02
22 1 0.02
23 16 0.37
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (21 bp):
TTCTTTCTTTCTTCTTTTCCT
Found at i:83165654 original size:23 final size:24
Alignment explanation
Indices: 83165618--83165673 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 24
83165608 TTCTTTCTTT
* * *
83165618 CTTTCTTTCTTTCTTCTTCTTTTC
1 CTTTCTTTCTTTCTCCTTCCTCTC
83165642 CTTTCTTTC-TTCTCCTTCCTCTC
1 CTTTCTTTCTTTCTCCTTCCTCTC
83165665 CTTTCTTTC
1 CTTTCTTTC
83165674 CCTCTTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 20 0.69
24 9 0.31
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (24 bp):
CTTTCTTTCTTTCTCCTTCCTCTC
Found at i:83165673 original size:4 final size:4
Alignment explanation
Indices: 83165604--83165652 Score: 66
Period size: 4 Copynumber: 12.2 Consensus size: 4
83165594 AATACATGCC
83165604 TTCT TTCT TTCT TTCT TTCT TTCT TTC- TTC- TTCTT TTCCT TTCT TTCT
1 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTC-T TT-CT TTCT TTCT
83165652 T
1 T
83165653 CTCCTTCCTC
Statistics
Matches: 42, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
3 6 0.14
4 30 0.71
5 5 0.12
6 1 0.02
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (4 bp):
TTCT
Found at i:83168205 original size:19 final size:19
Alignment explanation
Indices: 83168181--83168221 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
83168171 TGGCTAGTGA
83168181 GATTGATTCAAATGGGTTT
1 GATTGATTCAAATGGGTTT
*
83168200 GATTGATTCAAGTGGGTTT
1 GATTGATTCAAATGGGTTT
83168219 GAT
1 GAT
83168222 AACTCTTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.24, C:0.05, G:0.29, T:0.41
Consensus pattern (19 bp):
GATTGATTCAAATGGGTTT
Found at i:83169787 original size:27 final size:27
Alignment explanation
Indices: 83169757--83169830 Score: 148
Period size: 27 Copynumber: 2.7 Consensus size: 27
83169747 CATAATGACA
83169757 TTTCTTCTAATTCTTCTACTATAAATG
1 TTTCTTCTAATTCTTCTACTATAAATG
83169784 TTTCTTCTAATTCTTCTACTATAAATG
1 TTTCTTCTAATTCTTCTACTATAAATG
83169811 TTTCTTCTAATTCTTCTACT
1 TTTCTTCTAATTCTTCTACT
83169831 GTAATGTGGC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.23, C:0.20, G:0.03, T:0.54
Consensus pattern (27 bp):
TTTCTTCTAATTCTTCTACTATAAATG
Found at i:83172733 original size:74 final size:74
Alignment explanation
Indices: 83172612--83172760 Score: 298
Period size: 74 Copynumber: 2.0 Consensus size: 74
83172602 TTTGTGTTGC
83172612 CTCTACTGATGAAATCTCTGCATGTCTATCTGTTTTAGTAGAAGGAGAGAACAAGGATGATAATA
1 CTCTACTGATGAAATCTCTGCATGTCTATCTGTTTTAGTAGAAGGAGAGAACAAGGATGATAATA
83172677 GGATTAAGT
66 GGATTAAGT
83172686 CTCTACTGATGAAATCTCTGCATGTCTATCTGTTTTAGTAGAAGGAGAGAACAAGGATGATAATA
1 CTCTACTGATGAAATCTCTGCATGTCTATCTGTTTTAGTAGAAGGAGAGAACAAGGATGATAATA
83172751 GGATTAAGT
66 GGATTAAGT
83172760 C
1 C
83172761 ATGATAAGGC
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 75 1.00
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.31
Consensus pattern (74 bp):
CTCTACTGATGAAATCTCTGCATGTCTATCTGTTTTAGTAGAAGGAGAGAACAAGGATGATAATA
GGATTAAGT
Found at i:83176385 original size:74 final size:73
Alignment explanation
Indices: 83176282--83176431 Score: 183
Period size: 74 Copynumber: 2.0 Consensus size: 73
83176272 CGAGAAATTA
* ** * * * *
83176282 AAATTAAATAAAATCTGCTTCAAGCTTTATTCTTGCTTTTTAACTAGATTTTATTCGATTTTAAT
1 AAATTAAATAAAATCTGCTTCAAGATTTATTCCCGCTATTTAACAAGATTTTATTCAATATTAA-
83176347 TTTGTTTCC
65 TTTGTTTCC
* * ** *
83176356 AAATTAAATAAAATTTGTTTTGAGATTTATTCCCGCTATTTAACAAGATTTTATTCAATATTGAT
1 AAATTAAATAAAATCTGCTTCAAGATTTATTCCCGCTATTTAACAAGATTTTATTCAATATTAAT
83176421 TTGTTTCC
66 TTGTTTCC
83176429 AAA
1 AAA
83176432 CGAAGACTTA
Statistics
Matches: 64, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
73 12 0.19
74 52 0.81
ACGTcount: A:0.32, C:0.12, G:0.09, T:0.47
Consensus pattern (73 bp):
AAATTAAATAAAATCTGCTTCAAGATTTATTCCCGCTATTTAACAAGATTTTATTCAATATTAAT
TTGTTTCC
Found at i:83176603 original size:88 final size:87
Alignment explanation
Indices: 83176491--83176703 Score: 230
Period size: 87 Copynumber: 2.4 Consensus size: 87
83176481 ACAGACTTTA
* * * * * ** * *
83176491 TTTCGGGATTTATTCCTGCCGTTCAACGAATTTTATTCCTTTTTTTTATTTT-ATTTCTAAACGA
1 TTTCGAGATTTATTCCAGCCGTTCAACGAATTTTATT--ATATTTTGATTTTGATGCCAAAACAA
*
83176555 GAAATTAAAGTTAAATAAAATCTG
64 GAAATTAAAATTAAATAAAATCTG
* * * * *
83176579 TTTTGAGATTTATTCCAGTCGTTCAATGGATTTTATTATATTTTGATTTTGCTGCCAAAACAAGA
1 TTTCGAGATTTATTCCAGCCGTTCAACGAATTTTATTATATTTTGATTTTGATGCCAAAACAAGA
83176644 AATTAAAATTAAATAAAATCTG
66 AATTAAAATTAAATAAAATCTG
* * *
83176666 TTTCGAGATTTATTCCCGCCGTTTAACAAGATTTTATT
1 TTTCGAGATTTATTCCAGCCGTTCAACGA-ATTTTATT
83176704 TGATATTAAT
Statistics
Matches: 101, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
86 10 0.10
87 52 0.51
88 39 0.39
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.44
Consensus pattern (87 bp):
TTTCGAGATTTATTCCAGCCGTTCAACGAATTTTATTATATTTTGATTTTGATGCCAAAACAAGA
AATTAAAATTAAATAAAATCTG
Found at i:83176928 original size:86 final size:87
Alignment explanation
Indices: 83176780--83176996 Score: 278
Period size: 87 Copynumber: 2.5 Consensus size: 87
83176770 TTTAACAGAC
* * * * *
83176780 TTTATTTCGGGATTTATTCTCGCTATTCAACGGATTTTTTTCCTTTTTTACTTTATTTCC-AAAC
1 TTTATTTCGGGATTTATTCCCGCCATTCAACGGATTTTATTCATTTTTGACTTTATTTCCAAAAC
*
83176844 GAGAAATTAAAGTTAAATAAAA
66 GAGAAATTAAAATTAAATAAAA
* *
83176866 TTTATTTCGGGATTTATTCCCACCATTCAACGGATTTTATT-ATATTTTGA-TTTTTTTGCCAAA
1 TTTATTTCGGGATTTATTCCCGCCATTCAACGGATTTTATTCAT-TTTTGACTTTATTT-CCAAA
83176929 ACGAGAAATTAAAATTAAATAAAA
64 ACGAGAAATTAAAATTAAATAAAA
* * * *
83176953 TCTGTTTCGGGATTTATTCCCGCCATTTAACAAGATTTTATTCA
1 TTTATTTCGGGATTTATTCCCGCCATTCAAC-GGATTTTATTCA
83176997 ATACTGATTT
Statistics
Matches: 113, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
85 7 0.06
86 44 0.39
87 52 0.46
88 9 0.08
89 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.11, T:0.43
Consensus pattern (87 bp):
TTTATTTCGGGATTTATTCCCGCCATTCAACGGATTTTATTCATTTTTGACTTTATTTCCAAAAC
GAGAAATTAAAATTAAATAAAA
Found at i:83176969 original size:291 final size:292
Alignment explanation
Indices: 83176356--83177054 Score: 1039
Period size: 291 Copynumber: 2.4 Consensus size: 292
83176346 TTTTGTTTCC
* * *
83176356 AAATTAAATAAAATTTGTTTTGAGATTTATTCCCGCTATTTAACAAGATTTTATTCAATATTGAT
1 AAATTAAATAAAATCTGTTTCGAGATTTATTCCCGCCATTTAACAAGATTTTATTCAATATTGAT
*
83176421 TTGTTTCCAAACGAAGACTTAATCAAATAATTCTATTTCAGGATTTATTCTCACCGTTTAACAGA
66 TTGTTTCCAAACGAAGACTTAATCAAATAATTCTGTTTCAGGATTTATTCTCACCGTTTAACAGA
* * *
83176486 CTTTATTTCGGGATTTATTCCTGCCGTTCAACGAATTTTATTCCTTTTTTTTATTTTATTTCTAA
131 CTTTATTTCGGGATTTATTCCTGCCATTCAACGAATTTTATTCC-TTTTTTTACTTTATTTCCAA
* * * * *
83176551 ACGAGAAATTAAAGTTAAATAAAATCTGTTTTGAGATTTATTCCAGTCGTTCAATGGATTTTATT
195 ACGAGAAATTAAAGTTAAATAAAATCTATTTCGAGATTTATTCCAGCCATTCAACGGATTTTATT
83176616 ATATTTTGATTTTGCTGCCAAAACAAGAAATTA
260 ATATTTTGATTTTGCTGCCAAAACAAGAAATTA
* ** *
83176649 AAATTAAATAAAATCTGTTTCGAGATTTATTCCCGCCGTTTAACAAGATTTTATTTGATATTAAT
1 AAATTAAATAAAATCTGTTTCGAGATTTATTCCCGCCATTTAACAAGATTTTATTCAATATTGAT
* * * *
83176714 TTGTTTCCAAATGAAGATTTAATCAAATAATTTTGTTTTAGGATTTATT-TCACCCGTTTAACAG
66 TTGTTTCCAAACGAAGACTTAATCAAATAATTCTGTTTCAGGATTTATTCTCA-CCGTTTAACAG
* * *
83176778 ACTTTATTTCGGGATTTATT-CTCGCTATTCAACGGATTTTTTTCC-TTTTTTACTTTATTTCCA
130 ACTTTATTTCGGGATTTATTCCT-GCCATTCAACGAATTTTATTCCTTTTTTTACTTTATTTCCA
* *
83176841 AACGAGAAATTAAAGTTAAATAAAATTTATTTCGGGATTTATTCCCA-CCATTCAACGGATTTTA
194 AACGAGAAATTAAAGTTAAATAAAATCTATTTCGAGATTTATT-CCAGCCATTCAACGGATTTTA
** *
83176905 TTATATTTTGATTTTTTTGCCAAAACGAGAAATTA
258 TTATATTTTGATTTTGCTGCCAAAACAAGAAATTA
* *
83176940 AAATTAAATAAAATCTGTTTCGGGATTTATTCCCGCCATTTAACAAGATTTTATTCAATACTGAT
1 AAATTAAATAAAATCTGTTTCGAGATTTATTCCCGCCATTTAACAAGATTTTATTCAATATTGAT
*
83177005 TTGTTTCTAAACGAAGACTTAATCAAATAATTCTGTTTC-GTGATTTATTC
66 TTGTTTCCAAACGAAGACTTAATCAAATAATTCTGTTTCAG-GATTTATTC
83177055 ATGTAATTTA
Statistics
Matches: 362, Mismatches: 39, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
290 1 0.00
291 202 0.56
292 8 0.02
293 151 0.42
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (292 bp):
AAATTAAATAAAATCTGTTTCGAGATTTATTCCCGCCATTTAACAAGATTTTATTCAATATTGAT
TTGTTTCCAAACGAAGACTTAATCAAATAATTCTGTTTCAGGATTTATTCTCACCGTTTAACAGA
CTTTATTTCGGGATTTATTCCTGCCATTCAACGAATTTTATTCCTTTTTTTACTTTATTTCCAAA
CGAGAAATTAAAGTTAAATAAAATCTATTTCGAGATTTATTCCAGCCATTCAACGGATTTTATTA
TATTTTGATTTTGCTGCCAAAACAAGAAATTA
Found at i:83184838 original size:3 final size:3
Alignment explanation
Indices: 83184830--83184855 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
83184820 GTTTTGGTGC
83184830 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
83184856 ACGCAGGGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:83188220 original size:2 final size:2
Alignment explanation
Indices: 83188213--83188240 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
83188203 ATCTTCAAAA
83188213 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
83188241 TTTATAAGCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:83189446 original size:22 final size:23
Alignment explanation
Indices: 83189404--83189446 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
83189394 ATTTACAAAA
* *
83189404 AAAAAAAAAAGAGAGAGAAAGTT
1 AAAAAAAAAAGAGAAAAAAAGTT
83189427 AAAAAAAAAAG-GAAAAAAAG
1 AAAAAAAAAAGAGAAAAAAAG
83189447 GGAAAGAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.05
Consensus pattern (23 bp):
AAAAAAAAAAGAGAAAAAAAGTT
Found at i:83189970 original size:11 final size:10
Alignment explanation
Indices: 83189950--83189992 Score: 52
Period size: 11 Copynumber: 4.2 Consensus size: 10
83189940 TGAACGTTGA
*
83189950 TTCTATATTT
1 TTCTTTATTT
83189960 TTCTTTAATTT
1 TTCTTT-ATTT
83189971 TT-TTTATTT
1 TTCTTTATTT
83189980 TTCTTTGATTT
1 TTCTTT-ATTT
83189991 TT
1 TT
83189993 TGGAAAATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
9 6 0.21
10 11 0.38
11 12 0.41
ACGTcount: A:0.14, C:0.07, G:0.02, T:0.77
Consensus pattern (10 bp):
TTCTTTATTT
Found at i:83189980 original size:20 final size:20
Alignment explanation
Indices: 83189955--83189993 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
83189945 GTTGATTCTA
83189955 TATTTTTCTTTAATTTTTTT
1 TATTTTTCTTTAATTTTTTT
*
83189975 TATTTTTCTTTGATTTTTT
1 TATTTTTCTTTAATTTTTT
83189994 GGAAAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.13, C:0.05, G:0.03, T:0.79
Consensus pattern (20 bp):
TATTTTTCTTTAATTTTTTT
Found at i:83192504 original size:76 final size:76
Alignment explanation
Indices: 83192378--83192533 Score: 312
Period size: 76 Copynumber: 2.1 Consensus size: 76
83192368 AGACCAACTG
83192378 CTGAAATTCCTGCTCTAGGTGAAGCATATTTTTCTTTCTTTGAATCTCTCTTTTATTATACTTCT
1 CTGAAATTCCTGCTCTAGGTGAAGCATATTTTTCTTTCTTTGAATCTCTCTTTTATTATACTTCT
83192443 ATTTGGTTTAT
66 ATTTGGTTTAT
83192454 CTGAAATTCCTGCTCTAGGTGAAGCATATTTTTCTTTCTTTGAATCTCTCTTTTATTATACTTCT
1 CTGAAATTCCTGCTCTAGGTGAAGCATATTTTTCTTTCTTTGAATCTCTCTTTTATTATACTTCT
83192519 ATTTGGTTTAT
66 ATTTGGTTTAT
83192530 CTGA
1 CTGA
83192534 CAAATCCACT
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 80 1.00
ACGTcount: A:0.20, C:0.17, G:0.12, T:0.51
Consensus pattern (76 bp):
CTGAAATTCCTGCTCTAGGTGAAGCATATTTTTCTTTCTTTGAATCTCTCTTTTATTATACTTCT
ATTTGGTTTAT
Found at i:83194012 original size:6 final size:6
Alignment explanation
Indices: 83194003--83194028 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
83193993 GCTCTGGCTT
83194003 TGGCAC TGGCAC TGGCAC TGGCAC TG
1 TGGCAC TGGCAC TGGCAC TGGCAC TG
83194029 TAATCCTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.31, G:0.35, T:0.19
Consensus pattern (6 bp):
TGGCAC
Found at i:83194822 original size:17 final size:17
Alignment explanation
Indices: 83194783--83194826 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
83194773 TTAATTTTAA
83194783 TATAAAT-ATTCAATAT
1 TATAAATAATTCAATAT
* *
83194799 GACTAAATAATTTAATAT
1 TA-TAAATAATTCAATAT
83194817 TATAAATAAT
1 TATAAATAAT
83194827 ATAAAATGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
16 1 0.04
17 13 0.57
18 9 0.39
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (17 bp):
TATAAATAATTCAATAT
Found at i:83197102 original size:19 final size:19
Alignment explanation
Indices: 83197080--83197120 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
83197070 GTATATAATG
**
83197080 TAATATTAAAATGTTAAAA
1 TAATATTAAAATAATAAAA
*
83197099 TAATATTACAATAATAAAA
1 TAATATTAAAATAATAAAA
83197118 TAA
1 TAA
83197121 ATTTAGTTAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (19 bp):
TAATATTAAAATAATAAAA
Found at i:83203113 original size:11 final size:11
Alignment explanation
Indices: 83203097--83203126 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
83203087 GCCCCAACTA
83203097 TGGTTGAATAT
1 TGGTTGAATAT
83203108 TGGTTGAATAT
1 TGGTTGAATAT
83203119 TGGTTGAA
1 TGGTTGAA
83203127 GGCCACAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.30, T:0.43
Consensus pattern (11 bp):
TGGTTGAATAT
Found at i:83209063 original size:20 final size:20
Alignment explanation
Indices: 83209038--83209079 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
83209028 TTTTGGTAAA
* *
83209038 TTTTGGACTATTTGGACATT
1 TTTTGGACTATCTAGACATT
83209058 TTTTGGACTATCTAGACATT
1 TTTTGGACTATCTAGACATT
83209078 TT
1 TT
83209080 GGTTGTTTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.21, C:0.12, G:0.17, T:0.50
Consensus pattern (20 bp):
TTTTGGACTATCTAGACATT
Found at i:83209725 original size:9 final size:9
Alignment explanation
Indices: 83209713--83209737 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
83209703 TAAAAGCATT
83209713 AAAACCATA
1 AAAACCATA
83209722 AAAACCATA
1 AAAACCATA
83209731 AAAACCA
1 AAAACCA
83209738 GAGTATATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (9 bp):
AAAACCATA
Found at i:83216411 original size:25 final size:25
Alignment explanation
Indices: 83216364--83216411 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
83216354 TTTTAGTCCA
*
83216364 TACTACCTAAAGTGTTTCAGTAAAG
1 TACTACCTAAAGTGTCTCAGTAAAG
*
83216389 TACTACCTACAGTAGTCTC-GTAA
1 TACTACCTAAAGT-GTCTCAGTAA
83216412 CACATATACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (25 bp):
TACTACCTAAAGTGTCTCAGTAAAG
Found at i:83217381 original size:39 final size:38
Alignment explanation
Indices: 83217292--83217385 Score: 107
Period size: 39 Copynumber: 2.4 Consensus size: 38
83217282 ACCATCTCCG
* * * *
83217292 TCCAACCCAACACACCATGTGGGGATAAGATCAACCTA
1 TCCAACCCTACACACCAAGTGGGGATAAAATCAACCCA
* * * *
83217330 CCCAGCCATACACACCAAGTGTGGGATAAAATTAACCCA
1 TCCAACCCTACACACCAAGTG-GGGATAAAATCAACCCA
83217369 TCCAACCCTACACACCA
1 TCCAACCCTACACACCA
83217386 CATGGTACCG
Statistics
Matches: 44, Mismatches: 11, Indels: 1
0.79 0.20 0.02
Matches are distributed among these distances:
38 16 0.36
39 28 0.64
ACGTcount: A:0.37, C:0.35, G:0.13, T:0.15
Consensus pattern (38 bp):
TCCAACCCTACACACCAAGTGGGGATAAAATCAACCCA
Found at i:83219617 original size:31 final size:31
Alignment explanation
Indices: 83219582--83219648 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
83219572 CCAAGTCTCG
* * *
83219582 TACAAAGATATAA-TCAATACAAGACAAACTA
1 TACAAAAATATAAGT-AATACAAGAAAAACCA
83219613 TACAAAAATATAAGTAATACAAGAAAAACCA
1 TACAAAAATATAAGTAATACAAGAAAAACCA
83219644 TACAA
1 TACAA
83219649 GACAAATATC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
31 31 0.97
32 1 0.03
ACGTcount: A:0.61, C:0.15, G:0.06, T:0.18
Consensus pattern (31 bp):
TACAAAAATATAAGTAATACAAGAAAAACCA
Found at i:83228191 original size:40 final size:40
Alignment explanation
Indices: 83228116--83228208 Score: 109
Period size: 40 Copynumber: 2.3 Consensus size: 40
83228106 GATTATGTTC
* * **
83228116 GACACTAAGTATGCGATTTGAAATAGCTTTGGCTATAAAT-A
1 GACACTAAGTGTGCGAATTGAAATAGCTTCAGCTAT--ATGA
*
83228157 G-CACTAAGTGTGCGAATTGGAATAGCTTCAGCTATATGA
1 GACACTAAGTGTGCGAATTGAAATAGCTTCAGCTATATGA
83228196 GACACTAAGTGTG
1 GACACTAAGTGTG
83228209 TGATACCGAG
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
38 2 0.04
39 2 0.04
40 40 0.89
41 1 0.02
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (40 bp):
GACACTAAGTGTGCGAATTGAAATAGCTTCAGCTATATGA
Found at i:83235560 original size:829 final size:827
Alignment explanation
Indices: 83233956--83235609 Score: 2090
Period size: 829 Copynumber: 2.0 Consensus size: 827
83233946 TGATGATAAT
* * * *
83233956 CCGTAATTTATACATATTTTTATCCCATGCTTAGCTCATTTATGGATGATTTCTCCTTAGATTTG
1 CCGTAATTTATACATATTTTTACCCCATGCTTAACACATTTATGGATGATTTCTCCTTAGAATTG
*
83234021 GTGAATTCGATGCTTCTAATCCTTTAATTTCATGTTCTATACTTAGGTGAGCATAAGAGAGTAAA
66 GTGAATTCGATGCTCCTAATCCTTTAATTTCATGTTCTATACTTAGGTGAGCATAAGAGAGTAAA
* * * * *
83234086 AAAGAGCGAGAAACGGGCCGAAAATGGAGAAAATAGAACTATATGGGAAAACAACACGGCCTGGA
131 AAAGAACGAGAAACGGGCCAAAAACGGAGAAAATAGAACCATATGGCAAAACAACACGGCCTGGA
* * * * * *
83234151 CTTCCTCACACGGGCATGTCACACGGCCGTGTCAATTTGGCAGGATCGAAGCATAACTTACACGG
196 CTTCCTCACACGGGCATGCCACACGACCGTGTCAATTTGGCAGAATCGAAGCACAACTCACACGA
* * * * *
83234216 GTAGATCACACACCCGTGCCCATTTAATAGCCTTGACCACGACCTTAAGTAATCGCACACGGGCG
261 GTAAAACACACACCCGTGCCCATTTAAAAG-CTTGACCAAGACCTGAAGTAATCGCACACGGGCG
* * *
83234281 TGTCCTTGCCGAACCCAAGTTTAGTCCAATTTAGAAAAGGCCAATTTTGAGGGCTCTTAGCATTC
325 TGTCCCTGCCGAACCCAA---TAGTCCAATTGAGAAAAGGCCAATTTTGAGGACTCTTAGCATTC
* * * ** * * * * *
83234346 CAAAGCCTATTTAAACACTTGAGGAGGCACTTAGGAAGGGGGACGCAGAGTAGGAAGCAAGGAAT
387 CAAAGCCTATTAAAACACCTGAGAAGGCACAGAGGAAAGAGGACACAGAGAAGGAAGCAAGGAAC
* *
83234411 TACTCAAAGAAAGCCGATTGATCCATCTCAACAGCCGGATTCATCATCAAGACTGAAGATCTCCC
452 TACTCAAAGAAAGCCGATTGATCCATCTCAACAGCCGAATTCACCATCAAGACTGAAGATCTCCC
* * * *
83234476 TTCAAGTTCCTTTAGGAGTTTTGGGTTTTCTTATGTTTTGTTATCTTTATGCTTTTGAGATGTTT
517 CTCAAGTTCCTTTAGGAGTTTTGGGTTTTCTTATGTTTTGTTATCATCATGCTTCTGAGATGTTT
* *
83234541 TGTTTCATAAGTATGAACTAAATCCCTAAATACCTAAGGGGAATGAAACCTAATACATATCTTGT
582 TCTTT-ATAAGTATGAACTAAATCCCTAAATACCTAAGGGGAATGAAACCTAAGACATATCTTGT
*
83234606 TATTATTATCTAAATTATATGATAAATATTTGACTTGTTCTTAATTATGTGTTCTTAATTCTTGT
646 TATTATTATCTAAATTATATGATAAATATTTAACTTGTTCTTAATTATGTGTTCTTAATTCTTGT
* * *
83234671 TTTGATATTCCAGGATATTGATTCAAGTTAAGCTCTTATTCAGAGGAGGAGTAAACCCTGTCTAA
711 TTTGATATTCCAGGATACTGATTCAAGATAAGCTCTTATTCAGAGGAGGAATAAACCCTGTCTAA
83234736 GAGTAAATTTGTCATAATTAAGCGGAGTTGATTGCGCGCCTAGAGTTATAGA
776 GAGTAAATTTGTCATAATTAAGCGGAGTTGATTGCGCGCCTAGAGTTATAGA
* *
83234788 CCGTAATTTATACATATTTTTACCCCATGCTTAACACATTTTATGGATGATTTTTCTTTAGAATT
1 CCGTAATTTATACATATTTTTACCCCATGCTTAACACA-TTTATGGATGATTTCTCCTTAGAATT
* * * * **
83234853 GGTGAATTCGATGCTCCTATTGCTTTAATTTCATGTTTTATACTTAGGTGAGCATAGGAGAG-CG
65 GGTGAATTCGATGCTCCTAATCCTTTAATTTCATGTTCTATACTTAGGTGAGCATAAGAGAGTAA
* * * *
83234917 AAAGGAACGAGAAACGGGCCAAAAACGGAGAAAAT-GAGCCA-ATGTTCAAAATCAACGCGGCCT
130 AAAAGAACGAGAAACGGGCCAAAAACGGAGAAAATAGAACCATATG-GCAAAA-CAACACGGCCT
* * * *
83234980 GGACTTCGTTACACGGG-A-GACCACACGACTGTGTCAATTTGGCAGAATCGAAGCACGACTCAC
193 GGACTTCCTCACACGGGCATG-CCACACGACCGTGTCAATTTGGCAGAATCGAAGCACAACTCAC
* * * *
83235043 ACGAGTAAAACACACGCCCGTG-CCATTCTAACAAG-TTCGAGCATAG-CCTGAAGTAGTCGTAC
257 ACGAGTAAAACACACACCCGTGCCCATT-TAA-AAGCTT-GACCA-AGACCTGAAGTAATCGCAC
* * * *
83235105 ACGGGCGTGTCCCTGCTGAGCCC-A-AGTCCAATTCGA-AAAAGGCTAATTTTGAGGACTTTTAG
318 ACGGGCGTGTCCCTGCCGAACCCAATAGTCCAATT-GAGAAAAGGCCAATTTTGAGGACTCTTA-
* * *
83235167 GCATTCTAAAGCCTA-TAAATACGCCCT-A-AAGG-A-AGAGGAAAGAGGACATAGAGAAAAGGA
381 GCATTCCAAAGCCTATTAAA-AC-ACCTGAGAAGGCACAGAGGAAAGAGGACACAGAG--AAGGA
* * * * * * * *
83235227 GGCAGGGAACTGCTCAAGGGAAGCCGATTGATCCATCTCAGA-AGGCGAATTCACCATTAAGATT
442 AGCAAGGAACTACTCAAAGAAAGCCGATTGATCCATCTCA-ACAGCCGAATTCACCATCAAGACT
* *
83235291 GAAGATCTCCCCTCAATTTCCCTTTAGGAGTTTTGGGTTTTCTTTATGTTTTG-TATTCATCATT
506 GAAGATCTCCCCTCAAGTT-CCTTTAGGAGTTTTGGGTTTTC-TTATGTTTTGTTA-TCATCATG
* *
83235355 CTTCTGATATGTTTTCCTTT-TTAGTTATGAACTAAATCCCTTAAATACCTAAGGGGAATGAAAC
568 CTTCTGAGATGTTTT-CTTTATAAG-TATGAACTAAATCCC-TAAATACCTAAGGGGAATGAAAC
* * *
83235419 CTAAGACGA-ATCTTGTTGTTATTTTCTAAATTGTATGATAAATATTTAACTTGTTCTTAATTAT
630 CTAAGAC-ATATCTTGTTATTATTATCTAAATTATATGATAAATATTTAACTTGTTCTTAATTAT
83235483 GTGTTCTTAATTCTTGTTTTGATA-TCTCAGGATACTGATTCAAGATAAGCTCTTATTCAGAGGA
694 GTGTTCTTAATTCTTGTTTTGATATTC-CAGGATACTGATTCAAGATAAGCTCTTATTCAGAGGA
* * *
83235547 GGAATAGACCCTGTCTAAGAGTACATTTTTCATAATTAAGCGGAGTTGATTGCGCGCCTAGAG
758 GGAATAAACCCTGTCTAAGAGTAAATTTGTCATAATTAAGCGGAGTTGATTGCGCGCCTAGAG
83235610 ATAGGGTGAC
Statistics
Matches: 708, Mismatches: 91, Indels: 49
0.83 0.11 0.06
Matches are distributed among these distances:
824 14 0.02
825 1 0.00
826 109 0.15
827 46 0.06
828 47 0.07
829 201 0.28
830 13 0.02
831 103 0.15
832 94 0.13
833 80 0.11
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (827 bp):
CCGTAATTTATACATATTTTTACCCCATGCTTAACACATTTATGGATGATTTCTCCTTAGAATTG
GTGAATTCGATGCTCCTAATCCTTTAATTTCATGTTCTATACTTAGGTGAGCATAAGAGAGTAAA
AAAGAACGAGAAACGGGCCAAAAACGGAGAAAATAGAACCATATGGCAAAACAACACGGCCTGGA
CTTCCTCACACGGGCATGCCACACGACCGTGTCAATTTGGCAGAATCGAAGCACAACTCACACGA
GTAAAACACACACCCGTGCCCATTTAAAAGCTTGACCAAGACCTGAAGTAATCGCACACGGGCGT
GTCCCTGCCGAACCCAATAGTCCAATTGAGAAAAGGCCAATTTTGAGGACTCTTAGCATTCCAAA
GCCTATTAAAACACCTGAGAAGGCACAGAGGAAAGAGGACACAGAGAAGGAAGCAAGGAACTACT
CAAAGAAAGCCGATTGATCCATCTCAACAGCCGAATTCACCATCAAGACTGAAGATCTCCCCTCA
AGTTCCTTTAGGAGTTTTGGGTTTTCTTATGTTTTGTTATCATCATGCTTCTGAGATGTTTTCTT
TATAAGTATGAACTAAATCCCTAAATACCTAAGGGGAATGAAACCTAAGACATATCTTGTTATTA
TTATCTAAATTATATGATAAATATTTAACTTGTTCTTAATTATGTGTTCTTAATTCTTGTTTTGA
TATTCCAGGATACTGATTCAAGATAAGCTCTTATTCAGAGGAGGAATAAACCCTGTCTAAGAGTA
AATTTGTCATAATTAAGCGGAGTTGATTGCGCGCCTAGAGTTATAGA
Found at i:83244279 original size:45 final size:45
Alignment explanation
Indices: 83244228--83244318 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
83244218 GGTGAAACCT
*
83244228 AATAAGGGAATCCATAGATTGAGTTAATGTAATTCTAGGGTGTTA
1 AATAAGGGAATCCATAGATTGAGTTAATGCAATTCTAGGGTGTTA
83244273 AATAAGGGAATCCATAGATTGAGTTAATGCAATTCTAGGGTGTTA
1 AATAAGGGAATCCATAGATTGAGTTAATGCAATTCTAGGGTGTTA
83244318 A
1 A
83244319 TTAGAAAGAG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.36, C:0.08, G:0.24, T:0.32
Consensus pattern (45 bp):
AATAAGGGAATCCATAGATTGAGTTAATGCAATTCTAGGGTGTTA
Found at i:83248830 original size:12 final size:12
Alignment explanation
Indices: 83248813--83248842 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
83248803 ATCGTCAGAC
83248813 CGTGGGCATTGA
1 CGTGGGCATTGA
83248825 CGTGGGCATTGA
1 CGTGGGCATTGA
83248837 CGTGGG
1 CGTGGG
83248843 GGCTCTTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.13, C:0.17, G:0.47, T:0.23
Consensus pattern (12 bp):
CGTGGGCATTGA
Found at i:83251961 original size:27 final size:27
Alignment explanation
Indices: 83251931--83251989 Score: 118
Period size: 27 Copynumber: 2.2 Consensus size: 27
83251921 GTTTTAATGC
83251931 TTTGATAATGCATAAATTGTATAAATA
1 TTTGATAATGCATAAATTGTATAAATA
83251958 TTTGATAATGCATAAATTGTATAAATA
1 TTTGATAATGCATAAATTGTATAAATA
83251985 TTTGA
1 TTTGA
83251990 CTATGGTTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.42, C:0.03, G:0.12, T:0.42
Consensus pattern (27 bp):
TTTGATAATGCATAAATTGTATAAATA
Found at i:83254858 original size:17 final size:17
Alignment explanation
Indices: 83254829--83254870 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
83254819 AACCTGCCAG
83254829 AAGTAAATAAAAG-AAA
1 AAGTAAATAAAAGCAAA
*
83254845 AATTAAACTAAAAGCAAA
1 AAGTAAA-TAAAAGCAAA
83254863 AAGTAAAT
1 AAGTAAAT
83254871 TGCAATAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 6 0.27
17 7 0.32
18 9 0.41
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.17
Consensus pattern (17 bp):
AAGTAAATAAAAGCAAA
Found at i:83263784 original size:17 final size:16
Alignment explanation
Indices: 83263753--83263796 Score: 61
Period size: 18 Copynumber: 2.6 Consensus size: 16
83263743 AGAACCTGCC
83263753 AAAAGTAAATAAAAGA
1 AAAAGTAAATAAAAGA
*
83263769 AAAATTAAACTAAAAGAA
1 AAAAGTAAA-TAAAAG-A
83263787 AAAAGTAAAT
1 AAAAGTAAAT
83263797 TGCAATAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 8 0.33
17 7 0.29
18 9 0.38
ACGTcount: A:0.73, C:0.02, G:0.09, T:0.16
Consensus pattern (16 bp):
AAAAGTAAATAAAAGA
Found at i:83273644 original size:17 final size:18
Alignment explanation
Indices: 83273602--83273650 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
83273592 AGTTGAAAAG
83273602 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
83273621 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
83273638 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
83273651 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:83274534 original size:40 final size:40
Alignment explanation
Indices: 83274468--83274674 Score: 249
Period size: 40 Copynumber: 5.2 Consensus size: 40
83274458 AAATTGAATG
* * * **
83274468 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* *
83274507 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* *
83274547 ATATCCGGGCTAAGGCCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* * *
83274587 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTGATT
* *
83274627 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTA-GTGATT
83274667 ATATCCGG
1 ATATCCGG
83274675 TTATATTCCG
Statistics
Matches: 147, Mismatches: 17, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 17 0.12
40 128 0.87
41 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
Found at i:83281682 original size:17 final size:18
Alignment explanation
Indices: 83281640--83281688 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
83281630 AGTTGAAAAG
83281640 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
83281659 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
83281676 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
83281689 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:83282637 original size:40 final size:39
Alignment explanation
Indices: 83282564--83282679 Score: 144
Period size: 40 Copynumber: 2.9 Consensus size: 39
83282554 CCGAAGTTAT
* *
83282564 AGACCCGAAGGCAATTGTGCTAGTGGTTATATCCGGGCTA
1 AGACCCGAAGGC-ATTGTGCGAGTGATTATATCCGGGCTA
* * *
83282604 AGGCCCGAAGGCATTCGTGCGAGTTATTCTATCCGGGCTA
1 AGACCCGAAGGCATT-GTGCGAGTGATTATATCCGGGCTA
83282644 AGACCCGAAGGCATTTGTGC-ACGTGATTATATCCGG
1 AGACCCGAAGGCA-TTGTGCGA-GTGATTATATCCGG
83282680 TTATATTCCG
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 4 0.06
40 59 0.91
41 2 0.03
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.25
Consensus pattern (39 bp):
AGACCCGAAGGCATTGTGCGAGTGATTATATCCGGGCTA
Found at i:83286921 original size:41 final size:41
Alignment explanation
Indices: 83286841--83286921 Score: 94
Period size: 41 Copynumber: 2.0 Consensus size: 41
83286831 AGCCTGTATC
* * *
83286841 ATACACCGGCACAAAGCCTGCTAGACTCAAAGTCTGATTTT
1 ATACACCGGCACAAAGCCTACTAGACTCAAAGCCCGATTTT
*
83286882 ATACACCGGCA-ATAAGCCTACTAGGCAT-AAAGCCCGATTT
1 ATACACCGGCACA-AAGCCTACTAGAC-TCAAAGCCCGATTT
83286922 AACTCACCAG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
40 1 0.03
41 32 0.94
42 1 0.03
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.22
Consensus pattern (41 bp):
ATACACCGGCACAAAGCCTACTAGACTCAAAGCCCGATTTT
Found at i:83290773 original size:21 final size:21
Alignment explanation
Indices: 83290731--83290773 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
83290721 CACGCATGAT
* *
83290731 TAATATGTTATATGCTCAGTA
1 TAATATGTAATATGCACAGTA
83290752 TAATATGTAATATG-ACATGTA
1 TAATATGTAATATGCACA-GTA
83290773 T
1 T
83290774 GATCTATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.37, C:0.07, G:0.14, T:0.42
Consensus pattern (21 bp):
TAATATGTAATATGCACAGTA
Found at i:83290827 original size:20 final size:21
Alignment explanation
Indices: 83290788--83290827 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
83290778 TATAATATAA
*
83290788 TAAGTATGATATGTTATTTGG
1 TAAGCATGATATGTTATTTGG
*
83290809 TAAGCATGATCTG-TATTTG
1 TAAGCATGATATGTTATTTG
83290828 TTGTAAAGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.28, C:0.05, G:0.23, T:0.45
Consensus pattern (21 bp):
TAAGCATGATATGTTATTTGG
Found at i:83292956 original size:29 final size:29
Alignment explanation
Indices: 83292923--83293019 Score: 117
Period size: 29 Copynumber: 3.4 Consensus size: 29
83292913 ATGGTCTGGT
* *
83292923 ACACGCCCATGTGTTCCACACGGCCTGAG
1 ACACGCCCATGTGTTCCACATGGCCTGAC
*
83292952 ACACG-CCA-GTGTTCCACATGGTCTGAC
1 ACACGCCCATGTGTTCCACATGGCCTGAC
* ***
83292979 ACAAGCTTGTGTGTTCCACATGGCCTGAC
1 ACACGCCCATGTGTTCCACATGGCCTGAC
83293008 ACACGCCCATGT
1 ACACGCCCATGT
83293020 CACTTGCTTG
Statistics
Matches: 54, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
27 20 0.37
28 3 0.06
29 31 0.57
ACGTcount: A:0.22, C:0.34, G:0.23, T:0.22
Consensus pattern (29 bp):
ACACGCCCATGTGTTCCACATGGCCTGAC
Found at i:83293169 original size:42 final size:42
Alignment explanation
Indices: 83293095--83293217 Score: 120
Period size: 42 Copynumber: 2.9 Consensus size: 42
83293085 GCTTGTGTGG
* **
83293095 CTCACACATCCTAGGCACAAGCCCATAACCTTGCCTGTATAA
1 CTCACACAGCCTAGGCACAAGCCCATGCCCTTGCCTGTATAA
* * * ** **
83293137 CTCACACGGCCTAGGCACACGCCTATGCCCTTGCCCATATGG
1 CTCACACAGCCTAGGCACAAGCCCATGCCCTTGCCTGTATAA
* * *
83293179 CTCACACAGCCCAGGCACATGCCCATGTCCTTTGCCTGT
1 CTCACACAGCCTAGGCACAAGCCCATG-CCCTTGCCTGT
83293218 GTGAACCATG
Statistics
Matches: 63, Mismatches: 17, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
42 55 0.87
43 8 0.13
ACGTcount: A:0.23, C:0.39, G:0.17, T:0.21
Consensus pattern (42 bp):
CTCACACAGCCTAGGCACAAGCCCATGCCCTTGCCTGTATAA
Found at i:83302895 original size:2 final size:2
Alignment explanation
Indices: 83302888--83302923 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
83302878 TGTAAATCAT
83302888 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
83302924 GTTGAGTTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:83308268 original size:39 final size:40
Alignment explanation
Indices: 83308184--83308291 Score: 123
Period size: 39 Copynumber: 2.7 Consensus size: 40
83308174 CCCTTAGTTT
*
83308184 CATTAGCGGCGTTTCTA-AAAAAACGCCACTAAAGGATGAG
1 CATTAGCGGCGTTT-TATAAAAAACGCCGCTAAAGGATGAG
* * * *
83308224 TATTAGCGGCGTTTTATAAAAAA-GCCGGTATAGGTTGAG
1 CATTAGCGGCGTTTTATAAAAAACGCCGCTAAAGGATGAG
*
83308263 CATTAGCAGCGTTTT-TCAAAAAACGCCGC
1 CATTAGCGGCGTTTTAT-AAAAAACGCCGC
83308292 AAAAAAAATC
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
38 1 0.02
39 33 0.58
40 23 0.40
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (40 bp):
CATTAGCGGCGTTTTATAAAAAACGCCGCTAAAGGATGAG
Found at i:83308423 original size:28 final size:29
Alignment explanation
Indices: 83308378--83308432 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
83308368 AAAAAAGTAT
*
83308378 TTTATGTATATATTTATT-ATTTAAATGG
1 TTTATGTATATATTTATTGATTAAAATGG
*
83308406 TTTATTTATAT-TTATATTGATTAAAAT
1 TTTATGTATATATT-TATTGATTAAAAT
83308433 ACAATTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 2 0.09
28 14 0.61
29 7 0.30
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (29 bp):
TTTATGTATATATTTATTGATTAAAATGG
Found at i:83308854 original size:28 final size:29
Alignment explanation
Indices: 83308805--83308865 Score: 88
Period size: 28 Copynumber: 2.1 Consensus size: 29
83308795 AGGTAAAGGG
*
83308805 TTAAGGGTTATGGATTATGGGTTTAATGA
1 TTAAGGGTTATGGATTACGGGTTTAATGA
* *
83308834 TTAA-GGTTATGGGTTACGGGTTTAATGG
1 TTAAGGGTTATGGATTACGGGTTTAATGA
83308862 TTAA
1 TTAA
83308866 AGGGATAGGG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 25 0.86
29 4 0.14
ACGTcount: A:0.26, C:0.02, G:0.31, T:0.41
Consensus pattern (29 bp):
TTAAGGGTTATGGATTACGGGTTTAATGA
Found at i:83308937 original size:7 final size:7
Alignment explanation
Indices: 83308927--83309057 Score: 59
Period size: 7 Copynumber: 17.7 Consensus size: 7
83308917 ATGGGAAAGG
83308927 GGTTTAT
1 GGTTTAT
83308934 GGTTTAT
1 GGTTTAT
*
83308941 GAGTTAAT
1 G-GTTTAT
* *
83308949 GTTTTAA
1 GGTTTAT
*
83308956 GGTTTAG
1 GGTTTAT
83308963 GGATTT-T
1 GG-TTTAT
83308970 GGTTTAT
1 GGTTTAT
*
83308977 GGTTTAA
1 GGTTTAT
* **
83308984 GGGTTGG
1 GGTTTAT
*
83308991 GGTTTAA
1 GGTTTAT
83308998 GGTTTA-
1 GGTTTAT
*
83309004 GAGGTTAGT
1 G-GTTTA-T
83309013 GGTTATTCAT
1 GG-T-TT-AT
*
83309023 GGTTTAA
1 GGTTTAT
83309030 GGTTTCAT
1 GGTTT-AT
*
83309038 GGTTTAGG
1 GGTTTA-T
83309046 GGTTTAT
1 GGTTTAT
83309053 GGTTT
1 GGTTT
83309058 GGGGTTTAAA
Statistics
Matches: 93, Mismatches: 20, Indels: 22
0.69 0.15 0.16
Matches are distributed among these distances:
6 4 0.04
7 57 0.61
8 24 0.26
9 2 0.02
10 5 0.05
11 1 0.01
ACGTcount: A:0.18, C:0.02, G:0.33, T:0.47
Consensus pattern (7 bp):
GGTTTAT
Found at i:83309038 original size:15 final size:16
Alignment explanation
Indices: 83309018--83309057 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
83309008 TTAGTGGTTA
83309018 TTCATGGTTTA-AGGT
1 TTCATGGTTTAGAGGT
*
83309033 TTCATGGTTTAGGGGT
1 TTCATGGTTTAGAGGT
83309049 TT-ATGGTTT
1 TTCATGGTTT
83309058 GGGGTTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 18 0.78
16 5 0.22
ACGTcount: A:0.15, C:0.05, G:0.30, T:0.50
Consensus pattern (16 bp):
TTCATGGTTTAGAGGT
Found at i:83311396 original size:68 final size:68
Alignment explanation
Indices: 83311259--83311415 Score: 192
Period size: 68 Copynumber: 2.3 Consensus size: 68
83311249 TTAATTGTGA
* * * * *
83311259 AATC-AACAGATTCGGACAGCTATATTTACTAAATAAAACAGCATATATGGTAGTGCATCGAACA
1 AATCTAACACATTCGGACAGCTACATTTACCAAATAAAACAGCATAAATGATAGTGCATCGAACA
83311323 ATG
66 ATG
* * * *
83311326 AATTTAACACATTCGGACAGCTACATTTACCAAATAAAACAGCATAAATGAT-GATGCTTTGAAT
1 AATCTAACACATTCGGACAGCTACATTTACCAAATAAAACAGCATAAATGATAG-TGCATCGAAC
*
83311390 AGTG
65 AATG
*
83311394 AATCTAACACATTCGAACAGCT
1 AATCTAACACATTCGGACAGCT
83311416 TAATTTTAAG
Statistics
Matches: 76, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
67 4 0.05
68 72 0.95
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (68 bp):
AATCTAACACATTCGGACAGCTACATTTACCAAATAAAACAGCATAAATGATAGTGCATCGAACA
ATG
Found at i:83313805 original size:29 final size:29
Alignment explanation
Indices: 83313734--83313870 Score: 99
Period size: 29 Copynumber: 4.8 Consensus size: 29
83313724 GTGCCCACTG
* **
83313734 ACCGATCTCGCACACATAGTGCTCGGTTGA
1 ACCGATCTCGCACACACAGTGCTCAATT-A
*
83313764 A--GAACTCGCACACACAGTGCCTCAATT-
1 ACCGATCTCGCACACACAGTG-CTCAATTA
* **
83313791 ACCGATCTCGCACACATAGTGCTCGGTTA
1 ACCGATCTCGCACACACAGTGCTCAATTA
**
83313820 AAGGAAT-TCGCACACACAGTGCCTCAATT-
1 ACCG-ATCTCGCACACACAGTG-CTCAATTA
*
83313849 ACCGATCT--CACACATAGTGCTC
1 ACCGATCTCGCACACACAGTGCTC
83313871 GGTTAAAGGA
Statistics
Matches: 84, Mismatches: 16, Indels: 18
0.71 0.14 0.15
Matches are distributed among these distances:
26 3 0.04
27 11 0.13
28 23 0.27
29 39 0.46
30 8 0.10
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.22
Consensus pattern (29 bp):
ACCGATCTCGCACACACAGTGCTCAATTA
Found at i:83313854 original size:58 final size:58
Alignment explanation
Indices: 83313734--83313900 Score: 286
Period size: 56 Copynumber: 2.9 Consensus size: 58
83313724 GTGCCCACTG
* *
83313734 ACCGATCTCGCACACATAGTGCTCGGTTGAA-GAACTCGCACACACAGTGCCTCAATT
1 ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATT
83313791 ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATT
1 ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATT
*
83313849 ACCGATCT--CACACATAGTGCTCGGTTAAAGGAATTTGCACACACAGTGCCTC
1 ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTC
83313901 TAATCATTCG
Statistics
Matches: 106, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
56 43 0.41
57 30 0.28
58 33 0.31
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (58 bp):
ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATT
Found at i:83313890 original size:29 final size:29
Alignment explanation
Indices: 83313800--83313897 Score: 94
Period size: 29 Copynumber: 3.4 Consensus size: 29
83313790 TACCGATCTC
* *
83313800 GCACACATAGTGCTCGGTTAAAGGAATTC
1 GCACACACAGTGCTCGGTTAAAGGAATTT
** ** *
83313829 GCACACACAGTGCCTCAATT-ACCG-ATCT
1 GCACACACAGTG-CTCGGTTAAAGGAATTT
*
83313857 -CACACATAGTGCTCGGTTAAAGGAATTT
1 GCACACACAGTGCTCGGTTAAAGGAATTT
83313885 GCACACACAGTGC
1 GCACACACAGTGC
83313898 CTCTAATCAT
Statistics
Matches: 51, Mismatches: 14, Indels: 8
0.70 0.19 0.11
Matches are distributed among these distances:
26 5 0.10
27 12 0.24
28 5 0.10
29 24 0.47
30 5 0.10
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (29 bp):
GCACACACAGTGCTCGGTTAAAGGAATTT
Found at i:83314180 original size:42 final size:43
Alignment explanation
Indices: 83314067--83314184 Score: 193
Period size: 43 Copynumber: 2.8 Consensus size: 43
83314057 ACCGGCATTA
* *
83314067 TGCTAGGCACGAAGACCCGAATACACATCACTGGCACGAAGCC
1 TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCC
*
83314110 TACTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCC
1 TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCC
*
83314153 TGCTA-GCACAAAGGCCCGAATACACATCACCG
1 TGCTAGGCACGAAGGCCCGAATACACATCACCG
83314185 AGTTTCATGC
Statistics
Matches: 70, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
42 26 0.37
43 44 0.63
ACGTcount: A:0.33, C:0.34, G:0.22, T:0.11
Consensus pattern (43 bp):
TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCC
Found at i:83316587 original size:2 final size:2
Alignment explanation
Indices: 83316580--83316612 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
83316570 TCAATTTCAT
83316580 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
83316613 TTTCACTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:83316966 original size:68 final size:68
Alignment explanation
Indices: 83316861--83317017 Score: 201
Period size: 68 Copynumber: 2.3 Consensus size: 68
83316851 TTAAGTATGA
* * * *
83316861 AATC-AACAGATTCGGACAGCTACATTTACTAAATAAAACAGCATATATGGT-AGTGCATCGAAC
1 AATCTAACACATTCGGACAGCTACATTTACCAAATAAAACAGCATAAATGATGA-TGCATCGAAC
83316924 AATG
65 AATG
* * * *
83316928 AATTTAACACATTCGGACAGCTACATTTACCAAATAAAACAGCATAAATGATGATGCTTTGAATA
1 AATCTAACACATTCGGACAGCTACATTTACCAAATAAAACAGCATAAATGATGATGCATCGAACA
*
83316993 GTG
66 ATG
*
83316996 AATCTAACACATTCGAACAGCT
1 AATCTAACACATTCGGACAGCT
83317018 TAATTTTAAG
Statistics
Matches: 77, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
67 3 0.04
68 73 0.95
69 1 0.01
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.25
Consensus pattern (68 bp):
AATCTAACACATTCGGACAGCTACATTTACCAAATAAAACAGCATAAATGATGATGCATCGAACA
ATG
Found at i:83319024 original size:25 final size:25
Alignment explanation
Indices: 83318995--83319043 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
83318985 ATAGTTTTAC
83318995 CCCTAGGAGATAAATT-ACCGAAATA
1 CCCTAGG-GATAAATTGACCGAAATA
* *
83319020 CCCTAGGGTTAAATTGACCTAAAT
1 CCCTAGGGATAAATTGACCGAAAT
83319044 GCATGTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.24
Consensus pattern (25 bp):
CCCTAGGGATAAATTGACCGAAATA
Found at i:83320755 original size:26 final size:27
Alignment explanation
Indices: 83320684--83320756 Score: 89
Period size: 26 Copynumber: 2.7 Consensus size: 27
83320674 TAATTTCAAA
83320684 ATTTAAAGATTTCAAA-TTTAGAATAAT
1 ATTT-AAGATTTCAAATTTTAGAATAAT
83320711 ATTTAAGATTTCAAATTTTA-AATAAT
1 ATTTAAGATTTCAAATTTTAGAATAAT
* *
83320737 -TTTCAATATTTTAAATTTTA
1 ATTT-AAGATTTCAAATTTTA
83320757 TCTAATTCTT
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
25 3 0.07
26 31 0.74
27 8 0.19
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (27 bp):
ATTTAAGATTTCAAATTTTAGAATAAT
Found at i:83320891 original size:17 final size:18
Alignment explanation
Indices: 83320866--83320905 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
83320856 GTATATAGTT
* *
83320866 TATTGTTTTTTAATT-TA
1 TATTATTTTTAAATTATA
83320883 TATTATTTTTAAATTATA
1 TATTATTTTTAAATTATA
83320901 TATTA
1 TATTA
83320906 AATAAATCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (18 bp):
TATTATTTTTAAATTATA
Found at i:83322391 original size:41 final size:40
Alignment explanation
Indices: 83322303--83322425 Score: 149
Period size: 41 Copynumber: 3.0 Consensus size: 40
83322293 AAACACAGCA
* * * *
83322303 AAAAACAGAGCAATAGCAGCGTTTTTGATCCAAACGCCGCT
1 AAAAACTGAGCAATAGCGGTGTTTTTG-GCCAAACGCCGCT
83322344 AAAAACTGAGCAATAGCGGTGTTTTTGGCCCAAACGCCGCT
1 AAAAACTGAGCAATAGCGGTGTTTTTGG-CCAAACGCCGCT
* **
83322385 AAAAACTGTA-CAATAGCGGTGCTTTTGGAAAAACGCCGCT
1 AAAAACTG-AGCAATAGCGGTGTTTTTGGCCAAACGCCGCT
83322425 A
1 A
83322426 CAGGTCGAGG
Statistics
Matches: 73, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
40 11 0.15
41 61 0.84
42 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.22, T:0.21
Consensus pattern (40 bp):
AAAAACTGAGCAATAGCGGTGTTTTTGGCCAAACGCCGCT
Found at i:83322476 original size:41 final size:41
Alignment explanation
Indices: 83322398--83322587 Score: 299
Period size: 41 Copynumber: 4.6 Consensus size: 41
83322388 AACTGTACAA
* * *
83322398 TAGCGGTGCTTTTGGAAAAACGCCGCTACAGGTCGAGGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGCCGAGGTTT
* * * *
83322439 TAGTGGCGCTTCTGCAAAAACGCTGCTATAGGCCGAGGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGCCGAGGTTT
83322480 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGCCGAGGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGCCGAGGTTT
* *
83322521 TAGCGGCGCTTTTGGAAAAATGCCGCTATAGGCCGATGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGCCGAGGTTT
83322562 TAGCGGCGCTTTTGGAAAAACGCCGC
1 TAGCGGCGCTTTTGGAAAAACGCCGC
83322588 AAAAAAGTAA
Statistics
Matches: 135, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 135 1.00
ACGTcount: A:0.22, C:0.22, G:0.31, T:0.26
Consensus pattern (41 bp):
TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGCCGAGGTTT
Found at i:83322941 original size:18 final size:18
Alignment explanation
Indices: 83322896--83322946 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 18
83322886 TCCTTTGTTA
83322896 TATATATATATATATAAACT
1 TATA-ATATATAT-TAAACT
*
83322916 TCTAATATATATTAAGA-T
1 TATAATATATATTAA-ACT
83322934 TATAATATATATT
1 TATAATATATATT
83322947 TAAGGTGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 16 0.57
19 9 0.32
20 3 0.11
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (18 bp):
TATAATATATATTAAACT
Found at i:83323386 original size:15 final size:15
Alignment explanation
Indices: 83323366--83323397 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
83323356 TTTAATGTAG
*
83323366 AAGATAAATGTATAT
1 AAGATAAATATATAT
83323381 AAGATAAATATATAT
1 AAGATAAATATATAT
83323396 AA
1 AA
83323398 ATTATTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.31
Consensus pattern (15 bp):
AAGATAAATATATAT
Found at i:83323436 original size:24 final size:23
Alignment explanation
Indices: 83323369--83323436 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 23
83323359 AATGTAGAAG
* *
83323369 ATAAATGTATATAAGATAAATATAT
1 ATAAAT-TATATATGA-AAAAATAT
* *
83323394 ATAAATTATTATTTTAAAAAATAT
1 ATAAATTA-TATATGAAAAAATAT
83323418 ATAAATATATATATGAAAA
1 ATAAAT-TATATATGAAAA
83323437 GTGGTTTAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
24 23 0.66
25 12 0.34
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.38
Consensus pattern (23 bp):
ATAAATTATATATGAAAAAATAT
Found at i:83327218 original size:37 final size:37
Alignment explanation
Indices: 83327165--83327286 Score: 208
Period size: 37 Copynumber: 3.3 Consensus size: 37
83327155 TTATTACGAA
* *
83327165 GTCTTACTCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
83327202 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
83327239 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
* *
83327276 GACTCACCCGG
1 GTCTTACCCGG
83327287 AACATATTCC
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 81 1.00
ACGTcount: A:0.22, C:0.33, G:0.20, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
Found at i:83327579 original size:47 final size:47
Alignment explanation
Indices: 83327388--83327700 Score: 457
Period size: 47 Copynumber: 6.5 Consensus size: 47
83327378 TTTTACATTA
*
83327388 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCG
* *
83327437 GCCATTAGGCCTTATCACATATACATACACTTTTACATTCACCACATCG
1 GCCATTAGGCCTTATCACATAT--ATACACTTTCACATTCATCACATCG
83327486 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATAT--ATACACTTTCACATTCATCACATCG
*
83327535 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATTG
1 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
*
83327582 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATTG
1 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
* * * *
83327629 GCCA-TACGGCCTTATCACACATATGCACTTTCACATTCATCGCATTG
1 GCCATTA-GGCCTTATCACATATATACACTTTCACATTCATCACATCG
* *
83327676 GCCATTCGGCCTTATCACACATATA
1 GCCATTAGGCCTTATCACATATATA
83327701 TGTATATCAT
Statistics
Matches: 251, Mismatches: 9, Indels: 10
0.93 0.03 0.04
Matches are distributed among these distances:
46 2 0.01
47 137 0.55
48 1 0.00
49 111 0.44
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.31
Consensus pattern (47 bp):
GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
Found at i:83332186 original size:24 final size:24
Alignment explanation
Indices: 83332159--83332226 Score: 102
Period size: 24 Copynumber: 2.8 Consensus size: 24
83332149 ATTATTATTG
*
83332159 AAATATTCTCGTCCGTTTTATCAC
1 AAATATTATCGTCCGTTTTATCAC
*
83332183 AAATATTATTC-TCTGTTTTATCAC
1 AAATATTA-TCGTCCGTTTTATCAC
83332207 AAATATTATCGTCCGTTTTA
1 AAATATTATCGTCCGTTTTA
83332227 CCATTTAAGT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
23 2 0.05
24 35 0.90
25 2 0.05
ACGTcount: A:0.28, C:0.19, G:0.07, T:0.46
Consensus pattern (24 bp):
AAATATTATCGTCCGTTTTATCAC
Found at i:83332569 original size:9 final size:9
Alignment explanation
Indices: 83332557--83332649 Score: 107
Period size: 9 Copynumber: 10.4 Consensus size: 9
83332547 CATAATTTAC
83332557 ATAACTTAT
1 ATAACTTAT
*
83332566 ATAACATAT
1 ATAACTTAT
*
83332575 ATAACTTAC
1 ATAACTTAT
*
83332584 ATAACTCAT
1 ATAACTTAT
* *
83332593 ATAACATAC
1 ATAACTTAT
83332602 ATAACTTAT
1 ATAACTTAT
83332611 ATAACTTAT
1 ATAACTTAT
*
83332620 ATAACTTAG
1 ATAACTTAT
*
83332629 ATAA-ATAT
1 ATAACTTAT
*
83332637 ATAACTTAC
1 ATAACTTAT
83332646 ATAA
1 ATAA
83332650 TACTTAAATA
Statistics
Matches: 68, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
8 6 0.09
9 62 0.91
ACGTcount: A:0.49, C:0.14, G:0.01, T:0.35
Consensus pattern (9 bp):
ATAACTTAT
Found at i:83332569 original size:18 final size:18
Alignment explanation
Indices: 83332547--83332754 Score: 125
Period size: 18 Copynumber: 11.3 Consensus size: 18
83332537 TATTTGATAT
* *
83332547 CATAATTTACATAACTTA
1 CATAACTTATATAACTTA
* *
83332565 TATAACATATATAACTTA
1 CATAACTTATATAACTTA
* *
83332583 CATAACTCATATAACATA
1 CATAACTTATATAACTTA
83332601 CATAACTTATATAACTTA
1 CATAACTTATATAACTTA
* * *
83332619 TATAACTTAGATAA-ATA
1 CATAACTTATATAACTTA
* *
83332636 TATAACTTACATAATACTTA
1 CATAACTTATAT-A-ACTTA
* * *
83332656 AATATATTTTATATCATAATTTA
1 CATA-A--CT-TAT-ATAACTTA
83332679 CATAACTTATATAACTTA
1 CATAACTTATATAACTTA
* * *
83332697 GATAA-ATATATAATTTA
1 CATAACTTATATAACTTA
* * *
83332714 CATAA-ATATATATCATA
1 CATAACTTATATAACTTA
* *
83332731 TCATAAATTACATAACTTA
1 -CATAACTTATATAACTTA
83332750 CATAA
1 CATAA
83332755 TACTTAAATA
Statistics
Matches: 147, Mismatches: 33, Indels: 20
0.74 0.17 0.10
Matches are distributed among these distances:
17 36 0.24
18 78 0.53
19 12 0.08
20 6 0.04
21 1 0.01
22 1 0.01
23 8 0.05
24 3 0.02
25 2 0.01
ACGTcount: A:0.48, C:0.12, G:0.01, T:0.38
Consensus pattern (18 bp):
CATAACTTATATAACTTA
Found at i:83332632 original size:27 final size:27
Alignment explanation
Indices: 83332547--83332754 Score: 124
Period size: 27 Copynumber: 7.9 Consensus size: 27
83332537 TATTTGATAT
*
83332547 CATAATTTACATAACTTATATAACATA
1 CATAACTTACATAACTTATATAACATA
* *
83332574 TATAACTTACATAACTCATATAACATA
1 CATAACTTACATAACTTATATAACATA
* *
83332601 CATAACTTATATAACTTATATAACTTA
1 CATAACTTACATAACTTATATAACATA
* * * *
83332628 GATAA-ATATATAACTTACAT-A-ATA
1 CATAACTTACATAACTTATATAACATA
* * * ** **
83332652 CTTAA-ATATAT-TTTATATCATAATTTA
1 CATAACTTACATAACT-TAT-ATAACATA
* *
83332679 CATAACTTATATAACTTAGATAA-ATA
1 CATAACTTACATAACTTATATAACATA
* * * *
83332705 TATAATTTACATAA-ATATATATCATA
1 CATAACTTACATAACTTATATAACATA
* *
83332731 TCATAAATTACATAACTTACATAA
1 -CATAACTTACATAACTTATATAA
83332755 TACTTAAATA
Statistics
Matches: 138, Mismatches: 34, Indels: 17
0.73 0.18 0.09
Matches are distributed among these distances:
23 1 0.01
24 13 0.09
25 8 0.06
26 30 0.22
27 73 0.53
28 12 0.09
29 1 0.01
ACGTcount: A:0.48, C:0.12, G:0.01, T:0.38
Consensus pattern (27 bp):
CATAACTTACATAACTTATATAACATA
Found at i:83332726 original size:105 final size:105
Alignment explanation
Indices: 83332575--83332778 Score: 252
Period size: 105 Copynumber: 1.9 Consensus size: 105
83332565 TATAACATAT
* * * * * *
83332575 ATAACTTACATAACTCATATAACATACATAACTTATATAACTTATATAACT-TAGATAAA-TATA
1 ATAACTTACATAACTCAGATAACATACATAACTTACATAAATTATATCA-TAT-CATAAATTACA
* *
83332638 TAACTTACATAATACTTAAATATATTTTATATCATAATTTAC
64 TAACTTACATAATACTTAAATATATATCATATCATAATTTAC
* * * *
83332680 ATAACTTATATAACTTAGATAA-ATATATAATTTACATAAATATATATCATATCATAAATTACAT
1 ATAACTTACATAACTCAGATAACATACATAACTTACATAAAT-TATATCATATCATAAATTACAT
83332744 AACTTACATAATACTTAAATATATATCATATCATA
65 AACTTACATAATACTTAAATATATATCATATCATA
83332779 CATAACTAGT
Statistics
Matches: 84, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
104 21 0.25
105 63 0.75
ACGTcount: A:0.48, C:0.12, G:0.01, T:0.39
Consensus pattern (105 bp):
ATAACTTACATAACTCAGATAACATACATAACTTACATAAATTATATCATATCATAAATTACATA
ACTTACATAATACTTAAATATATATCATATCATAATTTAC
Found at i:83338666 original size:32 final size:33
Alignment explanation
Indices: 83338627--83338707 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 33
83338617 TTAGAATTAA
* *
83338627 TGTTTTTGGTTGTATTTTTTATGTTAAATTTG-
1 TGTTTTTGGTTGCATTTTTTATATTAAATTTGT
* *
83338659 TGTTTTTGGCTGCA--TTTTATATTATATTTGT
1 TGTTTTTGGTTGCATTTTTTATATTAAATTTGT
* *
83338690 TGTATTTGGTTGGATTTT
1 TGTTTTTGGTTGCATTTT
83338708 AATGCAGGAA
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
30 14 0.36
31 11 0.28
32 12 0.31
33 2 0.05
ACGTcount: A:0.15, C:0.02, G:0.20, T:0.63
Consensus pattern (33 bp):
TGTTTTTGGTTGCATTTTTTATATTAAATTTGT
Found at i:83338688 original size:30 final size:31
Alignment explanation
Indices: 83338643--83338708 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
83338633 TGGTTGTATT
* *
83338643 TTTTATGTTAAATTTG-TGTTTTTGGCTGCA
1 TTTTATATTAAATTTGTTGTATTTGGCTGCA
* * *
83338673 TTTTATATTATATTTGTTGTATTTGGTTGGA
1 TTTTATATTAAATTTGTTGTATTTGGCTGCA
83338704 TTTTA
1 TTTTA
83338709 ATGCAGGAAG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 14 0.47
31 16 0.53
ACGTcount: A:0.18, C:0.03, G:0.18, T:0.61
Consensus pattern (31 bp):
TTTTATATTAAATTTGTTGTATTTGGCTGCA
Found at i:83338838 original size:40 final size:42
Alignment explanation
Indices: 83338782--83338891 Score: 188
Period size: 43 Copynumber: 2.6 Consensus size: 42
83338772 GTAAAAAAAG
*
83338782 CGCCGCTAAAATCCTTGACCTTTAGCGCGCTTTTC-C-CAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGCGCTTTTCGCACAAA
83338822 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCGCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGC-GCGCTTTTCGCACAAA
83338865 CGCCGCTAAAAGCCTTGACCTTTAGCG
1 CGCCGCTAAAAGCCTTGACCTTTAGCG
83338892 GCGTTTTTTT
Statistics
Matches: 66, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
40 25 0.38
41 9 0.14
42 2 0.03
43 30 0.45
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.25
Consensus pattern (42 bp):
CGCCGCTAAAAGCCTTGACCTTTAGCGCGCTTTTCGCACAAA
Found at i:83339555 original size:19 final size:17
Alignment explanation
Indices: 83339522--83339569 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 17
83339512 GGAAGATATG
*
83339522 ATTTTTAATATATTTAT
1 ATTTTTAATACATTTAT
83339539 ACTTTTTAATAGCATTTAT
1 A-TTTTTAATA-CATTTAT
83339558 ATTGTTTAATAC
1 ATT-TTTAATAC
83339570 TTTTTATGCT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 1 0.04
18 12 0.44
19 14 0.52
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.56
Consensus pattern (17 bp):
ATTTTTAATACATTTAT
Found at i:83341464 original size:9 final size:9
Alignment explanation
Indices: 83341452--83341819 Score: 129
Period size: 9 Copynumber: 42.1 Consensus size: 9
83341442 TATTTGATAT
*
83341452 CATAATTTA
1 CATAACTTA
83341461 CATAACTTA
1 CATAACTTA
**
83341470 CATTCCTTA
1 CATAACTTA
*
83341479 CATAAATT-
1 CATAACTTA
* * *
83341487 TATATCATA
1 CATAACTTA
*
83341496 TCATAACTCA
1 -CATAACTTA
83341506 CATAACTTA
1 CATAACTTA
*
83341515 CAAAACTTA
1 CATAACTTA
83341524 CATAA--TA
1 CATAACTTA
* *
83341531 TATAA-ATA
1 CATAACTTA
*
83341539 TATAACTTA
1 CATAACTTA
83341548 CATAACTTA
1 CATAACTTA
*
83341557 CGTAA--TA
1 CATAACTTA
* *
83341564 AATAA-ATA
1 CATAACTTA
* ** *
83341572 TATTTCATA
1 CATAACTTA
*
83341581 TCATAATTTA
1 -CATAACTTA
83341591 CATAACTTA
1 CATAACTTA
**
83341600 CATTCCTTA
1 CATAACTTA
83341609 CATAA--TA
1 CATAACTTA
* * *
83341616 TATATCATA
1 CATAACTTA
83341625 TCATAACTTA
1 -CATAACTTA
83341635 CATAACTTA
1 CATAACTTA
*
83341644 CAAAACTTA
1 CATAACTTA
83341653 CATAA--TA
1 CATAACTTA
*
83341660 CATAA-ATA
1 CATAACTTA
*
83341668 TATAACTTA
1 CATAACTTA
83341677 CATAACTTA
1 CATAACTTA
*
83341686 CGTAA--TA
1 CATAACTTA
* *
83341693 AATAA-ATA
1 CATAACTTA
* ** *
83341701 TATTTCATA
1 CATAACTTA
*
83341710 TCATAATTTA
1 -CATAACTTA
83341720 CATAACTTA
1 CATAACTTA
* *
83341729 CACACCTTA
1 CATAACTTA
*
83341738 CATAAGTT-
1 CATAACTTA
* * *
83341746 TATATCATA
1 CATAACTTA
*
83341755 TTATAACTTA
1 -CATAACTTA
83341765 CATAACTTA
1 CATAACTTA
* *
83341774 TAAAACTTA
1 CATAACTTA
*
83341783 CAAAACTTA
1 CATAACTTA
* *
83341792 CAAAAGTTA
1 CATAACTTA
*
83341801 CAAAACTTA
1 CATAACTTA
*
83341810 CTTAACTTA
1 CATAACTTA
83341819 C
1 C
83341820 GTAATACATA
Statistics
Matches: 265, Mismatches: 77, Indels: 34
0.70 0.20 0.09
Matches are distributed among these distances:
7 28 0.11
8 29 0.11
9 182 0.69
10 26 0.10
ACGTcount: A:0.46, C:0.17, G:0.01, T:0.36
Consensus pattern (9 bp):
CATAACTTA
Found at i:83341580 original size:29 final size:31
Alignment explanation
Indices: 83341512--83341574 Score: 81
Period size: 33 Copynumber: 2.0 Consensus size: 31
83341502 CTCACATAAC
* *
83341512 TTACAAAACTTACATAATATATAAATATATAA
1 TTACATAACTTACATAATAAATAAATATAT-A
*
83341544 CTTACATAACTTACGTAATAAATAAATATAT
1 -TTACATAACTTACATAATAAATAAATATAT
83341575 TTCATATCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.35
Consensus pattern (31 bp):
TTACATAACTTACATAATAAATAAATATATA
Found at i:83341584 original size:130 final size:130
Alignment explanation
Indices: 83341351--83341835 Score: 749
Period size: 130 Copynumber: 3.7 Consensus size: 130
83341341 ATCTTAATGT
* *
83341351 TAAATATATATCATATCATAATTTACAAAACTTACAAAACTTACATAATATATAAATATATAACT
1 TAAATATATATCATATCATAACTTACATAACTTACAAAACTTACATAATATATAAATATATAACT
* *
83341416 TACATAACTTAAGTAATAAATAAATATATTTGATATCATAATTTACATAACTTACATTCCTTACA
66 TACATAACTTACGTAATAAATAAATATATTTCATATCATAATTTACATAACTTACATTCCTTACA
* *
83341481 TAAATTTATATCATATCATAACTCACATAACTTACAAAACTTACATAATATATAAATATATAACT
1 TAAATATATATCATATCATAACTTACATAACTTACAAAACTTACATAATATATAAATATATAACT
83341546 TACATAACTTACGTAATAAATAAATATATTTCATATCATAATTTACATAACTTACATTCCTTACA
66 TACATAACTTACGTAATAAATAAATATATTTCATATCATAATTTACATAACTTACATTCCTTACA
*
83341611 T-AATATATATCATATCATAACTTACATAACTTACAAAACTTACATAATACATAAATATATAACT
1 TAAATATATATCATATCATAACTTACATAACTTACAAAACTTACATAATATATAAATATATAACT
**
83341675 TACATAACTTACGTAATAAATAAATATATTTCATATCATAATTTACATAACTTACACACCTTACA
66 TACATAACTTACGTAATAAATAAATATATTTCATATCATAATTTACATAACTTACATTCCTTACA
* * * * * * * *
83341740 TAAGTTTATATCATATTATAACTTACATAACTTATAAAACTTACAAAACT-TACAAAAGTTACAA
1 TAAATATATATCATATCATAACTTACATAACTTACAAAACTTACATAA-TATA-TAAA--TATAT
* *
83341804 AACTTACTTAACTTACGTAATACATAAATATA
62 AACTTACATAACTTACGTAATAAATAAATATA
83341836 CACTTGAAAA
Statistics
Matches: 328, Mismatches: 22, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
129 124 0.38
130 167 0.51
131 4 0.01
133 33 0.10
ACGTcount: A:0.47, C:0.15, G:0.01, T:0.36
Consensus pattern (130 bp):
TAAATATATATCATATCATAACTTACATAACTTACAAAACTTACATAATATATAAATATATAACT
TACATAACTTACGTAATAAATAAATATATTTCATATCATAATTTACATAACTTACATTCCTTACA
Found at i:83341709 original size:29 final size:31
Alignment explanation
Indices: 83341641--83341703 Score: 81
Period size: 33 Copynumber: 2.0 Consensus size: 31
83341631 CTTACATAAC
* *
83341641 TTACAAAACTTACATAATACATAAATATATAA
1 TTACATAACTTACATAATAAATAAATATAT-A
*
83341673 CTTACATAACTTACGTAATAAATAAATATAT
1 -TTACATAACTTACATAATAAATAAATATAT
83341704 TTCATATCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.52, C:0.13, G:0.02, T:0.33
Consensus pattern (31 bp):
TTACATAACTTACATAATAAATAAATATATA
Found at i:83341723 original size:259 final size:261
Alignment explanation
Indices: 83341353--83341835 Score: 774
Period size: 259 Copynumber: 1.9 Consensus size: 261
83341343 CTTAATGTTA
* *
83341353 AATATATATCATATCATAATTTACAAAACTTACAAAACTTACATAATATATAAATATATAACTTA
1 AATATATATCATATCATAACTTACAAAACTTACAAAACTTACATAATACATAAATATATAACTTA
* **
83341418 CATAACTTAAGTAATAAATAAATATATTTGATATCATAATTTACATAACTTACATTCCTTACATA
66 CATAACTTAAGTAATAAATAAATATATTTCATATCATAATTTACATAACTTACACACCTTACATA
* * * *
83341483 AATTTATATCATATCATAACTCACATAACTTACAAAACTTACATAA-TATA-TAAA-TATATAAC
131 AATTTATATCATATCATAACTCACATAACTTACAAAACTTACAAAACT-TACAAAAGTACAAAAC
83341545 TTACATAACTTACGTAATAAATAAATATATTTCATATCATAATTTACATAACTTACATTCCTTAC
195 TTACATAACTTACGTAATAAATAAATATATTTCATATCATAATTTACATAACTTACATTCCTTAC
83341610 AT
260 AT
*
83341612 AATATATATCATATCATAACTTACATAACTTACAAAACTTACATAATACATAAATATATAACTTA
1 AATATATATCATATCATAACTTACAAAACTTACAAAACTTACATAATACATAAATATATAACTTA
*
83341677 CATAACTTACGTAATAAATAAATATATTTCATATCATAATTTACATAACTTACACACCTTACATA
66 CATAACTTAAGTAATAAATAAATATATTTCATATCATAATTTACATAACTTACACACCTTACATA
* * * *
83341742 AGTTTATATCATATTATAACTTACATAACTTATAAAACTTACAAAACTTACAAAAGTTACAAAAC
131 AATTTATATCATATCATAACTCACATAACTTACAAAACTTACAAAACTTACAAAAG-TACAAAAC
* *
83341807 TTACTTAACTTACGTAATACATAAATATA
195 TTACATAACTTACGTAATAAATAAATATA
83341836 CACTTGAAAA
Statistics
Matches: 203, Mismatches: 17, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
259 166 0.82
260 4 0.02
262 33 0.16
ACGTcount: A:0.47, C:0.15, G:0.01, T:0.36
Consensus pattern (261 bp):
AATATATATCATATCATAACTTACAAAACTTACAAAACTTACATAATACATAAATATATAACTTA
CATAACTTAAGTAATAAATAAATATATTTCATATCATAATTTACATAACTTACACACCTTACATA
AATTTATATCATATCATAACTCACATAACTTACAAAACTTACAAAACTTACAAAAGTACAAAACT
TACATAACTTACGTAATAAATAAATATATTTCATATCATAATTTACATAACTTACATTCCTTACA
T
Found at i:83347436 original size:21 final size:21
Alignment explanation
Indices: 83347389--83347482 Score: 99
Period size: 21 Copynumber: 4.6 Consensus size: 21
83347379 ACTTAGAGCG
* *
83347389 GAGGTAGCAGAGAGGGAGGC-
1 GAGGCAGCAGCGAGGGAGGCA
83347409 -A-GCAGCAGCGAGGGAGGCA
1 GAGGCAGCAGCGAGGGAGGCA
*
83347428 -ACGGCAGCAGCGAGAGAGGCA
1 GA-GGCAGCAGCGAGGGAGGCA
*
83347449 GAGGCAAG-AGTGAGGGAGGCA
1 GAGGC-AGCAGCGAGGGAGGCA
83347470 GAGGCAGCAGCGA
1 GAGGCAGCAGCGA
83347483 TGGCAGCAGA
Statistics
Matches: 62, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
18 15 0.24
19 2 0.03
20 2 0.03
21 40 0.65
22 3 0.05
ACGTcount: A:0.32, C:0.17, G:0.49, T:0.02
Consensus pattern (21 bp):
GAGGCAGCAGCGAGGGAGGCA
Found at i:83347452 original size:27 final size:24
Alignment explanation
Indices: 83347406--83347455 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
83347396 CAGAGAGGGA
*
83347406 GGCAGCAGCAGCGAGGGAGGCAAC
1 GGCAGCAGCAGAGAGGGAGGCAAC
83347430 GGCAGCAGCGAGAGAGGCAGAGGCAA
1 GGCAGCAGC-AGAGAGG--GAGGCAA
83347456 GAGTGAGGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 9 0.41
25 6 0.27
27 7 0.32
ACGTcount: A:0.32, C:0.22, G:0.46, T:0.00
Consensus pattern (24 bp):
GGCAGCAGCAGAGAGGGAGGCAAC
Done.