Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167827.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_10, 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: 24162007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 47000 characters in sequence are not A, C, G, or T
File 48 of 131
Found at i:9935177 original size:20 final size:22
Alignment explanation
Indices: 9935130--9935178 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 22
9935120 ATAGGTATGA
*
9935130 AATTTTAGAAAAAGAAAATTTT
1 AATTTTTGAAAAAGAAAATTTT
9935152 AA--TTTGAAAAAG-AAA-TTT
1 AATTTTTGAAAAAGAAAATTTT
9935170 AATTTTTGA
1 AATTTTTGA
9935179 TGAATGAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
18 5 0.21
19 3 0.12
20 14 0.58
22 2 0.08
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.39
Consensus pattern (22 bp):
AATTTTTGAAAAAGAAAATTTT
Found at i:9936356 original size:15 final size:15
Alignment explanation
Indices: 9936332--9936361 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9936322 AATGAGCTTC
9936332 AAAATATTAAAAATA
1 AAAATATTAAAAATA
*
9936347 AAAATCTTAAAAATA
1 AAAATATTAAAAATA
9936362 TTAAGTTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (15 bp):
AAAATATTAAAAATA
Found at i:9941310 original size:18 final size:17
Alignment explanation
Indices: 9941267--9941301 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
9941257 ATAGCAAAGT
*
9941267 AAAAAAAAAAAAATTTA
1 AAAAAAAAAAAAATTGA
9941284 AAAACAAAAAAAAATTGA
1 AAAA-AAAAAAAAATTGA
9941302 GAATAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.14
Consensus pattern (17 bp):
AAAAAAAAAAAAATTGA
Found at i:9941817 original size:23 final size:23
Alignment explanation
Indices: 9941785--9941833 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
9941775 CTTTAGTTAG
* *
9941785 TTTTTGTTTCCATTTT-ATTTTAT
1 TTTTTATTT-CATTTTGATTTCAT
9941808 TTTTTATTTCATTTTGATTTCAT
1 TTTTTATTTCATTTTGATTTCAT
9941831 TTT
1 TTT
9941834 ATTTTTGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 6 0.26
23 17 0.74
ACGTcount: A:0.14, C:0.08, G:0.04, T:0.73
Consensus pattern (23 bp):
TTTTTATTTCATTTTGATTTCAT
Found at i:9947728 original size:22 final size:23
Alignment explanation
Indices: 9947703--9947763 Score: 63
Period size: 23 Copynumber: 2.6 Consensus size: 23
9947693 AATAATATAA
*
9947703 TAAAATAAAAATGATTT-ATTT-T
1 TAAAATAAAAA-AATTTGATTTCT
9947725 TAAAATTAAAAAAATTTGATTTGCT
1 TAAAA-TAAAAAAATTTGATTT-CT
*
9947750 TAAAATAAAGAAAT
1 TAAAATAAAAAAAT
9947764 AAGGAATTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
22 9 0.27
23 10 0.30
24 8 0.24
25 6 0.18
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.38
Consensus pattern (23 bp):
TAAAATAAAAAAATTTGATTTCT
Found at i:9948962 original size:11 final size:10
Alignment explanation
Indices: 9948946--9948989 Score: 61
Period size: 10 Copynumber: 4.3 Consensus size: 10
9948936 TTTGTTCTTT
*
9948946 AAAAAAAGGG
1 AAAAAAAAGG
*
9948956 AAAAAAAAGA
1 AAAAAAAAGG
9948966 AAAAAAAAGG
1 AAAAAAAAGG
9948976 AAAAAAAGAGG
1 AAAAAAA-AGG
9948987 AAA
1 AAA
9948990 GAAATAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
10 24 0.80
11 6 0.20
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (10 bp):
AAAAAAAAGG
Found at i:9956254 original size:11 final size:11
Alignment explanation
Indices: 9956238--9956264 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
9956228 TAGTTAACCC
9956238 TACATACACTT
1 TACATACACTT
9956249 TACATACACTT
1 TACATACACTT
9956260 TACAT
1 TACAT
9956265 GAACACTAAT
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:0.37, C:0.26, G:0.00, T:0.37
Consensus pattern (11 bp):
TACATACACTT
Found at i:9956901 original size:23 final size:23
Alignment explanation
Indices: 9956871--9956915 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
9956861 AAGTCAACTA
9956871 TCAAACTATAAAAGAGAAAAGTG
1 TCAAACTATAAAAGAGAAAAGTG
9956894 TCAAACTATAAAAGAGAAAAGT
1 TCAAACTATAAAAGAGAAAAGT
9956916 ATCTCTGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.58, C:0.09, G:0.16, T:0.18
Consensus pattern (23 bp):
TCAAACTATAAAAGAGAAAAGTG
Found at i:9959345 original size:43 final size:43
Alignment explanation
Indices: 9959298--9959486 Score: 162
Period size: 43 Copynumber: 4.4 Consensus size: 43
9959288 TTCTATGTAG
* *
9959298 AGGCTAAATGACTTTAAATTAAGAAATAAACTCCTTTACACAA
1 AGGCTAAATAACTTTAAATTAAGAAATAAACTCCTCTACACAA
** * *** *
9959341 AGGCTAAGCAACTTTAAATTAGGAAATGTGCTCCTCTATACAA
1 AGGCTAAATAACTTTAAATTAAGAAATAAACTCCTCTACACAA
* * ** * ** *
9959384 AGGCTAAATAATTTTAAATTAATAAATAGGCTCATCTATTCAG
1 AGGCTAAATAACTTTAAATTAAGAAATAAACTCCTCTACACAA
* * *** *
9959427 AGGCTAAACAATTTTAAATTAAGAAATTGGCTCCTCTACACAG
1 AGGCTAAATAACTTTAAATTAAGAAATAAACTCCTCTACACAA
*
9959470 AGGCTAAACAACTTTAA
1 AGGCTAAATAACTTTAA
9959487 GGGCTTTAAG
Statistics
Matches: 120, Mismatches: 26, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 120 1.00
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.29
Consensus pattern (43 bp):
AGGCTAAATAACTTTAAATTAAGAAATAAACTCCTCTACACAA
Found at i:9959601 original size:23 final size:23
Alignment explanation
Indices: 9959575--9959618 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
9959565 ATAATCCAAT
9959575 GATTCACAATTTGAAAATTCAAA
1 GATTCACAATTTGAAAATTCAAA
*
9959598 GATTCATAATTTGAAAATTCA
1 GATTCACAATTTGAAAATTCA
9959619 GGATTTTGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.34
Consensus pattern (23 bp):
GATTCACAATTTGAAAATTCAAA
Found at i:9959815 original size:18 final size:18
Alignment explanation
Indices: 9959788--9959826 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
9959778 TGCAAGATTG
*
9959788 TTTCAAATTCATAAGAAT
1 TTTCAAATTCACAAGAAT
*
9959806 TTTCATATTCACAAGAAT
1 TTTCAAATTCACAAGAAT
9959824 TTT
1 TTT
9959827 AGGTTTACAA
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:0.38, C:0.13, G:0.05, T:0.44
Consensus pattern (18 bp):
TTTCAAATTCACAAGAAT
Found at i:9960067 original size:22 final size:22
Alignment explanation
Indices: 9960042--9960112 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 22
9960032 TTTTCATTCG
*
9960042 AAAAACTTAGAGATTCACATCA
1 AAAAACTTAGAAATTCACATCA
** * *
9960064 AAAATTTTAAAAATTCACATAA
1 AAAAACTTAGAAATTCACATCA
* *
9960086 AAAAACTTTGATAATTCACAACA
1 AAAAACTTAGA-AATTCACATCA
9960109 AAAA
1 AAAA
9960113 TTTCACAGAT
Statistics
Matches: 37, Mismatches: 11, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
22 24 0.65
23 13 0.35
ACGTcount: A:0.56, C:0.14, G:0.04, T:0.25
Consensus pattern (22 bp):
AAAAACTTAGAAATTCACATCA
Found at i:9960101 original size:23 final size:22
Alignment explanation
Indices: 9960054--9960138 Score: 73
Period size: 22 Copynumber: 3.8 Consensus size: 22
9960044 AAACTTAGAG
* * * *
9960054 ATTCACATCAAAAATTTTAAAA
1 ATTCACATAAAAAAATTTCACA
* *
9960076 ATTCACATAAAAAAACTTTGATA
1 ATTCACATAAAAAAA-TTTCACA
*
9960099 ATTCACA-ACAAAAATTTCACA
1 ATTCACATAAAAAAATTTCACA
*
9960120 GATTCACATTAAAAAATTT
1 -ATTCACATAAAAAAATTT
9960139 TTAAAATTTT
Statistics
Matches: 51, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
21 5 0.10
22 26 0.51
23 20 0.39
ACGTcount: A:0.52, C:0.15, G:0.02, T:0.31
Consensus pattern (22 bp):
ATTCACATAAAAAAATTTCACA
Found at i:9960124 original size:22 final size:22
Alignment explanation
Indices: 9960052--9960264 Score: 67
Period size: 22 Copynumber: 9.4 Consensus size: 22
9960042 AAAAACTTAG
* *
9960052 AGATTCACATCAAAAATTTTAA
1 AGATTCACAACAAAAATTTCAA
* * * *
9960074 AAATTCACATAAAAAAACTTTGAT
1 AGATTCACA-ACAAAAA-TTTCAA
*
9960098 A-ATTCACAACAAAAATTTCAC
1 AGATTCACAACAAAAATTTCAA
*
9960119 AGATTCACATTA-AAAAATTTTTAA
1 AGATTCACA--ACAAAAA-TTTCAA
** * *
9960143 A-ATTTTGCATCCAAAATTTCAA
1 AGA-TTCACAACAAAAATTTCAA
* * * * *
9960165 AAATTCATATCCAAAAAAATTCTA
1 AGATTCACA-AC-AAAAATTTCAA
** *
9960189 AGATT-TTAACTAAAATTTCAA
1 AGATTCACAACAAAAATTTCAA
* *
9960210 AGATTCACATTCAAAAAATTTTAGA
1 AGATTCACA-AC-AAAAATTTCA-A
* * *
9960235 A-TTTCACATCCAAAATTTCAA
1 AGATTCACAACAAAAATTTCAA
9960256 AGATTCACA
1 AGATTCACA
9960265 TTTGAAAAAT
Statistics
Matches: 138, Mismatches: 37, Indels: 32
0.67 0.18 0.15
Matches are distributed among these distances:
21 20 0.14
22 46 0.33
23 29 0.21
24 41 0.30
25 2 0.01
ACGTcount: A:0.49, C:0.15, G:0.04, T:0.32
Consensus pattern (22 bp):
AGATTCACAACAAAAATTTCAA
Found at i:9960167 original size:91 final size:90
Alignment explanation
Indices: 9960055--9960265 Score: 241
Period size: 91 Copynumber: 2.3 Consensus size: 90
9960045 AACTTAGAGA
* *
9960055 TTCACATCAAAAATTTTAAAAATTCACAT-AAAAAAACTT-TGATA-ATTCACAACAAAAATTTC
1 TTCACATCCAAAATTTCAAAAATTCACATCAAAAAAA-TTCT-A-AGATT-ACAACAAAAATTTC
*
9960117 ACAGATTCACATT-AAAAAATTTTTAAAAT
62 AAAGATTCACATTCAAAAAA-TTTTAAAAT
** * ** *
9960146 TTTGCATCCAAAATTTCAAAAATTCATATCCAAAAAAATTCTAAGATTTTAACTAAAATTTCAAA
1 TTCACATCCAAAATTTCAAAAATTCACAT-CAAAAAAATTCTAAGATTACAACAAAAATTTCAAA
*
9960211 GATTCACATTCAAAAAATTTTAGAAT
65 GATTCACATTCAAAAAATTTTAAAAT
*
9960237 TTCACATCCAAAATTTCAAAGATTCACAT
1 TTCACATCCAAAATTTCAAAAATTCACAT
9960266 TTGAAAAATT
Statistics
Matches: 101, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
91 81 0.80
92 12 0.12
93 8 0.08
ACGTcount: A:0.48, C:0.16, G:0.03, T:0.33
Consensus pattern (90 bp):
TTCACATCCAAAATTTCAAAAATTCACATCAAAAAAATTCTAAGATTACAACAAAAATTTCAAAG
ATTCACATTCAAAAAATTTTAAAAT
Found at i:9960278 original size:46 final size:47
Alignment explanation
Indices: 9960048--9960279 Score: 201
Period size: 46 Copynumber: 5.1 Consensus size: 47
9960038 TTCGAAAAAC
* * *
9960048 TTAGAGA-TTCACATCAAAAATTTTAAAAATTCACA-TAAAAAAACT
1 TTAGAGATTTCACATCAAAAATTTCAAAGATTCACATTAAAAAAATT
* * * * *
9960093 TT-GATAATTCACAACAAAAATTTCACAGATTCACATTAAAAAATTT
1 TTAGAGATTTCACATCAAAAATTTCAAAGATTCACATTAAAAAAATT
* ** * * * *
9960139 TTA-AAATTTTGCATCCAAAATTTCAAAAATTCATATCCAAAAAAATT
1 TTAGAGATTTCACATCAAAAATTTCAAAGATTCACAT-TAAAAAAATT
* * * *
9960186 CTA-AGATTTTA-A-CTAAAATTTCAAAGATTCACATTCAAAAAATT
1 TTAGAGATTTCACATCAAAAATTTCAAAGATTCACATTAAAAAAATT
* **
9960230 TTAGA-ATTTCACATCCAAAATTTCAAAGATTCACATTTGAAAAATT
1 TTAGAGATTTCACATCAAAAATTTCAAAGATTCACATTAAAAAAATT
9960276 TTAG
1 TTAG
9960280 GGTTGTACAT
Statistics
Matches: 149, Mismatches: 31, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
44 18 0.12
45 47 0.32
46 68 0.46
47 16 0.11
ACGTcount: A:0.48, C:0.14, G:0.05, T:0.33
Consensus pattern (47 bp):
TTAGAGATTTCACATCAAAAATTTCAAAGATTCACATTAAAAAAATT
Found at i:9960302 original size:46 final size:46
Alignment explanation
Indices: 9959974--9960279 Score: 193
Period size: 45 Copynumber: 6.8 Consensus size: 46
9959964 AGGTTCATAG
* ** ** *
9959974 CCAAAA-TTCAAATATTCTTATTCAAAAAATTTTAGGGTTTTACAT
1 CCAAAATTTCAAAGATTCACATTCAAAAAATTTTAGAATTTCACAT
* * * ** * *
9960019 CTAAAA-AT-GAAGATTTTCATTCGAAAAA-CTTAGAGA-TTCACAT
1 CCAAAATTTCAAAGATTCACATTCAAAAAATTTTAGA-ATTTCACAT
* * * * * * *
9960062 CAAAAATTTTAAAAATTCACA-TAAAAAAACTTT-GATAATTCACAA
1 CCAAAATTTCAAAGATTCACATTCAAAAAATTTTAGA-ATTTCACAT
* * * **
9960107 CAAAAATTTCACAGATTCACATT-AAAAAATTTTTAAAATTTTGCAT
1 CCAAAATTTCAAAGATTCACATTCAAAAAA-TTTTAGAATTTCACAT
* * * * *
9960153 CCAAAATTTCAAAAATTCATATCCAAAAAAATTCTA-AGATTTTA-A-
1 CCAAAATTTCAAAGATTCACATTC-AAAAAATTTTAGA-ATTTCACAT
*
9960198 CTAAAATTTCAAAGATTCACATTCAAAAAATTTTAGAATTTCACAT
1 CCAAAATTTCAAAGATTCACATTCAAAAAATTTTAGAATTTCACAT
**
9960244 CCAAAATTTCAAAGATTCACATTTGAAAAATTTTAG
1 CCAAAATTTCAAAGATTCACATTCAAAAAATTTTAG
9960280 GGTTGTACAT
Statistics
Matches: 200, Mismatches: 47, Indels: 27
0.73 0.17 0.10
Matches are distributed among these distances:
43 15 0.08
44 40 0.20
45 67 0.34
46 62 0.31
47 10 0.05
48 6 0.03
ACGTcount: A:0.47, C:0.14, G:0.06, T:0.34
Consensus pattern (46 bp):
CCAAAATTTCAAAGATTCACATTCAAAAAATTTTAGAATTTCACAT
Found at i:9960543 original size:23 final size:21
Alignment explanation
Indices: 9960500--9960552 Score: 52
Period size: 23 Copynumber: 2.4 Consensus size: 21
9960490 TGAGGATTCA
*
9960500 AAAGTCAAAATTTTCTCCAAT
1 AAAGTCAAAATTTTATCCAAT
* *
9960521 CAAAGTCAAATTTTTTATGCAAT
1 -AAAGTCAAA-ATTTTATCCAAT
9960544 AAATGTCAA
1 AAA-GTCAA
9960553 TGCAAATGTC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 12 0.46
23 14 0.54
ACGTcount: A:0.43, C:0.15, G:0.08, T:0.34
Consensus pattern (21 bp):
AAAGTCAAAATTTTATCCAAT
Found at i:9961642 original size:11 final size:11
Alignment explanation
Indices: 9961616--9961661 Score: 56
Period size: 12 Copynumber: 3.9 Consensus size: 11
9961606 TATCAATTTC
9961616 TTCTTCTTTTTCT
1 TTCTT-TTTTT-T
9961629 TTCTTTTTTTT
1 TTCTTTTTTTT
9961640 TTCTTTTATTTT
1 TTCTTTT-TTTT
*
9961652 TTGTTTTTTT
1 TTCTTTTTTT
9961662 GTATTTTTCA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
11 11 0.35
12 15 0.48
13 5 0.16
ACGTcount: A:0.02, C:0.11, G:0.02, T:0.85
Consensus pattern (11 bp):
TTCTTTTTTTT
Found at i:9961651 original size:15 final size:16
Alignment explanation
Indices: 9961622--9961669 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 16
9961612 TTTCTTCTTC
9961622 TTTTTCTTTCT-TTTT
1 TTTTTCTTTCTATTTT
9961637 TTTTTCTTT-TATTTT
1 TTTTTCTTTCTATTTT
* *
9961652 TTGTTTTTTTGTATTTT
1 TT-TTTCTTTCTATTTT
9961669 T
1 T
9961670 CATCATTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 1 0.03
15 15 0.52
16 6 0.21
17 7 0.24
ACGTcount: A:0.04, C:0.06, G:0.04, T:0.85
Consensus pattern (16 bp):
TTTTTCTTTCTATTTT
Found at i:9967563 original size:49 final size:49
Alignment explanation
Indices: 9967507--9967602 Score: 120
Period size: 49 Copynumber: 2.0 Consensus size: 49
9967497 TCTTGACTTT
* * * *
9967507 ATAAACAATCAAACCCACTTGTTTAATGATGTTGTCATAACATTAAACC
1 ATAAACAATAAAACACACTTGCTCAATGATGTTGTCATAACATTAAACC
* * * *
9967556 ATAAACAATAAAACATACTTGCTCAATGATTTTGTCATGACTTTAAA
1 ATAAACAATAAAACACACTTGCTCAATGATGTTGTCATAACATTAAA
9967603 AACAATAAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
49 39 1.00
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (49 bp):
ATAAACAATAAAACACACTTGCTCAATGATGTTGTCATAACATTAAACC
Found at i:9971631 original size:21 final size:20
Alignment explanation
Indices: 9971605--9971656 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
9971595 ATATGGCAAC
*
9971605 CTTAGCTCCTCTTTCTAAACT
1 CTTAGCTCCTCTTT-TAAACG
* *
9971626 CTTAGCTCATCTTTTCAACG
1 CTTAGCTCCTCTTTTAAACG
9971646 CTTAGCTCCTC
1 CTTAGCTCCTC
9971657 CCTTTCATTC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 14 0.52
21 13 0.48
ACGTcount: A:0.17, C:0.35, G:0.08, T:0.40
Consensus pattern (20 bp):
CTTAGCTCCTCTTTTAAACG
Found at i:9973134 original size:7 final size:7
Alignment explanation
Indices: 9973122--9973194 Score: 72
Period size: 7 Copynumber: 11.6 Consensus size: 7
9973112 TTTAGTTTGA
9973122 TTTAAGG
1 TTTAAGG
9973129 TTTAAGG
1 TTTAAGG
9973136 TTT--GG
1 TTTAAGG
*
9973141 TTTAGGG
1 TTTAAGG
9973148 TTT-AGG
1 TTTAAGG
9973154 TTTAAGG
1 TTTAAGG
9973161 TTT-AGG
1 TTTAAGG
9973167 TTT-A-G
1 TTTAAGG
*
9973172 TTAAAGG
1 TTTAAGG
9973179 TTTAA--
1 TTTAAGG
9973184 TTTAAGG
1 TTTAAGG
9973191 TTTA
1 TTTA
9973195 GAGTTAGTTT
Statistics
Matches: 56, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
5 13 0.23
6 13 0.23
7 30 0.54
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.48
Consensus pattern (7 bp):
TTTAAGG
Found at i:9973144 original size:19 final size:19
Alignment explanation
Indices: 9973116--9973170 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
9973106 GGTAAGTTTA
*
9973116 GTTTGATTTAAGGTTTAAG
1 GTTTGGTTTAAGGTTTAAG
*
9973135 GTTTGGTTTAGGGTTT-AG
1 GTTTGGTTTAAGGTTTAAG
9973153 GTTTAAGGTTT-AGGTTTA
1 GTTT--GGTTTAAGGTTTA
9973171 GTTAAAGGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
18 6 0.20
19 19 0.63
20 5 0.17
ACGTcount: A:0.20, C:0.00, G:0.31, T:0.49
Consensus pattern (19 bp):
GTTTGGTTTAAGGTTTAAG
Found at i:9973157 original size:13 final size:13
Alignment explanation
Indices: 9973126--9973170 Score: 74
Period size: 13 Copynumber: 3.5 Consensus size: 13
9973116 GTTTGATTTA
9973126 AGGTTTAAGGTTT
1 AGGTTTAAGGTTT
*
9973139 -GGTTTAGGGTTT
1 AGGTTTAAGGTTT
9973151 AGGTTTAAGGTTT
1 AGGTTTAAGGTTT
9973164 AGGTTTA
1 AGGTTTA
9973171 GTTAAAGGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 11 0.38
13 18 0.62
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.47
Consensus pattern (13 bp):
AGGTTTAAGGTTT
Found at i:9973171 original size:19 final size:19
Alignment explanation
Indices: 9973126--9973355 Score: 90
Period size: 18 Copynumber: 12.2 Consensus size: 19
9973116 GTTTGATTTA
9973126 AGGTTTAAGGTTT-GGTTT
1 AGGTTTAAGGTTTAGGTTT
9973144 AGGGTTT-AGGTTTAAGGTTT
1 A-GGTTTAAGGTTT-AGGTTT
*
9973164 AGGTTT-A-GTTAAAGGTTT
1 AGGTTTAAGGTT-TAGGTTT
*
9973182 A-ATTTAAGGTTTAGAG-TT
1 AGGTTTAAGGTTTAG-GTTT
**
9973200 A-GTTTAAGGTCAAGG-TT
1 AGGTTTAAGGTTTAGGTTT
*
9973217 AGAGTTTAGGGTTTA-GTTT
1 AG-GTTTAAGGTTTAGGTTT
** * *
9973236 AGGTTTGGGGTTTTGATTT
1 AGGTTTAAGGTTTAGGTTT
* * ***
9973255 AAGATTTAGGGTTTTCATTT
1 -AGGTTTAAGGTTTAGGTTT
9973275 AGGGTTTAAGGTTT-GGTTT
1 A-GGTTTAAGGTTTAGGTTT
* * *
9973294 AGGGTTAAGGCTTTGGGCATT
1 AGGTTTAAGG-TTTAGG-TTT
*
9973315 -GGTTT-AGGATTTTGGTTT
1 AGGTTTAAGG-TTTAGGTTT
*
9973333 AAGGTGTAAGG-TTAGGGTTT
1 -AGGTTTAAGGTTTA-GGTTT
9973353 AGG
1 AGG
9973356 GTTTTGCATG
Statistics
Matches: 165, Mismatches: 27, Indels: 39
0.71 0.12 0.17
Matches are distributed among these distances:
17 7 0.04
18 54 0.33
19 52 0.32
20 47 0.28
21 5 0.03
ACGTcount: A:0.21, C:0.02, G:0.33, T:0.44
Consensus pattern (19 bp):
AGGTTTAAGGTTTAGGTTT
Found at i:9973390 original size:20 final size:20
Alignment explanation
Indices: 9973348--9973393 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
9973338 GTAAGGTTAG
*
9973348 GGTTTAGGGTTTTGCATGGT
1 GGTTTAGGGTTTTGCATAGT
*
9973368 GGTTTGAGGG-TTTGCATATT
1 GGTTT-AGGGTTTTGCATAGT
9973388 GGTTTA
1 GGTTTA
9973394 AAGTGTGGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 1 0.04
20 18 0.78
21 4 0.17
ACGTcount: A:0.13, C:0.04, G:0.37, T:0.46
Consensus pattern (20 bp):
GGTTTAGGGTTTTGCATAGT
Found at i:9973554 original size:20 final size:20
Alignment explanation
Indices: 9973529--9973601 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
9973519 GTTTGCATGG
*
9973529 TGGTTTGGGATTTAGGGTTT
1 TGGTTTAGGATTTAGGGTTT
** *
9973549 TGGTTTACAATTTAAGGTTT
1 TGGTTTAGGATTTAGGGTTT
* * *
9973569 TAGTTTAGGCTTTAGGTTTT
1 TGGTTTAGGATTTAGGGTTT
*
9973589 TGGTTTAAGATTT
1 TGGTTTAGGATTT
9973602 GCATGGTGGT
Statistics
Matches: 40, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.18, C:0.03, G:0.27, T:0.52
Consensus pattern (20 bp):
TGGTTTAGGATTTAGGGTTT
Found at i:9973638 original size:20 final size:21
Alignment explanation
Indices: 9973609--9973648 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
9973599 TTTGCATGGT
*
9973609 GGTTTTGGGTTT-AGGTTTGG
1 GGTTTAGGGTTTAAGGTTTGG
9973629 GGTTTAGGGTTTAAGGTTTG
1 GGTTTAGGGTTTAAGGTTTG
9973649 CGTGGTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.10, C:0.00, G:0.42, T:0.47
Consensus pattern (21 bp):
GGTTTAGGGTTTAAGGTTTGG
Found at i:9974015 original size:220 final size:220
Alignment explanation
Indices: 9973633--9974077 Score: 890
Period size: 220 Copynumber: 2.0 Consensus size: 220
9973623 GTTTGGGGTT
9973633 TAGGGTTTAAGGTTTGCGTGGTTATTTGGGGTTTAAGGTTTGCATGGGGATTGCATATAATAAAA
1 TAGGGTTTAAGGTTTGCGTGGTTATTTGGGGTTTAAGGTTTGCATGGGGATTGCATATAATAAAA
9973698 TAACCAAACTATCATTGATAAAAATGCAACCTTTAATGCTTGAAATATGGATGAATGTGGAAACT
66 TAACCAAACTATCATTGATAAAAATGCAACCTTTAATGCTTGAAATATGGATGAATGTGGAAACT
9973763 ATGACTGGGGCATATTTACAAACATACCACAAACTAAACATGCATGCAACAACATAGTAAAAATG
131 ATGACTGGGGCATATTTACAAACATACCACAAACTAAACATGCATGCAACAACATAGTAAAAATG
9973828 GATCAAATACCAATGGTTTAAAGAC
196 GATCAAATACCAATGGTTTAAAGAC
9973853 TAGGGTTTAAGGTTTGCGTGGTTATTTGGGGTTTAAGGTTTGCATGGGGATTGCATATAATAAAA
1 TAGGGTTTAAGGTTTGCGTGGTTATTTGGGGTTTAAGGTTTGCATGGGGATTGCATATAATAAAA
9973918 TAACCAAACTATCATTGATAAAAATGCAACCTTTAATGCTTGAAATATGGATGAATGTGGAAACT
66 TAACCAAACTATCATTGATAAAAATGCAACCTTTAATGCTTGAAATATGGATGAATGTGGAAACT
9973983 ATGACTGGGGCATATTTACAAACATACCACAAACTAAACATGCATGCAACAACATAGTAAAAATG
131 ATGACTGGGGCATATTTACAAACATACCACAAACTAAACATGCATGCAACAACATAGTAAAAATG
9974048 GATCAAATACCAATGGTTTAAAGAC
196 GATCAAATACCAATGGTTTAAAGAC
9974073 TAGGG
1 TAGGG
9974078 AGGTTCGACC
Statistics
Matches: 225, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
220 225 1.00
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (220 bp):
TAGGGTTTAAGGTTTGCGTGGTTATTTGGGGTTTAAGGTTTGCATGGGGATTGCATATAATAAAA
TAACCAAACTATCATTGATAAAAATGCAACCTTTAATGCTTGAAATATGGATGAATGTGGAAACT
ATGACTGGGGCATATTTACAAACATACCACAAACTAAACATGCATGCAACAACATAGTAAAAATG
GATCAAATACCAATGGTTTAAAGAC
Found at i:9978903 original size:51 final size:49
Alignment explanation
Indices: 9978814--9979279 Score: 168
Period size: 50 Copynumber: 9.2 Consensus size: 49
9978804 AACATTCTAG
* * * * * * *
9978814 AAATGTTTTTTAAAGTGTCGAAGCCTTTGTTTAAAGGAGCTTTCTTTTCA
1 AAATGATTTTTAAAGTTTCAAAACCTCTGTTGAGAGGAGCTTT-TTTTCA
9978864 TAAATGATTTTTAAAGTTTCAAAACCTCTGTTGAGAGGAG---TTTTTCA
1 -AAATGATTTTTAAAGTTTCAAAACCTCTGTTGAGAGGAGCTTTTTTTCA
* * * *
9978911 AAATTCAAATTTCTAAAGTTTCAAAACCTCTATTGAGAAGAGCTTTTTTTCAA
1 AAA-T--GATTTTTAAAGTTTCAAAACCTCTGTTGAGAGGAGCTTTTTTTC-A
* * * * * ** **
9978964 AAATGATTTTTTTAAA-TGT-AAAAGCTTTTGTTTAAAATAGC-TTTTCCCTA
1 AAATGA--TTTTTAAAGTTTCAAAA-CCTCTGTTGAGAGGAGCTTTTTTTC-A
* * * * * * *
9979014 GAAATTATTTTTAAATTTTCAACACCTCTATTAAAAGAAG---TTTTTCA
1 -AAATGATTTTTAAAGTTTCAAAACCTCTGTTGAGAGGAGCTTTTTTTCA
* * * *
9979061 AACTTTAGATTTTTAAAGTTTCAAAACTTCTGTTAAGAGGAACCTTTTTTT-A
1 AA--AT-GATTTTTAAAGTTTCAAAACCTCTGTTGAGAGG-AGCTTTTTTTCA
* * * *
9979113 GAAATGATATTTTTAAAGTGTCAAAA-CTCCTATTTAGAGGAGTTTTTTTTTTTCAA
1 -AAATG--ATTTTTAAAGTTTCAAAACCT-CTGTTGAGAGGAG---CTTTTTTTC-A
* * * ** * * *
9979169 AAATGAATTTTAAAGTGTCAAAGCCTCCATAGAGATGAGCTTTTCAAAGTTC-
1 AAATGATTTTTAAAGTTTCAAAACCTCTGTTGAGAGGAGCTTTT----TTTCA
* * *
9979221 AAA--ATTTCTAAAGTTTCAAAACCTCTATTGAGACGAGCTTTTTTTCAA
1 AAATGATTTTTAAAGTTTCAAAACCTCTGTTGAGAGGAGCTTTTTTTC-A
9979269 AAATGATTTTT
1 AAATGATTTTT
9979280 TTAAAATGTC
Statistics
Matches: 310, Mismatches: 67, Indels: 77
0.68 0.15 0.17
Matches are distributed among these distances:
46 8 0.03
47 8 0.03
48 9 0.03
49 65 0.21
50 66 0.21
51 56 0.18
52 44 0.14
53 36 0.12
54 12 0.04
55 5 0.02
56 1 0.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.41
Consensus pattern (49 bp):
AAATGATTTTTAAAGTTTCAAAACCTCTGTTGAGAGGAGCTTTTTTTCA
Found at i:9979085 original size:150 final size:152
Alignment explanation
Indices: 9978865--9979300 Score: 373
Period size: 150 Copynumber: 2.9 Consensus size: 152
9978855 TTCTTTTCAT
* * * *
9978865 AAATGATTTTTAAAGTTTCAAAACCTCTGTTGAGAGGAGTTTTTCAAAATTCAAATTTCTAAAGT
1 AAATGATTTTTAAAGTTTCAAAACCTCTATTAAAAGAAGTTTTTCAAAATTCAAATTTCTAAAGT
* * *
9978930 TTCAAAACCTCTATTGAGAAG-AGCTTTTTTTCAAAAATGATTTTTTTAAA-TGT-AAAAGCTTT
66 TTCAAAACCTCTATTAAGAAGAACCTTTTTTT-AAAAATGATATTTTTAAAGTGTCAAAAGCTTT
9978992 TGTTTAAAATAGCTTTTCCCTAG
130 TGTTTAAAATAGCTTTTCCCTAG
* * * * * * *
9979015 AAATTATTTTTAAATTTTCAACACCTCTATTAAAAGAAGTTTTTCAAACTTTAGATTTTTAAAGT
1 AAATGATTTTTAAAGTTTCAAAACCTCTATTAAAAGAAGTTTTTCAAAATTCAAATTTCTAAAGT
* * * * **
9979080 TTCAAAACTTCTGTTAAGAGGAACCTTTTTTTAGAAATGATATTTTTAAAGTGTCAAAA-CTCCT
66 TTCAAAACCTCTATTAAGAAGAACCTTTTTTTAAAAATGATATTTTTAAAGTGTCAAAAGCTTTT
* * ** * *** *
9979144 ATTTAGAGGAGTTTTTTTTTTTCAA
131 GTTTAAAATAG--CTTTTCCCT-AG
* * * * * * *
9979169 AAATGAATTTTAAAGTGTCAAAGCCTCCA-T-AGAGATGAGCTTTTCAAAGTTCAAAATTTCTAA
1 AAATGATTTTTAAAGTTTCAAAACCTCTATTAAAAGA--AGTTTTTCAAAATTC-AAATTTCTAA
* * * * *
9979232 AGTTTCAAAACCTCTATTGAGACG-AGCTTTTTTTCAAAAATGATTTTTTTAAAATGTCAAAGAG
63 AGTTTCAAAACCTCTATTAAGAAGAACCTTTTTTT-AAAAATGATATTTTTAAAGTGTCAAA-AG
9979296 CTTTT
126 CTTTT
9979301 CAAAATTCAA
Statistics
Matches: 222, Mismatches: 52, Indels: 17
0.76 0.18 0.06
Matches are distributed among these distances:
150 87 0.39
151 22 0.10
152 8 0.04
153 6 0.03
154 44 0.20
155 51 0.23
156 1 0.00
157 3 0.01
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (152 bp):
AAATGATTTTTAAAGTTTCAAAACCTCTATTAAAAGAAGTTTTTCAAAATTCAAATTTCTAAAGT
TTCAAAACCTCTATTAAGAAGAACCTTTTTTTAAAAATGATATTTTTAAAGTGTCAAAAGCTTTT
GTTTAAAATAGCTTTTCCCTAG
Found at i:9979161 original size:52 final size:53
Alignment explanation
Indices: 9979069--9979190 Score: 133
Period size: 52 Copynumber: 2.3 Consensus size: 53
9979059 CAAACTTTAG
* * * *
9979069 ATTTTTAAAGTTTCAAAACTTCTGTTAAGAGGAA-CCTTTTTTT-AGAAATGA
1 ATTTTTAAAGTGTCAAAACTCCTATTAAGAGGAATCCTTTTTTTCAAAAATGA
* * **
9979120 TATTTTTAAAGTGTCAAAACTCCTATTTAGAGGAGTTTTTTTTTTTCAAAAATGA
1 -ATTTTTAAAGTGTCAAAACTCCTATTAAGAGGA-ATCCTTTTTTTCAAAAATGA
9979175 A-TTTTAAAGTGTCAAA
1 ATTTTTAAAGTGTCAAA
9979191 GCCTCCATAG
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
52 29 0.49
53 15 0.25
54 8 0.14
55 7 0.12
ACGTcount: A:0.35, C:0.09, G:0.13, T:0.43
Consensus pattern (53 bp):
ATTTTTAAAGTGTCAAAACTCCTATTAAGAGGAATCCTTTTTTTCAAAAATGA
Found at i:9979435 original size:49 final size:47
Alignment explanation
Indices: 9979335--9979436 Score: 114
Period size: 49 Copynumber: 2.1 Consensus size: 47
9979325 AACTCCTCTT
* *
9979335 AAGAGCTTTTCAAAACTTAGATTTTTAGTTTCAAAGCCTCTACTAAT
1 AAGAGCTTTTCAAAACTTAGATTTTAAGTTTCAAAGCCTCTACTAAG
* * * * * *
9979382 AAGAGCTTTTTAGAATTTAGATGTTTAAAGTTTCAAAGCCTTTATTGAG
1 AAGAGCTTTTCAAAACTTAGAT-TTT-AAGTTTCAAAGCCTCTACTAAG
9979431 AAGAGC
1 AAGAGC
9979437 CTTTGCTAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
47 19 0.42
48 3 0.07
49 23 0.51
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (47 bp):
AAGAGCTTTTCAAAACTTAGATTTTAAGTTTCAAAGCCTCTACTAAG
Found at i:9981484 original size:62 final size:60
Alignment explanation
Indices: 9981314--9981485 Score: 154
Period size: 62 Copynumber: 2.8 Consensus size: 60
9981304 AATCCCATGC
* **
9981314 AAACCTTAAACC-CTTACTTAAACCCTAAAC-CTTCACCCAA-ATCCTAAATCCCATGCAAGTTA
1 AAACCCTAAACCTCTT--TTAAACCCTAAACAC-TCACCCAACAT--TAAATCCCATGCAAGCCA
* * * * * *
9981376 AGACCCTAAACCTCTCTGAAACCTTAAAACAC-CATCCAAACCTTAAATCCCTATGCAAGCCA
1 AAACCCTAAACCTCTTTTAAACCCT-AAACACTCA-CCCAACATTAAATCCC-ATGCAAGCCA
9981438 AAACCCTAAACCTCTTTTAAACCCTAAACACTCACCCCAACATTAAAT
1 AAACCCTAAACCTCTTTTAAACCCTAAACACTCA-CCCAACATTAAAT
9981486 ACTTACCCAA
Statistics
Matches: 87, Mismatches: 16, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
61 23 0.26
62 60 0.69
63 4 0.05
ACGTcount: A:0.40, C:0.35, G:0.03, T:0.22
Consensus pattern (60 bp):
AAACCCTAAACCTCTTTTAAACCCTAAACACTCACCCAACATTAAATCCCATGCAAGCCA
Found at i:9981585 original size:19 final size:19
Alignment explanation
Indices: 9981563--9981611 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
9981553 ACCCAAGTTG
*
9981563 AAACCCTAAACATTCACCC
1 AAACCCTAAACACTCACCC
* *
9981582 AAACCTTAATCACTCACCC
1 AAACCCTAAACACTCACCC
*
9981601 AAACCCCAAAC
1 AAACCCTAAAC
9981612 CTGAATATAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.43, C:0.43, G:0.00, T:0.14
Consensus pattern (19 bp):
AAACCCTAAACACTCACCC
Found at i:9983397 original size:225 final size:223
Alignment explanation
Indices: 9982864--9983538 Score: 1025
Period size: 225 Copynumber: 3.1 Consensus size: 223
9982854 ATCTATTACC
* * *
9982864 CAAATTATAAA-ATATATAATCCTACTCTATATAAATCTTATATGAGCAAAATATTAAAATAGTA
1 CAAATAATAAATACATATAATCCTACTCTATATAAATTTTATATGAGCAAAATATTAAAATAGTA
* * * * * *
9982928 AACATATATTA-TGACTTCTCTAGTTTTTTCCAAATAAAATATTATCTTGTGGT-TT--T-AA--
66 AATATATATTACT-ATTTCTCTAGTTTTTCCCAACTAAAACATTATCTCGTGGTCTTAATAAATT
* * * *
9982986 TAA--AT-TTCGT-AATTCTTTTATTTAACT-ATTGCTAGAGTAAACATAATGTCATGCTTATTC
130 TAACCATATTC-TCAATTCTTTTATTTAA-TGATTGCCAAAGTAAACATAAAGTTATGCTTATTC
9983046 AAGAACTAAAATTTCAATCATGCCTTTTGAA
193 AAGAACTAAAATTTCAATCATGCCTTTTGAA
9983077 CAAATAATAAATACATATAATCCTACTCTATATAAATTTTATATGAGCAAAATATTAAAATAGTA
1 CAAATAATAAATACATATAATCCTACTCTATATAAATTTTATATGAGCAAAATATTAAAATAGTA
* *
9983142 AATATATGTTACTATTTTTCTAGTTTTTCCCAACTAAAACATTATCTCGTGGTCTTAATAAATTT
66 AATATATATTACTATTTCTCTAGTTTTTCCCAACTAAAACATTATCTCGTGGTCTTAATAAATTT
9983207 AACCATATTCTCACAATTCTTTTATTTAATGATTGCCAAAGTAAACATAAAGTTATGCTTATTCA
131 AACCATATTCT--CAATTCTTTTATTTAATGATTGCCAAAGTAAACATAAAGTTATGCTTATTCA
9983272 AGAACTAAAATTTCAATCATGCCTTTTGAA
194 AGAACTAAAATTTCAATCATGCCTTTTGAA
9983302 CAAATAATAAATACATATAATCCTACTCTATATAAATTTTATATGAGCAAAATATTAAAATAGTA
1 CAAATAATAAATACATATAATCCTACTCTATATAAATTTTATATGAGCAAAATATTAAAATAGTA
* *
9983367 TATATATATTACTATTTCTCTAGCTTTTCCCAACTAAAACATTATCTCGTGGTCTTAATAAATTT
66 AATATATATTACTATTTCTCTAGTTTTTCCCAACTAAAACATTATCTCGTGGTCTTAATAAATTT
9983432 AACCATATTCTCGTAATTCTTTTATTTAATGATTGCCAAAGTAAACATAAAGTTATGCTTATTCA
131 AACCATATTCTC--AATTCTTTTATTTAATGATTGCCAAAGTAAACATAAAGTTATGCTTATTCA
* *
9983497 AGAACTAAAATTTTAATCATTCCTTTTGAA
194 AGAACTAAAATTTCAATCATGCCTTTTGAA
9983527 CAAATAATAAAT
1 CAAATAATAAAT
9983539 GTATGTTATT
Statistics
Matches: 424, Mismatches: 21, Indels: 22
0.91 0.04 0.05
Matches are distributed among these distances:
213 10 0.02
214 94 0.22
215 3 0.01
217 1 0.00
218 2 0.00
220 3 0.01
222 3 0.01
223 4 0.01
224 1 0.00
225 303 0.71
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.39
Consensus pattern (223 bp):
CAAATAATAAATACATATAATCCTACTCTATATAAATTTTATATGAGCAAAATATTAAAATAGTA
AATATATATTACTATTTCTCTAGTTTTTCCCAACTAAAACATTATCTCGTGGTCTTAATAAATTT
AACCATATTCTCAATTCTTTTATTTAATGATTGCCAAAGTAAACATAAAGTTATGCTTATTCAAG
AACTAAAATTTCAATCATGCCTTTTGAA
Found at i:9988077 original size:5 final size:5
Alignment explanation
Indices: 9988069--9988096 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
9988059 TACATCCCTT
9988069 CTTAC CTTAC CTTAC CTTAC CTTAC CTT
1 CTTAC CTTAC CTTAC CTTAC CTTAC CTT
9988097 TTTACATTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.39, G:0.00, T:0.43
Consensus pattern (5 bp):
CTTAC
Found at i:9993998 original size:11 final size:11
Alignment explanation
Indices: 9993982--9994011 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
9993972 TTTTCATTAC
9993982 TTTCCTTTTAT
1 TTTCCTTTTAT
9993993 TTTCC-TTTAT
1 TTTCCTTTTAT
9994003 TTTCCTTTT
1 TTTCCTTTT
9994012 CTTCCCTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.07, C:0.20, G:0.00, T:0.73
Consensus pattern (11 bp):
TTTCCTTTTAT
Found at i:9995707 original size:6 final size:6
Alignment explanation
Indices: 9995669--9995910 Score: 56
Period size: 6 Copynumber: 38.7 Consensus size: 6
9995659 TTTGGGGATT
* * *
9995669 GTTTAAG GTTTAG G-TTAG AGTTTAG GGTTAG GTTTAG GTTTATG TTTTAAA
1 GTTT-AG GTTTAG GTTTAG -GTTTAG GTTTAG GTTTAG GTTTA-G GTTT-AG
* * *
9995720 G-TTAGG GTTTTAG GTTT-- -TTTAG GTTCAG GGTTAG GTTTAG GGTTAG
1 GTTTA-G G-TTTAG GTTTAG GTTTAG GTTTAG GTTTAG GTTTAG GTTTAG
** * * ** * *
9995766 AATCAA AATTAGG GTTTAG GATTT-G GTTTAG AGTTTAGG GTTTAC GTTTTG
1 GTTTAG GTTTA-G GTTTAG G-TTTAG GTTTAG -GTTTA-G GTTTAG GTTTAG
* *
9995817 ATTTTAG GTTTTAAG G-TT-G GTTTAGG GTTTAG GGTT-G GTTTTAGG
1 -GTTTAG G-TTT-AG GTTTAG GTTTA-G GTTTAG GTTTAG G-TTTA-G
* *
9995862 GTGTAAT GTTTAGG GCTTT-G GTCTTAG GTTTAG CG-TTAG GTTTAG GTTT
1 GT-TTAG GTTTA-G G-TTTAG GT-TTAG GTTTAG -GTTTAG GTTTAG GTTT
9995911 TGAGGTCAAT
Statistics
Matches: 173, Mismatches: 31, Indels: 63
0.65 0.12 0.24
Matches are distributed among these distances:
3 3 0.02
4 2 0.01
5 14 0.08
6 88 0.51
7 51 0.29
8 15 0.09
ACGTcount: A:0.19, C:0.02, G:0.32, T:0.46
Consensus pattern (6 bp):
GTTTAG
Found at i:9995842 original size:18 final size:18
Alignment explanation
Indices: 9995819--9995863 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
9995809 ACGTTTTGAT
*
9995819 TTTAGGTTTTAAGGTTGG
1 TTTAGGGTTTAAGGTTGG
*
9995837 TTTAGGGTTTAGGGTTGG
1 TTTAGGGTTTAAGGTTGG
9995855 TTTTAGGGT
1 -TTTAGGGT
9995864 GTAATGTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 16 0.67
19 8 0.33
ACGTcount: A:0.13, C:0.00, G:0.38, T:0.49
Consensus pattern (18 bp):
TTTAGGGTTTAAGGTTGG
Found at i:9995987 original size:19 final size:19
Alignment explanation
Indices: 9995965--9996005 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
9995955 AATATTTGTA
9995965 GTTGGTTTT-AGGGTTTAGG
1 GTTGGTTTTGA-GGTTTAGG
9995984 GTTGGTTTTGAGGTTTAGG
1 GTTGGTTTTGAGGTTTAGG
9996003 GTT
1 GTT
9996006 TAATGTTTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 20 0.95
20 1 0.05
ACGTcount: A:0.10, C:0.00, G:0.41, T:0.49
Consensus pattern (19 bp):
GTTGGTTTTGAGGTTTAGG
Found at i:9997557 original size:146 final size:146
Alignment explanation
Indices: 9997328--9997725 Score: 414
Period size: 145 Copynumber: 2.7 Consensus size: 146
9997318 AATTTTACTC
* *
9997328 TTTCTAAGGTGCAATCAAGGCTTTCAATGCATTAAAATTCATCAAATAATATTGAAAACATGATC
1 TTTCTAAGGTGCAATCAAGGCTTTCAATGCATCAAAATTCATGAAATAATATT-AAAACATGATC
* * * * * *
9997393 T-AGAGCTTTTTAAG-AAAAATCGATCTCAAAAAGATCAAATTAGAAAAAATACCCCTAGAGGGT
65 TGA-AGTTTTTTAAGAAAAAATCGACCTCAAAAAGACCAAATTA-AAAAAATACCCCTACA-AGC
*
9997456 GA-TTTGGTAAATTC-ACCT
127 CATTTTGGTAAATTCAACCT
* * * *
9997474 TTTCTAAGGTGCAATCAAGGCTTTCAATACATCAAACTTCATGGAATAATATTAAATCATGATCT
1 TTTCTAAGGTGCAATCAAGGCTTTCAATGCATCAAAATTCATGAAATAATATTAAAACATGATCT
* * ** * * * *
9997539 GAAGTTTTTTGAGAAAAAAGT-AACCTTGAGAAGACCAAATTACAAAAATATCCTTACAAGCCAT
66 GAAGTTTTTTAAGAAAAAA-TCGACCTCAAAAAGACCAAATTAAAAAAATACCCCTACAAGCCAT
*
9997603 TTTGGTAATTTCAACCT
130 TTTGGTAAATTCAACCT
** * * *
9997620 TTT-TAAGGTGCAATCAAGATTTTAAATGCATCAAAATTCATGAAATAATATCAAAACAAGATCT
1 TTTCTAAGGTGCAATCAAGGCTTTCAATGCATCAAAATTCATGAAATAATATTAAAACATGATCT
* * * *
9997684 GAAGTTTTTTTATAAAAAATCGACATCGAAAATG-CCAAATTA
66 GAAGTTTTTTAAGAAAAAATCGACCTC-AAAAAGACCAAATTA
9997726 TGAAATTAAA
Statistics
Matches: 206, Mismatches: 39, Indels: 15
0.79 0.15 0.06
Matches are distributed among these distances:
144 3 0.01
145 123 0.60
146 79 0.38
147 1 0.00
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.31
Consensus pattern (146 bp):
TTTCTAAGGTGCAATCAAGGCTTTCAATGCATCAAAATTCATGAAATAATATTAAAACATGATCT
GAAGTTTTTTAAGAAAAAATCGACCTCAAAAAGACCAAATTAAAAAAATACCCCTACAAGCCATT
TTGGTAAATTCAACCT
Found at i:9998559 original size:23 final size:23
Alignment explanation
Indices: 9998524--9998568 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
9998514 CTTACTTTCC
*
9998524 ATTTAATTCTATTTATTTTATAG
1 ATTTAATTCTATTTACTTTATAG
9998547 ATTTAAATT-TATTTACTTTATA
1 ATTT-AATTCTATTTACTTTATA
9998569 TAATTTCATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.60
Consensus pattern (23 bp):
ATTTAATTCTATTTACTTTATAG
Found at i:9999610 original size:17 final size:16
Alignment explanation
Indices: 9999573--9999833 Score: 90
Period size: 17 Copynumber: 16.1 Consensus size: 16
9999563 ACAAAAACAT
9999573 TATATT-TA-TAAGTAA
1 TATATTATATTAA-TAA
*
9999588 TATATTA-ATCAATATA
1 TATATTATATTAATA-A
9999604 TTATATT-TATTATATAAA
1 -TATATTATATTA-AT-AA
9999622 TAATATTATATTAATAA
1 T-ATATTATATTAATAA
* * *
9999639 -ATAATATATTATTCA
1 TATATTATATTAATAA
*
9999654 TTTATTA-A-T-ATAA
1 TATATTATATTAATAA
9999667 TATATTATCTATTAAT-A
1 TATATTA--TATTAATAA
9999684 TAATATTATTATTAATACA
1 T-ATATTA-TATTAATA-A
9999703 -ATATTTAATATT-ATAA
1 TATA-TT-ATATTAATAA
* *
9999719 TTAAAAATATATT-ATAA
1 -T-ATATTATATTAATAA
*
9999736 TATATTA-A-AAATAA
1 TATATTATATTAATAA
*
9999750 TATATTA-ATAAATAAA
1 TATATTATATTAAT-AA
* *
9999766 TACTATTATTTTACTAAA
1 TA-TATTATATTAAT-AA
9999784 TAATATT-TATTAATAA
1 T-ATATTATATTAATAA
*
9999800 -ATATTATTATT-TTAA
1 TATATTA-TATTAATAA
*
9999815 TATTATTATATTATTAA
1 TA-TATTATATTAATAA
9999832 TA
1 TA
9999834 ACAAATGGAG
Statistics
Matches: 190, Mismatches: 22, Indels: 66
0.68 0.08 0.24
Matches are distributed among these distances:
13 8 0.04
14 19 0.10
15 33 0.17
16 25 0.13
17 58 0.31
18 36 0.19
19 11 0.06
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (16 bp):
TATATTATATTAATAA
Found at i:9999631 original size:23 final size:21
Alignment explanation
Indices: 9999590--9999778 Score: 116
Period size: 22 Copynumber: 9.1 Consensus size: 21
9999580 ATAAGTAATA
*
9999590 TATTAATCAATATATTATATT
1 TATTAATAAATATATTATATT
9999611 TATTATATAAATAATATTATATT
1 TATTA-ATAAAT-ATATTATATT
* *
9999634 AATAAAT-AATATATTATTCATT
1 TATTAATAAATATATTA-T-ATT
*
9999656 TATTAATATAATATA-T-TATC
1 TATTAATA-AATATATTATATT
*
9999676 TATTAATATA-ATA-T-TA-T
1 TATTAATAAATATATTATATT
9999693 TATTAATACAATAT-TTAATATT
1 TATTAATA-AATATATT-ATATT
*
9999715 ATAATTAA-AAATATATTATAATA
1 -T-ATTAATAAATATATTAT-ATT
9999738 TATTAA-AAATA-A-TATATT
1 TATTAATAAATATATTATATT
* *
9999756 AATAAATAAATACTATTAT-TT
1 TATTAATAAATA-TATTATATT
9999777 TA
1 TA
9999779 CTAAATAATA
Statistics
Matches: 134, Mismatches: 14, Indels: 40
0.71 0.07 0.21
Matches are distributed among these distances:
17 8 0.06
18 13 0.10
19 12 0.09
20 17 0.13
21 26 0.19
22 27 0.20
23 20 0.15
24 11 0.08
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.48
Consensus pattern (21 bp):
TATTAATAAATATATTATATT
Found at i:9999681 original size:20 final size:19
Alignment explanation
Indices: 9999585--9999833 Score: 91
Period size: 20 Copynumber: 13.0 Consensus size: 19
9999575 TATTTATAAG
*
9999585 TAATATATTA--ATCAATA
1 TAATATATTATTATTAATA
*
9999602 TATTATATTTATTATATAA-A
1 TAATATA-TTATTAT-TAATA
*
9999622 TAATAT-TATATTAATAA-A
1 TAATATAT-TATTATTAATA
9999640 TAATATATTATTCATTTATTAATA
1 T-A-ATA-TATT-A-TTATTAATA
9999664 TAATATATTATCTATTAATA
1 TAATATATTAT-TATTAATA
*
9999684 TAATATTATTATTAATACAATA
1 TAATA-TATTATT-AT-TAATA
* **
9999706 TTTAATATTATAATTAAAAATA
1 --TAATA-TATTATTATTAATA
* * *
9999728 TATTATAATA-TATTAAAAA
1 TAATATATTATTATT-AATA
*
9999747 TAATATATTA--ATAAATA
1 TAATATATTATTATTAATA
*
9999764 -AATACTATTATT-TTACTA
1 TAATA-TATTATTATTAATA
9999782 -AATA-A-TATTTATTAATA
1 TAATATATTA-TTATTAATA
9999799 -AATATTATTATT-TTAATA
1 TAATA-TATTATTATTAATA
*
9999817 TTAT-TA-TATTATTAATA
1 TAATATATTATTATTAATA
9999834 ACAAATGGAG
Statistics
Matches: 180, Mismatches: 23, Indels: 58
0.69 0.09 0.22
Matches are distributed among these distances:
15 2 0.01
16 11 0.06
17 31 0.17
18 27 0.15
19 26 0.14
20 32 0.18
21 16 0.09
22 13 0.07
23 8 0.04
24 14 0.08
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (19 bp):
TAATATATTATTATTAATA
Found at i:9999730 original size:24 final size:23
Alignment explanation
Indices: 9999684--9999759 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 23
9999674 TCTATTAATA
*
9999684 TAATATTATTATTAATACA-ATATT
1 TAATATTA-TATTAA-AAATATATT
9999708 TAATATTATAATTAAAAATATA-T
1 TAATATTAT-ATTAAAAATATATT
*
9999731 T-ATAATATATTAAAAATAATATAT
1 TAATATTATATTAAAAAT-ATAT-T
9999755 TAATA
1 TAATA
9999760 AATAAATACT
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
21 9 0.20
22 9 0.20
23 5 0.11
24 18 0.41
25 3 0.07
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (23 bp):
TAATATTATATTAAAAATATATT
Found at i:9999751 original size:14 final size:15
Alignment explanation
Indices: 9999732--9999764 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
9999722 AAAATATATT
9999732 ATAATATATTAA-AA
1 ATAATATATTAATAA
9999746 ATAATATATTAATAA
1 ATAATATATTAATAA
9999761 ATAA
1 ATAA
9999765 ATACTATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
ATAATATATTAATAA
Found at i:10001885 original size:235 final size:235
Alignment explanation
Indices: 10000427--10001885 Score: 871
Period size: 235 Copynumber: 6.2 Consensus size: 235
10000417 AGAAGTGTCA
* * * * *
10000427 TAATGCACTAAGAAAGAATTATGATAATTTTAAATGT-ATTGAAAAGTAAGAACAAAT-ATAAAA
1 TAATACACTAAGAAAGAGTTATGATAATTCTAAATATAATAGAAAA-TAAGAAC-AATCATAAAA
* ** * *
10000490 ATATATTATTATAACGTAAATAATTATGACGATAATATATAATTTTAATTAATTATTG-TTTTG-
64 A-ATATTATTATAACGTAAATAATTATGATGGCAATGTAAAATTTTAATTAATTATTGTTTTTGT
* * * * * * * * * *
10000553 CATACATATATATAATAACTACAAATT-AAAAGTAATTTGGTAACATAAACAAGTAGGAATAAAT
128 AATATATAAAGAAAATAGCTAAAAATTAAAAAATAAATTGGTAACATAAACAAGTAAGAA-AAAT
* * * * * *
10000617 GTAAAATTAGTATTATTTGGTGTAAAAT-AGGT-AAAAG-TATCG
192 ATAAAATTAATATCATTTGATGTAAAATGA-ATAAAAAGATATTG
* * * * * * * **
10000659 TAATATACTAAAAAATAGTTATGATAATTATAAACATAACA-AAAGATAATAGTAATAATTGTAA
1 TAATACACTAAGAAAGAGTTATGATAATTCTAAATATAATAGAAA-AT-A-AG-AACAATCATAA
* * * *
10000723 GAAAATATTATTGTAACGTAAATAATTAT-ATCAGCAATGTAAAATTTTAACTAATTATTATTTT
62 -AAAATATTATTATAACGTAAATAATTATGAT-GGCAATGTAAAATTTTAATTAATTATTGTTTT
* * * * *
10000787 T-TAAAATATATAAGAAAAATA-ATAAAAAATT-AAAAATAAATCGGTAACGTAAAAAAG-AA-A
125 TGTAATATATA-AAG-AAAATAGCT-AAAAATTAAAAAATAAATTGGTAACATAAACAAGTAAGA
* * ** * *
10000847 AAAATGTAAAA-TAAGTATCATTTGGTAAAAAATGGATAAAAAAATATTG
187 AAAATATAAAATTAA-TATCATTTGATGTAAAATGAATAAAAAGATATTG
* * * * **
10000896 TAATACACTAAGAAAGAGTTATTACAATTTTAAATA-ATTA-AATGTAAGAACAATCATAAAAAA
1 TAATACACTAAGAAAGAGTTATGATAATTCTAAATATAATAGAAAATAAGAACAATCATAAAAAA
* * * * * * *
10000959 T-TTCTTATAACGTTAATAATTGA-GTTGCCACCT-TAAAATTTTAATTAA-TAAT-TTTTT-AA
66 TATTATTATAACGTAAATAATT-ATGATGGCA-ATGTAAAATTTTAATTAATTATTGTTTTTGTA
* * * * *
10001018 ACATATAAA-AAAATTA-CCAAAAATTAAAAAATATATATTGGTGACATAAACAAGTTAGACTAA
129 ATATATAAAGAAAA-TAGCTAAAAATTAAAAAATA-A-ATTGGTAACATAAACAAGTAAGA-AAA
* * * * ** ** * *
10001081 ACATAAAATTAGTATCATTTAACGTAATTTGTGT-ATAA-AT-TGTC
190 ATATAAAATTAATATCATTTGATGTAAAATGAATAAAAAGATAT-TG
* * * * * * * *
10001125 TAATAGACTAA-AAAGGGTTATGACAATTCTAAATGTAATA-AAAATTAAAAAAAATTATAATGA
1 TAATACACTAAGAAAGAGTTATGATAATTCTAAATATAATAGAAAA-TAAGAACAATCATAA-AA
* * * * *
10001188 TATATTATTGTAACATAAATAATTAT-ATCGGCAATGTAAAATGTTAATTAATTATT-ATTTTGT
64 AATATTATTATAACGTAAATAATTATGAT-GGCAATGTAAAATTTTAATTAATTATTGTTTTTGT
* * * ** * *
10001251 AAATATCTAAGGAAAATAGCTAGAAATTAAAAAAATAAATAAATTGGTAATGTAAATAAGTGAAT
128 -AATATATAAAGAAAATAGCTAAAAATT----AAA-AAATAAATTGGTAACATAAACAAGT-AAG
* * * * ** * *
10001316 ATAAACATAAAATTGATATCATTCGGCGTAAAATGGATAAAAAGTATATCG
186 AAAAATATAAAATTAATATCATTTGATGTAAAATGAATAAAAAG-ATATTG
* * * * * * * * * *
10001367 T--TACTTATTAAGAAAGAGTTTTGACAATTCTAAACATGATGGAAACTAAAAATAACCATAAAA
1 TAATAC--ACTAAGAAAGAGTTATGATAATTCTAAATATAATAGAAAATAAGAACAATCATAAAA
* * * * * * *
10001430 AAAATTATTGTAAAGCAAATAATTATGTTGAC-ATCGTAAAATTTTAATTAATTATTGTTTGTGT
64 AATATTATTATAACGTAAATAATTATGATGGCAAT-GTAAAATTTTAATTAATTATTGTTTTTGT
* * * ** *
10001494 AAATATATAAA-AAAATAGTTTAAAATTAAAAAATAAATTGATAATGTAAACAAGT--GAGAAAT
128 -AATATATAAAGAAAATAGCTAAAAATTAAAAAATAAATTGGTAACATAAACAAGTAAGAAAAAT
* * * * * * *
10001556 GTAAAATTAGTATCAGTTGATGTAAAAT-AGGTAAGAAG-TGTTA
192 ATAAAATTAATATCATTTGATGTAAAATGA-ATAAAAAGATATTG
* * * * *
10001599 TAATACACGAAGAAAAAATTATGATAATTCTAAATGTAATGGAAAATAAGAACAATCATAAAAAT
1 TAATACACTAAGAAAGAGTTATGATAATTCTAAATATAATAGAAAATAAGAACAATCATAAAAA-
* * *
10001664 ATATTATTATAATGTAAATAATTATGATGGCAATATAAAATTTTAACTAATTATTGTTTTTGT-A
65 ATATTATTATAACGTAAATAATTATGATGGCAATGTAAAATTTTAATTAATTATTGTTTTTGTAA
* * * * *
10001728 TATGTAAAGAAAATAGTTAGAAATTAAAAAAATAAGTTGGTAACATAAAGAAGTAAGAAAAATAT
130 TATATAAAGAAAATAGCTAAAAATT-AAAAAATAAATTGGTAACATAAACAAGTAAGAAAAATAT
**
10001793 AAAATTAATATCATTTGATGTAAAATGAATAAAAAGAT-TAA
194 AAAATTAATATCATTTGATGTAAAATGAATAAAAAGATATTG
* * *
10001834 TAACACACTAAGGAAGAGTTATGATAATTCTAAATATAATAGAAGATAAGAA
1 TAATACACTAAGAAAGAGTTATGATAATTCTAAATATAATAGAAAATAAGAA
10001886 ATGTTAGAAT
Statistics
Matches: 930, Mismatches: 228, Indels: 135
0.72 0.18 0.10
Matches are distributed among these distances:
225 11 0.01
226 9 0.01
227 3 0.00
228 47 0.05
229 22 0.02
230 49 0.05
231 43 0.05
232 138 0.15
233 86 0.09
234 45 0.05
235 169 0.18
236 35 0.04
237 59 0.06
238 35 0.04
239 43 0.05
240 11 0.01
241 7 0.01
242 64 0.07
243 51 0.05
244 3 0.00
ACGTcount: A:0.50, C:0.06, G:0.11, T:0.33
Consensus pattern (235 bp):
TAATACACTAAGAAAGAGTTATGATAATTCTAAATATAATAGAAAATAAGAACAATCATAAAAAA
TATTATTATAACGTAAATAATTATGATGGCAATGTAAAATTTTAATTAATTATTGTTTTTGTAAT
ATATAAAGAAAATAGCTAAAAATTAAAAAATAAATTGGTAACATAAACAAGTAAGAAAAATATAA
AATTAATATCATTTGATGTAAAATGAATAAAAAGATATTG
Found at i:10007607 original size:235 final size:234
Alignment explanation
Indices: 10007148--10007695 Score: 574
Period size: 235 Copynumber: 2.3 Consensus size: 234
10007138 TTGTTGTAAT
* * * * *
10007148 ACACTAAAAAAG-AGTTATGACAATTATAAACATAATGGAAATTAAAAACAACCATAATAATATA
1 ACAC-AAAAAAGAAGTTATAACAATTATAAACATAAT-AAAAATAAAAACAACTATAAAAATATA
* * * *
10007212 TTATTTTAACGTAAATAATTATATTAGCAACATAAAATTTTAATTAATTATTGTTTTGTAAATAT
64 TTATTATAACGTAAATAATTATATTAGCAACATAAAATTTAAATTAATTATTGTTCTATAAATAT
* * * ** *
10007277 ATAAGGAAAATGGCTAGAAATTAAAATATAAATTGGCAATGTAAGCAAGTGAAAATAAACATAAA
129 ATAAGGAAAATAGCTAGAAATTAAAAAATAAATTGACAACATAAACAAGTGAAAATAAACATAAA
* *
10007342 GTTAATATCATTTAAAATAACATAAGT-AAAAGTGTC-AAA
194 GTTAATATCATTTAAAATAAAATAAGTAAAAAGTATCGAAA
* * *
10007381 ACACATTAAAAAGAAGTTATAACAATTCTAAACATAATAAAAAGTAAAAAC-ACTTATAAGAAGA
1 ACACA--AAAAAGAAGTTATAACAATTATAAACATAATAAAAA-TAAAAACAAC-TATAAAAATA
* * * *
10007445 TATTATTATAAAGTAAATAATTATGTT-GACAATATAAAGTTTAAATTAATTATTGTTCCTATAA
62 TATTATTATAACGTAAATAATTATATTAG-CAACATAAAATTTAAATTAATTATTGTT-CTATAA
* * * *
10007509 ATATATAA-GAAAATTAGTTA-AAATTAAAAAATAATTTGATAACATAAACAAGTGAGAAGT-AA
125 ATATATAAGGAAAA-TAGCTAGAAATTAAAAAATAAATTGACAACATAAACAAGTGA-AAATAAA
* * * ** * * *
10007571 CGTAAAAG-TAGTATTATTTGGAGTAAAATTAGTAAAAAGTATCGTAAT
188 CAT-AAAGTTAATATCATTTAAAATAAAATAAGTAAAAAGTATCG-AAA
* *
10007619 ACACAAAAAAAAAGTTATAACAATTATAAACGTAATAAAAATAAAAACAACTATAAAAATATATT
1 ACACAAAAAAGAAGTTATAACAATTATAAACATAATAAAAATAAAAACAACTATAAAAATATATT
*
10007684 ATTGTAACGTAA
66 ATTATAACGTAA
10007696 TTTATTTTTG
Statistics
Matches: 259, Mismatches: 42, Indels: 26
0.79 0.13 0.08
Matches are distributed among these distances:
232 1 0.00
233 4 0.02
234 12 0.05
235 169 0.65
236 66 0.25
238 7 0.03
ACGTcount: A:0.53, C:0.07, G:0.10, T:0.30
Consensus pattern (234 bp):
ACACAAAAAAGAAGTTATAACAATTATAAACATAATAAAAATAAAAACAACTATAAAAATATATT
ATTATAACGTAAATAATTATATTAGCAACATAAAATTTAAATTAATTATTGTTCTATAAATATAT
AAGGAAAATAGCTAGAAATTAAAAAATAAATTGACAACATAAACAAGTGAAAATAAACATAAAGT
TAATATCATTTAAAATAAAATAAGTAAAAAGTATCGAAA
Found at i:10008502 original size:235 final size:230
Alignment explanation
Indices: 10007859--10008861 Score: 716
Period size: 232 Copynumber: 4.3 Consensus size: 230
10007849 AGAATAAACA
* ** * * * *
10007859 TAAG-AAATATTATTCTAACATAAATAATTAAGT-AGATAACATAAACTTTTAACTGATTATTAT
1 TAAGAAAATATTATTGTAATGTAAATAATTAATTAAG-TAACATAAAATTTTAATTAATTATTA-
* * *
10007922 TTTTATAAATATATAAAAAAACAACTAAAAATTAAAAAACAAATTGGTAACATAAACAAGTGAGA
64 TTTTATAAATATAAAAAAAAATAACT-AAAATTAAAAAA-AAA--GGTAACATAAATAAGTGAGA
* * ** * * *
10007987 AAAACG--TAAAATTTGTATCATTTGTTATAAAATGAGTAAAAAGTATCATAATACACTATAAAA
125 AAAA-GTATAAAATTCGTATTATTTGACATAAAATAAGTAAAAAGTATCGTAACACACTA-AAAA
* ** *
10008050 GAGTTATAACAATTCTAAACATAATAAAAAGTAAGAAC---TA
188 GAGTTATAAAAATTCTAAACATAATGGAAAGTAAGAACAATTG
* * * * * * * * *
10008090 TAATAAGATATTATTGTAATGTAAACAATTAAGTAGGTAACATGAGATTTTAATTAATCATTGTT
1 TAAGAAAATATTATTGTAATGTAAATAATTAATTAAGTAACATAAAATTTTAATTAATTATT-AT
* * * *
10008155 TTTATAAAAATATAAACAAAATAACTAAAAGTTTAAAAATAAATATGCAACATAAATAAGTGA-A
65 TTTATAAATATA-AAAAAAAATAACTAAAA--TTAAAAA-AAA-AGGTAACATAAATAAGTGAGA
* *
10008219 AAAAATCATAAAATTCATATTATTTGACATAAAATGAA-TAAAAAGTATCGTAACACACATTAAG
125 AAAAGT-ATAAAATTCGTATTATTTGACATAAAAT-AAGTAAAAAGTATCGTAACACAC--TAA-
10008283 AAAGAGTTATAAAAATTCTAAACATAATGGAAAGTAAGAACAATTG
185 AAAGAGTTATAAAAATTCTAAACATAATGGAAAGTAAGAACAATTG
* ** *
10008329 TAAGAAAATATTATTGTCATGTAAATAATTAATTAAGTAACCCAAAATGTTAATTAATTATTATT
1 TAAGAAAATATTATTGTAATGTAAATAATTAATTAAGTAACATAAAATTTTAATTAATTATTATT
* * * *
10008394 TTATGAATGTAAAAGAAAAATAGCTAAAATTAAGAAAAAAAGGTAACGTAAATAAGTGAGAAAAA
66 TTATAAATATAAAA-AAAAATAACTAAAATTAA-AAAAAAAGGTAACATAAATAAGTGAGAAAAA
* * * *
10008459 GTATAAAATTCGTATTATTTGGCATAAAATAAGTAAGAAGTATCGTAACATACTAAAAA-AATTA
129 GTATAAAATTCGTATTATTTGACATAAAATAAGTAAAAAGTATCGTAACACACTAAAAAGAGTTA
* * * * *
10008523 TAATAATTCTAAACTTATTGGAATA-TAAGAATAATCG
194 TAAAAATTCTAAACATAATGGAA-AGTAAGAACAATTG
* ** ** * *
10008560 TACGAAAATATTATTGTAACATAAATAATTAAGTT-AGTAATGTAAAATTTTAATTAATTGTTGT
1 TAAGAAAATATTATTGTAATGTAAATAATTAA-TTAAGTAACATAAAATTTTAATTAATTATTAT
* * * * * * * *
10008624 TCATATAAATATATAAGAAAAAAT--CTAATAAATAATAAAAATAGATAACTTAAACATGCAAGA
65 T-TTATAAATATA-AA-AAAAAATAACTAA-AATTAA-AAAAAAAGGTAACATAAATAAG--TGA
* * * * * * * *
10008687 GAAAACG--TAAAATTCATATCATTTGACGTAAAATATGTAAATAGTGTCTTAACA-A--AAATA
123 GAAAAAGTATAAAATTCGTATTATTTGACATAAAATAAGTAAAAAGTATCGTAACACACTAAA-A
* * * * * * * * *
10008747 AAAGCTATGACAATTCTAAATATAATGGAAGGTGAGAACAACTA
187 AGAGTTATAAAAATTCTAAACATAATGGAAAGTAAGAACAATTG
* * ***
10008791 TAA-TAAATATTTTTGTAACAAAAATAATTAAATT-AGTAACATAAAATTACATTTTAATTAATT
1 TAAGAAAATATTATTGTAATGTAAATAATT-AATTAAGTAACAT--AA--A-ATTTTAATTAATT
10008854 ATTATTTT
60 ATTATTTT
10008862 TTGTAAATAT
Statistics
Matches: 614, Mismatches: 119, Indels: 75
0.76 0.15 0.09
Matches are distributed among these distances:
229 3 0.00
230 33 0.05
231 126 0.21
232 140 0.23
233 37 0.06
234 62 0.10
235 81 0.13
236 53 0.09
237 6 0.01
238 22 0.04
239 51 0.08
ACGTcount: A:0.51, C:0.07, G:0.10, T:0.32
Consensus pattern (230 bp):
TAAGAAAATATTATTGTAATGTAAATAATTAATTAAGTAACATAAAATTTTAATTAATTATTATT
TTATAAATATAAAAAAAAATAACTAAAATTAAAAAAAAAGGTAACATAAATAAGTGAGAAAAAGT
ATAAAATTCGTATTATTTGACATAAAATAAGTAAAAAGTATCGTAACACACTAAAAAGAGTTATA
AAAATTCTAAACATAATGGAAAGTAAGAACAATTG
Found at i:10009327 original size:13 final size:13
Alignment explanation
Indices: 10009309--10009343 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
10009299 AAAATTATAA
*
10009309 AAATTATAACCTG
1 AAATTATAACATG
10009322 AAATTATAACATG
1 AAATTATAACATG
10009335 AAATTATAA
1 AAATTATAA
10009344 AAATGTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.54, C:0.09, G:0.06, T:0.31
Consensus pattern (13 bp):
AAATTATAACATG
Found at i:10010522 original size:31 final size:31
Alignment explanation
Indices: 10010476--10010547 Score: 110
Period size: 31 Copynumber: 2.3 Consensus size: 31
10010466 GCATTTTCAA
*
10010476 TTTTGTAC-ATAGTTTTGAATATGAATTCTTG
1 TTTT-TACTATAGTTTTGAATACGAATTCTTG
*
10010507 TTTTTACTATAGTTTTGAGTACGAATTCTTG
1 TTTTTACTATAGTTTTGAATACGAATTCTTG
10010538 TTTTTACTAT
1 TTTTTACTAT
10010548 GTATTATATA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
30 3 0.08
31 35 0.92
ACGTcount: A:0.24, C:0.08, G:0.14, T:0.54
Consensus pattern (31 bp):
TTTTTACTATAGTTTTGAATACGAATTCTTG
Found at i:10010539 original size:151 final size:151
Alignment explanation
Indices: 10010357--10010662 Score: 364
Period size: 157 Copynumber: 2.0 Consensus size: 151
10010347 TTTTTTTAGT
* * * *
10010357 TTTTTACATAGTTGTGAATATGAATTTTTGTTTTTACTATGTATTGCATACATG-CATCCATGTA
1 TTTTTACATAGTTGTGAATACGAATTCTTGTTTTTACTATGTATTACATACATGTCATCCATGCA
* * *
10010421 AACATCGTTGTATGTATATCATTTCATTTGTTTGGGAAAATCTTTGCATTT-TCAATTTTGTACA
66 AACATCGTTATATGTACATCATTTCATTTGTTTGGGAAAATCTTTGCCTTTCT-AATTTTGTACA
*
10010485 TAGTTTTGAATATGAATTCTTG
130 TAGTTGTGAATATGAATTCTTG
* * * *
10010507 TTTTTACTATAGTTTTGAGTACGAATTCTTGTTTTTACTATGTATTATATACATGTATTTTCATT
1 TTTTTAC-ATAGTTGTGAATACGAATTCTTGTTTTTACTATGTATTACATACATG-----TCATC
** * ** *
10010572 CATGCAAACATTTTTATATGTACATTATTTCATTTGTTTGGGGCAATCTTTGCCTTTCTTATTTT
60 CATGCAAACATCGTTATATGTACATCATTTCATTTGTTTGGGAAAATCTTTGCCTTTCTAATTTT
*
10010637 GTATATAGTTGTGAATATGAATTCTT
125 GTACATAGTTGTGAATATGAATTCTT
10010663 ACTATGCATT
Statistics
Matches: 129, Mismatches: 19, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
150 7 0.05
151 41 0.32
157 80 0.62
158 1 0.01
ACGTcount: A:0.25, C:0.11, G:0.14, T:0.50
Consensus pattern (151 bp):
TTTTTACATAGTTGTGAATACGAATTCTTGTTTTTACTATGTATTACATACATGTCATCCATGCA
AACATCGTTATATGTACATCATTTCATTTGTTTGGGAAAATCTTTGCCTTTCTAATTTTGTACAT
AGTTGTGAATATGAATTCTTG
Found at i:10010659 original size:126 final size:124
Alignment explanation
Indices: 10010507--10010996 Score: 352
Period size: 126 Copynumber: 3.9 Consensus size: 124
10010497 TGAATTCTTG
* * * *
10010507 TTTTTACTATAGTTTTGAGTACGAATTCTTGTTTTTACTATGTATTATATACATGTATTTTCATT
1 TTTTTA-TATAGTTTTGAATATGAATTCTTGTTTTTACTATGCATTACATACATGTATTTTCATT
* ***
10010572 CATGCAAACATTTTTATATGTACATTATTTCATTTGTTTGGGGCAATCTTTGCCTTTCTTA
65 CATGTAAACATTTTTATATGTACATTATTTCATTTGTTTGGAAAAATCTTTGCCTTT-TTA
* *
10010633 TTTTGTATATAGTTGTGAATATGAATTC------TTACTATGCATTATATACATGTATTTGCATA
1 TTTT-TATATAGTTTTGAATATGAATTCTTGTTTTTACTATGCATTACATACATGTA-TT---T-
* * * * *
10010692 TACATCCATGTAAACATTTTTGTATGTACGTTGTTTCATTTGTTT-GAGAAAATATTTGCCTTTT
60 T-CATTCATGTAAACATTTTTATATGTACATTATTTCATTTGTTTGGA-AAAATCTTTGCCTTTT
*
10010756 CAA
123 -TA
* * * * * * *
10010759 CTTTGTACATAGTTTTGGATATGAAGTT-TTGTTTTCATTATGTATTACATACATGTATTTGCAT
1 -TTTTTATATAGTTTTGAATATGAA-TTCTTGTTTTTACTATGCATTACATACATGTATTTTC--
* *
10010823 ATAGATCCATGTAAACATCTTTATATGTAC----GTT-ATTTGTTTGGAAAAATCTTTGCCTTTT
62 AT---T-CATGTAAACATTTTTATATGTACATTATTTCATTTGTTTGGAAAAATCTTTGCCTTTT
*
10010883 CA
123 TA
* * *
10010885 ATTTTATGCATAGTTTTAAATATGAATTCTTGTTGTTACTATGCATTACATACATGTA-TTT-A-
1 TTTTTAT--ATAGTTTTGAATATGAATTCTTGTTTTTACTATGCATTACATACATGTATTTTCAT
* * * **
10010947 -CA--TATACATTTTTGTATGCACATTATTTCATTTGTTTGGAGCAATCTTTG
64 TCATGTAAACATTTTTATATGTACATTATTTCATTTGTTTGGAAAAATCTTTG
10010997 GTACATAAAT
Statistics
Matches: 286, Mismatches: 46, Indels: 70
0.71 0.11 0.17
Matches are distributed among these distances:
115 15 0.05
117 2 0.01
119 2 0.01
120 41 0.14
121 2 0.01
123 1 0.00
124 1 0.00
125 7 0.02
126 96 0.34
127 70 0.24
128 7 0.02
131 2 0.01
132 40 0.14
ACGTcount: A:0.27, C:0.12, G:0.13, T:0.48
Consensus pattern (124 bp):
TTTTTATATAGTTTTGAATATGAATTCTTGTTTTTACTATGCATTACATACATGTATTTTCATTC
ATGTAAACATTTTTATATGTACATTATTTCATTTGTTTGGAAAAATCTTTGCCTTTTTA
Found at i:10010910 original size:127 final size:130
Alignment explanation
Indices: 10010661--10010955 Score: 386
Period size: 127 Copynumber: 2.3 Consensus size: 130
10010651 ATATGAATTC
* * *
10010661 TTACTATGCATTATATACATGTATTTGCATATACATCCATGTAAACATTTTTGTATGTACGTTGT
1 TTACTATGCATTACATACATGTATTTGCATATACATCCATGTAAACATCTTTATATGTAC--TGT
* **
10010726 TTCATTTGTTTGAGAAAATATTTGCCTTTTCAACTTTGTACATAGTTTTGGATATGAAGTT-TTG
64 TTCATTTGTTTGAGAAAATATTTGCCTTTTCAACTTTATACATAGTTTTAAATATGAA-TTCTTG
10010790 TT-
128 TTG
* * *
10010792 TTCATTATGTATTACATACATGTATTTGCATATAGATCCATGTAAACATCTTTATATGTAC-G-T
1 TT-ACTATGCATTACATACATGTATTTGCATATACATCCATGTAAACATCTTTATATGTACTGTT
* * *
10010855 T-ATTTGTTTG-GAAAAATCTTTGCCTTTTCAATTTTATGCATAGTTTTAAATATGAATTCTTGT
65 TCATTTGTTTGAG-AAAATATTTGCCTTTTCAACTTTATACATAGTTTTAAATATGAATTCTTGT
10010918 TG
129 TG
*
10010920 TTACTATGCATTACATACATGTATTTACATATACAT
1 TTACTATGCATTACATACATGTATTTGCATATACAT
10010956 TTTTGTATGC
Statistics
Matches: 144, Mismatches: 16, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
126 3 0.02
127 82 0.57
128 4 0.03
129 1 0.01
131 2 0.01
132 52 0.36
ACGTcount: A:0.29, C:0.12, G:0.13, T:0.46
Consensus pattern (130 bp):
TTACTATGCATTACATACATGTATTTGCATATACATCCATGTAAACATCTTTATATGTACTGTTT
CATTTGTTTGAGAAAATATTTGCCTTTTCAACTTTATACATAGTTTTAAATATGAATTCTTGTTG
Found at i:10012066 original size:236 final size:236
Alignment explanation
Indices: 10011653--10012121 Score: 843
Period size: 236 Copynumber: 2.0 Consensus size: 236
10011643 GCATGGGTTA
10011653 TGAAAATGAAGATCGTTACATTAAGATTTCATTTGATGTAGTAAGATGATACAATAAGCTTAAGT
1 TGAAAATGAAGATCGTTACATTAAGATTTCATTTGATGTAGTAAGATGATACAATAAGCTTAAGT
10011718 TGTAAAAAAAAAAAAAAGCAAAAGAAAAATGAAAAAAATTATACATATGAGATATTCAAAGGATT
66 TGTAAAAAAAAAAAAAAGCAAAAGAAAAATGAAAAAAATTATACATATGAGATATTCAAAGGATT
*
10011783 CTAAAATCAAAGAAAAAAATCTACTCTTGAAATTGCTTTTTAATAGAGGTATCCATATTTGATAT
131 CCAAAATCAAAGAAAAAAATCTACTCTTGAAATTGCTTTTTAATAGAGGTATCCATATTTGATAT
10011848 AATAAATGGCTATCTTTTATAATCCTTTCACAAAAAGATCG
196 AATAAATGGCTATCTTTTATAATCCTTTCACAAAAAGATCG
* * *
10011889 TGAAAATGAAGATCGTTACATTGAGATTTCATTTGATGTAGTAAGATGATGCAATAAGCTTGAGT
1 TGAAAATGAAGATCGTTACATTAAGATTTCATTTGATGTAGTAAGATGATACAATAAGCTTAAGT
* *
10011954 TGTAAAAAAAAAAAAAAGAGCAAAAG-AAAATGAAAAGAATTATACATATGAGATGTTCAAA-GA
66 TGT-AAAAAAAAAAAAA-AGCAAAAGAAAAATGAAAAAAATTATACATATGAGATATTCAAAGGA
10012017 TTCCAAAATCAAAGAAAAAAATCTACTCTTGAAATTGCTTTTTAATAGAGGTATCCATATTTGAT
129 TTCCAAAATCAAAGAAAAAAATCTACTCTTGAAATTGCTTTTTAATAGAGGTATCCATATTTGAT
*
10012082 ATAATAAATGGCTATCTTTTATAATCTTTTCACAAAAAGA
194 ATAATAAATGGCTATCTTTTATAATCCTTTCACAAAAAGA
10012122 AAATATCCAT
Statistics
Matches: 224, Mismatches: 7, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
236 170 0.76
237 46 0.21
238 8 0.04
ACGTcount: A:0.46, C:0.10, G:0.14, T:0.30
Consensus pattern (236 bp):
TGAAAATGAAGATCGTTACATTAAGATTTCATTTGATGTAGTAAGATGATACAATAAGCTTAAGT
TGTAAAAAAAAAAAAAAGCAAAAGAAAAATGAAAAAAATTATACATATGAGATATTCAAAGGATT
CCAAAATCAAAGAAAAAAATCTACTCTTGAAATTGCTTTTTAATAGAGGTATCCATATTTGATAT
AATAAATGGCTATCTTTTATAATCCTTTCACAAAAAGATCG
Found at i:10012351 original size:18 final size:17
Alignment explanation
Indices: 10012328--10012370 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
10012318 TAGAAACATG
*
10012328 AAAAAAAATAAAAGAAC
1 AAAAAAAATAAAAGAAT
10012345 AAAAAAAATAAAAGAAAT
1 AAAAAAAATAAAAG-AAT
10012363 AAAAAAAA
1 AAAAAAAA
10012371 GATGAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 14 0.58
18 10 0.42
ACGTcount: A:0.86, C:0.02, G:0.05, T:0.07
Consensus pattern (17 bp):
AAAAAAAATAAAAGAAT
Found at i:10012357 original size:9 final size:9
Alignment explanation
Indices: 10012328--10012370 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
10012318 TAGAAACATG
10012328 AAAAAAAAT
1 AAAAAAAAT
* *
10012337 -AAAAGAAC
1 AAAAAAAAT
10012345 AAAAAAAAT
1 AAAAAAAAT
*
10012354 AAAAGAAAT
1 AAAAAAAAT
10012363 AAAAAAAA
1 AAAAAAAA
10012371 GATGAAAATG
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
8 6 0.22
9 21 0.78
ACGTcount: A:0.86, C:0.02, G:0.05, T:0.07
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:10012654 original size:14 final size:14
Alignment explanation
Indices: 10012635--10012668 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
10012625 TGGAATAGAG
10012635 AAAAGAAAGAAAAA
1 AAAAGAAAGAAAAA
10012649 AAAAGAAAGAAAAA
1 AAAAGAAAGAAAAA
*
10012663 AGAAGA
1 AAAAGA
10012669 TTGAATGAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (14 bp):
AAAAGAAAGAAAAA
Found at i:10014003 original size:45 final size:43
Alignment explanation
Indices: 10013922--10014011 Score: 110
Period size: 45 Copynumber: 2.0 Consensus size: 43
10013912 TGAAATTTAA
* *
10013922 AATCTTTAAATTTTAGATGTGAATCTCTAAAATTTTTCGAATATG
1 AATCATTAAATTTTAGATGTGAATCCCTAAAATTTTTC-AA-ATG
* *
10013967 AATCATTAAATGTTTGGATGTGAATCCCT-AAGTTTTTCAAATG
1 AATCATTAAAT-TTTAGATGTGAATCCCTAAAATTTTTCAAATG
10014010 AA
1 AA
10014012 AATCTTCAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
43 5 0.12
44 2 0.05
45 18 0.45
46 15 0.38
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.41
Consensus pattern (43 bp):
AATCATTAAATTTTAGATGTGAATCCCTAAAATTTTTCAAATG
Found at i:10014075 original size:21 final size:21
Alignment explanation
Indices: 10014051--10014091 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
10014041 AACTTTTCAA
*
10014051 ATGTGAATATTTGAAATTTTG
1 ATGTGAATATTTAAAATTTTG
*
10014072 ATGTGAATCTTTAAAATTTT
1 ATGTGAATATTTAAAATTTT
10014092 TGAATTTTGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.34, C:0.02, G:0.15, T:0.49
Consensus pattern (21 bp):
ATGTGAATATTTAAAATTTTG
Found at i:10014151 original size:44 final size:43
Alignment explanation
Indices: 10014097--10014180 Score: 107
Period size: 43 Copynumber: 1.9 Consensus size: 43
10014087 ATTTTTGAAT
**
10014097 TTTGGATGTGAATC-CTTAATTTTTTTCGAATGAAAATCTTTAAC
1 TTTGGATGTGAATCTC-TAA-AATTTTCGAATGAAAATCTTTAAC
* *
10014141 TTTGGGTGTGAATCTCTAAAATTTTCGAATGAGAATCTTT
1 TTTGGATGTGAATCTCTAAAATTTTCGAATGAAAATCTTT
10014181 GAGCCTTGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
43 18 0.51
44 16 0.46
45 1 0.03
ACGTcount: A:0.29, C:0.11, G:0.17, T:0.44
Consensus pattern (43 bp):
TTTGGATGTGAATCTCTAAAATTTTCGAATGAAAATCTTTAAC
Found at i:10014495 original size:19 final size:18
Alignment explanation
Indices: 10014471--10014506 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
10014461 TTCTTGTGAA
10014471 TTTGAAAGTCATGCAAATC
1 TTTG-AAGTCATGCAAATC
*
10014490 TTTGAAGTCTTGCAAAT
1 TTTGAAGTCATGCAAAT
10014507 ATGAATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (18 bp):
TTTGAAGTCATGCAAATC
Found at i:10014594 original size:16 final size:16
Alignment explanation
Indices: 10014539--10014598 Score: 57
Period size: 17 Copynumber: 3.6 Consensus size: 16
10014529 ATTTTGGTAT
*
10014539 ATTTGAAACCTTTACGA
1 ATTTGAAATC-TTACGA
* * *
10014556 ATTTAGAACTTTTGCGAA
1 ATTT-GAAATCTTACG-A
10014574 ATTTGAAATCTTACGA
1 ATTTGAAATCTTACGA
10014590 ATTTGAAAT
1 ATTTGAAAT
10014599 TTCTATGAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
16 10 0.29
17 16 0.47
18 8 0.24
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.38
Consensus pattern (16 bp):
ATTTGAAATCTTACGA
Found at i:10017664 original size:16 final size:16
Alignment explanation
Indices: 10017643--10017685 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
10017633 TTTATAAATT
*
10017643 TTATTTTATAATCTCA
1 TTATTTGATAATCTCA
10017659 TTATTTGATAATCTCA
1 TTATTTGATAATCTCA
10017675 TTATTTGATAA
1 TTATTTGATAA
10017686 GCATAATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.33, C:0.09, G:0.05, T:0.53
Consensus pattern (16 bp):
TTATTTGATAATCTCA
Found at i:10019394 original size:2 final size:2
Alignment explanation
Indices: 10019387--10019422 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
10019377 CAATTATCAT
10019387 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
10019423 ATCCGTTACC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:10027854 original size:24 final size:24
Alignment explanation
Indices: 10027827--10027875 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
10027817 ATACTTTTGG
*
10027827 AGGATTTCTTGTGGTGATTTTCTA
1 AGGATTTCTTGTGATGATTTTCTA
10027851 AGGATTTCTTGTGATGATTTTCTA
1 AGGATTTCTTGTGATGATTTTCTA
10027875 A
1 A
10027876 CATAGATGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.20, C:0.08, G:0.22, T:0.49
Consensus pattern (24 bp):
AGGATTTCTTGTGATGATTTTCTA
Found at i:10028494 original size:23 final size:24
Alignment explanation
Indices: 10028446--10028494 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 24
10028436 GTGAATAACT
*
10028446 GAACTAAAGAACTAAAAGAAATAA
1 GAACTAAAGAACTAAAAGAAAGAA
*
10028470 GAACT-AAGAACTAAAAGAGAGAA
1 GAACTAAAGAACTAAAAGAAAGAA
10028493 GA
1 GA
10028495 GAATTGAGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 18 0.78
24 5 0.22
ACGTcount: A:0.63, C:0.08, G:0.18, T:0.10
Consensus pattern (24 bp):
GAACTAAAGAACTAAAAGAAAGAA
Found at i:10034443 original size:135 final size:135
Alignment explanation
Indices: 10034199--10034465 Score: 498
Period size: 135 Copynumber: 2.0 Consensus size: 135
10034189 TGAAAATTGG
10034199 ATATATTGAAAATATTGTAGATATTTAATACCATGGTTGGATGTTTGTACTAATGGGGTGTCAAG
1 ATATATTGAAAATATTGTAGATATTTAATACCATGGTTGGATGTTTGTACTAATGGGGTGTCAAG
*
10034264 GGTAGTAGCAGAGGCAGTTCTTGTTGCCGATGAGAGAATCCTCCTGAACTGAAGCATGCAGGGTT
66 AGTAGTAGCAGAGGCAGTTCTTGTTGCCGATGAGAGAATCCTCCTGAACTGAAGCATGCAGGGTT
10034329 TGTTC
131 TGTTC
10034334 ATATATTGAAAATATTGTAGATATTTAATACCATGGTTGGATGTTTGTACTAATGGGGTGTCAAG
1 ATATATTGAAAATATTGTAGATATTTAATACCATGGTTGGATGTTTGTACTAATGGGGTGTCAAG
* * *
10034399 AGTAGTAGCGGTGGCAGTTCTTGTTGCCGATGAGAGAATTCTCCTGAACTGAAGCATGCAGGGTT
66 AGTAGTAGCAGAGGCAGTTCTTGTTGCCGATGAGAGAATCCTCCTGAACTGAAGCATGCAGGGTT
10034464 TG
131 TG
10034466 CCAAAGAGAG
Statistics
Matches: 128, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
135 128 1.00
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (135 bp):
ATATATTGAAAATATTGTAGATATTTAATACCATGGTTGGATGTTTGTACTAATGGGGTGTCAAG
AGTAGTAGCAGAGGCAGTTCTTGTTGCCGATGAGAGAATCCTCCTGAACTGAAGCATGCAGGGTT
TGTTC
Found at i:10048033 original size:28 final size:28
Alignment explanation
Indices: 10047993--10048049 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
10047983 AAGGGGTTTG
10047993 AGTGAAGAATTTTCAAAAGAGAGCAAAA
1 AGTGAAGAATTTTCAAAAGAGAGCAAAA
*
10048021 AGTGAAGAATTTTCAGAAGAGAGCAAAA
1 AGTGAAGAATTTTCAAAAGAGAGCAAAA
10048049 A
1 A
10048050 ATAAAAAGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.53, C:0.07, G:0.23, T:0.18
Consensus pattern (28 bp):
AGTGAAGAATTTTCAAAAGAGAGCAAAA
Found at i:10048070 original size:44 final size:44
Alignment explanation
Indices: 10048020--10048110 Score: 146
Period size: 44 Copynumber: 2.1 Consensus size: 44
10048010 AGAGAGCAAA
* * *
10048020 AAGTGAAGAATTTTCAGAAGAGAGCAAAAAATAAAAAGTTTGGG
1 AAGTGAAGAACTTTCAAAAGAGAGCAAAAAATAAAAAGTTTAGG
*
10048064 AAGTGAAGAACTTTCAAAAGAGAGCAAAAAATAAGAAGTTTAGG
1 AAGTGAAGAACTTTCAAAAGAGAGCAAAAAATAAAAAGTTTAGG
10048108 AAG
1 AAG
10048111 CTAAAAAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.52, C:0.05, G:0.24, T:0.19
Consensus pattern (44 bp):
AAGTGAAGAACTTTCAAAAGAGAGCAAAAAATAAAAAGTTTAGG
Found at i:10050144 original size:23 final size:24
Alignment explanation
Indices: 10050101--10050149 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
10050091 TTAGATGTTG
* *
10050101 ATGAATTACAAAAGTAGCAAA-AA
1 ATGAATTACAAAAGAAACAAATAA
10050124 ATGAATTACAATAA-AAACAAATAA
1 ATGAATTACAA-AAGAAACAAATAA
10050148 AT
1 AT
10050150 AGATTAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 16 0.73
24 6 0.27
ACGTcount: A:0.63, C:0.08, G:0.08, T:0.20
Consensus pattern (24 bp):
ATGAATTACAAAAGAAACAAATAA
Found at i:10050393 original size:20 final size:21
Alignment explanation
Indices: 10050348--10050400 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 21
10050338 AGGTTAAGCT
10050348 TTAAAACCCTAAATTCAAACC
1 TTAAAACCCTAAATTCAAACC
* *
10050369 CTAAAACCCTATATT-AAACC
1 TTAAAACCCTAAATTCAAACC
10050389 TTAAAACCCTAA
1 TTAAAACCCTAA
10050401 CCATGAAATG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (21 bp):
TTAAAACCCTAAATTCAAACC
Found at i:10061670 original size:21 final size:21
Alignment explanation
Indices: 10061646--10061687 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
10061636 ATATTATGCC
10061646 TAAAAGAAAA-AAATAAAAAAA
1 TAAAA-AAAATAAATAAAAAAA
*
10061667 TAAAAAAAATGAATAAAAAAA
1 TAAAAAAAATAAATAAAAAAA
10061688 AGGGAAGACC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.83, C:0.00, G:0.05, T:0.12
Consensus pattern (21 bp):
TAAAAAAAATAAATAAAAAAA
Found at i:10062314 original size:29 final size:29
Alignment explanation
Indices: 10062259--10062313 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 29
10062249 AAGAATAACA
*
10062259 AAAATGAAAGGAAAGATAAATGAAAAATG
1 AAAATCAAAGGAAAGATAAATGAAAAATG
10062288 AAAATCAAA-GAAAGA-AAATGGAAAAA
1 AAAATCAAAGGAAAGATAAAT-GAAAAA
10062314 AAGCCATACC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 4 0.17
28 12 0.50
29 8 0.33
ACGTcount: A:0.69, C:0.02, G:0.18, T:0.11
Consensus pattern (29 bp):
AAAATCAAAGGAAAGATAAATGAAAAATG
Found at i:10062983 original size:50 final size:50
Alignment explanation
Indices: 10062929--10063089 Score: 139
Period size: 50 Copynumber: 3.2 Consensus size: 50
10062919 ATATATTTTC
10062929 TTAAAGTTCCAAAGCCTCTATTTAAGAGGAACCTTTCAAAGATGAGATTT
1 TTAAAGTTCCAAAGCCTCTATTTAAGAGGAACCTTTCAAAGATGAGATTT
*** * * * * *
10062979 TTAAAGTTTTGAAGCCTCTATTTAAGATGAGCTTTTCAAATATGAAATTTTTTT
1 TTAAAGTTCCAAAGCCTCTATTTAAGAGGAACCTTTCAAAGATGAGA----TTT
* * **
10063033 TTAAAGTTTCGAAA-CCTCTGTTTAAGAGG-AGGTTT-AAAGGATGAGATTT
1 TTAAAG-TTCCAAAGCCTCTATTTAAGAGGAACCTTTCAAA-GATGAGATTT
10063082 TTAAAGTT
1 TTAAAGTT
10063090 GTTAAGCCTT
Statistics
Matches: 87, Mismatches: 18, Indels: 14
0.73 0.15 0.12
Matches are distributed among these distances:
48 2 0.02
49 9 0.10
50 39 0.45
52 3 0.03
53 8 0.09
54 22 0.25
55 4 0.05
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.39
Consensus pattern (50 bp):
TTAAAGTTCCAAAGCCTCTATTTAAGAGGAACCTTTCAAAGATGAGATTT
Found at i:10063059 original size:104 final size:104
Alignment explanation
Indices: 10062823--10063116 Score: 307
Period size: 103 Copynumber: 2.8 Consensus size: 104
10062813 AAATACAAAA
* * * **
10062823 TTTTTAAAGTTTTAAAACCTCTGTTT-AGTA-GAGCTTTCAAAGATGAAATTTTGAAA-TATCAA
1 TTTTTAAAGTTTCAAAACCTCTGTTTAAG-AGGAGCTTTCAAAGATGAGATTTTTAAAGT-TTTA
* * *
10062885 AGCCTCTGTTCAAGAAGAGCTTTTCAAAGATGATATATATT
64 AGCCTCTATTTAAGATGAGCTTTTCAAAGATGATATATATT
* * * * *
10062926 TTCTTAAAGTTCCAAAGCCTCTATTTAAGAGGAACCTTTCAAAGATGAGATTTTTAAAGTTTTGA
1 TTTTTAAAGTTTCAAAACCTCTGTTTAAGAGG-AGCTTTCAAAGATGAGATTTTTAAAGTTTT-A
* *
10062991 AGCCTCTATTTAAGATGAGCTTTTCAAATATGA-A-ATTTT
64 AGCCTCTATTTAAGATGAGCTTTTCAAAGATGATATATATT
* *
10063030 TTTTTAAAGTTTCGAAACCTCTGTTTAAGAGGAGGTTT-AAAGGATGAGATTTTTAAAGTTGTTA
1 TTTTTAAAGTTTCAAAACCTCTGTTTAAGAGGAGCTTTCAAA-GATGAGATTTTTAAAGTT-TTA
*
10063094 AGCCTTTGA-TTAA-ATGAGCTTTT
64 AGCCTCT-ATTTAAGATGAGCTTTT
10063117 AGACTTATTT
Statistics
Matches: 160, Mismatches: 23, Indels: 17
0.80 0.12 0.09
Matches are distributed among these distances:
102 13 0.08
103 55 0.34
104 37 0.23
105 24 0.15
106 31 0.19
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.39
Consensus pattern (104 bp):
TTTTTAAAGTTTCAAAACCTCTGTTTAAGAGGAGCTTTCAAAGATGAGATTTTTAAAGTTTTAAG
CCTCTATTTAAGATGAGCTTTTCAAAGATGATATATATT
Found at i:10063347 original size:47 final size:47
Alignment explanation
Indices: 10063097--10063410 Score: 235
Period size: 47 Copynumber: 6.7 Consensus size: 47
10063087 GTTGTTAAGC
* * * * * *
10063097 CTTTGATTAAATGAGCTTTTAGACTTATTTTC-AAAAGTTATAGAG-
1 CTTTGCTTAAAGGAGTTTTTAAATTTATTTTCAAAAAGTTATGGAGA
* * * * * * *
10063142 CTTTTACTTAAATGAGGTTTCAAATTTACTTTCAAAAAGTTA--CAGT
1 C-TTTGCTTAAAGGAGTTTTTAAATTTATTTTCAAAAAGTTATGGAGA
* * * * *
10063188 CATTGCTTAAAGGGGCTTTTAAATTTACATTT-AAAAAGTTGTGGAGA
1 CTTTGCTTAAAGGAGTTTTTAAATTTA-TTTTCAAAAAGTTATGGAGA
** * * *
10063235 CTTTGCTTAAAACAATTTTTACATTTATTTTCAAAAAGTTGTGGAGA
1 CTTTGCTTAAAGGAGTTTTTAAATTTATTTTCAAAAAGTTATGGAGA
* * * * *
10063282 CTTTCCTTAAAAGAGTTTTTACATTTATTTTCAAAAAGTTATGGGGC
1 CTTTGCTTAAAGGAGTTTTTAAATTTATTTTCAAAAAGTTATGGAGA
* * * * *
10063329 CTTTGCTTAAAGGGGTTTTTAAATTTTATTTT-TAAAAGTAATTGAGT
1 CTTTGCTTAAAGGAGTTTTTAAA-TTTATTTTCAAAAAGTTATGGAGA
* * *
10063376 CATTGTTTAAAGGAGTTTTGAAATTTATTTTCAAA
1 CTTTGCTTAAAGGAGTTTTTAAATTTATTTTCAAA
10063411 TGGAAAAGTT
Statistics
Matches: 214, Mismatches: 46, Indels: 16
0.78 0.17 0.06
Matches are distributed among these distances:
45 31 0.14
46 39 0.18
47 136 0.64
48 8 0.04
ACGTcount: A:0.33, C:0.09, G:0.15, T:0.43
Consensus pattern (47 bp):
CTTTGCTTAAAGGAGTTTTTAAATTTATTTTCAAAAAGTTATGGAGA
Found at i:10064429 original size:27 final size:30
Alignment explanation
Indices: 10064369--10064430 Score: 80
Period size: 27 Copynumber: 2.2 Consensus size: 30
10064359 TAGGAAGCTA
10064369 AAAGAAAAAGCAACAAGAAAAAGGGTTATT
1 AAAGAAAAAGCAACAAGAAAAAGGGTTATT
10064399 -AAGAAAAA-C-ACAA-AAAATAGGGTT-TT
1 AAAGAAAAAGCAACAAGAAAA-AGGGTTATT
10064425 AAAGAA
1 AAAGAA
10064431 GGGCTTGGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
26 6 0.20
27 15 0.50
28 1 0.03
29 8 0.27
ACGTcount: A:0.61, C:0.06, G:0.18, T:0.15
Consensus pattern (30 bp):
AAAGAAAAAGCAACAAGAAAAAGGGTTATT
Found at i:10066656 original size:21 final size:19
Alignment explanation
Indices: 10066614--10066663 Score: 73
Period size: 21 Copynumber: 2.5 Consensus size: 19
10066604 GGTGAAACCA
*
10066614 TAAAACCCTAAATAAGTCC
1 TAAAACCCTAAATAAATCC
10066633 TAAAACCCTAAATTCAAATCC
1 TAAAACCCTAAA-T-AAATCC
10066654 TAAAACCCTA
1 TAAAACCCTA
10066664 GATAGGACTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
19 12 0.43
20 1 0.04
21 15 0.54
ACGTcount: A:0.48, C:0.28, G:0.02, T:0.22
Consensus pattern (19 bp):
TAAAACCCTAAATAAATCC
Found at i:10066661 original size:40 final size:40
Alignment explanation
Indices: 10066614--10066764 Score: 137
Period size: 41 Copynumber: 3.8 Consensus size: 40
10066604 GGTGAAACCA
* *
10066614 TAAAACCCTAAATAAGTCCTAAAACCCTAAATTCAAATCC
1 TAAAACCCTAGATAAGCCCTAAAACCCTAAATTCAAATCC
** * *
10066654 TAAAACCCTAGAT-AGGACTTAAACCCT--ATGCAAAATCC
1 TAAAACCCTAGATAAGCCCTAAAACCCTAAATTC-AAATCC
* *
10066692 TAAAACCCTAGGTTAAGCCCTAAAACCCTAAATTCAAACCC
1 TAAAACCCTA-GATAAGCCCTAAAACCCTAAATTCAAATCC
* * * * *
10066733 CAACACTCTAGATAAAACCTTAAAACCCTAAA
1 TAAAACCCTAGAT-AAGCCCTAAAACCCTAAA
10066765 CATGAAACCG
Statistics
Matches: 88, Mismatches: 17, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
37 3 0.03
38 16 0.18
39 13 0.15
40 25 0.28
41 28 0.32
42 3 0.03
ACGTcount: A:0.45, C:0.28, G:0.06, T:0.21
Consensus pattern (40 bp):
TAAAACCCTAGATAAGCCCTAAAACCCTAAATTCAAATCC
Found at i:10072998 original size:42 final size:40
Alignment explanation
Indices: 10072951--10073043 Score: 116
Period size: 41 Copynumber: 2.2 Consensus size: 40
10072941 CCTTTTTTTG
** *
10072951 AAGTAATCTTCTATCATGCTTCTTTATGGATTAACTTG-TCCA
1 AAGTAATCTTC-ATCATGCTT-TCCATAGATTAA-TTGATCCA
10072993 AAGTAATCCTTCATCATGCTTTCCATAGATTAATTGATCCA
1 AAGTAAT-CTTCATCATGCTTTCCATAGATTAATTGATCCA
10073034 AAGTAATCTT
1 AAGTAATCTT
10073044 TCAACATTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
40 6 0.13
41 20 0.43
42 16 0.35
43 4 0.09
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.40
Consensus pattern (40 bp):
AAGTAATCTTCATCATGCTTTCCATAGATTAATTGATCCA
Found at i:10073036 original size:41 final size:42
Alignment explanation
Indices: 10072951--10073089 Score: 121
Period size: 39 Copynumber: 3.4 Consensus size: 42
10072941 CCTTTTTTTG
** *
10072951 AAGTAAT-CTTCTATCATGCTTCTTTATGGATTAACTTGTCCA
1 AAGTAATCCTTC-ATCATGCTTCTCCATAGATTAACTTGTCCA
10072993 AAGTAATCCTTCATCATGCTT-TCCATAGATTAA-TTGATCCA
1 AAGTAATCCTTCATCATGCTTCTCCATAGATTAACTTG-TCCA
* * * * *
10073034 AAGTAATCTTTCAACAT--TT-TTCA-AGGATTAACATGTGCA
1 AAGTAATCCTTCATCATGCTTCTCCATA-GATTAACTTGTCCA
*
10073073 AAGTAATCTTTCATCAT
1 AAGTAATCCTTCATCAT
10073090 TTTTCCAAGT
Statistics
Matches: 84, Mismatches: 9, Indels: 11
0.81 0.09 0.11
Matches are distributed among these distances:
38 1 0.01
39 30 0.36
40 5 0.06
41 28 0.33
42 16 0.19
43 4 0.05
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.39
Consensus pattern (42 bp):
AAGTAATCCTTCATCATGCTTCTCCATAGATTAACTTGTCCA
Found at i:10079750 original size:49 final size:50
Alignment explanation
Indices: 10079656--10079750 Score: 120
Period size: 49 Copynumber: 1.9 Consensus size: 50
10079646 GCATAGTGCC
* ** **
10079656 AATTTTGCATGACTCGATTGATCGATTATGAAAGGGGATTGATCGGGTAT
1 AATTTTCCATGACTCGATCAATCGATTATGAAAGGGGATCAATCGGGTAT
* *
10079706 AATTTTCCATGAC-CGATCAATTGATTATGAAGGGGGATCAATCGG
1 AATTTTCCATGACTCGATCAATCGATTATGAAAGGGGATCAATCGG
10079751 TTCCTCACAT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
49 26 0.68
50 12 0.32
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (50 bp):
AATTTTCCATGACTCGATCAATCGATTATGAAAGGGGATCAATCGGGTAT
Found at i:10087288 original size:6 final size:6
Alignment explanation
Indices: 10087277--10087653 Score: 101
Period size: 7 Copynumber: 59.3 Consensus size: 6
10087267 CATAGATTCG
* * * * *
10087277 GGTTTA GGTTTA -ATTTT GGTTTA GGGTTTG GGGTT- GGTTTA GTGTCTA
1 GGTTTA GGTTTA GGTTTA GGTTTA -GGTTTA GGTTTA GGTTTA G-GTTTA
* * *
10087325 GG-TTA GGATTTA TGGTTTA -GTTTA GGTTTTG GGGTT- GGTTTA GGGTCTA
1 GGTTTA GG-TTTA -GGTTTA GGTTTA GG-TTTA GGTTTA GGTTTA -GGTTTA
* * *
10087374 GG-TGA TGGTTTA GGGTTTA -GTTTA GGTTCAA GGTTTAA GGTTTA GCTTTA
1 GGTTTA -GGTTTA -GGTTTA GGTTTA GGTT-TA GGTTT-A GGTTTA GGTTTA
* * * * *
10087424 GGGTTTG GGAATT- GGTTTAA GGTTTA GGGATTAA GATTATA -GTTTGT
1 -GGTTTA GG-TTTA GGTTT-A GGTTTA -GG-TTTA GGTT-TA GGTTT-A
* * * * * *
10087471 GGTTTA GGGTTA GGGTTTT GGTTTGG GGTTTA GGTTTA CAGTTTG GGGTTA
1 GGTTTA GGTTTA -GGTTTA GGTTT-A GGTTTA GGTTTA -GGTTTA GGTTTA
* *
10087522 GGGTTT- GGTTTA GGCTTTAA GGTTTAA GGTTTG GGCTT- GGTTTA GGGTTTA
1 -GGTTTA GGTTTA GG-TTT-A GGTTT-A GGTTTA GGTTTA GGTTTA -GGTTTA
* * ** * * *
10087573 GGGTTTA GAATTAA GGCGTA AGTTTA GGGTTTGG GGTTTA GGATTTA GGATTA
1 -GGTTTA G-GTTTA GGTTTA GGTTTA -GGTTT-A GGTTTA GG-TTTA GGTTTA
*
10087626 GGGTTA GGTTTAA GGTTTA GGGTTTA GG
1 GGTTTA GGTTT-A GGTTTA -GGTTTA GG
10087654 GCTTCAATTT
Statistics
Matches: 272, Mismatches: 59, Indels: 80
0.66 0.14 0.19
Matches are distributed among these distances:
5 38 0.14
6 87 0.32
7 139 0.51
8 8 0.03
ACGTcount: A:0.17, C:0.02, G:0.37, T:0.44
Consensus pattern (6 bp):
GGTTTA
Found at i:10087357 original size:49 final size:49
Alignment explanation
Indices: 10087295--10087401 Score: 162
Period size: 49 Copynumber: 2.2 Consensus size: 49
10087285 TTTAATTTTG
* * * *
10087295 GTTTAGGGTTTGGGGTTGGTTTAGTGTCTAGGTTA-GGATTTATGGTTTA
1 GTTTAGGTTTTGGGGTTGGTTTAGGGTCTAGGTGATGG-TTTAGGGTTTA
10087344 GTTTAGGTTTTGGGGTTGGTTTAGGGTCTAGGTGATGGTTTAGGGTTTA
1 GTTTAGGTTTTGGGGTTGGTTTAGGGTCTAGGTGATGGTTTAGGGTTTA
10087393 GTTTAGGTT
1 GTTTAGGTT
10087402 CAAGGTTTAA
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
49 51 0.96
50 2 0.04
ACGTcount: A:0.13, C:0.02, G:0.38, T:0.47
Consensus pattern (49 bp):
GTTTAGGTTTTGGGGTTGGTTTAGGGTCTAGGTGATGGTTTAGGGTTTA
Found at i:10087499 original size:13 final size:13
Alignment explanation
Indices: 10087465--10087507 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
10087455 TAAGATTATA
*
10087465 GTTTGTGGTTTAG
1 GTTTGGGGTTTAG
* * *
10087478 GGTTAGGGTTTTG
1 GTTTGGGGTTTAG
10087491 GTTTGGGGTTTAG
1 GTTTGGGGTTTAG
10087504 GTTT
1 GTTT
10087508 ACAGTTTGGG
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.07, C:0.00, G:0.42, T:0.51
Consensus pattern (13 bp):
GTTTGGGGTTTAG
Found at i:10087520 original size:39 final size:39
Alignment explanation
Indices: 10087471--10087556 Score: 113
Period size: 39 Copynumber: 2.2 Consensus size: 39
10087461 TATAGTTTGT
* * *
10087471 GGTTTAGGGTTAGGGTTTTGGTTTGGGGTTT-AGGTTTACA
1 GGTTTGGGGTTAGGG-TTTGGTTTAGGCTTTAAGGTTTA-A
10087511 -GTTTGGGGTTAGGGTTTGGTTTAGGCTTTAAGGTTTAA
1 GGTTTGGGGTTAGGGTTTGGTTTAGGCTTTAAGGTTTAA
10087549 GGTTTGGG
1 GGTTTGGG
10087557 CTTGGTTTAG
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
38 14 0.34
39 27 0.66
ACGTcount: A:0.13, C:0.02, G:0.41, T:0.44
Consensus pattern (39 bp):
GGTTTGGGGTTAGGGTTTGGTTTAGGCTTTAAGGTTTAA
Found at i:10087527 original size:13 final size:13
Alignment explanation
Indices: 10087471--10087654 Score: 81
Period size: 13 Copynumber: 14.2 Consensus size: 13
10087461 TATAGTTTGT
10087471 GGTTTAGGGTTAG
1 GGTTTAGGGTTAG
* * *
10087484 GGTTTTGGTTTGG
1 GGTTTAGGGTTAG
* *
10087497 GGTTTAGGTTTAC
1 GGTTTAGGGTTAG
* *
10087510 AGTTTGGGGTTAG
1 GGTTTAGGGTTAG
*
10087523 GGTTT-GGTTTAG
1 GGTTTAGGGTTAG
* * *
10087535 GCTTTAAGGTTTAA
1 GGTTT-AGGGTTAG
10087549 GGTTT-GGGCTT--
1 GGTTTAGGG-TTAG
10087560 GGTTTAGGGTTTAG
1 GGTTTAGGG-TTAG
** *
10087574 GGTTTAGAATTAA
1 GGTTTAGGGTTAG
** * *
10087587 GGCGTAAGTTTAG
1 GGTTTAGGGTTAG
*
10087600 GGTTTGGGGTTTAG
1 GGTTTAGGG-TTAG
* *
10087614 GATTTAGGATTAG
1 GGTTTAGGGTTAG
* *
10087627 GG-TTAGGTTTAA
1 GGTTTAGGGTTAG
10087639 GGTTTAGGGTTTAG
1 GGTTTAGGG-TTAG
10087653 GG
1 GG
10087655 CTTCAATTTA
Statistics
Matches: 123, Mismatches: 39, Indels: 17
0.69 0.22 0.09
Matches are distributed among these distances:
11 5 0.04
12 27 0.22
13 59 0.48
14 32 0.26
ACGTcount: A:0.17, C:0.02, G:0.39, T:0.42
Consensus pattern (13 bp):
GGTTTAGGGTTAG
Found at i:10087565 original size:32 final size:32
Alignment explanation
Indices: 10087517--10087579 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
10087507 TACAGTTTGG
*
10087517 GGTTAGGGTTTGGTTTAGGCTTTAAGGTTTAA
1 GGTTAGGGCTTGGTTTAGGCTTTAAGGTTTAA
* * *
10087549 GGTTTGGGCTTGGTTTAGGGTTTAGGGTTTA
1 GGTTAGGGCTTGGTTTAGGCTTTAAGGTTTA
10087580 GAATTAAGGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.14, C:0.03, G:0.38, T:0.44
Consensus pattern (32 bp):
GGTTAGGGCTTGGTTTAGGCTTTAAGGTTTAA
Found at i:10087610 original size:40 final size:39
Alignment explanation
Indices: 10087560--10087654 Score: 120
Period size: 39 Copynumber: 2.4 Consensus size: 39
10087550 GTTTGGGCTT
*
10087560 GGTTTAGGGTTTAGGGTTTAGAATTAAGGCG-TAAGTTTAG
1 GGTTTAGGGTTTAGGGTTTAGAATT-AGG-GTTAAGTTTAA
* * * *
10087600 GGTTTGGGGTTTAGGATTTAGGATTAGGGTTAGGTTTAA
1 GGTTTAGGGTTTAGGGTTTAGAATTAGGGTTAAGTTTAA
10087639 GGTTTAGGGTTTAGGG
1 GGTTTAGGGTTTAGGG
10087655 CTTCAATTTA
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
38 1 0.02
39 24 0.51
40 22 0.47
ACGTcount: A:0.21, C:0.01, G:0.39, T:0.39
Consensus pattern (39 bp):
GGTTTAGGGTTTAGGGTTTAGAATTAGGGTTAAGTTTAA
Found at i:10087633 original size:33 final size:33
Alignment explanation
Indices: 10087563--10087653 Score: 94
Period size: 33 Copynumber: 2.8 Consensus size: 33
10087553 TGGGCTTGGT
* * * *
10087563 TTAGGGTTTAGGGTTTAGAATTAAGGCGTAAGT
1 TTAGGGTTTAGGGTTTAGGATTTAGGAGTAAGG
* * *
10087596 TTAGGGTTTGGGGTTTAGGATTTAGGATTAGGG
1 TTAGGGTTTAGGGTTTAGGATTTAGGAGTAAGG
* *
10087629 TTA-GGTTTAAGGTTTAGGGTTTAGG
1 TTAGGGTTTAGGGTTTAGGATTTAGG
10087654 GCTTCAATTT
Statistics
Matches: 48, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
32 19 0.40
33 29 0.60
ACGTcount: A:0.22, C:0.01, G:0.37, T:0.40
Consensus pattern (33 bp):
TTAGGGTTTAGGGTTTAGGATTTAGGAGTAAGG
Found at i:10087671 original size:7 final size:7
Alignment explanation
Indices: 10087380--10087654 Score: 105
Period size: 7 Copynumber: 42.3 Consensus size: 7
10087370 TCTAGGTGAT
10087380 GGTTTAG
1 GGTTTAG
10087387 GGTTTA-
1 GGTTTAG
10087393 -GTTTA-
1 GGTTTAG
* *
10087398 GGTTCAA
1 GGTTTAG
*
10087405 GGTTTAA
1 GGTTTAG
10087412 GGTTTA-
1 GGTTTAG
*
10087418 GCTTTAG
1 GGTTTAG
10087425 GGTTT-G
1 GGTTTAG
*
10087431 GGAATT--
1 GG-TTTAG
*
10087437 GGTTTAA
1 GGTTTAG
10087444 GGTTTAG
1 GGTTTAG
* *
10087451 GGATTAA
1 GGTTTAG
*
10087458 GATTATA-
1 GGTT-TAG
10087465 -GTTT-G
1 GGTTTAG
10087470 TGGTTTAG
1 -GGTTTAG
10087478 GG-TTAG
1 GGTTTAG
*
10087484 GGTTT-T
1 GGTTTAG
*
10087490 GGTTTGG
1 GGTTTAG
10087497 GGTTTA-
1 GGTTTAG
*
10087503 GGTTTAC
1 GGTTTAG
*
10087510 AGTTT-G
1 GGTTTAG
*
10087516 GGGTTAG
1 GGTTTAG
10087523 GGTTT--
1 GGTTTAG
10087528 GGTTTAG
1 GGTTTAG
* *
10087535 GCTTTAA
1 GGTTTAG
*
10087542 GGTTTAA
1 GGTTTAG
10087549 GGTTT-G
1 GGTTTAG
*
10087555 GGCTT--
1 GGTTTAG
10087560 GGTTTAG
1 GGTTTAG
10087567 GGTTTAG
1 GGTTTAG
10087574 GGTTTAG
1 GGTTTAG
** *
10087581 AATTAAG
1 GGTTTAG
10087588 GCG--TA-
1 G-GTTTAG
*
10087593 AGTTTAG
1 GGTTTAG
*
10087600 GGTTTGG
1 GGTTTAG
10087607 GGTTTAG
1 GGTTTAG
*
10087614 GATTTA-
1 GGTTTAG
*
10087620 GGATTAG
1 GGTTTAG
10087627 GG-TTA-
1 GGTTTAG
*
10087632 GGTTTAA
1 GGTTTAG
10087639 GGTTTAG
1 GGTTTAG
10087646 GGTTTAG
1 GGTTTAG
10087653 GG
1 GG
10087655 CTTCAATTTA
Statistics
Matches: 202, Mismatches: 40, Indels: 52
0.69 0.14 0.18
Matches are distributed among these distances:
4 1 0.00
5 19 0.09
6 53 0.26
7 126 0.62
8 3 0.01
ACGTcount: A:0.19, C:0.02, G:0.37, T:0.43
Consensus pattern (7 bp):
GGTTTAG
Found at i:10087924 original size:90 final size:90
Alignment explanation
Indices: 10087680--10087947 Score: 457
Period size: 89 Copynumber: 3.0 Consensus size: 90
10087670 TAAGGTTTGC
*
10087680 ATGGTGGTTTGTGGTACTTGGTTTGTATGGGGAATGCATGTAACAAAATAACTAAAATACCATTG
1 ATGGTGGTTTGTGGTACTTGGTTTGTGTGGGGAATGCATGTAACAAAATAACTAAAATACCATTG
10087745 ATAAACTACAATCTTTAATGCATGA
66 ATAAACTACAATCTTTAATGCATGA
10087770 ATGGTGGTTTGTGGT-CTTGGTTTGTGTGGGGAATGCATGTAACAAAATAACTAAAATACCATTG
1 ATGGTGGTTTGTGGTACTTGGTTTGTGTGGGGAATGCATGTAACAAAATAACTAAAATACCATTG
*
10087834 ATCAACTACAATCTTTAATGCATGA
66 ATAAACTACAATCTTTAATGCATGA
* *
10087859 ATGGTGGTTTGTGGTACTTGGTTTGTGTGGGGAATGCATATAACAAAATAACCAAAATACCATTG
1 ATGGTGGTTTGTGGTACTTGGTTTGTGTGGGGAATGCATGTAACAAAATAACTAAAATACCATTG
* * *
10087924 ATAAAAATGCAATCTTTAGTGCAT
66 AT-AAACTACAATCTTTAATGCAT
10087948 AAAATATGGA
Statistics
Matches: 168, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
89 87 0.52
90 64 0.38
91 17 0.10
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (90 bp):
ATGGTGGTTTGTGGTACTTGGTTTGTGTGGGGAATGCATGTAACAAAATAACTAAAATACCATTG
ATAAACTACAATCTTTAATGCATGA
Found at i:10092105 original size:5 final size:5
Alignment explanation
Indices: 10092095--10092122 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
10092085 AAATATTAAT
10092095 AAAGG AAAGG AAAGG AAAGG AAAGG AAA
1 AAAGG AAAGG AAAGG AAAGG AAAGG AAA
10092123 AAAAAGTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (5 bp):
AAAGG
Found at i:10092128 original size:15 final size:15
Alignment explanation
Indices: 10092095--10092128 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
10092085 AAATATTAAT
**
10092095 AAAGGAAAGGAAAGG
1 AAAGGAAAGGAAAAA
10092110 AAAGGAAAGGAAAAA
1 AAAGGAAAGGAAAAA
10092125 AAAG
1 AAAG
10092129 TTTTTTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (15 bp):
AAAGGAAAGGAAAAA
Found at i:10101049 original size:17 final size:18
Alignment explanation
Indices: 10101009--10101049 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
10100999 TAAATAGGAT
*
10101009 AATTTATTTATTGGTCAA
1 AATTTATTTATTGCTCAA
10101027 AA-TTATTTATT-CTCAA
1 AATTTATTTATTGCTCAA
10101043 AATTTAT
1 AATTTAT
10101050 ATAATTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 6 0.29
17 13 0.62
18 2 0.10
ACGTcount: A:0.37, C:0.07, G:0.05, T:0.51
Consensus pattern (18 bp):
AATTTATTTATTGCTCAA
Found at i:10101411 original size:13 final size:13
Alignment explanation
Indices: 10101393--10101417 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10101383 TAGTTCGATT
10101393 AGTCAATATTTAC
1 AGTCAATATTTAC
10101406 AGTCAATATTTA
1 AGTCAATATTTA
10101418 TATGTTTCGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (13 bp):
AGTCAATATTTAC
Found at i:10103772 original size:16 final size:17
Alignment explanation
Indices: 10103743--10103780 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
10103733 GTTTGGATAA
10103743 CAAA-AAAATAAAATGT
1 CAAAGAAAATAAAATGT
10103759 CAAAGAAAAT-AAATGT
1 CAAAGAAAATAAAATGT
*
10103775 AAAAGA
1 CAAAGA
10103781 CTTAGAGAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.68, C:0.05, G:0.11, T:0.16
Consensus pattern (17 bp):
CAAAGAAAATAAAATGT
Found at i:10106285 original size:233 final size:231
Alignment explanation
Indices: 10105850--10106313 Score: 775
Period size: 233 Copynumber: 2.0 Consensus size: 231
10105840 CCCACTACAT
* *
10105850 CCATGGACCCATAGAAATCCATTCCTTCCATAACTCTTAATCTTTCCTTAAACCTACTCATAGCC
1 CCATGGACCCATAGAAATCCATTCCTTCCATAACTCATAATCTTTCCTCAAACCTACTCATAGCC
* *
10105915 TGACTTGTTTTAGAACTCTCTAAAGGCACAGTTGTTGTTGCTTTTCTTTCTCTTTGTTTTATCTA
66 TGACTTATTTTAGAACTCTCTAAAGGCACAATTGTTGTTGCTTTTCTTTCTCTTTGTTTTATCTA
* *
10105980 CAACAGATAGTTAAATAGGCTCAGCTACCTTTTTGGCAAAGATAGGATTATCATAACTTTCGACA
131 CAACAGAGAGTTAAATAGGCTCAGATACCTTTTTGGCAAAGATAGGATTATCATAACTTTCGACA
*
10106045 ATCTCATAACTTGGTGCATAGGTTACTCCTAAGTAA
196 ATCTCATAACCTGGTGCATAGGTTACTCCTAAGTAA
* *
10106081 CCATGGACCCATAGAAATCCATTCCTTTCATAACTCATAATCTTTCCTCAAGCCTACTCATAGCC
1 CCATGGACCCATAGAAATCCATTCCTTCCATAACTCATAATCTTTCCTCAAACCTACTCATAGCC
* * *
10106146 TGACTTATTTTAGAACTCTTTAAAGGTACAATTGTTTGTTGTTTTTCTTTCTCCTTTGTTTTATC
66 TGACTTATTTTAGAACTCTCTAAAGGCACAATTG-TTGTTGCTTTTCTTTCT-CTTTGTTTTATC
* * *
10106211 TACAGCAGAGAGTTAAATAGGCTCAGATGCCTTTTTGGCAAAGATAGGATTATCATAACTTTGGA
129 TACAACAGAGAGTTAAATAGGCTCAGATACCTTTTTGGCAAAGATAGGATTATCATAACTTTCGA
10106276 CAATCTCATAACCTGGTGCATAGGTTACTCCTAAGTAA
194 CAATCTCATAACCTGGTGCATAGGTTACTCCTAAGTAA
10106314 TTGTACTTTG
Statistics
Matches: 216, Mismatches: 15, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
231 91 0.42
232 16 0.07
233 109 0.50
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (231 bp):
CCATGGACCCATAGAAATCCATTCCTTCCATAACTCATAATCTTTCCTCAAACCTACTCATAGCC
TGACTTATTTTAGAACTCTCTAAAGGCACAATTGTTGTTGCTTTTCTTTCTCTTTGTTTTATCTA
CAACAGAGAGTTAAATAGGCTCAGATACCTTTTTGGCAAAGATAGGATTATCATAACTTTCGACA
ATCTCATAACCTGGTGCATAGGTTACTCCTAAGTAA
Found at i:10106683 original size:13 final size:14
Alignment explanation
Indices: 10106667--10106695 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
10106657 CAAATGCATG
10106667 AAAAAAGAAAA-AA
1 AAAAAAGAAAAGAA
10106680 AAAAAAGAAAAGAA
1 AAAAAAGAAAAGAA
10106694 AA
1 AA
10106696 GCAAATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (14 bp):
AAAAAAGAAAAGAA
Found at i:10109870 original size:23 final size:23
Alignment explanation
Indices: 10109814--10109871 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
10109804 TAAAGGATAA
10109814 AAATTATTTTTTAAATTTTTATT
1 AAATTATTTTTTAAATTTTTATT
** * *
10109837 AAAAGAATTTTTCAATTTTT-TT
1 AAATTATTTTTTAAATTTTTATT
10109859 AGAATTATTTTTT
1 A-AATTATTTTTT
10109872 TTTGAACTTT
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
22 3 0.11
23 24 0.89
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.60
Consensus pattern (23 bp):
AAATTATTTTTTAAATTTTTATT
Found at i:10109960 original size:5 final size:5
Alignment explanation
Indices: 10109952--10110010 Score: 61
Period size: 5 Copynumber: 11.8 Consensus size: 5
10109942 AAAAAACCCA
10109952 AAAAT AAAAT AAAGATT AAATAT AAAAT AAAA- AAAAT -AAA- AAAAT
1 AAAAT AAAAT AAA-A-T AAA-AT AAAAT AAAAT AAAAT AAAAT AAAAT
*
10109997 AAAAA AAAAT AAAA
1 AAAAT AAAAT AAAA
10110011 AAAGGAAAAC
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
4 10 0.22
5 26 0.57
6 5 0.11
7 5 0.11
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:10109992 original size:8 final size:9
Alignment explanation
Indices: 10109951--10110013 Score: 65
Period size: 9 Copynumber: 6.4 Consensus size: 9
10109941 AAAAAAACCC
10109951 AAAAATAAA
1 AAAAATAAA
10109960 ATAAAGATTAAA
1 A-AAA-A-TAAA
10109972 TATAAAATAAA
1 -A-AAAATAAA
10109983 AAAAAT-AA
1 AAAAATAAA
10109991 AAAAATAAAA
1 AAAAAT-AAA
10110001 AAAAATAAA
1 AAAAATAAA
10110010 AAAA
1 AAAA
10110014 GGAAAACCTG
Statistics
Matches: 48, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
8 8 0.17
9 13 0.27
10 12 0.25
11 5 0.10
12 5 0.10
13 5 0.10
ACGTcount: A:0.83, C:0.00, G:0.02, T:0.16
Consensus pattern (9 bp):
AAAAATAAA
Found at i:10110019 original size:18 final size:18
Alignment explanation
Indices: 10109980--10110019 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
10109970 AATATAAAAT
*
10109980 AAAAAAAATAAAAAAATA
1 AAAAAAAATAAAAAAAGA
10109998 AAAAAAAATAAAAAAAGGA
1 AAAAAAAATAAAAAAA-GA
10110017 AAA
1 AAA
10110020 CCTGCAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.88, C:0.00, G:0.05, T:0.07
Consensus pattern (18 bp):
AAAAAAAATAAAAAAAGA
Found at i:10110311 original size:12 final size:12
Alignment explanation
Indices: 10110274--10110324 Score: 66
Period size: 12 Copynumber: 4.1 Consensus size: 12
10110264 GTCCAAAATT
10110274 TTAGTAATCATA
1 TTAGTAATCATA
* *
10110286 TTAATTTGATCATA
1 TT-A-GTAATCATA
10110300 TTAGTAATCATA
1 TTAGTAATCATA
10110312 TTAGTAATCATA
1 TTAGTAATCATA
10110324 T
1 T
10110325 CTCATCCACA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
12 22 0.67
13 2 0.06
14 9 0.27
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (12 bp):
TTAGTAATCATA
Found at i:10110448 original size:13 final size:14
Alignment explanation
Indices: 10110406--10110451 Score: 51
Period size: 13 Copynumber: 3.4 Consensus size: 14
10110396 AAAAATAAAA
*
10110406 AATAATAATAATAGT
1 AATAATGATAATA-T
*
10110421 AAT-ATGATAAGAT
1 AATAATGATAATAT
10110434 AATAATG-TAATAT
1 AATAATGATAATAT
10110447 AATAA
1 AATAA
10110452 CAATTAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
13 14 0.52
14 10 0.37
15 3 0.11
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.33
Consensus pattern (14 bp):
AATAATGATAATAT
Found at i:10112913 original size:15 final size:16
Alignment explanation
Indices: 10112888--10112921 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
10112878 TTAGTAAAGG
10112888 AAGGAAAAGGAAACGA
1 AAGGAAAAGGAAACGA
*
10112904 AAGG-AAAGGAAATGA
1 AAGGAAAAGGAAACGA
10112919 AAG
1 AAG
10112922 TTTTTTAGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.62, C:0.03, G:0.32, T:0.03
Consensus pattern (16 bp):
AAGGAAAAGGAAACGA
Found at i:10114142 original size:510 final size:517
Alignment explanation
Indices: 10113487--10114516 Score: 1200
Period size: 510 Copynumber: 2.0 Consensus size: 517
10113477 AAAGTTGTTA
* * * ** *
10113487 TGAAAATTTACTTTATTTGCAACCATTTTTCGATGTCGTTGCTTAAGTTATTTTTTAATATTTTA
1 TGAAAATCTACTTTATTTGCAACAATTATTAAATGTCGTTGCTTAAGTTATCTTTTAATATTTTA
* * * * * *
10113552 TATAATGAAAAAAAAATTATTACGAAAATTTTTATTCTATTTGTAATGATAAAACATTATTGTTG
66 TACAATGAAAAAAAAATTATTACGAAAAATTTTAATCTATTTATAATGATAAAAAATTATTATTG
** * * *
10113617 CGAAATTTGTTTTATTTGCAACAATTT-TTCAATGTTGTTGCTCAAGTTA-TTTTTTAATA-TTT
131 AAAAACTTATTTTATTTGCAACAATTTCTT-AATGTCGTTGCTCAAGTTATTTTTTTAATATTTT
* *
10113679 ATATAATGACAAAAAAATTGTTATGAAAA-TTTTTATCATATTTGTAACGATAA-AAGATTATTG
195 ATACAATGAC-AAAAAA--GTTA-CAAAATTTTTTATCATATTTGTAACGATAAGAA-ATTATTG
* * ** * ** * *
10113742 TT-CGAAAA-CTTGTTTTATTTACAATGATTTTTCAATGTTGTTGCTTAATTT-ATTTCTTTAAT
255 TTGCAAAAACCTT-TTTTATATACAACAATTTTTCAATATCATTACTTAATTTAATTT-TTAAAT
* * * *
10113804 ATTTT-ATACAATGACAAAAAAATTATTTCAAAA-AATTTTATTATATTTGTAATAATAAAAAAT
318 ATTTTAATACAATGACAAAAAAATGATTACAAAATAATTTTATCATATTTATAATAATAAAAAAT
* * *
10113867 TATTTTTGTAAAAATTTATTTTATTTG-AAGCAATTTTTCAATACT-GTTACTTAA-T-TTTTCT
383 TATTGTTGCAAAAACTTATTTTATTTGTAA-CAATTTTTCAAT-CTCGTTACTTAATTATTTTCT
* * **
10113928 AATA-TTTTATACAA-CAACAAAAA-ATT-TAAAAATTTTTATCCTATTTGTAATGATAAAAAAT
446 AATATTTTTATACAAGCAA-AAAAATATTATAAAAACTTTTATCATATTTGTAACAATAAAAAAT
10113989 TATTATTT
510 TATTATTT
* * *
10113997 TGAAAATCTATTTTATTTTCAACAATTATTAAATGTCGTTGCTTAATTTA-CTTTTAATATTTTA
1 TGAAAATCTACTTTATTTGCAACAATTATTAAATGTCGTTGCTTAAGTTATCTTTTAATATTTTA
** * * *
10114061 TACAATGATTAAAAAGTTGTTA-TAAAAATTTTAATCATATTTATAATGATAAAAAATTATTATT
66 TACAATGAAAAAAAAATTATTACGAAAAATTTTAATC-TATTTATAATGATAAAAAATTATTATT
* *
10114125 GTAAAAACTTATTTTATTTGCAACAATTTCTTAATGTCGTTGCTTAATTTATTTTTTTAATATTT
130 G-AAAAACTTATTTTATTTGCAACAATTTCTTAATGTCGTTGCTCAAGTTATTTTTTTAATATTT
* *
10114190 TATACAATGACGAAAAAGTTACAAAATTTTTTATCATATTTGTAACGATAAGAAATTATTTTTGC
194 TATACAATGACAAAAAAGTTACAAAATTTTTTATCATATTTGTAACGATAAGAAATTATTGTTGC
*
10114255 AAAAACCTTTTTTATATGCAACAATTTTTCAATATCATTACTTAATTTAATTTTTAAATATTTTA
259 AAAAACCTTTTTTATATACAACAATTTTTCAATATCATTACTTAATTTAATTTTTAAATATTTTA
** * ** *
10114320 ATACAATGACAAAAATGTGGTTACAAAATTTTTTTATCATATTTATAATGATAAAAAATTATTGT
324 ATACAATGACAAAAAAATGATTACAAAATAATTTTATCATATTTATAATAATAAAAAATTATTGT
* * *
10114385 TGCAAAAACTTATTTTATTTGTAATAATTTTTCAATGTCGTTACTTAATTTATTTTTTAATATTT
389 TGCAAAAACTTATTTTATTTGTAACAATTTTTCAATCTCGTTACTTAA-TTATTTTCTAATATTT
* *
10114450 TTATACAATGGCAAAAAAATTATTATGAAAACTTTTATCATATTTGTAACAATAAAAAATTGTTA
453 TTATACAA--GCAAAAAAA-TATTATAAAAACTTTTATCATATTTGTAACAATAAAAAATTATTA
10114515 TT
515 TT
10114517 GCAAAATGGT
Statistics
Matches: 433, Mismatches: 63, Indels: 37
0.81 0.12 0.07
Matches are distributed among these distances:
508 15 0.03
509 91 0.21
510 129 0.30
511 48 0.11
512 81 0.19
513 2 0.00
514 1 0.00
515 9 0.02
516 10 0.02
518 5 0.01
519 3 0.01
520 3 0.01
521 36 0.08
ACGTcount: A:0.38, C:0.08, G:0.07, T:0.47
Consensus pattern (517 bp):
TGAAAATCTACTTTATTTGCAACAATTATTAAATGTCGTTGCTTAAGTTATCTTTTAATATTTTA
TACAATGAAAAAAAAATTATTACGAAAAATTTTAATCTATTTATAATGATAAAAAATTATTATTG
AAAAACTTATTTTATTTGCAACAATTTCTTAATGTCGTTGCTCAAGTTATTTTTTTAATATTTTA
TACAATGACAAAAAAGTTACAAAATTTTTTATCATATTTGTAACGATAAGAAATTATTGTTGCAA
AAACCTTTTTTATATACAACAATTTTTCAATATCATTACTTAATTTAATTTTTAAATATTTTAAT
ACAATGACAAAAAAATGATTACAAAATAATTTTATCATATTTATAATAATAAAAAATTATTGTTG
CAAAAACTTATTTTATTTGTAACAATTTTTCAATCTCGTTACTTAATTATTTTCTAATATTTTTA
TACAAGCAAAAAAATATTATAAAAACTTTTATCATATTTGTAACAATAAAAAATTATTATTT
Found at i:10114193 original size:131 final size:129
Alignment explanation
Indices: 10113232--10114522 Score: 1125
Period size: 128 Copynumber: 10.0 Consensus size: 129
10113222 AAGTTGTAGC
* * * * * *
10113232 AAAAACTTGTATTATTTGTAACAATTTTCCAAT-TCGTTGTTTAAGTTA-TTTTTAATATTTTAT
1 AAAAACTTATTTTATTTGCAACAATTTTTCAATGTCGTTGCTTAATTTATTTTTTAATATTTTAT
*** * * * *
10113295 ACACCAACAAAAAAA--GTTATAAAAAATTTGATCATATTTGCAATGACAACAAAAAGTT-TT-T
66 ACAATGACAAAAAAATTGTTATAAAAATTTTTATCATATTTGTAATGA-TA-AAAAA-TTATTAT
10113356 GTG
128 -TG
* * * * * * *
10113359 -TAAA-TTTTTTTATTTACAACGATTTTTTGAA-GTCATTGCTTAAGTTATTTTTTAATATTTTA
1 AAAAACTTATTTTATTTGCAAC-AATTTTTCAATGTCGTTGCTTAATTTATTTTTTAATATTTTA
* * * * * * * * *
10113421 TGCAATGACAAATAAAGTTGTTACAAAAAATTTGATAATATTTGTAATGGCAATATAAAGTTGTT
65 TACAATGACAAA-AAAATTGTTATAAAAATTTTTATCATATTTGTAAT-G--ATAAAAAATTATT
10113486 A-TG
126 ATTG
* * * * *
10113489 -AAAATTTACTTTATTTGCAACCATTTTTCGATGTCGTTGCTTAAGTTATTTTTTAATATTTTAT
1 AAAAACTTATTTTATTTGCAACAATTTTTCAATGTCGTTGCTTAATTTATTTTTTAATATTTTAT
* * * ** * *
10113553 ATAATGAAAAAAAAATTATTACGAAAATTTTTATTC-TATTTGTAATGATAAAACATTATTGTTG
66 ACAATGACAAAAAAATTGTTATAAAAATTTTTA-TCATATTTGTAATGATAAAAAATTATTATTG
** * * * * *
10113617 CGAAATTTGTTTTATTTGCAACAATTTTTCAATGTTGTTGCTCAAGTTATTTTTTAATA-TTTAT
1 AAAAACTTATTTTATTTGCAACAATTTTTCAATGTCGTTGCTTAATTTATTTTTTAATATTTTAT
* * * * *
10113681 ATAATGACAAAAAAATTGTTATGAAAATTTTTATCATATTTGTAACGATAAAAGATTATTGTTCG
66 ACAATGACAAAAAAATTGTTATAAAAATTTTTATCATATTTGTAATGATAAAAAATTATTATT-G
* * ** *
10113746 -AAAACTTGTTTTATTTACAATGATTTTTCAATGTTGTTGCTTAATTTATTTCTTTAATATTTTA
1 AAAAACTTATTTTATTTGCAACAATTTTTCAATGTCGTTGCTTAATTTATTT-TTTAATATTTTA
* * * * *
10113810 TACAATGACAAAAAAATTATT-TCAAAAAATTTTATTATATTTGTAATAATAAAAAATTATTTTT
65 TACAATGACAAAAAAATTGTTAT-AAAAATTTTTATCATATTTGTAATGATAAAAAATTATTATT
10113874 G
129 G
* * * *
10113875 TAAAAATTTATTTTATTTG-AAGCAATTTTTCAAT-ACTGTTACTTAA--T-TTTTCTAATATTT
1 -AAAAACTTATTTTATTTGCAA-CAATTTTTCAATGTC-GTTGCTTAATTTATTTTTTAATATTT
** *
10113935 TATACAACAAC-AAAAAA---TT-TAAAAATTTTTATCCTATTTGTAATGATAAAAAATTATTAT
63 TATACAATGACAAAAAAATTGTTATAAAAATTTTTATCATATTTGTAATGATAAAAAATTATTA-
10113995 TTTG
127 -TTG
* * * * *
10113999 AAAATC-TATTTTATTTTCAACAATTATTAAATGTCGTTGCTTAATTTA-CTTTTAATATTTTAT
1 AAAAACTTATTTTATTTGCAACAATTTTTCAATGTCGTTGCTTAATTTATTTTTTAATATTTTAT
** * * *
10114062 ACAATGATTAAAAAGTTGTTATAAAAATTTTAATCATATTTATAATGATAAAAAATTATTATTG
66 ACAATGACAAAAAAATTGTTATAAAAATTTTTATCATATTTGTAATGATAAAAAATTATTATTG
10114126 TAAAAACTTATTTTATTTGCAACAATTTCTT-AATGTCGTTGCTTAATTTATTTTTTTAATATTT
1 -AAAAACTTATTTTATTTGCAACAATTT-TTCAATGTCGTTGCTTAATTTA-TTTTTTAATATTT
* * * * * *
10114190 TATACAATGAC-GAAAAA--GTTACAAAATTTTTTATCATATTTGTAACGATAAGAAATTATTTT
63 TATACAATGACAAAAAAATTGTTATAAAAATTTTTATCATATTTGTAATGATAAAAAATTATTAT
10114252 TG
128 TG
* * * * *
10114254 CAAAAACCTT-TTTTATATGCAACAATTTTTCAATATCATTACTTAATTTAATTTTTAAATATTT
1 -AAAAA-CTTATTTTATTTGCAACAATTTTTCAATGTCGTTGCTTAATTT-ATTTTTTAATATTT
** * * * *
10114318 TAATACAATGACAAAAATGTGGTTACAAAATTTTTTTATCATATTTATAATGATAAAAAATTATT
63 T-ATACAATGACAAAAAAATTGTTATAAAA-ATTTTTATCATATTTGTAATGATAAAAAATTATT
*
10114383 GTTG
126 ATTG
* * *
10114387 CAAAAACTTATTTTATTTGTAATAATTTTTCAATGTCGTTACTTAATTTATTTTTTAATATTTTT
1 -AAAAACTTATTTTATTTGCAACAATTTTTCAATGTCGTTGCTTAATTTATTTTTTAATA-TTTT
* * * * ** *
10114452 ATACAATGGCAAAAAAATTATTATGAAAACTTTTATCATATTTGTAACAATAAAAAATTGTTATT
64 ATACAATGACAAAAAAATTGTTATAAAAATTTTTATCATATTTGTAATGATAAAAAATTATTATT
10114517 G
129 G
*
10114518 CAAAA
1 AAAAA
10114523 TGGTATAACC
Statistics
Matches: 960, Mismatches: 152, Indels: 101
0.79 0.13 0.08
Matches are distributed among these distances:
122 62 0.06
123 10 0.01
124 22 0.02
125 17 0.02
126 29 0.03
127 56 0.06
128 209 0.22
129 151 0.16
130 138 0.14
131 143 0.15
132 44 0.05
133 79 0.08
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (129 bp):
AAAAACTTATTTTATTTGCAACAATTTTTCAATGTCGTTGCTTAATTTATTTTTTAATATTTTAT
ACAATGACAAAAAAATTGTTATAAAAATTTTTATCATATTTGTAATGATAAAAAATTATTATTG
Found at i:10115503 original size:17 final size:17
Alignment explanation
Indices: 10115481--10115515 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
10115471 AAATATTTAT
*
10115481 TATTAAATAATTAAAAA
1 TATTAAATAAATAAAAA
*
10115498 TATTAATTAAATAAAAA
1 TATTAAATAAATAAAAA
10115515 T
1 T
10115516 TAATTTTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
TATTAAATAAATAAAAA
Found at i:10115516 original size:24 final size:24
Alignment explanation
Indices: 10115470--10115518 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
10115460 TTTTATATTG
* *
10115470 AAAATATTTATTATTAAATAATTA
1 AAAATATTAATTAATAAATAATTA
10115494 AAAATATTAATTAAATAAA-AATTA
1 AAAATATTAATT-AATAAATAATTA
10115518 A
1 A
10115519 TTTTTATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (24 bp):
AAAATATTAATTAATAAATAATTA
Found at i:10121446 original size:19 final size:19
Alignment explanation
Indices: 10121422--10121458 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
10121412 AGAATTTAGG
10121422 TTTAAGG-TTTGAGGTTTAA
1 TTTAAGGCTTT-AGGTTTAA
10121441 TTTAAGGCTTTAGGTTTA
1 TTTAAGGCTTTAGGTTTA
10121459 GGATTAGGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.24, C:0.03, G:0.24, T:0.49
Consensus pattern (19 bp):
TTTAAGGCTTTAGGTTTAA
Found at i:10125797 original size:16 final size:16
Alignment explanation
Indices: 10125776--10125808 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
10125766 TCTTGAGTCC
10125776 CAAAAAAAAAAAAAAA
1 CAAAAAAAAAAAAAAA
*
10125792 CAAAAAACAAAAAAAA
1 CAAAAAAAAAAAAAAA
10125808 C
1 C
10125809 CTTGACGACA
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:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (16 bp):
CAAAAAAAAAAAAAAA
Found at i:10126954 original size:58 final size:58
Alignment explanation
Indices: 10126892--10127201 Score: 378
Period size: 58 Copynumber: 5.3 Consensus size: 58
10126882 TTGTGCAGGA
* * ***
10126892 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAACTTTAATTCCGAA-G
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTT-ATTTTTAAGG
* * **
10126950 AAAATTGATACTTTCAACTTTTTCTCAAAACTATTTTTTAAAAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT-TGAAAATTTATTTTTAAGG
10127009 AAAAATTGATACTTTCAACTTTTCCTCAAAAATTTATTTTTTTGAAAATTTATTTTTAAGG
1 -AAAATTGATACTTTCAACTTTTCCTCAAAAA--TATTTTTTTGAAAATTTATTTTTAAGG
* * * *
10127070 AAAATTGATACTTTCAACTTTTCC-CTAAAAATA-TTTTTGGAAACTTTGATTTTCGAA-A
1 AAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTTGAAAATTT-ATTTT-TAAGG
* *
10127128 AAAATTGATACTTTCAACTTTTCCTCAAAACT-TTTTTTTGAAATTTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTATTTTTAAGG
10127185 AAAATTGATACTTTCAA
1 AAAATTGATACTTTCAA
10127202 ATTGATACTT
Statistics
Matches: 219, Mismatches: 22, Indels: 23
0.83 0.08 0.09
Matches are distributed among these distances:
56 2 0.01
57 34 0.16
58 89 0.41
59 11 0.05
60 58 0.26
61 17 0.08
62 8 0.04
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.44
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTATTTTTAAGG
Found at i:10127072 original size:17 final size:16
Alignment explanation
Indices: 10127037--10127075 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
10127027 CTTTTCCTCA
**
10127037 AAAATTTATTTTTTTG
1 AAAATTTATTTTTAGG
10127053 AAAATTTATTTTTAAGG
1 AAAATTTATTTTT-AGG
10127070 AAAATT
1 AAAATT
10127076 GATACTTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (16 bp):
AAAATTTATTTTTAGG
Found at i:10127204 original size:71 final size:71
Alignment explanation
Indices: 10127129--10127273 Score: 222
Period size: 71 Copynumber: 2.0 Consensus size: 71
10127119 TTTTCGAAAA
* * *
10127129 AAATTGATACTTTCAACTTTTC-CTCAAAACTTTTTTTTG-AAATTTTATTTTTAAGGAAAATTG
1 AAATTGATACTTTCAACTTTTCTC-CAAAAATATTTTTTGAAAAATTTATTTTTAAGG-AAATTG
10127192 ATACTTTC
64 ATACTTTC
10127200 AAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTGAAAAAATTTATTTTTAAGGAAATTGA
1 AAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTG-AAAAATTTATTTTTAAGGAAATTGA
10127265 TACTTTC
65 TACTTTC
10127272 AA
1 AA
10127274 CTTTTCCTCA
Statistics
Matches: 68, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
71 35 0.51
72 17 0.25
73 16 0.24
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.46
Consensus pattern (71 bp):
AAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTGAAAAATTTATTTTTAAGGAAATTGAT
ACTTTC
Found at i:10127205 original size:14 final size:14
Alignment explanation
Indices: 10127186--10127215 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
10127176 TTTTTAAGGA
10127186 AAATTGATACTTTC
1 AAATTGATACTTTC
10127200 AAATTGATACTTTC
1 AAATTGATACTTTC
10127214 AA
1 AA
10127216 CTTTTCTCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.40, C:0.13, G:0.07, T:0.40
Consensus pattern (14 bp):
AAATTGATACTTTC
Done.