Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 81 of 141
Found at i:26476056 original size:22 final size:22
Alignment explanation
Indices: 26475882--26476053 Score: 116
Period size: 19 Copynumber: 8.7 Consensus size: 22
26475872 AATCTTCAGG
26475882 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
**
26475901 GATATATAATCTTAG---ATAT
1 GATATGCAATCTTAGAAGATAT
26475920 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
**
26475939 GATATATAATCTTAG---ATAT
1 GATATGCAATCTTAGAAGATAT
26475958 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
**
26475977 GATATATAATCTTAG---ATAT
1 GATATGCAATCTTAGAAGATAT
26475996 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
26476015 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
26476037 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
26476054 GATTTAATTT
Statistics
Matches: 123, Mismatches: 14, Indels: 28
0.75 0.08 0.17
Matches are distributed among these distances:
19 103 0.84
22 8 0.07
23 12 0.10
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.39
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:26481518 original size:8 final size:8
Alignment explanation
Indices: 26481505--26481547 Score: 56
Period size: 8 Copynumber: 5.8 Consensus size: 8
26481495 AAAGGGGATG
26481505 ACAAAAAA
1 ACAAAAAA
26481513 ACAAAAAA
1 ACAAAAAA
*
26481521 GC-AAAAA
1 ACAAAAAA
26481528 AC--AAAA
1 ACAAAAAA
26481534 ACAAAAAA
1 ACAAAAAA
26481542 ACAAAA
1 ACAAAA
26481548 TCTACCAGGC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 6 0.19
7 6 0.19
8 19 0.61
ACGTcount: A:0.84, C:0.14, G:0.02, T:0.00
Consensus pattern (8 bp):
ACAAAAAA
Found at i:26481526 original size:14 final size:15
Alignment explanation
Indices: 26481507--26481547 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
26481497 AGGGGATGAC
26481507 AAAAAAACAAAAA-A
1 AAAAAAACAAAAACA
*
26481521 GCAAAAAACAAAAAC-
1 -AAAAAAACAAAAACA
26481536 AAAAAAACAAAA
1 AAAAAAACAAAA
26481548 TCTACCAGGC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.85, C:0.12, G:0.02, T:0.00
Consensus pattern (15 bp):
AAAAAAACAAAAACA
Found at i:26503999 original size:22 final size:24
Alignment explanation
Indices: 26503971--26504014 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
26503961 AACGTTAACA
26503971 ATTAAAAA-AAA-AGTAATTCATC
1 ATTAAAAAGAAACAGTAATTCATC
*
26503993 ATTAAAAAGAAACCGTAATTCA
1 ATTAAAAAGAAACAGTAATTCA
26504015 AACAGAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
23 3 0.16
24 8 0.42
ACGTcount: A:0.57, C:0.11, G:0.07, T:0.25
Consensus pattern (24 bp):
ATTAAAAAGAAACAGTAATTCATC
Found at i:26506241 original size:28 final size:27
Alignment explanation
Indices: 26506180--26506238 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
26506170 TATACAAGTT
26506180 AATTTGAAAATTAAAAGAATTAATAAA
1 AATTTGAAAATTAAAAGAATTAATAAA
* *
26506207 AATTTGAAAATATAAAA-AATTAGTTAA
1 AATTTGAAAAT-TAAAAGAATTAATAAA
26506234 AATTT
1 AATTT
26506239 TGATTTTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 24 0.83
28 5 0.17
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (27 bp):
AATTTGAAAATTAAAAGAATTAATAAA
Found at i:26507119 original size:29 final size:30
Alignment explanation
Indices: 26507087--26507152 Score: 71
Period size: 31 Copynumber: 2.2 Consensus size: 30
26507077 AAAATTCCAG
*
26507087 ATATAAAATTGGAC-AAAATCAAAGTTCAT
1 ATATAAAATTGCACTAAAATCAAAGTTCAT
* * * *
26507116 ATATGATATTGCCCTTTAAATCAAAGTTCAT
1 ATATAAAATTGCAC-TAAAATCAAAGTTCAT
26507147 ATATAA
1 ATATAA
26507153 TTTTAATATT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
29 10 0.34
31 19 0.66
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.33
Consensus pattern (30 bp):
ATATAAAATTGCACTAAAATCAAAGTTCAT
Found at i:26507201 original size:38 final size:41
Alignment explanation
Indices: 26507142--26507220 Score: 121
Period size: 39 Copynumber: 2.0 Consensus size: 41
26507132 TAAATCAAAG
26507142 TTCATATATAATTTTAATA-TTTATCTTTTTTTT-AAAATA
1 TTCATATATAATTTTAATATTTTATCTTTTTTTTCAAAATA
26507181 TTCAT-TAT-ATTTTAGATATTTTATCTTTTTTTTCAAAATA
1 TTCATATATAATTTTA-ATATTTTATCTTTTTTTTCAAAATA
26507221 AGTATTATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
37 6 0.16
38 6 0.16
39 19 0.51
40 6 0.16
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.59
Consensus pattern (41 bp):
TTCATATATAATTTTAATATTTTATCTTTTTTTTCAAAATA
Found at i:26507211 original size:40 final size:39
Alignment explanation
Indices: 26507142--26507220 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 39
26507132 TAAATCAAAG
*
26507142 TTCATATATAATTTTAATATTTATCTTTTTTTTAAAATA
1 TTCATATATAATTTTAATATTTATCTTTTTTTCAAAATA
26507181 TTCAT-TAT-ATTTTAGATATTTTATCTTTTTTTTCAAAATA
1 TTCATATATAATTTTA-ATA-TTTATC-TTTTTTTCAAAATA
26507221 AGTATTATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
37 6 0.17
38 6 0.17
39 11 0.31
40 13 0.36
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.59
Consensus pattern (39 bp):
TTCATATATAATTTTAATATTTATCTTTTTTTCAAAATA
Found at i:26507233 original size:39 final size:38
Alignment explanation
Indices: 26507143--26507237 Score: 115
Period size: 39 Copynumber: 2.4 Consensus size: 38
26507133 AAATCAAAGT
*
26507143 TCATATATAATTTTAATA-TTTATCTTTTTTTTAAAATAT
1 TCAT-TAT-ATTTTAATATTTTATCTTTTTTTTAAAATAG
26507182 TCATTATATTTTAGATATTTTATCTTTTTTTTCAAAATAAG
1 TCATTATATTTTA-ATATTTTATCTTTTTTTT-AAAAT-AG
26507223 T-ATTAT-TTTTAATAT
1 TCATTATATTTTAATAT
26507238 ATTTCTNNNN
Statistics
Matches: 51, Mismatches: 1, Indels: 9
0.84 0.02 0.15
Matches are distributed among these distances:
37 6 0.12
38 10 0.20
39 23 0.45
40 10 0.20
41 2 0.04
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (38 bp):
TCATTATATTTTAATATTTTATCTTTTTTTTAAAATAG
Found at i:26507760 original size:18 final size:19
Alignment explanation
Indices: 26507723--26507760 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
26507713 TTAAAAATGT
*
26507723 AAATAAAAATATTTTTAAA
1 AAATAAAAATATTGTTAAA
*
26507742 AAATTAAAA-ATTGTTAAA
1 AAATAAAAATATTGTTAAA
26507760 A
1 A
26507761 GAGTATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (19 bp):
AAATAAAAATATTGTTAAA
Found at i:26516627 original size:31 final size:30
Alignment explanation
Indices: 26516568--26516629 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 30
26516558 GTTGATTGTA
* *
26516568 AATTTTCTTAAAATATTTTTTTTCTAATTT
1 AATTTTCTTAAAATATATTTTTTATAATTT
* *
26516598 AATTTTTTTAAATTAGTATTTTTTATAATTT
1 AATTTTCTTAAAATA-TATTTTTTATAATTT
26516629 A
1 A
26516630 CGTGATCAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
30 13 0.48
31 14 0.52
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (30 bp):
AATTTTCTTAAAATATATTTTTTATAATTT
Found at i:26521243 original size:16 final size:16
Alignment explanation
Indices: 26521222--26521256 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
26521212 CCCTATTTTT
26521222 CCCTATATTATAATCA
1 CCCTATATTATAATCA
26521238 CCCTATATTATAATCA
1 CCCTATATTATAATCA
26521254 CCC
1 CCC
26521257 CATTGTGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (16 bp):
CCCTATATTATAATCA
Found at i:26523347 original size:42 final size:42
Alignment explanation
Indices: 26523298--26523435 Score: 154
Period size: 42 Copynumber: 3.3 Consensus size: 42
26523288 AGCTCTCACA
* * * * *
26523298 AGCTTCTGTTTAACTCATATGAGTTTCCGTTCAGCTCTATTG
1 AGCTTCTATTTAACCCTTATGGGTTTCTGTTCAGCTCTATTG
* * *
26523340 AGCTTCTGTTTAACCCTTATGGGTTTCTATTCAGCTCT-TACG
1 AGCTTCTATTTAACCCTTATGGGTTTCTGTTCAGCTCTAT-TG
* *
26523382 AGCTTCTATTCAACCCTTATGGGTTTCTGTTTAGCTCTCA-TG
1 AGCTTCTATTTAACCCTTATGGGTTTCTGTTCAGCTCT-ATTG
26523424 AGCTTCTATTTA
1 AGCTTCTATTTA
26523436 GCCTTCGGGC
Statistics
Matches: 81, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
41 1 0.01
42 80 0.99
ACGTcount: A:0.18, C:0.22, G:0.16, T:0.43
Consensus pattern (42 bp):
AGCTTCTATTTAACCCTTATGGGTTTCTGTTCAGCTCTATTG
Found at i:26523435 original size:21 final size:21
Alignment explanation
Indices: 26523284--26523437 Score: 85
Period size: 21 Copynumber: 7.3 Consensus size: 21
26523274 TTTACTTTAC
* **
26523284 GTTTAGCTCTCACAAGCTTCT
1 GTTTAGCTCTTATGAGCTTCT
* * * *
26523305 GTTTAACTCATATGAGTTTCC
1 GTTTAGCTCTTATGAGCTTCT
*
26523326 GTTCAGCTC-TATTGAGCTTCT
1 GTTTAGCTCTTA-TGAGCTTCT
* * * *
26523347 GTTTAACCCTTATGGGTTTCT
1 GTTTAGCTCTTATGAGCTTCT
* * *
26523368 ATTCAGCTCTTACGAGCTTCT
1 GTTTAGCTCTTATGAGCTTCT
* * * * * *
26523389 ATTCAACCCTTATGGGTTTCT
1 GTTTAGCTCTTATGAGCTTCT
*
26523410 GTTTAGCTCTCATGAGCTTCT
1 GTTTAGCTCTTATGAGCTTCT
*
26523431 ATTTAGC
1 GTTTAGC
26523438 CTTCGGGCTT
Statistics
Matches: 95, Mismatches: 36, Indels: 4
0.70 0.27 0.03
Matches are distributed among these distances:
20 2 0.02
21 91 0.96
22 2 0.02
ACGTcount: A:0.18, C:0.23, G:0.16, T:0.42
Consensus pattern (21 bp):
GTTTAGCTCTTATGAGCTTCT
Found at i:26525123 original size:15 final size:15
Alignment explanation
Indices: 26525103--26525134 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
26525093 TTTATGCAAG
26525103 AAAGAAATCTGGCTC
1 AAAGAAATCTGGCTC
26525118 AAAGAAATCTGGCTC
1 AAAGAAATCTGGCTC
26525133 AA
1 AA
26525135 CAACCTCCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.19
Consensus pattern (15 bp):
AAAGAAATCTGGCTC
Found at i:26530786 original size:6 final size:6
Alignment explanation
Indices: 26530775--26530802 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
26530765 TGTCGAAACC
26530775 ATTTTT ATTTTT ATTTTT ATTTTT ATTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTT
26530803 AAAAAACAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
ATTTTT
Found at i:26531588 original size:13 final size:14
Alignment explanation
Indices: 26531570--26531606 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
26531560 ATGGCATAGA
26531570 AAATAATATAAAC-
1 AAATAATATAAACG
26531583 AAATAA-ATAAACG
1 AAATAATATAAACG
26531596 AAATGAATATA
1 AAAT-AATATA
26531607 TAAAAAAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 10 0.48
14 2 0.10
15 3 0.14
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.22
Consensus pattern (14 bp):
AAATAATATAAACG
Found at i:26536173 original size:19 final size:20
Alignment explanation
Indices: 26536138--26536176 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
26536128 TTATCTTTCA
26536138 AATTTTATAATTTTGCTCAG
1 AATTTTATAATTTTGCTCAG
*
26536158 AATTTTATGA-TTTGCTCAG
1 AATTTTATAATTTTGCTCAG
26536177 TTTAGTCCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.28, C:0.10, G:0.13, T:0.49
Consensus pattern (20 bp):
AATTTTATAATTTTGCTCAG
Found at i:26536270 original size:80 final size:80
Alignment explanation
Indices: 26536183--26536342 Score: 311
Period size: 80 Copynumber: 2.0 Consensus size: 80
26536173 TCAGTTTAGT
*
26536183 CCCTAAATGATTCTTGAACTATTTTTAGTGTTTTATTTTATTCAATTAAGACCCTGATGATATGA
1 CCCTAAATGATTCTTGAACTATTTTTAGTGTTTTATTTTATTCAATTAAGACCCCGATGATATGA
26536248 ATAATGTTATAAGTC
66 ATAATGTTATAAGTC
26536263 CCCTAAATGATTCTTGAACTATTTTTAGTGTTTTATTTTATTCAATTAAGACCCCGATGATATGA
1 CCCTAAATGATTCTTGAACTATTTTTAGTGTTTTATTTTATTCAATTAAGACCCCGATGATATGA
26536328 ATAATGTTATAAGTC
66 ATAATGTTATAAGTC
26536343 ATGATCTGGT
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 79 1.00
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.43
Consensus pattern (80 bp):
CCCTAAATGATTCTTGAACTATTTTTAGTGTTTTATTTTATTCAATTAAGACCCCGATGATATGA
ATAATGTTATAAGTC
Found at i:26540792 original size:32 final size:33
Alignment explanation
Indices: 26540756--26540823 Score: 86
Period size: 32 Copynumber: 2.1 Consensus size: 33
26540746 TGAACATTAC
* *
26540756 AATTTTG-GGTTGTTCTTATATTTATATATGCA
1 AATTTTGAGGTTGATCTTATATTTACATATGCA
* *
26540788 AA-TTTGAGGTTGATCTTATTTTTGCATATGCA
1 AATTTTGAGGTTGATCTTATATTTACATATGCA
26540820 AATT
1 AATT
26540824 CGGGTCGTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
31 4 0.13
32 25 0.83
33 1 0.03
ACGTcount: A:0.26, C:0.07, G:0.16, T:0.50
Consensus pattern (33 bp):
AATTTTGAGGTTGATCTTATATTTACATATGCA
Found at i:26552665 original size:15 final size:15
Alignment explanation
Indices: 26552656--26552688 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
26552646 CAAATGCTAT
26552656 AATAATAAATACATC
1 AATAATAAATACATC
26552671 AATAATAAATACATC
1 AATAATAAATACATC
26552686 AAT
1 AAT
26552689 GGCATAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.61, C:0.12, G:0.00, T:0.27
Consensus pattern (15 bp):
AATAATAAATACATC
Found at i:26553075 original size:26 final size:25
Alignment explanation
Indices: 26553046--26553118 Score: 60
Period size: 27 Copynumber: 2.7 Consensus size: 25
26553036 AAACATTTGT
26553046 TAAAAATATATATACATATGTACA-TA
1 TAAAAATATATATA-ATAT-TACATTA
26553072 TAAATAATA-ATACTAATAATTACATTA
1 TAAA-AATATATA-TAAT-ATTACATTA
*
26553099 TAGAAAATATACATATATAT
1 TA-AAAATATATATA-ATAT
26553119 AGGAAAATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 13
0.74 0.02 0.25
Matches are distributed among these distances:
26 13 0.33
27 20 0.51
28 6 0.15
ACGTcount: A:0.55, C:0.07, G:0.03, T:0.36
Consensus pattern (25 bp):
TAAAAATATATATAATATTACATTA
Found at i:26554940 original size:84 final size:84
Alignment explanation
Indices: 26554799--26554990 Score: 303
Period size: 84 Copynumber: 2.3 Consensus size: 84
26554789 CTAGGGTCTA
26554799 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTTAGAGAGATAA
1 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTTAGAGAGATAA
* *
26554864 GATCCCAGGTTTTAATCTG
66 GATCCCAGATTTTAATCCG
* * * *
26554883 CTCCACTGCAACTTCAAGGAGATGAGATTAGATGCGATCTGCTCTCTGCAACTTTAGAGATATAA
1 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTTAGAGAGATAA
***
26554948 GATCTGTGATTTTAATCCG
66 GATCCCAGATTTTAATCCG
26554967 CTCCACTGCAACTTCAGGGAGATA
1 CTCCACTGCAACTTCAGGGAGATA
26554991 GGATTATCGG
Statistics
Matches: 97, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
84 97 1.00
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (84 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTTAGAGAGATAA
GATCCCAGATTTTAATCCG
Found at i:26555071 original size:45 final size:42
Alignment explanation
Indices: 26554794--26555250 Score: 206
Period size: 44 Copynumber: 10.7 Consensus size: 42
26554784 TATTTCTAGG
* * * * *
26554794 GTCTACTCCACTGCAACTTCAGGGAGATAAGACTAGATGC-GA
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCT-CTTA
* * * ** * *
26554836 -TCTGCT-CTCTGCAACTTTAGAGAGATAAGATCCCAGGTTTTA
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGAT--TTGCTCTTA
* * * * * *
26554878 ATCTGCTCCACTGCAACTTCAAGGAGATGAGATTAGATGC-GA
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCT-CTTA
* * * * * *
26554920 -TCTGCT-CTCTGCAACTTTAGAGATATAAGATCTGTGATTTTA
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGAT-T-TGCTCTTA
* * *
26554962 ATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCT-TTA
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGATT-T--GCTCTTA
*
26555006 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCA
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-C-TCTT-A
*
26555051 GTCTGC-CTCACTGCAACTTCA-GGATGATAAGACTTGCTTACTTA
1 GTCTGCTC-CACTGCAACTTCAGGGA-GATAAGATTTGC-T-CTTA
* * * * *
26555095 GTCTGCTCCACTGTAACTTCAGGGAGATAAGACTAGATGC-GA
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCT-CTTA
* * * * * *
26555137 -TCTGCT-CTCTGCAACTTCAGAGAGATAATATCTGATTTTA
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTCTTA
* * * *
26555177 AT-TCACTCCATTGCAACTTCAGGGAGATAGGATTATCGGCT-TTA
1 GTCT-GCTCCACTGCAACTTCAGGGAGATAAGATT-T--GCTCTTA
*
26555221 ATCTG-TCCACTGCAAACTTCAGGGAGATAA
1 GTCTGCTCCACTGC-AACTTCAGGGAGATAA
26555251 NNNNNNNNNN
Statistics
Matches: 319, Mismatches: 65, Indels: 60
0.72 0.15 0.14
Matches are distributed among these distances:
40 65 0.20
41 22 0.07
42 34 0.11
43 25 0.08
44 132 0.41
45 41 0.13
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (42 bp):
GTCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTCTTA
Found at i:26555120 original size:133 final size:128
Alignment explanation
Indices: 26554874--26555123 Score: 301
Period size: 133 Copynumber: 1.9 Consensus size: 128
26554864 GATCCCAGGT
* * *
26554874 TTTAATCTGCTCCACTGCAACTTCAAGGAGATGAGATTAGATGCGATCTGCTCTCTGCAACTTTA
1 TTTAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTAGATGCGATCTGCTCACTGCAACTTCA
26554939 GAGATATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGC
66 GAGATATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGC
* * *
26555002 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCAT-CTTCAGTCTGCCTCACTGCA
1 TTTAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTAG--ATGC--GA-TCTG-CTCACTGCA
* * * *
26555066 ACTTCAG-GATGATAAGA-CT-TGCTTACTTAGTCTGCTCCACTGTAACTTCAGGGAGATA
60 ACTTCAGAGAT-ATAAGATCTGTGATT--TTAATCCGCTCCACTGCAACTTCAGGGAGATA
26555124 AGACTAGATG
Statistics
Matches: 103, Mismatches: 10, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
128 37 0.36
129 1 0.01
130 2 0.02
131 5 0.05
132 9 0.09
133 49 0.48
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (128 bp):
TTTAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTAGATGCGATCTGCTCACTGCAACTTCA
GAGATATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGC
Found at i:26555455 original size:44 final size:45
Alignment explanation
Indices: 26555351--26555472 Score: 153
Period size: 44 Copynumber: 2.7 Consensus size: 45
26555341 TCGGCTTTAA
* * *
26555351 TCTGCTCCACTGTAACTTCAGGGAGATAAGATTTTCCATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAG
*
26555396 TCTGC-CTCACTGCAACTTCA-GGAGGATAAGACTTG-CTTACTT-AG
1 TCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGCCAT-CTTCAG
26555440 TCTGCTCCACTGCAACTTCAGGGAGATAAGACT
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACT
26555473 AGATGCGATC
Statistics
Matches: 68, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
44 35 0.51
45 33 0.49
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (45 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAG
Found at i:26566850 original size:15 final size:15
Alignment explanation
Indices: 26566841--26566873 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
26566831 CAAATGCTAT
26566841 AATAATAAATACAAC
1 AATAATAAATACAAC
*
26566856 AATAATAAATACATC
1 AATAATAAATACAAC
26566871 AAT
1 AAT
26566874 GGCATAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (15 bp):
AATAATAAATACAAC
Found at i:26567285 original size:23 final size:24
Alignment explanation
Indices: 26567247--26567292 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
26567237 GTATAAATAC
*
26567247 AAAAATATTTATTAAAAAATATAG
1 AAAAATATTCATTAAAAAATATAG
26567271 AAAAATATTCA-TAAAAAATATA
1 AAAAATATTCATTAAAAAATATA
26567293 AATATATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (24 bp):
AAAAATATTCATTAAAAAATATAG
Found at i:26567301 original size:23 final size:23
Alignment explanation
Indices: 26567259--26567306 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
26567249 AAATATTTAT
*
26567259 TAAAAAATATAGAAAAATATTCA
1 TAAAAAATATAGAAAAATATACA
*
26567282 TAAAAAATATA-AATATATATACA
1 TAAAAAATATAGAA-AAATATACA
26567305 TA
1 TA
26567307 TGTAGATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 2 0.09
23 20 0.91
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (23 bp):
TAAAAAATATAGAAAAATATACA
Found at i:26569332 original size:21 final size:22
Alignment explanation
Indices: 26569307--26569362 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
26569297 AATTTCGAAG
26569307 AAATTAATAAATTTTACAA-AT-
1 AAATTAATAAATTTTA-AATATA
* * *
26569328 AAATTAACAAGTTTTAAATTTA
1 AAATTAATAAATTTTAAATATA
26569350 AAATTAATAAATT
1 AAATTAATAAATT
26569363 AGGAAGTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
20 2 0.07
21 15 0.54
22 11 0.39
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (22 bp):
AAATTAATAAATTTTAAATATA
Found at i:26570801 original size:4 final size:4
Alignment explanation
Indices: 26570792--26570833 Score: 61
Period size: 4 Copynumber: 10.8 Consensus size: 4
26570782 GATGATGTGT
26570792 TAAA TAAA TAAA TAAA TATAA TAAA T-AA -AAA TAAA TAAA TAA
1 TAAA TAAA TAAA TAAA TA-AA TAAA TAAA TAAA TAAA TAAA TAA
26570834 TATAGAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
3 4 0.11
4 27 0.77
5 4 0.11
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:26570825 original size:19 final size:20
Alignment explanation
Indices: 26570801--26570846 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
26570791 TTAAATAAAT
26570801 AAATAAATATAATAA-ATA-A
1 AAATAAATA-AATAATATAGA
26570820 AAATAAATAAATAATATAGA
1 AAATAAATAAATAATATAGA
26570840 AAA-AAAT
1 AAATAAAT
26570847 TGAAATCGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.20
19 16 0.64
20 4 0.16
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (20 bp):
AAATAAATAAATAATATAGA
Found at i:26570835 original size:17 final size:17
Alignment explanation
Indices: 26570792--26570835 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
26570782 GATGATGTGT
*
26570792 TAAATAA-ATAAATAAA
1 TAAATAATAAAAATAAA
26570808 TATAATAAATAAAAATAAA
1 TA-AAT-AATAAAAATAAA
26570827 TAAATAATA
1 TAAATAATA
26570836 TAGAAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
16 2 0.08
17 7 0.29
18 5 0.21
19 10 0.42
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
TAAATAATAAAAATAAA
Found at i:26572948 original size:8 final size:8
Alignment explanation
Indices: 26572935--26572963 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
26572925 CACTAGAGAC
26572935 CAGTGTTA
1 CAGTGTTA
26572943 CAGTGTTA
1 CAGTGTTA
26572951 CAGTGTTA
1 CAGTGTTA
26572959 CAGTG
1 CAGTG
26572964 AGTCCCGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (8 bp):
CAGTGTTA
Found at i:26573076 original size:23 final size:23
Alignment explanation
Indices: 26573050--26573125 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
26573040 AGTGTTATTG
*
26573050 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACGT
26573073 ATCAGTGGTAGCTTCGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACGT
26573096 ATCAGTGGTAGCTTCGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACGT
26573119 ATCAGTG
1 ATCAGTG
26573126 CGGCACTTAT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 52 1.00
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACGT
Found at i:26577631 original size:33 final size:33
Alignment explanation
Indices: 26577589--26577843 Score: 156
Period size: 33 Copynumber: 7.8 Consensus size: 33
26577579 CTCATCTGCC
*
26577589 TCAGCTTGTACACCTTCTACATCACCCTCCCCA
1 TCAGCTTGTACCCCTTCTACATCACCCTCCCCA
* * *
26577622 TCAGCTTGTATCCCTTCTATATCACCCTCCTCA
1 TCAGCTTGTACCCCTTCTACATCACCCTCCCCA
* * * * **
26577655 TAAACTTCTACCCCTTCAACATCACATTCCCCA
1 TCAGCTTGTACCCCTTCTACATCACCCTCCCCA
* * * *
26577688 T-AGCTTGTACCCCTTCTACAACGCCATCCCTA
1 TCAGCTTGTACCCCTTCTACATCACCCTCCCCA
** * * *
26577720 TCTA-AATCTACCCCTTCAACATCACCCTCCCTA
1 TC-AGCTTGTACCCCTTCTACATCACCCTCCCCA
* * * * * * **
26577753 ACAACTTGTACTCCTTCTACAACGCCATCTTCA
1 TCAGCTTGTACCCCTTCTACATCACCCTCCCCA
** * * *
26577786 TCTAAATT-TACCCTTTCAACATCACCCTCCTCA
1 TC-AGCTTGTACCCCTTCTACATCACCCTCCCCA
* * *
26577819 TCAGCTTCTACTCCTTCAACATCAC
1 TCAGCTTGTACCCCTTCTACATCAC
26577844 TTTCCCCAAC
Statistics
Matches: 164, Mismatches: 53, Indels: 10
0.72 0.23 0.04
Matches are distributed among these distances:
32 28 0.17
33 131 0.80
34 5 0.03
ACGTcount: A:0.25, C:0.41, G:0.04, T:0.30
Consensus pattern (33 bp):
TCAGCTTGTACCCCTTCTACATCACCCTCCCCA
Found at i:26577831 original size:66 final size:65
Alignment explanation
Indices: 26577601--26577835 Score: 244
Period size: 66 Copynumber: 3.6 Consensus size: 65
26577591 AGCTTGTACA
* * * * *
26577601 CCTTCTACATCACCCTCCCCATCAGCTTGTA-TCCCTTCTATATCACC--CTCCTCATAAACTTC
1 CCTTCAACATCACCCTCCCCATCAGCTTGTACT-CCTTCTACAACGCCATCTCATC-TAAA-TT-
26577663 TACC
62 TACC
** * * *
26577667 CCTTCAACATCACATTCCCCAT-AGCTTGTACCCCTTCTACAACGCCATCCCTATCTAAATCTAC
1 CCTTCAACATCACCCTCCCCATCAGCTTGTACTCCTTCTACAACGCCATCTC-ATCTAAATTTAC
26577731 C
65 C
* * *
26577732 CCTTCAACATCACCCTCCCTAACAACTTGTACTCCTTCTACAACGCCATCTTCATCTAAATTTAC
1 CCTTCAACATCACCCTCCCCATCAGCTTGTACTCCTTCTACAACGCCATC-TCATCTAAATTTAC
26577797 C
65 C
* * *
26577798 CTTTCAACATCACCCTCCTCATCAGCTTCTACTCCTTC
1 CCTTCAACATCACCCTCCCCATCAGCTTGTACTCCTTC
26577836 AACATCACTT
Statistics
Matches: 139, Mismatches: 24, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
65 41 0.29
66 89 0.64
67 7 0.05
68 2 0.01
ACGTcount: A:0.24, C:0.42, G:0.03, T:0.31
Consensus pattern (65 bp):
CCTTCAACATCACCCTCCCCATCAGCTTGTACTCCTTCTACAACGCCATCTCATCTAAATTTACC
Found at i:26579591 original size:15 final size:15
Alignment explanation
Indices: 26579561--26579593 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
26579551 TTTCATTATC
26579561 TTCATAATCGATTTT
1 TTCATAATCGATTTT
26579576 TTCATGAATCGATTTT
1 TTCAT-AATCGATTTT
26579592 TT
1 TT
26579594 GGATTTTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.24, C:0.12, G:0.09, T:0.55
Consensus pattern (15 bp):
TTCATAATCGATTTT
Found at i:26581062 original size:15 final size:15
Alignment explanation
Indices: 26581042--26581070 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
26581032 GTATTGTTGC
26581042 TTGATAACATGGTGA
1 TTGATAACATGGTGA
26581057 TTGATAACATGGTG
1 TTGATAACATGGTG
26581071 TGTGAAGCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.07, G:0.28, T:0.34
Consensus pattern (15 bp):
TTGATAACATGGTGA
Found at i:26582285 original size:16 final size:16
Alignment explanation
Indices: 26582264--26582306 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
26582254 AATTACAATT
*
26582264 TTTAGGGATTTCATAA
1 TTTAGGGATTTCAAAA
*
26582280 TTTAGGGTTTTCAAAA
1 TTTAGGGATTTCAAAA
* *
26582296 ATTAGGAATTT
1 TTTAGGGATTT
26582307 TAGTTTTTTG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.44
Consensus pattern (16 bp):
TTTAGGGATTTCAAAA
Found at i:26584275 original size:23 final size:22
Alignment explanation
Indices: 26584247--26584309 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 22
26584237 TATTTTTTTG
26584247 AATTTTTAAAAAAATATTT-AT
1 AATTTTTAAAAAAATATTTAAT
* ***
26584268 ATTATTTTAATTTAATATTTAAT
1 AAT-TTTTAAAAAAATATTTAAT
26584291 AATTATTTAAAAAAATATT
1 AATT-TTTAAAAAAATATT
26584310 ATTATTAATA
Statistics
Matches: 31, Mismatches: 8, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
21 2 0.06
22 14 0.45
23 15 0.48
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
AATTTTTAAAAAAATATTTAAT
Found at i:26584276 original size:22 final size:24
Alignment explanation
Indices: 26584250--26584309 Score: 72
Period size: 22 Copynumber: 2.6 Consensus size: 24
26584240 TTTTTTGAAT
26584250 TTTTAAAAAAATATTT-AT-ATTA
1 TTTTAAAAAAATATTTAATAATTA
***
26584272 TTTTAATTTAATATTTAATAATTA
1 TTTTAAAAAAATATTTAATAATTA
26584296 -TTTAAAAAAATATT
1 TTTTAAAAAAATATT
26584310 ATTATTAATA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
22 13 0.43
23 13 0.43
24 4 0.13
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (24 bp):
TTTTAAAAAAATATTTAATAATTA
Found at i:26594959 original size:16 final size:16
Alignment explanation
Indices: 26594934--26594980 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
26594924 ATAATTAAGC
*
26594934 TAAAATAAATGAAAA-A
1 TAAAAAAAAT-AAAAGA
26594950 TAAAAAAAATAAAAGA
1 TAAAAAAAATAAAAGA
*
26594966 TAACAAAAACTAAAA
1 TAA-AAAAAATAAAA
26594981 ACCGGATTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
15 4 0.15
16 13 0.48
17 10 0.37
ACGTcount: A:0.77, C:0.04, G:0.04, T:0.15
Consensus pattern (16 bp):
TAAAAAAAATAAAAGA
Found at i:26597353 original size:14 final size:15
Alignment explanation
Indices: 26597329--26597366 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
26597319 CTGTTTAAAA
26597329 ATAATAATAAAAATT
1 ATAATAATAAAAATT
26597344 ATAA-AATAAAAATT
1 ATAATAATAAAAATT
*
26597358 ATATTAATA
1 ATAATAATA
26597367 TAATAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 13 0.62
15 8 0.38
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
ATAATAATAAAAATT
Found at i:26603837 original size:16 final size:16
Alignment explanation
Indices: 26603818--26603867 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
26603808 ATTAAAGTTA
26603818 ATTATTTTAATTAATT
1 ATTATTTTAATTAATT
* *
26603834 ATTATTTTAAAT-AGT
1 ATTATTTTAATTAATT
*
26603849 ATTATTTTGCATTAATT
1 ATTATTTT-AATTAATT
26603866 AT
1 AT
26603868 ATTAAGTAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
15 10 0.37
16 13 0.48
17 4 0.15
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (16 bp):
ATTATTTTAATTAATT
Found at i:26605504 original size:15 final size:15
Alignment explanation
Indices: 26605484--26605540 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
26605474 ATTCAATATC
26605484 AATATTTTAATAATA
1 AATATTTTAATAATA
*
26605499 AATATTTATTAGAATTATA
1 AATA-TT-TT--AATAATA
*
26605518 AATATATTAATAATA
1 AATATTTTAATAATA
*
26605533 AATGTTTT
1 AATATTTT
26605541 TTTAGTATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:26615957 original size:44 final size:44
Alignment explanation
Indices: 26615879--26615964 Score: 118
Period size: 44 Copynumber: 2.0 Consensus size: 44
26615869 AGGAAAAATA
* ***
26615879 ATTTTATTATTAGGGTTTTGGGTGTATGTTAATTAGGGTTTAGG
1 ATTTTATTATTAGGGTTTTGAGTGTATAAAAATTAGGGTTTAGG
* *
26615923 ATTTTATTATTAGGGTTTTTAGTGTTTAAAAATTAGGGTTTA
1 ATTTTATTATTAGGGTTTTGAGTGTATAAAAATTAGGGTTTA
26615965 AGGGTTATGA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.51
Consensus pattern (44 bp):
ATTTTATTATTAGGGTTTTGAGTGTATAAAAATTAGGGTTTAGG
Found at i:26620330 original size:12 final size:13
Alignment explanation
Indices: 26620293--26620342 Score: 52
Period size: 12 Copynumber: 4.0 Consensus size: 13
26620283 CAATTTGAAT
*
26620293 GAAAAAAAAGCAAA
1 GAAAGAAAAG-AAA
*
26620307 -AAA-AAAAAAAA
1 GAAAGAAAAGAAA
26620318 GAAAG-AAAGAAA
1 GAAAGAAAAGAAA
26620330 GAAAGAAAAGAAA
1 GAAAGAAAAGAAA
26620343 AGCTAAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
11 3 0.10
12 18 0.58
13 10 0.32
ACGTcount: A:0.82, C:0.02, G:0.16, T:0.00
Consensus pattern (13 bp):
GAAAGAAAAGAAA
Found at i:26623601 original size:47 final size:46
Alignment explanation
Indices: 26623540--26623635 Score: 131
Period size: 47 Copynumber: 2.1 Consensus size: 46
26623530 GTAATAAGGC
* * *
26623540 GAATCATTGTTCAATGAGATCGTTTGGGATTATGA-TCAATATGTGTA
1 GAATAATTGTTCAATGAAATCGTTTGAGATTAT-ATTCAATATGTG-A
*
26623587 GAATAATTGTTCAATGAAATCGTTTGAGATTATATTGAATATGTGA
1 GAATAATTGTTCAATGAAATCGTTTGAGATTATATTCAATATGTGA
26623633 GAA
1 GAA
26623636 CTGATTAACA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
46 5 0.11
47 39 0.89
ACGTcount: A:0.34, C:0.06, G:0.22, T:0.38
Consensus pattern (46 bp):
GAATAATTGTTCAATGAAATCGTTTGAGATTATATTCAATATGTGA
Found at i:26625413 original size:3 final size:3
Alignment explanation
Indices: 26625405--26625432 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
26625395 AACTAATACA
26625405 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
26625433 GTTAAGTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:26629544 original size:21 final size:21
Alignment explanation
Indices: 26629519--26629582 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
26629509 CTATTATCAT
26629519 AATAATAAAACGAGTAAATAA
1 AATAATAAAACGAGTAAATAA
*
26629540 AATAATAACAAGGA-TAACAT-A
1 AATAATAA-AACGAGTAA-ATAA
* *
26629561 AA-AATAAAATGTGTAAATAA
1 AATAATAAAACGAGTAAATAA
26629581 AA
1 AA
26629583 GAAAATATAA
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
19 5 0.14
20 11 0.31
21 14 0.39
22 6 0.17
ACGTcount: A:0.66, C:0.05, G:0.09, T:0.20
Consensus pattern (21 bp):
AATAATAAAACGAGTAAATAA
Found at i:26632059 original size:13 final size:13
Alignment explanation
Indices: 26632041--26632065 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26632031 CTCTAATGAA
26632041 ATCCAACTAAATT
1 ATCCAACTAAATT
26632054 ATCCAACTAAAT
1 ATCCAACTAAAT
26632066 AAAATACAGG
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:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (13 bp):
ATCCAACTAAATT
Found at i:26633749 original size:42 final size:42
Alignment explanation
Indices: 26633683--26633841 Score: 158
Period size: 42 Copynumber: 3.7 Consensus size: 42
26633673 CAAAAAGAAC
* * * * *
26633683 GTATAATTCATGGACAATATTACTTGGCTTAATGTATGGCAT
1 GTATGATTCATGAACAATAGTACTTAGTTTAATGTATGGCAT
*
26633725 GTATGATTCATGAACAATAGTACTTAGTTTAATGTATGCCAT
1 GTATGATTCATGAACAATAGTACTTAGTTTAATGTATGGCAT
* * *
26633767 GCATGATGTATGAT-ATGAACAATAGTACTCAATTTAAAGTATGGCAT
1 G--T-ATG-AT--TCATGAACAATAGTACTTAGTTTAATGTATGGCAT
* *
26633814 GTATGATGCATGAACGATAGTACTTAGT
1 GTATGATTCATGAACAATAGTACTTAGT
26633842 AAAAAGCACG
Statistics
Matches: 96, Mismatches: 14, Indels: 14
0.77 0.11 0.11
Matches are distributed among these distances:
42 53 0.55
43 2 0.02
44 4 0.04
45 4 0.04
46 2 0.02
47 30 0.31
48 1 0.01
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.35
Consensus pattern (42 bp):
GTATGATTCATGAACAATAGTACTTAGTTTAATGTATGGCAT
Found at i:26633789 original size:47 final size:49
Alignment explanation
Indices: 26633723--26633826 Score: 140
Period size: 47 Copynumber: 2.2 Consensus size: 49
26633713 AATGTATGGC
* * *
26633723 ATGTATGATTCATGAACAATAGTACTTAGTTTAATGTATGCCATGCATG
1 ATGTATGATTCATGAACAATAGTACTCAATTTAAAGTATGCCATGCATG
* *
26633772 ATGTATGA-T-ATGAACAATAGTACTCAATTTAAAGTATGGCATGTATG
1 ATGTATGATTCATGAACAATAGTACTCAATTTAAAGTATGCCATGCATG
*
26633819 ATGCATGA
1 ATGTATGA
26633827 ACGATAGTAC
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
47 40 0.82
48 1 0.02
49 8 0.16
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.35
Consensus pattern (49 bp):
ATGTATGATTCATGAACAATAGTACTCAATTTAAAGTATGCCATGCATG
Found at i:26639860 original size:2 final size:2
Alignment explanation
Indices: 26639853--26639879 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
26639843 ATATGCCATG
26639853 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
26639880 GACGATTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:26641539 original size:20 final size:23
Alignment explanation
Indices: 26641509--26641554 Score: 71
Period size: 21 Copynumber: 2.1 Consensus size: 23
26641499 TTTCTAAAAC
26641509 TTAACTAAAA-TTTTCATT-TTT
1 TTAACTAAAATTTTTCATTATTT
26641530 TTAA-TAAAATTTTTCATTATTT
1 TTAACTAAAATTTTTCATTATTT
26641552 TTA
1 TTA
26641555 TTTTTTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 5 0.22
21 12 0.52
22 6 0.26
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.59
Consensus pattern (23 bp):
TTAACTAAAATTTTTCATTATTT
Found at i:26641779 original size:80 final size:77
Alignment explanation
Indices: 26641684--26641835 Score: 207
Period size: 80 Copynumber: 1.9 Consensus size: 77
26641674 AAATTTAAAA
*
26641684 TTTTTGAAAATTTAAATTTGATTTATTTTGAATTTAAATTTTTTAAAAACAAAAACTTA-AAATT
1 TTTTTGAAAAATTAAATTTGATTT-TTTTGAATTTAAA-TTTTT-AAAACAAAAACTTAGAAATT
26641748 TTAAAAGTTAACAAAC
63 TT-AAAGTTAACAAAC
* * * * *
26641764 TTTTTGAAAAATTAAATTTGATTTTTTTTATTTTAAATTTTTGAAATAAAAACTTAGATATTTTA
1 TTTTTGAAAAATTAAATTTGATTTTTTTGAATTTAAATTTTTAAAACAAAAACTTAGAAATTTTA
26641829 AAGTTAA
66 AAGTTAA
26641836 GAATTTTTTT
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
77 20 0.31
78 11 0.17
79 11 0.17
80 23 0.35
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.47
Consensus pattern (77 bp):
TTTTTGAAAAATTAAATTTGATTTTTTTGAATTTAAATTTTTAAAACAAAAACTTAGAAATTTTA
AAGTTAACAAAC
Found at i:26643523 original size:16 final size:18
Alignment explanation
Indices: 26643496--26643529 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
26643486 TTAAATTAAT
26643496 TTAAATTAA-TTTTCCAA
1 TTAAATTAATTTTTCCAA
26643513 TTAAA-TAATTTTTCCAA
1 TTAAATTAATTTTTCCAA
26643530 CCCAATTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.19
17 13 0.81
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAAATTAATTTTTCCAA
Found at i:26648591 original size:25 final size:26
Alignment explanation
Indices: 26648536--26648605 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 26
26648526 AAGCTCTCTC
*
26648536 TCGAGCCATATAACGGGAAGCTCATG
1 TCGAGTCATATAACGGGAAGCTCATG
*
26648562 T-GAGTCATGTAACGGGAAGCTCAT-
1 TCGAGTCATATAACGGGAAGCTCATG
* * *
26648586 TCGAGTTATACAACGAGAAG
1 TCGAGTCATATAACGGGAAG
26648606 TTTATAAGAG
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
24 1 0.03
25 35 0.95
26 1 0.03
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (26 bp):
TCGAGTCATATAACGGGAAGCTCATG
Found at i:26648987 original size:18 final size:18
Alignment explanation
Indices: 26648964--26649007 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
26648954 TAATATTTAT
*
26648964 TGAACATTTTCGGATATG
1 TGAACATTTTCAGATATG
* *
26648982 TGAACAATTTCATATATG
1 TGAACATTTTCAGATATG
26649000 TG-ACATTT
1 TGAACATTT
26649008 ATAGAATTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.41
Consensus pattern (18 bp):
TGAACATTTTCAGATATG
Found at i:26649212 original size:5 final size:5
Alignment explanation
Indices: 26649192--26649239 Score: 69
Period size: 5 Copynumber: 9.2 Consensus size: 5
26649182 CAGTTTAATA
*
26649192 CAATT CATAAT CAATT CAATT CAATT CAATT CAATT CAATT CACATT C
1 CAATT CA-ATT CAATT CAATT CAATT CAATT CAATT CAATT CA-ATT C
26649240 TTGGCAAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
5 31 0.79
6 8 0.21
ACGTcount: A:0.40, C:0.23, G:0.00, T:0.38
Consensus pattern (5 bp):
CAATT
Found at i:26650332 original size:41 final size:41
Alignment explanation
Indices: 26650275--26650356 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
26650265 AAAGTCCACC
26650275 AGGACAGTAAACATGATATCATATTATGTAAGACCATAGCT
1 AGGACAGTAAACATGATATCATATTATGTAAGACCATAGCT
26650316 AGGACAGTAAACATGATATCATATTATGTAAGACCATAGCT
1 AGGACAGTAAACATGATATCATATTATGTAAGACCATAGCT
26650357 GAGCTATGGC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.27
Consensus pattern (41 bp):
AGGACAGTAAACATGATATCATATTATGTAAGACCATAGCT
Found at i:26653346 original size:37 final size:36
Alignment explanation
Indices: 26653300--26653407 Score: 103
Period size: 37 Copynumber: 2.9 Consensus size: 36
26653290 AAAAATAAGG
* **
26653300 AGATGAACATGAGTGATTCTCTGCAAATAAAAGGTGA
1 AGAT-AACATGAGTGATTCTCTGCAAAAAAAAGACGA
*
26653337 AGATAAACATGAGT-AGTTCTTTGCAAAAAAAAGACGA
1 AGAT-AACATGAGTGA-TTCTCTGCAAAAAAAAGACGA
* * *
26653374 AGATGACA-GATGTGATTCTCTGTAAACAAAAGAC
1 AGATAACATGA-GTGATTCTCTGCAAAAAAAAGAC
26653408 AGAGATGAAT
Statistics
Matches: 59, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
35 2 0.03
36 22 0.37
37 35 0.59
ACGTcount: A:0.44, C:0.12, G:0.21, T:0.23
Consensus pattern (36 bp):
AGATAACATGAGTGATTCTCTGCAAAAAAAAGACGA
Found at i:26655726 original size:37 final size:36
Alignment explanation
Indices: 26655680--26655787 Score: 103
Period size: 37 Copynumber: 2.9 Consensus size: 36
26655670 AAAAATAAGG
* **
26655680 AGATGAACATGAGTGATTCTCTGCAAATAAAAGGTGA
1 AGAT-AACATGAGTGATTCTCTGCAAAAAAAAGACGA
*
26655717 AGATAAACATGAGT-AGTTCTTTGCAAAAAAAAGACGA
1 AGAT-AACATGAGTGA-TTCTCTGCAAAAAAAAGACGA
* * *
26655754 AGATGACA-GATGTGATTCTCTGTAAACAAAAGAC
1 AGATAACATGA-GTGATTCTCTGCAAAAAAAAGAC
26655788 AGAGATGAAT
Statistics
Matches: 59, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
35 2 0.03
36 22 0.37
37 35 0.59
ACGTcount: A:0.44, C:0.12, G:0.21, T:0.23
Consensus pattern (36 bp):
AGATAACATGAGTGATTCTCTGCAAAAAAAAGACGA
Found at i:26659191 original size:21 final size:21
Alignment explanation
Indices: 26659166--26659206 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
26659156 AAAATTTAAT
26659166 TAATTACTAATGTAAAATAAC
1 TAATTACTAATGTAAAATAAC
26659187 TAATTACTAATGTAAAATAA
1 TAATTACTAATGTAAAATAA
26659207 AGTGTACTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.54, C:0.07, G:0.05, T:0.34
Consensus pattern (21 bp):
TAATTACTAATGTAAAATAAC
Found at i:26662634 original size:5 final size:5
Alignment explanation
Indices: 26662624--26662648 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
26662614 GCATAACAAT
26662624 GTCTG GTCTG GTCTG GTCTG GTCTG
1 GTCTG GTCTG GTCTG GTCTG GTCTG
26662649 TATCTGTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.40, T:0.40
Consensus pattern (5 bp):
GTCTG
Found at i:26663420 original size:12 final size:12
Alignment explanation
Indices: 26663403--26663428 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
26663393 CACTTAAAAC
26663403 CCATTTGGACTG
1 CCATTTGGACTG
26663415 CCATTTGGACTG
1 CCATTTGGACTG
26663427 CC
1 CC
26663429 GTTAGGGAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.31, G:0.23, T:0.31
Consensus pattern (12 bp):
CCATTTGGACTG
Found at i:26669166 original size:29 final size:29
Alignment explanation
Indices: 26669109--26669168 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
26669099 ATCTACAATC
* *
26669109 AGCACAAGACTACGTATACATACAGACAA
1 AGCACAAGACTACATATACATACACACAA
*
26669138 AGCACAAGACTACATATACATACTCACAA
1 AGCACAAGACTACATATACATACACACAA
26669167 AG
1 AG
26669169 ACTGATACAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.48, C:0.25, G:0.12, T:0.15
Consensus pattern (29 bp):
AGCACAAGACTACATATACATACACACAA
Found at i:26672763 original size:26 final size:27
Alignment explanation
Indices: 26672712--26672768 Score: 82
Period size: 26 Copynumber: 2.1 Consensus size: 27
26672702 AACAGAGAGC
*
26672712 AAAACGAAAACAGGGGAGAAAGGAAAG
1 AAAAAGAAAACAGGGGAGAAAGGAAAG
26672739 AAAAAGAAAA-AGGGGAGGAAA-GAAAG
1 AAAAAGAAAACAGGGGA-GAAAGGAAAG
26672765 AAAA
1 AAAA
26672769 TTTGGGATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 15 0.54
27 13 0.46
ACGTcount: A:0.65, C:0.04, G:0.32, T:0.00
Consensus pattern (27 bp):
AAAAAGAAAACAGGGGAGAAAGGAAAG
Found at i:26674494 original size:113 final size:113
Alignment explanation
Indices: 26674363--26674823 Score: 660
Period size: 113 Copynumber: 4.1 Consensus size: 113
26674353 AGCATTAACA
* *
26674363 GCGTTTTACAAAAAGCGCCGCAATAGAGTCACACAGAACGACGCCGTTTTCATATATTTGGGAAC
1 GCGTTTTACACAAAGCGCCGCAATAGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAAC
26674428 ATTAGTGGCGGTTATTTCCAAGCGCCGCTAAAACTCCGTTCTACAGCG
66 ATTAGTGGCGGTTATTTCCAAGCGCCGCTAAAACTCCGTTCTACAGCG
* * *
26674476 GCGTTTTATACAAAGCGCCGCAATGGAGTAATACAGAACGACGCCGTTTTCATATATTTGGGAAC
1 GCGTTTTACACAAAGCGCCGCAATAGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAAC
* *
26674541 ATTAGTTGCGGTTATTTCCAAGCGCCGCTAAAACTCCGTTCTACAGTG
66 ATTAGTGGCGGTTATTTCCAAGCGCCGCTAAAACTCCGTTCTACAGCG
* * *
26674589 GCGTTTTATACAAAGCGCCGCAATGGAGTAATACAGAACGACGCCGTTTTCATATATTTGGGAAC
1 GCGTTTTACACAAAGCGCCGCAATAGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAAC
* * * *
26674654 ATTAGTGGCGGTT-TTGCCCAAGCGCCGCTAATACTCCATTCTTCAGCG
66 ATTAGTGGCGGTTATT-TCCAAGCGCCGCTAAAACTCCGTTCTACAGCG
* * * *
26674702 GCGTTTTACA-AAATGCGTCGCAAATACAGTAACACAGAACGACGCCGTTTTCGTATATTTTGGA
1 GCGTTTTACACAAA-GCGCCGC-AATAGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGA
* *
26674766 ACACTAGTGGCGG-TATTTTCCCAAACGCCGCTAATAA-TCCGTTCTACAGCG
64 ACATTAGTGGCGGTTA-TTT-CCAAGCGCCGCTAA-AACTCCGTTCTACAGCG
26674817 GCGTTTT
1 GCGTTTT
26674824 GCGTTAAGCG
Statistics
Matches: 315, Mismatches: 26, Indels: 12
0.89 0.07 0.03
Matches are distributed among these distances:
112 5 0.02
113 226 0.72
114 49 0.16
115 34 0.11
116 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (113 bp):
GCGTTTTACACAAAGCGCCGCAATAGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAAC
ATTAGTGGCGGTTATTTCCAAGCGCCGCTAAAACTCCGTTCTACAGCG
Found at i:26692436 original size:36 final size:36
Alignment explanation
Indices: 26692396--26692474 Score: 142
Period size: 36 Copynumber: 2.2 Consensus size: 36
26692386 CAAAAAGATA
26692396 TTTTGGGCGTTTGAGGCCAGTCTCAAAAC-GACGTCG
1 TTTTGGGCGTTTGAGGCCAGTCTCAAAACAG-CGTCG
26692432 TTTTGGGCGTTTGAGGCCAGTCTCAAAACAGCGTCG
1 TTTTGGGCGTTTGAGGCCAGTCTCAAAACAGCGTCG
26692468 TTTTGGG
1 TTTTGGG
26692475 GGCCTAGATA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
36 41 0.98
37 1 0.02
ACGTcount: A:0.18, C:0.20, G:0.32, T:0.30
Consensus pattern (36 bp):
TTTTGGGCGTTTGAGGCCAGTCTCAAAACAGCGTCG
Found at i:26693390 original size:44 final size:44
Alignment explanation
Indices: 26693311--26694099 Score: 503
Period size: 44 Copynumber: 17.7 Consensus size: 44
26693301 TCATTCCAAC
* * * * * *
26693311 CCACTGCATCTTCAGGG-GTATAGGAATTGTCGCTTCGATCCACT
1 CCACTGCAACTTCAGGGAG-ATAAGATTTGTAGCTTCAATCTACT
* * * *
26693355 CCACTGCAACTTCAGGGAGATAAGACTTGTAGCTTCGATATATT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTACT
* * * * * *
26693399 CTACTGTAACTTCAGGGAGATAAGACTTATAGCTTCAATAT-GT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTACT
*** *
26693442 GTGCTGCAACTTTAGGGAGATAAGATTTGT-GTCTTCAATCTACT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAG-CTTCAATCTACT
* * * *
26693486 CCACTGCAACCTT-AGGGAGATAA-AGTGTGTAGATTTAATCTGCT
1 CCACTGCAA-CTTCAGGGAGATAAGA-TTTGTAGCTTCAATCTACT
** * *** ** * *
26693530 CTGCTGTAACGTT-AAAAAGATAAGATTTGCTATTTTTAACCTACT
1 CCACTGCAAC-TTCAGGGAGATAAGATTTG-TAGCTTCAATCTACT
* * * * * * *
26693575 TCACTGCAATTTTAGGGAGATAAGGTTTGCAGCTTTAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTACT
** * *
26693619 CCACTATAACTTCAAGGAGATAAGATTTGTAGCCTGTCTTCAATTTACT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTA----G-CTTCAATCTACT
* ** * * *
26693668 CCACTGCAATTTCAGGGAGATAAGATTTGTTTATTTTTAACCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTG--TAGCTTCAATCTACT
* * * * * * *
26693714 CCACTACAACTTTAAGGAGATAAGGTTTATAGCTTTAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTACT
* * * *
26693758 CTACTGCAACTTCAGAGAGATAAGATTTGCTATC-TCTGATCTACT
1 CCACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTC-AATCTACT
* * * * * *
26693803 CCACTGCAACTTCAGGAAGATAAGATCTATAACTTCAATCTGCC
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTACT
* * * * * *
26693847 CCACTACAACTTCAGGGAGACAATATTTGTAACCTTCAGTCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGT-AGCTTCAATCTACT
* * *
26693892 CCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTACT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTACT
* * * * * * *
26693936 CCACTGTAACTTCAGGGAGATACGGTTTATAGCTTTAATATGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTACT
* ** ** *
26693980 CTACTGCAACTTCAGAAAGATAAGATCTACTATCTTCAATCTACT
1 CCACTGCAACTTCAGGGAGATAAGAT-TTGTAGCTTCAATCTACT
** * * * *
26694025 CCACTGCAACTTCAAAGAGATAAGATCTATAACTTTAATCTACT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTACT
*
26694069 CCACTGCAACTTTAGGGAGATAAGATTTGTA
1 CCACTGCAACTTCAGGGAGATAAGATTTGTA
26694100 ATTTGTAATT
Statistics
Matches: 569, Mismatches: 154, Indels: 44
0.74 0.20 0.06
Matches are distributed among these distances:
42 1 0.00
43 35 0.06
44 325 0.57
45 141 0.25
46 30 0.05
48 1 0.00
49 34 0.06
51 2 0.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (44 bp):
CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTACT
Found at i:26693640 original size:89 final size:87
Alignment explanation
Indices: 26693457--26694099 Score: 293
Period size: 89 Copynumber: 7.2 Consensus size: 87
26693447 GCAACTTTAG
* * ** * *
26693457 GGAGATAAGATTTGTGTCTTCAATCTACTCCACTGCAACCTTAGGGAGATAAAGTGTGTAGATTT
1 GGAGATAAGATTTGTATTTTCAATCTACTCCACTGCAATTTTAGGGAGATAAGGTTTGTAGATTT
** *
26693522 AATCTGCTCTGCTGTAACGTTAA
66 AATCTGCTCCACTATAAC-TTAA
** * * * * *
26693545 AAAGATAAGATTTGCTATTTTTAACCTACTTCACTGCAATTTTAGGGAGATAAGGTTTGCAGCTT
1 GGAGATAAGATTTG-TATTTTCAATCTACTCCACTGCAATTTTAGGGAGATAAGGTTTGTAGATT
26693610 TAATCTGCTCCACTATAACTTCAA
65 TAATCTGCTCCACTATAACTT-AA
* * *
26693634 GGAGATAAGATTTGTAGCCTGTCTTCAATTTACTCCACTGCAATTTCAGGGAGATAAGATTTGTT
1 GGAGATAAGATTTGTA---T-T-TTCAATCTACTCCACTGCAATTTTAGGGAGATAAGGTTTG--
** * *
26693699 TATTTTTAACCTGCTCCACTACAACTTTAA
59 TAGATTTAATCTGCTCCACTATAAC-TTAA
* * * * * * * * * **
26693729 GGAGATAAGGTTTATAGCTTT-AATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCT
1 GGAGATAAGATTTGTA-TTTTCAATCTACTCCACTGCAATTTTAGGGAGATAAGGTTTG-TAGAT
* * * ** *
26693793 CTGATCTACTCCACTGCAACTTCA
64 TTAATCTGCTCCACTATAACTTAA
* * ** * * * * * * **
26693817 GGAAGATAAGATCTATAACTTCAATCTGCCCCACTACAACTTCAGGGAGACAATATTTGTA-ACC
1 GG-AGATAAGATTTGTATTTTCAATCTACTCCACTGCAATTTTAGGGAGATAAGGTTTGTAGA--
* * ** *
26693881 TTCAGTCTGCTCCACTGCAACTTCAG
63 TTTAATCTGCTCCACTATAACTT-AA
* ** * * * * * * *
26693907 GGAGATAAGACTTGTAACTTCAACCTACTCCACTGTAACTTCAGGGAGATACGGTTTATAGCTTT
1 GGAGATAAGATTTGTATTTTCAATCTACTCCACTGCAATTTTAGGGAGATAAGGTTTGTAGATTT
* * ** *
26693972 AATATGCTCTACTGCAACTTCA
66 AATCTGCTCCACTATAACTTAA
* ** * * * ** * * *
26693994 GAAAGATAAGATCTACTATCTTCAATCTACTCCACTGCAACTTCAAAGAGATAAGATCTATA-AC
1 G-GAGATAAGAT-TTGTATTTTCAATCTACTCCACTGCAATTTTAGGGAGATAAGGTTTGTAGA-
* ** *
26694058 TTTAATCTACTCCACTGCAACTTTAG
63 TTTAATCTGCTCCACTATAAC-TTAA
26694084 GGAGATAAGATTTGTA
1 GGAGATAAGATTTGTA
26694100 ATTTGTAATT
Statistics
Matches: 430, Mismatches: 105, Indels: 40
0.75 0.18 0.07
Matches are distributed among these distances:
87 1 0.00
88 55 0.13
89 260 0.60
90 37 0.09
91 3 0.01
92 2 0.00
93 34 0.08
95 36 0.08
96 2 0.00
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (87 bp):
GGAGATAAGATTTGTATTTTCAATCTACTCCACTGCAATTTTAGGGAGATAAGGTTTGTAGATTT
AATCTGCTCCACTATAACTTAA
Found at i:26693731 original size:95 final size:88
Alignment explanation
Indices: 26693564--26694096 Score: 314
Period size: 89 Copynumber: 5.9 Consensus size: 88
26693554 ATTTGCTATT
* * * * * *
26693564 TTTAACCTACTTCACTGCAATTTTAGGGAGATAAGGTTTGCAGCTTTAATCTGCTCCACTATAAC
1 TTTAATCTACTCCACTGCAATTTCAGGGAGATAAGATTTGCAGCTTTAACCTGCTCCACTACAAC
*
26693629 TTCAAGGAGATAAGATTTGTAGCC
66 TTCAAGGAGATAAGATTTATAG-C
* * **
26693653 TGTCTTCAATTTACTCCACTGCAATTTCAGGGAGATAAGATTTGTTTATTTTTAACCTGCTCCAC
1 --T-TT-AATCTACTCCACTGCAATTTCAGGGAGATAAGATTTG--CAGCTTTAACCTGCTCCAC
* *
26693718 TACAACTTTAAGGAGATAAGGTTTATAGC
60 TACAACTTCAAGGAGATAAGATTTATAGC
* * * * * * * * * *
26693747 TTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTCTGATCTACTCCACTGCAA
1 TTTAATCTACTCCACTGCAATTTCAGGGAGATAAGATTTGC-AGCTTTAACCTGCTCCACTACAA
* *
26693812 CTTC-AGGAAGATAAGATCTATAAC
65 CTTCAAGG-AGATAAGATTTATAGC
* * * * * * * * * * ** *
26693836 TTCAATCTGCCCCACTACAACTTCAGGGAGACAATATTTGTAACCTTCAGTCTGCTCCACTGCAA
1 TTTAATCTACTCCACTGCAATTTCAGGGAGATAAGATTTG-CAGCTTTAACCTGCTCCACTACAA
* * * *
26693901 CTTCAGGGAGATAAGACTTGTAAC
65 CTTCAAGGAGATAAGATTTATAGC
* * * * * * ** ** * *
26693925 TTCAACCTACTCCACTGTAACTTCAGGGAGATACGGTTTATAGCTTTAATATGCTCTACTGCAAC
1 TTTAATCTACTCCACTGCAATTTCAGGGAGATAAGATTTGCAGCTTTAACCTGCTCCACTACAAC
* * *
26693990 TTC-AGAAAGATAAGATCTACTATC
66 TTCAAG-GAGATAAGATTTA-TAGC
* * ** * ** * * * *
26694014 TTCAATCTACTCCACTGCAACTTCAAAGAGATAAGATCTATAACTTTAATCTACTCCACTGCAAC
1 TTTAATCTACTCCACTGCAATTTCAGGGAGATAAGATTTGCAGCTTTAACCTGCTCCACTACAAC
* *
26694079 TTTAGGGAGATAAGATTT
66 TTCAAGGAGATAAGATTT
26694097 GTAATTTGTA
Statistics
Matches: 347, Mismatches: 84, Indels: 24
0.76 0.18 0.05
Matches are distributed among these distances:
87 1 0.00
88 34 0.10
89 199 0.57
90 35 0.10
91 3 0.01
92 3 0.01
93 32 0.09
94 1 0.00
95 39 0.11
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (88 bp):
TTTAATCTACTCCACTGCAATTTCAGGGAGATAAGATTTGCAGCTTTAACCTGCTCCACTACAAC
TTCAAGGAGATAAGATTTATAGC
Found at i:26693947 original size:133 final size:132
Alignment explanation
Indices: 26693750--26694094 Score: 361
Period size: 133 Copynumber: 2.6 Consensus size: 132
26693740 TTATAGCTTT
* * *
26693750 AATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATC-TCTGATCTACTCCACTGCAACT
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGA-TTG-TAACTTC-AATCTACTCCACTGCAACT
* * ** * **
26693814 TCAGGAAGATAAGATCTATAACTTCAATCTGCCCCACTACAACTTCAGGGAGACAATAT-TTGTA
63 TCAGGGAGATAAGATCTATAACTTCAATATGCCCCACTACAACTTCAGAAAGACAAGATCTACT-
26693878 ACCTTC
127 ACCTTC
* * * *
26693884 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTACTCCACTGTAACTTC
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGA-TTGTAACTTCAATCTACTCCACTGCAACTTC
* * * * * * * * * *
26693949 AGGGAGATACGGTTTATAGCTTTAATATGCTCTACTGCAACTTCAGAAAGATAAGATCTACTATC
65 AGGGAGATAAGATCTATAACTTCAATATGCCCCACTACAACTTCAGAAAGACAAGATCTACTACC
26694014 TTC
130 TTC
* * * * *
26694017 AATCTACTCCACTGCAACTTCAAAGAGATAAGATCTATAACTTTAATCTACTCCACTGCAACTTT
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGAT-TGTAACTTCAATCTACTCCACTGCAACTTC
26694082 AGGGAGATAAGAT
65 AGGGAGATAAGAT
26694095 TTGTAATTTG
Statistics
Matches: 172, Mismatches: 36, Indels: 7
0.80 0.17 0.03
Matches are distributed among these distances:
132 1 0.01
133 134 0.78
134 37 0.22
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (132 bp):
AATCTGCTCCACTGCAACTTCAGAGAGATAAGATTGTAACTTCAATCTACTCCACTGCAACTTCA
GGGAGATAAGATCTATAACTTCAATATGCCCCACTACAACTTCAGAAAGACAAGATCTACTACCT
TC
Found at i:26706425 original size:23 final size:24
Alignment explanation
Indices: 26706386--26706434 Score: 91
Period size: 23 Copynumber: 2.1 Consensus size: 24
26706376 ACATGAGGCA
26706386 TATGCAAAGGAAATTTTGAAGAAG
1 TATGCAAAGGAAATTTTGAAGAAG
26706410 TATGCAAA-GAAATTTTGAAGAAG
1 TATGCAAAGGAAATTTTGAAGAAG
26706433 TA
1 TA
26706435 CAAGATGGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 17 0.68
24 8 0.32
ACGTcount: A:0.47, C:0.04, G:0.22, T:0.27
Consensus pattern (24 bp):
TATGCAAAGGAAATTTTGAAGAAG
Found at i:26709151 original size:29 final size:29
Alignment explanation
Indices: 26709118--26709173 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
26709108 ACAATCGGTA
26709118 CAAGACTACATATACATACAGACAAAGCG
1 CAAGACTACATATACATACAGACAAAGCG
*
26709147 CAAGACTACATATACATACTGACAAAG
1 CAAGACTACATATACATACAGACAAAG
26709174 ACTGATACAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.48, C:0.23, G:0.12, T:0.16
Consensus pattern (29 bp):
CAAGACTACATATACATACAGACAAAGCG
Found at i:26710750 original size:3 final size:3
Alignment explanation
Indices: 26710742--26710778 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
26710732 GGTAAGAGAA
26710742 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
26710779 TTAATTTTAA
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:26714662 original size:147 final size:148
Alignment explanation
Indices: 26714381--26714675 Score: 522
Period size: 147 Copynumber: 2.0 Consensus size: 148
26714371 TCGAGACTTG
26714381 CAGAAGAAACAATTGAAGAAGAACAGAAATTTGCAAGTGGAAAAACAAAAAAAGAAAGAGAGAAT
1 CAGAAGAAACAATTGAAGAAGAACAGAAATTTGCAAGTGGAAAAACAAAAAAAGAAAGAGAGAAT
* *
26714446 TTGAATGCAAACTTAGCTGAAATTTTCATTAACGACAGAATAAGGCATTAAGCCATTACATATAT
66 TTGAATGCAAACTTAGCTGAAATTTTCATTAACAACAGAATAAGGCATTAAGCCATTACATATAC
26714511 TAGTCAACTTGTAAAGCT
131 TAGTCAACTTGTAAAGCT
*
26714529 CAGAAGAAAC-ATTGAAGAAGAACAGAAATTTGCAAGTGGAAAAA-ACAGAAAAGAAAGAGAGAA
1 CAGAAGAAACAATTGAAGAAGAACAGAAATTTGCAAGTGGAAAAACA-AAAAAAGAAAGAGAGAA
* *
26714592 TTTGAATGCAAACTTAGCTGAAATTTTTATTGACAACAGAATAAGGCATTAAGCCATTACATATA
65 TTTGAATGCAAACTTAGCTGAAATTTTCATTAACAACAGAATAAGGCATTAAGCCATTACATATA
26714657 CTAGTCAACTTGTAAAGCT
130 CTAGTCAACTTGTAAAGCT
26714676 AACAAGTTAC
Statistics
Matches: 141, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
146 1 0.01
147 130 0.92
148 10 0.07
ACGTcount: A:0.47, C:0.12, G:0.18, T:0.22
Consensus pattern (148 bp):
CAGAAGAAACAATTGAAGAAGAACAGAAATTTGCAAGTGGAAAAACAAAAAAAGAAAGAGAGAAT
TTGAATGCAAACTTAGCTGAAATTTTCATTAACAACAGAATAAGGCATTAAGCCATTACATATAC
TAGTCAACTTGTAAAGCT
Found at i:26718584 original size:33 final size:34
Alignment explanation
Indices: 26718505--26718584 Score: 87
Period size: 33 Copynumber: 2.4 Consensus size: 34
26718495 TAAAACTAAC
26718505 GATACATAAAATATTTTAAAAACTTTAAATATAAT
1 GATACATAAAATA-TTTAAAAACTTTAAATATAAT
* * *
26718540 -A-ACA-AATAATATTTAAATAGTTT-TATATAAT
1 GATACATAA-AATATTTAAAAACTTTAAATATAAT
26718571 GATACATAAAATAT
1 GATACATAAAATAT
26718585 AAACTAATCT
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
31 7 0.18
32 13 0.34
33 15 0.39
34 3 0.08
ACGTcount: A:0.54, C:0.05, G:0.04, T:0.38
Consensus pattern (34 bp):
GATACATAAAATATTTAAAAACTTTAAATATAAT
Found at i:26725320 original size:10 final size:10
Alignment explanation
Indices: 26725307--26725367 Score: 51
Period size: 9 Copynumber: 6.4 Consensus size: 10
26725297 TTTCTATATA
26725307 TTTTACAATT
1 TTTTACAATT
26725317 TTTTA-AGATT
1 TTTTACA-ATT
*
26725327 TTTATA-AA-A
1 TTT-TACAATT
26725336 TTTTACAA-T
1 TTTTACAATT
*
26725345 TTTTATAATT
1 TTTTACAATT
26725355 TTTTAC-ATT
1 TTTTACAATT
26725364 TTTT
1 TTTT
26725368 TCTAATTTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
8 2 0.05
9 20 0.47
10 18 0.42
11 3 0.07
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (10 bp):
TTTTACAATT
Found at i:26725329 original size:19 final size:19
Alignment explanation
Indices: 26725307--26725396 Score: 71
Period size: 19 Copynumber: 4.8 Consensus size: 19
26725297 TTTCTATATA
*
26725307 TTTTACAATTTTTTA-AGAT
1 TTTTATAATTTTTTACA-AT
**
26725326 TTTTATAAAATTTTACAAT
1 TTTTATAATTTTTTACAAT
*
26725345 TTTTATAATTTTTTACATTT
1 TTTTATAATTTTTTACA-AT
* *
26725365 TTTTCTAA--TTTTAAATAT
1 TTTTATAATTTTTTACA-AT
26725383 TTTTAT-ATTTTTTA
1 TTTTATAATTTTTTA
26725397 TTAAAATTTA
Statistics
Matches: 57, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
17 1 0.02
18 13 0.23
19 34 0.60
20 9 0.16
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.63
Consensus pattern (19 bp):
TTTTATAATTTTTTACAAT
Found at i:26725416 original size:30 final size:29
Alignment explanation
Indices: 26725349--26725428 Score: 85
Period size: 30 Copynumber: 2.8 Consensus size: 29
26725339 TACAATTTTT
* *
26725349 ATAATTTTTTACATTTTTT-TCTAATTTT
1 ATAATTTTTTATATTTTTTATCTAATTTA
26725377 A-AATATTTTTATATTTTTTAT-TAAAATTTA
1 ATAAT-TTTTTATATTTTTTATCT--AATTTA
*
26725407 ATAATTTTTTTTATTTTTTATC
1 ATAATTTTTTATATTTTTTATC
26725429 ATTTTTTGTT
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
27 3 0.07
28 15 0.35
29 1 0.02
30 21 0.49
31 3 0.07
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (29 bp):
ATAATTTTTTATATTTTTTATCTAATTTA
Found at i:26732936 original size:58 final size:57
Alignment explanation
Indices: 26732806--26732984 Score: 234
Period size: 58 Copynumber: 3.1 Consensus size: 57
26732796 TTCTTTTTCT
* * * * * * *
26732806 TTTTCTTTTTCATTTTGAAGAAAATCACATTTATTTCCAAATGATTT-CATTTCTCTA
1 TTTTCATTTTCATTTTGGAGAAAAACATAATCATTTCCAAATG-TTTCCATTTCTCCA
* *
26732863 TTTTCGTTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGTTTACCATTTCTCCA
1 TTTTCATTTTCATTTTGGAGAAAAACATAATCATTTCCAAATGTTT-CCATTTCTCCA
*
26732921 TTTTCATTTTCATTTTGGAGAAAAACATAATCATTTCCAAATTTTTCTCATTTCTCCA
1 TTTTCATTTTCATTTTGGAGAAAAACATAATCATTTCCAAATGTTTC-CATTTCTCCA
26732979 TTTTCA
1 TTTTCA
26732985 CAATTCCTAT
Statistics
Matches: 109, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
56 3 0.03
57 38 0.35
58 68 0.62
ACGTcount: A:0.28, C:0.18, G:0.06, T:0.47
Consensus pattern (57 bp):
TTTTCATTTTCATTTTGGAGAAAAACATAATCATTTCCAAATGTTTCCATTTCTCCA
Found at i:26740349 original size:25 final size:24
Alignment explanation
Indices: 26740304--26740350 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
26740294 TTGTAAATAA
*
26740304 GAAAAATATCTTTAGAAAATTTCT
1 GAAAAATATCTTCAGAAAATTTCT
* *
26740328 GAAATAATTTCTTCAGAGAATTT
1 GAAA-AATATCTTCAGAAAATTT
26740351 TCTTCAGAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 4 0.21
25 15 0.79
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.38
Consensus pattern (24 bp):
GAAAAATATCTTCAGAAAATTTCT
Found at i:26740354 original size:14 final size:14
Alignment explanation
Indices: 26740335--26740367 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
26740325 TCTGAAATAA
26740335 TTTCTTCAGAGAAT
1 TTTCTTCAGAGAAT
26740349 TTTCTTCAGAGAAT
1 TTTCTTCAGAGAAT
26740363 TTTCT
1 TTTCT
26740368 CTCTACAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.48
Consensus pattern (14 bp):
TTTCTTCAGAGAAT
Found at i:26741004 original size:18 final size:19
Alignment explanation
Indices: 26740968--26741005 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
26740958 AAATATAATT
*
26740968 TTAATTTTAATTAATTTGA
1 TTAATTTTAATTAACTTGA
*
26740987 TTAA-TTTAATTTACTTGA
1 TTAATTTTAATTAACTTGA
26741005 T
1 T
26741006 CAAAATTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.58
Consensus pattern (19 bp):
TTAATTTTAATTAACTTGA
Found at i:26748588 original size:57 final size:57
Alignment explanation
Indices: 26748500--26748686 Score: 374
Period size: 57 Copynumber: 3.3 Consensus size: 57
26748490 CTAGCAAATC
26748500 AGAGAATTAAACGCAATGATGAAGGACAAGCATTGGTTTATTCACCGAACAGAATAT
1 AGAGAATTAAACGCAATGATGAAGGACAAGCATTGGTTTATTCACCGAACAGAATAT
26748557 AGAGAATTAAACGCAATGATGAAGGACAAGCATTGGTTTATTCACCGAACAGAATAT
1 AGAGAATTAAACGCAATGATGAAGGACAAGCATTGGTTTATTCACCGAACAGAATAT
26748614 AGAGAATTAAACGCAATGATGAAGGACAAGCATTGGTTTATTCACCGAACAGAATAT
1 AGAGAATTAAACGCAATGATGAAGGACAAGCATTGGTTTATTCACCGAACAGAATAT
26748671 AGAGAATTAAACGCAA
1 AGAGAATTAAACGCAA
26748687 GTGGCATCCA
Statistics
Matches: 130, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 130 1.00
ACGTcount: A:0.43, C:0.14, G:0.21, T:0.22
Consensus pattern (57 bp):
AGAGAATTAAACGCAATGATGAAGGACAAGCATTGGTTTATTCACCGAACAGAATAT
Found at i:26748895 original size:23 final size:20
Alignment explanation
Indices: 26748865--26748909 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
26748855 TTTTTTTTTT
26748865 TAAAAGTTCAACAAAGAATAAA
1 TAAAAGTTC-ACAAA-AATAAA
*
26748887 TAAATAGTTCACCAAAATAAA
1 TAAA-AGTTCACAAAAATAAA
26748908 TA
1 TA
26748910 GAATGAGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 8 0.38
22 8 0.38
23 5 0.24
ACGTcount: A:0.60, C:0.11, G:0.07, T:0.22
Consensus pattern (20 bp):
TAAAAGTTCACAAAAATAAA
Found at i:26751914 original size:18 final size:18
Alignment explanation
Indices: 26751891--26751930 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
26751881 TAGTCGACTT
*
26751891 TTATTTTAATAT-TGTTTA
1 TTATTTTAA-ATGTATTTA
26751909 TTATTTTAAATGTATTTA
1 TTATTTTAAATGTATTTA
26751927 TTAT
1 TTAT
26751931 ATCTTATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (18 bp):
TTATTTTAAATGTATTTA
Found at i:26756750 original size:25 final size:27
Alignment explanation
Indices: 26756716--26756777 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
26756706 TATATTATAT
*
26756716 TATAATTATCAC-AA-CT-TTTTTTTAA
1 TATAATTATC-CTAATCTATTTTTTCAA
*
26756741 TATAACTATCCTAATCTATTTTTTCAA
1 TATAATTATCCTAATCTATTTTTTCAA
26756768 TATAATTATC
1 TATAATTATC
26756778 TCCATCTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
24 1 0.03
25 11 0.35
26 2 0.06
27 17 0.55
ACGTcount: A:0.35, C:0.15, G:0.00, T:0.50
Consensus pattern (27 bp):
TATAATTATCCTAATCTATTTTTTCAA
Found at i:26756784 original size:27 final size:26
Alignment explanation
Indices: 26756716--26756787 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 26
26756706 TATATTATAT
* * *
26756716 TATAATTATCACAACT-TTTTTTTAA
1 TATAATTATCCCATCTATTTTTTCAA
* *
26756741 TATAACTATCCTAATCTATTTTTTCAA
1 TATAATTATCC-CATCTATTTTTTCAA
26756768 TATAATTATCTCCATCTATT
1 TATAATTATC-CCATCTATT
26756788 CCCTAGATTA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
25 9 0.24
26 3 0.08
27 24 0.65
28 1 0.03
ACGTcount: A:0.33, C:0.17, G:0.00, T:0.50
Consensus pattern (26 bp):
TATAATTATCCCATCTATTTTTTCAA
Found at i:26758103 original size:22 final size:21
Alignment explanation
Indices: 26758050--26758104 Score: 53
Period size: 22 Copynumber: 2.6 Consensus size: 21
26758040 GTTTAATAAG
26758050 TTTTTTAGT-TT-TAGAAGTT
1 TTTTTTAGTCTTGTAGAAGTT
*
26758069 TTTGTTT-GCTCTTGTAGCACGTT
1 TTT-TTTAG-TCTTGTAG-AAGTT
26758092 TTTTTTAGTCTTG
1 TTTTTTAGTCTTG
26758105 CTTATGCATG
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
19 4 0.14
20 4 0.14
21 2 0.07
22 11 0.38
23 8 0.28
ACGTcount: A:0.13, C:0.09, G:0.18, T:0.60
Consensus pattern (21 bp):
TTTTTTAGTCTTGTAGAAGTT
Found at i:26761139 original size:2 final size:2
Alignment explanation
Indices: 26761134--26761164 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
26761124 AAAAAATTAC
26761134 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
26761165 AATTAAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:26762749 original size:44 final size:44
Alignment explanation
Indices: 26762701--26763223 Score: 541
Period size: 44 Copynumber: 11.8 Consensus size: 44
26762691 TTGTTGCTTC
* * * *
26762701 AATCTACTCCACCGCAACTTCAGGGAGATTAGACTTGTAGA-TTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTA-ACTTT
** * * *** * *
26762745 AATCTGCTCCACTGCAACTTCAAAGAGATGAGACTCACATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTT
* * * * * *
26762789 AATCTACTCTATTGCAACTTCAGGGAAATGAGATTTGTAACTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTT
* * * *
26762833 AATATGCTCCATTGTAACTTCAGGGAGATGAGATTTGTAACTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTT
* * * * *
26762877 AATCTGCTCCACTGTAACTTCAAGGAGATGAGGTTTGTAACTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTT
* *
26762921 AATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGTAACTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTT
* *
26762965 AATCTACTCCACTGCAACTTCAGGAAGATAAGATTTGTAACTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTT
** * *
26763009 AATCTGCTCCACTGCAACTTCAGAAAGATAAGATTTCTAACTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTT
* * *
26763053 AATATGCTCCACTGCAACTTCAGAGAGATAAGATTTGCT-ATTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TAACTTT
*
26763097 CAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGTAA-TTT
1 -AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTT
* * * *
26763141 CAATCTGCTCTACTGCAATTTCAGAGAGATAAGATTTGCT-ATTTT
1 -AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TAACTTT
* * *
26763186 CAATCTGCTCCACTGTAACTTTAGGGAGATAAAATTTG
1 -AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG
26763224 CCACGATAAC
Statistics
Matches: 410, Mismatches: 63, Indels: 11
0.85 0.13 0.02
Matches are distributed among these distances:
44 338 0.82
45 72 0.18
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTT
Found at i:26765884 original size:24 final size:24
Alignment explanation
Indices: 26765857--26765919 Score: 72
Period size: 25 Copynumber: 2.6 Consensus size: 24
26765847 CAGCTCGAAA
*
26765857 GAGCATCCCGTTATTAGCTCTCAT
1 GAGCATCCCGTTATTAGCTCTCAC
* * *
26765881 GAGCATCTCGGTATTTGGCTCTCAC
1 GAGCATCCCGTTA-TTAGCTCTCAC
*
26765906 GAGCTTCCCGTTAT
1 GAGCATCCCGTTAT
26765920 ATGGTCCTTG
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
24 12 0.39
25 19 0.61
ACGTcount: A:0.17, C:0.29, G:0.21, T:0.33
Consensus pattern (24 bp):
GAGCATCCCGTTATTAGCTCTCAC
Found at i:26766100 original size:25 final size:26
Alignment explanation
Indices: 26766026--26766108 Score: 84
Period size: 27 Copynumber: 3.3 Consensus size: 26
26766016 GTCCCAATAT
*
26766026 ATGGCTCTT-TAGAGCTTCCCGATTA
1 ATGGCTCTTCCAGAGCTTCCCGATTA
* * *
26766051 AAGGCTCTTTCATGAGCTTCTCGATTA
1 ATGGCTCTTCCA-GAGCTTCCCGATTA
26766078 ATGGCTC-TCC-GAAGCTTCCCGA-TA
1 ATGGCTCTTCCAG-AGCTTCCCGATTA
26766102 ATGGCTC
1 ATGGCTC
26766109 GCTTAAACTT
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
24 10 0.20
25 17 0.35
26 3 0.06
27 19 0.39
ACGTcount: A:0.20, C:0.27, G:0.20, T:0.33
Consensus pattern (26 bp):
ATGGCTCTTCCAGAGCTTCCCGATTA
Found at i:26766119 original size:24 final size:24
Alignment explanation
Indices: 26766092--26766156 Score: 103
Period size: 24 Copynumber: 2.7 Consensus size: 24
26766082 CTCTCCGAAG
*
26766092 CTTCCCGATAATGGCTCGCTTAAA
1 CTTCCCGATTATGGCTCGCTTAAA
* *
26766116 CTTCTCGTTTATGGCTCGCTTAAA
1 CTTCCCGATTATGGCTCGCTTAAA
26766140 CTTCCCGATTATGGCTC
1 CTTCCCGATTATGGCTC
26766157 TTATGAGCTT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.18, C:0.29, G:0.17, T:0.35
Consensus pattern (24 bp):
CTTCCCGATTATGGCTCGCTTAAA
Found at i:26766167 original size:24 final size:24
Alignment explanation
Indices: 26766004--26766174 Score: 86
Period size: 24 Copynumber: 7.0 Consensus size: 24
26765994 ACACACCATA
* * *
26766004 GCTCTTATGACCGTCCCAATATATG
1 GCTCTTATGAGCTTCCCGAT-TATG
*
26766029 GCTCTT-TAGAGCTTCCCGATTAAAG
1 GCTCTTAT-GAGCTTCCCGATT-ATG
*
26766054 GCTCTTTCATGAGCTTCTCGATTAATG
1 GCTC-TT-ATGAGCTTCCCGATT-ATG
** *
26766081 GCTC-TCCGAAGCTTCCCGATAATG
1 GCTCTTATG-AGCTTCCCGATTATG
* * *
26766105 GCTCGCTTA--AACTTCTCGTTTATG
1 GCT--CTTATGAGCTTCCCGATTATG
*
26766129 GCTCGCTTA--AACTTCCCGATTATG
1 GCT--CTTATGAGCTTCCCGATTATG
26766153 GCTCTTATGAGCTTCCCG-TTAT
1 GCTCTTATGAGCTTCCCGATTAT
26766175 ATAGCTCGAA
Statistics
Matches: 117, Mismatches: 18, Indels: 24
0.74 0.11 0.15
Matches are distributed among these distances:
22 4 0.03
23 4 0.03
24 53 0.45
25 32 0.27
26 3 0.03
27 20 0.17
28 1 0.01
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (24 bp):
GCTCTTATGAGCTTCCCGATTATG
Found at i:26768419 original size:21 final size:21
Alignment explanation
Indices: 26768395--26768437 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
26768385 ATGAATTTTA
*
26768395 TTTTTTGAGCCCTTTCGGAGG
1 TTTTTTCAGCCCTTTCGGAGG
26768416 TTTTTTCAGCCCTTTCGGAGG
1 TTTTTTCAGCCCTTTCGGAGG
26768437 T
1 T
26768438 AACTCTTGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.09, C:0.21, G:0.26, T:0.44
Consensus pattern (21 bp):
TTTTTTCAGCCCTTTCGGAGG
Found at i:26772798 original size:23 final size:24
Alignment explanation
Indices: 26772753--26772800 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
26772743 GTGTGTAGTA
*
26772753 CTATGTGCAGGCTACTACGTGTAC
1 CTATGTGCAGGCTACTACATGTAC
*
26772777 CTATGTGCAGG-TACTATATGTAC
1 CTATGTGCAGGCTACTACATGTAC
26772800 C
1 C
26772801 GGATAGTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (24 bp):
CTATGTGCAGGCTACTACATGTAC
Found at i:26772991 original size:45 final size:45
Alignment explanation
Indices: 26772900--26772992 Score: 123
Period size: 45 Copynumber: 2.1 Consensus size: 45
26772890 TACTATGTGA
* *
26772900 ACCAAACATCATTGATTAGTAAGGTGGTTGCTATGTACTGATTCC
1 ACCAAACATCATTGATTAATAAGGTGGTTGCTATGTACTGAATCC
* * * **
26772945 ACCAGACATTATTGATTAATAAGGTGGTTGTTATGTGTTGAATCC
1 ACCAAACATCATTGATTAATAAGGTGGTTGCTATGTACTGAATCC
26772990 ACC
1 ACC
26772993 GAGTATCTGT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.34
Consensus pattern (45 bp):
ACCAAACATCATTGATTAATAAGGTGGTTGCTATGTACTGAATCC
Found at i:26780097 original size:2 final size:2
Alignment explanation
Indices: 26780090--26780116 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
26780080 TAATAAGGGC
26780090 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
26780117 AATGCTTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:26780188 original size:30 final size:30
Alignment explanation
Indices: 26780153--26780254 Score: 78
Period size: 33 Copynumber: 3.2 Consensus size: 30
26780143 ATATCATATT
26780153 TAAATATTTAAAAAGTAAAAGAATAATAAA
1 TAAATATTTAAAAAGTAAAAGAATAATAAA
* * * * *
26780183 TAAATAGATAAAACAAATATAAATAATATTAAA
1 TAAATA-TTTAAA-AAGTA-AAAGAATAATAAA
* * * *
26780216 TTTAAGTCTTTAAAAAGTAAAAGAACAATATA
1 --TAAATATTTAAAAAGTAAAAGAATAATAAA
26780248 TAAATAT
1 TAAATAT
26780255 AATAAATAAA
Statistics
Matches: 51, Mismatches: 16, Indels: 10
0.66 0.21 0.13
Matches are distributed among these distances:
30 11 0.22
31 4 0.08
32 13 0.25
33 15 0.29
34 4 0.08
35 4 0.08
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (30 bp):
TAAATATTTAAAAAGTAAAAGAATAATAAA
Found at i:26780219 original size:65 final size:65
Alignment explanation
Indices: 26780133--26780330 Score: 263
Period size: 65 Copynumber: 3.0 Consensus size: 65
26780123 TAATGAAAAG
* * * * *
26780133 AATATAAGTAATATCATATTTAAATATTTAAAAAGTAAAAGAATAATAAATAAATAGATAAAACA
1 AATATAAATAATATTAAATTTAAGTATTTAAAAAGTAAAAGAATAATAAATAAATAAATAAAACA
*
26780198 AATATAAATAATATTAAATTTAAGTCTTTAAAAAGTAAAAGAACAATATATAAATATAATAAATA
1 AATATAAATAATATTAAATTTAAGTATTTAAAAAGTAAAAG---AATA-ATAAATA-AATAAATA
26780263 AAACA
61 AAACA
* *
26780268 AATATATATAATATTAAATTTAAGTATTTAAAAAAGTAAAAGAATAATAAAAAAATAAA-AAAA
1 AATATAAATAATATTAAATTTAAGTATTT-AAAAAGTAAAAGAATAATAAATAAATAAATAAAA
26780331 TAGATAAAAC
Statistics
Matches: 118, Mismatches: 9, Indels: 12
0.85 0.06 0.09
Matches are distributed among these distances:
65 40 0.34
66 6 0.05
67 6 0.05
68 8 0.07
69 7 0.06
70 39 0.33
71 12 0.10
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (65 bp):
AATATAAATAATATTAAATTTAAGTATTTAAAAAGTAAAAGAATAATAAATAAATAAATAAAACA
Found at i:26780230 original size:35 final size:35
Alignment explanation
Indices: 26780191--26780300 Score: 102
Period size: 35 Copynumber: 3.1 Consensus size: 35
26780181 AATAAATAGA
*
26780191 TAAAACAAATATAAATAATATTAAATTTAAGTCTT
1 TAAAACAAATATAAATAATATTAAATTTAAGTATT
* * **
26780226 TAAAA-AGTAA-A-AGAACAATATATAAATATAA-TAAA
1 TAAAACA--AATATA-AATAATAT-TAAATTTAAGTATT
*
26780261 TAAAACAAATATATATAATATTAAATTTAAGTATT
1 TAAAACAAATATAAATAATATTAAATTTAAGTATT
26780296 TAAAA
1 TAAAA
26780301 AAGTAAAAGA
Statistics
Matches: 57, Mismatches: 10, Indels: 16
0.69 0.12 0.19
Matches are distributed among these distances:
34 12 0.21
35 33 0.58
36 12 0.21
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.33
Consensus pattern (35 bp):
TAAAACAAATATAAATAATATTAAATTTAAGTATT
Found at i:26780322 original size:20 final size:20
Alignment explanation
Indices: 26780296--26780339 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
26780286 TTTAAGTATT
* *
26780296 TAAAAAAGTAAAAGAATA-A
1 TAAAAAAATAAAAAAATAGA
26780315 TAAAAAAATAAAAAAATAGA
1 TAAAAAAATAAAAAAATAGA
26780335 TAAAA
1 TAAAA
26780340 CGAATATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.16
Consensus pattern (20 bp):
TAAAAAAATAAAAAAATAGA
Found at i:26780348 original size:70 final size:70
Alignment explanation
Indices: 26780177--26780347 Score: 204
Period size: 70 Copynumber: 2.4 Consensus size: 70
26780167 GTAAAAGAAT
*
26780177 AATAAATAAATAGATAAAACAAATATAAATAATATTAAATTTAAGTCTTTAAAAAGTAAAAGAAC
1 AATAAATAAATAGATAAAAC-AATAT--ATAATATTAAATTTAAGTATTTAAAAAGTAAAAGAAC
* *
26780242 AATATATA
63 AATAAAAA
26780250 AATATAATAAATA-A-AACAA-ATATATATAATATTAAATTTAAGTATTTAAAAAAGTAAAAGAA
1 AATA-AATAAATAGATAA-AACA-ATATATAATATTAAATTTAAGTATTT-AAAAAGTAAAAGAA
*
26780312 TAATAAAAA
62 CAATAAAAA
*
26780321 AATAAAAAAATAGATAAAACGAATATA
1 AATAAATAAATAGATAAAAC-AATATA
26780348 AAAGGATGAA
Statistics
Matches: 85, Mismatches: 5, Indels: 17
0.79 0.05 0.16
Matches are distributed among these distances:
70 28 0.33
71 28 0.33
72 13 0.15
73 8 0.09
74 8 0.09
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.27
Consensus pattern (70 bp):
AATAAATAAATAGATAAAACAATATATAATATTAAATTTAAGTATTTAAAAAGTAAAAGAACAAT
AAAAA
Found at i:26787241 original size:41 final size:41
Alignment explanation
Indices: 26787184--26787331 Score: 262
Period size: 41 Copynumber: 3.6 Consensus size: 41
26787174 CATTGAATGT
26787184 AAGGGGTTGCTAAGTGCAGATTCCCCGAAACTCTGATCAAA
1 AAGGGGTTGCTAAGTGCAGATTCCCCGAAACTCTGATCAAA
26787225 AAGGGGTTGCTAAGTGCAGATTCCCCGAAACTCTGATCAAA
1 AAGGGGTTGCTAAGTGCAGATTCCCCGAAACTCTGATCAAA
*
26787266 AAGGGGTTGCTAAGTGCAGATTCCCCGAAACTCTAATCTAAA
1 AAGGGGTTGCTAAGTGCAGATTCCCCGAAACTCTGATC-AAA
*
26787308 AA-GGGTTGCTAAGTGTAGATTCCC
1 AAGGGGTTGCTAAGTGCAGATTCCC
26787332 TGAGAGGTTG
Statistics
Matches: 104, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
41 99 0.95
42 5 0.05
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (41 bp):
AAGGGGTTGCTAAGTGCAGATTCCCCGAAACTCTGATCAAA
Found at i:26787367 original size:26 final size:26
Alignment explanation
Indices: 26787311--26787360 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
26787301 ATCTAAAAAG
*
26787311 GGTTGCTAAGTGTAGATTCCCTGAGA
1 GGTTGCTAAGTGTAGATTCCCCGAGA
26787337 GGTTGCTAAGTGCTA-ATTCCCCGA
1 GGTTGCTAAGTG-TAGATTCCCCGA
26787361 ATTGTTGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (26 bp):
GGTTGCTAAGTGTAGATTCCCCGAGA
Found at i:26787482 original size:41 final size:43
Alignment explanation
Indices: 26787373--26787483 Score: 122
Period size: 43 Copynumber: 2.6 Consensus size: 43
26787363 TGTTGATTCT
* *
26787373 AAAGGTGGTTGCTAAGTGTTGATTCCACTGTATCCTTGATTGTA
1 AAAGGTGGTTGCTAAGTGTTGATTCCACTATATCCTTGA-TATA
* * *
26787417 AAAGG-GGTTACTATGTGCTGATTCC-CTATATCAC-TGA-ATA
1 AAAGGTGGTTGCTAAGTGTTGATTCCACTATATC-CTTGATATA
*
26787457 TAAGGTGGTTGCTAAGTGTTGATTCCA
1 AAAGGTGGTTGCTAAGTGTTGATTCCA
26787484 TCGAGTAACG
Statistics
Matches: 55, Mismatches: 9, Indels: 8
0.76 0.12 0.11
Matches are distributed among these distances:
40 6 0.11
41 17 0.31
42 9 0.16
43 18 0.33
44 5 0.09
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.36
Consensus pattern (43 bp):
AAAGGTGGTTGCTAAGTGTTGATTCCACTATATCCTTGATATA
Found at i:26790112 original size:42 final size:42
Alignment explanation
Indices: 26789975--26790120 Score: 170
Period size: 42 Copynumber: 3.5 Consensus size: 42
26789965 GTTACTCGGT
* * *
26789975 GGAATCAGCACTTAGCAACCACC-TTATATTCAGTGATACGG
1 GGAATCAGCACTTAGCAACCACCTTTACAATCAATGATACGG
* * * *
26790016 GGAATCAGCACATAACAACC-CCTTTCACAATCAAGGATACAGT
1 GGAATCAGCACTTAGCAACCACCTTT-ACAATCAATGATAC-GG
* * *
26790059 GGAATCAGCACTTAGCAACCACCTTTAGAATCAATAATTCGG
1 GGAATCAGCACTTAGCAACCACCTTTACAATCAATGATACGG
26790101 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
26790121 TCTCGGGGAA
Statistics
Matches: 87, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
40 2 0.02
41 20 0.23
42 31 0.36
43 29 0.33
44 5 0.06
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (42 bp):
GGAATCAGCACTTAGCAACCACCTTTACAATCAATGATACGG
Found at i:26790126 original size:26 final size:26
Alignment explanation
Indices: 26790097--26790149 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
26790087 AATCAATAAT
26790097 TCGGGGAATCAGCACTTAGCAACCTC
1 TCGGGGAATCAGCACTTAGCAACCTC
*
26790123 TCGGGGAATCTGCACTTAGCAACCTC
1 TCGGGGAATCAGCACTTAGCAACCTC
26790149 T
1 T
26790150 TTTTGATCAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.25, C:0.30, G:0.23, T:0.23
Consensus pattern (26 bp):
TCGGGGAATCAGCACTTAGCAACCTC
Found at i:26790271 original size:41 final size:41
Alignment explanation
Indices: 26790123--26790273 Score: 248
Period size: 41 Copynumber: 3.7 Consensus size: 41
26790113 TAGCAACCTC
*
26790123 TCGGGGAATCTGCACTTAGCAACCTCTTTTTGATCAGAGTT
1 TCGGGGAATCTGCACTTAGCAACCCCTTTTTGATCAGAGTT
* *
26790164 TCGGGGAATCTGCATTTAGCAACCCTTTTTTGATCAGAGTT
1 TCGGGGAATCTGCACTTAGCAACCCCTTTTTGATCAGAGTT
* * *
26790205 TCAGGGAATCTGCACTTAACAACCCCTTTTTGATCACAGTT
1 TCGGGGAATCTGCACTTAGCAACCCCTTTTTGATCAGAGTT
26790246 TCGGGGAATCTGCACTTAGCAACCCCTT
1 TCGGGGAATCTGCACTTAGCAACCCCTT
26790274 ACATTCAATG
Statistics
Matches: 100, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 100 1.00
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (41 bp):
TCGGGGAATCTGCACTTAGCAACCCCTTTTTGATCAGAGTT
Found at i:26797805 original size:18 final size:18
Alignment explanation
Indices: 26797782--26797821 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
26797772 TTATTATTTT
*
26797782 TAAAATTT-ACTATTAAAA
1 TAAAATTTAAATATT-AAA
26797800 TAAAATTTAAATATTAAA
1 TAAAATTTAAATATTAAA
26797818 TAAA
1 TAAA
26797822 TTATTAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (18 bp):
TAAAATTTAAATATTAAA
Found at i:26797828 original size:19 final size:19
Alignment explanation
Indices: 26797792--26797842 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 19
26797782 TAAAATTTAC
*
26797792 TATTAAAATAAAAT-TTAAA
1 TATT-AAATAAATTATTAAA
26797811 TATTAAATAAATTATTAAA
1 TATTAAATAAATTATTAAA
*
26797830 -AAT-AATAAATTAT
1 TATTAAATAAATTAT
26797843 ATTAATTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 10 0.34
18 10 0.34
19 9 0.31
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
TATTAAATAAATTATTAAA
Found at i:26804167 original size:17 final size:18
Alignment explanation
Indices: 26804134--26804169 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
26804124 TAAATTTTAA
26804134 AATAAATATAGGCATAAT
1 AATAAATATAGGCATAAT
*
26804152 AATAAATTTA-GCATAAT
1 AATAAATATAGGCATAAT
26804169 A
1 A
26804170 TTTATTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.56, C:0.06, G:0.08, T:0.31
Consensus pattern (18 bp):
AATAAATATAGGCATAAT
Found at i:26806933 original size:16 final size:17
Alignment explanation
Indices: 26806912--26806948 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
26806902 CTTTCGAATA
26806912 TAGTG-ATTTTTTTAAC
1 TAGTGAATTTTTTTAAC
*
26806928 TAGTGAATTTTTTTTAC
1 TAGTGAATTTTTTTAAC
26806945 TAGT
1 TAGT
26806949 TGATGTTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.24, C:0.05, G:0.14, T:0.57
Consensus pattern (17 bp):
TAGTGAATTTTTTTAAC
Found at i:26809195 original size:44 final size:42
Alignment explanation
Indices: 26809135--26809220 Score: 109
Period size: 42 Copynumber: 2.0 Consensus size: 42
26809125 AAACATTCAA
* * * *
26809135 ATTGAATCATCGAATTACACAGTATAATTCTAATTAGAATATTC
1 ATTGAATCATCAAATTA-A-AATATAATTCTAATCAAAATATTC
*
26809179 ATTGAATCTTCAAATTAAAATATAATTCTAATCAAAATATTC
1 ATTGAATCATCAAATTAAAATATAATTCTAATCAAAATATTC
26809221 CATTATCAGT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
42 21 0.57
43 1 0.03
44 15 0.41
ACGTcount: A:0.44, C:0.13, G:0.06, T:0.37
Consensus pattern (42 bp):
ATTGAATCATCAAATTAAAATATAATTCTAATCAAAATATTC
Found at i:26823810 original size:18 final size:18
Alignment explanation
Indices: 26823783--26823817 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
26823773 CGATATCTAT
*
26823783 TTCATGGAAAGCAAGCAG
1 TTCATAGAAAGCAAGCAG
*
26823801 TTCATAGAAATCAAGCA
1 TTCATAGAAAGCAAGCA
26823818 AATCTTGCGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.17, G:0.20, T:0.20
Consensus pattern (18 bp):
TTCATAGAAAGCAAGCAG
Done.