Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167960.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_22, 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: 19587844
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 68000 characters in sequence are not A, C, G, or T
File 81 of 105
Found at i:14281620 original size:175 final size:176
Alignment explanation
Indices: 14281328--14281681 Score: 656
Period size: 175 Copynumber: 2.0 Consensus size: 176
14281318 GATGTATTAG
*
14281328 AAACTAAAGTGAATTACATTTTTTTTTAAATAGAGTTAATTATACTTTTGGTATTTTAATTTTGA
1 AAACTAAAGTCAATTACATTTTTTTTTAAATAGAGTTAATTATACTTTTGGTATTTTAATTTTGA
*
14281393 GAAAATGTACAAATTGGCATCCAAAGAAATAAAATATACAATTTGCACCCTAAAATTTTCAATAA
66 GAAAATGTACAAATTGGCATCCAAAGAAATAAAATATACAATTTGCACCCTAAAATTTTAAATAA
*
14281458 TGTATAATTGTATCTTAAACTTTCAAATTATGTACCATAGTAACAA
131 TGTATAATTGTATCTGAAACTTTCAAATTATGTACCATAGTAACAA
14281504 AAACTAAAGTCAATTACA-TTTTTTTTAAATAGAGTTAATTATACTTTTGGTATTTTAATTTTGA
1 AAACTAAAGTCAATTACATTTTTTTTTAAATAGAGTTAATTATACTTTTGGTATTTTAATTTTGA
* *
14281568 GAAAATGTACAAATTGGCATCCAAAGAAATAAAATATATAATTTGCACCCTAAATTTTTAAATAA
66 GAAAATGTACAAATTGGCATCCAAAGAAATAAAATATACAATTTGCACCCTAAAATTTTAAATAA
14281633 TGTATAATTGTATCTGAAACTTTCAAATTATGTACCATAGTAACAA
131 TGTATAATTGTATCTGAAACTTTCAAATTATGTACCATAGTAACAA
14281679 AAA
1 AAA
14281682 AGTAGTCTCA
Statistics
Matches: 173, Mismatches: 5, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
175 156 0.90
176 17 0.10
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.38
Consensus pattern (176 bp):
AAACTAAAGTCAATTACATTTTTTTTTAAATAGAGTTAATTATACTTTTGGTATTTTAATTTTGA
GAAAATGTACAAATTGGCATCCAAAGAAATAAAATATACAATTTGCACCCTAAAATTTTAAATAA
TGTATAATTGTATCTGAAACTTTCAAATTATGTACCATAGTAACAA
Found at i:14287790 original size:72 final size:71
Alignment explanation
Indices: 14287615--14287796 Score: 213
Period size: 72 Copynumber: 2.5 Consensus size: 71
14287605 GGATTTCCCC
* * * *
14287615 AAACTTGAACCAATTGATCCCCTACATAAAGAGATCAATTGGTTAGCATTTTCAAAGAAAAAATT
1 AAACATGAACCAATTGATCCCCTACATAAAGGGATCGATCGGTTAGCATTTTCAAAGAAAAAATT
14287680 AGCTTA
66 AGCTTA
* ** * * * * *
14287686 AAACATGAACAAATCAATCTCTTACATAAAGGGATCGATCGGTTAGGCTTTTTCATAGGAAAAAT
1 AAACATGAACCAATTGATCCCCTACATAAAGGGATCGATCGGTTA-GCATTTTCAAAGAAAAAAT
*
14287751 TGGCTTA
65 TAGCTTA
*
14287758 AAACATGAACCAATTGATCCCCT-CATGGAAGGGATCGAT
1 AAACATGAACCAATTGATCCCCTACAT-AAAGGGATCGAT
14287797 TGGGTCATGT
Statistics
Matches: 90, Mismatches: 19, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
71 39 0.43
72 51 0.57
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (71 bp):
AAACATGAACCAATTGATCCCCTACATAAAGGGATCGATCGGTTAGCATTTTCAAAGAAAAAATT
AGCTTA
Found at i:14293877 original size:72 final size:72
Alignment explanation
Indices: 14293782--14293967 Score: 284
Period size: 72 Copynumber: 2.6 Consensus size: 72
14293772 GGACTTCCCC
*
14293782 AAACTTGAACCAATCGATCCCCTACATAAAGGGATCGATTGGTTAGGCATTTTCAAAGGAAAAAT
1 AAACATGAACCAATCGATCCCCTACATAAAGGGATCGATTGGTTAGGCATTTTCAAAGGAAAAAT
14293847 TGGCTTA
66 TGGCTTA
* * * * * *
14293854 AAACATGAACCAATCAATTCCCTACATAAAGGGATCAATCGGTTAGGCTTTTTCATAGGAAAAAT
1 AAACATGAACCAATCGATCCCCTACATAAAGGGATCGATTGGTTAGGCATTTTCAAAGGAAAAAT
14293919 TGGCTTA
66 TGGCTTA
*
14293926 AAACATGAACCAATCGATCCCCT-CATGGAAGGGATCGATTGG
1 AAACATGAACCAATCGATCCCCTACAT-AAAGGGATCGATTGG
14293968 GTCATGCCCA
Statistics
Matches: 101, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
71 3 0.03
72 98 0.97
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.25
Consensus pattern (72 bp):
AAACATGAACCAATCGATCCCCTACATAAAGGGATCGATTGGTTAGGCATTTTCAAAGGAAAAAT
TGGCTTA
Found at i:14298129 original size:17 final size:17
Alignment explanation
Indices: 14298107--14298142 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
14298097 TAAATTACTC
14298107 AATAAAA-AAATTAATAA
1 AATAAAATAAA-TAATAA
14298124 AATAAAATAAATAATAA
1 AATAAAATAAATAATAA
14298141 AA
1 AA
14298143 ACTGGAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 15 0.83
18 3 0.17
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (17 bp):
AATAAAATAAATAATAA
Found at i:14298135 original size:9 final size:8
Alignment explanation
Indices: 14298107--14298203 Score: 52
Period size: 8 Copynumber: 11.2 Consensus size: 8
14298097 TAAATTACTC
14298107 AATAAAAA
1 AATAAAAA
*
14298115 AATTAATAA
1 AA-TAAAAA
14298124 AATAAAATA
1 AATAAAA-A
14298133 AATAATAAA
1 AATAA-AAA
14298142 AACTGGAAATAAA
1 AA-T---AA-AAA
14298155 AATAAAAA
1 AATAAAAA
*
14298163 TATAAAAA
1 AATAAAAA
* *
14298171 ACTTAAAA
1 AATAAAAA
* *
14298179 TATAAAAT
1 AATAAAAA
*
14298187 GATAAAAA
1 AATAAAAA
14298195 AA-AAAAA
1 AATAAAAA
14298202 AA
1 AA
14298204 AGATAAGCTG
Statistics
Matches: 69, Mismatches: 13, Indels: 15
0.71 0.13 0.15
Matches are distributed among these distances:
7 7 0.10
8 32 0.46
9 18 0.26
10 3 0.04
12 1 0.01
13 8 0.12
ACGTcount: A:0.75, C:0.02, G:0.03, T:0.20
Consensus pattern (8 bp):
AATAAAAA
Found at i:14298179 original size:28 final size:26
Alignment explanation
Indices: 14298121--14298200 Score: 72
Period size: 28 Copynumber: 2.9 Consensus size: 26
14298111 AAAAAATTAA
*
14298121 TAAAAT-AAAATAAATAATAAAAACT
1 TAAAATAAAAATAAAAAATAAAAACT
**
14298146 GGAAATAAAAATAAAAATATAAAAAACT
1 TAAAATAAAAATAAAAA-AT-AAAAACT
*
14298174 TAAAATATAAAATGATAAAAAAAAAAA
1 TAAAATA-AAAAT-A-AAAAATAAAAA
14298201 AAAAGATAAG
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
25 4 0.09
26 9 0.21
27 2 0.05
28 12 0.28
29 10 0.23
30 2 0.05
31 4 0.09
ACGTcount: A:0.74, C:0.03, G:0.04, T:0.20
Consensus pattern (26 bp):
TAAAATAAAAATAAAAAATAAAAACT
Found at i:14298609 original size:20 final size:20
Alignment explanation
Indices: 14298580--14298627 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
14298570 CTAACGATTC
*
14298580 AATCTTAACCTAAAAAGTTCA
1 AATCTAAACC-AAAAAGTTCA
* *
14298601 AA-CTAAACCCAAAAGTTTA
1 AATCTAAACCAAAAAGTTCA
14298620 AATCTAAA
1 AATCTAAA
14298628 ATCCCAAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 10 0.43
20 11 0.48
21 2 0.09
ACGTcount: A:0.52, C:0.19, G:0.04, T:0.25
Consensus pattern (20 bp):
AATCTAAACCAAAAAGTTCA
Found at i:14298662 original size:22 final size:21
Alignment explanation
Indices: 14298625--14298707 Score: 96
Period size: 21 Copynumber: 4.0 Consensus size: 21
14298615 GTTTAAATCT
14298625 AAAATCCCA-AAACTTAAACCC
1 AAAATCCCAGAAACTTAAA-CC
14298646 AAAATCCCAGAAACTTAAACC
1 AAAATCCCAGAAACTTAAACC
* * *
14298667 TAAATCCTAGAAACCTAAACC
1 AAAATCCCAGAAACTTAAACC
* * *
14298688 TAAATCCCATAAATTTAAAC
1 AAAATCCCAGAAACTTAAAC
14298708 ACAGAGTTTT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
21 45 0.83
22 9 0.17
ACGTcount: A:0.51, C:0.28, G:0.02, T:0.19
Consensus pattern (21 bp):
AAAATCCCAGAAACTTAAACC
Found at i:14299055 original size:15 final size:15
Alignment explanation
Indices: 14299037--14299078 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
14299027 AATATAATAC
14299037 TAGTAATAATAACAA
1 TAGTAATAATAACAA
*
14299052 TAGTAAGAATAACAA
1 TAGTAATAATAACAA
* *
14299067 TAATACTAATAA
1 TAGTAATAATAA
14299079 AAAAATACAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.60, C:0.07, G:0.07, T:0.26
Consensus pattern (15 bp):
TAGTAATAATAACAA
Found at i:14299096 original size:12 final size:12
Alignment explanation
Indices: 14299079--14299103 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14299069 ATACTAATAA
14299079 AAAAATACAAAT
1 AAAAATACAAAT
14299091 AAAAATACAAAT
1 AAAAATACAAAT
14299103 A
1 A
14299104 CATATTATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAAATACAAAT
Found at i:14302697 original size:14 final size:14
Alignment explanation
Indices: 14302591--14302831 Score: 58
Period size: 14 Copynumber: 16.4 Consensus size: 14
14302581 TGTGTACAAA
*
14302591 TTTAGGGTTTTAGGT
1 TTTAGGGTTTT-GAT
* *
14302606 TTTAAGGTTTGGGAT
1 TTTAGGGTTT-TGAT
*
14302621 TTT-GGATTTTAAGAT
1 TTTAGGGTTTT--GAT
* *
14302636 TTTAAGGTTTTCAATT
1 TTTAGGGTTTT-GA-T
14302652 TTTAGGGTTTTGAT
1 TTTAGGGTTTTGAT
*** * **
14302666 TTTAAAATTTAGGG
1 TTTAGGGTTTTGAT
14302680 TTTAGGGTTTTGAT
1 TTTAGGGTTTTGAT
* *
14302694 TTTAGGGTTTGGAAAG
1 TTTAGGGTTTTG--AT
**
14302710 TTTAGGGTTTAAAAGT
1 TTTAGGGTTT-TGA-T
* *
14302726 TTTGAGGTTTTAGTGTT
1 TTT-AGGGTTT--TGAT
*
14302743 TTTAGGGCTTTGAT
1 TTTAGGGTTTTGAT
* *
14302757 TTTAAGG-TTTGAGG
1 TTTAGGGTTTTGA-T
*
14302771 TTTAGGGTTTAG-T
1 TTTAGGGTTTTGAT
* **
14302784 TTTAGGATTTCAAT
1 TTTAGGGTTTTGAT
* *
14302798 TTTAAGG-TTTGAAA
1 TTTAGGGTTTTG-AT
* *
14302812 TTTAGAGTTTGGAT
1 TTTAGGGTTTTGAT
14302826 TTTAGG
1 TTTAGG
14302832 ATTGAAAACG
Statistics
Matches: 155, Mismatches: 55, Indels: 33
0.64 0.23 0.14
Matches are distributed among these distances:
13 16 0.10
14 65 0.42
15 29 0.19
16 35 0.23
17 10 0.06
ACGTcount: A:0.22, C:0.01, G:0.27, T:0.50
Consensus pattern (14 bp):
TTTAGGGTTTTGAT
Found at i:14302726 original size:15 final size:16
Alignment explanation
Indices: 14302694--14302727 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
14302684 GGGTTTTGAT
*
14302694 TTTAGGGTTTGGAAAG
1 TTTAGGGTTTGAAAAG
14302710 TTTAGGGTTT-AAAAG
1 TTTAGGGTTTGAAAAG
14302725 TTT
1 TTT
14302728 TGAGGTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.44
Consensus pattern (16 bp):
TTTAGGGTTTGAAAAG
Found at i:14302800 original size:41 final size:42
Alignment explanation
Indices: 14302755--14302834 Score: 117
Period size: 41 Copynumber: 1.9 Consensus size: 42
14302745 TAGGGCTTTG
** *
14302755 ATTTTAAGGTTTGAGGTTTAGGGTTTAG-TTTTAGGATTTCA
1 ATTTTAAGGTTTGAAATTTAGAGTTTAGATTTTAGGATTTCA
*
14302796 ATTTTAAGGTTTGAAATTTAGAGTTTGGATTTTAGGATT
1 ATTTTAAGGTTTGAAATTTAGAGTTTAGATTTTAGGATT
14302835 GAAAACGCGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
41 24 0.71
42 10 0.29
ACGTcount: A:0.25, C:0.01, G:0.25, T:0.49
Consensus pattern (42 bp):
ATTTTAAGGTTTGAAATTTAGAGTTTAGATTTTAGGATTTCA
Found at i:14303222 original size:22 final size:22
Alignment explanation
Indices: 14303181--14303225 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
14303171 AAGTTTGAAC
*
14303181 TCATTTTTATTTTTATTTATTA
1 TCATTTTTATTATTATTTATTA
14303203 TCATTTATTATTATTA-TTATTA
1 TCATTT-TTATTATTATTTATTA
14303225 T
1 T
14303226 TATAAAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (22 bp):
TCATTTTTATTATTATTTATTA
Found at i:14303228 original size:9 final size:10
Alignment explanation
Indices: 14303186--14303226 Score: 57
Period size: 10 Copynumber: 4.2 Consensus size: 10
14303176 TGAACTCATT
*
14303186 TTTATTTTTA
1 TTTATTATTA
*
14303196 TTTATTATCA
1 TTTATTATTA
14303206 TTTATTATTA
1 TTTATTATTA
14303216 -TTATTATTA
1 TTTATTATTA
14303225 TT
1 TT
14303227 ATAAAACAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
9 9 0.33
10 18 0.67
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (10 bp):
TTTATTATTA
Found at i:14304550 original size:18 final size:18
Alignment explanation
Indices: 14304527--14304569 Score: 63
Period size: 17 Copynumber: 2.4 Consensus size: 18
14304517 ACCTCTTCCC
14304527 TTTTTTTTTGTG-TT-CTA
1 TTTTTTTTTG-GCTTACTA
14304544 TTTTTTTTTGGCTTACTA
1 TTTTTTTTTGGCTTACTA
14304562 TTTTTTTT
1 TTTTTTTT
14304570 GTTTGCCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 1 0.04
17 12 0.50
18 11 0.46
ACGTcount: A:0.07, C:0.07, G:0.09, T:0.77
Consensus pattern (18 bp):
TTTTTTTTTGGCTTACTA
Found at i:14304580 original size:14 final size:15
Alignment explanation
Indices: 14304562--14304602 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
14304552 TGGCTTACTA
14304562 TTTTTTTTGTTTGCC
1 TTTTTTTTGTTTGCC
* *
14304577 TTTTTTTTCTTT-TC
1 TTTTTTTTGTTTGCC
14304591 TTTTTTTTGTTT
1 TTTTTTTTGTTT
14304603 AATTAATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.00, C:0.10, G:0.07, T:0.83
Consensus pattern (15 bp):
TTTTTTTTGTTTGCC
Found at i:14306297 original size:3 final size:3
Alignment explanation
Indices: 14306284--14306353 Score: 113
Period size: 3 Copynumber: 23.3 Consensus size: 3
14306274 TTTAAAGGGC
*
14306284 TGA TAA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
* *
14306332 TGA TGA TGA TAA TGA TAA TGA T
1 TGA TGA TGA TGA TGA TGA TGA T
14306354 AATAATAATA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.37, C:0.00, G:0.29, T:0.34
Consensus pattern (3 bp):
TGA
Found at i:14306354 original size:6 final size:6
Alignment explanation
Indices: 14306284--14306400 Score: 99
Period size: 6 Copynumber: 19.5 Consensus size: 6
14306274 TTTAAAGGGC
* * * * * * *
14306284 TGATAA TGATGA TGATGA TGATGA TGATGA TGATGA TGATGA TGATGA
1 TGATAA TGATAA TGATAA TGATAA TGATAA TGATAA TGATAA TGATAA
* * * * *
14306332 TGATGA TGATAA TGATAA TGATAA TAATAA TAATAA TAATAA TAATAA
1 TGATAA TGATAA TGATAA TGATAA TGATAA TGATAA TGATAA TGATAA
* * *
14306380 TAATAA TAATAA TAATAA TGA
1 TGATAA TGATAA TGATAA TGA
14306401 AACTCAATAT
Statistics
Matches: 107, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 107 1.00
ACGTcount: A:0.49, C:0.00, G:0.18, T:0.33
Consensus pattern (6 bp):
TGATAA
Found at i:14306358 original size:3 final size:3
Alignment explanation
Indices: 14306340--14306398 Score: 100
Period size: 3 Copynumber: 19.7 Consensus size: 3
14306330 GATGATGATG
* *
14306340 ATA ATG ATA ATG ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
14306388 ATA ATA ATA AT
1 ATA ATA ATA AT
14306399 GAAACTCAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:14306358 original size:9 final size:9
Alignment explanation
Indices: 14306286--14306400 Score: 77
Period size: 9 Copynumber: 12.8 Consensus size: 9
14306276 TAAAGGGCTG
*
14306286 ATAATGATG
1 ATAATGATA
* *
14306295 ATGATGATG
1 ATAATGATA
* *
14306304 ATGATGATG
1 ATAATGATA
* *
14306313 ATGATGATG
1 ATAATGATA
* *
14306322 ATGATGATG
1 ATAATGATA
* *
14306331 ATGATGATG
1 ATAATGATA
14306340 ATAATGATA
1 ATAATGATA
* *
14306349 ATGATAATA
1 ATAATGATA
*
14306358 ATAATAATA
1 ATAATGATA
*
14306367 ATAATAATA
1 ATAATGATA
*
14306376 ATAATAATA
1 ATAATGATA
*
14306385 ATAATAATA
1 ATAATGATA
14306394 ATAATGA
1 ATAATGA
14306401 AACTCAATAT
Statistics
Matches: 99, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 99 1.00
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (9 bp):
ATAATGATA
Found at i:14306437 original size:16 final size:13
Alignment explanation
Indices: 14306400--14306427 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
14306390 AATAATAATG
14306400 AAACTCAATATGC
1 AAACTCAATATGC
14306413 AAACTCAATATGC
1 AAACTCAATATGC
14306426 AA
1 AA
14306428 TAGACTCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.21, G:0.07, T:0.21
Consensus pattern (13 bp):
AAACTCAATATGC
Found at i:14309346 original size:48 final size:48
Alignment explanation
Indices: 14309278--14309457 Score: 151
Period size: 48 Copynumber: 3.8 Consensus size: 48
14309268 AGCTTTTTCA
* *
14309278 AATTATTAAAATTGTCGAGCCTTTATTTAAAAAAGGTTTTTCATATGAG
1 AATT-TTAAAGTTGTTGAGCCTTTATTTAAAAAAGGTTTTTCATATGAG
** **
14309327 AATTTTAAAGTTGTTGAGCCTCCATTTAAAGGA-GTTTTT--T-T-A-
1 AATTTTAAAGTTGTTGAGCCTTTATTTAAAAAAGGTTTTTCATATGAG
* * * * *
14309369 AATTTTTAAAGTTGTTGAGGC-TTGTTTAAAAGAGCTTTTTTCAAATGAG
1 AA-TTTTAAAGTTGTTGAGCCTTTATTTAAAAAAG-GTTTTTCATATGAG
* *
14309418 AATTTTAAAGTTGTTGAG-CTTCTATTTAGAAAAGCTTTTT
1 AATTTTAAAGTTGTTGAGCCTT-TATTTAAAAAAGGTTTTT
14309458 AAAATTTTTG
Statistics
Matches: 104, Mismatches: 17, Indels: 21
0.73 0.12 0.15
Matches are distributed among these distances:
42 10 0.10
43 18 0.17
44 6 0.06
45 1 0.01
47 8 0.08
48 46 0.44
49 15 0.14
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.44
Consensus pattern (48 bp):
AATTTTAAAGTTGTTGAGCCTTTATTTAAAAAAGGTTTTTCATATGAG
Found at i:14309397 original size:42 final size:44
Alignment explanation
Indices: 14309329--14309466 Score: 122
Period size: 43 Copynumber: 3.1 Consensus size: 44
14309319 CATATGAGAA
* *
14309329 TTTTAAAGTTGTTGAGCCTCCATTTAAAGGAG-TTTTTTTAAAT
1 TTTTAAAGTTGTTGAGCCTCCATTTAAAAGAGCTTTTTTCAAAT
* **
14309372 TTTTAAAGTTGTTGAGGCT-TGTTTAAAAGAGCTTTTTTCAAAT
1 TTTTAAAGTTGTTGAGCCTCCATTTAAAAGAGCTTTTTTCAAAT
* * *
14309415 GAGAATTTTAAAGTTGTTGAGCTTCTATTTAGAAA-AGC-TTTTTAAAAT
1 -----TTTTAAAGTTGTTGAGCCTCCATTTA-AAAGAGCTTTTTTCAAAT
14309463 TTTT
1 TTTT
14309467 GAAGCTCTCA
Statistics
Matches: 78, Mismatches: 9, Indels: 16
0.76 0.09 0.16
Matches are distributed among these distances:
42 9 0.12
43 32 0.41
48 26 0.33
49 8 0.10
50 3 0.04
ACGTcount: A:0.30, C:0.07, G:0.17, T:0.46
Consensus pattern (44 bp):
TTTTAAAGTTGTTGAGCCTCCATTTAAAAGAGCTTTTTTCAAAT
Found at i:14309464 original size:91 final size:91
Alignment explanation
Indices: 14309255--14309599 Score: 309
Period size: 91 Copynumber: 3.7 Consensus size: 91
14309245 GTTGCCAAGC
* * * * * * *
14309255 CTCTGTTTAGAGGAGCTTTTTCAAATTATTAAAATTGTCGAGCCTTTATTTAAAAAAG-GTTTTT
1 CTCTATTTAGAAGAGCTTTTTCAAATTTTTAAAGTTGTCGAGCCTTTGTTTAAAAGAGTTTTTTT
*
14309319 CATATGAGAATTTTAAAGTTGTTGAG
66 CAAATGAGAATTTTAAAGTTGTTGAG
* * * * * *
14309345 CCTCCATTTA-AAGGAGTTTTTTTAAATTTTTAAAGTTGTTGAGGC-TTGTTTAAAAGAGCTTTT
1 -CTCTATTTAGAA-GAGCTTTTTCAAATTTTTAAAGTTGTCGAGCCTTTGTTTAAAAGAGTTTTT
14309408 TTCAAATGAGAATTTTAAAGTTGTTGAG
64 TTCAAATGAGAATTTTAAAGTTGTTGAG
* * * * * * * *
14309436 CTTCTATTTAGAAAAGCTTTTTAAAATTTTTGAAGCTCTCAAGCCATTGTTTAAAGGAGTTTTTT
1 C-TCTATTTAGAAGAGCTTTTTCAAATTTTTAAAGTTGTCGAGCCTTTGTTTAAAAGAG----TT
* * *
14309501 TTTATTCAGATGAGAATTTTAAAGTTGTTAAAA
61 TTT-TTCAAATGAGAATTTTAAAGTTGTT-GAG
* * * * *
14309534 CTCTATTTAGATGAGCTTTTTCAAATTTCTAATGTTTTCGAGACTTTGTTTAAAATGAGTTTTTT
1 CTCTATTTAGAAGAGCTTTTTCAAATTTTTAAAGTTGTCGAGCCTTTGTTTAAAA-GAGTTTTTT
14309599 T
65 T
14309600 TTTTCAGATG
Statistics
Matches: 202, Mismatches: 40, Indels: 22
0.77 0.15 0.08
Matches are distributed among these distances:
90 13 0.06
91 93 0.46
92 14 0.07
93 2 0.01
94 5 0.02
96 4 0.02
97 66 0.33
98 5 0.02
ACGTcount: A:0.30, C:0.09, G:0.16, T:0.45
Consensus pattern (91 bp):
CTCTATTTAGAAGAGCTTTTTCAAATTTTTAAAGTTGTCGAGCCTTTGTTTAAAAGAGTTTTTTT
CAAATGAGAATTTTAAAGTTGTTGAG
Found at i:14309539 original size:97 final size:97
Alignment explanation
Indices: 14309404--14309625 Score: 270
Period size: 97 Copynumber: 2.3 Consensus size: 97
14309394 TTAAAAGAGC
* * * *
14309404 TTTTTTCAAATGAGAATTTTAAAGTTGTTGAGCTTCTATTTAGAAAAGCTTTTTAAAATTTTTGA
1 TTTTTTCAGATGAGAATTTTAAAGTTGTTAAACTTCTATTTAGAAAAGCTTTTTAAAATTTCT-A
*
14309469 A-GCTCTCAAGCCATTGTTT-AAAGGAGTTTTT
65 ATGCTCTCAAGACATTGTTTAAAAGGAGTTTTT
** *
14309500 TTTTATTCAGATGAGAATTTTAAAGTTGTTAAAAC-TCTATTTAGATGAGCTTTTTCAAATTTCT
1 TTTT-TTCAGATGAGAATTTTAAAGTTGTT-AAACTTCTATTTAGAAAAGCTTTTTAAAATTTCT
* * * * *
14309564 AATGTTTTCGAGACTTTGTTTAAAATGAGTTTTT
64 AATGCTCTCAAGACATTGTTTAAAAGGAGTTTTT
*
14309598 TTTTTTCAGATGCGAATTTTAAAGTTGT
1 TTTTTTCAGATGAGAATTTTAAAGTTGT
14309626 CAAGCCTCTT
Statistics
Matches: 108, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
96 6 0.06
97 85 0.79
98 17 0.16
ACGTcount: A:0.29, C:0.09, G:0.15, T:0.47
Consensus pattern (97 bp):
TTTTTTCAGATGAGAATTTTAAAGTTGTTAAACTTCTATTTAGAAAAGCTTTTTAAAATTTCTAA
TGCTCTCAAGACATTGTTTAAAAGGAGTTTTT
Found at i:14311048 original size:24 final size:24
Alignment explanation
Indices: 14311021--14311082 Score: 60
Period size: 22 Copynumber: 2.7 Consensus size: 24
14311011 ACAATAAGTA
*
14311021 TTTTCAATATTTTTTTCAT-AATTT
1 TTTTCAATATTTTTTTC-TCAATCT
*
14311045 TTTTC-AT-TTTTTTGCTCAATCT
1 TTTTCAATATTTTTTTCTCAATCT
14311067 TTTT-ATATATTTTTTT
1 TTTTCA-ATATTTTTTT
14311083 ATTATTTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
21 1 0.03
22 15 0.48
23 4 0.13
24 11 0.35
ACGTcount: A:0.19, C:0.10, G:0.02, T:0.69
Consensus pattern (24 bp):
TTTTCAATATTTTTTTCTCAATCT
Found at i:14311092 original size:19 final size:19
Alignment explanation
Indices: 14311068--14311104 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
14311058 GCTCAATCTT
14311068 TTTATATATTTTTTTATTA
1 TTTATATATTTTTTTATTA
14311087 TTTATATATTTTTTTATT
1 TTTATATATTTTTTTATT
14311105 TTTTGAGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTATATATTTTTTTATTA
Found at i:14311098 original size:17 final size:16
Alignment explanation
Indices: 14311072--14311105 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
14311062 AATCTTTTTA
*
14311072 TATATTTTTTTATTATT
1 TATATATTTTT-TTATT
14311089 TATATATTTTTTTATT
1 TATATATTTTTTTATT
14311105 T
1 T
14311106 TTTGAGCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
TATATATTTTTTTATT
Found at i:14311341 original size:25 final size:25
Alignment explanation
Indices: 14311313--14311362 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
14311303 TTGAATAATG
14311313 AACAAGAATAAATAAAAGTAA-GAAA
1 AACAAGAATAAATAAAA-TAATGAAA
*
14311338 AACAATAATAAATAAAATAATGAAA
1 AACAAGAATAAATAAAATAATGAAA
14311363 TAAAAATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 3 0.13
25 20 0.87
ACGTcount: A:0.72, C:0.04, G:0.08, T:0.16
Consensus pattern (25 bp):
AACAAGAATAAATAAAATAATGAAA
Found at i:14311810 original size:16 final size:17
Alignment explanation
Indices: 14311799--14311843 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
14311789 AAAAATATTC
14311799 AATAATAAAAATAAATA
1 AATAATAAAAATAAATA
14311816 AATAAT-AAAATAAA-A
1 AATAATAAAAATAAATA
14311831 AAT-ATACAAAATA
1 AATAATA-AAAATA
14311844 TTTAATATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 2 0.08
15 4 0.15
16 14 0.54
17 6 0.23
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (17 bp):
AATAATAAAAATAAATA
Found at i:14313105 original size:3 final size:3
Alignment explanation
Indices: 14313097--14313141 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
14313087 GATTGAAGGC
14313097 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
14313142 GTACATGGCG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:14315504 original size:24 final size:22
Alignment explanation
Indices: 14315471--14315537 Score: 62
Period size: 24 Copynumber: 2.8 Consensus size: 22
14315461 TAAAAAATCT
14315471 AAAATAAAATGAAAATAAAATAGAA
1 AAAAT-AAATG-AAATAAAATA-AA
* *
14315496 AAAATAAATCAAATCAAATTAAA
1 AAAATAAATGAAAT-AAAATAAA
*
14315519 AAAGTAGAATGAAATAAAA
1 AAAATA-AATGAAATAAAA
14315538 AAGCAAATAT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
23 14 0.40
24 16 0.46
25 5 0.14
ACGTcount: A:0.72, C:0.03, G:0.07, T:0.18
Consensus pattern (22 bp):
AAAATAAATGAAATAAAATAAA
Found at i:14315509 original size:23 final size:23
Alignment explanation
Indices: 14315483--14315537 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 23
14315473 AATAAAATGA
14315483 AAATAAAATAGAAAAAATA-AATC
1 AAATAAAATA-AAAAAATAGAATC
* * *
14315506 AAATCAAATTAAAAAAGTAGAATG
1 AAAT-AAAATAAAAAAATAGAATC
14315530 AAATAAAA
1 AAATAAAA
14315538 AAGCAAATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
23 14 0.54
24 12 0.46
ACGTcount: A:0.71, C:0.04, G:0.07, T:0.18
Consensus pattern (23 bp):
AAATAAAATAAAAAAATAGAATC
Found at i:14316882 original size:63 final size:63
Alignment explanation
Indices: 14316815--14317017 Score: 196
Period size: 65 Copynumber: 3.2 Consensus size: 63
14316805 TTGCAAGTCA
* * *
14316815 AAAAATAAATGATTTGAATTGAGCCAAGATCAAAGATAAGTGACCGAGATTGAACCACTGGTT
1 AAAAATAAATGATTTGAACTAAACCAAGATCAAAGATAAGTGACCGAGATTGAACCACTGGTT
* * * * ** * * * * *
14316878 AAAAAAATAAATTATCTGAACTAAACTAAAATTGAAGATGAGTGATCGAGATTGAACTACAGGTC
1 --AAAAATAAATGATTTGAACTAAACCAAGATCAAAGATAAGTGACCGAGATTGAACCACTGGTT
* *
14316943 AAAAATAAATGATTTGGACTAAACCAAGATCAAATA-AGAGTGACCGAGATTGAACCA-TAGG-T
1 AAAAATAAATGATTTGAACTAAACCAAGATCAAAGATA-AGTGACCGAGATTGAACCACT-GGTT
*
14317005 AAAAAAAAATGAT
1 AAAAATAAATGAT
14317018 CCAGATTGAA
Statistics
Matches: 108, Mismatches: 28, Indels: 7
0.76 0.20 0.05
Matches are distributed among these distances:
62 12 0.11
63 47 0.44
65 49 0.45
ACGTcount: A:0.48, C:0.11, G:0.18, T:0.23
Consensus pattern (63 bp):
AAAAATAAATGATTTGAACTAAACCAAGATCAAAGATAAGTGACCGAGATTGAACCACTGGTT
Found at i:14316916 original size:65 final size:64
Alignment explanation
Indices: 14316814--14317018 Score: 172
Period size: 63 Copynumber: 3.2 Consensus size: 64
14316804 ATTGCAAGTC
* * * * *
14316814 AAAAAATAAATGATTTGAATTGAGCCAAGATCAAAGATAAGTGACCGAGATTGAACCACTGGTTA
1 AAAAAATAAATGATCTGAACTAAACCAAAATC-AAGATAAGTGACCGAGATTGAACCACTGGTTA
* * * * * * *
14316879 AAAAAATAAATTATCTGAACTAAACTAAAATTGAAGATGAGTGATCGAGATTGAACTACAGG-T-
1 AAAAAATAAATGATCTGAACTAAACCAAAA-TCAAGATAAGTGACCGAGATTGAACCACTGGTTA
* * * *
14316942 CAAAAATAAATGATTTGGACTAAACCAAGATCAA-ATAAGAGTGACCGAGATTGAACCA-TAGG-
1 AAAAAATAAATGATCTGAACTAAACCAAAATCAAGAT-A-AGTGACCGAGATTGAACCACT-GGT
14317004 T-
63 TA
14317005 AAAAAA-AAATGATC
1 AAAAAATAAATGATC
14317019 CAGATTGAAC
Statistics
Matches: 111, Mismatches: 25, Indels: 11
0.76 0.17 0.07
Matches are distributed among these distances:
61 2 0.02
62 10 0.09
63 49 0.44
64 1 0.01
65 48 0.43
66 1 0.01
ACGTcount: A:0.48, C:0.12, G:0.18, T:0.22
Consensus pattern (64 bp):
AAAAAATAAATGATCTGAACTAAACCAAAATCAAGATAAGTGACCGAGATTGAACCACTGGTTA
Found at i:14319160 original size:110 final size:110
Alignment explanation
Indices: 14318967--14319187 Score: 442
Period size: 110 Copynumber: 2.0 Consensus size: 110
14318957 ATGAATCTAT
14318967 TCCTATTTAATGTCTTAAGAGTAATGGGATCAATAACATCGATGCCCCACATAAATAAAGGCTAA
1 TCCTATTTAATGTCTTAAGAGTAATGGGATCAATAACATCGATGCCCCACATAAATAAAGGCTAA
14319032 GGTGGTGCCAACACTTACAAAATAGTGGGCGAAGTATGGATCTTA
66 GGTGGTGCCAACACTTACAAAATAGTGGGCGAAGTATGGATCTTA
14319077 TCCTATTTAATGTCTTAAGAGTAATGGGATCAATAACATCGATGCCCCACATAAATAAAGGCTAA
1 TCCTATTTAATGTCTTAAGAGTAATGGGATCAATAACATCGATGCCCCACATAAATAAAGGCTAA
14319142 GGTGGTGCCAACACTTACAAAATAGTGGGCGAAGTATGGATCTTA
66 GGTGGTGCCAACACTTACAAAATAGTGGGCGAAGTATGGATCTTA
14319187 T
1 T
14319188 TGGCATAAAT
Statistics
Matches: 111, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
110 111 1.00
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (110 bp):
TCCTATTTAATGTCTTAAGAGTAATGGGATCAATAACATCGATGCCCCACATAAATAAAGGCTAA
GGTGGTGCCAACACTTACAAAATAGTGGGCGAAGTATGGATCTTA
Found at i:14328403 original size:18 final size:18
Alignment explanation
Indices: 14328380--14328418 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
14328370 AAATCGAAAT
14328380 TTAGGTTCGGATGTACAA
1 TTAGGTTCGGATGTACAA
*
14328398 TTAGGTTTGGATGTACAA
1 TTAGGTTCGGATGTACAA
14328416 TTA
1 TTA
14328419 CGCGTAAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.28, C:0.08, G:0.26, T:0.38
Consensus pattern (18 bp):
TTAGGTTCGGATGTACAA
Found at i:14329176 original size:22 final size:21
Alignment explanation
Indices: 14329132--14329184 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 21
14329122 AAATAAAATG
14329132 AAAATAAAATAGAAAAAGTAAA
1 AAAATAAAATAGAAAAAG-AAA
* *
14329154 ACAATAAAATAGAAATAGAAA
1 AAAATAAAATAGAAAAAGAAA
14329175 AAAATGAAAA
1 AAAAT-AAAA
14329185 AATAAAGGCA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 7 0.26
22 20 0.74
ACGTcount: A:0.75, C:0.02, G:0.09, T:0.13
Consensus pattern (21 bp):
AAAATAAAATAGAAAAAGAAA
Found at i:14331099 original size:19 final size:19
Alignment explanation
Indices: 14331072--14331149 Score: 57
Period size: 19 Copynumber: 3.9 Consensus size: 19
14331062 CTATTAAAAC
*
14331072 TATATAATTAATATTATTA
1 TATAAAATTAATATTATTA
* * *
14331091 TATAAAATTTATTTTATATT
1 TATAAAATTAATATTAT-TA
* *
14331111 TATATTAATATATTATATATTA
1 TATA-AAAT-TAATAT-TATTA
*
14331133 TATAAAATAAATATTAT
1 TATAAAATTAATATTAT
14331150 ATTATATTAT
Statistics
Matches: 43, Mismatches: 12, Indels: 8
0.68 0.19 0.13
Matches are distributed among these distances:
19 17 0.40
20 9 0.21
21 6 0.14
22 8 0.19
23 3 0.07
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TATAAAATTAATATTATTA
Found at i:14331122 original size:14 final size:14
Alignment explanation
Indices: 14331072--14331136 Score: 51
Period size: 14 Copynumber: 4.4 Consensus size: 14
14331062 CTATTAAAAC
14331072 TATATAATTAATATTAT
1 TATAT-ATT-ATA-TAT
** *
14331089 TATATAAAATTTAT
1 TATATATTATATAT
*
14331103 TTTATATT-TATAT
1 TATATATTATATAT
14331116 TAATATATTATATAT
1 T-ATATATTATATAT
14331131 TATATA
1 TATATA
14331137 AAATAAATAT
Statistics
Matches: 38, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
13 5 0.13
14 19 0.50
15 8 0.21
16 1 0.03
17 5 0.13
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TATATATTATATAT
Found at i:14331124 original size:21 final size:20
Alignment explanation
Indices: 14331086--14331163 Score: 68
Period size: 21 Copynumber: 3.8 Consensus size: 20
14331076 TAATTAATAT
* *
14331086 TATTATATAAAATTTATTTTA
1 TATTATAT-TAATATATTTTA
*
14331107 TATTTATATTAATATATTATA
1 TA-TTATATTAATATATTTTA
* * *
14331128 TATTATATAAAATAAATATTA
1 TATTATAT-TAATATATTTTA
14331149 TATTATATT-ATATAT
1 TATTATATTAATATAT
14331164 ACGTGAATTT
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
19 5 0.11
20 6 0.13
21 29 0.63
22 6 0.13
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TATTATATTAATATATTTTA
Found at i:14331161 original size:38 final size:37
Alignment explanation
Indices: 14331110--14331221 Score: 90
Period size: 38 Copynumber: 3.0 Consensus size: 37
14331100 TATTTTATAT
14331110 TTATATTA-ATATATTATATATTATATAAAATAAATA
1 TTATATTATATATATTATATATTATATAAAATAAATA
* * *
14331146 TTATATTATAT-TA-TATATACGTGAATTTAAAATATTATA
1 TTATATTATATATATTATATA--T-TATATAAAATA-AATA
* * *
14331185 TTA-ATTATACTATATT-TATATTAAATATAACAAATA
1 TTATATTATA-TATATTATATATTATATAAAATAAATA
14331221 T
1 T
14331222 ATTTAAAAAT
Statistics
Matches: 59, Mismatches: 9, Indels: 16
0.70 0.11 0.19
Matches are distributed among these distances:
35 6 0.10
36 14 0.24
37 9 0.15
38 16 0.27
39 7 0.12
40 6 0.10
41 1 0.02
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (37 bp):
TTATATTATATATATTATATATTATATAAAATAAATA
Found at i:14333685 original size:63 final size:61
Alignment explanation
Indices: 14333618--14333778 Score: 146
Period size: 63 Copynumber: 2.6 Consensus size: 61
14333608 GTCAGAAACA
14333618 CCTTCAATAACCCCATTGAATATTTTGTAAGGGATTACTCAAAGCATTTTTTAGCCAAAAATG
1 CCTTCAATAACCCCATT-AATATTTTGTAAGGGATTACTCAAAGCATTTTTTA-CCAAAAATG
* * * * * * *
14333681 CCTTCAATAATCCCC-TTATAAAATTTG-AAGGAAATTAGTCAAGGCATTTTTTACTATAAATG
1 CCTTCAATAA-CCCCATTA-ATATTTTGTAAGG-GATTACTCAAAGCATTTTTTACCAAAAATG
* * * * *
14333743 CCTTGACTAACCCTATTCAATTTTTTCTAAGGGATT
1 CCTTCAATAACCCCATT-AATATTTTGTAAGGGATT
14333779 GTTTAAGGTG
Statistics
Matches: 77, Mismatches: 15, Indels: 13
0.73 0.14 0.12
Matches are distributed among these distances:
61 3 0.04
62 29 0.38
63 41 0.53
64 4 0.05
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.36
Consensus pattern (61 bp):
CCTTCAATAACCCCATTAATATTTTGTAAGGGATTACTCAAAGCATTTTTTACCAAAAATG
Found at i:14338374 original size:62 final size:63
Alignment explanation
Indices: 14338255--14338389 Score: 159
Period size: 62 Copynumber: 2.2 Consensus size: 63
14338245 TTTTTGACAT
* ** * * *
14338255 AAAATGCCTCGAATAATCCTTTCAAAAAAATTGAAAGGGATTGTTTAAGGCATTTTCTA-CTA
1 AAAATGCCTTGAATAATCCACTCAAAAAAATTGAAAGGGATTATTTAAGGCAGTTTCTAGCCA
*
14338317 AAAATGCCTTGAATAATCCACTCATAAAAAATT-TAAGGAGATTATTTAAGGC-GTTTCTAGCCA
1 AAAATGCCTTGAATAATCCACTCA-AAAAAATTGAAAGG-GATTATTTAAGGCAGTTTCTAGCCA
*
14338380 GAAATGCCTT
1 AAAATGCCTT
14338390 CAATTACCCT
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
62 31 0.50
63 31 0.50
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.31
Consensus pattern (63 bp):
AAAATGCCTTGAATAATCCACTCAAAAAAATTGAAAGGGATTATTTAAGGCAGTTTCTAGCCA
Found at i:14338502 original size:55 final size:55
Alignment explanation
Indices: 14338422--14338545 Score: 221
Period size: 55 Copynumber: 2.3 Consensus size: 55
14338412 GTAATGGATG
14338422 ATTCAAGGCATTTTTCAGGCAAAAACACCTTGAATAATGACCTCATAAAATGATT
1 ATTCAAGGCATTTTTCAGGCAAAAACACCTTGAATAATGACCTCATAAAATGATT
* * *
14338477 ATTCGAGGCATTTTTCATGCGAAAACACCTTGAATAATGACCTCATAAAATGATT
1 ATTCAAGGCATTTTTCAGGCAAAAACACCTTGAATAATGACCTCATAAAATGATT
14338532 ATTCAAGGCATTTT
1 ATTCAAGGCATTTT
14338546 CTAGGCTAAA
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 65 1.00
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.31
Consensus pattern (55 bp):
ATTCAAGGCATTTTTCAGGCAAAAACACCTTGAATAATGACCTCATAAAATGATT
Found at i:14338658 original size:64 final size:64
Alignment explanation
Indices: 14338590--14338710 Score: 174
Period size: 64 Copynumber: 1.9 Consensus size: 64
14338580 AAATATAGGG
*
14338590 GATTATTAAAGGTATTTTT-TATAAAAAAAATACATTCAATAATCTCCT-ATAAAAATTTTTTGT
1 GATTATTAAAGGTATTTTTGT-CAAAAAAAATACATTCAATAATC-CCTCATAAAAATTTTTTGT
14338653 A
64 A
* * *
14338654 GATTATTCAAGGTATTTTTGTCAAAAAAAATACCTTTAATAATCCCTCATAAAAATT
1 GATTATTAAAGGTATTTTTGTCAAAAAAAATACATTCAATAATCCCTCATAAAAATT
14338711 GAAAATGATT
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
63 3 0.06
64 47 0.92
65 1 0.02
ACGTcount: A:0.43, C:0.11, G:0.07, T:0.40
Consensus pattern (64 bp):
GATTATTAAAGGTATTTTTGTCAAAAAAAATACATTCAATAATCCCTCATAAAAATTTTTTGTA
Found at i:14338725 original size:63 final size:64
Alignment explanation
Indices: 14338590--14338736 Score: 156
Period size: 64 Copynumber: 2.3 Consensus size: 64
14338580 AAATATAGGG
* * *****
14338590 GATTATTAAAGGTATTTTTTATAAAAAAAATACATTCAATAATCTCCTATAAAAATTTTTTGTA
1 GATTATTCAAGGTATTTTTTACAAAAAAAATACATTCAATAATCTCCTATAAAAATTGAAAATA
* *
14338654 GATTATTCAAGGTATTTTTGT-CAAAAAAAATACCTTTAATAATC-CCTCATAAAAATTGAAAAT
1 GATTATTCAAGGTATTTTT-TACAAAAAAAATACATTCAATAATCTCCT-ATAAAAATTGAAAAT
14338717 -
64 A
* *
14338717 GATTATTCAAAGCATTTTTT
1 GATTATTCAAGGTATTTTTT
14338737 GCCATAAATG
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
62 1 0.01
63 20 0.29
64 48 0.69
65 1 0.01
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.40
Consensus pattern (64 bp):
GATTATTCAAGGTATTTTTTACAAAAAAAATACATTCAATAATCTCCTATAAAAATTGAAAATA
Found at i:14339154 original size:372 final size:369
Alignment explanation
Indices: 14338477--14339189 Score: 1052
Period size: 372 Copynumber: 1.9 Consensus size: 369
14338467 TAAAATGATT
* * *
14338477 ATTCGAGGCATTTTTCATGCGAAAACACCTTGAATAATGACCTCATAAAATGATTATTCAAGGCA
1 ATTCAAGGCATTTTTCAAGCAAAAACACCTTGAATAATGACCTCATAAAATGATTATTCAAGGCA
*** * * *
14338542 TTTTCTAGGCTAAATGTCTTGCTTAATCTCCTCATAAAAAATATAGGGGATTATTAAAGGTATTT
66 TTTTCTAGGCTAAACACCTTGATTAATCTCCTCATAAAAAATATAAGGGATTATTAAAGGCATTT
* * *** *
14338607 TTTATAAAAAAAATACATTCAATAATCTCCTATAAAAATTTTTTGTAGATTATTCAAGGTATTTT
131 TTCAAAAAAAAAATACATTCAATAATCTCCTATAAAAATAAATTGTAGATTATTCAAGGCATTTT
* * * *
14338672 TGTCAAAAAAAATACCTTTAATAATCCCTCATAAAAATTGAAAATGATTATTCAAAGCATTTTTT
196 TGTCAAAAAAAATACCTTTAAAAATCCCTCATAAAAACTAAAAAGGATTATTCAAAGCATTTTTT
* * * * *
14338737 GCCATAAATGCTTTGAATAACCAGATGCCAAGATTTTTTAAAGATTATTCAAGGCATTTTTTTGT
261 GCCACAAATGCTTTGAATAACCAAATGCCAAGATTTTCTAAAGATTATTCAAGGCATTTTTTGGC
**
14338802 CAAAAATGCCTTCAATTACCCTATTAAATTTTTTGTAAGAAATG
326 CAAAAACACCTTCAATTACCCTATTAAATTTTTTGTAAGAAATG
* *
14338846 ATTCAAGGTATTTTTCAAGCAAAAACACCTTGAATAATGACCTCATAAAAATTATTATTCAAGGC
1 ATTCAAGGCATTTTTCAAGCAAAAACACCTTGAATAATGACCTCAT-AAAATGATTATTCAAGGC
* *
14338911 ATTTTCTAGGCTAAAACACCTTGATTAATCTCCTTATAAAAAATATAAGGGATTATTAAAGGCGT
65 ATTTTCTAGGCT-AAACACCTTGATTAATCTCCTCATAAAAAATATAAGGGATTATTAAAGGCAT
* * *
14338976 TTTCTACAAAAAAAAAATACCTTCAATAATCTCCTATAAAAA-AAATTGTGGATTATTCAAGGCG
129 TTT-T-CAAAAAAAAAATACATTCAATAATCTCCTATAAAAATAAATTGTAGATTATTCAAGGCA
*
14339040 TTTTTGTC-AAAAAAATACCTTTAAAAATCCCGTCATAAAAACTAAAAAGGATTATTCAAGGCAT
192 TTTTTGTCAAAAAAAATACCTTTAAAAATCCC-TCATAAAAACTAAAAAGGATTATTCAAAGCAT
*
14339104 TTTTTGCCACAAATGCTTTGAATAACCAAATGCCAAGATTTTCTAAAGATTATTCAAGGTATTTT
256 TTTTTGCCACAAATGCTTTGAATAACCAAATGCCAAGATTTTCTAAAGATTATTCAAGGCATTTT
14339169 TTGGCCAAAAACACCTTCAAT
321 TTGGCCAAAAACACCTTCAAT
14339190 AATCTACTGT
Statistics
Matches: 304, Mismatches: 35, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
369 42 0.14
370 29 0.10
371 69 0.23
372 131 0.43
373 33 0.11
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (369 bp):
ATTCAAGGCATTTTTCAAGCAAAAACACCTTGAATAATGACCTCATAAAATGATTATTCAAGGCA
TTTTCTAGGCTAAACACCTTGATTAATCTCCTCATAAAAAATATAAGGGATTATTAAAGGCATTT
TTCAAAAAAAAAATACATTCAATAATCTCCTATAAAAATAAATTGTAGATTATTCAAGGCATTTT
TGTCAAAAAAAATACCTTTAAAAATCCCTCATAAAAACTAAAAAGGATTATTCAAAGCATTTTTT
GCCACAAATGCTTTGAATAACCAAATGCCAAGATTTTCTAAAGATTATTCAAGGCATTTTTTGGC
CAAAAACACCTTCAATTACCCTATTAAATTTTTTGTAAGAAATG
Found at i:14339262 original size:93 final size:94
Alignment explanation
Indices: 14339143--14339337 Score: 250
Period size: 93 Copynumber: 2.1 Consensus size: 94
14339133 ATGCCAAGAT
* * * *
14339143 TTTCTAAAGATTATTCAAGGTATTTTTTGGCCAAAAACACCTTCAATAATCTACT-GTCTTTACC
1 TTTCTAAAGATTATTCAAAGTATTTTTTGGCCAAAAACACCTTCAATAATCCA-TAATCCTTACC
* *
14339207 TTATGCTCACACATTTTAGGAATGAAAACC
65 TTATACTCACACATATTAGGAATGAAAACC
* * *
14339237 TTTC-AAAGATTATTCAAAGTATTTTTTGGCTAAAAACGCCTTTAATAATCCATAATCCTTACCT
1 TTTCTAAAGATTATTCAAAGTATTTTTTGGCCAAAAACACCTTCAATAATCCATAATCCTTACCT
* * *
14339301 TATACTCCCGCATATTGGGAATGAAAACC
66 TATACTCACACATATTAGGAATGAAAACC
*
14339330 TTTTTAAA
1 TTTCTAAA
14339338 AAATTTAAAC
Statistics
Matches: 86, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
92 1 0.01
93 78 0.91
94 7 0.08
ACGTcount: A:0.34, C:0.19, G:0.10, T:0.36
Consensus pattern (94 bp):
TTTCTAAAGATTATTCAAAGTATTTTTTGGCCAAAAACACCTTCAATAATCCATAATCCTTACCT
TATACTCACACATATTAGGAATGAAAACC
Found at i:14344072 original size:22 final size:24
Alignment explanation
Indices: 14344046--14344091 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 24
14344036 AATGTTGTAC
14344046 AATTACAATTTTTA-ATG-AATTT
1 AATTACAATTTTTACATGTAATTT
**
14344068 AATTACTTTTTTTACATGTAATTT
1 AATTACAATTTTTACATGTAATTT
14344092 TTGTATGTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 12 0.60
23 3 0.15
24 5 0.25
ACGTcount: A:0.35, C:0.07, G:0.04, T:0.54
Consensus pattern (24 bp):
AATTACAATTTTTACATGTAATTT
Found at i:14346269 original size:68 final size:68
Alignment explanation
Indices: 14346122--14346248 Score: 211
Period size: 68 Copynumber: 1.9 Consensus size: 68
14346112 GCATTATACT
* *
14346122 AATGAATAGGATGTTTATAAAATTATTTTAGCTGGTATATAAATGGATGATTACCTTCTATATAT
1 AATGAATAAGATGTTTATAAAATTATTTTAGCTGATATATAAATGGATGATTACCTTCTATATAT
14346187 ATG
66 ATG
*
14346190 AATGAATAAGATGTTTATAAAATTATTTCTA-CTGATATATGAATGGATGATTACCTTCT
1 AATGAATAAGATGTTTATAAAATTATTT-TAGCTGATATATAAATGGATGATTACCTTCT
14346249 TACCTTTTGT
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
68 53 0.96
69 2 0.04
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (68 bp):
AATGAATAAGATGTTTATAAAATTATTTTAGCTGATATATAAATGGATGATTACCTTCTATATAT
ATG
Found at i:14346975 original size:24 final size:24
Alignment explanation
Indices: 14346935--14346981 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
14346925 AAAACATATC
* *
14346935 ATATTATGATTATAAATA-AATTA
1 ATATTATAATTAAAAATATAATTA
14346958 ATATTAATAATTAAAAATATAATT
1 ATATT-ATAATTAAAAATATAATT
14346982 TTTAAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 11 0.55
25 4 0.20
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
ATATTATAATTAAAAATATAATTA
Found at i:14350604 original size:23 final size:23
Alignment explanation
Indices: 14350578--14350632 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
14350568 TAATATAATT
*
14350578 TAAAATTTTAATAAAAATTAAAA
1 TAAAATTTTAATAAAAATGAAAA
* * *
14350601 TAAAAATTTGATACAAATGAAAA
1 TAAAATTTTAATAAAAATGAAAA
14350624 -AAATATTTT
1 TAAA-ATTTT
14350633 TATCATAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 3 0.12
23 23 0.88
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (23 bp):
TAAAATTTTAATAAAAATGAAAA
Found at i:14367779 original size:16 final size:16
Alignment explanation
Indices: 14367758--14367790 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
14367748 CATATAGTTT
14367758 TGAATAATTAAATTCA
1 TGAATAATTAAATTCA
*
14367774 TGAATAATTAGATTCA
1 TGAATAATTAAATTCA
14367790 T
1 T
14367791 TCGATTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.39
Consensus pattern (16 bp):
TGAATAATTAAATTCA
Found at i:14371021 original size:24 final size:24
Alignment explanation
Indices: 14370993--14371040 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
14370983 CCAAAAGAAG
14370993 TTAGATTCTTCATAAAAGTAGGGA
1 TTAGATTCTTCATAAAAGTAGGGA
14371017 TTAGATTCTTCATAAAAGTAGGGA
1 TTAGATTCTTCATAAAAGTAGGGA
14371041 CTATTGTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.08, G:0.21, T:0.33
Consensus pattern (24 bp):
TTAGATTCTTCATAAAAGTAGGGA
Found at i:14373663 original size:27 final size:27
Alignment explanation
Indices: 14373633--14373810 Score: 153
Period size: 27 Copynumber: 6.6 Consensus size: 27
14373623 AGATCATCAT
* * *
14373633 TCTCCAGCTGAGGCTTTGAACCCACAC
1 TCTCCACCTGAGGCTTTGGACCCTCAC
* * *** *
14373660 TCTCCAGCAG-GGCCTTTGGATTATCAT
1 TCTCCACCTGAGG-CTTTGGACCCTCAC
* * * *
14373687 TCTCCAACTGAAGCTTTGGACTCTCAA
1 TCTCCACCTGAGGCTTTGGACCCTCAC
*
14373714 TCTCCACCTGGGGCTTTGGACCCTCAC
1 TCTCCACCTGAGGCTTTGGACCCTCAC
* *
14373741 TCTCCCCCTGGGGCTTTGGACCCTCAC
1 TCTCCACCTGAGGCTTTGGACCCTCAC
* *
14373768 TCTCCACCTGAGGCTTTGGATCCTTA-
1 TCTCCACCTGAGGCTTTGGACCCTCAC
*
14373794 TCCTCCACCTGGGGCTT
1 T-CTCCACCTGAGGCTT
14373811 CAGATCCTCA
Statistics
Matches: 124, Mismatches: 24, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
26 3 0.02
27 120 0.97
28 1 0.01
ACGTcount: A:0.16, C:0.35, G:0.20, T:0.29
Consensus pattern (27 bp):
TCTCCACCTGAGGCTTTGGACCCTCAC
Found at i:14373718 original size:54 final size:54
Alignment explanation
Indices: 14373592--14373789 Score: 162
Period size: 54 Copynumber: 3.7 Consensus size: 54
14373582 CATGTGGAGC
* * * ** * *
14373592 CTTTAAACACTCATTCTCCAGCTGGGGCTTCAGATCATCATTCTCCAGCTGAGG
1 CTTTGAACCCTCAATCTCCAGCTGGGGCTTTGGATCATCATTCTCCAACTGAAG
* * * * *
14373646 CTTTGAACCCACACTCTCCAGCAGGGCCTTTGGATTATCATTCTCCAACTGAAG
1 CTTTGAACCCTCAATCTCCAGCTGGGGCTTTGGATCATCATTCTCCAACTGAAG
* * * * * * ** **
14373700 CTTTGGACTCTCAATCTCCACCTGGGGCTTTGGACCCTCACTCTCCCCCTGGGG
1 CTTTGAACCCTCAATCTCCAGCTGGGGCTTTGGATCATCATTCTCCAACTGAAG
* * * *
14373754 CTTTGGACCCTCACTCTCCACCTGAGGCTTTGGATC
1 CTTTGAACCCTCAATCTCCAGCTGGGGCTTTGGATC
14373790 CTTATCCTCC
Statistics
Matches: 114, Mismatches: 30, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
54 114 1.00
ACGTcount: A:0.18, C:0.34, G:0.19, T:0.29
Consensus pattern (54 bp):
CTTTGAACCCTCAATCTCCAGCTGGGGCTTTGGATCATCATTCTCCAACTGAAG
Found at i:14373758 original size:81 final size:80
Alignment explanation
Indices: 14373633--14373810 Score: 187
Period size: 81 Copynumber: 2.2 Consensus size: 80
14373623 AGATCATCAT
* * * ** *
14373633 TCTCCAGCTGAGGCTTTGAACCCACACTCTCCAGCAGGGCCTTTGGATTATCATTCTCCAACTGA
1 TCTCCACCTGGGGCTTTGAACCCACACTCTCCACCAGGGCCTTTGGACCATCACTCTCCAACTGA
14373698 AGCTTTGGA-CTCTCAA
66 AGCTTTGGATC-CT-AA
* * * * * * *
14373714 TCTCCACCTGGGGCTTTGGACCCTCACTCTCCCCCTGGGGCTTTGGACCCTCACTCTCCACCTGA
1 TCTCCACCTGGGGCTTTGAACCCACACTCTCCACCAGGGCCTTTGGACCATCACTCTCCAACTGA
* *
14373779 GGCTTTGGATCCTTA
66 AGCTTTGGATCCTAA
14373794 TCCTCCACCTGGGGCTT
1 T-CTCCACCTGGGGCTT
14373811 CAGATCCTCA
Statistics
Matches: 80, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
80 2 0.03
81 77 0.96
82 1 0.01
ACGTcount: A:0.16, C:0.35, G:0.20, T:0.29
Consensus pattern (80 bp):
TCTCCACCTGGGGCTTTGAACCCACACTCTCCACCAGGGCCTTTGGACCATCACTCTCCAACTGA
AGCTTTGGATCCTAA
Found at i:14373816 original size:27 final size:27
Alignment explanation
Indices: 14373769--14373828 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
14373759 GACCCTCACT
** * *
14373769 CTCCACCTGAGGCTTTGGATCCTTATC
1 CTCCACCTGAGGCTTCAGATCCTCATA
*
14373796 CTCCACCTGGGGCTTCAGATCCTCATA
1 CTCCACCTGAGGCTTCAGATCCTCATA
14373823 CTCCAC
1 CTCCAC
14373829 TTGGATATTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.17, C:0.38, G:0.17, T:0.28
Consensus pattern (27 bp):
CTCCACCTGAGGCTTCAGATCCTCATA
Found at i:14373820 original size:54 final size:53
Alignment explanation
Indices: 14373713--14373828 Score: 135
Period size: 54 Copynumber: 2.2 Consensus size: 53
14373703 TGGACTCTCA
* * **
14373713 ATCTCCACCTGGGGCTTTGGACCCTCACTCTCCCCCTGGGGCTTTGGACCCTC
1 ATCTCCACCTGAGGCTTTGGACCCTCACTCTCCACCTGGGGCTTCAGACCCTC
* * *
14373766 ACTCTCCACCTGAGGCTTTGGATCCTTA-TCCTCCACCTGGGGCTTCAGATCCTC
1 A-TCTCCACCTGAGGCTTTGGACCCTCACT-CTCCACCTGGGGCTTCAGACCCTC
14373820 ATACTCCAC
1 AT-CTCCAC
14373829 TTGGATATTA
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
53 3 0.06
54 50 0.94
ACGTcount: A:0.14, C:0.40, G:0.19, T:0.28
Consensus pattern (53 bp):
ATCTCCACCTGAGGCTTTGGACCCTCACTCTCCACCTGGGGCTTCAGACCCTC
Found at i:14375901 original size:10 final size:12
Alignment explanation
Indices: 14375885--14375922 Score: 76
Period size: 12 Copynumber: 3.2 Consensus size: 12
14375875 ATTTTTTATA
14375885 AATATATTTTTT
1 AATATATTTTTT
14375897 AATATATTTTTT
1 AATATATTTTTT
14375909 AATATATTTTTT
1 AATATATTTTTT
14375921 AA
1 AA
14375923 ATAAAATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
AATATATTTTTT
Found at i:14375903 original size:14 final size:14
Alignment explanation
Indices: 14375869--14375925 Score: 57
Period size: 12 Copynumber: 4.1 Consensus size: 14
14375859 CTTACACATT
14375869 TATATAATTTTTTATA
1 TATAT-ATTTTTTA-A
*
14375885 AATATATTTTTT-A
1 TATATATTTTTTAA
14375898 -ATATATTTTTTAA
1 TATATATTTTTTAA
*
14375911 TATAT-TTTTTAAA
1 TATATATTTTTTAA
14375924 TA
1 TA
14375926 AAATTATATT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
12 11 0.30
13 11 0.30
14 4 0.11
15 7 0.19
16 4 0.11
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
TATATATTTTTTAA
Found at i:14375973 original size:21 final size:20
Alignment explanation
Indices: 14375947--14375995 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
14375937 ATTCTAATTA
*
14375947 ATTTAAATAATAATTTATATT
1 ATTTAAATAAAAATTTAT-TT
14375968 ATTT-AATAAAAAATTTATTT
1 ATTTAAAT-AAAAATTTATTT
14375988 A-TTAAATA
1 ATTTAAATA
14375996 TGTATAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
19 3 0.12
20 9 0.36
21 13 0.52
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
ATTTAAATAAAAATTTATTT
Found at i:14376449 original size:16 final size:18
Alignment explanation
Indices: 14376419--14376468 Score: 59
Period size: 16 Copynumber: 2.9 Consensus size: 18
14376409 TATGTTTTAT
*
14376419 ATATAAAATTAAAAATAA
1 ATATATAATTAAAAATAA
*
14376437 AT-TATAA-TAAAAACAA
1 ATATATAATTAAAAATAA
*
14376453 ATATTTAATTAAAAAT
1 ATATATAATTAAAAAT
14376469 TTATTTTTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
16 10 0.38
17 8 0.31
18 8 0.31
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (18 bp):
ATATATAATTAAAAATAA
Found at i:14377857 original size:36 final size:35
Alignment explanation
Indices: 14377788--14377857 Score: 86
Period size: 36 Copynumber: 2.0 Consensus size: 35
14377778 ATTTCTCTAA
* *
14377788 TTTTTTTAATTTGAATTAAAAAATATATTTAAATT
1 TTTTTTTAATTTGAATTAAAAAATAGATATAAATT
* * *
14377823 TTTTTTTAATTTTGTATTTAAATATAGATATAAAT
1 TTTTTTTAA-TTTGAATTAAAAAATAGATATAAAT
14377858 AATAGATAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
35 9 0.31
36 20 0.69
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (35 bp):
TTTTTTTAATTTGAATTAAAAAATAGATATAAATT
Found at i:14378749 original size:12 final size:12
Alignment explanation
Indices: 14378732--14378756 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14378722 ATTTTTTATA
14378732 TTATACTTATTT
1 TTATACTTATTT
14378744 TTATACTTATTT
1 TTATACTTATTT
14378756 T
1 T
14378757 CTAACGAGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (12 bp):
TTATACTTATTT
Found at i:14379490 original size:16 final size:16
Alignment explanation
Indices: 14379445--14379492 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
14379435 CACTTGTTAA
*
14379445 ATTAATAAATTATTTTT
1 ATTAATAAA-TAATTTT
*
14379462 ATATAAAAAATAATTTT
1 AT-TAATAAATAATTTT
14379479 ATTAATAAATAATT
1 ATTAATAAATAATT
14379493 AATAAATGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 11 0.41
17 10 0.37
18 6 0.22
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATTAATAAATAATTTT
Found at i:14380235 original size:24 final size:24
Alignment explanation
Indices: 14380208--14380258 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
14380198 TTAAAGTGCT
* *
14380208 TCAAAGAAGAAACGTCTTAATTAA
1 TCAAAGAAAAAACATCTTAATTAA
* *
14380232 TCAAAGAAAAAATATCTTAATTGA
1 TCAAAGAAAAAACATCTTAATTAA
14380256 TCA
1 TCA
14380259 TAAATTAAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.51, C:0.12, G:0.10, T:0.27
Consensus pattern (24 bp):
TCAAAGAAAAAACATCTTAATTAA
Found at i:14386169 original size:20 final size:20
Alignment explanation
Indices: 14386131--14386171 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
14386121 ATGTTCTTGT
* *
14386131 ATATAAAAAATATTTTATTA
1 ATATAAAAAATAGTATATTA
14386151 ATATAAAAAATAGTATATTA
1 ATATAAAAAATAGTATATTA
14386171 A
1 A
14386172 GTCTTCCCAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (20 bp):
ATATAAAAAATAGTATATTA
Found at i:14387373 original size:26 final size:27
Alignment explanation
Indices: 14387326--14387379 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
14387316 TTTCAAATGA
*
14387326 TTTATTTTTTATAAAATTAATTTTTATT
1 TTTATTTTTTATAAAA-TAATTATTATT
14387354 TTTATTTTTTA-AATAA-AATTATTATT
1 TTTATTTTTTATAA-AATAATTATTATT
14387380 GGATATAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 9 0.38
27 2 0.08
28 13 0.54
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (27 bp):
TTTATTTTTTATAAAATAATTATTATT
Found at i:14388001 original size:19 final size:19
Alignment explanation
Indices: 14387953--14388046 Score: 56
Period size: 19 Copynumber: 5.1 Consensus size: 19
14387943 GTATATAATA
* *
14387953 AAATTTTAAATTATTTAAT
1 AAATTTTAAATTAATAAAT
14387972 --ATTTATAAAATTAATAAAT
1 AAATTT-T-AAATTAATAAAT
*
14387991 AAATTTTAAATTATTAAAT
1 AAATTTTAAATTAATAAAT
* * **
14388010 TATTTTTATGTTAA-ATAAT
1 AAATTTTAAATTAATA-AAT
14388029 -AATTTT--ATTAATAAAT
1 AAATTTTAAATTAATAAAT
14388045 AA
1 AA
14388047 TTAAAATTTA
Statistics
Matches: 58, Mismatches: 10, Indels: 16
0.69 0.12 0.19
Matches are distributed among these distances:
16 7 0.12
17 6 0.10
18 7 0.12
19 33 0.57
20 1 0.02
21 4 0.07
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (19 bp):
AAATTTTAAATTAATAAAT
Found at i:14391802 original size:34 final size:34
Alignment explanation
Indices: 14391759--14391828 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
14391749 TGCAGCATCT
*
14391759 ATCTACATTCATATAGCAAGCAATTGAAAAGTTA
1 ATCTACATTCATATAGCAAGAAATTGAAAAGTTA
*
14391793 ATCTACATTCATATGGCAAGAAATTGAAAAGTTA
1 ATCTACATTCATATAGCAAGAAATTGAAAAGTTA
14391827 AT
1 AT
14391829 ATTCATACAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.30
Consensus pattern (34 bp):
ATCTACATTCATATAGCAAGAAATTGAAAAGTTA
Found at i:14394802 original size:27 final size:26
Alignment explanation
Indices: 14394746--14394808 Score: 81
Period size: 27 Copynumber: 2.4 Consensus size: 26
14394736 TATTTGATAC
*
14394746 ATAATATTATGATAGAATAAGATAAA
1 ATAATATTATAATAGAATAAGATAAA
* * *
14394772 ATAATATTATAATTAGGATTAGATTAA
1 ATAATATTATAA-TAGAATAAGATAAA
14394799 ATAATATTAT
1 ATAATATTAT
14394809 CCTATTTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 11 0.34
27 21 0.66
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (26 bp):
ATAATATTATAATAGAATAAGATAAA
Found at i:14396646 original size:14 final size:13
Alignment explanation
Indices: 14396627--14396720 Score: 55
Period size: 14 Copynumber: 6.8 Consensus size: 13
14396617 ATTAAGTTAC
14396627 TAAATAAAAATAAA
1 TAAATAAAAA-AAA
14396641 TAAATAATAAAAAA
1 TAAATAA-AAAAAA
* **
14396655 AAAATAAAATGAA
1 TAAATAAAAAAAA
*
14396668 TGAAAAAAACTAAAAA
1 T-AAATAAA--AAAAA
**
14396684 TAAAATAAAAAACT
1 T-AAATAAAAAAAA
*
14396698 TAAAGT-ATAAAAA
1 TAAA-TAAAAAAAA
14396711 TAAATAAAAA
1 TAAATAAAAA
14396721 TTAAAATCAA
Statistics
Matches: 59, Mismatches: 15, Indels: 13
0.68 0.17 0.15
Matches are distributed among these distances:
12 1 0.02
13 18 0.31
14 27 0.46
15 3 0.05
16 10 0.17
ACGTcount: A:0.76, C:0.02, G:0.03, T:0.19
Consensus pattern (13 bp):
TAAATAAAAAAAA
Found at i:14396682 original size:7 final size:6
Alignment explanation
Indices: 14396628--14396756 Score: 60
Period size: 6 Copynumber: 21.5 Consensus size: 6
14396618 TTAAGTTACT
14396628 AAATAA AAAT-- AAATAA ATAATAA AAA-AA AAAT-A AAATGAA TGAAA-AA
1 AAATAA AAATAA AAATAA A-AATAA AAATAA AAATAA AAAT-AA --AAATAA
* * *
14396675 AACTAA AAAT-A AAATAAA AAACTTAA AGTATAA AAAT-- AAATAA AAATTA
1 AAATAA AAATAA AAAT-AA AAA--TAA A-AATAA AAATAA AAATAA AAATAA
* * *
14396724 AAATCAA AAATTA AAATTA AAATAG AAA-AA AAA
1 AAAT-AA AAATAA AAATAA AAATAA AAATAA AAA
14396757 CCTACGATCG
Statistics
Matches: 96, Mismatches: 10, Indels: 35
0.68 0.07 0.25
Matches are distributed among these distances:
4 8 0.08
5 21 0.22
6 37 0.39
7 22 0.23
8 3 0.03
9 5 0.05
ACGTcount: A:0.75, C:0.02, G:0.03, T:0.19
Consensus pattern (6 bp):
AAATAA
Found at i:14396693 original size:19 final size:19
Alignment explanation
Indices: 14396671--14396753 Score: 71
Period size: 19 Copynumber: 4.3 Consensus size: 19
14396661 AAATGAATGA
14396671 AAAAAACTAAAAATAAAAT
1 AAAAAACTAAAAATAAAAT
* *
14396690 AAAAAACTTAAAGTATAAA-
1 AAAAAACTAAAAATA-AAAT
*
14396709 AATAAA-TAAAAATTAAAAT
1 AAAAAACTAAAAA-TAAAAT
* * *
14396728 CAAAAATTAAAATTAAAAT
1 AAAAAACTAAAAATAAAAT
14396747 AGAAAAA
1 A-AAAAA
14396754 AAACCTACGA
Statistics
Matches: 50, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
18 7 0.14
19 30 0.60
20 13 0.26
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.20
Consensus pattern (19 bp):
AAAAAACTAAAAATAAAAT
Found at i:14396719 original size:37 final size:37
Alignment explanation
Indices: 14396629--14396738 Score: 127
Period size: 37 Copynumber: 2.9 Consensus size: 37
14396619 TAAGTTACTA
*
14396629 AATAAAAATAAATAAATAATAAAA-AAAAAATAAAATG
1 AATAAAAATAAATAAA-AATAAAATAAAAAATTAAATG
*
14396666 AATGAAAAA-AACTAAAAATAAAATAAAAAACTTAAA-G
1 AAT-AAAAATAAATAAAAATAAAATAAAAAA-TTAAATG
* *
14396703 TATAAAAATAAATAAAAATTAAAATCAAAAATTAAA
1 AATAAAAATAAATAAAAA-TAAAATAAAAAATTAAA
14396739 ATTAAAATAG
Statistics
Matches: 63, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
36 12 0.19
37 31 0.49
38 20 0.32
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.20
Consensus pattern (37 bp):
AATAAAAATAAATAAAAATAAAATAAAAAATTAAATG
Found at i:14396752 original size:13 final size:12
Alignment explanation
Indices: 14396628--14396746 Score: 67
Period size: 12 Copynumber: 9.8 Consensus size: 12
14396618 TTAAGTTACT
14396628 AAATAAAAA-T-
1 AAATAAAAATTA
14396638 AAATAAATAA-TA
1 AAATAAA-AATTA
*
14396650 AAA-AAAAAATA
1 AAATAAAAATTA
14396661 AAATGAATGAAA--A
1 AAAT-AA--AAATTA
14396674 AAACTAAAAA-TA
1 AAA-TAAAAATTA
14396686 AAATAAAAAACTTA
1 AAAT-AAAAA-TTA
14396700 AAGTATAAAAA-T-
1 AA--ATAAAAATTA
14396712 AAATAAAAATTA
1 AAATAAAAATTA
14396724 AAATCAAAAATTA
1 AAAT-AAAAATTA
*
14396737 AAATTAAAAT
1 AAATAAAAAT
14396747 AGAAAAAAAA
Statistics
Matches: 91, Mismatches: 1, Indels: 32
0.73 0.01 0.26
Matches are distributed among these distances:
10 16 0.18
11 16 0.18
12 23 0.25
13 21 0.23
14 5 0.05
15 8 0.09
16 2 0.02
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (12 bp):
AAATAAAAATTA
Found at i:14397036 original size:19 final size:19
Alignment explanation
Indices: 14396998--14397036 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
14396988 AAGTTATCGG
**
14396998 AATCCCACTGAAAATTTCA
1 AATCCCACTGAAAAACTCA
*
14397017 AATCTCACTGAAAAACTCA
1 AATCCCACTGAAAAACTCA
14397036 A
1 A
14397037 TCGAAAAGTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.26, G:0.05, T:0.23
Consensus pattern (19 bp):
AATCCCACTGAAAAACTCA
Found at i:14397602 original size:3 final size:3
Alignment explanation
Indices: 14397589--14397732 Score: 79
Period size: 3 Copynumber: 53.3 Consensus size: 3
14397579 AAGAAAAAAG
*
14397589 TAA TGA TAA TAA TAA TAA TAA TAA TAA TATA TAA T-A TAA TAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA
* * * *
14397633 T-A TAA TCA CAA T-A TAA T-A TAA T-A TAC T-A TAA TAA T-A TAC T-A
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
14397674 TAA T-A TAC T-A TAC TAA TAA -AC T-A TAC T-A TAA TAA TAA T-A TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
14397716 T-A TAA T-A TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA T
14397733 CACACTATAA
Statistics
Matches: 105, Mismatches: 18, Indels: 36
0.66 0.11 0.23
Matches are distributed among these distances:
2 28 0.27
3 74 0.70
4 3 0.03
ACGTcount: A:0.58, C:0.06, G:0.01, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:14397615 original size:18 final size:17
Alignment explanation
Indices: 14397589--14397732 Score: 110
Period size: 16 Copynumber: 8.8 Consensus size: 17
14397579 AAGAAAAAAG
*
14397589 TAATGATAATAATAATAA
1 TAATAATAATAAT-ATAA
14397607 TAATAATAAT-ATATAA
1 TAATAATAATAATATAA
14397623 T-ATAATAA-AATATAA
1 TAATAATAATAATATAA
* *
14397638 TCACAAT-ATAATATAA
1 TAATAATAATAATATAA
*
14397654 T-ATACTATAATAATATAC
1 TAATA--ATAATAATATAA
* *
14397672 T-ATAAT-ATACTATAC
1 TAATAATAATAATATAA
*
14397687 TAATAA-ACTATACTATAA
1 TAATAATA--ATAATATAA
14397705 TAATAAT-ATAATATAA
1 TAATAATAATAATATAA
14397721 T-ATAATAATAAT
1 TAATAATAATAAT
14397733 CACACTATAA
Statistics
Matches: 107, Mismatches: 7, Indels: 26
0.76 0.05 0.19
Matches are distributed among these distances:
15 31 0.29
16 37 0.35
17 4 0.04
18 35 0.33
ACGTcount: A:0.58, C:0.06, G:0.01, T:0.36
Consensus pattern (17 bp):
TAATAATAATAATATAA
Found at i:14397650 original size:5 final size:5
Alignment explanation
Indices: 14397597--14397761 Score: 113
Period size: 5 Copynumber: 31.6 Consensus size: 5
14397587 AGTAATGATA
* *
14397597 ATAAT AATAAT AATAAT A-ATAT ATAAT ATAAT AAAAT ATAAT CACAAT
1 ATAAT -ATAAT -ATAAT ATA-AT ATAAT ATAAT ATAAT ATAAT -ATAAT
* *
14397645 ATAAT ATAAT ATACT AT-A- ATAAT ATACT ATAAT ATACTAT ACTAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA--AT A-TAAT
* * *
14397691 A-AACT ATACT ATAAT AATAAT ATAAT ATAAT ATAAT AATAAT CACACT
1 ATAA-T ATAAT ATAAT -ATAAT ATAAT ATAAT ATAAT -ATAAT -ATAAT
* * *
14397739 ATAAC ATAAT ATACT ATACT ATA
1 ATAAT ATAAT ATAAT ATAAT ATA
14397762 GTAACATAAT
Statistics
Matches: 129, Mismatches: 18, Indels: 25
0.75 0.10 0.15
Matches are distributed among these distances:
3 2 0.02
4 4 0.03
5 85 0.66
6 33 0.26
7 3 0.02
8 2 0.02
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.35
Consensus pattern (5 bp):
ATAAT
Found at i:14398154 original size:55 final size:55
Alignment explanation
Indices: 14398084--14398296 Score: 184
Period size: 55 Copynumber: 3.9 Consensus size: 55
14398074 AAATGATCGG
* * * *
14398084 GATTGAACTACAAGTTAAGAAAATAATCTGGA-TCGAGCC-AAGATCGAATGACTAA
1 GATTGAACCATAAGTT-AGAAAATGATCTAGACT-GAGCCGAAGATCGAATGACTAA
* * * * ** *
14398139 GATTAAACCATAAGTTTGGAAAATGATTTGGACTGAGCC-AAGATCGAGCGACTAG
1 GATTGAACCATAAG-TTAGAAAATGATCTAGACTGAGCCGAAGATCGAATGACTAA
* * * *
14398194 GATTGAACCACAAGTTTGAAAAATGATCTAGACTAAGCCGAA-ATCGAATGACCAA
1 GATTGAACCATAAGTTAG-AAAATGATCTAGACTGAGCCGAAGATCGAATGACTAA
* *
14398249 GATTGAACCATAAGTCT-GAAAAATGATCTAGATTGAGCCTAAGATCGA
1 GATTGAACCATAAGT-TAG-AAAATGATCTAGACTGAGCCGAAGATCGA
14398297 GCAACCGGGA
Statistics
Matches: 129, Mismatches: 23, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
54 3 0.02
55 115 0.89
56 11 0.09
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.23
Consensus pattern (55 bp):
GATTGAACCATAAGTTAGAAAATGATCTAGACTGAGCCGAAGATCGAATGACTAA
Found at i:14398197 original size:110 final size:111
Alignment explanation
Indices: 14398083--14398345 Score: 284
Period size: 110 Copynumber: 2.4 Consensus size: 111
14398073 CAAATGATCG
* * *
14398083 GGATTGAACTACAAGTTAAGAAAATAATCTGGA-TCGAGCC-AAGATCGAATGACTAAGATTAAA
1 GGATTGAACCACAAGTTAAGAAAATAATCTGGACT-AAGCCGAA-ATCGAATGACCAAGATTAAA
* * * * * *
14398146 CCATAAGTTTGGAAAATGATTTGGACTGAGCC-AAGATCGAGCGACTA
64 CCATAAGTCTGAAAAATGATCTAGACTGAGCCTAAGATCGAGCAACCA
* * * *
14398193 GGATTGAACCACAAGTT-TGAAAAATGATCTAGACTAAGCCGAAATCGAATGACCAAGATTGAAC
1 GGATTGAACCACAAGTTAAG-AAAATAATCTGGACTAAGCCGAAATCGAATGACCAAGATTAAAC
* *
14398257 CATAAGTCTGAAAAATGATCTAGATTGAGCCTAAGATCGAGCAACCG
65 CATAAGTCTGAAAAATGATCTAGACTGAGCCTAAGATCGAGCAACCA
* * * *
14398304 GGATTGAACCATAATTCTAA-AAAATAATCTGCACTGAGCCGA
1 GGATTGAACCACAAGT-TAAGAAAATAATCTGGACTAAGCCGA
14398346 GATTGGAAAT
Statistics
Matches: 125, Mismatches: 22, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
109 1 0.01
110 76 0.61
111 47 0.38
112 1 0.01
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.22
Consensus pattern (111 bp):
GGATTGAACCACAAGTTAAGAAAATAATCTGGACTAAGCCGAAATCGAATGACCAAGATTAAACC
ATAAGTCTGAAAAATGATCTAGACTGAGCCTAAGATCGAGCAACCA
Found at i:14398295 original size:166 final size:166
Alignment explanation
Indices: 14397988--14398296 Score: 383
Period size: 165 Copynumber: 1.9 Consensus size: 166
14397978 ATGATTGATA
*
14397988 TTGGAAAATGATTTGAACTAGGCCAAAATTAAACGACTAGGATTGAACCACAAGTCACAAAAAAT
1 TTGGAAAATGATTTGAACTAGGCCAAAATCAAACGACTAGGATTGAACCACAAGTCACAAAAAAT
* * ** * *
14398053 GATCTGGACTAAGCCAGAATCAAATGATCGGGATTGAACTACAAGTTAAGAAAATAATCTGGATC
66 GATCTAGACTAAGCCAGAATCAAATGACCAAGATTGAACCACAAGTTAAGAAAATAATCTAGATC
14398118 GAGCCAAGATCGAATGACTAAGATTAAACCATAAGT
131 GAGCCAAGATCGAATGACTAAGATTAAACCATAAGT
* * * * ***
14398154 TTGGAAAATGATTTGGACT-GAGCCAAGATCGAGCGACTAGGATTGAACCACAAGT-TTGAAAAA
1 TTGGAAAATGATTTGAACTAG-GCCAAAATCAAACGACTAGGATTGAACCACAAGTCACAAAAAA
* * * *
14398217 TGATCTAGACTAAGCC-GAAATCGAATGACCAAGATTGAACCATAAGTCTGA-AAAATGATCTAG
65 TGATCTAGACTAAGCCAG-AATCAAATGACCAAGATTGAACCACAAGT-TAAGAAAATAATCTAG
*
14398280 ATTGAGCCTAAGATCGA
128 ATCGAGCC-AAGATCGA
14398297 GCAACCGGGA
Statistics
Matches: 120, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
164 1 0.01
165 61 0.51
166 58 0.48
ACGTcount: A:0.41, C:0.16, G:0.21, T:0.22
Consensus pattern (166 bp):
TTGGAAAATGATTTGAACTAGGCCAAAATCAAACGACTAGGATTGAACCACAAGTCACAAAAAAT
GATCTAGACTAAGCCAGAATCAAATGACCAAGATTGAACCACAAGTTAAGAAAATAATCTAGATC
GAGCCAAGATCGAATGACTAAGATTAAACCATAAGT
Found at i:14398315 original size:56 final size:55
Alignment explanation
Indices: 14398118--14398348 Score: 214
Period size: 55 Copynumber: 4.2 Consensus size: 55
14398108 AATCTGGATC
** * * * * * * *
14398118 GAGCCAAGATCGAATGACTAAGATTAAACCATAAGTTTGGAAAATGATTTGGACT
1 GAGCCAAGATCGAGCGACCAGGATTGAACCATAAGTCTGAAAAATGATCTAGACT
* * *
14398173 GAGCCAAGATCGAGCGACTAGGATTGAACCACAAGTTTGAAAAATGATCTAGACT
1 GAGCCAAGATCGAGCGACCAGGATTGAACCATAAGTCTGAAAAATGATCTAGACT
* ** * *
14398228 AAGCCGAA-ATCGAATGACCAAGATTGAACCATAAGTCTGAAAAATGATCTAGATT
1 GAGCC-AAGATCGAGCGACCAGGATTGAACCATAAGTCTGAAAAATGATCTAGACT
* * * * *
14398283 GAGCCTAAGATCGAGCAACCGGGATTGAACCATAATTCTAAAAAATAATCT-GCACT
1 GAGCC-AAGATCGAGCGACCAGGATTGAACCATAAGTCTGAAAAATGATCTAG-ACT
*
14398339 GAGCCGAGAT
1 GAGCCAAGAT
14398349 TGGAAATAAG
Statistics
Matches: 145, Mismatches: 28, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
55 102 0.70
56 43 0.30
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.22
Consensus pattern (55 bp):
GAGCCAAGATCGAGCGACCAGGATTGAACCATAAGTCTGAAAAATGATCTAGACT
Found at i:14398316 original size:166 final size:166
Alignment explanation
Indices: 14397988--14398317 Score: 362
Period size: 166 Copynumber: 2.0 Consensus size: 166
14397978 ATGATTGATA
*
14397988 TTGGAAAATGATTTGAACTAGGCCAAAATTAAACGACTAGGATTGAACCACAAGTCACAAAAAAT
1 TTGGAAAATGATTTGAACTAGGCCAAAATCAAACGACTAGGATTGAACCACAAGTCACAAAAAAT
* * ** * *
14398053 GATCTGGACTAAGCCAGAATCAAATGATCGGGATTGAACTACAAGTTAAGAAAATAATCTGGATC
66 GATCTAGACTAAGCCAGAATCAAATGACCAAGATTGAACCACAAGTTAAGAAAATAATCTAGATC
** *
14398118 GAGCCAAGATCGAATGACTAAGATTAAACCATAAGT
131 GAGCCAAGATCGAACAACCAAGATTAAACCATAAGT
* * * * ***
14398154 TTGGAAAATGATTTGGACT-GAGCCAAGATCGAGCGACTAGGATTGAACCACAAGT-TTGAAAAA
1 TTGGAAAATGATTTGAACTAG-GCCAAAATCAAACGACTAGGATTGAACCACAAGTCACAAAAAA
* * * *
14398217 TGATCTAGACTAAGCC-GAAATCGAATGACCAAGATTGAACCATAAGTCTGA-AAAATGATCTAG
65 TGATCTAGACTAAGCCAG-AATCAAATGACCAAGATTGAACCACAAGT-TAAGAAAATAATCTAG
* * ** *
14398280 ATTGAGCCTAAGATCGAGCAACCGGGATTGAACCATAA
128 ATCGAGCC-AAGATCGAACAACCAAGATTAAACCATAA
14398318 TTCTAAAAAA
Statistics
Matches: 134, Mismatches: 26, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
164 1 0.01
165 61 0.46
166 72 0.54
ACGTcount: A:0.41, C:0.16, G:0.21, T:0.22
Consensus pattern (166 bp):
TTGGAAAATGATTTGAACTAGGCCAAAATCAAACGACTAGGATTGAACCACAAGTCACAAAAAAT
GATCTAGACTAAGCCAGAATCAAATGACCAAGATTGAACCACAAGTTAAGAAAATAATCTAGATC
GAGCCAAGATCGAACAACCAAGATTAAACCATAAGT
Found at i:14399115 original size:13 final size:14
Alignment explanation
Indices: 14399098--14399136 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
14399088 CCTTTCTTTT
*
14399098 TTTTTTATTTTTCA
1 TTTTTTATTTTTAA
*
14399112 -TTTTTGTTTTTAA
1 TTTTTTATTTTTAA
14399125 TTTTTTATTTTT
1 TTTTTTATTTTT
14399137 TTTGCATGCC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.13, C:0.03, G:0.03, T:0.82
Consensus pattern (14 bp):
TTTTTTATTTTTAA
Found at i:14400152 original size:24 final size:24
Alignment explanation
Indices: 14400109--14400154 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
14400099 CTCTTTGGTG
14400109 ATTAGGTATTGGGTTACCACTAAC
1 ATTAGGTATTGGGTTACCACTAAC
* * *
14400133 ATTAGGTGTTGTGTTTCCACTA
1 ATTAGGTATTGGGTTACCACTA
14400155 GTGTTGAAGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.24, C:0.15, G:0.22, T:0.39
Consensus pattern (24 bp):
ATTAGGTATTGGGTTACCACTAAC
Found at i:14402783 original size:23 final size:25
Alignment explanation
Indices: 14402757--14402811 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
14402747 ACATATGTTT
14402757 ATCAAATATAT-CAAAT-AAGCACA
1 ATCAAATATATGCAAATCAAGCACA
* *
14402780 ATCAAACATATGCATATCAAGCACA
1 ATCAAATATATGCAAATCAAGCACA
*
14402805 AGCAAAT
1 ATCAAAT
14402812 TTGTCCATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 10 0.38
24 4 0.15
25 12 0.46
ACGTcount: A:0.53, C:0.20, G:0.07, T:0.20
Consensus pattern (25 bp):
ATCAAATATATGCAAATCAAGCACA
Found at i:14403372 original size:16 final size:16
Alignment explanation
Indices: 14403351--14403382 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
14403341 AAACTCATAT
*
14403351 CAATTGTTAAGGATAC
1 CAATTGTTAAAGATAC
14403367 CAATTGTTAAAGATAC
1 CAATTGTTAAAGATAC
14403383 GTCATCAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (16 bp):
CAATTGTTAAAGATAC
Found at i:14410950 original size:16 final size:17
Alignment explanation
Indices: 14410931--14410962 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
14410921 CAAAATACCC
14410931 AAAAAATA-AAAAAAAT
1 AAAAAATAGAAAAAAAT
14410947 AAAAAATAGAAAAAAA
1 AAAAAATAGAAAAAAA
14410963 AATCGAGGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.88, C:0.00, G:0.03, T:0.09
Consensus pattern (17 bp):
AAAAAATAGAAAAAAAT
Found at i:14410961 original size:27 final size:27
Alignment explanation
Indices: 14410867--14410963 Score: 95
Period size: 27 Copynumber: 3.5 Consensus size: 27
14410857 ATTTGTCCAG
* * **
14410867 AATACAAAAAAAATATATAAAATATGA
1 AATACAAAAAAAATAAAAAAAATAAAA
*
14410894 AATACAAAAAAAATACCAAAAATAATACAA
1 AATACAAAAAAAATA--AAAAA-AATAAAA
**
14410924 AATACCCAAAAAATAAAAAAAATAAAA
1 AATACAAAAAAAATAAAAAAAATAAAA
*
14410951 AATAGAAAAAAAA
1 AATACAAAAAAAA
14410964 ATCGAGGATG
Statistics
Matches: 57, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
27 31 0.54
28 5 0.09
29 3 0.05
30 18 0.32
ACGTcount: A:0.75, C:0.08, G:0.02, T:0.14
Consensus pattern (27 bp):
AATACAAAAAAAATAAAAAAAATAAAA
Found at i:14411872 original size:17 final size:17
Alignment explanation
Indices: 14411845--14411884 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
14411835 CTGGCTCAAT
14411845 CGAACCATGTGCTAAAC
1 CGAACCATGTGCTAAAC
* * *
14411862 TGAACCGTGTGCTGAAC
1 CGAACCATGTGCTAAAC
14411879 CGAACC
1 CGAACC
14411885 TTTTTTTATC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.30, C:0.30, G:0.23, T:0.17
Consensus pattern (17 bp):
CGAACCATGTGCTAAAC
Found at i:14411994 original size:19 final size:19
Alignment explanation
Indices: 14411972--14412015 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
14411962 TTTCTAATTT
14411972 TTTTATA-TATTATTTTTTA
1 TTTTATAGTATT-TTTTTTA
14411991 TTTTA-AGTATTTTTTTTA
1 TTTTATAGTATTTTTTTTA
14412009 TATTTAT
1 T-TTTAT
14412016 GCATGGTAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 9 0.41
19 13 0.59
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (19 bp):
TTTTATAGTATTTTTTTTA
Found at i:14412436 original size:16 final size:16
Alignment explanation
Indices: 14412412--14412478 Score: 73
Period size: 16 Copynumber: 4.2 Consensus size: 16
14412402 CTAGGTTTCT
14412412 AAAACCCCTAAAATCC
1 AAAACCCCTAAAATCC
* * *
14412428 AAAATCCCTTAAATTC
1 AAAACCCCTAAAATCC
*
14412444 -AAACCCTTAAAAATCC
1 AAAACCCCT-AAAATCC
*
14412460 GAAACCCCTAAAATCC
1 AAAACCCCTAAAATCC
14412476 AAA
1 AAA
14412479 CCTTTATATC
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
15 6 0.15
16 27 0.68
17 7 0.17
ACGTcount: A:0.49, C:0.31, G:0.01, T:0.18
Consensus pattern (16 bp):
AAAACCCCTAAAATCC
Found at i:14412479 original size:32 final size:31
Alignment explanation
Indices: 14412413--14412480 Score: 82
Period size: 32 Copynumber: 2.2 Consensus size: 31
14412403 TAGGTTTCTA
* * *
14412413 AAACCCCTAAAATCCAAAATCCCTTAAATTC
1 AAACCCCTAAAATCCAAAACCCCTAAAATCC
* *
14412444 AAACCCTTAAAAATCCGAAACCCCTAAAATCC
1 AAACCCCT-AAAATCCAAAACCCCTAAAATCC
14412476 AAACC
1 AAACC
14412481 TTTATATCAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
31 7 0.23
32 24 0.77
ACGTcount: A:0.47, C:0.34, G:0.01, T:0.18
Consensus pattern (31 bp):
AAACCCCTAAAATCCAAAACCCCTAAAATCC
Found at i:14414589 original size:25 final size:25
Alignment explanation
Indices: 14414547--14414614 Score: 68
Period size: 25 Copynumber: 2.7 Consensus size: 25
14414537 TTACTAAATA
14414547 AAAATAAACA-AATAATAAAAACAAGT-
1 AAAATAAA-ATAA-AATAAAAA-AAGTG
* * *
14414573 AAAATGAAATGAAATAAAAAAATTG
1 AAAATAAAATAAAATAAAAAAAGTG
14414598 AAAATAAAATAAAATAA
1 AAAATAAAATAAAATAA
14414615 CTTAAAGTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
24 3 0.09
25 24 0.69
26 8 0.23
ACGTcount: A:0.74, C:0.03, G:0.06, T:0.18
Consensus pattern (25 bp):
AAAATAAAATAAAATAAAAAAAGTG
Found at i:14414611 original size:19 final size:18
Alignment explanation
Indices: 14414579--14414671 Score: 71
Period size: 19 Copynumber: 4.8 Consensus size: 18
14414569 AAGTAAAATG
*
14414579 AAATGAAATAAAAAAATTGA
1 AAATAAAAT-AAAAAATT-A
14414599 AAATAAAATAAAATAACTTA
1 AAATAAAATAAAA-AA-TTA
* * *
14414619 AAGTATAAA-AATAAATAA
1 AAATA-AAATAAAAAATTA
*
14414637 AAAGTAAAATCAAAAATTA
1 AAA-TAAAATAAAAAATTA
14414656 AAATTAAAATAAAAAA
1 AAA-TAAAATAAAAAA
14414672 ACTTGCGATT
Statistics
Matches: 58, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
18 7 0.12
19 28 0.48
20 18 0.31
21 5 0.09
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.22
Consensus pattern (18 bp):
AAATAAAATAAAAAATTA
Found at i:14415540 original size:5 final size:5
Alignment explanation
Indices: 14415530--14415656 Score: 69
Period size: 5 Copynumber: 24.6 Consensus size: 5
14415520 ATGTACCATA
* * * *
14415530 ATAAT ATAAT ATAAT CTACT AT-A- ATAAT ATAGT ATAAT ACACTAT ACTAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA--AT A-TAAT
* * * * * *
14415581 ATACT ATACT ATAAT AATAAA AAAAT AATAAT ATAAT ATAAT ATAAT CACACT
1 ATAAT ATAAT ATAAT -ATAAT ATAAT -ATAAT ATAAT ATAAT ATAAT -ATAAT
* * *
14415634 ATAAC ATAAT ATACT ATACT ATA
1 ATAAT ATAAT ATAAT ATAAT ATA
14415657 GTAATATGAT
Statistics
Matches: 93, Mismatches: 21, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
3 2 0.02
4 1 0.01
5 72 0.77
6 14 0.15
7 3 0.03
8 1 0.01
ACGTcount: A:0.54, C:0.10, G:0.01, T:0.35
Consensus pattern (5 bp):
ATAAT
Found at i:14415553 original size:23 final size:23
Alignment explanation
Indices: 14415527--14415651 Score: 83
Period size: 23 Copynumber: 5.7 Consensus size: 23
14415517 AATATGTACC
14415527 ATAATAATATAATATAAT-CTACT
1 ATAATAATATAATATAATAC-ACT
*
14415550 ATAATAATATAGTATAATACACT
1 ATAATAATATAATATAATACACT
* *
14415573 ATACTAATAT-A-CT-AT--ACT
1 ATAATAATATAATATAATACACT
*
14415591 ATAATAATA-AA-AAAATA-A-T
1 ATAATAATATAATATAATACACT
14415610 AAT-ATAATATAATATAATCACACT
1 -ATAATAATATAATATAAT-ACACT
*
14415634 ATAACATAATATACTATA
1 AT-A-ATAATATAATATA
14415652 CTATAGTAAT
Statistics
Matches: 80, Mismatches: 9, Indels: 23
0.71 0.08 0.21
Matches are distributed among these distances:
18 12 0.15
19 9 0.11
20 7 0.09
21 5 0.06
22 1 0.01
23 32 0.40
24 2 0.03
26 12 0.15
ACGTcount: A:0.55, C:0.10, G:0.01, T:0.34
Consensus pattern (23 bp):
ATAATAATATAATATAATACACT
Found at i:14415556 original size:13 final size:13
Alignment explanation
Indices: 14415512--14415651 Score: 72
Period size: 13 Copynumber: 10.2 Consensus size: 13
14415502 AACAACAATA
*
14415512 ATAATAATATGTACC
1 ATAATAATA--TACT
14415527 ATAATAATATA--
1 ATAATAATATACT
*
14415538 AT-ATAATCTACT
1 ATAATAATATACT
*
14415550 ATAATAATATAGT
1 ATAATAATATACT
14415563 ATAATACACTATACT
1 ATAATA-A-TATACT
*
14415578 A-ATATACTATACT
1 ATA-ATAATATACT
* **
14415591 ATAATAATAAAAAA
1 ATAATAAT-ATACT
*
14415605 ATAATAATATAAT
1 ATAATAATATACT
*
14415618 ATAATATAATCACACT
1 AT-A-ATAAT-ATACT
14415634 ATAACATAATATACT
1 AT-A-ATAATATACT
14415649 ATA
1 ATA
14415652 CTATAGTAAT
Statistics
Matches: 99, Mismatches: 15, Indels: 23
0.72 0.11 0.17
Matches are distributed among these distances:
10 7 0.07
11 2 0.02
12 2 0.02
13 32 0.32
14 15 0.15
15 29 0.29
16 12 0.12
ACGTcount: A:0.54, C:0.10, G:0.01, T:0.34
Consensus pattern (13 bp):
ATAATAATATACT
Found at i:14418592 original size:24 final size:23
Alignment explanation
Indices: 14418558--14418621 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 23
14418548 ATGCAATAAA
*
14418558 ATACAATAAATATATTAATAATT
1 ATACAATAAATATATTAATAATC
* *
14418581 ATGCAAGTAAATGT-TCTAATAATC
1 ATACAA-TAAATATAT-TAATAATC
14418605 ATACAATAAATATATTA
1 ATACAATAAATATATTA
14418622 GCAAAAATGT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
23 14 0.42
24 19 0.58
ACGTcount: A:0.52, C:0.08, G:0.05, T:0.36
Consensus pattern (23 bp):
ATACAATAAATATATTAATAATC
Found at i:14419158 original size:2 final size:2
Alignment explanation
Indices: 14419151--14419197 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
14419141 TTTCAGCTTC
14419151 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
*
14419193 CT AT A
1 AT AT A
14419198 GTGGTTATAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:14420993 original size:44 final size:42
Alignment explanation
Indices: 14420945--14421026 Score: 103
Period size: 42 Copynumber: 1.9 Consensus size: 42
14420935 TTGCAACTGA
14420945 AAGTTTA-AACACTCGTAATTTGAAATTAAAAGATTCTCAACTTG
1 AAGTTTAGAA-ACTCGTAA-TT-AAATTAAAAGATTCTCAACTTG
** *
14420989 AAGTTTAGAAGTTCGTAATTAAATTTAAAGATTCTCAA
1 AAGTTTAGAAACTCGTAATTAAATTAAAAGATTCTCAA
14421027 TTTAAATTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
42 17 0.50
43 2 0.06
44 13 0.38
45 2 0.06
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.35
Consensus pattern (42 bp):
AAGTTTAGAAACTCGTAATTAAATTAAAAGATTCTCAACTTG
Found at i:14421033 original size:21 final size:21
Alignment explanation
Indices: 14420961--14421040 Score: 76
Period size: 21 Copynumber: 3.8 Consensus size: 21
14420951 AAACACTCGT
*
14420961 AATTTGAAATTAAAAGATTCTC
1 AATTT-AAATTTAAAGATTCTC
* *
14420983 AACTTGAAGTTTAGAAG-TTCGT-
1 AA-TTTAAATTTA-AAGATTC-TC
14421005 AA-TTAAATTTAAAGATTCTC
1 AATTTAAATTTAAAGATTCTC
14421025 AATTTAAATTTAAAGA
1 AATTTAAATTTAAAGA
14421041 CTTGCAAAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
19 4 0.09
20 12 0.26
21 13 0.28
22 12 0.26
23 6 0.13
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.38
Consensus pattern (21 bp):
AATTTAAATTTAAAGATTCTC
Found at i:14421092 original size:18 final size:18
Alignment explanation
Indices: 14421030--14421098 Score: 66
Period size: 18 Copynumber: 3.7 Consensus size: 18
14421020 TTCTCAATTT
*
14421030 AAATTTAAAGACTTGCAA
1 AAATTTAAAGATTTGCAA
* * * *
14421048 AATATTCAAGGTTTTCTCAA
1 AA-ATTTAAAGATTT-GCAA
*
14421068 AAGTTTAAAGATTTGCAA
1 AAATTTAAAGATTTGCAA
14421086 AAATTTAAAGATT
1 AAATTTAAAGATT
14421099 CATAAAGAAT
Statistics
Matches: 38, Mismatches: 11, Indels: 4
0.72 0.21 0.08
Matches are distributed among these distances:
18 17 0.45
19 16 0.42
20 5 0.13
ACGTcount: A:0.45, C:0.09, G:0.12, T:0.35
Consensus pattern (18 bp):
AAATTTAAAGATTTGCAA
Found at i:14421134 original size:19 final size:19
Alignment explanation
Indices: 14421067--14421135 Score: 65
Period size: 18 Copynumber: 3.8 Consensus size: 19
14421057 GGTTTTCTCA
14421067 AAAG-TTTAAAGATTTGC-
1 AAAGATTTAAAGATTTGCT
*
14421084 AAAAATTTAAAGA-TT-CAT
1 AAAGATTTAAAGATTTGC-T
* *
14421102 AAAGAATCAAAGATTTGCT
1 AAAGATTTAAAGATTTGCT
*
14421121 AGAGATTTAAAGATT
1 AAAGATTTAAAGATT
14421136 CGTAAAAATT
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
16 1 0.03
17 5 0.12
18 18 0.45
19 15 0.38
20 1 0.03
ACGTcount: A:0.48, C:0.06, G:0.14, T:0.32
Consensus pattern (19 bp):
AAAGATTTAAAGATTTGCT
Found at i:14421214 original size:19 final size:19
Alignment explanation
Indices: 14421169--14421214 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
14421159 AATCTTTTAT
* *
14421169 ATTTGTAAAAAATTTAATG
1 ATTTGCAAAAAATTTAAAG
*
14421188 A-TTACAAAAAATTTAAAG
1 ATTTGCAAAAAATTTAAAG
14421206 ATTTGCAAA
1 ATTTGCAAA
14421215 GATTTCAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
18 15 0.68
19 7 0.32
ACGTcount: A:0.52, C:0.04, G:0.09, T:0.35
Consensus pattern (19 bp):
ATTTGCAAAAAATTTAAAG
Found at i:14421339 original size:17 final size:18
Alignment explanation
Indices: 14421317--14421350 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14421307 AAAGATTTGT
*
14421317 AAGAATT-TCAATTTCAC
1 AAGAATTATCAAATTCAC
14421334 AAGAATTATCAAATTCA
1 AAGAATTATCAAATTCA
14421351 TAATAATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.47, C:0.15, G:0.06, T:0.32
Consensus pattern (18 bp):
AAGAATTATCAAATTCAC
Found at i:14421459 original size:17 final size:17
Alignment explanation
Indices: 14421432--14421487 Score: 69
Period size: 17 Copynumber: 3.3 Consensus size: 17
14421422 TGAAAAGATT
14421432 TTTCTAGTTTCGTAAGAA
1 TTTC-AGTTTCGTAAGAA
**
14421450 TTTCAGTTTCACAAGAA
1 TTTCAGTTTCGTAAGAA
*
14421467 TTT-AGATTCGTAAGAA
1 TTTCAGTTTCGTAAGAA
14421483 TTTCA
1 TTTCA
14421488 TATTTGCAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
16 13 0.41
17 15 0.47
18 4 0.12
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.41
Consensus pattern (17 bp):
TTTCAGTTTCGTAAGAA
Found at i:14421482 original size:33 final size:33
Alignment explanation
Indices: 14421440--14421538 Score: 98
Period size: 32 Copynumber: 3.1 Consensus size: 33
14421430 TTTTTCTAGT
14421440 TTCGTAAGAATTTCAGTTTCACAAGAATTTAGA
1 TTCGTAAGAATTTCAGTTTCACAAGAATTTAGA
** *
14421473 TTCGTAAGAATTTCA-TATTTGCAAGAATTCA-A
1 TTCGTAAGAATTTCAGT-TTCACAAGAATTTAGA
** *
14421505 TTC-TCAAGGTTTTCAGGTTCACAAGAATTT-GA
1 TTCGT-AAGAATTTCAGTTTCACAAGAATTTAGA
14421537 TT
1 TT
14421539 ATCAAGGATT
Statistics
Matches: 53, Mismatches: 9, Indels: 9
0.75 0.13 0.13
Matches are distributed among these distances:
31 1 0.02
32 26 0.49
33 26 0.49
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.38
Consensus pattern (33 bp):
TTCGTAAGAATTTCAGTTTCACAAGAATTTAGA
Found at i:14421483 original size:16 final size:17
Alignment explanation
Indices: 14421440--14421501 Score: 63
Period size: 17 Copynumber: 3.7 Consensus size: 17
14421430 TTTTTCTAGT
*
14421440 TTCGTAAGAATTTCAGT
1 TTCGTAAGAATTTCAGA
**
14421457 TTCACAAGAATTT-AGA
1 TTCGTAAGAATTTCAGA
*
14421473 TTCGTAAGAATTTCATA
1 TTCGTAAGAATTTCAGA
* *
14421490 TTTGCAAGAATT
1 TTCGTAAGAATT
14421502 CAATTCTCAA
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
16 13 0.36
17 23 0.64
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (17 bp):
TTCGTAAGAATTTCAGA
Found at i:14421566 original size:17 final size:17
Alignment explanation
Indices: 14421505--14421567 Score: 51
Period size: 17 Copynumber: 3.8 Consensus size: 17
14421495 AAGAATTCAA
*
14421505 TTCTCAAG-GTTTTCAGG
1 TTCTCAAGAATTTT-AGG
* *
14421522 TTCACAAGAA-TTT-GA
1 TTCTCAAGAATTTTAGG
* *
14421537 TTATCAAGGATTTTAGG
1 TTCTCAAGAATTTTAGG
14421554 TTCTCAAGAATTTT
1 TTCTCAAGAATTTT
14421568 TAAATTTGTA
Statistics
Matches: 34, Mismatches: 9, Indels: 6
0.69 0.18 0.12
Matches are distributed among these distances:
15 8 0.24
16 3 0.09
17 23 0.68
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.41
Consensus pattern (17 bp):
TTCTCAAGAATTTTAGG
Found at i:14421566 original size:32 final size:32
Alignment explanation
Indices: 14421494--14421566 Score: 94
Period size: 32 Copynumber: 2.3 Consensus size: 32
14421484 TTCATATTTG
* *
14421494 CAAGAATTCAATTCTCAAGGTTTTCAGGTTCA
1 CAAGAATTTAATTATCAAGGTTTTCAGGTTCA
* *
14421526 CAAGAATTTGATTATCAAGGATTTT-AGGTTCT
1 CAAGAATTTAATTATCAAGG-TTTTCAGGTTCA
14421558 CAAGAATTT
1 CAAGAATTT
14421567 TTAAATTTGT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
32 32 0.89
33 4 0.11
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (32 bp):
CAAGAATTTAATTATCAAGGTTTTCAGGTTCA
Found at i:14421610 original size:13 final size:13
Alignment explanation
Indices: 14421592--14421621 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
14421582 TTTCTTGATG
14421592 ATTCACATTCAAA
1 ATTCACATTCAAA
*
14421605 ATTCACATTCGAA
1 ATTCACATTCAAA
14421618 ATTC
1 ATTC
14421622 TTAGAGATTC
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:0.40, C:0.23, G:0.03, T:0.33
Consensus pattern (13 bp):
ATTCACATTCAAA
Found at i:14421783 original size:37 final size:38
Alignment explanation
Indices: 14421682--14421785 Score: 158
Period size: 37 Copynumber: 2.8 Consensus size: 38
14421672 TTCTCTTGTG
* *
14421682 AAAATTCTTAGAGATTCACATTC-AAATTTCCAAGATT
1 AAAATTCTTAGAGATTCACATTCAAAATTTCAAAGACT
*
14421719 AAAATTCTTAGAGATTCACATTTAAAATTTCAAAG-CT
1 AAAATTCTTAGAGATTCACATTCAAAATTTCAAAGACT
*
14421756 AAAATTCTTAGAAATTCACATTCAAAATTT
1 AAAATTCTTAGAGATTCACATTCAAAATTT
14421786 TAAAAATTTT
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
37 51 0.84
38 10 0.16
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (38 bp):
AAAATTCTTAGAGATTCACATTCAAAATTTCAAAGACT
Found at i:14421799 original size:22 final size:23
Alignment explanation
Indices: 14421756--14421807 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
14421746 TTTCAAAGCT
*
14421756 AAAATTCTTAGAAATTCACATTC
1 AAAATTCTTAAAAATTCACATTC
** *
14421779 AAAATT-TTAAAAATTTTCATTT
1 AAAATTCTTAAAAATTCACATTC
14421801 AAAATTC
1 AAAATTC
14421808 AAATATGCTC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.46, C:0.12, G:0.02, T:0.40
Consensus pattern (23 bp):
AAAATTCTTAAAAATTCACATTC
Found at i:14421986 original size:17 final size:18
Alignment explanation
Indices: 14421964--14422001 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
14421954 CAAAAGTTTC
14421964 AAATTTC-TTCTTATTAA
1 AAATTTCATTCTTATTAA
14421981 AAATTTCAATTTCTTATTAA
1 AAATTTC-A-TTCTTATTAA
14422001 A
1 A
14422002 GTCAAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.39
20 11 0.61
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (18 bp):
AAATTTCATTCTTATTAA
Done.