Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, 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: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 139 of 190
Found at i:22487081 original size:21 final size:21
Alignment explanation
Indices: 22487057--22487114 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
22487047 AAATCAATTG
*
22487057 GTAATAATTAAAATTTCATTA
1 GTAATAGTTAAAATTTCATTA
* *
22487078 GTAATAGTTAAAATTCCATTG
1 GTAATAGTTAAAATTTCATTA
*
22487099 GTAATAGTTAATATTT
1 GTAATAGTTAAAATTT
22487115 TCGTCGGTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.43
Consensus pattern (21 bp):
GTAATAGTTAAAATTTCATTA
Found at i:22497934 original size:237 final size:228
Alignment explanation
Indices: 22497481--22497944 Score: 784
Period size: 237 Copynumber: 2.0 Consensus size: 228
22497471 TCCCCCTTAA
**
22497481 CTAATACAGTCTTCATTCTAATCCAACACTTATAATCTGACATACATATATGTTAAAGCATATAT
1 CTAATACAGTCTTCATTCTAATCCAACACTTATAATCCAACATACATATATGTTAAAGCATATAT
*
22497546 ATCAATTAGGCATATACATATATATATGTATATTAAAGCAAATTTGCCCACAAAATATTTCTCTC
66 ATCAATTAGACATATACATATATATATGTATATTAAAGCAAATTTGCCCACAAAATATTTCTCTC
22497611 CTTTTTTATAGCAAAAAGGGCATCAATTCAAGAGTAAATAATATCATGCATAAGGAATCCATGTA
131 CTTTTTTATAGCAAAAAGGGCATCAATTCAAGAGTAAATAATATCATGCATAAGGAATCCATGTA
22497676 TTCATGTGTAATAAACACAATGAAGTTCACATT
196 TTCATGTGTAATAAACACAATGAAGTTCACATT
* *
22497709 CTAATACAGTCTTCATTCTAATCCAGCATTTATAATCCAACATACATATATGTTAAAGCATATAT
1 CTAATACAGTCTTCATTCTAATCCAACACTTATAATCCAACATACATATATGTTAAAGCATATAT
*
22497774 ATTAATTAAGCATATACATATACATATATATATGTATATTAAAGCAAATTTGCCCACAAAATATT
66 ATCAATT-AG-----ACATATACATATATATATGTATATTAAAGCAAATTTGCCCACAAAATATT
22497839 TCTCTCCCTTTTTATCATAGCAAAAAGGGCATCAATTCAAGAGTAAATAATATCATGCATAAGGA
125 TCTCT-CCTTTTT-T-ATAGCAAAAAGGGCATCAATTCAAGAGTAAATAATATCATGCATAAGGA
*
22497904 ATCCATGTATTCATGTGTAATAAGCACAATGAAGTTCACAT
187 ATCCATGTATTCATGTGTAATAAACACAATGAAGTTCACAT
22497945 ACATGCATCC
Statistics
Matches: 220, Mismatches: 7, Indels: 9
0.93 0.03 0.04
Matches are distributed among these distances:
228 67 0.30
229 2 0.01
234 54 0.25
235 7 0.03
236 1 0.00
237 89 0.40
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (228 bp):
CTAATACAGTCTTCATTCTAATCCAACACTTATAATCCAACATACATATATGTTAAAGCATATAT
ATCAATTAGACATATACATATATATATGTATATTAAAGCAAATTTGCCCACAAAATATTTCTCTC
CTTTTTTATAGCAAAAAGGGCATCAATTCAAGAGTAAATAATATCATGCATAAGGAATCCATGTA
TTCATGTGTAATAAACACAATGAAGTTCACATT
Found at i:22519268 original size:56 final size:56
Alignment explanation
Indices: 22519151--22519261 Score: 188
Period size: 56 Copynumber: 2.0 Consensus size: 56
22519141 TTTCACCGTT
*
22519151 AATA-TATCTCTTATCGATATAGACCCATACCGATGGATTTTTAACTATCAAAATA
1 AATAGTATCTCTTATCGATATAGACCCATACCAATGGATTTTTAACTATCAAAATA
* *
22519206 AATAGTATCTCTTGTTGATATAGACCCATACCAATGGATTTTTAACTATCAAAATA
1 AATAGTATCTCTTATCGATATAGACCCATACCAATGGATTTTTAACTATCAAAATA
22519262 GGTAGTAGAG
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
55 4 0.08
56 48 0.92
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (56 bp):
AATAGTATCTCTTATCGATATAGACCCATACCAATGGATTTTTAACTATCAAAATA
Found at i:22519345 original size:15 final size:15
Alignment explanation
Indices: 22519325--22519358 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
22519315 AAATATTAAT
22519325 AAAGGAAAGGAAAAA
1 AAAGGAAAGGAAAAA
* *
22519340 AAAGGAATGGAAAAG
1 AAAGGAAAGGAAAAA
22519355 AAAG
1 AAAG
22519359 TTTTTTAAAG
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:0.29, T:0.03
Consensus pattern (15 bp):
AAAGGAAAGGAAAAA
Found at i:22520078 original size:9 final size:10
Alignment explanation
Indices: 22520045--22520079 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
22520035 GGGGGTTTTG
22520045 TTTCCTTTAC
1 TTTCCTTTAC
*
22520055 ATTCCTTTAC
1 TTTCCTTTAC
22520065 TTTCCTTT-C
1 TTTCCTTTAC
22520074 TTTCCT
1 TTTCCT
22520080 CTCCCCTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 7 0.30
10 16 0.70
ACGTcount: A:0.09, C:0.31, G:0.00, T:0.60
Consensus pattern (10 bp):
TTTCCTTTAC
Found at i:22521260 original size:24 final size:25
Alignment explanation
Indices: 22521214--22521262 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
22521204 CACCCCTAGT
*
22521214 AAAATCCAGTTGATGCTATTGCCAA
1 AAAATCCAGTTAATGCTATTGCCAA
*
22521239 AAAATTCAGTTAATGCTA-TGCCAA
1 AAAATCCAGTTAATGCTATTGCCAA
22521263 GTCAACAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 6 0.27
25 16 0.73
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (25 bp):
AAAATCCAGTTAATGCTATTGCCAA
Found at i:22534011 original size:2 final size:2
Alignment explanation
Indices: 22534004--22534035 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
22533994 TTTTGTTTTC
22534004 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22534036 TGCAAAAGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22536058 original size:28 final size:26
Alignment explanation
Indices: 22536025--22536098 Score: 87
Period size: 26 Copynumber: 2.8 Consensus size: 26
22536015 ATTAATTAAA
*
22536025 ATTAATATATTTTTATTGAAAAAAATAT
1 ATTAATATATATTTA-T-AAAAAAATAT
*
22536053 ATTAATATATATTTATAAAAAATTAT
1 ATTAATATATATTTATAAAAAAATAT
* *
22536079 ATAAATATATA-ATATAAAAA
1 ATTAATATATATTTATAAAAA
22536099 TAAAAATTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
25 8 0.19
26 19 0.45
27 1 0.02
28 14 0.33
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (26 bp):
ATTAATATATATTTATAAAAAAATAT
Found at i:22536114 original size:6 final size:6
Alignment explanation
Indices: 22536105--22536134 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
22536095 AAAATAAAAA
22536105 TTATTT TTATTT TTATTT TTATTT TT-TTT T
1 TTATTT TTATTT TTATTT TTATTT TTATTT T
22536135 AAAATTATAG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.17
6 20 0.83
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (6 bp):
TTATTT
Found at i:22536913 original size:27 final size:27
Alignment explanation
Indices: 22536875--22536927 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
22536865 AAGCTCTATT
*
22536875 ATAATAATAATAGTTATTATTATTATA
1 ATAATAATAATAATTATTATTATTATA
22536902 ATAATAATAATAATTATTATTATTAT
1 ATAATAATAATAATTATTATTATTAT
22536928 TATATTATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (27 bp):
ATAATAATAATAATTATTATTATTATA
Found at i:22536920 original size:3 final size:3
Alignment explanation
Indices: 22536888--22536941 Score: 56
Period size: 3 Copynumber: 18.3 Consensus size: 3
22536878 ATAATAATAG
* * * * *
22536888 TTA TTA TTA TTA TAA TAA TAA TAA TAA TTA TTA TTA TTA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
22536935 TTA TTA T
1 TTA TTA T
22536942 AAAGGAGCGT
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 46 0.96
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (3 bp):
TTA
Found at i:22540212 original size:14 final size:15
Alignment explanation
Indices: 22540190--22540224 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
22540180 CACATTTTTT
22540190 TTAAAAAAATCAAAA
1 TTAAAAAAATCAAAA
*
22540205 TTAAAAAAATCAAAT
1 TTAAAAAAATCAAAA
22540220 TTAAA
1 TTAAA
22540225 TATTTATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
TTAAAAAAATCAAAA
Found at i:22544699 original size:19 final size:20
Alignment explanation
Indices: 22544675--22544725 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
22544665 TCAAAAGTTT
22544675 TTTTTTTTATTTTT-TAAAC
1 TTTTTTTTATTTTTCTAAAC
**
22544694 TTTTTTAGATTTTTCTAAAC
1 TTTTTTTTATTTTTCTAAAC
22544714 TTTTTTTT-TTTT
1 TTTTTTTTATTTT
22544726 GGAAATTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 16 0.59
20 11 0.41
ACGTcount: A:0.18, C:0.06, G:0.02, T:0.75
Consensus pattern (20 bp):
TTTTTTTTATTTTTCTAAAC
Found at i:22544823 original size:46 final size:48
Alignment explanation
Indices: 22544746--22544835 Score: 112
Period size: 46 Copynumber: 1.9 Consensus size: 48
22544736 TGAATTCTTG
*
22544746 AAAAACTCCTCTCATTAAAAGCTTTACAACTTTT-AAAA-ATAAATCT
1 AAAAACTCCTCTCATTAAAAGCTTCACAACTTTTGAAAACATAAATCT
* * ** *
22544792 AAAAGCTCTTCTCATTAAACTCTTCATAACTTTTGAAAACATAA
1 AAAAACTCCTCTCATTAAAAGCTTCACAACTTTTGAAAACATAA
22544836 TACAATAACT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
46 28 0.78
47 4 0.11
48 4 0.11
ACGTcount: A:0.43, C:0.20, G:0.03, T:0.33
Consensus pattern (48 bp):
AAAAACTCCTCTCATTAAAAGCTTCACAACTTTTGAAAACATAAATCT
Found at i:22552223 original size:15 final size:15
Alignment explanation
Indices: 22552205--22552235 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
22552195 TTTTTTAAGA
22552205 AAATCAAAATTAAAT
1 AAATCAAAATTAAAT
*
22552220 AAATCAAATTTAAAT
1 AAATCAAAATTAAAT
22552235 A
1 A
22552236 TTAATTAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (15 bp):
AAATCAAAATTAAAT
Found at i:22554549 original size:16 final size:16
Alignment explanation
Indices: 22554482--22554549 Score: 50
Period size: 16 Copynumber: 4.2 Consensus size: 16
22554472 ATATGCATGT
* *
22554482 TTTAAATTCAAATTTG
1 TTTAAATTAAAATTTA
*
22554498 TTGAAATATAAAATATT-
1 TTTAAAT-TAAAAT-TTA
* * *
22554515 TGTAAAATAAAA-ATA
1 TTTAAATTAAAATTTA
22554530 TTTAAATTAAAATTTA
1 TTTAAATTAAAATTTA
22554546 TTTA
1 TTTA
22554550 CATAATGATA
Statistics
Matches: 39, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
14 1 0.03
15 10 0.26
16 17 0.44
17 9 0.23
18 2 0.05
ACGTcount: A:0.50, C:0.01, G:0.04, T:0.44
Consensus pattern (16 bp):
TTTAAATTAAAATTTA
Found at i:22566248 original size:43 final size:43
Alignment explanation
Indices: 22566157--22566250 Score: 116
Period size: 43 Copynumber: 2.2 Consensus size: 43
22566147 TTTCAAGAAT
* *
22566157 ATTTTAAAATTTCAAAAGTCGTGGAACCTCTGCTTAGAGGAGC
1 ATTTTAAAATTTCAAAAGTCGTGGAACCTCTACTTAGAGGAAC
* * * * *
22566200 ATTTTAAATTTTTAAAAGTTGTGGAGCCTCTACTTAGATGAAC
1 ATTTTAAAATTTCAAAAGTCGTGGAACCTCTACTTAGAGGAAC
*
22566243 TTTTTAAA
1 ATTTTAAA
22566251 GTTGTTGAGT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (43 bp):
ATTTTAAAATTTCAAAAGTCGTGGAACCTCTACTTAGAGGAAC
Found at i:22566255 original size:34 final size:35
Alignment explanation
Indices: 22566208--22566276 Score: 95
Period size: 34 Copynumber: 2.0 Consensus size: 35
22566198 GCATTTTAAA
*
22566208 TTTTTAAAAGTTGTGGAGCCTCTACTTAGATGAAC
1 TTTTTAAAAGTTGTGGAGCCTCTACTTAGAGGAAC
* * *
22566243 TTTTT-AAAGTTGTTGAGTCTTTACTTAGAGGAAC
1 TTTTTAAAAGTTGTGGAGCCTCTACTTAGAGGAAC
22566277 ATTCATTATC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
34 25 0.83
35 5 0.17
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.41
Consensus pattern (35 bp):
TTTTTAAAAGTTGTGGAGCCTCTACTTAGAGGAAC
Found at i:22566879 original size:114 final size:113
Alignment explanation
Indices: 22566354--22566886 Score: 482
Period size: 114 Copynumber: 4.7 Consensus size: 113
22566344 AGCCTCTACT
* ** * * * * * * *
22566354 TTCATTATCAAGATTCACAAGTCCTC-CAGGTAGAATATTTTAAAATTTCAAAAATTATGGAGCT
1 TTCACTATCAAGATTCGTAAGTCCTCTGA-GCAGAATATTTT-AAATTTTAAAAGTTGTTGAGCC
* * *
22566418 TTTACTTAGAGGTGCCTTTTAAAGTTGTTGAGCCTTTACTTAGA-GAAGCA
64 TCTACTTAGAGGAGCTTTTTAAAGTTGTTGAGCCTTTACTTAGAGGAA-CA
* * * * * *
22566468 TGCACTACCAAGATTCGTAAGTCCTCTGAACATAATATTTTAAATTTTTAAAGTTGTCGAGCCTC
1 TTCACTATCAAGATTCGTAAGTCCTCTGAGCAGAATATTTTAAATTTTAAAAGTTGTTGAGCCTC
* * * * **
22566533 TATTTAGAGAAGCTTTTTAAAGTTGTTGAGCCTTTGCTTAAAGGTGCA
66 TACTTAGAGGAGCTTTTTAAAGTTGTTGAGCCTTTACTTAGAGGAACA
* * * *
22566581 TTCACTATCAAGATTCGTAAATCCTCTAAGCATAATATTTTAAATTTTCAAAAGTTGTTGAGTCT
1 TTCACTATCAAGATTCGTAAGTCCTCTGAGCAGAATATTTTAAATTTT-AAAAGTTGTTGAGCCT
* * * *
22566646 CTACTTAGAAGAGCTTTTTAAAGTTGTTAAG-CTTAAACTTAGAAGAACA
65 CTACTTAGAGGAGCTTTTTAAAGTTGTTGAGCCTT-TACTTAGAGGAACA
* * * * * * *
22566695 TTCATTGTCAAGATTCATAAGTACTC-CAGGTAGAATATTTTAAATTTTTAAAAATTGTTGAGCC
1 TTCACTATCAAGATTCGTAAGTCCTCTGA-GCAGAATATTTTAAA-TTTTAAAAGTTGTTGAGCC
* * * *
22566759 TCTACTTATAGGAGTTTTTTTAAGTTATTGAG-CTTATACTTAGAGGAACA
64 TCTACTTAGAGGAGCTTTTTAAAGTTGTTGAGCCTT-TACTTAGAGGAACA
* * * ** *
22566809 TTCACTATCAATATTCTTAAGTCCTCTGAGCAGAATAGTTTAAACTTTTAAAAGTAATTGATCCT
1 TTCACTATCAAGATTCGTAAGTCCTCTGAGCAGAATATTTTAAA-TTTTAAAAGTTGTTGAGCCT
* *
22566874 TTACTTAAAGGAG
65 CTACTTAGAGGAG
22566887 TCCTTAAAGT
Statistics
Matches: 337, Mismatches: 75, Indels: 14
0.79 0.18 0.03
Matches are distributed among these distances:
113 102 0.30
114 229 0.68
115 6 0.02
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.38
Consensus pattern (113 bp):
TTCACTATCAAGATTCGTAAGTCCTCTGAGCAGAATATTTTAAATTTTAAAAGTTGTTGAGCCTC
TACTTAGAGGAGCTTTTTAAAGTTGTTGAGCCTTTACTTAGAGGAACA
Found at i:22567126 original size:17 final size:17
Alignment explanation
Indices: 22567106--22567145 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
22567096 TAAATATAAT
22567106 TTTTTTATTATTTTTTC
1 TTTTTTATTATTTTTTC
** *
22567123 TTTTTCCTTCTTTTTTC
1 TTTTTTATTATTTTTTC
22567140 TTTTTT
1 TTTTTT
22567146 TTAGACCTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTTATTATTTTTTC
Found at i:22569820 original size:17 final size:17
Alignment explanation
Indices: 22569777--22569836 Score: 56
Period size: 17 Copynumber: 3.7 Consensus size: 17
22569767 CATTTAGCCT
* *
22569777 TAAAATTTAAATTTG-A
1 TAAAATTAAAATATGTA
*
22569793 TGAAATATAAAATATGTA
1 TAAAAT-TAAAATATGTA
22569811 TAAAATTAAAATAT-T-
1 TAAAATTAAAATATGTA
22569826 T-AAATTAAAAT
1 TAAAATTAAAAT
22569837 TTATTTACAT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
14 10 0.26
15 1 0.03
16 6 0.16
17 15 0.39
18 6 0.16
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (17 bp):
TAAAATTAAAATATGTA
Found at i:22576079 original size:18 final size:18
Alignment explanation
Indices: 22576056--22576100 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
22576046 TTCTTAACAT
* *
22576056 TTCTTGATTCCATTTTTA
1 TTCTTGATTCAATTTATA
22576074 TTCTTGATTCAATTTATA
1 TTCTTGATTCAATTTATA
*
22576092 TTATTGATT
1 TTCTTGATT
22576101 TAGTAAAGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.22, C:0.11, G:0.07, T:0.60
Consensus pattern (18 bp):
TTCTTGATTCAATTTATA
Found at i:22592478 original size:11 final size:11
Alignment explanation
Indices: 22592462--22592486 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
22592452 TACACATTGA
22592462 TTATAACTATG
1 TTATAACTATG
22592473 TTATAACTATG
1 TTATAACTATG
22592484 TTA
1 TTA
22592487 GGCTTAGGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.48
Consensus pattern (11 bp):
TTATAACTATG
Found at i:22601999 original size:46 final size:45
Alignment explanation
Indices: 22601890--22602022 Score: 115
Period size: 46 Copynumber: 2.9 Consensus size: 45
22601880 AAATGTTAGG
* * *** *
22601890 ATTATTGAAGACATTTTTGATAGAAAATGCTTTGAATAATTGTTGG
1 ATTATTGAAGACATTTTTGGTA-AAAATGCCTTGAATAATCCATGA
***
22601936 ATTATTGAAGGTGTTTTTGGTCAAAAATGCCTTGAATAATCCATGA
1 ATTATTGAAGACATTTTTGGT-AAAAATGCCTTGAATAATCCATGA
* * * *
22601982 ATTATTCAAGACATTTTTAGTTAGAAATGCCTTCAA-AATCC
1 ATTATTGAAGACATTTTT-GGTAAAAATGCCTTGAATAATCC
22602023 CCATCATAAA
Statistics
Matches: 69, Mismatches: 16, Indels: 5
0.77 0.18 0.06
Matches are distributed among these distances:
45 5 0.07
46 61 0.88
47 3 0.04
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.38
Consensus pattern (45 bp):
ATTATTGAAGACATTTTTGGTAAAAATGCCTTGAATAATCCATGA
Found at i:22602208 original size:124 final size:123
Alignment explanation
Indices: 22602022--22602495 Score: 476
Period size: 124 Copynumber: 3.8 Consensus size: 123
22602012 CTTCAAAATC
* * * *
22602022 CCCATCATAAAAAATGAAAGGGATTATTTAAGGCGTTTTTGGCCATAAATGCCTTGATTAACCTT
1 CCCATCAT-AAAAATGAAAGGGATTATTCAAGGCCTTTTTTGCCATAAATGCCTTGATTAACCCT
* *
22602087 ATTTAATTTTTTCTAAAGGATTATACAAGGTATTTTCTGGCTAAAAACAACTTAAATAAT
65 ATTCAATTTTTTCTAAAGGATTATGCAAGGTATTTTCTGGCTAAAAAC-ACTTAAATAAT
* * * ** *
22602147 CCCATCAT-AAAATCAAAGGGTATTATTTAAGGCCTTTTTTGCCATAACTGCCTTGGCTAACCCC
1 CCCATCATAAAAATGAAAGGG-ATTATTCAAGGCCTTTTTTGCCATAAATGCCTTGATTAACCCT
* * *
22602211 ATTCAA-TTTTTCTTAAAGGATTATGCGAA-GTGTTTTCTGACTAAAAATGC-CTTGAATAAT
65 ATTCAATTTTTTC-TAAAGGATTATGC-AAGGTATTTTCTGGCTAAAAA--CACTTAAATAAT
* ** * **
22602271 CCCATCATAATAATTGAAAGGGATTATTCAAGGTATTTTTAGCCATAAACACCTTGATTAACCCT
1 CCCATCATAA-AAATGAAAGGGATTATTCAAGGCCTTTTTTGCCATAAATGCCTTGATTAACCCT
* * * **
22602336 ATTCAATTTTTT-TAAGGGATTATGCAAGGTATTTTCTAGCTAAAAACGCATGCAATAAT
65 ATTCAATTTTTTCTAAAGGATTATGCAAGGTATTTTCTGGCTAAAAACAC-TTAAATAAT
* * * * * *
22602395 CCTATAATAAAAATTAAATGGGATTATTCAAGGCCTTTTTTGTCATAAATGCCTTGAATAA-TCT
1 CCCATCATAAAAATGAAA-GGGATTATTCAAGGCCTTTTTTGCCATAAATGCCTTGATTAACCCT
* * * *
22602459 ATTTAATTTTTCCTAAGGGATTA-GTCAAGGTGTTTTC
65 ATTCAATTTTTTCTAAAGGATTATG-CAAGGTATTTTC
22602496 CTACAAAAAT
Statistics
Matches: 289, Mismatches: 46, Indels: 29
0.79 0.13 0.08
Matches are distributed among these distances:
122 1 0.00
123 39 0.13
124 184 0.64
125 50 0.17
126 15 0.05
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (123 bp):
CCCATCATAAAAATGAAAGGGATTATTCAAGGCCTTTTTTGCCATAAATGCCTTGATTAACCCTA
TTCAATTTTTTCTAAAGGATTATGCAAGGTATTTTCTGGCTAAAAACACTTAAATAAT
Found at i:22602450 original size:249 final size:247
Alignment explanation
Indices: 22602006--22602519 Score: 619
Period size: 249 Copynumber: 2.1 Consensus size: 247
22601996 TTTTAGTTAG
* * * *
22602006 AAATGCCTTCAA-AATCCCCATCATAAAAAATGAAAGGGATTATTTAAGGCGTTTTTGGCCATAA
1 AAATGCCTTAAATAAT-CCCATCATAAAAAATGAAAGGGATTATTCAAGGCATTTTTAGCCATAA
** * * *
22602070 ATGCCTTGATTAACCTTATTTAATTTTTTCTAAAGGATTATACAAGGTATTTTCTGGCTAAAAAC
65 ACACCTTGATTAACCCTATTCAATTTTTTCTAAAGGATTATACAAGGTATTTTCTAGCTAAAAAC
* * * *
22602135 AACTTAAATAATCCCATCATAAAATCAAAGGGTATTATTTAAGGCCTTTTTTGCCATAACTGCCT
130 AACTGAAATAATCCCATAATAAAATCAAAGGGTATTATTCAAGGCCTTTTTTGCCATAAATGCCT
** *
22602200 TGGCTAACCCCATTCAATTTTTCTTAAAGGATTA-TGCGAA-GTGTTTT-CTGACTAA
195 TGAATAA-CCCATTCAATTTTTCCTAAAGGATTAGT-C-AAGGTGTTTTCCT-AC-AA
* * * *
22602255 AAATGCCTTGAATAATCCCATCATAATAATTGAAAGGGATTATTCAAGGTATTTTTAGCCATAAA
1 AAATGCCTTAAATAATCCCATCATAAAAAATGAAAGGGATTATTCAAGGCATTTTTAGCCATAAA
* *
22602320 CACCTTGATTAACCCTATTCAATTTTTT-TAAGGGATTATGCAAGGTATTTTCTAGCTAAAAAC-
66 CACCTTGATTAACCCTATTCAATTTTTTCTAAAGGATTATACAAGGTATTTTCTAGCTAAAAACA
* * * * *
22602383 GCATGCAATAATCCTATAATAAAAATTAAATGGG-ATTATTCAAGGCCTTTTTTGTCATAAATGC
131 AC-TGAAATAATCCCATAAT-AAAATCAAA-GGGTATTATTCAAGGCCTTTTTTGCCATAAATGC
* * * *
22602447 CTTGAATAATCTATTTAATTTTTCCTAAGGGATTAGTCAAGGTGTTTTCCTACAA
193 CTTGAATAACCCATTCAATTTTTCCTAAAGGATTAGTCAAGGTGTTTTCCTACAA
22602502 AAATGCCTTAAATAATCC
1 AAATGCCTTAAATAATCC
22602520 TAAAAAAATG
Statistics
Matches: 227, Mismatches: 31, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
247 22 0.10
248 76 0.33
249 123 0.54
250 6 0.03
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (247 bp):
AAATGCCTTAAATAATCCCATCATAAAAAATGAAAGGGATTATTCAAGGCATTTTTAGCCATAAA
CACCTTGATTAACCCTATTCAATTTTTTCTAAAGGATTATACAAGGTATTTTCTAGCTAAAAACA
ACTGAAATAATCCCATAATAAAATCAAAGGGTATTATTCAAGGCCTTTTTTGCCATAAATGCCTT
GAATAACCCATTCAATTTTTCCTAAAGGATTAGTCAAGGTGTTTTCCTACAA
Found at i:22606039 original size:55 final size:55
Alignment explanation
Indices: 22605962--22606081 Score: 134
Period size: 55 Copynumber: 2.2 Consensus size: 55
22605952 ATATAATAAA
* * * *
22605962 AAAATTAAAACATATAAGTCTATATTAACAATCTCTAACCATCGGTAG-ATGTAAG
1 AAAATTAAAACACACAAGTCTATACTAACAATCTCTAACCATCGGT-GTAGGTAAG
* * *** *
22606017 AAAATTAAAGCACACAATTCTATACTAATTGTCTCTAATCATCGGTGTAGGTAAG
1 AAAATTAAAACACACAAGTCTATACTAACAATCTCTAACCATCGGTGTAGGTAAG
22606072 AAAATTAAAA
1 AAAATTAAAA
22606082 AAAAAAAAAT
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
54 1 0.02
55 52 0.98
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.29
Consensus pattern (55 bp):
AAAATTAAAACACACAAGTCTATACTAACAATCTCTAACCATCGGTGTAGGTAAG
Found at i:22608063 original size:23 final size:23
Alignment explanation
Indices: 22608037--22608085 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
22608027 ACTGAATGTA
22608037 GACTTTGCCAAAGGAAGATGAAG
1 GACTTTGCCAAAGGAAGATGAAG
22608060 GACTTTGCCAAAGGAAGATGAAG
1 GACTTTGCCAAAGGAAGATGAAG
22608083 GAC
1 GAC
22608086 GCCAAAAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.39, C:0.14, G:0.31, T:0.16
Consensus pattern (23 bp):
GACTTTGCCAAAGGAAGATGAAG
Found at i:22608091 original size:20 final size:21
Alignment explanation
Indices: 22608042--22608091 Score: 75
Period size: 23 Copynumber: 2.3 Consensus size: 21
22608032 ATGTAGACTT
22608042 TGCCAAAGGAAGATGAAGGAC
1 TGCCAAAGGAAGATGAAGGAC
22608063 TTTGCCAAAGGAAGATGAAGGAC
1 --TGCCAAAGGAAGATGAAGGAC
22608086 -GCCAAA
1 TGCCAAA
22608092 AATGAAGACT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.22
23 21 0.78
ACGTcount: A:0.42, C:0.16, G:0.30, T:0.12
Consensus pattern (21 bp):
TGCCAAAGGAAGATGAAGGAC
Found at i:22608767 original size:30 final size:30
Alignment explanation
Indices: 22608703--22608777 Score: 109
Period size: 29 Copynumber: 2.5 Consensus size: 30
22608693 TCATTTTTTA
*
22608703 AAAATAAATTTTTATAATTTTATTGTATTC
1 AAAATAAATTTTTATTATTTTATTGTATTC
22608733 -AAATAAATTTTTATTATTTTATTTGTA-TC
1 AAAATAAATTTTTATTATTTTA-TTGTATTC
*
22608762 AAAATAAATATTTATT
1 AAAATAAATTTTTATT
22608778 CCAAAATTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 22 0.54
30 19 0.46
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (30 bp):
AAAATAAATTTTTATTATTTTATTGTATTC
Found at i:22608865 original size:30 final size:30
Alignment explanation
Indices: 22608831--22608897 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
22608821 GGGTAAGATC
* * *
22608831 TTATTTGGATACATATTAAAATTTAAAAAT
1 TTATTTGGATACAAAATAAAAATTAAAAAT
* **
22608861 TTATTTGGATGCAAAATAAAAATTAAATTT
1 TTATTTGGATACAAAATAAAAATTAAAAAT
22608891 TTATTTG
1 TTATTTG
22608898 AATGTAATAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.45
Consensus pattern (30 bp):
TTATTTGGATACAAAATAAAAATTAAAAAT
Found at i:22613195 original size:12 final size:13
Alignment explanation
Indices: 22613180--22613239 Score: 65
Period size: 12 Copynumber: 4.7 Consensus size: 13
22613170 AAATTATTTT
22613180 TTTAATTT-TATA
1 TTTAATTTATATA
22613192 TTTAATTATATATA
1 TTTAATT-TATATA
22613206 TTT--TTATATATA
1 TTTAATT-TATATA
22613218 TTTAATTT-TATA
1 TTTAATTTATATA
22613230 TTTATATTTA
1 TTTA-ATTTA
22613240 AAATAATATT
Statistics
Matches: 42, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
12 27 0.64
13 6 0.14
14 9 0.21
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (13 bp):
TTTAATTTATATA
Found at i:22613212 original size:22 final size:22
Alignment explanation
Indices: 22613185--22613240 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
22613175 ATTTTTTTAA
22613185 TTTTATATTTAATT-ATATATAT
1 TTTTATATTTAATTAAT-TATAT
* * *
22613207 TTTTATATATATTTAATTTTAT
1 TTTTATATTTAATTAATTATAT
*
22613229 ATTTATATTTAA
1 TTTTATATTTAA
22613241 AATAATATTT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
22 25 0.93
23 2 0.07
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
TTTTATATTTAATTAATTATAT
Found at i:22613217 original size:16 final size:16
Alignment explanation
Indices: 22613198--22613236 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
22613188 TATATTTAAT
*
22613198 TATATATATTTTTATA
1 TATATATAATTTTATA
*
22613214 TATATTTAATTTTATA
1 TATATATAATTTTATA
*
22613230 TTTATAT
1 TATATAT
22613237 TTAAAATAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TATATATAATTTTATA
Found at i:22619317 original size:21 final size:20
Alignment explanation
Indices: 22619293--22619337 Score: 81
Period size: 21 Copynumber: 2.2 Consensus size: 20
22619283 AAATCTATTA
22619293 TGTAAGAAAGTCTTTAAGAT
1 TGTAAGAAAGTCTTTAAGAT
22619313 GTGTAAGAAAGTCTTTAAGAT
1 -TGTAAGAAAGTCTTTAAGAT
22619334 TGTA
1 TGTA
22619338 TTAGAGTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 4 0.17
21 20 0.83
ACGTcount: A:0.38, C:0.04, G:0.22, T:0.36
Consensus pattern (20 bp):
TGTAAGAAAGTCTTTAAGAT
Found at i:22623215 original size:17 final size:18
Alignment explanation
Indices: 22623183--22623216 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
22623173 CTCAAAGCCA
22623183 TATTTTCTTCTTTCTTAC
1 TATTTTCTTCTTTCTTAC
*
22623201 TATTTTGTT-TTTCTTA
1 TATTTTCTTCTTTCTTA
22623217 ATTTTACTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.12, C:0.15, G:0.03, T:0.71
Consensus pattern (18 bp):
TATTTTCTTCTTTCTTAC
Found at i:22626098 original size:22 final size:23
Alignment explanation
Indices: 22626071--22626114 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
22626061 TTAGGTTTCG
22626071 AGGTTTAGGAT-TTAGGATTTTA
1 AGGTTTAGGATCTTAGGATTTTA
* *
22626093 AGGTTTTGGATCTTAGGGTTTT
1 AGGTTTAGGATCTTAGGATTTT
22626115 GAGGATCTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.20, C:0.02, G:0.30, T:0.48
Consensus pattern (23 bp):
AGGTTTAGGATCTTAGGATTTTA
Found at i:22626290 original size:14 final size:13
Alignment explanation
Indices: 22626260--22626341 Score: 85
Period size: 14 Copynumber: 6.0 Consensus size: 13
22626250 GTTTGAAGGG
*
22626260 TTTTAGGCTTTGA
1 TTTTAGGTTTTGA
*
22626273 TTTTGAGGTTTTGG
1 TTTT-AGGTTTTGA
22626287 TTTTAGGATTTTGA
1 TTTTAGG-TTTTGA
*
22626301 TTTTAGGTTTAGGA
1 TTTTAGGTTT-TGA
22626315 -TTTATGGTTTTGA
1 TTTTA-GGTTTTGA
22626328 TTTTAGGGTTTTGA
1 TTTTA-GGTTTTGA
22626342 AAGGTTTAGG
Statistics
Matches: 58, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
13 16 0.28
14 42 0.72
ACGTcount: A:0.16, C:0.01, G:0.27, T:0.56
Consensus pattern (13 bp):
TTTTAGGTTTTGA
Found at i:22626291 original size:27 final size:26
Alignment explanation
Indices: 22626258--22626340 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 26
22626248 GGGTTTGAAG
*
22626258 GGTTTTAGGCTTTGATTTTGAGGTTTT
1 GGTTTTAGGTTTTGATTTT-AGGTTTT
*
22626285 GGTTTTAGGATTTTGATTTTAGGTTTA
1 GGTTTTAGG-TTTTGATTTTAGGTTTT
*
22626312 GGATTTATGGTTTTGATTTTAGGGTTTT
1 GGTTTTA-GGTTTTGATTTTA-GGTTTT
22626340 G
1 G
22626341 AAAGGTTTAG
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
27 32 0.65
28 17 0.35
ACGTcount: A:0.14, C:0.01, G:0.29, T:0.55
Consensus pattern (26 bp):
GGTTTTAGGTTTTGATTTTAGGTTTT
Found at i:22626536 original size:16 final size:16
Alignment explanation
Indices: 22626517--22626556 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
22626507 ATGAAAATTT
22626517 ATTATTATAATTATTA
1 ATTATTATAATTATTA
*
22626533 ATTATTGTAATTATTA
1 ATTATTATAATTATTA
22626549 ATTATTAT
1 ATTATTAT
22626557 TATGAATGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (16 bp):
ATTATTATAATTATTA
Found at i:22628020 original size:302 final size:301
Alignment explanation
Indices: 22627190--22628095 Score: 1474
Period size: 301 Copynumber: 3.0 Consensus size: 301
22627180 TTTGTAGGTA
* ** * * *
22627190 GCTTAGCGCTAATGGTTCCTTTTTATAGGGAGGACTGCATTTGTTTTTTTCTTTTT-GTTGCCAG
1 GCTTAGCGCTAATGGTTCCTTTTTACAAAGAGGATTGCATTTATTTTTTTTTTTTTGGTTGCCAG
22627254 TTTGGAAGGGGATTGGGTACTAGGTGAGGTAAAAGGGGTCATTGGGTGTGTGGTCTTGGTAAAGC
66 TTTGGAAGGGGATTGGGTACTAGGTGAGGTAAAAGGGGTCATTGGGTGTGTGGTCTTGGTAAAGC
*
22627319 TATGGTCTAGTGGGAATGGGTGCTGGGTCGAGAGGTCTTGTGTATAGGTGTGGTCTCAGGGGTGT
131 TGTGGTCTAGTGGGAATGGGTGCTGGGTCGAGAGGTCTTGTGTATAGGTGTGGTCTCAGGGGTGT
* * *
22627384 TTGTGCACAATTGAAAGGAAAATGATAGTGTTGGGGCTTAAAATGGAAAGGTTTTGAAGGGCTCT
196 TTGTGCACAAGTGAAAGGAAAATGATAGTGTTGGGGCTCAAAATGGAAAGGTTTTGAGGGGCTCT
*
22627449 GAGTGTTGCAAAGTTAAGTTCTAGAGGCGAGAAAGACTGAT
261 GAGTGTTGCAAGGTTAAGTTCTAGAGGCGAGAAAGACTGAT
*
22627490 GCTTAGCGCTAATGGTTCTTTTTTACAAAGAGGATTGCATTTATTTTTTTTTTTTTGGTTGCCAG
1 GCTTAGCGCTAATGGTTCCTTTTTACAAAGAGGATTGCATTTATTTTTTTTTTTTTGGTTGCCAG
22627555 TTTGGAAGGGGATTGGGTACTAGGTGAGGTAAAAGGGGTCATTGGGTGTGTGGTCTTGGTAAAGC
66 TTTGGAAGGGGATTGGGTACTAGGTGAGGTAAAAGGGGTCATTGGGTGTGTGGTCTTGGTAAAGC
*
22627620 TGTGGTCTAGTGGGAATGGGTGCTGGGTCGAGAGGCCTTGTGTATAGGTGTGGTCTCAGGGGTGT
131 TGTGGTCTAGTGGGAATGGGTGCTGGGTCGAGAGGTCTTGTGTATAGGTGTGGTCTCAGGGGTGT
*
22627685 TTGTGCACAAGTGAAAGGAAAATGATAGTGTTGGGGCTCAAAATGAAAAGGTTTTGAGGGGCTCT
196 TTGTGCACAAGTGAAAGGAAAATGATAGTGTTGGGGCTCAAAATGGAAAGGTTTTGAGGGGCTCT
*
22627750 GAGTGTTGCAAGGTTAAGTTCTTGAGGCGAGAAAGACTGAT
261 GAGTGTTGCAAGGTTAAGTTCTAGAGGCGAGAAAGACTGAT
*
22627791 GCTTAGCGCTAATGGTTCCTTTTTACAAAAAGGATTGCATTTATTTTTATTTTTTTTGGTTGCCA
1 GCTTAGCGCTAATGGTTCCTTTTTACAAAGAGGATTGCATTTATTTTT-TTTTTTTTGGTTGCCA
* * * **
22627856 GTTTGGAAGGGGATTGGGTACTAGGTGAGGTAAAAAGGGTCATTGGGTGTGTTGTCTTAGTGGAG
65 GTTTGGAAGGGGATTGGGTACTAGGTGAGGTAAAAGGGGTCATTGGGTGTGTGGTCTTGGTAAAG
* * * * *
22627921 CTGTGGTCTGGTGGGAATGGGTGCAGGGTCGAGAGGTCTTATGTATGGGTGTGGTGTCAGGGGTG
130 CTGTGGTCTAGTGGGAATGGGTGCTGGGTCGAGAGGTCTTGTGTATAGGTGTGGTCTCAGGGGTG
** * * * *
22627986 TTTGTGTGCGAGTGAAGGGAAAAGGATAGTGTTGGGGCTCAAAATGGGAAGGTTTTGAGGGGCTC
195 TTTGTGCACAAGTGAAAGGAAAATGATAGTGTTGGGGCTCAAAATGGAAAGGTTTTGAGGGGCTC
* *
22628051 TGAGTGTTGCAAGGTTAAGCTT-TAGAGGTGAGAAAGACTGGT
260 TGAGTGTTGCAAGGTTAAG-TTCTAGAGGCGAGAAAGACTGAT
22628093 GCT
1 GCT
22628096 CCAGAATCCT
Statistics
Matches: 565, Mismatches: 38, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
300 49 0.09
301 282 0.50
302 232 0.41
303 2 0.00
ACGTcount: A:0.22, C:0.09, G:0.36, T:0.33
Consensus pattern (301 bp):
GCTTAGCGCTAATGGTTCCTTTTTACAAAGAGGATTGCATTTATTTTTTTTTTTTTGGTTGCCAG
TTTGGAAGGGGATTGGGTACTAGGTGAGGTAAAAGGGGTCATTGGGTGTGTGGTCTTGGTAAAGC
TGTGGTCTAGTGGGAATGGGTGCTGGGTCGAGAGGTCTTGTGTATAGGTGTGGTCTCAGGGGTGT
TTGTGCACAAGTGAAAGGAAAATGATAGTGTTGGGGCTCAAAATGGAAAGGTTTTGAGGGGCTCT
GAGTGTTGCAAGGTTAAGTTCTAGAGGCGAGAAAGACTGAT
Found at i:22628947 original size:10 final size:10
Alignment explanation
Indices: 22628932--22628957 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
22628922 GTTAAAATCT
22628932 AATATAGAGA
1 AATATAGAGA
22628942 AATATAGAGA
1 AATATAGAGA
22628952 AATATA
1 AATATA
22628958 ATATTAAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.23
Consensus pattern (10 bp):
AATATAGAGA
Found at i:22631990 original size:3 final size:3
Alignment explanation
Indices: 22631982--22632018 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
22631972 ATTAATGGCC
22631982 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
22632019 GTATATAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:22632059 original size:21 final size:20
Alignment explanation
Indices: 22632025--22632112 Score: 86
Period size: 22 Copynumber: 4.2 Consensus size: 20
22632015 ATAAGTATAT
* *
22632025 AAATTAAAATTAAATATTAA
1 AAATTAAAATTAAAAACTAA
*
22632045 ATATTAAATATTAAAAACTAA
1 AAATTAAA-ATTAAAAACTAA
* *
22632066 AAATTAAAAACTAAAAAAATAA
1 AAATT-AAAA-TTAAAAACTAA
22632088 AAATTAAATATATAAAAACTAA
1 AAATTAAA-AT-TAAAAACTAA
22632110 AAA
1 AAA
22632113 ACTAAAAATT
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
20 7 0.13
21 19 0.35
22 29 0.53
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.27
Consensus pattern (20 bp):
AAATTAAAATTAAAAACTAA
Found at i:22632074 original size:7 final size:7
Alignment explanation
Indices: 22632025--22632125 Score: 87
Period size: 7 Copynumber: 14.1 Consensus size: 7
22632015 ATAAGTATAT
22632025 AAATT-A
1 AAATTAA
22632031 AAATTAA
1 AAATTAA
*
22632038 ATATTAA
1 AAATTAA
*
22632045 ATATTAA
1 AAATTAA
*
22632052 ATATTAA
1 AAATTAA
*
22632059 AAACTAA
1 AAATTAA
22632066 AAATTAA
1 AAATTAA
*
22632073 AAACTAAA
1 AAA-TTAA
*
22632081 AAAATAA
1 AAATTAA
22632088 AAATTAA
1 AAATTAA
*
22632095 ATATATAA
1 AAAT-TAA
*
22632103 AAACTAAA
1 AAA-TTAA
*
22632111 AAACTAA
1 AAATTAA
22632118 AAATTAA
1 AAATTAA
22632125 A
1 A
22632126 TTATAAAAAC
Statistics
Matches: 77, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
6 5 0.06
7 55 0.71
8 16 0.21
9 1 0.01
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (7 bp):
AAATTAA
Found at i:22632082 original size:15 final size:15
Alignment explanation
Indices: 22632054--22632125 Score: 76
Period size: 15 Copynumber: 4.9 Consensus size: 15
22632044 AATATTAAAT
22632054 ATTAAAAACT-AAAA
1 ATTAAAAACTAAAAA
22632068 ATTAAAAACTAAAAA
1 ATTAAAAACTAAAAA
* * *
22632083 AATAAAAA-TTAAAT
1 ATTAAAAACTAAAAA
22632097 ATATAAAAACTAAAAA
1 AT-TAAAAACTAAAAA
* *
22632113 ACTAAAAATTAAA
1 ATTAAAAACTAAA
22632126 TTATAAAAAC
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
14 15 0.32
15 27 0.57
16 5 0.11
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.22
Consensus pattern (15 bp):
ATTAAAAACTAAAAA
Found at i:22632106 original size:30 final size:29
Alignment explanation
Indices: 22632025--22632143 Score: 125
Period size: 29 Copynumber: 4.1 Consensus size: 29
22632015 ATAAGTATAT
* * *
22632025 AAATTAAAATTAAATATTAAATA-TTAAA
1 AAATAAAAATTAAATATTAAAAACTAAAA
* * * *
22632053 TATTAAAAACTAAAAATTAAAAACTAAAA
1 AAATAAAAATTAAATATTAAAAACTAAAA
22632082 AAATAAAAATTAAATATATAAAAACTAAAA
1 AAATAAAAATTAAATAT-TAAAAACTAAAA
* *
22632112 AACTAAAAATTAAAT-TATAAAAACAAAAA
1 AAATAAAAATTAAATAT-TAAAAACTAAAA
22632141 AAA
1 AAA
22632144 ATACACTAGT
Statistics
Matches: 75, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
28 17 0.23
29 32 0.43
30 26 0.35
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (29 bp):
AAATAAAAATTAAATATTAAAAACTAAAA
Found at i:22632320 original size:21 final size:23
Alignment explanation
Indices: 22632294--22632336 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
22632284 TCATGTGTGA
22632294 AGGA-GGGCCC-CTTAGTGCATC
1 AGGAGGGGCCCACTTAGTGCATC
*
22632315 AGGAGGGGCCCATTTAGTGCAT
1 AGGAGGGGCCCACTTAGTGCAT
22632337 GGCATGAGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 6 0.32
23 9 0.47
ACGTcount: A:0.21, C:0.23, G:0.35, T:0.21
Consensus pattern (23 bp):
AGGAGGGGCCCACTTAGTGCATC
Found at i:22633958 original size:462 final size:462
Alignment explanation
Indices: 22633094--22634014 Score: 1788
Period size: 462 Copynumber: 2.0 Consensus size: 462
22633084 TTGATCGAGC
22633094 TGTACGTATACTTTGACCTTCACTAGATTCAGCAAATGGATTTACTCCATATTTTGCCATATTAA
1 TGTACGTATACTTTGACCTTCACTAGATTCAGCAAATGGATTTACTCCATATTTTGCCATATTAA
*
22633159 TGAAAATTCCACCAGTAGTAGCAAGCCCAAATTCTCTTCCAAGTGGGTTGTAAGGTCGATTTACA
66 TGAAAATTCCACCAGTAGCAGCAAGCCCAAATTCTCTTCCAAGTGGGTTGTAAGGTCGATTTACA
22633224 TTCATATTATCACTAAAATTCACCCCATCACCATCACCATCACCATCATCTGGACTTAAACCACC
131 TTCATATTATCACTAAAATTCACCCCATCACCATCACCATCACCATCATCTGGACTTAAACCACC
*
22633289 ACCATTATCACTTTGACTTAGTGTTGGACTTGAACTTGAATGAGACACATTCCTTTTTTGAGATT
196 ACCATTATCACTTTGACTTAGTGTTGGACTTGAACTTGAATGAGACACATTCCCTTTTTGAGATT
*
22633354 GGCGTGATTGTTCCACATTCATTTCATTATCAGAATTATCTGCGGGCAACCAATTAAAGTTTTTA
261 GGCGTGATTGTTCCACATTCATTTCATTATCAGAATTATCTACGGGCAACCAATTAAAGTTTTTA
22633419 CCATTTAACAAAGGATTTTCTTGCTCTTACAGCCATTCTATTAGTGGATCATCATCTTCAAAAAT
326 CCATTTAACAAAGGATTTTCTTGCTCTTACAGCCATTCTATTAGTGGATCATCATCTTCAAAAAT
22633484 ATGGTCAAGGCTAATAGGATTAAAACTATTATTTATCTCATCAATGCTCATTCTTTTCTAATGGC
391 ATGGTCAAGGCTAATAGGATTAAAACTATTATTTATCTCATCAATGCTCATTCTTTTCTAATGGC
22633549 TCATTCT
456 TCATTCT
22633556 TGTACGTATACTTTGACCTTCACTAGATTCAGCAAATGGATTTACTCCATATTTTGCCATATTAA
1 TGTACGTATACTTTGACCTTCACTAGATTCAGCAAATGGATTTACTCCATATTTTGCCATATTAA
22633621 TGAAAATTCCACCAGTAGCAGCAAGCCCAAATTCTCTTCCAAGTGGGTTGTAAGGTCGATTTACA
66 TGAAAATTCCACCAGTAGCAGCAAGCCCAAATTCTCTTCCAAGTGGGTTGTAAGGTCGATTTACA
* *
22633686 TTCATATTATCACTAAAATTCATCCCATCACCATCACCATCACCATTATCTGGACTTAAACCACC
131 TTCATATTATCACTAAAATTCACCCCATCACCATCACCATCACCATCATCTGGACTTAAACCACC
22633751 ACCATTATCACTTTGACTTAGTGTTGGACTTGAACTTGAATGAGACACATTCCCTTTTTGAGATT
196 ACCATTATCACTTTGACTTAGTGTTGGACTTGAACTTGAATGAGACACATTCCCTTTTTGAGATT
22633816 GGCGTGATTGTTCCACATTCATTTCATTATCAGAATTATCTACGGGCAACCAATTAAAGTTTTTA
261 GGCGTGATTGTTCCACATTCATTTCATTATCAGAATTATCTACGGGCAACCAATTAAAGTTTTTA
22633881 CCATTTAACAAAGGATTTTCTTGCTCTTACAGCCATTCTATTAGTGGATCATCATCTTCAAAAAT
326 CCATTTAACAAAGGATTTTCTTGCTCTTACAGCCATTCTATTAGTGGATCATCATCTTCAAAAAT
*
22633946 ATGGTCAAGGCTAATAGGATTAAAACTATTATTTATCTCATCAATGCTCATTCTTTTCTAATGTC
391 ATGGTCAAGGCTAATAGGATTAAAACTATTATTTATCTCATCAATGCTCATTCTTTTCTAATGGC
22634011 TCAT
456 TCAT
22634015 CCTCAGCCTC
Statistics
Matches: 453, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
462 453 1.00
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (462 bp):
TGTACGTATACTTTGACCTTCACTAGATTCAGCAAATGGATTTACTCCATATTTTGCCATATTAA
TGAAAATTCCACCAGTAGCAGCAAGCCCAAATTCTCTTCCAAGTGGGTTGTAAGGTCGATTTACA
TTCATATTATCACTAAAATTCACCCCATCACCATCACCATCACCATCATCTGGACTTAAACCACC
ACCATTATCACTTTGACTTAGTGTTGGACTTGAACTTGAATGAGACACATTCCCTTTTTGAGATT
GGCGTGATTGTTCCACATTCATTTCATTATCAGAATTATCTACGGGCAACCAATTAAAGTTTTTA
CCATTTAACAAAGGATTTTCTTGCTCTTACAGCCATTCTATTAGTGGATCATCATCTTCAAAAAT
ATGGTCAAGGCTAATAGGATTAAAACTATTATTTATCTCATCAATGCTCATTCTTTTCTAATGGC
TCATTCT
Found at i:22637734 original size:20 final size:19
Alignment explanation
Indices: 22637709--22637808 Score: 91
Period size: 19 Copynumber: 5.3 Consensus size: 19
22637699 CTTCAAACGT
*
22637709 CCCACCACACCCTATCCCTC
1 CCCACC-CACCCAATCCCTC
*
22637729 CCCACCCCACCCAATCCCTT
1 CCCA-CCCACCCAATCCCTC
* *
22637749 CCCACCCCCCCAAT---GC
1 CCCACCCACCCAATCCCTC
22637765 CCCACCACACCCAATCCCT-
1 CCCACC-CACCCAATCCCTC
*
22637784 CCCATCCTACCCAATCCCTC
1 CCCA-CCCACCCAATCCCTC
22637804 CCCAC
1 CCCAC
22637809 ATGCCTACCC
Statistics
Matches: 65, Mismatches: 8, Indels: 15
0.74 0.09 0.17
Matches are distributed among these distances:
16 6 0.09
17 7 0.11
19 25 0.38
20 25 0.38
21 2 0.03
ACGTcount: A:0.21, C:0.65, G:0.01, T:0.13
Consensus pattern (19 bp):
CCCACCCACCCAATCCCTC
Found at i:22637762 original size:19 final size:19
Alignment explanation
Indices: 22637678--22637808 Score: 87
Period size: 20 Copynumber: 6.9 Consensus size: 19
22637668 TACCCAACTA
22637678 CACCCAATCCCTTCCCACC
1 CACCCAATCCCTTCCCACC
* *
22637697 C-CCTTCAA--ACGTCCCACC
1 CACC--CAATCCCTTCCCACC
* *
22637715 ACACCCTATCCCTCCCCACCC
1 -CACCCAATCCCTTCCCA-CC
22637736 CACCCAATCCCTTCCCACC
1 CACCCAATCCCTTCCCACC
* *
22637755 CCCCCAAT-GC--CCCACC
1 CACCCAATCCCTTCCCACC
22637771 ACACCCAATCCC-TCCCATCC
1 -CACCCAATCCCTTCCCA-CC
* *
22637791 TACCCAATCCCTCCCCAC
1 CACCCAATCCCTTCCCAC
22637809 ATGCCTACCC
Statistics
Matches: 86, Mismatches: 14, Indels: 24
0.69 0.11 0.19
Matches are distributed among these distances:
16 6 0.07
17 7 0.08
18 14 0.16
19 26 0.30
20 31 0.36
21 2 0.02
ACGTcount: A:0.21, C:0.63, G:0.02, T:0.15
Consensus pattern (19 bp):
CACCCAATCCCTTCCCACC
Found at i:22637809 original size:36 final size:36
Alignment explanation
Indices: 22637708--22637809 Score: 100
Period size: 36 Copynumber: 2.7 Consensus size: 36
22637698 CCTTCAAACG
*
22637708 TCCCACCACACCCTATCCCTCCCCACCCCACCCAATCCCT
1 TCCCACC-CACCCAATCCCTCCCCA---CACCCAATCCCT
* *
22637748 TCCCACCCCCCCAATGCCC-CACCACACCCAATCCC-
1 TCCCACCCACCCAAT-CCCTCCCCACACCCAATCCCT
*
22637783 TCCCATCCTACCCAATCCCTCCCCACA
1 TCCCA-CCCACCCAATCCCTCCCCACA
22637810 TGCCTACCCC
Statistics
Matches: 53, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
35 8 0.15
36 25 0.47
39 10 0.19
40 10 0.19
ACGTcount: A:0.22, C:0.64, G:0.01, T:0.14
Consensus pattern (36 bp):
TCCCACCCACCCAATCCCTCCCCACACCCAATCCCT
Found at i:22640300 original size:13 final size:13
Alignment explanation
Indices: 22640282--22640409 Score: 123
Period size: 13 Copynumber: 9.8 Consensus size: 13
22640272 AATTTAAGTC
*
22640282 GAAACCCTTAATT
1 GAAACCCTAAATT
* *
22640295 GAAACCATAGGATT
1 GAAACCCTA-AATT
*
22640309 AAAACCCTAAATT
1 GAAACCCTAAATT
*
22640322 GAAATCCTAAATT
1 GAAACCCTAAATT
22640335 GAAACCCTAAATT
1 GAAACCCTAAATT
**
22640348 GAAACTGTAAATT
1 GAAACCCTAAATT
*
22640361 GAAATCCTAAATT
1 GAAACCCTAAATT
* *
22640374 AAAACTCTAAA-T
1 GAAACCCTAAATT
*
22640386 CAAACCCTAAATT
1 GAAACCCTAAATT
* *
22640399 GCAACCTTAAA
1 GAAACCCTAAA
22640410 AGTGAGATCT
Statistics
Matches: 91, Mismatches: 22, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
12 10 0.11
13 71 0.78
14 10 0.11
ACGTcount: A:0.47, C:0.20, G:0.08, T:0.26
Consensus pattern (13 bp):
GAAACCCTAAATT
Found at i:22645686 original size:10 final size:10
Alignment explanation
Indices: 22645671--22645695 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
22645661 TGCTCTAACG
22645671 TCAAACTTGA
1 TCAAACTTGA
22645681 TCAAACTTGA
1 TCAAACTTGA
22645691 TCAAA
1 TCAAA
22645696 TAAAGTCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.20, G:0.08, T:0.28
Consensus pattern (10 bp):
TCAAACTTGA
Found at i:22647893 original size:33 final size:32
Alignment explanation
Indices: 22647837--22647924 Score: 90
Period size: 33 Copynumber: 2.8 Consensus size: 32
22647827 CCCTATCCAC
* *
22647837 AAATCCAAAACCCTAAACTTTAAACTAAAACTA
1 AAATCCTAAACCCAAAACTTTAAA-TAAAACTA
* *
22647870 AAATCCTAAACCCAAAA-TCTTAAATCAAACTG
1 AAATCCTAAACCCAAAACT-TTAAATAAAACTA
* *
22647902 AAACCCTAAA-CCAAAGCTTTAAA
1 AAATCCTAAACCCAAAACTTTAAA
22647925 CCCTAAACTA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
31 10 0.21
32 17 0.36
33 20 0.43
ACGTcount: A:0.52, C:0.25, G:0.02, T:0.20
Consensus pattern (32 bp):
AAATCCTAAACCCAAAACTTTAAATAAAACTA
Found at i:22647931 original size:7 final size:7
Alignment explanation
Indices: 22647921--22648097 Score: 64
Period size: 7 Copynumber: 27.4 Consensus size: 7
22647911 ACCAAAGCTT
22647921 TAAACCC
1 TAAACCC
22647928 TAAA--C
1 TAAACCC
*
22647933 TAAAACC
1 TAAACCC
*
22647940 TCAAGCCC
1 T-AAACCC
*
22647948 T-AATCC
1 TAAACCC
*
22647954 AAAACCC
1 TAAACCC
22647961 TAAACCC
1 TAAACCC
*
22647968 TAATCCC
1 TAAACCC
22647975 -AAACCC
1 TAAACCC
22647981 T-AACCC
1 TAAACCC
*
22647987 TATACCC
1 TAAACCC
22647994 TAAA--C
1 TAAACCC
***
22647999 TAAATTA
1 TAAACCC
*
22648006 TAAACCT
1 TAAACCC
*
22648013 TAAACCT
1 TAAACCC
22648020 TAAA--C
1 TAAACCC
*
22648025 TAAA-TC
1 TAAACCC
*
22648031 TAAAATCC
1 T-AAACCC
22648039 TAAACCC
1 TAAACCC
22648046 T-AACCC
1 TAAACCC
*
22648052 T-AA-CT
1 TAAACCC
22648057 TAAACCC
1 TAAACCC
*
22648064 CAAA--C
1 TAAACCC
*
22648069 TAAACCT
1 TAAACCC
22648076 TAAA-CC
1 TAAACCC
*
22648082 TTAA-CC
1 TAAACCC
22648088 TAAACCC
1 TAAACCC
22648095 TAA
1 TAA
22648098 GCTAACCCTA
Statistics
Matches: 128, Mismatches: 26, Indels: 32
0.69 0.14 0.17
Matches are distributed among these distances:
5 20 0.16
6 35 0.27
7 66 0.52
8 7 0.05
ACGTcount: A:0.45, C:0.34, G:0.01, T:0.21
Consensus pattern (7 bp):
TAAACCC
Found at i:22647957 original size:20 final size:20
Alignment explanation
Indices: 22647902--22647988 Score: 79
Period size: 20 Copynumber: 4.4 Consensus size: 20
22647892 AATCAAACTG
* * **
22647902 AAACCCTAAACCAAAGCTTT
1 AAACCCTAATCCAAAACCCT
* *
22647922 AAACCCTAAACTAAAA-CCT
1 AAACCCTAATCCAAAACCCT
*
22647941 CAAGCCCTAATCCAAAACCCT
1 -AAACCCTAATCCAAAACCCT
*
22647962 AAACCCTAATCCCAAACCCT
1 AAACCCTAATCCAAAACCCT
22647982 -AACCCTA
1 AAACCCTA
22647989 TACCCTAAAC
Statistics
Matches: 56, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
19 8 0.14
20 45 0.80
21 3 0.05
ACGTcount: A:0.44, C:0.38, G:0.02, T:0.16
Consensus pattern (20 bp):
AAACCCTAATCCAAAACCCT
Found at i:22647978 original size:13 final size:13
Alignment explanation
Indices: 22647956--22647996 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
22647946 CCTAATCCAA
22647956 AACCCTAAACCCT
1 AACCCTAAACCCT
22647969 AATCCC-AAACCCT
1 AA-CCCTAAACCCT
*
22647982 AACCCTATACCCT
1 AACCCTAAACCCT
22647995 AA
1 AA
22647997 ACTAAATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
12 3 0.12
13 19 0.76
14 3 0.12
ACGTcount: A:0.39, C:0.44, G:0.00, T:0.17
Consensus pattern (13 bp):
AACCCTAAACCCT
Found at i:22648011 original size:26 final size:26
Alignment explanation
Indices: 22647982--22648048 Score: 82
Period size: 26 Copynumber: 2.6 Consensus size: 26
22647972 CCCAAACCCT
*
22647982 AACCCTATACCCTAAACTAAAT-TATA
1 AACCCTAAACCCTAAACTAAATCTA-A
* *
22648008 AACCTTAAACCTTAAACTAAATCTAA
1 AACCCTAAACCCTAAACTAAATCTAA
*
22648034 AATCCTAAACCCTAA
1 AACCCTAAACCCTAA
22648049 CCCTAACTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
26 32 0.94
27 2 0.06
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.25
Consensus pattern (26 bp):
AACCCTAAACCCTAAACTAAATCTAA
Found at i:22648028 original size:19 final size:19
Alignment explanation
Indices: 22648006--22648093 Score: 52
Period size: 19 Copynumber: 4.3 Consensus size: 19
22647996 AACTAAATTA
22648006 TAAACCTTAAACCTTAAAC
1 TAAACCTTAAACCTTAAAC
* *
22648025 TAAATCTAAAATCC-TAAACCC
1 TAAACCTTAAA-CCTTAAA--C
* **
22648046 TAACCCTAACTTAAACCCCAAAC
1 TAA----ACCTTAAACCTTAAAC
*
22648069 TAAACCTTAAACCTTAACC
1 TAAACCTTAAACCTTAAAC
22648088 TAAACC
1 TAAACC
22648094 CTAAGCTAAC
Statistics
Matches: 52, Mismatches: 9, Indels: 16
0.68 0.12 0.21
Matches are distributed among these distances:
19 31 0.60
20 2 0.04
21 4 0.08
23 4 0.08
24 2 0.04
25 9 0.17
ACGTcount: A:0.45, C:0.32, G:0.00, T:0.23
Consensus pattern (19 bp):
TAAACCTTAAACCTTAAAC
Found at i:22649183 original size:17 final size:19
Alignment explanation
Indices: 22649147--22649184 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
22649137 ATTTTCTTAA
22649147 AAAGTGAAAAAAAATTAAAG
1 AAAGTGAAAAAAAA-TAAAG
22649167 AAAGT-AAAAAAAA-AAAG
1 AAAGTGAAAAAAAATAAAG
22649184 A
1 A
22649185 TAAAATGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.28
19 8 0.44
20 5 0.28
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (19 bp):
AAAGTGAAAAAAAATAAAG
Found at i:22652867 original size:8 final size:8
Alignment explanation
Indices: 22652854--22652899 Score: 51
Period size: 8 Copynumber: 6.0 Consensus size: 8
22652844 AACATTTTTG
22652854 TTTCTTTA
1 TTTCTTTA
22652862 TTTCTTTA
1 TTTCTTTA
22652870 TTTCTTT-
1 TTTCTTTA
* *
22652877 TTTTTTTG
1 TTTCTTTA
*
22652885 TTTTTTTA
1 TTTCTTTA
22652893 TTT-TTTA
1 TTTCTTTA
22652900 ATCACAAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
7 10 0.29
8 25 0.71
ACGTcount: A:0.09, C:0.07, G:0.02, T:0.83
Consensus pattern (8 bp):
TTTCTTTA
Found at i:22652875 original size:16 final size:15
Alignment explanation
Indices: 22652848--22652899 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
22652838 TTTTGAAACA
*
22652848 TTTTTGTTTCTTTAT
1 TTTTTATTTCTTTAT
*
22652863 TTCTTTATTTCTTTTT
1 TT-TTTATTTCTTTAT
* *
22652879 TTTTTGTTTTTTTAT
1 TTTTTATTTCTTTAT
22652894 TTTTTA
1 TTTTTA
22652900 ATCACAAATA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
15 17 0.57
16 13 0.43
ACGTcount: A:0.08, C:0.06, G:0.04, T:0.83
Consensus pattern (15 bp):
TTTTTATTTCTTTAT
Found at i:22655022 original size:27 final size:27
Alignment explanation
Indices: 22654992--22655046 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
22654982 TCTTCCATAG
22654992 GAATGTACCTTTCAAGTATCTAATCTT
1 GAATGTACCTTTCAAGTATCTAATCTT
22655019 GAATGTACCTTTCAAGTATCTAATCTT
1 GAATGTACCTTTCAAGTATCTAATCTT
22655046 G
1 G
22655047 TATTGTTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (27 bp):
GAATGTACCTTTCAAGTATCTAATCTT
Found at i:22660292 original size:22 final size:21
Alignment explanation
Indices: 22660242--22660293 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
22660232 CCATTTCACT
*
22660242 AACCATAAACAAAATGCAAAA
1 AACCATAAACAAAATACAAAA
*
22660263 ACATCATAAA-AAAATACACCAAA
1 A-ACCATAAACAAAATACA--AAA
22660286 AACCATAA
1 AACCATAA
22660294 GGTTGAACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
21 8 0.32
22 13 0.52
23 4 0.16
ACGTcount: A:0.65, C:0.21, G:0.02, T:0.12
Consensus pattern (21 bp):
AACCATAAACAAAATACAAAA
Found at i:22661978 original size:37 final size:36
Alignment explanation
Indices: 22661915--22662028 Score: 111
Period size: 37 Copynumber: 3.1 Consensus size: 36
22661905 AAGTTGAAAA
* **
22661915 TAATAAGATAGGACATCACTTGATCTCATGCATATAT
1 TAATAA-ATAGTACATCACTCCATCTCATGCATATAT
* * * *
22661952 TAATAAATAGTACATGCATTCCATCTCCTGTATATGT
1 TAATAAATAGTACAT-CACTCCATCTCATGCATATAT
* * * *
22661989 TAATATATAGTACATCACTCCATGTCAGGCATATTT
1 TAATAAATAGTACATCACTCCATCTCATGCATATAT
22662025 TAAT
1 TAAT
22662029 GGTAGTGTCA
Statistics
Matches: 62, Mismatches: 14, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
36 27 0.44
37 35 0.56
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.36
Consensus pattern (36 bp):
TAATAAATAGTACATCACTCCATCTCATGCATATAT
Found at i:22663972 original size:18 final size:18
Alignment explanation
Indices: 22663937--22663975 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
22663927 TTTATTGTTA
**
22663937 CATGCATTCTTATATTGT
1 CATGCATTCACATATTGT
*
22663955 CATGCATTCACATTTTGT
1 CATGCATTCACATATTGT
22663973 CAT
1 CAT
22663976 TCATGTTCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.23, C:0.21, G:0.10, T:0.46
Consensus pattern (18 bp):
CATGCATTCACATATTGT
Found at i:22682845 original size:28 final size:28
Alignment explanation
Indices: 22682805--22682858 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
22682795 AAAGCTCTTG
22682805 TTTTTCATTCATCAAAACATCAAATTTC
1 TTTTTCATTCATCAAAACATCAAATTTC
22682833 TTTTTCATTCATCAAAACATCAAATT
1 TTTTTCATTCATCAAAACATCAAATT
22682859 GTCATTTCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.43
Consensus pattern (28 bp):
TTTTTCATTCATCAAAACATCAAATTTC
Found at i:22682866 original size:28 final size:28
Alignment explanation
Indices: 22682807--22682867 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
22682797 AGCTCTTGTT
*
22682807 TTTCATTCATCAAAACATCAAATTTCTT
1 TTTCATTCATCAAAACATCAAATTTCTA
22682835 TTTCATTCATCAAAACATCAAATTGTC-A
1 TTTCATTCATCAAAACATCAAATT-TCTA
22682863 TTTCA
1 TTTCA
22682868 AAATAAGGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 29 0.94
29 2 0.06
ACGTcount: A:0.36, C:0.21, G:0.02, T:0.41
Consensus pattern (28 bp):
TTTCATTCATCAAAACATCAAATTTCTA
Found at i:22687359 original size:19 final size:19
Alignment explanation
Indices: 22687331--22687387 Score: 78
Period size: 19 Copynumber: 3.0 Consensus size: 19
22687321 ACCAAGTGCT
*
22687331 TTTCCTAATCAAGGTAGGA
1 TTTCCTAATCAAAGTAGGA
* *
22687350 TTTCCAAATCAAAGTGGGA
1 TTTCCTAATCAAAGTAGGA
*
22687369 TTTTCTAATCAAAGTAGGA
1 TTTCCTAATCAAAGTAGGA
22687388 ATCTTTATTG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (19 bp):
TTTCCTAATCAAAGTAGGA
Found at i:22694814 original size:12 final size:13
Alignment explanation
Indices: 22694799--22694828 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
22694789 CCTATCTTCT
22694799 TTTTTTTC-TTAG
1 TTTTTTTCTTTAG
22694811 TTTTTTTCTTTAG
1 TTTTTTTCTTTAG
22694824 TTTTT
1 TTTTT
22694829 AGCTTAGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.47
13 9 0.53
ACGTcount: A:0.07, C:0.07, G:0.07, T:0.80
Consensus pattern (13 bp):
TTTTTTTCTTTAG
Found at i:22696056 original size:171 final size:171
Alignment explanation
Indices: 22695764--22696109 Score: 487
Period size: 171 Copynumber: 2.0 Consensus size: 171
22695754 ACTTTAAGAT
* **
22695764 CAAGCCTTCAATAATACAAAGAGTCCAAACTTCTATGTAGTTTGGAAGACTACCAAGTGATGATC
1 CAAGCCTTCAATAATACAAAGAGTCCAAACTTCTATATAGTTTGGAAGACTACCAAGCAATGATC
* ** *
22695829 TTAACCTTCAACTTTATAATTTTCTTAAATTATGTGATACTTTTTGCTATAATGGTGTTTCTAGT
66 CTAACCTTCAACTTTATAATTTTCTTAAATTATGTGATACTTTTCACTACAATGGTGTTTCTAGT
* * * ** *
22695894 GAAGCTATTGTGCTAAAAGTTTTTCATTTTTCTCTCTGGGA
131 GAAGCTATTATACCAAAACCTTTTCATTTTTCTCTCAGGGA
* * * * * *
22695935 CAAGCTTTCAATAATATAAATAGTCCAAACTTTTGTATAGTTTGGATGACTACCAAGCAATGATC
1 CAAGCCTTCAATAATACAAAGAGTCCAAACTTCTATATAGTTTGGAAGACTACCAAGCAATGATC
* *
22696000 CTAACCTTCAACTTTATAAATTTTCTTGAATTATGTGATAC-TTTCACTACAATGGTGTTTTTAG
66 CTAACCTTCAACTTTAT-AATTTTCTTAAATTATGTGATACTTTTCACTACAATGGTGTTTCTAG
22696064 TGAAGCTATTATACCAAAACCTTTTCATTTTTCTCTCAGGGA
130 TGAAGCTATTATACCAAAACCTTTTCATTTTTCTCTCAGGGA
22696106 CAAG
1 CAAG
22696110 GCAAAAAGTT
Statistics
Matches: 153, Mismatches: 21, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
171 131 0.86
172 22 0.14
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.39
Consensus pattern (171 bp):
CAAGCCTTCAATAATACAAAGAGTCCAAACTTCTATATAGTTTGGAAGACTACCAAGCAATGATC
CTAACCTTCAACTTTATAATTTTCTTAAATTATGTGATACTTTTCACTACAATGGTGTTTCTAGT
GAAGCTATTATACCAAAACCTTTTCATTTTTCTCTCAGGGA
Found at i:22699157 original size:17 final size:19
Alignment explanation
Indices: 22699129--22699163 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
22699119 AACAAAAGAA
22699129 TTAAAGAACT-AAAGAAAC
1 TTAAAGAACTAAAAGAAAC
22699147 TTAAA-AACTAAAAGAAA
1 TTAAAGAACTAAAAGAAA
22699164 GAAGAGAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.66, C:0.09, G:0.09, T:0.17
Consensus pattern (19 bp):
TTAAAGAACTAAAAGAAAC
Found at i:22699160 original size:18 final size:17
Alignment explanation
Indices: 22699118--22699163 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
22699108 CCAATAGCTT
22699118 AAAC-AAAAG-AATTAA
1 AAACTAAAAGAAATTAA
22699133 AGAACT-AAAGAAACTTAA
1 A-AACTAAAAGAAA-TTAA
22699151 AAACTAAAAGAAA
1 AAACTAAAAGAAA
22699164 GAAGAGAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 1 0.04
16 7 0.27
17 6 0.23
18 12 0.46
ACGTcount: A:0.70, C:0.09, G:0.09, T:0.13
Consensus pattern (17 bp):
AAACTAAAAGAAATTAA
Found at i:22700504 original size:13 final size:13
Alignment explanation
Indices: 22700486--22700518 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
22700476 AAAGTAGAGT
22700486 AATGGAAGATGAC
1 AATGGAAGATGAC
22700499 AATGGAAGATGAC
1 AATGGAAGATGAC
22700512 AATGGAA
1 AATGGAA
22700519 CTTGTCATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.48, C:0.06, G:0.30, T:0.15
Consensus pattern (13 bp):
AATGGAAGATGAC
Found at i:22702836 original size:17 final size:18
Alignment explanation
Indices: 22702800--22702839 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
22702790 GAAAAAGATC
22702800 AAAGAAAAGTAAAAAGAA
1 AAAGAAAAGTAAAAAGAA
22702818 AAAGAAAA-TAAATAA-AA
1 AAAGAAAAGTAAA-AAGAA
22702835 AAAGA
1 AAAGA
22702840 GTTTAGATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.07
Consensus pattern (18 bp):
AAAGAAAAGTAAAAAGAA
Found at i:22709384 original size:23 final size:24
Alignment explanation
Indices: 22709345--22709409 Score: 71
Period size: 23 Copynumber: 2.8 Consensus size: 24
22709335 CAAACAAATA
*
22709345 AATCTATT-TAAATAGACAATTTT
1 AATCTATTAAAAATAGACAATTTT
*
22709368 AAT-TATTAAAAATAGACAGTTTT
1 AATCTATTAAAAATAGACAATTTT
** *
22709391 TGTCTATTCAAAATAGACA
1 AATCTATTAAAAATAGACA
22709410 GTTATATATA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
22 4 0.11
23 17 0.49
24 14 0.40
ACGTcount: A:0.45, C:0.09, G:0.08, T:0.38
Consensus pattern (24 bp):
AATCTATTAAAAATAGACAATTTT
Found at i:22709398 original size:24 final size:23
Alignment explanation
Indices: 22709354--22709412 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 23
22709344 AAATCTATTT
*
22709354 AAATAGACAATTTTAATTATTAA
1 AAATAGACAGTTTTAATTATTAA
** *
22709377 AAATAGACAGTTTTTGTCTATTCA
1 AAATAGACAGTTTTAAT-TATTAA
22709401 AAATAGACAGTT
1 AAATAGACAGTT
22709413 ATATATACAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
23 14 0.45
24 17 0.55
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.37
Consensus pattern (23 bp):
AAATAGACAGTTTTAATTATTAA
Found at i:22714350 original size:19 final size:19
Alignment explanation
Indices: 22714326--22714380 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
22714316 TTTTAGGGTT
22714326 GGTTTAAGGTCTAGGTTAG
1 GGTTTAAGGTCTAGGTTAG
* *
22714345 GGTTTAGGGTCGAGGTTTAG
1 GGTTTAAGGTCTAGG-TTAG
* *
22714365 AG-TTAAGGTTTAGGTT
1 GGTTTAAGGTCTAGGTT
22714381 TAGCATTAGC
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
18 2 0.07
19 22 0.76
20 5 0.17
ACGTcount: A:0.20, C:0.04, G:0.38, T:0.38
Consensus pattern (19 bp):
GGTTTAAGGTCTAGGTTAG
Found at i:22714381 original size:6 final size:6
Alignment explanation
Indices: 22714317--22714429 Score: 59
Period size: 6 Copynumber: 17.7 Consensus size: 6
22714307 CATGATTGGT
* * **
22714317 TTTAGG GTT-GG TTTAAGG TCTAGG -TTAGGG TTTAGGG TCGAGG TTTAGAG
1 TTTAGG TTTAGG TTT-AGG TTTAGG TTTA-GG TTTA-GG TTTAGG TTTAG-G
* * * *
22714367 TTAAGG TTTAGG TTTAGC ATTAGCTT TTTAGG TTTAGGG TTTAGG ATTTAGGG
1 TTTAGG TTTAGG TTTAGG TTTAG--G TTTAGG TTTA-GG TTTAGG -TTTA-GG
22714420 TTTAGG TTTA
1 TTTAGG TTTA
22714430 TGCTATGTTT
Statistics
Matches: 82, Mismatches: 15, Indels: 20
0.70 0.13 0.17
Matches are distributed among these distances:
5 6 0.07
6 39 0.48
7 31 0.38
8 6 0.07
ACGTcount: A:0.19, C:0.04, G:0.34, T:0.43
Consensus pattern (6 bp):
TTTAGG
Found at i:22714409 original size:7 final size:7
Alignment explanation
Indices: 22714393--22714429 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
22714383 GCATTAGCTT
22714393 TTTA-GG
1 TTTAGGG
22714399 TTTAGGG
1 TTTAGGG
*
22714406 TTTAGGA
1 TTTAGGG
22714413 TTTAGGG
1 TTTAGGG
22714420 TTTA-GG
1 TTTAGGG
22714426 TTTA
1 TTTA
22714430 TGCTATGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 10 0.36
7 18 0.64
ACGTcount: A:0.19, C:0.00, G:0.32, T:0.49
Consensus pattern (7 bp):
TTTAGGG
Found at i:22714416 original size:14 final size:13
Alignment explanation
Indices: 22714345--22714429 Score: 73
Period size: 13 Copynumber: 6.5 Consensus size: 13
22714335 TCTAGGTTAG
**
22714345 GGTTTAGGGTCGA
1 GGTTTAGGGTTTA
* *
22714358 GGTTTAGAGTTAA
1 GGTTTAGGGTTTA
22714371 GGTTTA-GGTTTA
1 GGTTTAGGGTTTA
** **
22714383 GCATTAGCTTTTTA
1 GGTTTAG-GGTTTA
22714397 GGTTTAGGGTTTA
1 GGTTTAGGGTTTA
22714410 GGATTTAGGGTTTA
1 GG-TTTAGGGTTTA
22714424 GGTTTA
1 GGTTTA
22714430 TGCTATGTTT
Statistics
Matches: 56, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
12 8 0.14
13 26 0.46
14 22 0.39
ACGTcount: A:0.20, C:0.04, G:0.33, T:0.44
Consensus pattern (13 bp):
GGTTTAGGGTTTA
Found at i:22716286 original size:23 final size:25
Alignment explanation
Indices: 22716254--22716306 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
22716244 CATATATTAG
*
22716254 TCAAATATATG-AAAT-AAGCACAA
1 TCAAACATATGCAAATCAAGCACAA
*
22716277 TCAAACATATGCATATCAAGCACAA
1 TCAAACATATGCAAATCAAGCACAA
*
22716302 GCAAA
1 TCAAA
22716307 TTTGTCCATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 10 0.40
24 3 0.12
25 12 0.48
ACGTcount: A:0.53, C:0.19, G:0.09, T:0.19
Consensus pattern (25 bp):
TCAAACATATGCAAATCAAGCACAA
Found at i:22716882 original size:16 final size:16
Alignment explanation
Indices: 22716848--22716882 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
22716838 ATACAAGCTC
* *
22716848 ATACCAATTGTTTAGG
1 ATACCAATTGTTAAAG
22716864 ATACCAATTGTTAAAG
1 ATACCAATTGTTAAAG
22716880 ATA
1 ATA
22716883 TGTTATCACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.34
Consensus pattern (16 bp):
ATACCAATTGTTAAAG
Found at i:22723794 original size:20 final size:21
Alignment explanation
Indices: 22723765--22723819 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
22723755 GTGTTTATTG
22723765 TTTAGGGTTTAGGGTTTCG-A
1 TTTAGGGTTTAGGGTTTCGCA
* *
22723785 TTTGGGGTTT-GGGTTTTGCA
1 TTTAGGGTTTAGGGTTTCGCA
*
22723805 TTTAAGGTTTAGGGT
1 TTTAGGGTTTAGGGT
22723820 GTAGGTTTAG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 7 0.24
20 18 0.62
21 4 0.14
ACGTcount: A:0.13, C:0.04, G:0.36, T:0.47
Consensus pattern (21 bp):
TTTAGGGTTTAGGGTTTCGCA
Found at i:22723843 original size:25 final size:26
Alignment explanation
Indices: 22723810--22723859 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
22723800 TTGCATTTAA
*
22723810 GGTTTAGGGTGTAGGTTTA-GATTTT
1 GGTTTAGGGTGTAGATTTAGGATTTT
*
22723835 GGTTTAGGGTTTAGATTTAGGATTT
1 GGTTTAGGGTGTAGATTTAGGATTT
22723860 CATGGAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.18, C:0.00, G:0.34, T:0.48
Consensus pattern (26 bp):
GGTTTAGGGTGTAGATTTAGGATTTT
Found at i:22723883 original size:7 final size:7
Alignment explanation
Indices: 22723730--22723884 Score: 56
Period size: 7 Copynumber: 22.7 Consensus size: 7
22723720 TTTAAGGTAA
*
22723730 GGTTTAA
1 GGTTTAG
22723737 GGTTTA-
1 GGTTTAG
22723743 GGTTTA-
1 GGTTTAG
*
22723749 GGTTTTG
1 GGTTTAG
* *
22723756 TGTTTAT
1 GGTTTAG
*
22723763 TGTTTAG
1 GGTTTAG
22723770 GGTTTAG
1 GGTTTAG
*
22723777 GGTTT-C
1 GGTTTAG
* *
22723783 GATTTGG
1 GGTTTAG
22723790 GGTTT-G
1 GGTTTAG
*
22723796 GGTTTTG
1 GGTTTAG
** *
22723803 CATTTAA
1 GGTTTAG
22723810 GGTTTAG
1 GGTTTAG
*
22723817 GGTGTA-
1 GGTTTAG
22723823 GGTTTA-
1 GGTTTAG
* *
22723829 GATTT-T
1 GGTTTAG
22723835 GGTTTAG
1 GGTTTAG
22723842 GGTTTA-
1 GGTTTAG
*
22723848 GATTTAG
1 GGTTTAG
*
22723855 GATTTCATG
1 GGTTT-A-G
*
22723864 GAATTTGAG
1 G-GTTT-AG
22723873 GGTTTAG
1 GGTTTAG
22723880 GGTTT
1 GGTTT
22723885 GATGAAATTT
Statistics
Matches: 114, Mismatches: 25, Indels: 18
0.73 0.16 0.11
Matches are distributed among these distances:
6 39 0.34
7 62 0.54
8 4 0.04
9 4 0.04
10 5 0.04
ACGTcount: A:0.16, C:0.02, G:0.34, T:0.48
Consensus pattern (7 bp):
GGTTTAG
Found at i:22724093 original size:23 final size:24
Alignment explanation
Indices: 22724067--22724111 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
22724057 ATAAACATGT
*
22724067 AATGCATGAAA-ATTCAAAACTAA
1 AATGCATCAAATATTCAAAACTAA
* *
22724090 AATGGATCAAATATTGAAAACT
1 AATGCATCAAATATTCAAAACT
22724112 TTGAATTTTG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 9 0.50
24 9 0.50
ACGTcount: A:0.53, C:0.11, G:0.11, T:0.24
Consensus pattern (24 bp):
AATGCATCAAATATTCAAAACTAA
Found at i:22724184 original size:11 final size:11
Alignment explanation
Indices: 22724168--22724198 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
22724158 ACCAAATAAC
22724168 TTTTTCAATAT
1 TTTTTCAATAT
*
22724179 TTTTTCTATAT
1 TTTTTCAATAT
22724190 TTTTTCAAT
1 TTTTTCAAT
22724199 GAAACTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.23, C:0.10, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTTTCAATAT
Found at i:22725907 original size:143 final size:142
Alignment explanation
Indices: 22725623--22725958 Score: 342
Period size: 143 Copynumber: 2.4 Consensus size: 142
22725613 ATTTGATATC
* * * *
22725623 AAGAAGGTCAAATTACGAAAATACCTTTAAAGGGTATTTTGGTAATTTTACACCTCTCAAGGTAC
1 AAGAAGGTCAAATTACGAAAATACCCTTAAGGGGCATTTTGGTAATTTCACACCTCTCAAGGTAC
* * * ** ** *
22725688 TACTGTATTTTGAATGCACAAAAAATCATCAAATATTATAAAATCATGATTCGAAAAGTTTTGTG
66 AACAGTATTTTCAAAACACAAAAAATCATCAAATATTATAAAATCATGATTCG-AAAGCCTTGTC
22725753 AAAAATCAACCTT
130 AAAAATCAACCTT
* *
22725766 AGGAAGGTCAAATTACAAAAATACCCTTAAGGGGCATTTTGGTAATTTCACACCTCTCAAGGTAC
1 AAGAAGGTCAAATTACGAAAATACCCTTAAGGGGCATTTTGGTAATTTCACACCTCTCAAGGTAC
* ** ** *
22725831 AATCAAG-CTTTTCAAAATTCTTAAAATCATTAAATATTATAAAAT-ATGATAT-G-AAGCCTT-
66 AA-C-AGTATTTTCAAAACACAAAAAATCATCAAATATTATAAAATCATGAT-TCGAAAGCCTTG
22725891 TCACAAAATTCTAACCTT
128 TCA-AAAA-TC-AACCTT
* * * *
22725909 AAGAATGTCAAATTATGAAAATA-CCTCTAAGGGGCATTTTGATACTTTCA
1 AAGAAGGTCAAATTACGAAAATACCCT-TAAGGGGCATTTTGGTAATTTCA
22725959 TACTTCCTAA
Statistics
Matches: 160, Mismatches: 26, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
140 2 0.01
141 9 0.06
142 5 0.03
143 112 0.70
144 31 0.19
145 1 0.01
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.32
Consensus pattern (142 bp):
AAGAAGGTCAAATTACGAAAATACCCTTAAGGGGCATTTTGGTAATTTCACACCTCTCAAGGTAC
AACAGTATTTTCAAAACACAAAAAATCATCAAATATTATAAAATCATGATTCGAAAGCCTTGTCA
AAAATCAACCTT
Found at i:22726273 original size:19 final size:20
Alignment explanation
Indices: 22726234--22726283 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
22726224 AAGTTTTGTG
*
22726234 CAATTTTGATTTTGTTTGAT
1 CAATTTTGACTTTGTTTGAT
*
22726254 CGATTTTGACTTTG-TTGAT
1 CAATTTTGACTTTGTTTGAT
*
22726273 CAAGTTTGACT
1 CAATTTTGACT
22726284 AGATTTTATC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 14 0.54
20 12 0.46
ACGTcount: A:0.20, C:0.10, G:0.18, T:0.52
Consensus pattern (20 bp):
CAATTTTGACTTTGTTTGAT
Found at i:22726899 original size:19 final size:19
Alignment explanation
Indices: 22726863--22726903 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
22726853 TTCCTAAAAA
22726863 AAATCAAAATAAACAAACT
1 AAATCAAAATAAACAAACT
*
22726882 AAATCTAAAATACA-AAACT
1 AAATC-AAAATAAACAAACT
22726901 AAA
1 AAA
22726904 ATTTGAAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.68, C:0.15, G:0.00, T:0.17
Consensus pattern (19 bp):
AAATCAAAATAAACAAACT
Found at i:22735061 original size:17 final size:17
Alignment explanation
Indices: 22735039--22735076 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
22735029 GTGAAGTAAA
*
22735039 TAAAA-TATTATTTTATT
1 TAAAATTATT-TTTTAAT
22735056 TAAAATTATTTTTTAAT
1 TAAAATTATTTTTTAAT
22735073 TAAA
1 TAAA
22735077 CAAAAGTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TAAAATTATTTTTTAAT
Found at i:22742385 original size:24 final size:24
Alignment explanation
Indices: 22742356--22742439 Score: 78
Period size: 24 Copynumber: 3.5 Consensus size: 24
22742346 TACCGTTGCT
22742356 TGCTACCTACTACATGCTACTGCC
1 TGCTACCTACTACATGCTACTGCC
* * * * *
22742380 TGCTACCTACTGCTTGTTGCTTCC
1 TGCTACCTACTACATGCTACTGCC
* ***
22742404 TGCTACCCACTACCCACTACTGCC
1 TGCTACCTACTACATGCTACTGCC
*
22742428 TGTTACCTACTA
1 TGCTACCTACTA
22742440 GATATTAATG
Statistics
Matches: 45, Mismatches: 15, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.18, C:0.38, G:0.12, T:0.32
Consensus pattern (24 bp):
TGCTACCTACTACATGCTACTGCC
Found at i:22742648 original size:26 final size:26
Alignment explanation
Indices: 22742619--22742678 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
22742609 TTTTATTTGA
*
22742619 GTATTGCTCACTAATTTAAAGCTTGT
1 GTATTGCTCACTAATTTAAAGCTTAT
* *
22742645 GTATTGCTCACTGATTTAGAGCTTAT
1 GTATTGCTCACTAATTTAAAGCTTAT
*
22742671 GTCTTGCT
1 GTATTGCT
22742679 TAGTGACTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.22, C:0.17, G:0.18, T:0.43
Consensus pattern (26 bp):
GTATTGCTCACTAATTTAAAGCTTAT
Found at i:22742757 original size:44 final size:44
Alignment explanation
Indices: 22742703--22742791 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 44
22742693 TTATGAAGCT
*
22742703 TGTGTGTTGCTCTTTAATGTTATTTGAGACATAGACTCACTCTA
1 TGTGTATTGCTCTTTAATGTTATTTGAGACATAGACTCACTCTA
*
22742747 TGTGTATTGCTCTTTAATGTTATTTGAGACATAGACTTACTCTA
1 TGTGTATTGCTCTTTAATGTTATTTGAGACATAGACTCACTCTA
22742791 T
1 T
22742792 ATTACGTATT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.24, C:0.15, G:0.17, T:0.45
Consensus pattern (44 bp):
TGTGTATTGCTCTTTAATGTTATTTGAGACATAGACTCACTCTA
Found at i:22742901 original size:22 final size:22
Alignment explanation
Indices: 22742854--22742901 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
22742844 AGCTTGTGTT
* **
22742854 TATAAAGTTTGTGTTTAGATTT
1 TATAAAGCTTGTGTTTAGATAC
22742876 TATAAAGCTTGTGTTTATGA-AC
1 TATAAAGCTTGTGTTTA-GATAC
22742898 TATA
1 TATA
22742902 TGAAGTACAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 20 0.91
23 2 0.09
ACGTcount: A:0.31, C:0.04, G:0.17, T:0.48
Consensus pattern (22 bp):
TATAAAGCTTGTGTTTAGATAC
Found at i:22746702 original size:68 final size:68
Alignment explanation
Indices: 22746593--22746731 Score: 269
Period size: 68 Copynumber: 2.0 Consensus size: 68
22746583 CAAACAACAA
*
22746593 TACAGGTACCCACTATTCCTTTGCATTTCTAATATTTTGCTGTAGTTAACTTCATCATCTTTCTT
1 TACAGGCACCCACTATTCCTTTGCATTTCTAATATTTTGCTGTAGTTAACTTCATCATCTTTCTT
22746658 CTT
66 CTT
22746661 TACAGGCACCCACTATTCCTTTGCATTTCTAATATTTTGCTGTAGTTAACTTCATCATCTTTCTT
1 TACAGGCACCCACTATTCCTTTGCATTTCTAATATTTTGCTGTAGTTAACTTCATCATCTTTCTT
22746726 CTT
66 CTT
22746729 TAC
1 TAC
22746732 CTTTTTTTTT
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 70 1.00
ACGTcount: A:0.21, C:0.24, G:0.09, T:0.46
Consensus pattern (68 bp):
TACAGGCACCCACTATTCCTTTGCATTTCTAATATTTTGCTGTAGTTAACTTCATCATCTTTCTT
CTT
Found at i:22750571 original size:19 final size:19
Alignment explanation
Indices: 22750547--22750586 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
22750537 TTTATCTTTC
*
22750547 ATCTATTTATTT-TTTATTT
1 ATCTATTT-TTTCTTTAGTT
22750566 ATCTATTTTTTCTTTAGTT
1 ATCTATTTTTTCTTTAGTT
22750585 AT
1 AT
22750587 TTACTTTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 3 0.16
19 16 0.84
ACGTcount: A:0.20, C:0.07, G:0.03, T:0.70
Consensus pattern (19 bp):
ATCTATTTTTTCTTTAGTT
Found at i:22751490 original size:14 final size:12
Alignment explanation
Indices: 22751466--22751500 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
22751456 TTTTGTATTA
22751466 TTTTTTATTTTT
1 TTTTTTATTTTT
*
22751478 CTTTTTTACTTTT
1 -TTTTTTATTTTT
22751491 TTTTTTATTT
1 TTTTTTATTT
22751501 ATCAAATTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.09, C:0.06, G:0.00, T:0.86
Consensus pattern (12 bp):
TTTTTTATTTTT
Found at i:22752729 original size:31 final size:31
Alignment explanation
Indices: 22752694--22752752 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
22752684 TTCACTTCGG
* *
22752694 TTTTCTAATGGTTTATAGTAGTTCAATCTAA
1 TTTTCTAATGGTTTAGAGTAATTCAATCTAA
*
22752725 TTTTCTAATGGTTTGGAGTAATTCAATC
1 TTTTCTAATGGTTTAGAGTAATTCAATC
22752753 CAGTTTGGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.27, C:0.10, G:0.15, T:0.47
Consensus pattern (31 bp):
TTTTCTAATGGTTTAGAGTAATTCAATCTAA
Found at i:22757088 original size:24 final size:24
Alignment explanation
Indices: 22757057--22757112 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
22757047 AATTACAAAG
* *
22757057 ATTT-TTTTGTTATTTGATTGGAC
1 ATTTATTTTATTATTTGATTAGAC
22757080 ATTTATTTTATTATTTGATTAGAC
1 ATTTATTTTATTATTTGATTAGAC
22757104 ATTTATTTT
1 ATTTATTTT
22757113 TAGCATCTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 4 0.13
24 26 0.87
ACGTcount: A:0.23, C:0.04, G:0.11, T:0.62
Consensus pattern (24 bp):
ATTTATTTTATTATTTGATTAGAC
Found at i:22759875 original size:26 final size:26
Alignment explanation
Indices: 22759845--22759914 Score: 81
Period size: 26 Copynumber: 2.8 Consensus size: 26
22759835 TTTTATTTAA
* *
22759845 GTATTGTTCACTGATTTAGAGCTTGT
1 GTATTGCTCACTGATTTAAAGCTTGT
*
22759871 GTATTGCTCATTGATTTAAAGC-T-T
1 GTATTGCTCACTGATTTAAAGCTTGT
* *
22759895 ATATTGCTCACTGACTTAAA
1 GTATTGCTCACTGATTTAAA
22759915 CTTTATGAAG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
24 18 0.47
25 1 0.03
26 19 0.50
ACGTcount: A:0.26, C:0.14, G:0.17, T:0.43
Consensus pattern (26 bp):
GTATTGCTCACTGATTTAAAGCTTGT
Found at i:22766420 original size:12 final size:12
Alignment explanation
Indices: 22766403--22766435 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
22766393 GAAAATTTTT
22766403 GCATTGGCACAA
1 GCATTGGCACAA
22766415 GCATTGGCACAA
1 GCATTGGCACAA
22766427 GCATTGGCA
1 GCATTGGCA
22766436 TTTTTTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.30, C:0.24, G:0.27, T:0.18
Consensus pattern (12 bp):
GCATTGGCACAA
Found at i:22767174 original size:103 final size:101
Alignment explanation
Indices: 22766995--22767301 Score: 323
Period size: 103 Copynumber: 3.0 Consensus size: 101
22766985 CATTAAAACC
* * * * *
22766995 CACTCAGTGGTGATATC-AGAGTATTAAAATCTGAATTTCATTTTCTCAGTGTGAGTTTTCGTTA
1 CACTCAATGGTGATATCTA-AGTATTAAAGTCTGAATTTCATTTTCTC-GAGAGAGTTTTCATTA
* *
22767059 AACAATTCTTAGTAGTGATATCTGAGTTTTTTTCAAAAT
64 AACAATTCTTAGTGGTGATAT-TGAGCTTTTTTCAAAAT
* * *
22767098 CACTCAATGGTGATATCTAAGTATTATAGTCTAAATTTCATTTTTTCGGAGAGAGTTTTCATTAA
1 CACTCAATGGTGATATCTAAGTATTAAAGTCTGAATTTCATTTTCTC-GAGAGAGTTTTCATTAA
* * * *
22767163 ACAATTTTTAGTGGTGATATTCAAGCCTTTTTCGAAAT
65 ACAATTCTTAGTGGTGATATT-GAGCTTTTTTCAAAAT
* ** * * * * *
22767201 TACTCAATAATGATATCTGAGTATTAAAGTTTGAA-TTCATTTACTCTATATGAGTTTTCATTAA
1 CACTCAATGGTGATATCTAAGTATTAAAGTCTGAATTTCATTTTCTCGAGA-GAGTTTTCATTAA
*
22767265 ACAATTCTTGGTGGTGATATTTGAGCTTTTTT-AAAAT
65 ACAATTCTTAGTGGTGATA-TTGAGCTTTTTTCAAAAT
22767302 NNNNNNNNNN
Statistics
Matches: 169, Mismatches: 31, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
101 6 0.04
102 48 0.28
103 114 0.67
104 1 0.01
ACGTcount: A:0.30, C:0.12, G:0.15, T:0.43
Consensus pattern (101 bp):
CACTCAATGGTGATATCTAAGTATTAAAGTCTGAATTTCATTTTCTCGAGAGAGTTTTCATTAAA
CAATTCTTAGTGGTGATATTGAGCTTTTTTCAAAAT
Found at i:22768976 original size:22 final size:22
Alignment explanation
Indices: 22768951--22768994 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
22768941 ATTTAGAGAG
22768951 ATTCACATCCCAAAAATCAAAT
1 ATTCACATCCCAAAAATCAAAT
***
22768973 ATTCACATTTGAAAAATCAAAT
1 ATTCACATCCCAAAAATCAAAT
22768995 CAAATATTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.50, C:0.20, G:0.02, T:0.27
Consensus pattern (22 bp):
ATTCACATCCCAAAAATCAAAT
Found at i:22769001 original size:27 final size:27
Alignment explanation
Indices: 22768964--22769017 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
22768954 CACATCCCAA
22768964 AAATCAAATATTCACATTTGAAAAATC
1 AAATCAAATATTCACATTTGAAAAATC
22768991 AAATCAAATATTCACATTTGAAAAATC
1 AAATCAAATATTCACATTTGAAAAATC
22769018 TTCAAAATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.52, C:0.15, G:0.04, T:0.30
Consensus pattern (27 bp):
AAATCAAATATTCACATTTGAAAAATC
Found at i:22769227 original size:21 final size:22
Alignment explanation
Indices: 22769199--22769260 Score: 65
Period size: 24 Copynumber: 2.8 Consensus size: 22
22769189 ATGAAAGTTC
22769199 AAAG-TTCACATCTAAAAGT-T
1 AAAGATTCACATCTAAAAGTAT
* *
22769219 AAATATTCACATTTGAAAAAGTAT
1 AAAGATTCACATCT--AAAAGTAT
*
22769243 AGAGATTCACATCTAAAA
1 AAAGATTCACATCTAAAA
22769261 ATCAAAGATT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
20 3 0.09
21 8 0.24
22 4 0.12
23 6 0.18
24 12 0.36
ACGTcount: A:0.48, C:0.13, G:0.10, T:0.29
Consensus pattern (22 bp):
AAAGATTCACATCTAAAAGTAT
Found at i:22769257 original size:45 final size:45
Alignment explanation
Indices: 22769067--22769365 Score: 214
Period size: 45 Copynumber: 6.7 Consensus size: 45
22769057 TTTTTTTCAA
* * *
22769067 AGATTCACATCTAAAAAATCAATGATTCACA-TTGGAAAAGTTTTAG
1 AGATTCACATCTAAAAATTAAAT-ATTCACATTTGAAAAAG-TTTAG
* * * * *
22769113 AGAATCACATCTAAAAATAAAATATTCTCATTTGAAAATGTTTAA
1 AGATTCACATCTAAAAATTAAATATTCACATTTGAAAAAGTTTAG
* * ** * ** * * * *
22769158 AGATACATATAAAAAAATCAAAGGTTTACATATG--AAAGTTCAA
1 AGATTCACATCTAAAAATTAAATATTCACATTTGAAAAAGTTTAG
* *
22769201 AG-TTCACATCTAAAAGTTAAATATTCACATTTGAAAAAGTATAG
1 AGATTCACATCTAAAAATTAAATATTCACATTTGAAAAAGTTTAG
* * **
22769245 AGATTCACATCTAAAAATCAAAGATTGTCATTTGAAAAA-TTTAG
1 AGATTCACATCTAAAAATTAAATATTCACATTTGAAAAAGTTTAG
* * * * ** * *
22769289 TGATTCATATTTAAAAATAAAATATTTTCA-TTCAAAAAATTTAG
1 AGATTCACATCTAAAAATTAAATATTCACATTTGAAAAAGTTTAG
* * *
22769333 AGATTCACATATAAAAATTATAGATTCACATTT
1 AGATTCACATCTAAAAATTAAATATTCACATTT
22769366 TAAGGGTTCA
Statistics
Matches: 192, Mismatches: 55, Indels: 13
0.74 0.21 0.05
Matches are distributed among these distances:
42 21 0.11
43 16 0.08
44 63 0.33
45 66 0.34
46 26 0.14
ACGTcount: A:0.47, C:0.11, G:0.09, T:0.33
Consensus pattern (45 bp):
AGATTCACATCTAAAAATTAAATATTCACATTTGAAAAAGTTTAG
Found at i:22769261 original size:24 final size:22
Alignment explanation
Indices: 22769065--22769411 Score: 81
Period size: 21 Copynumber: 15.8 Consensus size: 22
22769055 AATTTTTTTC
* *
22769065 AAAGATTCACATCTAAAAAATC
1 AAAGATTCACATCTAAAAAGTT
* *
22769087 AATGATTCACAT-TGGAAAAGTTTT
1 AAAGATTCACATCT-AAAAAG--TT
* * *
22769111 AGAGAATCACATCTAAAAA-TA
1 AAAGATTCACATCTAAAAAGTT
* * * *
22769132 AAATATTCTCATTTGAAAATGTTT
1 AAAGATTCACATCT-AAAAAG-TT
* * *
22769156 AAAGA-T-ACATATAAAAAAATC
1 AAAGATTCACATCT-AAAAAGTT
* * * *
22769177 AAAGGTTTACATAT-GAAAGTT
1 AAAGATTCACATCTAAAAAGTT
22769198 CAAAG-TTCACATCT-AAAAGTT
1 -AAAGATTCACATCTAAAAAGTT
* *
22769219 AAATATTCACATTTGAAAAAGTAT
1 AAAGATTCACATCT-AAAAAGT-T
* *
22769243 AGAGATTCACATCTAAAAA-TC
1 AAAGATTCACATCTAAAAAGTT
** * *
22769264 AAAGATTGTCATTTGAAAAATTT
1 AAAGATTCACATCT-AAAAAGTT
** * * *
22769287 AGTGATTCATATTTAAAAA-TA
1 AAAGATTCACATCTAAAAAGTT
* ** * *
22769308 AAATATTTTCATTCAAAAAATTT
1 AAAGATTCACA-TCTAAAAAGTT
* *
22769331 AGAGATTCACATATAAAAA-TT
1 AAAGATTCACATCTAAAAAGTT
* * * **
22769352 ATAGATTCACATTTTAAGGGTT
1 AAAGATTCACATCTAAAAAGTT
* *
22769374 CAAAGATTCATAT-TGAAAAA-TC
1 -AAAGATTCACATCT-AAAAAGTT
22769396 AAAGATTCACAT-TAAA
1 AAAGATTCACATCTAAA
22769412 GTTTTGGCAT
Statistics
Matches: 230, Mismatches: 74, Indels: 44
0.66 0.21 0.13
Matches are distributed among these distances:
20 6 0.03
21 85 0.37
22 59 0.26
23 48 0.21
24 31 0.13
25 1 0.00
ACGTcount: A:0.48, C:0.11, G:0.10, T:0.32
Consensus pattern (22 bp):
AAAGATTCACATCTAAAAAGTT
Found at i:22769281 original size:87 final size:88
Alignment explanation
Indices: 22769065--22769281 Score: 213
Period size: 87 Copynumber: 2.4 Consensus size: 88
22769055 AATTTTTTTC
* * * * *
22769065 AAAGATTCACATCTAAAAAATCAATGATTCACATTGGAAAAGTTTTAGAGAATCACATCTAAAAA
1 AAAGATTCACATCT-AAAAATCAAAGATT-TCATTTG-AAAGTTTCAAAGAATCACATCTAAAAA
* * *
22769130 TAAAATATTCTCATTTGAAAATGTTT
63 TAAAATATTCACATTTGAAAAAGTAT
* * ** * * * * *
22769156 AAAGATACATATAAAAAAATCAAAGGTTTACATATGAAAG-TTCAAAG-TTCACATCTAAAAGTT
1 AAAGATTCACATCTAAAAATCAAAGATTT-CATTTGAAAGTTTCAAAGAATCACATCTAAAAATA
22769219 AAATATTCACATTTGAAAAAGTAT
65 AAATATTCACATTTGAAAAAGTAT
*
22769243 AGAGATTCACATCTAAAAATCAAAGATTGTCATTTGAAA
1 AAAGATTCACATCTAAAAATCAAAGATT-TCATTTGAAA
22769282 AATTTAGTGA
Statistics
Matches: 100, Mismatches: 24, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
87 64 0.64
88 6 0.06
89 4 0.04
90 16 0.16
91 10 0.10
ACGTcount: A:0.48, C:0.12, G:0.11, T:0.30
Consensus pattern (88 bp):
AAAGATTCACATCTAAAAATCAAAGATTTCATTTGAAAGTTTCAAAGAATCACATCTAAAAATAA
AATATTCACATTTGAAAAAGTAT
Found at i:22774513 original size:146 final size:146
Alignment explanation
Indices: 22774259--22774536 Score: 337
Period size: 146 Copynumber: 1.9 Consensus size: 146
22774249 AAAACTCCTT
* * * * **
22774259 TAATAATCCCCTTATAAAAATTGAAAGGGATTATTCAAGGCATTTTTGGCCATAAACGTCTTAAC
1 TAATAATCCACTCATAAAAATTGAAAGGGATTATTCAAGGCATTTCTGGCCAAAAACCCCTTAAC
*
22774324 TAACCCTATTCAATTTTTTCTAAGACATTATTCAAAGTGTTTTCC-TAAAAACGCCTTGAATAAT
66 TAACCCTATTCAATTTTTTCTAAGACATTATTCAAAGTATTTTCCATAAAAACGCCTTGAATAAT
22774388 CCCCAAAAAACACTTA
131 CCCCAAAAAACACTTA
* * *
22774404 TAATAATCCACTCATAAAAATATGAAAGGGATTATTTAAGGTATTTCTGGCTAAAAACCCCTTCA
1 TAATAATCCACTCATAAAAAT-TGAAAGGGATTATTCAAGGCATTTCTGGCCAAAAACCCCTT-A
** * ** * *
22774469 A-TAATTGC-ATTCAATTTTTTGTAAGGGATTATTCAAGGTATTTTCCATGTAAAAATGCCTTGA
64 ACTAA-CCCTATTCAATTTTTTCTAAGACATTATTCAAAGTATTTTCCA--TAAAAACGCCTTGA
22774532 ATAAT
126 ATAAT
22774537 TACCTTATAA
Statistics
Matches: 110, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
145 19 0.17
146 70 0.64
147 3 0.03
149 18 0.16
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.35
Consensus pattern (146 bp):
TAATAATCCACTCATAAAAATTGAAAGGGATTATTCAAGGCATTTCTGGCCAAAAACCCCTTAAC
TAACCCTATTCAATTTTTTCTAAGACATTATTCAAAGTATTTTCCATAAAAACGCCTTGAATAAT
CCCCAAAAAACACTTA
Found at i:22774689 original size:64 final size:62
Alignment explanation
Indices: 22774492--22774703 Score: 200
Period size: 64 Copynumber: 3.4 Consensus size: 62
22774482 ATTTTTTGTA
* * * *
22774492 AGGGATTATTCAAGGTATTTTCCATG-TAAAAATGCCTTGAATAATTACCTT-AT-AAAATTGAA
1 AGGGATTATTCAAGGCATTTT--TTGCCAAAAATGCCTTGAATAA-T-CCTTAATAAAAATTAAA
22774554 -
62 G
* * * **
22774554 AGGGATTATTCAAGGCTTTTTTTGCCAAAAATTGTCTTGAATAAT-CTTAAAAAAAATTATGGG
1 AGGGATTATTCAAGGCATTTTTTGCCAAAAA-TGCCTTGAATAATCCTTAATAAAAATTA-AAG
* *
22774617 AGACGATTATTGAAGGCATTTTTTGCCAAAAATGCCTTGAATAATCCTCTAATAAAAATTTAAAG
1 AG-GGATTATTCAAGGCATTTTTTGCCAAAAATGCCTTGAATAATCCT-TAATAAAAA-TTAAAG
*
22774682 AGGGATTATTCAAGACATTTTT
1 AGGGATTATTCAAGGCATTTTT
22774704 GGCTTGAAAC
Statistics
Matches: 121, Mismatches: 19, Indels: 18
0.77 0.12 0.11
Matches are distributed among these distances:
59 3 0.02
60 3 0.02
61 12 0.10
62 30 0.25
63 14 0.12
64 45 0.37
65 11 0.09
66 3 0.02
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (62 bp):
AGGGATTATTCAAGGCATTTTTTGCCAAAAATGCCTTGAATAATCCTTAATAAAAATTAAAG
Found at i:22775900 original size:3 final size:3
Alignment explanation
Indices: 22775894--22775940 Score: 60
Period size: 3 Copynumber: 15.7 Consensus size: 3
22775884 TTTTTTTACT
* *
22775894 TTA TTA TGTA TTA TTA TTA TTA ATA ATA TTA TTA TT- TTA TTA TTA
1 TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
22775939 TT
1 TT
22775941 GCTTTTCTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
2 2 0.05
3 35 0.88
4 3 0.08
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:22783421 original size:55 final size:55
Alignment explanation
Indices: 22783262--22783561 Score: 165
Period size: 55 Copynumber: 5.5 Consensus size: 55
22783252 AATATAATAA
* * * ** * *
22783262 AAAAGTTAAAACATATAAGTCTATACTGACAATCCCTAACAAT-TGCTATAGGTAAG
1 AAAA-TTAAAAAATACAAGTCTATACTGATAATGTCTAACCATCAG-TATAGGTAAG
** * * * *
22783318 AAAATTAAAGCATACAATTCTATACTGATAGTTTCTAACCATCGGTATAGGTAAG
1 AAAATTAAAAAATACAAGTCTATACTGATAATGTCTAACCATCAGTATAGGTAAG
* **
22783373 AAAATTAAAAAATACTAGTCTATACTGATGAATGT-TAAGTATCAGTATAGGTAAG
1 AAAATTAAAAAATACAAGTCTATACTGAT-AATGTCTAACCATCAGTATAGGTAAG
* * * * **
22783428 ------AAAAATTACAAGTTTATACTGACAAGCGT-TAACTGTC-GATATAGGTAAG
1 AAAATTAAAAAATACAAGTCTATACTGATAA-TGTCTAACCATCAG-TATAGGTAAG
* * ** * * *
22783477 AAAAATTAAAACATATAAGTCTATACTGA-AGGGCACTAGCCATCGGTATAGGTGAA-
1 -AAAATTAAAAAATACAAGTCTATACTGATAATG-TCTAACCATCAGTATAGGT-AAG
* *
22783533 AAAATTAAAACATACAAATCTATACTGAT
1 AAAATTAAAAAATACAAGTCTATACTGAT
22783562 GGGCTTTAAG
Statistics
Matches: 191, Mismatches: 37, Indels: 32
0.73 0.14 0.12
Matches are distributed among these distances:
48 3 0.02
49 37 0.19
54 1 0.01
55 109 0.57
56 38 0.20
57 3 0.02
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.28
Consensus pattern (55 bp):
AAAATTAAAAAATACAAGTCTATACTGATAATGTCTAACCATCAGTATAGGTAAG
Found at i:22783590 original size:55 final size:56
Alignment explanation
Indices: 22783467--22783594 Score: 145
Period size: 55 Copynumber: 2.3 Consensus size: 56
22783457 TAACTGTCGA
* * * *
22783467 TATAGGTAAGAAAAATTAAAACATATAAGTCTATACTGAAGGGCACTAGCCATCGG
1 TATAGGTAAAAAAAATTAAAACATACAAATCTATACTGAAGGGCACTAGCCATCAG
* * ** *
22783523 TATAGGT-GAAAAAATTAAAACATACAAATCTATACTGATGGGCTTTAAG-C-TTAG
1 TATAGGTAAAAAAAATTAAAACATACAAATCTATACTGAAGGGCACT-AGCCATCAG
22783577 TATAGGTAAAAAAAATTA
1 TATAGGTAAAAAAAATTA
22783595 CAAGTCTATA
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
54 9 0.15
55 42 0.70
56 9 0.15
ACGTcount: A:0.45, C:0.11, G:0.17, T:0.27
Consensus pattern (56 bp):
TATAGGTAAAAAAAATTAAAACATACAAATCTATACTGAAGGGCACTAGCCATCAG
Found at i:22783637 original size:159 final size:160
Alignment explanation
Indices: 22783278--22783668 Score: 409
Period size: 159 Copynumber: 2.5 Consensus size: 160
22783268 TAAAACATAT
* ** * * * * *
22783278 AAGTCTATACTGACAATCCCTAACAATTGCTATAGGTAAG-AAAATTAAAGCATACAATTCTATA
1 AAGTCTATACTGACAAGCATTAACTATCGATATAGGTAAGAAAAATTAAAACATACAAGTCTATA
*** * *
22783342 CTGATAGTTTCTAACCATCGGTATAGGTAAGAAAATTAAAAAATACTAGTCTATACTGATGAATG
66 CTGATAGGCACTAACCATCGGTATAGGTAAGAAAATTAAAAAATACAAATCTATACTGATGAATG
*
22783407 TTAAGTATCAGTATAGGTAAGAAAAATTAC
131 TTAAGTATCAGTATAGGTAAAAAAAATTAC
* * * *
22783437 AAGTTTATACTGACAAGCGTTAACTGTCGATATAGGTAAGAAAAATTAAAACATATAAGTCTATA
1 AAGTCTATACTGACAAGCATTAACTATCGATATAGGTAAGAAAAATTAAAACATACAAGTCTATA
* * *
22783502 CTGA-AGGGCACTAGCCATCGGTATAGGTGAA-AAAATTAAAACATACAAATCTATACTGATGGG
66 CTGATA-GGCACTAACCATCGGTATAGGT-AAGAAAATTAAAAAATACAAATCTATACTGAT-GA
*
22783565 CT-TTAAGCT-T-AGTATAGGTAAAAAAAATTAC
128 ATGTTAAG-TATCAGTATAGGTAAAAAAAATTAC
** * * * * * *
22783596 AAGTCTATACTGATGAGTATTAA-TCATCGGTATAGGCAAGAAAACTTAAAATATACAAGTTTAT
1 AAGTCTATACTGACAAGCATTAACT-ATCGATATAGGTAAGAAAAATTAAAACATACAAGTCTAT
*
22783660 ATTGATAGG
65 ACTGATAGG
22783669 TGTTAACCGT
Statistics
Matches: 191, Mismatches: 34, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
158 1 0.01
159 109 0.57
160 76 0.40
161 5 0.03
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.29
Consensus pattern (160 bp):
AAGTCTATACTGACAAGCATTAACTATCGATATAGGTAAGAAAAATTAAAACATACAAGTCTATA
CTGATAGGCACTAACCATCGGTATAGGTAAGAAAATTAAAAAATACAAATCTATACTGATGAATG
TTAAGTATCAGTATAGGTAAAAAAAATTAC
Found at i:22785646 original size:21 final size:20
Alignment explanation
Indices: 22785622--22785665 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
22785612 AGTTTTTTTT
*
22785622 TTTAAATTAAATTTTTGTATA
1 TTTAAATTAAAGTTTTG-ATA
*
22785643 TTT-AATTTAAGTTTTGATA
1 TTTAAATTAAAGTTTTGATA
22785662 TTTA
1 TTTA
22785666 TTCATTAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
19 6 0.30
20 11 0.55
21 3 0.15
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (20 bp):
TTTAAATTAAAGTTTTGATA
Found at i:22793708 original size:29 final size:30
Alignment explanation
Indices: 22793666--22793724 Score: 102
Period size: 29 Copynumber: 2.0 Consensus size: 30
22793656 GATTTAAAGG
*
22793666 ATAAGTGATTTTAAA-ATAATATGTGATAT
1 ATAAGTGATTTTAAACAAAATATGTGATAT
22793695 ATAAGTGATTTTAAACAAAATATGTGATAT
1 ATAAGTGATTTTAAACAAAATATGTGATAT
22793725 TCAAAGTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 15 0.54
30 13 0.46
ACGTcount: A:0.46, C:0.02, G:0.14, T:0.39
Consensus pattern (30 bp):
ATAAGTGATTTTAAACAAAATATGTGATAT
Found at i:22793953 original size:12 final size:12
Alignment explanation
Indices: 22793913--22793956 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
22793903 TGAATAATCG
22793913 ATTTATTTA-AT
1 ATTTATTTATAT
*
22793924 ATTTTTTTAATAT
1 ATTTATTT-ATAT
*
22793937 ATTTATTTATTT
1 ATTTATTTATAT
22793949 ATTTATTT
1 ATTTATTT
22793957 TGAAAGCAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
11 7 0.25
12 12 0.43
13 9 0.32
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
ATTTATTTATAT
Done.