Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 28 of 130
Found at i:7175777 original size:24 final size:24
Alignment explanation
Indices: 7175745--7175790 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
7175735 AATCACATTC
* *
7175745 CGCTTACCATATGCAATTCCAGTT
1 CGCTTACCACATACAATTCCAGTT
7175769 CGCTTACCACATACAATTCCAG
1 CGCTTACCACATACAATTCCAG
7175791 CTTGCATATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.28, C:0.33, G:0.11, T:0.28
Consensus pattern (24 bp):
CGCTTACCACATACAATTCCAGTT
Found at i:7182607 original size:31 final size:31
Alignment explanation
Indices: 7182571--7182631 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
7182561 ACTACAATAC
7182571 CTTTCTAAGAAAACTGCCTCACTTTATTGTT
1 CTTTCTAAGAAAACTGCCTCACTTTATTGTT
**
7182602 CTTTCTAAGAAAACTGCCTCGGTTTATTGT
1 CTTTCTAAGAAAACTGCCTCACTTTATTGT
7182632 GTCATTCCTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.25, C:0.21, G:0.13, T:0.41
Consensus pattern (31 bp):
CTTTCTAAGAAAACTGCCTCACTTTATTGTT
Found at i:7214882 original size:117 final size:117
Alignment explanation
Indices: 7214737--7214970 Score: 414
Period size: 117 Copynumber: 2.0 Consensus size: 117
7214727 AAAATTAAAT
* *
7214737 TTATTTTTATATATTAATAGAATAAATTCAAGTAATTTAATTTTTATTTCAAGTCAAGTTCAAAT
1 TTATTTTTATATATTAATAAAATAAATTCAAGTAATTTAATTTTTATTTCAAATCAAGTTCAAAT
* * *
7214802 TAAAACAAAATAAAATTCAATTCAATTTAAATCGAGTTTTAAATTTTTAATA
66 TAAAACAAAATAAAATTCAATTCAATTTAAATCAAATTTCAAATTTTTAATA
*
7214854 TTATTTTTATATATTAATAAAATAAATTCAAGTAATTTAATTTTTATTTCAAATCAAGTTTAAAT
1 TTATTTTTATATATTAATAAAATAAATTCAAGTAATTTAATTTTTATTTCAAATCAAGTTCAAAT
7214919 TAAAACAAAATAAAATTCAATTCAATTTAAATCAAATTTCAAATTTTTAATA
66 TAAAACAAAATAAAATTCAATTCAATTTAAATCAAATTTCAAATTTTTAATA
7214971 GAATTTAAAC
Statistics
Matches: 111, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
117 111 1.00
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.44
Consensus pattern (117 bp):
TTATTTTTATATATTAATAAAATAAATTCAAGTAATTTAATTTTTATTTCAAATCAAGTTCAAAT
TAAAACAAAATAAAATTCAATTCAATTTAAATCAAATTTCAAATTTTTAATA
Found at i:7218690 original size:268 final size:268
Alignment explanation
Indices: 7218198--7218725 Score: 792
Period size: 268 Copynumber: 2.0 Consensus size: 268
7218188 TGACCTCACG
*
7218198 GTTTTATCCTACAAAAGGCGGCTCACAAGGTTGAGGTGGTGTAAACCCTTTTATACCCTAATGAC
1 GTTTTATCCTACAAAAGGCGCCTCACAAGGTTGAGGTGGTGTAAACCCTTTTATACCCTAATGAC
* * *
7218263 CCTCCTATTATGTTCGATGTGGGATTCATGACTCTTCCTTAGGTTTGTGACATTCTCTCCCACCT
66 CCTCCTATTATGTTCGATGTGAGATTCAAGACTCTTCCTTAGGTCTGTGACATTCTCTCCCACCT
* * * * * * * *
7218328 AACCTCGTGACGTCCTCGTTATGGAGGCTGGTCACCCTGCCTACTTCCCTCGAGGTGCTTGACGT
131 AACCTCGTGACGCCCTCGTCACGGAGGCTAGTCACCCTACCTACCTCCCTCGAGGCGCTTGACGA
* *
7218393 GGGTCGAACGGTTTAAGGTTGGCTCTGATACCACTTGTCACGGGTCGAGACTTAACCTCCGAACC
196 GGATCGAACGGTTTAAGGCTGGCTCTGATACCACTTGTCACGGGTCGAGACTTAACCTCCGAACC
7218458 TACGCACA
261 TACGCACA
* * *
7218466 GTTTTGTCCTACAAAAGGCGCCTCACAAGGTTGAGGTGGTGTGAACCCTTTTATA-CCTCAGTGA
1 GTTTTATCCTACAAAAGGCGCCTCACAAGGTTGAGGTGGTGTAAACCCTTTTATACCCT-AATGA
*
7218530 CCCTCCTATTATGTTTGATGTGAGATTCAAGACTCTTCCTTAGGTCTGTGACATTCTC-CTCCAT
65 CCCTCCTATTATGTTCGATGTGAGATTCAAGACTCTTCCTTAGGTCTGTGACATTCTCTC-CCA-
* * *
7218594 CC-AACCTCGTGACGCCCTTGTCACGGAGGCTAGTCACCCTACCTACCTCCCTCGAGGCGTTTGG
128 CCTAACCTCGTGACGCCCTCGTCACGGAGGCTAGTCACCCTACCTACCTCCCTCGAGGCGCTTGA
* * *
7218658 CGAGGATCGAACGGTTTAAGGCTGGTTCTGATACCACTTGTCATGGGTCGAGACTTAAGCTCCGA
193 CGAGGATCGAACGGTTTAAGGCTGGCTCTGATACCACTTGTCACGGGTCGAGACTTAACCTCCGA
7218723 ACC
258 ACC
7218726 CGCGCGGCTC
Statistics
Matches: 233, Mismatches: 24, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
267 4 0.02
268 227 0.97
269 2 0.01
ACGTcount: A:0.20, C:0.27, G:0.23, T:0.29
Consensus pattern (268 bp):
GTTTTATCCTACAAAAGGCGCCTCACAAGGTTGAGGTGGTGTAAACCCTTTTATACCCTAATGAC
CCTCCTATTATGTTCGATGTGAGATTCAAGACTCTTCCTTAGGTCTGTGACATTCTCTCCCACCT
AACCTCGTGACGCCCTCGTCACGGAGGCTAGTCACCCTACCTACCTCCCTCGAGGCGCTTGACGA
GGATCGAACGGTTTAAGGCTGGCTCTGATACCACTTGTCACGGGTCGAGACTTAACCTCCGAACC
TACGCACA
Found at i:7219298 original size:375 final size:371
Alignment explanation
Indices: 7218466--7219466 Score: 1170
Period size: 375 Copynumber: 2.7 Consensus size: 371
7218456 CCTACGCACA
* ** *
7218466 GTTTTGTCCTACAAAAGGCGCCTCACAAGGTTGAGGTGGTGTGAACCCTTTTATACCTCAGTGAC
1 GTTTTATCCTACAAAAGGCGCCTCACAA-GAAGAGGTGGTGTGAACCCTTTTATACCCCAGTGAC
* * *
7218531 CCTCCTATTATGTTTGATGTGAGATTCAAGACTCTTCCTTAGGTCTGTGACATTC-TCCTCCATC
65 CCTCCTATTATGTTTGATGTGGGATTCAAGACTCTTCCTTAGGTCCGTGACATTCTTCC-CCACC
* * * * * * *
7218595 CAACCTCGTGACGCCCTTGTCACGGAGGCTAGTCACCCTACCTACCTCCCTCGAGGCGTTTGGCG
129 CAACCTCATGACACCCTCGTCACGGAGGTTAGTCACCCTGCCTACCTCCCTCGAGGTGCTTGGCG
* * *
7218660 AGGATCGAACGGTTTAAGGC-TGGTTCTGATACCACTTGTCATGGGTCGAGACTTAAGC-TCCGA
194 TGGATCGAACGGTTT-AGGCGTGGCTCTGATACCACTTGTCACGGGTCGAGACTTAAGCTTCCGA
* * * * * * * * *
7218723 ACCCGCGCGGCTCCGGGACCCGGGCATTCACCCTTCTGGCATCTCAGATTAGCCTAACCGCTACG
258 ACCCACGCGGCTCCGAGACCCGGGCATCCACCCTTCCGACATCTCAGATCAACCTAACCACCACG
* *
7218788 GTTCACACCCTTGTGAGGTATTATCCATTTTGGCCCCCTTGACCTCACG
323 GTTCACACCCTTGTGAGGTATTATCCACTTTGACCCCCTTGACCTCACG
* * * *
7218837 ATTTTACCCTACAAAAGGCACCTCACAAGGAAGAGGTGGTATGAACCCTTTTATACCCCAGTGAC
1 GTTTTATCCTACAAAAGGCGCCTCACAA-GAAGAGGTGGTGTGAACCCTTTTATACCCCAGTGAC
* * *
7218902 CCTCCTATTATGTTTGATGTGGGATTCATGACTCTTTCTTAGGTCCATGACATTCTTCCCCACCC
65 CCTCCTATTATGTTTGATGTGGGATTCAAGACTCTTCCTTAGGTCCGTGACATTCTTCCCCACCC
* * * * *
7218967 AACCTTATGATACCCTCGTCACGGAGGTTGGCCACCCTGCCTACCTCCCTCGAGGTGCTCGGCGT
130 AACCTCATGACACCCTCGTCACGGAGGTTAGTCACCCTGCCTACCTCCCTCGAGGTGCTTGGCGT
* *
7219032 GAATCGAACGGTTTAGGCGTTGGCCTCTGATACCACTTGTCGACGGGTTGAGACTTAAGCTTCCG
195 GGATCGAACGGTTTAGGCG-TGG-CTCTGATACCACTTGTC-ACGGGTCGAGACTTAAGCTTCCG
* * * ** * *
7219097 AACCCAACGCGGCTTCGAGACCTGGGCATCCA-CTTATCCGATGTCTTAGATCAATCT-ACCTAC
257 AACCC-ACGCGGCTCCGAGACCCGGGCATCCACCCT-TCCGACATCTCAGATCAACCTAACC-AC
* * * * *
7219160 CACGGTTCACACCTTTGTGAGGTATTATCCGCTTTGATCCCC-TGGCCTTACG
319 CACGGTTCACACCCTTGTGAGGTATTATCCACTTTGACCCCCTTGACCTCACG
* * * *
7219212 GTTTTATCCTACAAAAGGTGCCTCATAAGACAGAGATGGTGTGAACCCTTTTATACCCCAATGAC
1 GTTTTATCCTACAAAAGGCGCCTCACAAGA-AGAGGTGGTGTGAACCCTTTTATACCCCAGTGAC
* * * * * * *
7219277 CCTCTTATTATGTTCGATGTGGGATTCAGGATTCCTCCTTAGGTCCGTGACATTCTTCCGCACCT
65 CCTCCTATTATGTTTGATGTGGGATTCAAGACTCTTCCTTAGGTCCGTGACATTCTTCCCCACCC
* * * * * * *
7219342 AATCTCATGACACCCTCGTCACGGAGGTTAATCACCCTGACTACCTCCTTCAAGATGCTTGACGT
130 AACCTCATGACACCCTCGTCACGGAGGTTAGTCACCCTGCCTACCTCCCTCGAGGTGCTTGGCGT
* * *
7219407 GGATCGAACGGTTTAGG-GCTGACTTTGATACCATTTGTCACGGGTCGAGACTTAAGCTTC
195 GGATCGAACGGTTTAGGCG-TGGCTCTGATACCACTTGTCACGGGTCGAGACTTAAGCTTC
7219467 GAATTAGGTA
Statistics
Matches: 531, Mismatches: 89, Indels: 19
0.83 0.14 0.03
Matches are distributed among these distances:
370 4 0.01
371 177 0.33
372 26 0.05
373 31 0.06
374 21 0.04
375 201 0.38
376 71 0.13
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.28
Consensus pattern (371 bp):
GTTTTATCCTACAAAAGGCGCCTCACAAGAAGAGGTGGTGTGAACCCTTTTATACCCCAGTGACC
CTCCTATTATGTTTGATGTGGGATTCAAGACTCTTCCTTAGGTCCGTGACATTCTTCCCCACCCA
ACCTCATGACACCCTCGTCACGGAGGTTAGTCACCCTGCCTACCTCCCTCGAGGTGCTTGGCGTG
GATCGAACGGTTTAGGCGTGGCTCTGATACCACTTGTCACGGGTCGAGACTTAAGCTTCCGAACC
CACGCGGCTCCGAGACCCGGGCATCCACCCTTCCGACATCTCAGATCAACCTAACCACCACGGTT
CACACCCTTGTGAGGTATTATCCACTTTGACCCCCTTGACCTCACG
Found at i:7220298 original size:37 final size:37
Alignment explanation
Indices: 7220232--7220304 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 37
7220222 AAAACTTAAA
7220232 CCTGCTCAGCCACCCTAACCATGCCAACCATCCTACT
1 CCTGCTCAGCCACCCTAACCATGCCAACCATCCTACT
* * *
7220269 CCTGGTCAGCCATCCT-ACCCTGCCAAACCATCCTAC
1 CCTGCTCAGCCACCCTAACCATGCC-AACCATCCTAC
7220305 AGCCACCATT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
36 7 0.22
37 25 0.78
ACGTcount: A:0.23, C:0.48, G:0.10, T:0.19
Consensus pattern (37 bp):
CCTGCTCAGCCACCCTAACCATGCCAACCATCCTACT
Found at i:7224159 original size:21 final size:20
Alignment explanation
Indices: 7224111--7224161 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 20
7224101 ATAGTTTGTA
* *
7224111 AATTTGATTTAATTTTATATT
1 AATTT-ATTTAATTATATATG
7224132 AACTTTATTTAATTATATGATG
1 AA-TTTATTTAATTATAT-ATG
7224154 AATTTATT
1 AATTTATT
7224162 GATTAATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 19 0.73
22 7 0.27
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.57
Consensus pattern (20 bp):
AATTTATTTAATTATATATG
Found at i:7225714 original size:32 final size:32
Alignment explanation
Indices: 7225669--7225746 Score: 77
Period size: 32 Copynumber: 2.4 Consensus size: 32
7225659 ATTATGTTTG
** *
7225669 TTCAAGATGAAGTCAACAA-GACCCTTAAAGCA
1 TTCAAGAACAAGTC-ACAATGACCCTTAAAGAA
* * * *
7225701 TTCAAGAACAAGTCTCAATGATCTTTGAAGAA
1 TTCAAGAACAAGTCACAATGACCCTTAAAGAA
7225733 TTCAAGAACAAGTC
1 TTCAAGAACAAGTC
7225747 TGCTTGACCT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
31 3 0.08
32 35 0.92
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.23
Consensus pattern (32 bp):
TTCAAGAACAAGTCACAATGACCCTTAAAGAA
Found at i:7233658 original size:32 final size:32
Alignment explanation
Indices: 7233622--7233693 Score: 92
Period size: 32 Copynumber: 2.2 Consensus size: 32
7233612 AACAAGAACC
*
7233622 TTGAAGCATTCATGAACAAGTCT-CAACGACCT
1 TTGAAGCATTCAAGAACAAGTCTGC-ACGACCT
* **
7233654 TTGAAGAATTCAAGAACAAGTCTGCTTGACCT
1 TTGAAGCATTCAAGAACAAGTCTGCACGACCT
7233686 TTGAAGCA
1 TTGAAGCA
7233694 AATTTTTACT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
32 33 0.97
33 1 0.03
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (32 bp):
TTGAAGCATTCAAGAACAAGTCTGCACGACCT
Found at i:7236965 original size:28 final size:28
Alignment explanation
Indices: 7236925--7236981 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
7236915 AAGATTTAAT
7236925 TCAAGATTTAAATTCTCCAATAGTTTGG
1 TCAAGATTTAAATTCTCCAATAGTTTGG
**
7236953 TCAAGATTTAAATTCTGTAATAGTTTGG
1 TCAAGATTTAAATTCTCCAATAGTTTGG
7236981 T
1 T
7236982 AGGGTTGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.42
Consensus pattern (28 bp):
TCAAGATTTAAATTCTCCAATAGTTTGG
Found at i:7237180 original size:20 final size:20
Alignment explanation
Indices: 7237140--7237180 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
7237130 AAGAATTAAT
* *
7237140 TAAAACAAATAAAATATAAA
1 TAAAACAAATAAAAAACAAA
*
7237160 TAAAATAAATAAAAAACAAA
1 TAAAACAAATAAAAAACAAA
7237180 T
1 T
7237181 TACAAAATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.20
Consensus pattern (20 bp):
TAAAACAAATAAAAAACAAA
Found at i:7238172 original size:6 final size:6
Alignment explanation
Indices: 7238161--7238220 Score: 77
Period size: 6 Copynumber: 10.2 Consensus size: 6
7238151 GCTAGAAACC
* * * *
7238161 AAAATT AAAATT AAAATC AAAGTT AAAATT AAAATT AACATT -ATATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
7238208 AAAATT AAAATT A
1 AAAATT AAAATT A
7238221 TGGCTTTTAT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
5 4 0.09
6 42 0.91
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (6 bp):
AAAATT
Found at i:7238210 original size:17 final size:17
Alignment explanation
Indices: 7238188--7238221 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
7238178 CAAAGTTAAA
*
7238188 ATTAAAATTAACATTAT
1 ATTAAAATTAAAATTAT
7238205 ATTAAAATTAAAATTAT
1 ATTAAAATTAAAATTAT
7238222 GGCTTTTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
ATTAAAATTAAAATTAT
Found at i:7238213 original size:23 final size:24
Alignment explanation
Indices: 7238161--7238220 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
7238151 GCTAGAAACC
7238161 AAAATTAAAATTAAAATCAAAGTT
1 AAAATTAAAATTAAAATCAAAGTT
* * *
7238185 AAAATTAAAATTAACATTATA-TT
1 AAAATTAAAATTAAAATCAAAGTT
7238208 AAAATTAAAATTA
1 AAAATTAAAATTA
7238221 TGGCTTTTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
23 15 0.45
24 18 0.55
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (24 bp):
AAAATTAAAATTAAAATCAAAGTT
Found at i:7247652 original size:12 final size:12
Alignment explanation
Indices: 7247625--7247663 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
7247615 AATTTTAATC
**
7247625 TTATTATTATAA
1 TTATTATTATTT
*
7247637 TTATTTTTATTT
1 TTATTATTATTT
7247649 TTATTATTATTT
1 TTATTATTATTT
7247661 TTA
1 TTA
7247664 ATTTCATCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (12 bp):
TTATTATTATTT
Found at i:7247652 original size:18 final size:18
Alignment explanation
Indices: 7247625--7247663 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
7247615 AATTTTAATC
7247625 TTATTATTATAATTATTT
1 TTATTATTATAATTATTT
* *
7247643 TTATTTTTATTATTATTT
1 TTATTATTATAATTATTT
7247661 TTA
1 TTA
7247664 ATTTCATCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (18 bp):
TTATTATTATAATTATTT
Found at i:7248388 original size:12 final size:13
Alignment explanation
Indices: 7248368--7248396 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
7248358 ATAGAAGTAA
7248368 AAAACAAAAAAAG
1 AAAACAAAAAAAG
7248381 AAAA-AAAAAAAG
1 AAAACAAAAAAAG
7248393 AAAA
1 AAAA
7248397 GAGAAATGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.90, C:0.03, G:0.07, T:0.00
Consensus pattern (13 bp):
AAAACAAAAAAAG
Found at i:7248388 original size:17 final size:17
Alignment explanation
Indices: 7248366--7248398 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
7248356 AAATAGAAGT
*
7248366 AAAAAACAAA-AAAAGA
1 AAAAAAAAAAGAAAAGA
7248382 AAAAAAAAAAGAAAAGA
1 AAAAAAAAAAGAAAAGA
7248399 GAAATGGCGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.88, C:0.03, G:0.09, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAGAAAAGA
Found at i:7250132 original size:6 final size:6
Alignment explanation
Indices: 7250118--7250165 Score: 69
Period size: 6 Copynumber: 8.0 Consensus size: 6
7250108 ATAAGGCTAG
* * *
7250118 AAATCA AAATTA AAATTA AAATTA AAATCA AAGTTA AAATTA AAATTA
1 AAATTA AAATTA AAATTA AAATTA AAATTA AAATTA AAATTA AAATTA
7250166 TGGGCTTTCA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (6 bp):
AAATTA
Found at i:7250145 original size:24 final size:24
Alignment explanation
Indices: 7250118--7250165 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
7250108 ATAAGGCTAG
7250118 AAATCAAAATTAAAATTAAAATTA
1 AAATCAAAATTAAAATTAAAATTA
*
7250142 AAATCAAAGTTAAAATTAAAATTA
1 AAATCAAAATTAAAATTAAAATTA
7250166 TGGGCTTTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (24 bp):
AAATCAAAATTAAAATTAAAATTA
Found at i:7264129 original size:14 final size:14
Alignment explanation
Indices: 7264110--7264144 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
7264100 AAAGCCAAAA
7264110 TTATTTTCTATTAT
1 TTATTTTCTATTAT
*
7264124 TTATTTTCTCTTAT
1 TTATTTTCTATTAT
*
7264138 CTATTTT
1 TTATTTT
7264145 TTCTAACAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.71
Consensus pattern (14 bp):
TTATTTTCTATTAT
Found at i:7269480 original size:11 final size:11
Alignment explanation
Indices: 7269464--7269490 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
7269454 TATGGCTATA
7269464 GCAACATCTTT
1 GCAACATCTTT
7269475 GCAACATCTTT
1 GCAACATCTTT
7269486 GCAAC
1 GCAAC
7269491 CGCCATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.30, C:0.30, G:0.11, T:0.30
Consensus pattern (11 bp):
GCAACATCTTT
Found at i:7271913 original size:62 final size:61
Alignment explanation
Indices: 7271816--7271936 Score: 183
Period size: 62 Copynumber: 2.0 Consensus size: 61
7271806 ATTAGGTTGC
*
7271816 ATTTATCATATGAAGTCACTGAAAATTAATTTTAAAATTATTTATATTAGATTATATAATTGT
1 ATTTATCATATGAAGTCACTGAAAATAAATTTTAAAATTATTTATA--AGATTATATAATTGT
*
7271879 ATTTATCATATGAAAGT-ACT-AAAATAAATTTTAAAATTATTTATAATATTATATAATT
1 ATTTATCATATG-AAGTCACTGAAAATAAATTTTAAAATTATTTATAAGATTATATAATT
7271937 TGATACTCTT
Statistics
Matches: 55, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
60 12 0.22
62 24 0.44
63 15 0.27
64 4 0.07
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (61 bp):
ATTTATCATATGAAGTCACTGAAAATAAATTTTAAAATTATTTATAAGATTATATAATTGT
Found at i:7273901 original size:19 final size:18
Alignment explanation
Indices: 7273860--7273917 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 18
7273850 ATAATGTTTT
* *
7273860 TATTAATTTTTTACATGA
1 TATTAATTATTTGCATGA
7273878 TTATTAATTAATTTGCATGA
1 -TATTAATT-ATTTGCATGA
*
7273898 TATTTATTA-TTGCATGA
1 TATTAATTATTTGCATGA
7273915 TAT
1 TAT
7273918 ATTATATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
17 11 0.31
18 1 0.03
19 15 0.43
20 8 0.23
ACGTcount: A:0.33, C:0.05, G:0.09, T:0.53
Consensus pattern (18 bp):
TATTAATTATTTGCATGA
Found at i:7273922 original size:15 final size:16
Alignment explanation
Indices: 7273890--7273922 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
7273880 ATTAATTAAT
7273890 TTGCATGATATTTATTA
1 TTGCATGATA-TTATTA
7273907 TTGCATGATA-TATTA
1 TTGCATGATATTATTA
7273922 T
1 T
7273923 ATTATTATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
17 10 0.62
ACGTcount: A:0.30, C:0.06, G:0.12, T:0.52
Consensus pattern (16 bp):
TTGCATGATATTATTA
Found at i:7279826 original size:20 final size:20
Alignment explanation
Indices: 7279801--7279849 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
7279791 CTGGATTATC
7279801 GCATTTGCATCATATAAAAA
1 GCATTTGCATCATATAAAAA
* * *
7279821 GCATTTGCATCATTTAGAAG
1 GCATTTGCATCATATAAAAA
7279841 GCATTTGCA
1 GCATTTGCA
7279850 AAATTTTTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (20 bp):
GCATTTGCATCATATAAAAA
Found at i:7280096 original size:24 final size:24
Alignment explanation
Indices: 7280060--7280108 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
7280050 TATTTGAAAA
* *
7280060 TTTGATTGTGAATCTCTAAAATTT
1 TTTGACTGAGAATCTCTAAAATTT
*
7280084 TTTGACTGAGAATCTTTAAAATTT
1 TTTGACTGAGAATCTCTAAAATTT
7280108 T
1 T
7280109 GGATGTGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.31, C:0.08, G:0.12, T:0.49
Consensus pattern (24 bp):
TTTGACTGAGAATCTCTAAAATTT
Found at i:7280144 original size:46 final size:46
Alignment explanation
Indices: 7280094--7280183 Score: 117
Period size: 46 Copynumber: 2.0 Consensus size: 46
7280084 TTTGACTGAG
* * * *
7280094 AATCTTTAAAATTTTGGATGTGAAACCTTGAAAATTTTCTAATAAA
1 AATCTTCAAAATTTTGGATGTAAAACATTAAAAATTTTCTAATAAA
* * *
7280140 AATCTTCAAAATTTTGGTTGTAAAATATTAAAAATTTTTTAATA
1 AATCTTCAAAATTTTGGATGTAAAACATTAAAAATTTTCTAATA
7280184 TGAATTTTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.42
Consensus pattern (46 bp):
AATCTTCAAAATTTTGGATGTAAAACATTAAAAATTTTCTAATAAA
Found at i:7280164 original size:23 final size:23
Alignment explanation
Indices: 7280094--7280177 Score: 62
Period size: 23 Copynumber: 3.7 Consensus size: 23
7280084 TTTGACTGAG
* * *
7280094 AATCTTTAAAATTTTGGATGTGA
1 AATCTTAAAAATTTTGGTTGTAA
* * * **
7280117 AACCTTGAAAATTTT-CTAATAAA
1 AATCTTAAAAATTTTGGTTGT-AA
*
7280140 AATCTTCAAAATTTTGGTTGTAA
1 AATCTTAAAAATTTTGGTTGTAA
*
7280163 AATATTAAAAATTTT
1 AATCTTAAAAATTTT
7280178 TTAATATGAA
Statistics
Matches: 45, Mismatches: 14, Indels: 4
0.71 0.22 0.06
Matches are distributed among these distances:
22 1 0.02
23 42 0.93
24 2 0.04
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.42
Consensus pattern (23 bp):
AATCTTAAAAATTTTGGTTGTAA
Found at i:7280571 original size:34 final size:34
Alignment explanation
Indices: 7280507--7280710 Score: 169
Period size: 34 Copynumber: 5.9 Consensus size: 34
7280497 AAGAATCGAT
** *
7280507 AATTCTTGTGAATCTGAAAATTCTTGCGAATCTAA
1 AATTCTTGCAAATCT-AAAATTCTTACGAATCTAA
* * **
7280542 AATTCTTGCAAAACTAAAGTTCTTACGAAT-TTG
1 AATTCTTGCAAATCTAAAATTCTTACGAATCTAA
* *
7280575 AGTTCTTGCAAATCTAAAAATTCTTACGAAACTAA
1 AATTCTTGCAAATCT-AAAATTCTTACGAATCTAA
** * *
7280610 AATTCTTGTGAAGCTAAAATTCTTATGAATCTAA
1 AATTCTTGCAAATCTAAAATTCTTACGAATCTAA
* * * **
7280644 AATTCTTGCGAATCTAAAAGTT-TTATGAATTTTTG
1 AATTCTTGCAAATCTAAAA-TTCTTACGAA-TCTAA
* * *
7280679 AATTCTTGCAAATATGAAATTCTGACGAATCT
1 AATTCTTGCAAATCTAAAATTCTTACGAATCT
7280711 TTGAATTTTT
Statistics
Matches: 134, Mismatches: 30, Indels: 11
0.77 0.17 0.06
Matches are distributed among these distances:
33 14 0.10
34 71 0.53
35 49 0.37
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (34 bp):
AATTCTTGCAAATCTAAAATTCTTACGAATCTAA
Found at i:7280673 original size:17 final size:17
Alignment explanation
Indices: 7280507--7280673 Score: 104
Period size: 17 Copynumber: 9.8 Consensus size: 17
7280497 AAGAATCGAT
*
7280507 AATTCTTGTGAATCTGAA
1 AATTCTTATGAATCT-AA
**
7280525 AATTCTTGCGAATCTAA
1 AATTCTTATGAATCTAA
*** *
7280542 AATTCTTGCAAAACTAA
1 AATTCTTATGAATCTAA
* * **
7280559 AGTTCTTACGAAT-TTG
1 AATTCTTATGAATCTAA
* ***
7280575 AGTTCTTGCAAATCTAAA
1 AATTCTTATGAATCT-AA
* *
7280593 AATTCTTACGAAACTAA
1 AATTCTTATGAATCTAA
* *
7280610 AATTCTTGTGAAGCTAA
1 AATTCTTATGAATCTAA
7280627 AATTCTTATGAATCTAA
1 AATTCTTATGAATCTAA
**
7280644 AATTCTTGCGAATCTAA
1 AATTCTTATGAATCTAA
7280661 AAGTT-TTATGAAT
1 AA-TTCTTATGAAT
7280674 TTTTGAATTC
Statistics
Matches: 120, Mismatches: 26, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
16 12 0.10
17 81 0.68
18 27 0.22
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.37
Consensus pattern (17 bp):
AATTCTTATGAATCTAA
Found at i:7280926 original size:17 final size:18
Alignment explanation
Indices: 7280893--7280926 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
7280883 AACCTCTAAG
*
7280893 AATCTTCGAATTTTTTAA
1 AATCTTCGAATTATTTAA
7280911 AATCTT-GAATTATTTA
1 AATCTTCGAATTATTTA
7280927 CGAACTTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.35, C:0.09, G:0.06, T:0.50
Consensus pattern (18 bp):
AATCTTCGAATTATTTAA
Found at i:7281006 original size:18 final size:18
Alignment explanation
Indices: 7280966--7281007 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
7280956 AATTCTTACA
* *
7280966 AATTTT-GAATCTTTGTG
1 AATTTTGGAATCATTATG
*
7280983 AGTTTTGGAATCATTATG
1 AATTTTGGAATCATTATG
7281001 AATTTTG
1 AATTTTG
7281008 AATTTTATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.26, C:0.05, G:0.19, T:0.50
Consensus pattern (18 bp):
AATTTTGGAATCATTATG
Found at i:7281472 original size:18 final size:19
Alignment explanation
Indices: 7281439--7281478 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
7281429 TAAAAAAGTC
*
7281439 AAAAAAAAAGTCAAAGCAA
1 AAAAAAAAAGTAAAAGCAA
*
7281458 AAAAAAAAAG-AAAAGGAA
1 AAAAAAAAAGTAAAAGCAA
7281476 AAA
1 AAA
7281479 TCAGAAACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.80, C:0.05, G:0.12, T:0.03
Consensus pattern (19 bp):
AAAAAAAAAGTAAAAGCAA
Found at i:7281737 original size:13 final size:13
Alignment explanation
Indices: 7281719--7281748 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
7281709 TTCTAAATTT
*
7281719 TTTTTTTATTTGG
1 TTTTTTTATTTGA
7281732 TTTTTTTATTTGA
1 TTTTTTTATTTGA
7281745 TTTT
1 TTTT
7281749 AGTTGTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.10, C:0.00, G:0.10, T:0.80
Consensus pattern (13 bp):
TTTTTTTATTTGA
Found at i:7282514 original size:38 final size:37
Alignment explanation
Indices: 7282470--7282577 Score: 121
Period size: 38 Copynumber: 2.8 Consensus size: 37
7282460 TGTTTTTATT
7282470 TATTTATTTTTGCATGATTATTA-ATTAATTTGCATGA
1 TATTTATTTTTGCATGATTATTATATTAA-TTGCATGA
7282507 TATTTTATTTTAAATGCATGA-TAGTTTATATTAATTGCATGA
1 TA-TTTATTTT---TGCATGATTA--TTATATTAATTGCATGA
*
7282549 TATTTATTATTGCATGATATATTATATTA
1 TATTTATTTTTGCATGAT-TATTATATTA
7282578 TTATTGCTTG
Statistics
Matches: 61, Mismatches: 1, Indels: 17
0.77 0.01 0.22
Matches are distributed among these distances:
37 2 0.03
38 23 0.38
40 4 0.07
41 14 0.23
42 13 0.21
43 5 0.08
ACGTcount: A:0.32, C:0.05, G:0.10, T:0.53
Consensus pattern (37 bp):
TATTTATTTTTGCATGATTATTATATTAATTGCATGA
Found at i:7282526 original size:21 final size:21
Alignment explanation
Indices: 7282500--7282577 Score: 83
Period size: 21 Copynumber: 3.9 Consensus size: 21
7282490 TTAATTAATT
*
7282500 TGCATGATATTTTATTTTAAA
1 TGCATGATATTTTATATTAAA
* *
7282521 TGCATGATAGTTTATATTAAT
1 TGCATGATATTTTATATTAAA
*
7282542 TGCATGATA--TT-TATT-AT
1 TGCATGATATTTTATATTAAA
*
7282559 TGCATGATATATTATATTA
1 TGCATGATATTTTATATTA
7282578 TTATTGCTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
17 11 0.22
18 4 0.08
19 4 0.08
20 4 0.08
21 27 0.54
ACGTcount: A:0.33, C:0.05, G:0.12, T:0.50
Consensus pattern (21 bp):
TGCATGATATTTTATATTAAA
Found at i:7282576 original size:17 final size:17
Alignment explanation
Indices: 7282533--7282576 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
7282523 CATGATAGTT
7282533 TATATTA-ATTGCATGA
1 TATATTATATTGCATGA
7282549 TAT-TTATTATTGCATGA
1 TATATTA-TATTGCATGA
7282566 TATATTATATT
1 TATATTATATT
7282577 ATTATTGCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 3 0.12
16 3 0.12
17 16 0.64
18 3 0.12
ACGTcount: A:0.34, C:0.05, G:0.09, T:0.52
Consensus pattern (17 bp):
TATATTATATTGCATGA
Found at i:7286982 original size:3 final size:3
Alignment explanation
Indices: 7286974--7287022 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
7286964 TGGAAAATCT
*
7286974 ATA ATA ATA ATA ATA ATA ATA ATA ATA TTA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
7287022 A
1 A
7287023 AAGATATTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:7288443 original size:53 final size:53
Alignment explanation
Indices: 7288370--7288476 Score: 171
Period size: 53 Copynumber: 2.0 Consensus size: 53
7288360 AACCATAAAT
7288370 AGAAAAAAGTAATTAAAATAAAATAAAATTGAAAGGCAA-ATAAAACAAGAAAA
1 AGAAAAAAGTAATTAAAATAAAATAAAATTGAAAGGCAAGA-AAAACAAGAAAA
* * *
7288423 AGAAAAAAGTAATTACAATAAAATAAATTTGAAGGGCAAGAAAAACAAGAAAA
1 AGAAAAAAGTAATTAAAATAAAATAAAATTGAAAGGCAAGAAAAACAAGAAAA
7288476 A
1 A
7288477 TCTGAAAGGC
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
53 49 0.98
54 1 0.02
ACGTcount: A:0.67, C:0.05, G:0.13, T:0.15
Consensus pattern (53 bp):
AGAAAAAAGTAATTAAAATAAAATAAAATTGAAAGGCAAGAAAAACAAGAAAA
Found at i:7289281 original size:16 final size:16
Alignment explanation
Indices: 7289260--7289295 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
7289250 ATGAAAGTAT
7289260 ATTTATATATCAATA-A
1 ATTTATATAT-AATACA
7289276 ATTTATATATAATACA
1 ATTTATATATAATACA
7289292 ATTT
1 ATTT
7289296 TTTTTTATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (16 bp):
ATTTATATATAATACA
Found at i:7290243 original size:20 final size:21
Alignment explanation
Indices: 7290189--7290245 Score: 77
Period size: 20 Copynumber: 2.9 Consensus size: 21
7290179 CAAAAATTAG
7290189 TAAATA-AAATTAA-TTAAAA
1 TAAATATAAATTAATTTAAAA
7290208 TAAATATAAATT-ATTTAAAA
1 TAAATATAAATTAATTTAAAA
*
7290228 TAAATGT-AATTAATTTAA
1 TAAATATAAATTAATTTAA
7290246 GCAAAACCAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
19 11 0.32
20 23 0.68
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.39
Consensus pattern (21 bp):
TAAATATAAATTAATTTAAAA
Found at i:7290347 original size:16 final size:17
Alignment explanation
Indices: 7290326--7290357 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
7290316 TACTTTGGTT
7290326 AGAATT-AAATTAATTA
1 AGAATTAAAATTAATTA
7290342 AGAATTAAAATTAATT
1 AGAATTAAAATTAATT
7290358 GATAGATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (17 bp):
AGAATTAAAATTAATTA
Found at i:7290408 original size:78 final size:76
Alignment explanation
Indices: 7290193--7290421 Score: 223
Period size: 77 Copynumber: 2.9 Consensus size: 76
7290183 AATTAGTAAA
* * * * **
7290193 TAAAATTAATTAAAATAAATATAAATTATTTAAA-ATAAATGTAATTAATTTAAG-CAAAACCAA
1 TAAAATTAATTGAAATAAATTTAAATTA-TTAAATATAAATG-AATTAATTT-GGTCAGAATTAA
7290256 ATTAAATTAAGAAT
63 ATTAAATTAAGAAT
* * * * * *
7290270 TAAAATTAATTGAAAGAGATTTAATTTATTAAAAGTAAAAAAT-AATTACTTTGGTTAGAATTAA
1 TAAAATTAATTGAAATAAATTTAAATTATT-AAA-T-ATAAATGAATTAATTTGGTCAGAATTAA
7290334 ATT-AATTAAGAAT
63 ATTAAATTAAGAAT
*
7290347 TAAAATTAATTGATAGATAAATTTAAGTTATTAAATATAAATGCAATTAATTTGGTCAGAATTAA
1 TAAAATTAATTGA-A-ATAAATTTAAATTATTAAATATAAATG-AATTAATTTGGTCAGAATTAA
*
7290412 ATAAAATTAA
63 ATTAAATTAA
7290422 CTCAAATTGA
Statistics
Matches: 123, Mismatches: 19, Indels: 18
0.77 0.12 0.11
Matches are distributed among these distances:
76 7 0.06
77 51 0.41
78 41 0.33
79 19 0.15
80 5 0.04
ACGTcount: A:0.53, C:0.03, G:0.08, T:0.36
Consensus pattern (76 bp):
TAAAATTAATTGAAATAAATTTAAATTATTAAATATAAATGAATTAATTTGGTCAGAATTAAATT
AAATTAAGAAT
Found at i:7290733 original size:78 final size:76
Alignment explanation
Indices: 7290547--7290741 Score: 225
Period size: 78 Copynumber: 2.5 Consensus size: 76
7290537 TCGATATAAG
* * * * *
7290547 ATTAAAAATAAATATAGTTAATTTAATCAAAAACAAATTAAATTAAGAACTAAAATTTATTGAGA
1 ATTAAATATAAATATAATTAATTTGATCAAAATCAAA-TCAATTAAGAACTAAAATTTATTGAGA
*
7290612 GAGATTTAATGT
65 GAAATTTAATGT
* * * *
7290624 ATTAAAT-TAAATATAATTAATTTGGTTAAAATCAAATCAATTAAGAATTAAAA-TTATTTGATA
1 ATTAAATATAAATATAATTAATTTGATCAAAATCAAATCAATTAAGAACTAAAATTTA-TTGAGA
7290687 GAAAATTTTAA-GCT
65 G-AAA-TTTAATG-T
*
7290701 ATTAAATATAAATACAATTAATTTGATCAAAATCAAATCAA
1 ATTAAATATAAATATAATTAATTTGATCAAAATCAAATCAA
7290742 ATCAATCAAA
Statistics
Matches: 100, Mismatches: 13, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
74 3 0.03
75 21 0.21
76 27 0.27
77 19 0.19
78 30 0.30
ACGTcount: A:0.52, C:0.05, G:0.07, T:0.35
Consensus pattern (76 bp):
ATTAAATATAAATATAATTAATTTGATCAAAATCAAATCAATTAAGAACTAAAATTTATTGAGAG
AAATTTAATGT
Found at i:7294842 original size:40 final size:40
Alignment explanation
Indices: 7294449--7294843 Score: 240
Period size: 40 Copynumber: 9.7 Consensus size: 40
7294439 GATCATTATG
* * **
7294449 ACCTCTAGGCAAAATTTTAGATTTTTGAACAATTTCCAAA
1 ACCTCTAGGTAAAATTTTAAATTTTTGAATGATTTCCAAA
* ** *
7294489 GACCTCTAGGTGAAATCATAAATTTTTAAATGATTTCCAAA
1 -ACCTCTAGGTAAAATTTTAAATTTTTGAATGATTTCCAAA
* * * * * * *
7294530 GCCTTTGGGCAAAATCTTAAATTTTTCAATGACTTT-CAAG
1 ACCTCTAGGTAAAATTTTAAATTTTTGAATGA-TTTCCAAA
* * * ** *
7294570 ACTTC-CGAGCAAAATTTTAAATTTTTGAAAAATTTTCAAAA
1 ACCTCTAG-GTAAAATTTTAAATTTTTGAATGA-TTTCCAAA
* * * ** *
7294611 ACCTCTAAGTGAAATTTCAAACTTTTAAAATGAATT-CAAA
1 ACCTCTAGGTAAAATTTTAAA-TTTTTGAATGATTTCCAAA
* ** * * *
7294651 AGGCCTCCAGGTAAAATCATAACTTTTGGAATGATTTCCAAG
1 A--CCTCTAGGTAAAATTTTAAATTTTTGAATGATTTCCAAA
* * * * *
7294693 A-CTTTTGGATAAATTTTTAAATTTTTAAAAGATTTCCAAA
1 ACCTCTAGG-TAAAATTTTAAATTTTTGAATGATTTCCAAA
* * * * *
7294733 GACTTCCAAGTGAAATTTTAAATTTTTAAAATGATTTCCAAA
1 -ACCTCTAGGTAAAATTTTAAATTTTT-GAATGATTTCCAAA
* * *
7294775 GACCTCTAAGTAAAATCTTAAATTTTTGAATGATTTCTAAA
1 -ACCTCTAGGTAAAATTTTAAATTTTTGAATGATTTCCAAA
*
7294816 ACCTCTAGGTGAAATTTTAAATTTTTGA
1 ACCTCTAGGTAAAATTTTAAATTTTTGA
7294844 TAGATTTTAA
Statistics
Matches: 264, Mismatches: 78, Indels: 25
0.72 0.21 0.07
Matches are distributed among these distances:
39 5 0.02
40 105 0.40
41 92 0.35
42 62 0.23
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.37
Consensus pattern (40 bp):
ACCTCTAGGTAAAATTTTAAATTTTTGAATGATTTCCAAA
Found at i:7294850 original size:40 final size:42
Alignment explanation
Indices: 7294480--7294841 Score: 230
Period size: 41 Copynumber: 8.9 Consensus size: 42
7294470 TTTTTGAACA
* **
7294480 ATTTCCAAAGACCTCTAGGTGAAATCATAAATTTTT-AAATG
1 ATTTCCAAAGACCTCTAAGTGAAATTTTAAATTTTTAAAATG
* ** ** * *
7294521 ATTTCCAAAG-CCTTTGGGCAAAATCTTAAATTTTT-CAATG
1 ATTTCCAAAGACCTCTAAGTGAAATTTTAAATTTTTAAAATG
* ** **
7294561 ACTTT-C-AAGACTTCCGAGCAAAATTTTAAATTTTTGAAAA--
1 A-TTTCCAAAGACCTCTAAGTGAAATTTTAAATTTTT-AAAATG
* * * *
7294601 ATTTTCAAAAACCTCTAAGTGAAATTTCAAACTTTTAAAATG
1 ATTTCCAAAGACCTCTAAGTGAAATTTTAAATTTTTAAAATG
* * * * * * ** * **
7294643 AATTCAAAAGGCCTCCAGGTAAAATCAT-AACTTTTGGAATG
1 ATTTCCAAAGACCTCTAAGTGAAATTTTAAATTTTTAAAATG
* **
7294684 ATTTCC-AAGA-CTTTTGGAT-AAATTTTTAAATTTTTAAAA-G
1 ATTTCCAAAGACCTCTAAG-TGAAA-TTTTAAATTTTTAAAATG
* *
7294724 ATTTCCAAAGACTTCCAAGTGAAATTTTAAATTTTTAAAATG
1 ATTTCCAAAGACCTCTAAGTGAAATTTTAAATTTTTAAAATG
* * *
7294766 ATTTCCAAAGACCTCTAAGTAAAATCTTAAATTTTT-GAATG
1 ATTTCCAAAGACCTCTAAGTGAAATTTTAAATTTTTAAAATG
* *
7294807 ATTTCTAAA-ACCTCTAGGTGAAATTTTAAATTTTT
1 ATTTCCAAAGACCTCTAAGTGAAATTTTAAATTTTT
7294842 GATAGATTTT
Statistics
Matches: 248, Mismatches: 58, Indels: 31
0.74 0.17 0.09
Matches are distributed among these distances:
39 13 0.05
40 88 0.35
41 90 0.36
42 57 0.23
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.37
Consensus pattern (42 bp):
ATTTCCAAAGACCTCTAAGTGAAATTTTAAATTTTTAAAATG
Found at i:7294850 original size:123 final size:121
Alignment explanation
Indices: 7294448--7294843 Score: 415
Period size: 123 Copynumber: 3.2 Consensus size: 121
7294438 TGATCATTAT
* * * **
7294448 GACCTCTAGGCAAAATTTTAGATTTTTGAACAATTTCCAAAGACCTCTAGGTGAAATCATAAATT
1 GACCTCTAGGCAAAATTTTAAATTTTTGAAAAATTTCCAAAGACCTCTAAGTGAAATTTTAAATT
* * * *
7294513 TTT-AAATGATTTCCAAAGCCTTTGGGCAAAATCTTAAATTTTTCAATGACTTTCAA
66 TTTAAAATGATTTCCAAAGCCTCTAGGTAAAATCTTAAATTTTTGAATGA-TTTCAA
* * * * * *
7294569 GACTTC-CGAGCAAAATTTTAAATTTTTGAAAAATTTTCAAAAACCTCTAAGTGAAATTTCAAAC
1 GACCTCTAG-GCAAAATTTTAAATTTTTGAAAAATTTCCAAAGACCTCTAAGTGAAATTTTAAAT
* * * * * *
7294633 TTTTAAAATGAATTCAAAAGGCCTCCAGGTAAAATCATAACTTTTGGAATGATTTCCAA
65 TTTTAAAATGATTTCCAAA-GCCTCTAGGTAAAATCTTAAATTTTTGAATGATTT-CAA
* * * *
7294692 GA-CTTTTGG-ATAAATTTTTAAATTTTT-AAAAGATTTCCAAAGACTTCCAAGTGAAATTTTAA
1 GACCTCTAGGCA-AAA-TTTTAAATTTTTGAAAA-ATTTCCAAAGACCTCTAAGTGAAATTTTAA
*
7294754 ATTTTTAAAATGATTTCCAAAGACCTCTAAGTAAAATCTTAAATTTTTGAATGATTTCTAA
63 ATTTTTAAAATGATTTCCAAAG-CCTCTAGGTAAAATCTTAAATTTTTGAATGATTTC-AA
* **
7294815 AACCTCTAGGTGAAATTTTAAATTTTTGA
1 GACCTCTAGGCAAAATTTTAAATTTTTGA
7294844 TAGATTTTAA
Statistics
Matches: 221, Mismatches: 41, Indels: 23
0.78 0.14 0.08
Matches are distributed among these distances:
120 1 0.00
121 56 0.25
122 26 0.12
123 129 0.58
124 9 0.04
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.37
Consensus pattern (121 bp):
GACCTCTAGGCAAAATTTTAAATTTTTGAAAAATTTCCAAAGACCTCTAAGTGAAATTTTAAATT
TTTAAAATGATTTCCAAAGCCTCTAGGTAAAATCTTAAATTTTTGAATGATTTCAA
Found at i:7294943 original size:22 final size:22
Alignment explanation
Indices: 7294918--7295029 Score: 86
Period size: 22 Copynumber: 5.1 Consensus size: 22
7294908 GCACATTCTT
* *
7294918 AAAGTTCTCTAGACATAATTAC
1 AAAGTCCTCTAGACATAATTTC
7294940 AAAGTCCTCTTAG-CAT-ATTCTC
1 AAAGTCCTC-TAGACATAATT-TC
* *
7294962 AAAGTCCT-TCGGACATAATTCC
1 AAAGTCCTCT-AGACATAATTTC
* *
7294984 AAAGTCCTATAAACATAATTTC
1 AAAGTCCTCTAGACATAATTTC
* * * *
7295006 AAAGTACTCTGGGCACAATTTC
1 AAAGTCCTCTAGACATAATTTC
7295028 AA
1 AA
7295030 TTTTCAAAAT
Statistics
Matches: 71, Mismatches: 13, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
20 1 0.01
21 4 0.06
22 59 0.83
23 7 0.10
ACGTcount: A:0.37, C:0.22, G:0.11, T:0.30
Consensus pattern (22 bp):
AAAGTCCTCTAGACATAATTTC
Found at i:7297541 original size:25 final size:25
Alignment explanation
Indices: 7297503--7297556 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
7297493 TTAAACCTCA
* *
7297503 AACCTTAAATCCTAAA-CCCTAAACC
1 AACCTCAAAACCTAAATCCC-AAACC
7297528 AACCTCAAAACCTAAATCCCAAACC
1 AACCTCAAAACCTAAATCCCAAACC
7297553 AACC
1 AACC
7297557 CCTAAACCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 23 0.88
26 3 0.12
ACGTcount: A:0.46, C:0.39, G:0.00, T:0.15
Consensus pattern (25 bp):
AACCTCAAAACCTAAATCCCAAACC
Found at i:7297563 original size:25 final size:25
Alignment explanation
Indices: 7297508--7297564 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 25
7297498 CCTCAAACCT
*
7297508 TAAATCCTAAACCCTAAACCAACCTC
1 TAAA-CCTAAACCCTAAACCAACCCC
*
7297534 AAAACCTAAATCCC-AAACCAACCCC
1 TAAACCTAAA-CCCTAAACCAACCCC
7297559 TAAACC
1 TAAACC
7297565 AACCATGCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 21 0.78
26 6 0.22
ACGTcount: A:0.46, C:0.40, G:0.00, T:0.14
Consensus pattern (25 bp):
TAAACCTAAACCCTAAACCAACCCC
Found at i:7300097 original size:7 final size:7
Alignment explanation
Indices: 7300085--7300111 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
7300075 ATTCCTAAGC
7300085 AAATTTA
1 AAATTTA
7300092 AAATTTA
1 AAATTTA
7300099 AAATTTA
1 AAATTTA
7300106 AAATTT
1 AAATTT
7300112 CTTGAGTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
AAATTTA
Found at i:7304401 original size:19 final size:19
Alignment explanation
Indices: 7304377--7304436 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
7304367 AACCAGGGTA
*
7304377 TTTTCAATATTTTGTTATT
1 TTTTCAATATTTTATTATT
*
7304396 TTTTC-AT-TTTTACTTAAT
1 TTTTCAATATTTTA-TTATT
7304414 TTTT-ATATATTTTATTATT
1 TTTTCA-ATATTTTATTATT
7304433 TTTT
1 TTTT
7304437 ATGAATTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
17 4 0.12
18 10 0.29
19 15 0.44
20 5 0.15
ACGTcount: A:0.22, C:0.05, G:0.02, T:0.72
Consensus pattern (19 bp):
TTTTCAATATTTTATTATT
Found at i:7304437 original size:19 final size:19
Alignment explanation
Indices: 7304383--7304452 Score: 67
Period size: 18 Copynumber: 3.8 Consensus size: 19
7304373 GGTATTTTCA
* *
7304383 ATATTTTGTTATTTTTT-C
1 ATATTTTATTATTTTTTAT
*
7304401 AT-TTTTACTTAATTTTTAT
1 ATATTTTA-TTATTTTTTAT
7304420 ATATTTTATTATTTTTTAT
1 ATATTTTATTATTTTTTAT
7304439 GA-ATTTT-TTATTTT
1 -ATATTTTATTATTTT
7304453 ATTTTTGAGT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
17 4 0.09
18 17 0.39
19 17 0.39
20 6 0.14
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.71
Consensus pattern (19 bp):
ATATTTTATTATTTTTTAT
Found at i:7304547 original size:27 final size:26
Alignment explanation
Indices: 7304493--7304560 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 26
7304483 AAATAGTTCT
7304493 AAAATAATATTTAAGAAAATTTGTAA
1 AAAATAATATTTAAGAAAATTTGTAA
* *
7304519 AAAATAATTTTTTAAG-ATATTTGT-A
1 AAAATAA-TATTTAAGAAAATTTGTAA
*
7304544 AAAATAA-ATTAAAGAAA
1 AAAATAATATTTAAGAAA
7304561 GTTTTGAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
23 5 0.14
24 1 0.03
25 8 0.23
26 14 0.40
27 7 0.20
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.35
Consensus pattern (26 bp):
AAAATAATATTTAAGAAAATTTGTAA
Found at i:7317125 original size:357 final size:357
Alignment explanation
Indices: 7316465--7317304 Score: 1062
Period size: 357 Copynumber: 2.3 Consensus size: 357
7316455 TTCTTTTGAG
* *
7316465 AAATTATTGAAGGCATTATTGTTTGCAACCACCTTCAGTAATTATATATAAAACTGTGATAAGAA
1 AAATTATTGAAGGCATTGTTTTTTGCAACCACCTTCAGTAATTATATA-AAAACTGTGATAAGAA
* * *
7316530 TTGTTAAAGGTATCTATCTTAAATATACGCATTCAATAACAGTGTTACAATTTGTGTGGCAGTAT
65 TTATTAAA-GCATCTATCTTAAATATACGCCTTCAATAACAGTGTTACAATTTGTGTGGCAGTAT
*
7316595 ATAGAAGATATTTTACAATAAAAAACCACCTTTAATAATTTTTAAAATATTTAATGAAAAAATTT
129 ATAGAAGATAATTTACAATAAAAAACCACCTTTAATAATTTTTAAAATATTTAATGAAAAAATTT
* * * * *
7316660 TGGAGGCGTCTGTTATTAACAAACACTTTCAGTAATGGATTACTTAGTTTAAAGGTATATTGAAG
194 TGAAGGCATCTATTATTAACAAACACATTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAG
* ** *
7316725 GCGCATTTTCTAATAAATGCCTTCCATTACCATCGTAGTATATTAAAGACATTTTATAATAAAAG
259 GCGCATTTTCCAATAAACACCTTCCATTACCATCGTAGTATATTAAAGACATCTTATAATAAAAG
*
7316790 ATG-TCTTTAATAATCCGAA-AAAAATTTTAAAAAA
324 ACGCT-TTTAATAATCC-AAGAAAAATTTTAAAAAA
** * * * *
7316824 AAATTATTGAAGGCATTGTTTTTTAAAACCGCATTCAGTAATTATATACAAATTGTGATAAGAAT
1 AAATTATTGAAGGCATTGTTTTTTGCAACCACCTTCAGTAATTATATAAAAACTGTGATAAGAAT
* **
7316889 TATTAAAGCCGTCTATCTTAAATATACGCCTTCAATAACAGTGTTACAATTTGTGTGGTGGTATA
66 TATTAAAG-CATCTATCTTAAATATACGCCTTCAATAACAGTGTTACAATTTGTGTGGCAGTATA
* * * * *
7316954 TAGAAGGTAATTTACAGTAGAAGA-CGCCTTTAATAATTTTTAAAATA-TTAAGTGAAAAAATTT
130 TAGAAGATAATTTACAATAAAAAACCACCTTTAATAATTTTTAAAATATTTAA-TGAAAAAATTT
** *
7317017 TGAAGGCATCTATTATTAACAAATGCATTCTA-TAATGGATTTCTAAGTTTAAAGGTATATTGAA
194 TGAAGGCATCTATTATTAACAAACACATTC-AGTAATGGATTACTAAGTTTAAAGGTATATTGAA
* * * * * * *
7317081 GGTGCCTTTTCCAATAAACACCTTCTATTACCATCGTGGTATATTGAAGGCGTCTTATAATAAAA
258 GGCGCATTTTCCAATAAACACCTTCCATTACCATCGTAGTATATTAAAGACATCTTATAATAAAA
* ** **
7317146 GACGCTTTTAATAATCCAAGAAAATTTTTTTAGGA
323 GACGCTTTTAATAATCCAAGAAAAATTTTAAAAAA
* * *
7317181 AAATTATTAAAGGCGTTGTTTTTTGCAATCACCTTCAGTAATTA-ACTAAAAACTGTGATAAGAA
1 AAATTATTGAAGGCATTGTTTTTTGCAACCACCTTCAGTAATTATA-TAAAAACTGTGATAAGAA
* ** * * * *
7317245 TTATTAAATGCATCTTTCTTGGATATACACCTTCAATAACAATGTTAAAATTTATGTGGC
65 TTATTAAA-GCATCTATCTTAAATATACGCCTTCAATAACAGTGTTACAATTTGTGTGGC
7317305 GATATGTTCA
Statistics
Matches: 411, Mismatches: 63, Indels: 16
0.84 0.13 0.03
Matches are distributed among these distances:
356 7 0.02
357 268 0.65
358 94 0.23
359 42 0.10
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (357 bp):
AAATTATTGAAGGCATTGTTTTTTGCAACCACCTTCAGTAATTATATAAAAACTGTGATAAGAAT
TATTAAAGCATCTATCTTAAATATACGCCTTCAATAACAGTGTTACAATTTGTGTGGCAGTATAT
AGAAGATAATTTACAATAAAAAACCACCTTTAATAATTTTTAAAATATTTAATGAAAAAATTTTG
AAGGCATCTATTATTAACAAACACATTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGGC
GCATTTTCCAATAAACACCTTCCATTACCATCGTAGTATATTAAAGACATCTTATAATAAAAGAC
GCTTTTAATAATCCAAGAAAAATTTTAAAAAA
Found at i:7330115 original size:4 final size:4
Alignment explanation
Indices: 7330106--7330143 Score: 76
Period size: 4 Copynumber: 9.5 Consensus size: 4
7330096 TATAAGGGAT
7330106 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
7330144 ATTATTATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:7330147 original size:3 final size:3
Alignment explanation
Indices: 7330139--7330186 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
7330129 ATTTATTTAT
7330139 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
7330187 CGGGCGTATA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:7348078 original size:81 final size:81
Alignment explanation
Indices: 7347893--7348066 Score: 339
Period size: 81 Copynumber: 2.1 Consensus size: 81
7347883 AAAAAAAAAA
7347893 AACAAAATCAAATAAAGAATAACAACAACAACAGTAGCTTAATACAATACAACTATATTTTGCAT
1 AACAAAATCAAATAAAGAATAACAACAACAACAGTAGCTTAATACAATACAACTATATTTTGCAT
7347958 TAAATAATAAAATCAC
66 TAAATAATAAAATCAC
7347974 AACAAAATCAAATAAAGAATAACAACAACAACAGTAGCTTAATACAATACAACTATATTTTGCAT
1 AACAAAATCAAATAAAGAATAACAACAACAACAGTAGCTTAATACAATACAACTATATTTTGCAT
7348039 TAAATAATAAAATCAC
66 TAAATAATAAAATCAC
*
7348055 AACAAAAACAAA
1 AACAAAATCAAA
7348067 AATAGATTAA
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 92 1.00
ACGTcount: A:0.57, C:0.16, G:0.05, T:0.22
Consensus pattern (81 bp):
AACAAAATCAAATAAAGAATAACAACAACAACAGTAGCTTAATACAATACAACTATATTTTGCAT
TAAATAATAAAATCAC
Found at i:7348194 original size:8 final size:8
Alignment explanation
Indices: 7348183--7348208 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
7348173 AAATTTCTAC
7348183 AAACCATG
1 AAACCATG
7348191 AAACCATG
1 AAACCATG
7348199 AAACCATG
1 AAACCATG
7348207 AA
1 AA
7348209 TAAAATGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.54, C:0.23, G:0.12, T:0.12
Consensus pattern (8 bp):
AAACCATG
Found at i:7349201 original size:20 final size:20
Alignment explanation
Indices: 7349176--7349223 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
7349166 TTTGCTTGAA
7349176 AAGCTTCTCTTATTCTCCAT
1 AAGCTTCTCTTATTCTCCAT
7349196 AAGCTTCTCTTATTCTCCAT
1 AAGCTTCTCTTATTCTCCAT
7349216 AAGCTTCT
1 AAGCTTCT
7349224 TACCTTTACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.21, C:0.29, G:0.06, T:0.44
Consensus pattern (20 bp):
AAGCTTCTCTTATTCTCCAT
Found at i:7349487 original size:3 final size:3
Alignment explanation
Indices: 7349481--7349534 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
7349471 TATTTTTTTT
7349481 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
7349529 TTA TTA
1 TTA TTA
7349535 CGGGCGTATA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:7352422 original size:21 final size:21
Alignment explanation
Indices: 7352377--7352422 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
7352367 TTAATTGCAT
*
7352377 AATATTCAAAATTAATATAAG
1 AATATTCAAAATTAAGATAAG
*
7352398 AATATTGAAAATTTAAGATAA-
1 AATATTCAAAA-TTAAGATAAG
7352419 AATA
1 AATA
7352423 AATATAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.33
Consensus pattern (21 bp):
AATATTCAAAATTAAGATAAG
Found at i:7353916 original size:6 final size:6
Alignment explanation
Indices: 7353905--7353932 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
7353895 CCCGAGCCCA
7353905 AAACCC AAACCC AAACCC AAACCC AAAC
1 AAACCC AAACCC AAACCC AAACCC AAAC
7353933 GTACCAACAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.54, C:0.46, G:0.00, T:0.00
Consensus pattern (6 bp):
AAACCC
Found at i:7366385 original size:26 final size:27
Alignment explanation
Indices: 7366342--7366403 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 27
7366332 TTAAATTTTA
*
7366342 TTTATTTATTAGTTTATT-ATATAATAAAT
1 TTTATTTATTA--TTATTAAAATAAT-AAT
7366371 TTTATTTATTA-TATTAAAATAATAAT
1 TTTATTTATTATTATTAAAATAATAAT
*
7366397 GTTATTT
1 TTTATTT
7366404 TATAATTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
26 13 0.43
27 6 0.20
29 11 0.37
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (27 bp):
TTTATTTATTATTATTAAAATAATAAT
Found at i:7368372 original size:30 final size:29
Alignment explanation
Indices: 7368302--7368402 Score: 80
Period size: 30 Copynumber: 3.3 Consensus size: 29
7368292 GGTTTTAGGG
*
7368302 TTTGATTTTAAGGTTTAG-AGGATCTTAAGG-C
1 TTTGATTTT-AGGGTTAGAAGG-T-TT-AGGAC
*
7368333 TTAGATTTTAGGGTATAGAAGGTTTAGGAC
1 TTTGATTTTAGGGT-TAGAAGGTTTAGGAC
* * * *
7368363 TTTGATTTTAGAGTTTGAAGATTTTAGGAT
1 TTTGATTTTAGGGTTAGAAG-GTTTAGGAC
7368393 TTTGATTTTA
1 TTTGATTTTA
7368403 AAATTTGAGA
Statistics
Matches: 59, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
29 8 0.14
30 36 0.61
31 12 0.20
32 3 0.05
ACGTcount: A:0.27, C:0.03, G:0.25, T:0.46
Consensus pattern (29 bp):
TTTGATTTTAGGGTTAGAAGGTTTAGGAC
Found at i:7368410 original size:30 final size:28
Alignment explanation
Indices: 7368355--7368428 Score: 85
Period size: 30 Copynumber: 2.6 Consensus size: 28
7368345 GTATAGAAGG
* * *
7368355 TTTAGGACTTTGATTTTAGAGTTTGAAGA
1 TTTAGGATTTTGATTTTAAAATTTG-AGA
7368384 TTTTAGGATTTTGATTTTAAAATTTGAGA
1 -TTTAGGATTTTGATTTTAAAATTTGAGA
* *
7368413 TTTGGGGTTTTGATTT
1 TTTAGGATTTTGATTT
7368429 AATGGTTTTG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 14 0.36
29 3 0.08
30 22 0.56
ACGTcount: A:0.24, C:0.01, G:0.23, T:0.51
Consensus pattern (28 bp):
TTTAGGATTTTGATTTTAAAATTTGAGA
Found at i:7368893 original size:36 final size:36
Alignment explanation
Indices: 7368832--7368903 Score: 87
Period size: 36 Copynumber: 2.0 Consensus size: 36
7368822 CTTATCATGC
*
7368832 ATAAATATAAAAAAGATACTTAAAA-TAACAAAAATA
1 ATAAATATAAAAAAGATACTGAAAATTAA-AAAAATA
7368868 ATAATATATAAAAAA-A-ACTAGAAAATTAAAAAAATA
1 ATAA-ATATAAAAAAGATACT-GAAAATTAAAAAAATA
7368904 TATTTGTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
35 3 0.09
36 16 0.50
37 13 0.41
ACGTcount: A:0.71, C:0.04, G:0.03, T:0.22
Consensus pattern (36 bp):
ATAAATATAAAAAAGATACTGAAAATTAAAAAAATA
Found at i:7369971 original size:14 final size:13
Alignment explanation
Indices: 7369953--7369988 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
7369943 AATCAAAATT
*
7369953 TTTTTATTATTTC
1 TTTTTATTATTTA
7369966 TCTTTTATTATTTA
1 T-TTTTATTATTTA
7369980 TTTTTATTA
1 TTTTTATTA
7369989 ACAAAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 9 0.43
14 12 0.57
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (13 bp):
TTTTTATTATTTA
Found at i:7376261 original size:2 final size:2
Alignment explanation
Indices: 7376256--7376285 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
7376246 CTCTCTCTCT
*
7376256 CA CA CA CA CA CA CA CA CA CA CG CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
7376286 TTAAGCACCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.50, G:0.03, T:0.00
Consensus pattern (2 bp):
CA
Found at i:7382197 original size:2 final size:2
Alignment explanation
Indices: 7382186--7382214 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
7382176 GGAGCTTACT
7382186 GA GA -A GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
7382215 ACAAAGAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
GA
Found at i:7388165 original size:35 final size:35
Alignment explanation
Indices: 7388119--7388187 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
7388109 AGAATGATGA
*
7388119 GTCATGATTCAATTAGATAACACTTAAGCCTATAT
1 GTCATGATTCAATTAGATAACACATAAGCCTATAT
7388154 GTCATGATTCAATTAGATAACACATAAGCCTATA
1 GTCATGATTCAATTAGATAACACATAAGCCTATA
7388188 CGTTAACTCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.32
Consensus pattern (35 bp):
GTCATGATTCAATTAGATAACACATAAGCCTATAT
Found at i:7397524 original size:10 final size:10
Alignment explanation
Indices: 7397509--7397534 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
7397499 TTAATTGTTC
7397509 TTTTTTTGTA
1 TTTTTTTGTA
7397519 TTTTTTTGTA
1 TTTTTTTGTA
7397529 TTTTTT
1 TTTTTT
7397535 CTTATCTACG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.08, C:0.00, G:0.08, T:0.85
Consensus pattern (10 bp):
TTTTTTTGTA
Found at i:7402349 original size:2 final size:2
Alignment explanation
Indices: 7402342--7402391 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
7402332 TCCAAAGTCC
7402342 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
7402384 CT CT CT CT
1 CT CT CT CT
7402392 AGCTCAAGAT
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:7402427 original size:2 final size:2
Alignment explanation
Indices: 7402422--7402446 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7402412 GTGTGTGTAC
7402422 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
7402447 ATAGTACTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7406337 original size:63 final size:62
Alignment explanation
Indices: 7406269--7406619 Score: 280
Period size: 63 Copynumber: 5.6 Consensus size: 62
7406259 TAAGACGTTT
* ** **
7406269 GTGTTTGTAAACACAAACGCCTTAATTGATCTAA-AATATAATTTTTAAGTTAGATCAATTAAG
1 GTGTTTGTATACACAAACGCCTTAATTGATC-AATTTTATAA-TTTTAAAATAGATCAATTAAG
* * * *
7406332 GTGTTTCTATACACAAACGTCTTAATTGAT-TATTTTCATAA-TTT-AATTGATGATCAATTAAG
1 GTGTTTGTATACACAAACGCCTTAATTGATCAATTTT-ATAATTTTAAAAT-A-GATCAATTAAG
** * * * * *
7406394 GCATTTGTGTTCA-AAATGCCTTAATTGATCAATCATTATAATTTTTAAAATAAATCAATTAAG
1 GTGTTTGTATACACAAACGCCTTAATTGATCAAT-TTTATAA-TTTTAAAATAGATCAATTAAG
* * * * *
7406457 GTATTTCTGTACACAAATGCCTTAATTGATCAATTATATAAATTTTAAAATAGATCAATTAAG
1 GTGTTTGTATACACAAACGCCTTAATTGATCAATTTTAT-AATTTTAAAATAGATCAATTAAG
* * * * * * * * *
7406520 GCGTTTCTGTAAACAAATGTCTTAATTGATCAATTTTATAATTATAAACTAGGATCAATTAAT
1 GTGTTTGTATACACAAACGCCTTAATTGATCAATTTTATAATTTTAAAATA-GATCAATTAAG
* * * *
7406583 GTGTTTGTATAGAAAAACACCTTAATTGATCATTTTT
1 GTGTTTGTATACACAAACGCCTTAATTGATCAATTTT
7406620 TTAGATAAAA
Statistics
Matches: 235, Mismatches: 41, Indels: 24
0.78 0.14 0.08
Matches are distributed among these distances:
60 3 0.01
61 19 0.08
62 36 0.15
63 148 0.63
64 26 0.11
65 3 0.01
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.40
Consensus pattern (62 bp):
GTGTTTGTATACACAAACGCCTTAATTGATCAATTTTATAATTTTAAAATAGATCAATTAAG
Found at i:7430178 original size:15 final size:15
Alignment explanation
Indices: 7430158--7430191 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
7430148 ATGTTAGGAT
7430158 TTTAAAAT-ACATCAA
1 TTTAAAATAACAT-AA
7430173 TTTAAAATAACATAA
1 TTTAAAATAACATAA
7430188 TTTA
1 TTTA
7430192 TAATTGCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (15 bp):
TTTAAAATAACATAA
Found at i:7431246 original size:28 final size:24
Alignment explanation
Indices: 7431191--7431249 Score: 64
Period size: 28 Copynumber: 2.3 Consensus size: 24
7431181 TAAATTCTTA
* *
7431191 TATTTAAAATAAATTAAATAAAAT
1 TATTTAAAAAAAATTAAATAAAAG
7431215 TATTTAACAAAAAATTCAAATACCAAAG
1 TATTTAA-AAAAAATT-AAATA--AAAG
7431243 TATTTAA
1 TATTTAA
7431250 GTTAAAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 7 0.24
25 7 0.24
26 5 0.17
28 10 0.34
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.34
Consensus pattern (24 bp):
TATTTAAAAAAAATTAAATAAAAG
Found at i:7432482 original size:11 final size:12
Alignment explanation
Indices: 7432467--7432533 Score: 54
Period size: 11 Copynumber: 5.9 Consensus size: 12
7432457 ATTGTATTTT
7432467 TTAAATAATAT-
1 TTAAATAATATA
7432478 TTAAA-AATATA
1 TTAAATAATATA
*
7432489 TTATAT-ATATA
1 TTAAATAATATA
* *
7432500 TTAAATAAAAAA
1 TTAAATAATATA
*
7432512 TTAAGTAAT-TAA
1 TTAAATAATAT-A
7432524 TTAAA-AATAT
1 TTAAATAATAT
7432534 TTTATAATTC
Statistics
Matches: 43, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
10 5 0.12
11 22 0.51
12 16 0.37
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.40
Consensus pattern (12 bp):
TTAAATAATATA
Found at i:7434394 original size:13 final size:13
Alignment explanation
Indices: 7434362--7434394 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
7434352 AAATTTTATC
7434362 TGAATTTAATATA
1 TGAATTTAATATA
7434375 T-ACATTTAATATA
1 TGA-ATTTAATATA
7434388 TGAATTT
1 TGAATTT
7434395 GATCCGAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
12 1 0.06
13 16 0.89
14 1 0.06
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.48
Consensus pattern (13 bp):
TGAATTTAATATA
Found at i:7437023 original size:75 final size:76
Alignment explanation
Indices: 7436925--7437069 Score: 202
Period size: 75 Copynumber: 1.9 Consensus size: 76
7436915 CATTATCTGA
* * ** * ** *
7436925 TAAATTTATTGGTATTTCTTTGGTGTTTTTGCT-AGTTTTGTTTTTTGATATTTTCTTGGTGTGA
1 TAAATTTACTAGTATTTCTTTGGTGTTTTTGCTAAAATTTATTTGCTGATATTTTCTTGATGTGA
7436989 TTGTAGGACAG
66 TTGTAGGACAG
*
7437000 TAAATTTACTAGTATTTCTTTGGTGTTTTTGCTAAAATTTATTTGCTGATATTTTTTTGATGTGA
1 TAAATTTACTAGTATTTCTTTGGTGTTTTTGCTAAAATTTATTTGCTGATATTTTCTTGATGTGA
7437065 TTGTA
66 TTGTA
7437070 AAGCATTGTT
Statistics
Matches: 60, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
75 31 0.52
76 29 0.48
ACGTcount: A:0.19, C:0.06, G:0.19, T:0.56
Consensus pattern (76 bp):
TAAATTTACTAGTATTTCTTTGGTGTTTTTGCTAAAATTTATTTGCTGATATTTTCTTGATGTGA
TTGTAGGACAG
Found at i:7441108 original size:42 final size:42
Alignment explanation
Indices: 7441062--7441159 Score: 128
Period size: 42 Copynumber: 2.3 Consensus size: 42
7441052 CAATTCCTAT
*
7441062 CCTTTCATTCCCTATTGC-CTCACCTACAT-TTAGATTTTTTAC
1 CCTTTCATTCCCTATTGCAC-CACCTACATGTT-GATTTTCTAC
* *
7441104 CCTTTCATTCCTTATTGCACCAGCTACATGTTGATTTTCTAC
1 CCTTTCATTCCCTATTGCACCACCTACATGTTGATTTTCTAC
*
7441146 CATTTCATTCCCTA
1 CCTTTCATTCCCTA
7441160 CTACTTCAAC
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
42 46 0.94
43 3 0.06
ACGTcount: A:0.19, C:0.31, G:0.06, T:0.44
Consensus pattern (42 bp):
CCTTTCATTCCCTATTGCACCACCTACATGTTGATTTTCTAC
Found at i:7441173 original size:42 final size:42
Alignment explanation
Indices: 7441064--7441174 Score: 116
Period size: 42 Copynumber: 2.6 Consensus size: 42
7441054 ATTCCTATCC
* * * *
7441064 TTTCATTCCCTATTGCCTCACCTACATTTAGATTTTTTACCC
1 TTTCATTCCCTATTGCATCAACTACATTTAGATTTTCTACCA
* * *
7441106 TTTCATTCCTTATTGCACCAGCTACATGTT-GATTTTCTACCA
1 TTTCATTCCCTATTGCATCAACTACAT-TTAGATTTTCTACCA
* * *
7441148 TTTCATTCCCTACTACTTCAACTACAT
1 TTTCATTCCCTATTGCATCAACTACAT
7441175 CTTTTACTTT
Statistics
Matches: 56, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
42 54 0.96
43 2 0.04
ACGTcount: A:0.22, C:0.30, G:0.05, T:0.43
Consensus pattern (42 bp):
TTTCATTCCCTATTGCATCAACTACATTTAGATTTTCTACCA
Found at i:7441736 original size:31 final size:32
Alignment explanation
Indices: 7441701--7441777 Score: 102
Period size: 32 Copynumber: 2.4 Consensus size: 32
7441691 TTACATGTCC
* ** * *
7441701 TTTACATTGTTATCTAATTT-TGTTATAATCT
1 TTTACTTTGTTATAGAATTTCTATTATAAGCT
7441732 TTTACTTTGTTATAGAATTTCTATTATAAGCT
1 TTTACTTTGTTATAGAATTTCTATTATAAGCT
7441764 TTTACTTTGTTATA
1 TTTACTTTGTTATA
7441778 ACCAATGGTC
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
31 17 0.43
32 23 0.57
ACGTcount: A:0.26, C:0.09, G:0.08, T:0.57
Consensus pattern (32 bp):
TTTACTTTGTTATAGAATTTCTATTATAAGCT
Found at i:7441778 original size:18 final size:18
Alignment explanation
Indices: 7441719--7441778 Score: 56
Period size: 18 Copynumber: 3.6 Consensus size: 18
7441709 GTTATCTAAT
*
7441719 TTTGTTATAATCTTTTAC
1 TTTGTTATAAGCTTTTAC
**
7441737 TTTGTTAT-AGAATTT-C
1 TTTGTTATAAGCTTTTAC
*
7441753 --TATTATAAGCTTTTAC
1 TTTGTTATAAGCTTTTAC
7441769 TTTGTTATAA
1 TTTGTTATAA
7441779 CCAATGGTCT
Statistics
Matches: 31, Mismatches: 7, Indels: 8
0.67 0.15 0.17
Matches are distributed among these distances:
14 5 0.16
15 5 0.16
16 2 0.06
17 4 0.13
18 15 0.48
ACGTcount: A:0.27, C:0.08, G:0.08, T:0.57
Consensus pattern (18 bp):
TTTGTTATAAGCTTTTAC
Found at i:7442270 original size:42 final size:43
Alignment explanation
Indices: 7442209--7442352 Score: 181
Period size: 42 Copynumber: 3.4 Consensus size: 43
7442199 AATATGCTTA
7442209 AACAACAGAAAACTC-TAACTATAATTTTGAGCAATTAAGAAC
1 AACAACAGAAAACTCATAACTATAATTTTGAGCAATTAAGAAC
* * * *
7442251 AACAATAGAAAAC-CATAACTATAATTTCGAGTAATTACGAAC
1 AACAACAGAAAACTCATAACTATAATTTTGAGCAATTAAGAAC
** *
7442293 AACAGTAGAAAACTTCA-AA-TATAAATTTGAGCAATTAAGAAC
1 AACAACAGAAAAC-TCATAACTATAATTTTGAGCAATTAAGAAC
7442335 AACAACAGAAAAC-CATAA
1 AACAACAGAAAACTCATAA
7442353 ATCATAATAT
Statistics
Matches: 87, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
40 2 0.02
41 3 0.03
42 78 0.90
43 2 0.02
44 2 0.02
ACGTcount: A:0.53, C:0.16, G:0.10, T:0.22
Consensus pattern (43 bp):
AACAACAGAAAACTCATAACTATAATTTTGAGCAATTAAGAAC
Found at i:7442396 original size:42 final size:42
Alignment explanation
Indices: 7442335--7442432 Score: 115
Period size: 42 Copynumber: 2.3 Consensus size: 42
7442325 AATTAAGAAC
* * * *
7442335 AACAACAGAAAACCATAAATCATAATATGCTTAAGAATAAAG
1 AACAACAAAAAACCATAAATCAAAATATGCCTAACAATAAAG
* * * **
7442377 AACTACAAAAAACCTTAAATCAAAATATTCCTAACTTTAAAG
1 AACAACAAAAAACCATAAATCAAAATATGCCTAACAATAAAG
7442419 AACAACAAAAAACC
1 AACAACAAAAAACC
7442433 CTTGACCACA
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.57, C:0.18, G:0.05, T:0.19
Consensus pattern (42 bp):
AACAACAAAAAACCATAAATCAAAATATGCCTAACAATAAAG
Found at i:7444835 original size:16 final size:17
Alignment explanation
Indices: 7444814--7444847 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
7444804 TAATAATATA
*
7444814 ATTATTAGA-TGATCTT
1 ATTATTAAAGTGATCTT
7444830 ATTATTAAAGTGATCTT
1 ATTATTAAAGTGATCTT
7444847 A
1 A
7444848 ACACTCGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.47
Consensus pattern (17 bp):
ATTATTAAAGTGATCTT
Found at i:7445394 original size:18 final size:18
Alignment explanation
Indices: 7445373--7445506 Score: 76
Period size: 18 Copynumber: 7.2 Consensus size: 18
7445363 AATTTTACTT
7445373 ATAAATAATATTATATAA
1 ATAAATAATATTATATAA
*
7445391 ATAAATAATATTACAATATATTC
1 ATAAATAATATT---ATATA--A
*
7445414 ATAAATAATATTATATTA
1 ATAAATAATATTATATAA
* * *
7445432 ATAAATATTATAATAATAT
1 ATAAATAATATTAT-ATAA
* *
7445451 ATTAATAA-ATAATATACA
1 ATAAATAATATTATATA-A
* * *
7445469 ATTAAT-ATAATATATTA
1 ATAAATAATATTATATAA
* *
7445486 AGAAATATTATTA-ATAA
1 ATAAATAATATTATATAA
7445503 ATAA
1 ATAA
7445507 TATTATAATA
Statistics
Matches: 88, Mismatches: 19, Indels: 19
0.70 0.15 0.15
Matches are distributed among these distances:
17 15 0.17
18 44 0.50
19 8 0.09
20 4 0.05
21 5 0.06
23 12 0.14
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (18 bp):
ATAAATAATATTATATAA
Found at i:7445408 original size:26 final size:23
Alignment explanation
Indices: 7445384--7445532 Score: 111
Period size: 23 Copynumber: 6.8 Consensus size: 23
7445374 TAAATAATAT
*
7445384 TATATAAATAAATAATATTACAA
1 TATATTAATAAATAATATTACAA
*
7445407 TATATTCATAAATAATA-T----
1 TATATTAATAAATAATATTACAA
* * *
7445425 TATATTAATAAATATTATAATAA
1 TATATTAATAAATAATATTACAA
7445448 TATATTAATAAATAATA-TACAA
1 TATATTAATAAATAATATTACAA
* *
7445470 T-TAAT-AT-AAT-ATATTAAGAAA
1 TATATTAATAAATAATATT-A-CAA
*
7445491 TATTATTAATAAATAATATTATAA
1 TA-TATTAATAAATAATATTACAA
* *
7445515 TATAGTAATAAACAATAT
1 TATATTAATAAATAATAT
7445533 AAAGAATAAT
Statistics
Matches: 99, Mismatches: 14, Indels: 26
0.71 0.10 0.19
Matches are distributed among these distances:
18 18 0.18
19 4 0.04
20 3 0.03
21 6 0.06
22 5 0.05
23 48 0.48
24 6 0.06
25 4 0.04
26 5 0.05
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (23 bp):
TATATTAATAAATAATATTACAA
Found at i:7445420 original size:41 final size:41
Alignment explanation
Indices: 7445373--7445513 Score: 162
Period size: 41 Copynumber: 3.4 Consensus size: 41
7445363 AATTTTACTT
* * *
7445373 ATAAATAATATTATATAAATAAATAATATTACAATATATTC
1 ATAAATAATATTATATTAATAAATAATATTAAAATATATTA
*
7445414 ATAAATAATATTATATTAATAAATATTA-TAATAATATATTA
1 ATAAATAATATTATATTAATAAATAATATTAA-AATATATTA
*
7445455 ATAAATAATA-TACAATTAATATAAT-ATATTAAGAAATATTATTA
1 ATAAATAATATTA-TATTAATA-AATAATATT-A-AAATA-TATTA
7445499 ATAAATAATATTATA
1 ATAAATAATATTATA
7445514 ATATAGTAAT
Statistics
Matches: 85, Mismatches: 7, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
40 4 0.05
41 53 0.62
42 4 0.05
43 5 0.06
44 17 0.20
45 2 0.02
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (41 bp):
ATAAATAATATTATATTAATAAATAATATTAAAATATATTA
Found at i:7445444 original size:23 final size:23
Alignment explanation
Indices: 7445373--7445466 Score: 92
Period size: 23 Copynumber: 4.3 Consensus size: 23
7445363 AATTTTACTT
* *
7445373 ATAA-ATAATATTATATAAATAA
1 ATAATATAATAATATATTAATAA
* * *
7445395 ATAATATTACAATATATTCATAA
1 ATAATATAATAATATATTAATAA
7445418 AT-A-AT-AT--TATATTAATAA
1 ATAATATAATAATATATTAATAA
*
7445436 ATATTATAATAATATATTAATAA
1 ATAATATAATAATATATTAATAA
7445459 ATAATATA
1 ATAATATA
7445467 CAATTAATAT
Statistics
Matches: 57, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
18 12 0.21
20 3 0.05
21 4 0.07
22 5 0.09
23 33 0.58
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (23 bp):
ATAATATAATAATATATTAATAA
Found at i:7445524 original size:16 final size:16
Alignment explanation
Indices: 7445405--7445516 Score: 65
Period size: 15 Copynumber: 7.8 Consensus size: 16
7445395 ATAATATTAC
*
7445405 AATA-TATTCATAAAT
1 AATATTATTAATAAAT
*
7445420 AATATTA-T-ATTAAT
1 AATATTATTAATAAAT
7445434 AA-A-TATT-AT-AAT
1 AATATTATTAATAAAT
7445446 AATA-TATTAATAAAT
1 AATATTATTAATAAAT
*
7445461 AATA-TA-CAATTAATAT
1 AATATTATTAA-TAA-AT
*
7445477 AATA-TATT-A-AGA-
1 AATATTATTAATAAAT
7445489 AATATTATTAATAAAT
1 AATATTATTAATAAAT
7445505 AATATTA-TAATA
1 AATATTATTAATA
7445517 TAGTAATAAA
Statistics
Matches: 80, Mismatches: 5, Indels: 24
0.73 0.05 0.22
Matches are distributed among these distances:
12 11 0.14
13 14 0.17
14 13 0.16
15 24 0.30
16 18 0.22
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (16 bp):
AATATTATTAATAAAT
Found at i:7445618 original size:17 final size:17
Alignment explanation
Indices: 7445596--7445644 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
7445586 AATATTAAAT
7445596 ATTATTATTAAAATA-TA
1 ATTATT-TTAAAATATTA
**
7445613 ATTATTTTTTAATATTA
1 ATTATTTTAAAATATTA
7445630 ATTATTTTAATAATA
1 ATTATTTTAA-AATA
7445645 AATAATTTCA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 6 0.23
17 16 0.62
18 4 0.15
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTATTTTAAAATATTA
Found at i:7445624 original size:37 final size:36
Alignment explanation
Indices: 7445582--7445651 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 36
7445572 TAAAATAATA
*
7445582 TTTTAATATTAAATATTATTATTAA-AATATAATTATT
1 TTTTAATATTAAATATT-TTAATAATAA-ATAATTATT
*
7445619 TTTTAATATTAATTATTTTAATAATAAATAATT
1 TTTTAATATTAAATATTTTAATAATAAATAATT
7445652 TCAATATATT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
36 12 0.40
37 18 0.60
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (36 bp):
TTTTAATATTAAATATTTTAATAATAAATAATTATT
Found at i:7445691 original size:25 final size:25
Alignment explanation
Indices: 7445627--7445692 Score: 96
Period size: 26 Copynumber: 2.6 Consensus size: 25
7445617 TTTTTTAATA
7445627 TTAATTATTTTAATAATAAATAATTT
1 TTAA-TATTTTAATAATAAATAATTT
**
7445653 CAATATATTTTAATAATAAATAATTT
1 TTA-ATATTTTAATAATAAATAATTT
7445679 TTAATATTTTAATA
1 TTAATATTTTAATA
7445693 GTTATATTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
25 11 0.31
26 23 0.66
27 1 0.03
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (25 bp):
TTAATATTTTAATAATAAATAATTT
Found at i:7445907 original size:3 final size:3
Alignment explanation
Indices: 7445899--7445924 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
7445889 AAGGACAATT
7445899 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
7445925 TATTATTCAT
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:7446578 original size:27 final size:26
Alignment explanation
Indices: 7446534--7446591 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
7446524 GATATGTAAA
*
7446534 ATTATAATAAGATAAGATAAAATGAT
1 ATTATAATAAGATAAGATAAAATAAT
* * *
7446560 ATTATGAATATGATTAGATTAAATAAT
1 ATTAT-AATAAGATAAGATAAAATAAT
7446587 ATTAT
1 ATTAT
7446592 TTTATTTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 5 0.19
27 22 0.81
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (26 bp):
ATTATAATAAGATAAGATAAAATAAT
Found at i:7449224 original size:91 final size:92
Alignment explanation
Indices: 7449060--7449236 Score: 338
Period size: 91 Copynumber: 1.9 Consensus size: 92
7449050 TATGTTATTT
7449060 TTTTTCCCTTTTGATCAAAATAGGTTTCTTCTCTTTTCATTTTAAAATTTGATATTTCTCTATTC
1 TTTTTCCCTTTTGATCAAAATAGGTTTCTTCTCTTTTCATTTTAAAATTTGATATTTCTCTATTC
7449125 ATTGTCTCTAAAAAAATTGTAGTTATG
66 ATTGTCTCTAAAAAAATTGTAGTTATG
7449152 TTTTTCCCTTTTGATCAAAATAGGTTTCTTCTC-TTTCATTTTAAAATTTGATATTTCTCTATTC
1 TTTTTCCCTTTTGATCAAAATAGGTTTCTTCTCTTTTCATTTTAAAATTTGATATTTCTCTATTC
*
7449216 ATTGTCTCTAAAAGAATTGTA
66 ATTGTCTCTAAAAAAATTGTA
7449237 AGTAAGTTTT
Statistics
Matches: 84, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
91 51 0.61
92 33 0.39
ACGTcount: A:0.26, C:0.15, G:0.08, T:0.51
Consensus pattern (92 bp):
TTTTTCCCTTTTGATCAAAATAGGTTTCTTCTCTTTTCATTTTAAAATTTGATATTTCTCTATTC
ATTGTCTCTAAAAAAATTGTAGTTATG
Found at i:7467622 original size:18 final size:18
Alignment explanation
Indices: 7467601--7467648 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
7467591 TATGATGGAG
*
7467601 GATACATTTGTGGTAAAA
1 GATACATTTGAGGTAAAA
* *
7467619 GATACATTGGAGGTGAAA
1 GATACATTTGAGGTAAAA
*
7467637 GATATATTTGAG
1 GATACATTTGAG
7467649 ATGGATAATA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.38, C:0.04, G:0.27, T:0.31
Consensus pattern (18 bp):
GATACATTTGAGGTAAAA
Found at i:7471242 original size:23 final size:22
Alignment explanation
Indices: 7471212--7471257 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 22
7471202 ATTATATTTC
7471212 AAATACAAAATCATAAAT-TAAT
1 AAATACAAAATCA-AAATATAAT
7471234 AAATAACAAAATCAAAATATAAT
1 AAAT-ACAAAATCAAAATATAAT
7471257 A
1 A
7471258 TTTAATTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.67, C:0.09, G:0.00, T:0.24
Consensus pattern (22 bp):
AAATACAAAATCAAAATATAAT
Found at i:7477391 original size:14 final size:15
Alignment explanation
Indices: 7477366--7477394 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
7477356 GGAATTAGAG
7477366 ATTTCAATTAGGGGT
1 ATTTCAATTAGGGGT
7477381 ATTTC-ATTAGGGGT
1 ATTTCAATTAGGGGT
7477395 TTCTTCACGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.24, C:0.07, G:0.28, T:0.41
Consensus pattern (15 bp):
ATTTCAATTAGGGGT
Found at i:7478606 original size:26 final size:25
Alignment explanation
Indices: 7478556--7478620 Score: 85
Period size: 26 Copynumber: 2.6 Consensus size: 25
7478546 TTAATATAAC
7478556 TATTAAAATATTAAAAATTATTTAT
1 TATTAAAATATTAAAAATTATTTAT
**
7478581 TATTAAAATATATTGAAATTATTTAT
1 TATTAAAATAT-TAAAAATTATTTAT
* *
7478607 TATGAAATTATTAA
1 TATTAAAATATTAA
7478621 TATTAAAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
25 12 0.36
26 21 0.64
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (25 bp):
TATTAAAATATTAAAAATTATTTAT
Found at i:7478614 original size:15 final size:15
Alignment explanation
Indices: 7478570--7478618 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
7478560 AAAATATTAA
*
7478570 AAATTATTTATTATT
1 AAATTATTTATTATG
*
7478585 AAA--ATATA-T-TG
1 AAATTATTTATTATG
7478596 AAATTATTTATTATG
1 AAATTATTTATTATG
7478611 AAATTATT
1 AAATTATT
7478619 AATATTAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 8
0.71 0.08 0.21
Matches are distributed among these distances:
11 4 0.15
12 1 0.04
13 8 0.30
14 1 0.04
15 13 0.48
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (15 bp):
AAATTATTTATTATG
Found at i:7478670 original size:20 final size:21
Alignment explanation
Indices: 7478615--7478670 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
7478605 ATTATGAAAT
7478615 TATTAATATTAAAAAATAATTA
1 TATTAATA-TAAAAAATAATTA
*
7478637 TATTTAT-TATAAAAAT-ATTA
1 TATTAATATA-AAAAATAATTA
*
7478657 TGTTAATATAAAAA
1 TATTAATATAAAAA
7478671 TACTTTAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
20 15 0.52
21 8 0.28
22 6 0.21
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
TATTAATATAAAAAATAATTA
Found at i:7478708 original size:15 final size:15
Alignment explanation
Indices: 7478697--7478874 Score: 121
Period size: 15 Copynumber: 12.1 Consensus size: 15
7478687 TTATTATTTT
7478697 TATATTATTTATT-A
1 TATATTATTTATTAA
7478711 -ATA-TA-TTA-TAA
1 TATATTATTTATTAA
7478722 --TATTATTTATTAA
1 TATATTATTTATTAA
7478735 TA-A-TATTTATTAA
1 TATATTATTTATTAA
* *
7478748 TATATTATATTAATAG
1 TATATTAT-TTATTAA
*
7478764 TATGTTATTTATTAA
1 TATATTATTTATTAA
*
7478779 TGTATTA-TTA-TAA
1 TATATTATTTATTAA
*
7478792 TATTATTAATTAAATTAA
1 TA-TATT-ATT-TATTAA
7478810 TA-A-TATTTATTATTA
1 TATATTATTTATTA--A
* *
7478825 TGTTATTTATTAATATAA
1 T-ATA-TTATTTAT-TAA
7478843 TATATTATTTATTAA
1 TATATTATTTATTAA
7478858 TATATTATTTATTAA
1 TATATTATTTATTAA
7478873 TA
1 TA
7478875 CAAATTTGTT
Statistics
Matches: 129, Mismatches: 14, Indels: 41
0.70 0.08 0.22
Matches are distributed among these distances:
10 3 0.02
11 6 0.05
12 5 0.04
13 26 0.20
14 12 0.09
15 37 0.29
16 21 0.16
17 4 0.03
18 7 0.05
19 6 0.05
20 2 0.02
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (15 bp):
TATATTATTTATTAA
Found at i:7478717 original size:26 final size:26
Alignment explanation
Indices: 7478688--7478841 Score: 85
Period size: 25 Copynumber: 6.1 Consensus size: 26
7478678 AAAAATTATT
7478688 TATTATTTTTATATTATTTATTAATA
1 TATTATTTTTATATTATTTATTAATA
*
7478714 TATTA---TAATATTATTTATTAATA
1 TATTATTTTTATATTATTTATTAATA
7478737 -A-TATTTATTA-ATATATTATATTAATA
1 TATTATTT-TTATAT-TATT-TATTAATA
* * * *
7478763 GTATGT-TATTTAT-TAATGTATTATTA
1 -TAT-TATTTTTATATTATTTATTAATA
* * * *
7478789 TAATATTATTA-ATTAAATTAATAATA
1 TATTATTTTTATATT-ATTTATTAATA
* *
7478815 T-TTATTATTATGTTATTTATTAATA
1 TATTATTTTTATATTATTTATTAATA
7478840 TA
1 TA
7478842 ATATATTATT
Statistics
Matches: 94, Mismatches: 18, Indels: 32
0.65 0.12 0.22
Matches are distributed among these distances:
21 2 0.02
22 1 0.01
23 17 0.18
24 3 0.03
25 31 0.33
26 30 0.32
27 2 0.02
28 5 0.05
29 2 0.02
30 1 0.01
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (26 bp):
TATTATTTTTATATTATTTATTAATA
Found at i:7478774 original size:44 final size:43
Alignment explanation
Indices: 7478712--7478874 Score: 136
Period size: 44 Copynumber: 3.6 Consensus size: 43
7478702 TATTTATTAA
*
7478712 TATATT-ATAATA-TTATTTATTAATAATATTTATTAATATAT
1 TATATTAATAATATTTATTTATTAATATTATTTATTAATATAT
* * *
7478753 TATATTAATAGTATGTTATTTATTAATGTATTATTATAATATTATTAAT
1 TATATTAATAATAT-TTATTTATTAA--TATTATT-TATTAATA-T-AT
* *
7478802 TAAATTAATAATATTTA-TTATT-ATGTTATTTATTAATATAAT
1 TATATTAATAATATTTATTTATTAATATTATTTATTAATAT-AT
*
7478844 ATATTATTTATTAATATATTATTTATTAATA
1 -TA-TA-TTAATAATAT-TTATTTATTAATA
7478875 CAAATTTGTT
Statistics
Matches: 96, Mismatches: 12, Indels: 21
0.74 0.09 0.16
Matches are distributed among these distances:
41 6 0.06
42 9 0.09
43 8 0.08
44 18 0.19
45 9 0.09
46 10 0.10
47 16 0.17
48 6 0.06
49 14 0.15
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (43 bp):
TATATTAATAATATTTATTTATTAATATTATTTATTAATATAT
Found at i:7478775 original size:31 final size:30
Alignment explanation
Indices: 7478738--7478849 Score: 108
Period size: 31 Copynumber: 3.7 Consensus size: 30
7478728 TTATTAATAA
7478738 TATTTATTAATATATTATATTAATAGTATGT
1 TATTTATTAATATATTATATTAATA-TATGT
*
7478769 TATTTATTAATGTATTAT-TATAATATTAT-T
1 TATTTATTAATATATTATAT-TAATA-TATGT
* *
7478799 AATTAAATTAATAATATT-TATT-AT-TATGT
1 TATT-TATTAAT-ATATTATATTAATATATGT
*
7478828 TATTTATTAATATAATATATTA
1 TATTTATTAATATATTATATTA
7478850 TTTATTAATA
Statistics
Matches: 66, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
27 4 0.06
28 13 0.20
29 4 0.06
30 7 0.11
31 33 0.50
32 5 0.08
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (30 bp):
TATTTATTAATATATTATATTAATATATGT
Found at i:7478785 original size:75 final size:79
Alignment explanation
Indices: 7478706--7478874 Score: 188
Period size: 75 Copynumber: 2.2 Consensus size: 79
7478696 TTATATTATT
* * *
7478706 TATTAATATATTATAATATT-ATT-TATTAATAATATTTATTAATATATTA-TATT-A-ATAGTA
1 TATTAAT-TATAATAATATTAATTAAATTAATAATATTTATTAATATATTATTATTAATATAATA
* *
7478766 TGTTATTTATTAATG
65 TATTATTTATTAATA
* * *
7478781 TATT-ATTATAATATTATTAATTAAATTAATAATATTTATTATTATGTTATTTATTAATATAATA
1 TATTAATTATAATAATATTAATTAAATTAATAATATTTATTAATATATTA-TTATTAATATAATA
7478845 TATTATTTATTAATA
65 TATTATTTATTAATA
*
7478860 TATTATTTATTAATA
1 TATTAATTA-TAATA
7478875 CAAATTTGTT
Statistics
Matches: 77, Mismatches: 9, Indels: 10
0.80 0.09 0.10
Matches are distributed among these distances:
73 10 0.13
74 5 0.06
75 27 0.35
77 4 0.05
78 1 0.01
79 22 0.29
80 3 0.04
81 5 0.06
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (79 bp):
TATTAATTATAATAATATTAATTAAATTAATAATATTTATTAATATATTATTATTAATATAATAT
ATTATTTATTAATA
Found at i:7479042 original size:22 final size:22
Alignment explanation
Indices: 7478997--7479048 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
7478987 AAAAATTATC
* **
7478997 TTATTTTTTATTAATTAATAAA
1 TTATTTTTAATTAACCAATAAA
*
7479019 TTATTTTTAATTAACCAATCAA
1 TTATTTTTAATTAACCAATAAA
7479041 TT-TTTTTA
1 TTATTTTTA
7479049 TTATATAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 6 0.23
22 20 0.77
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.58
Consensus pattern (22 bp):
TTATTTTTAATTAACCAATAAA
Found at i:7485289 original size:2 final size:2
Alignment explanation
Indices: 7485282--7485306 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7485272 GTAATTAATC
7485282 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
7485307 CTTGGATCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7488221 original size:59 final size:58
Alignment explanation
Indices: 7488092--7488309 Score: 300
Period size: 58 Copynumber: 3.8 Consensus size: 58
7488082 TGCTTTTGTA
* * *
7488092 CAAGGAAAATTGATACTTTCAAC-TTTTCTCTAAAATATTTTTTAGAAA-CTTTAATTT
1 CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAGC-TTATTTT
*
7488149 CGAGAAAAATTGATACTTTCAAC-TTTTCTCCAAAAATATTTTTTTAGAAAGCTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTTCT-CAAAAATA-TTTTTTAGAAAGCTTATTTT
* *
7488208 CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATAGTTTTTAGAAAGTTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAGCTTATTTT
* *
7488266 TAA-AGAAAATTGATACTTTCAACTTTTTCTTAAAAATATTTTTT
1 CAAGA-AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTT
7488310 TGAATTTTAT
Statistics
Matches: 146, Mismatches: 10, Indels: 9
0.88 0.06 0.05
Matches are distributed among these distances:
57 28 0.19
58 64 0.44
59 47 0.32
60 7 0.05
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.44
Consensus pattern (58 bp):
CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAGCTTATTTT
Found at i:7488255 original size:117 final size:116
Alignment explanation
Indices: 7488092--7488310 Score: 325
Period size: 117 Copynumber: 1.9 Consensus size: 116
7488082 TGCTTTTGTA
* * * *
7488092 CAAGGAAAATTGATACTTTCAACTTTTCTCTAAAATATTTTTTAGAAACTTTAATTTCGAGA-AA
1 CAAGAAAAATTGATACTTTCAACTTTTCTCAAAAATAGTTTTTAGAAACTTT-ATTTCGAAAGAA
7488156 AATTGATACTTTCAAC-TTTTCTCCAAAAATATTTTTTTAGAAAGCTTATTTT
65 AATTGATACTTTCAACTTTTTCT-CAAAAATATTTTTTTAGAAAGCTTATTTT
* **
7488208 CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATAGTTTTTAGAAAGTTTATTTTTAAAGAA
1 CAAGAAAAATTGATACTTTCAAC-TTTTCTCAAAAATAGTTTTTAGAAACTTTATTTCGAAAGAA
*
7488273 AATTGATACTTTCAACTTTTTCTTAAAAATATTTTTTT
65 AATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTT
7488311 GAATTTTATT
Statistics
Matches: 92, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
116 28 0.30
117 58 0.63
118 6 0.07
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.44
Consensus pattern (116 bp):
CAAGAAAAATTGATACTTTCAACTTTTCTCAAAAATAGTTTTTAGAAACTTTATTTCGAAAGAAA
ATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTAGAAAGCTTATTTT
Found at i:7488415 original size:20 final size:20
Alignment explanation
Indices: 7488373--7488415 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
7488363 TCTAATCAAT
* *
7488373 AAATAATAATAATAATAATA
1 AAATAATAATAAAAATAAAA
7488393 AAATAATAA-AAAAATGAAAA
1 AAATAATAATAAAAAT-AAAA
7488413 AAA
1 AAA
7488416 AAACCTAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (20 bp):
AAATAATAATAAAAATAAAA
Found at i:7488864 original size:35 final size:30
Alignment explanation
Indices: 7488788--7488862 Score: 89
Period size: 33 Copynumber: 2.4 Consensus size: 30
7488778 ATAATATGTA
*
7488788 AATAGATAAATAATAATAATAACAGATAAAT
1 AATA-ATATATAATAATAATAACAGATAAAT
7488819 AATAATATATAATAGATATATAAACAGATAAA-
1 AATAATATATAATA-ATA-AT-AACAGATAAAT
7488851 AATACATATATA
1 AATA-ATATATA
7488863 TATATATTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
30 9 0.23
31 7 0.18
32 6 0.15
33 17 0.44
ACGTcount: A:0.63, C:0.04, G:0.05, T:0.28
Consensus pattern (30 bp):
AATAATATATAATAATAATAACAGATAAAT
Found at i:7488919 original size:7 final size:7
Alignment explanation
Indices: 7488897--7488978 Score: 82
Period size: 7 Copynumber: 11.9 Consensus size: 7
7488887 AGATAAATAA
7488897 ATAAAAT
1 ATAAAAT
7488904 ACTAAAAT
1 A-TAAAAT
*
7488912 ACAAAAT
1 ATAAAAT
7488919 ATAAAAT
1 ATAAAAT
7488926 ATAAAAT
1 ATAAAAT
7488933 ATAAAAT
1 ATAAAAT
7488940 AAATAAAA-
1 --ATAAAAT
7488948 ATAAAA-
1 ATAAAAT
7488954 AT-AAA-
1 ATAAAAT
7488959 ATAAAAT
1 ATAAAAT
* *
7488966 AAAAAAA
1 ATAAAAT
7488973 ATAAAA
1 ATAAAA
7488979 CAAATTGAAA
Statistics
Matches: 65, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
5 5 0.08
6 11 0.17
7 36 0.55
8 7 0.11
9 6 0.09
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (7 bp):
ATAAAAT
Found at i:7488953 original size:5 final size:5
Alignment explanation
Indices: 7488906--7488978 Score: 64
Period size: 5 Copynumber: 15.0 Consensus size: 5
7488896 AATAAAATAC
* * * *
7488906 TAAAA TACAA -AATA TAAAA TATAA -AATA TAAAA T-AAA TAAAAA TAAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA T-AAAA T-AAAA
7488955 TAAAA TAAAA TAAAA -AAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
7488979 CAAATTGAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
4 12 0.22
5 33 0.60
6 10 0.18
ACGTcount: A:0.78, C:0.01, G:0.00, T:0.21
Consensus pattern (5 bp):
TAAAA
Found at i:7489362 original size:43 final size:42
Alignment explanation
Indices: 7489175--7489373 Score: 149
Period size: 43 Copynumber: 4.7 Consensus size: 42
7489165 CTCCTTTAAG
*
7489175 CAGAGGCTCAACGACTTTGAGAAACATAAACAAAGCTTCTT-TATT
1 CAGAGGCTCAACGACTTTG-GAAA-ATAAA-AAAGC-TCTTCTAAT
* ** * *
7489220 CAGAGGCTTAACGACTTTTTAAGAA-ATAAAAGGCTCCTCTAAT
1 CAGAGGCTCAACGACTTTGGAA-AATA-AAAAAGCTCTTCTAAT
* ** *
7489263 TAGAGGCTCAACGACTTT-GAAAAT-AAATGGCTCTTCTAAA
1 CAGAGGCTCAACGACTTTGGAAAATAAAAAAGCTCTTCTAAT
**
7489303 CAGAGG--CATTGTAACTTTGGAAAATAAACAAAGCTCTTCTAAT
1 CAGAGGCTCAACG--ACTTTGGAAAATAAA-AAAGCTCTTCTAAT
* *
7489346 CAGAGGCTCAACAACTTTTGAAAATAAA
1 CAGAGGCTCAACGACTTTGGAAAATAAA
7489374 TTGCTCCTTG
Statistics
Matches: 121, Mismatches: 22, Indels: 24
0.72 0.13 0.14
Matches are distributed among these distances:
38 3 0.02
40 23 0.19
41 8 0.07
42 7 0.06
43 55 0.45
44 5 0.04
45 20 0.17
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (42 bp):
CAGAGGCTCAACGACTTTGGAAAATAAAAAAGCTCTTCTAAT
Found at i:7490372 original size:22 final size:23
Alignment explanation
Indices: 7490347--7490401 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
7490337 TGAGTCCTTC
7490347 TTTTTCATTCACTTTATTTT-TA
1 TTTTTCATTCACTTTATTTTATA
* * * *
7490369 TTTTTTATTTTATTTTATTTTATT
1 TTTTTCA-TTCACTTTATTTTATA
7490393 TTTTTCATT
1 TTTTTCATT
7490402 TTTTTAAGCA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
22 6 0.23
23 13 0.50
24 7 0.27
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.76
Consensus pattern (23 bp):
TTTTTCATTCACTTTATTTTATA
Done.