Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 162 of 325
Found at i:52033083 original size:28 final size:28
Alignment explanation
Indices: 52033043--52033099 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
52033033 AATGTCAATG
52033043 TTGTAATTATGGCTAAGGTTTAGTTTTA
1 TTGTAATTATGGCTAAGGTTTAGTTTTA
52033071 TTGTAATTATGGCTAAGGTTTAGTTTTA
1 TTGTAATTATGGCTAAGGTTTAGTTTTA
52033099 T
1 T
52033100 GTTAAGCTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.25, C:0.04, G:0.21, T:0.51
Consensus pattern (28 bp):
TTGTAATTATGGCTAAGGTTTAGTTTTA
Found at i:52045311 original size:48 final size:48
Alignment explanation
Indices: 52045239--52045338 Score: 182
Period size: 48 Copynumber: 2.1 Consensus size: 48
52045229 GGTGCATGGC
* *
52045239 GTTCTCTTAAAGATCTACGTGGTGGTTGTGTTTCTACATCAGTTACTT
1 GTTCTCTTAAAGATCTACGCGGTGGTTGTGTTTCTACAGCAGTTACTT
52045287 GTTCTCTTAAAGATCTACGCGGTGGTTGTGTTTCTACAGCAGTTACTT
1 GTTCTCTTAAAGATCTACGCGGTGGTTGTGTTTCTACAGCAGTTACTT
52045335 GTTC
1 GTTC
52045339 CTCAATTTCT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.42
Consensus pattern (48 bp):
GTTCTCTTAAAGATCTACGCGGTGGTTGTGTTTCTACAGCAGTTACTT
Found at i:52061447 original size:40 final size:39
Alignment explanation
Indices: 52061410--52061501 Score: 123
Period size: 39 Copynumber: 2.3 Consensus size: 39
52061400 GCTACTCGTT
*
52061410 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CATAGCCCGGAAT-TAGTAACTCGCA
* * *
52061450 CAATTGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
52061489 CAAATGCCTTCGG
1 CAAATGCCTTCGG
52061502 ATCTTAGTCC
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
39 32 0.70
40 14 0.30
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
Found at i:52061481 original size:39 final size:39
Alignment explanation
Indices: 52061391--52061554 Score: 149
Period size: 40 Copynumber: 4.1 Consensus size: 39
52061381 TCGAATTTAA
*
52061391 CCGGATATAGCT-ACTCGTTCA-AATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCG--CACAATGCCTTCGGGACTTAGC
*
52061431 CCGGTTATAGTAACTCGCACAATTGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAA-TGCCTTCGGGACTTAGC
* *
52061470 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCAC-AATGCCTTCGGGA-CTTAGC
* * * *
52061510 CCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAATGCCTTCGGGACTTAGC
52061550 CCGGA
1 CCGGA
52061555 CATCATTCAA
Statistics
Matches: 103, Mismatches: 11, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
38 5 0.05
39 31 0.30
40 58 0.56
41 9 0.09
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAGTAACTCGCACAATGCCTTCGGGACTTAGC
Found at i:52371139 original size:37 final size:36
Alignment explanation
Indices: 52371089--52371166 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 36
52371079 TTATTACGAA
* *
52371089 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATC-G
*
52371126 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCG
52371162 GTCTT
1 GTCTT
52371167 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
36 6 0.16
37 29 0.78
38 2 0.05
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.26
Consensus pattern (36 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCG
Found at i:52371363 original size:47 final size:47
Alignment explanation
Indices: 52371285--52371811 Score: 907
Period size: 47 Copynumber: 11.3 Consensus size: 47
52371275 CCCTTCGGGA
* * * * * * *
52371285 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
52371332 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52371379 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
52371426 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
52371473 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52371520 CTTATCAC--ATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52371565 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52371612 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
52371659 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52371706 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
52371753 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTA-GC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52371799 CTTATCACATATA
1 CTTATCACATATA
52371812 CACTGCTTGG
Statistics
Matches: 460, Mismatches: 18, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
45 44 0.10
46 15 0.03
47 401 0.87
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:52371707 original size:233 final size:233
Alignment explanation
Indices: 52371285--52371811 Score: 912
Period size: 233 Copynumber: 2.2 Consensus size: 233
52371275 CCCTTCGGGA
* * * * * * * *
52371285 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACA--TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
52371350 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
64 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
*
52371415 GGCCATTAGGCCTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCA
129 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCA
*
52371480 CATATATACACTTTCACATTCATCACATCGGCTATTAGGC
194 CATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52371520 CTTATCACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
1 CTTATCACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
52371585 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
66 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
52371650 CCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACA
131 CCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACA
52371715 TATATACACTTTCACATTCATCACATCGGCCATTAGGC
196 TATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
52371753 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTA-GCCTTATCACATATA
1 CTTATCAC--ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
52371812 CACTGCTTGG
Statistics
Matches: 279, Mismatches: 11, Indels: 5
0.95 0.04 0.02
Matches are distributed among these distances:
233 222 0.80
234 15 0.05
235 42 0.15
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (233 bp):
CTTATCACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
CCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACA
TATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:52376334 original size:14 final size:13
Alignment explanation
Indices: 52376309--52376350 Score: 54
Period size: 10 Copynumber: 3.4 Consensus size: 13
52376299 TTAAATTGTA
52376309 TTTAAAATTTTAT
1 TTTAAAATTTTAT
52376322 TTTAAATATTTTAT
1 TTTAAA-ATTTTAT
52376336 TTT---ATTTTAT
1 TTTAAAATTTTAT
52376346 TTTAA
1 TTTAA
52376351 TCAGGAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
10 10 0.38
13 6 0.23
14 10 0.38
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTAAAATTTTAT
Found at i:52376362 original size:98 final size:98
Alignment explanation
Indices: 52376193--52376380 Score: 304
Period size: 98 Copynumber: 1.9 Consensus size: 98
52376183 TTAACCTTAT
* *
52376193 TAATTAAATTAAATTGTAATTAAAGTTTTATTTTGAAGATATTATTTTATTTTAATTTAATCACG
1 TAATTAAATTAAATTGTAATTAAAATTTTATTTTAAAGATATTATTTTATTTTAATTTAATCACG
*
52376258 ATAAATATTTTGTCTACTTTTATTTAAATTACC
66 AAAAATATTTTGTCTACTTTTATTTAAATTACC
* * * * *
52376291 TAATTAAATTAAATTGTATTTAAAATTTTATTTTAAATATTTTATTTTATTTTATTTTAATCAGG
1 TAATTAAATTAAATTGTAATTAAAATTTTATTTTAAAGATATTATTTTATTTTAATTTAATCACG
52376356 AAAAATATTTTGTCTACTTTTATTT
66 AAAAATATTTTGTCTACTTTTATTT
52376381 TATTTTTAAA
Statistics
Matches: 82, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
98 82 1.00
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.54
Consensus pattern (98 bp):
TAATTAAATTAAATTGTAATTAAAATTTTATTTTAAAGATATTATTTTATTTTAATTTAATCACG
AAAAATATTTTGTCTACTTTTATTTAAATTACC
Found at i:52376619 original size:29 final size:31
Alignment explanation
Indices: 52376586--52376778 Score: 91
Period size: 29 Copynumber: 6.1 Consensus size: 31
52376576 TACATGATTT
*
52376586 ACATAACTTACATAA-TACATAA-ATATATA
1 ACATAACTTACATAATTACATAAGATAAATA
*
52376615 ACATATCTTACATAATTTACATAAGATAAATAA
1 ACATAACTTACATAA-TTACATAAGATAAAT-A
* *
52376648 CTTACATAATTTACATAACTTACATAATACATAATGATGTA
1 ---ACATAACTTACATAA-TTACAT-A-AGATAA--A--TA
* *
52376689 TCATATCTTACATAATTTACATAAG----ATA
1 ACATAACTTACATAA-TTACATAAGATAAATA
**
52376717 A-ATAACTTACATAA-TACAT-A-ATGACGTA
1 ACATAACTTACATAATTACATAAGAT-AAATA
* *
52376745 TCATATCTTACATAATTTACATAAGATAAATA
1 ACATAACTTACATAA-TTACATAAGATAAATA
52376777 AC
1 AC
52376779 TTACATAATT
Statistics
Matches: 122, Mismatches: 19, Indels: 43
0.66 0.10 0.23
Matches are distributed among these distances:
24 1 0.01
25 5 0.04
27 12 0.10
28 4 0.03
29 26 0.21
30 1 0.01
31 12 0.10
32 10 0.08
33 3 0.02
36 20 0.16
37 2 0.02
38 23 0.19
40 1 0.01
41 1 0.01
42 1 0.01
ACGTcount: A:0.48, C:0.14, G:0.04, T:0.34
Consensus pattern (31 bp):
ACATAACTTACATAATTACATAAGATAAATA
Found at i:52376646 original size:74 final size:74
Alignment explanation
Indices: 52376525--52376847 Score: 371
Period size: 74 Copynumber: 4.6 Consensus size: 74
52376515 ACACAATCAC
*
52376525 AATACATAAATATATATCATATCTTACATAATTTACATAAGATAAATAACTTACATGATTTACAT
1 AATACATAAATATATATCATATCTTACATAATTTACATAAGATAAATAACTTACATAATTTACAT
52376590 AACTTACAT
66 AACTTACAT
*
52376599 AATACATAAATATATAACATATCTTACATAATTTACATAAGATAAATAACTTACATAATTTACAT
1 AATACATAAATATATATCATATCTTACATAATTTACATAAGATAAATAACTTACATAATTTACAT
52376664 AACTTACAT
66 AACTTACAT
*
52376673 AATACAT-AATGATGTATCATATCTTACATAATTTACATAAGATAAATAACTTACATAA--TACA
1 AATACATAAAT-ATATATCATATCTTACATAATTTACATAAGATAAATAACTTACATAATTTACA
* *
52376735 TAA-TGACGT
65 TAACTTACAT
* ** * ** * *
52376744 -AT-CAT--ATCT-TA-CATAAT-TTACATAAGATAAATAACTTACATAATTTACAT-A---AC-
1 AATACATAAATATATATCAT-ATCTTACATAATTTACATAAGATAAATAACTTACATAATTTACA
52376797 ---C-TACAT
65 TAACTTACAT
52376803 AATACATAAATATATATCATATCTTACATAATTTACATAAGATAA
1 AATACATAAATATATATCATATCTTACATAATTTACATAAGATAA
52376848 TCCCTTTTAT
Statistics
Matches: 216, Mismatches: 23, Indels: 29
0.81 0.09 0.11
Matches are distributed among these distances:
59 3 0.01
60 2 0.01
61 3 0.01
63 5 0.02
64 5 0.02
65 48 0.22
66 4 0.02
67 1 0.00
68 2 0.01
69 3 0.01
70 2 0.01
71 4 0.02
72 7 0.03
73 3 0.01
74 124 0.57
ACGTcount: A:0.48, C:0.14, G:0.03, T:0.35
Consensus pattern (74 bp):
AATACATAAATATATATCATATCTTACATAATTTACATAAGATAAATAACTTACATAATTTACAT
AACTTACAT
Found at i:52376674 original size:9 final size:9
Alignment explanation
Indices: 52376542--52376804 Score: 124
Period size: 9 Copynumber: 28.6 Consensus size: 9
52376532 AAATATATAT
*
52376542 CATATCTTA
1 CATAACTTA
*
52376551 CATAATTTA
1 CATAACTTA
**
52376560 CATAAGATA
1 CATAACTTA
*
52376569 AATAACTTA
1 CATAACTTA
* *
52376578 CATGATTTA
1 CATAACTTA
52376587 CATAACTTA
1 CATAACTTA
52376596 CATAA--TA
1 CATAACTTA
*
52376603 CATAAATATATAA
1 CAT-AA-CT-T-A
*
52376616 CATATCTTA
1 CATAACTTA
*
52376625 CATAATTTA
1 CATAACTTA
**
52376634 CATAAGATA
1 CATAACTTA
*
52376643 AATAACTTA
1 CATAACTTA
*
52376652 CATAATTTA
1 CATAACTTA
52376661 CATAACTTA
1 CATAACTTA
52376670 CATAA--TA
1 CATAACTTA
*
52376677 CATAATGATGTA
1 CATAA--CT-TA
*
52376689 TCATATCTTA
1 -CATAACTTA
*
52376699 CATAATTTA
1 CATAACTTA
**
52376708 CATAAGATA
1 CATAACTTA
*
52376717 AATAACTTA
1 CATAACTTA
52376726 CATAA--TA
1 CATAACTTA
*
52376733 CATAATGACGTA
1 CAT-A--ACTTA
*
52376745 TCATATCTTA
1 -CATAACTTA
*
52376755 CATAATTTA
1 CATAACTTA
**
52376764 CATAAGATA
1 CATAACTTA
*
52376773 AATAACTTA
1 CATAACTTA
*
52376782 CATAATTTA
1 CATAACTTA
*
52376791 CATAACCTA
1 CATAACTTA
52376800 CATAA
1 CATAA
52376805 TACATAAATA
Statistics
Matches: 189, Mismatches: 47, Indels: 36
0.69 0.17 0.13
Matches are distributed among these distances:
7 17 0.09
8 3 0.02
9 142 0.75
10 7 0.04
11 2 0.01
12 7 0.04
13 11 0.06
ACGTcount: A:0.47, C:0.14, G:0.03, T:0.35
Consensus pattern (9 bp):
CATAACTTA
Found at i:52376709 original size:56 final size:56
Alignment explanation
Indices: 52376644--52376787 Score: 243
Period size: 56 Copynumber: 2.6 Consensus size: 56
52376634 CATAAGATAA
* ** * *
52376644 ATAACTTACATAATTTACATAACTTACATAATACATAATGATGTATCATATCTTAC
1 ATAATTTACATAAGATAAATAACTTACATAATACATAATGACGTATCATATCTTAC
52376700 ATAATTTACATAAGATAAATAACTTACATAATACATAATGACGTATCATATCTTAC
1 ATAATTTACATAAGATAAATAACTTACATAATACATAATGACGTATCATATCTTAC
52376756 ATAATTTACATAAGATAAATAACTTACATAAT
1 ATAATTTACATAAGATAAATAACTTACATAAT
52376788 TTACATAACC
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
56 83 1.00
ACGTcount: A:0.47, C:0.14, G:0.04, T:0.35
Consensus pattern (56 bp):
ATAATTTACATAAGATAAATAACTTACATAATACATAATGACGTATCATATCTTAC
Found at i:52376753 original size:130 final size:130
Alignment explanation
Indices: 52376588--52376847 Score: 443
Period size: 130 Copynumber: 2.0 Consensus size: 130
52376578 CATGATTTAC
*
52376588 ATAACTTACATAATACATAAATATATAACATATCTTACATAATTTACATAAGATAAATAACTTAC
1 ATAACTTACATAATACATAAATACATAACATATCTTACATAATTTACATAAGATAAATAACTTAC
* *
52376653 ATAATTTACATAACTTACATAATACAT-AATGATGTATCATATCTTACATAATTTACATAAGATA
66 ATAATTTACATAACCTACATAATACATAAAT-ATATATCATATCTTACATAATTTACATAAGATA
52376717 A
130 A
* *
52376718 ATAACTTACATAATACAT-AATGACGTATCATATCTTACATAATTTACATAAGATAAATAACTTA
1 ATAACTTACATAATACATAAAT-ACATAACATATCTTACATAATTTACATAAGATAAATAACTTA
52376782 CATAATTTACATAACCTACATAATACATAAATATATATCATATCTTACATAATTTACATAAGATA
65 CATAATTTACATAACCTACATAATACATAAATATATATCATATCTTACATAATTTACATAAGATA
52376847 A
130 A
52376848 TCCCTTTTAT
Statistics
Matches: 123, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
129 3 0.02
130 117 0.95
131 3 0.02
ACGTcount: A:0.48, C:0.14, G:0.03, T:0.35
Consensus pattern (130 bp):
ATAACTTACATAATACATAAATACATAACATATCTTACATAATTTACATAAGATAAATAACTTAC
ATAATTTACATAACCTACATAATACATAAATATATATCATATCTTACATAATTTACATAAGATAA
Found at i:52380615 original size:29 final size:29
Alignment explanation
Indices: 52380571--52380638 Score: 120
Period size: 29 Copynumber: 2.4 Consensus size: 29
52380561 TGGGTTCGAC
*
52380571 ATGATGT-GGATGAAGATATTTACGAATA
1 ATGATGTAGTATGAAGATATTTACGAATA
52380599 ATGATGTAGTATGAAGATATTTACGAATA
1 ATGATGTAGTATGAAGATATTTACGAATA
52380628 ATGATGTAGTA
1 ATGATGTAGTA
52380639 AGATTTTACG
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
28 7 0.18
29 31 0.82
ACGTcount: A:0.40, C:0.03, G:0.24, T:0.34
Consensus pattern (29 bp):
ATGATGTAGTATGAAGATATTTACGAATA
Found at i:52381920 original size:13 final size:14
Alignment explanation
Indices: 52381904--52381932 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
52381894 TTCTAAATAT
52381904 TTATAA-TGTTTAA
1 TTATAATTGTTTAA
52381917 TTATAATTGTTTAA
1 TTATAATTGTTTAA
52381931 TT
1 TT
52381933 CAATTCATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (14 bp):
TTATAATTGTTTAA
Found at i:52382410 original size:21 final size:21
Alignment explanation
Indices: 52382349--52382416 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
52382339 TTAGAGAGGA
*
52382349 GGCAGCAG-AGAGGGAGGCAAC
1 GGCAGCAGCA-AGGGAGGCAGC
* * *
52382370 AGCAGCAGCGAGGAAGGCAGC
1 GGCAGCAGCAAGGGAGGCAGC
*
52382391 GGCAGCAGCAAGGGAGGCAGA
1 GGCAGCAGCAAGGGAGGCAGC
52382412 GGCAG
1 GGCAG
52382417 TAGCGATGGC
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.32, C:0.21, G:0.47, T:0.00
Consensus pattern (21 bp):
GGCAGCAGCAAGGGAGGCAGC
Found at i:52384914 original size:19 final size:19
Alignment explanation
Indices: 52384881--52384919 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
52384871 TTTTATTAAA
* *
52384881 AAATATTTTTAAATTTTTT
1 AAATATTTCTAAATTATTT
*
52384900 AAATATTTCTGAATTATTT
1 AAATATTTCTAAATTATTT
52384919 A
1 A
52384920 TAATTACATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (19 bp):
AAATATTTCTAAATTATTT
Found at i:52389257 original size:30 final size:30
Alignment explanation
Indices: 52389223--52389283 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
52389213 TCCTTAACTC
52389223 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
52389253 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
52389283 A
1 A
52389284 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:52393936 original size:18 final size:18
Alignment explanation
Indices: 52393822--52393936 Score: 88
Period size: 18 Copynumber: 6.3 Consensus size: 18
52393812 AGAAATTAAT
*
52393822 CAATCAGTAATATTCATTAA
1 CAATCAGT--TATTCAGTAA
* *
52393842 CAATCAGTCAATCAG-AA
1 CAATCAGTTATTCAGTAA
* *
52393859 CAATTATTTATTCAGTAA
1 CAATCAGTTATTCAGTAA
* * *
52393877 CAGTCAGTTACTCGGTAA
1 CAATCAGTTATTCAGTAA
* *
52393895 CAATCAATTATTCAATAA
1 CAATCAGTTATTCAGTAA
** *
52393913 TGATCAGTTATTCAGTAT
1 CAATCAGTTATTCAGTAA
52393931 CAATCA
1 CAATCA
52393937 ATTGATCGGT
Statistics
Matches: 70, Mismatches: 24, Indels: 4
0.71 0.24 0.04
Matches are distributed among these distances:
17 13 0.19
18 49 0.70
20 8 0.11
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (18 bp):
CAATCAGTTATTCAGTAA
Found at i:52394249 original size:53 final size:53
Alignment explanation
Indices: 52394138--52394265 Score: 177
Period size: 53 Copynumber: 2.4 Consensus size: 53
52394128 GAACAATAAC
* **
52394138 AGTAACAGTAGCAGTACGGTACACAGAGTACCTCATCAGAACAAATTCAGAAT
1 AGTAACAGTAACAGTACGGTACACAGAGTACCTCATCAGAACAAACCCAGAAT
* * *
52394191 GGTAACAGTAACAATACGGTACATAGAGTACCTCATCAGAACAAACCC-GAAAT
1 AGTAACAGTAACAGTACGGTACACAGAGTACCTCATCAGAACAAACCCAG-AAT
52394244 AGTAACAGTAACAGTAACGGTA
1 AGTAACAGTAACAGT-ACGGTA
52394266 ATGATAATAA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
52 1 0.02
53 58 0.89
54 6 0.09
ACGTcount: A:0.43, C:0.20, G:0.19, T:0.18
Consensus pattern (53 bp):
AGTAACAGTAACAGTACGGTACACAGAGTACCTCATCAGAACAAACCCAGAAT
Found at i:52394317 original size:12 final size:12
Alignment explanation
Indices: 52394300--52394324 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
52394290 AGTGTCGAAT
52394300 CGGTAACAGTAA
1 CGGTAACAGTAA
52394312 CGGTAACAGTAA
1 CGGTAACAGTAA
52394324 C
1 C
52394325 AGTAGTCGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:52396203 original size:59 final size:53
Alignment explanation
Indices: 52396081--52396198 Score: 164
Period size: 53 Copynumber: 2.2 Consensus size: 53
52396071 TAATTGATAT
*
52396081 TGTTACTGTTACTATTTCAGATTTGTTCCGATGAGGTACTCTGTGTACCGTAC
1 TGTTACTGTTACCATTTCAGATTTGTTCCGATGAGGTACTCTGTGTACCGTAC
* * * * * *
52396134 TATTAATGTTACCGTTTCGGATTTGTTCTGATGAGGTACTCTGTGTACTGTAC
1 TGTTACTGTTACCATTTCAGATTTGTTCCGATGAGGTACTCTGTGTACCGTAC
*
52396187 TGCTACTGTTAC
1 TGTTACTGTTAC
52396199 TGTTACTGTT
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.19, C:0.18, G:0.21, T:0.42
Consensus pattern (53 bp):
TGTTACTGTTACCATTTCAGATTTGTTCCGATGAGGTACTCTGTGTACCGTAC
Found at i:52396348 original size:19 final size:19
Alignment explanation
Indices: 52396326--52396375 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
52396316 AGATCGACTA
52396326 TTACTGAATAATTTAATTG
1 TTACTGAATAATTTAATTG
* * * *
52396345 TTACTGTAT-ATCTGATTT
1 TTACTGAATAATTTAATTG
52396363 TTACTGAATAATT
1 TTACTGAATAATT
52396376 GACTGTTATT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.32, C:0.08, G:0.10, T:0.50
Consensus pattern (19 bp):
TTACTGAATAATTTAATTG
Found at i:52396478 original size:18 final size:18
Alignment explanation
Indices: 52396401--52396515 Score: 115
Period size: 18 Copynumber: 6.3 Consensus size: 18
52396391 ACCGATCAGT
*
52396401 TGATTGATACTGAATAAC
1 TGATTGTTACTGAATAAC
* * *
52396419 TGATTATTATTGAATAAT
1 TGATTGTTACTGAATAAC
*
52396437 TGATTGATACTGAATAAC
1 TGATTGTTACTGAATAAC
*
52396455 TGATTGTTACTGAATAAA
1 TGATTGTTACTGAATAAC
* * *
52396473 TAATTGTT-CTGATTGAC
1 TGATTGTTACTGAATAAC
*
52396490 TGATTGTTAATGAATATTAC
1 TGATTGTTACTGAATA--AC
52396510 TGATTG
1 TGATTG
52396516 ATTAATTGCT
Statistics
Matches: 76, Mismatches: 18, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
17 13 0.17
18 55 0.72
20 8 0.11
ACGTcount: A:0.35, C:0.07, G:0.17, T:0.42
Consensus pattern (18 bp):
TGATTGTTACTGAATAAC
Found at i:52396495 original size:35 final size:36
Alignment explanation
Indices: 52396403--52396505 Score: 127
Period size: 36 Copynumber: 2.9 Consensus size: 36
52396393 CGATCAGTTG
* * * *
52396403 ATTGATACTGAATAACTGATTATTATTGAATAATTG
1 ATTGATACTGAATAACTGATTGTTAATGAATAAATA
*
52396439 ATTGATACTGAATAACTGATTGTTACTGAATAAATA
1 ATTGATACTGAATAACTGATTGTTAATGAATAAATA
* * *
52396475 ATTG-TTCTGATTGACTGATTGTTAATGAATA
1 ATTGATACTGAATAACTGATTGTTAATGAATA
52396506 TTACTGATTG
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
35 23 0.39
36 36 0.61
ACGTcount: A:0.37, C:0.07, G:0.16, T:0.41
Consensus pattern (36 bp):
ATTGATACTGAATAACTGATTGTTAATGAATAAATA
Found at i:52398810 original size:22 final size:22
Alignment explanation
Indices: 52398784--52398826 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
52398774 CAAGCACTAA
52398784 AAGTAAGTGCCTTTTCCATTCT
1 AAGTAAGTGCCTTTTCCATTCT
52398806 AAGTAAGTGCCTTTTCCATTC
1 AAGTAAGTGCCTTTTCCATTC
52398827 CTTAAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.40
Consensus pattern (22 bp):
AAGTAAGTGCCTTTTCCATTCT
Found at i:52402529 original size:23 final size:25
Alignment explanation
Indices: 52402482--52402566 Score: 84
Period size: 26 Copynumber: 3.4 Consensus size: 25
52402472 TGATATAATA
52402482 AGTATAATAAATAATAGTGTAAAAAT
1 AGTATAATAAATAATAGTG-AAAAAT
52402508 AGTATAATAAATAATAG-G-AAAAT
1 AGTATAATAAATAATAGTGAAAAAT
* * * * *
52402531 AATTTAAAAAATGATAGTAAAAAAAT
1 AGTATAATAAATAATAGT-GAAAAAT
52402557 AGTAATAATA
1 AGT-ATAATA
52402567 GATTAATAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
23 18 0.38
25 1 0.02
26 24 0.51
27 4 0.09
ACGTcount: A:0.61, C:0.00, G:0.11, T:0.28
Consensus pattern (25 bp):
AGTATAATAAATAATAGTGAAAAAT
Found at i:52404148 original size:68 final size:68
Alignment explanation
Indices: 52403988--52404200 Score: 363
Period size: 68 Copynumber: 3.1 Consensus size: 68
52403978 ATCTACTCCG
* * *
52403988 CTGAAACTTTAAGGAGATCTACTATGGCTTTTAGCCGCTCCAATGCCATTTCAGGGAAGAAGAGA
1 CTGAAACTTCAAGGAGATCTACTGTGGCTTTTAGCCGCTCCAACGCCATTTCA-GGAAGAAGAGA
*
52404053 TCCA
65 TTCA
*
52404057 CTGAAACTTCAAGGAGATCTACTGTGGCTTTTAGCTGCTCCAACGCCATTTCAGGAAGAAGAGAT
1 CTGAAACTTCAAGGAGATCTACTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGAAGAAGAGAT
52404122 TCA
66 TCA
*
52404125 CTGAAACTTCAAGGAGATCTACTGTGGCTTTTAGCCACTCCAACGCCATTTCAGGAAGAAGAGAT
1 CTGAAACTTCAAGGAGATCTACTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGAAGAAGAGAT
52404190 TCA
66 TCA
52404193 CTGAAACT
1 CTGAAACT
52404201 GAGCTCCAAC
Statistics
Matches: 137, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
68 88 0.64
69 49 0.36
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.26
Consensus pattern (68 bp):
CTGAAACTTCAAGGAGATCTACTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGAAGAAGAGAT
TCA
Found at i:52404225 original size:42 final size:42
Alignment explanation
Indices: 52404162--52404242 Score: 153
Period size: 42 Copynumber: 1.9 Consensus size: 42
52404152 CTTTTAGCCA
52404162 CTCCAACGCCATTTCAGGAAGAAGAGATTCACTGAAACTGAG
1 CTCCAACGCCATTTCAGGAAGAAGAGATTCACTGAAACTGAG
*
52404204 CTCCAACGCCATTTCATGAAGAAGAGATTCACTGAAACT
1 CTCCAACGCCATTTCAGGAAGAAGAGATTCACTGAAACT
52404243 TCAAGGAGAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.21
Consensus pattern (42 bp):
CTCCAACGCCATTTCAGGAAGAAGAGATTCACTGAAACTGAG
Found at i:52404286 original size:110 final size:110
Alignment explanation
Indices: 52404093--52404310 Score: 382
Period size: 110 Copynumber: 2.0 Consensus size: 110
52404083 GCTTTTAGCT
52404093 GCTCCAACGCCATTTCAGGAAGAAGAGATTCACTGAAACTTCAAGGAGATCTACTGTGGCTTTTA
1 GCTCCAACGCCATTTCAGGAAGAAGAGATTCACTGAAACTTCAAGGAGATCTACTGTGGCTTTTA
* *
52404158 GCCACTCCAACGCCATTTCAGGAAGAAGAGATTCACTGAAACTGA
66 GCCACTCCAACCCCATTTCAAGAAGAAGAGATTCACTGAAACTGA
* *
52404203 GCTCCAACGCCATTTCATGAAGAAGAGATTCACTGAAACTTCAAGGAGATCTGCTGTGGCTTTTA
1 GCTCCAACGCCATTTCAGGAAGAAGAGATTCACTGAAACTTCAAGGAGATCTACTGTGGCTTTTA
* *
52404268 GCCGCTCTAACCCCATTTCAAGAAGAAGAGATTCACTGAAACT
66 GCCACTCCAACCCCATTTCAAGAAGAAGAGATTCACTGAAACT
52404311 TCAAGGAGAT
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
110 102 1.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (110 bp):
GCTCCAACGCCATTTCAGGAAGAAGAGATTCACTGAAACTTCAAGGAGATCTACTGTGGCTTTTA
GCCACTCCAACCCCATTTCAAGAAGAAGAGATTCACTGAAACTGA
Found at i:52404293 original size:68 final size:68
Alignment explanation
Indices: 52404203--52404696 Score: 751
Period size: 68 Copynumber: 7.4 Consensus size: 68
52404193 CTGAAACTGA
*
52404203 GCTCCAACGCCATTTCATGAAGAAGAGATTCACTGAAACTTCAAGGAGATCTGCTGTGGCTTTTA
1 GCTCCAACGCCATTTCAGGAAGAAGAGATTCACTGAAACTTCAAGGAGATCTGCTGTGGCTTTTA
52404268 GCC
66 GCC
* * *
52404271 GCTCTAACCCCATTTCAAGAAGAAGAGATTCACTGAAACTTCAAGGAGATCTGCTGTGGCTTTTA
1 GCTCCAACGCCATTTCAGGAAGAAGAGATTCACTGAAACTTCAAGGAGATCTGCTGTGGCTTTTA
52404336 GCC
66 GCC
* * *
52404339 GTTCCAACGCCATTTCAGGAAGAAAAGATTCACTGAAACTTCAAGGAGATTTGCTGTGGCTTTTA
1 GCTCCAACGCCATTTCAGGAAGAAGAGATTCACTGAAACTTCAAGGAGATCTGCTGTGGCTTTTA
52404404 GCC
66 GCC
* *
52404407 GCTCCAACGCCATTTC---AAG-A-AGA---A--G--ACTTCAAGAAGATCTACTGTGGCTTTTA
1 GCTCCAACGCCATTTCAGGAAGAAGAGATTCACTGAAACTTCAAGGAGATCTGCTGTGGCTTTTA
52404460 GCC
66 GCC
* * * *
52404463 GCTCCAATGACATTTCAAGAAGAAGAGATTCACTGAAACTTCAAGGAGATCTGCTATGGCTTTTA
1 GCTCCAACGCCATTTCAGGAAGAAGAGATTCACTGAAACTTCAAGGAGATCTGCTGTGGCTTTTA
52404528 GCC
66 GCC
*
52404531 GCTCCAACGCCATTTCAGGAAGAAGAGATTCACTGAAACTTCAAGAAGATCTGCTGTGGCTTTTA
1 GCTCCAACGCCATTTCAGGAAGAAGAGATTCACTGAAACTTCAAGGAGATCTGCTGTGGCTTTTA
52404596 GCC
66 GCC
* *
52404599 GTTCCAACGCCATTTCAGGAAGAAGAGATTCACTGAAACTTCAAGGAGATCTACTGTGGCTTTTA
1 GCTCCAACGCCATTTCAGGAAGAAGAGATTCACTGAAACTTCAAGGAGATCTGCTGTGGCTTTTA
*
52404664 GTC
66 GCC
52404667 GCTCCAACGCCATTTCAGGAAGAAGAGATT
1 GCTCCAACGCCATTTCAGGAAGAAGAGATT
52404697 TGTAATTCAG
Statistics
Matches: 386, Mismatches: 28, Indels: 24
0.88 0.06 0.05
Matches are distributed among these distances:
56 42 0.11
58 1 0.00
59 3 0.01
60 2 0.01
61 3 0.01
63 3 0.01
64 2 0.01
65 3 0.01
66 1 0.00
68 326 0.84
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.26
Consensus pattern (68 bp):
GCTCCAACGCCATTTCAGGAAGAAGAGATTCACTGAAACTTCAAGGAGATCTGCTGTGGCTTTTA
GCC
Found at i:52404347 original size:178 final size:178
Alignment explanation
Indices: 52404024--52404570 Score: 675
Period size: 178 Copynumber: 3.0 Consensus size: 178
52404014 GCTTTTAGCC
*
52404024 GCTCCAATGCCATTTCAGGGAAGAAGAGATCCACTGAAACTTCAAGGAGATCTACTGTGGCTTTT
1 GCTCCAATGCCATTTCA--GAAGAAGAGATTCACTGAAACTTCAAGGAGATCTACTGTGGCTTTT
* * *
52404089 AGCTGCTCCAACGCCATTTCAGGAAGAAGAGATTCACTGAAACTTCAAGGAGATCTACTGTGGCT
64 AGCCGCTCCAACGCCATTTCAAGAAGAAGAGATTCACTGAAACTTCAAGGAGATCTGCTGTGGCT
*
52404154 TTTAGCCACTCCAACGCCATTTCAGGAAGAAGAGATTCACTGAAACT-GA
129 TTTAGCCGCTCCAACGCCATTTCAGGAAGAAGAGATTCACTGAAACTAGA
* *
52404203 GCTCCAACGCCATTTCATGAAGAAGAGATTCACTGAAACTTCAAGGAGATCTGCTGTGGCTTTTA
1 GCTCCAATGCCATTTCA-GAAGAAGAGATTCACTGAAACTTCAAGGAGATCTACTGTGGCTTTTA
* *
52404268 GCCGCTCTAACCCCATTTCAAGAAGAAGAGATTCACTGAAACTTCAAGGAGATCTGCTGTGGCTT
65 GCCGCTCCAACGCCATTTCAAGAAGAAGAGATTCACTGAAACTTCAAGGAGATCTGCTGTGGCTT
* *
52404333 TTAGCCGTTCCAACGCCATTTCAGGAAGAAAAGATTCACTGAAACTTCAAGGA
130 TTAGCCGCTCCAACGCCATTTCAGGAAGAAGAGATTCACTGAAAC-T--A-GA
* * ** * * ** ** ** *
52404386 GATTTGCTGTGGC-TTTTAGCCGCTCCAACGCCATTTCAAGAAGAAGACTTCAAGAAGATCTACT
1 G--CTCCAATGCCATTTCAGAAG----AA-GAGA-TTC-A-CTGAA-ACTTCAAGGAGATCTACT
* *
52404450 GTGGCTTTTAGCCGCTCCAATGACATTTCAAGAAGAAGAGATTCACTGAAACTTCAAGGAGATCT
55 GTGGCTTTTAGCCGCTCCAACGCCATTTCAAGAAGAAGAGATTCACTGAAACTTCAAGGAGATCT
*
52404515 GCTATGGCTTTTAGCCGCTCCAACGCCATTTCAGGAAGAAGAGATTCACTGAAACT
120 GCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGAAGAAGAGATTCACTGAAACT
52404571 TCAAGAAGAT
Statistics
Matches: 318, Mismatches: 34, Indels: 20
0.85 0.09 0.05
Matches are distributed among these distances:
178 147 0.46
179 17 0.05
183 5 0.02
184 4 0.01
185 4 0.01
187 2 0.01
188 2 0.01
189 3 0.01
190 1 0.00
191 4 0.01
192 129 0.41
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (178 bp):
GCTCCAATGCCATTTCAGAAGAAGAGATTCACTGAAACTTCAAGGAGATCTACTGTGGCTTTTAG
CCGCTCCAACGCCATTTCAAGAAGAAGAGATTCACTGAAACTTCAAGGAGATCTGCTGTGGCTTT
TAGCCGCTCCAACGCCATTTCAGGAAGAAGAGATTCACTGAAACTAGA
Found at i:52404567 original size:192 final size:198
Alignment explanation
Indices: 52404203--52404696 Score: 712
Period size: 192 Copynumber: 2.5 Consensus size: 198
52404193 CTGAAACTGA
*
52404203 GCTCCAACGCCATTTCATGAAGAAGAGATTCACTGAAACTTCAAGGAGATCTGCTGTGGCTTTTA
1 GCTCCAACGCCATTTC--GAAGAAGAGA-T-AC-G-AACTTCAAGGAGATCTACTGTGGCTTTTA
* * *
52404268 GCCGCTCTAACCCCATTTCAAGAAGAAGAGATTCACTGAAACTTCAAGGAGATCTGCTGTGGCTT
60 GCCGCTCCAACGCCATTTCAAGAAGAAGAGATTCACTGAAACTTCAAGGAGATCTGCTATGGCTT
* * *
52404333 TTAGCCGTTCCAACGCCATTTCAGGAAGAAAAGATTCACTGAAACTTCAAGGAGATTTGCTGTGG
125 TTAGCCGCTCCAACGCCATTTCAGGAAGAAAAGATTCACTGAAACTTCAAGAAGATCTGCTGTGG
52404398 CTTTTAGCC
190 CTTTTAGCC
*
52404407 GCTCCAACGCCATTTC-AAG-A-AGA-A-G-ACTTCAAGAAGATCTACTGTGGCTTTTAGCCGCT
1 GCTCCAACGCCATTTCGAAGAAGAGATACGAACTTCAAGGAGATCTACTGTGGCTTTTAGCCGCT
* *
52404466 CCAATGACATTTCAAGAAGAAGAGATTCACTGAAACTTCAAGGAGATCTGCTATGGCTTTTAGCC
66 CCAACGCCATTTCAAGAAGAAGAGATTCACTGAAACTTCAAGGAGATCTGCTATGGCTTTTAGCC
*
52404531 GCTCCAACGCCATTTCAGGAAGAAGAGATTCACTGAAACTTCAAGAAGATCTGCTGTGGCTTTTA
131 GCTCCAACGCCATTTCAGGAAGAAAAGATTCACTGAAACTTCAAGAAGATCTGCTGTGGCTTTTA
52404596 GCC
196 GCC
*
52404599 GTTCCAACGCCATTTCAGGAAGAAGAGATTCACTGAAACTTCAAGGAGATCTACTGTGGCTTTTA
1 GCTCCAACGCCATTTC--GAAGAAGAGA-T-AC-G-AACTTCAAGGAGATCTACTGTGGCTTTTA
* *
52404664 GTCGCTCCAACGCCATTTCAGGAAGAAGAGATT
60 GCCGCTCCAACGCCATTTCAAGAAGAAGAGATT
52404697 TGTAATTCAG
Statistics
Matches: 261, Mismatches: 17, Indels: 24
0.86 0.06 0.08
Matches are distributed among these distances:
192 171 0.66
194 1 0.00
195 3 0.01
196 2 0.01
197 3 0.01
199 3 0.01
200 2 0.01
201 3 0.01
202 1 0.00
204 72 0.28
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.26
Consensus pattern (198 bp):
GCTCCAACGCCATTTCGAAGAAGAGATACGAACTTCAAGGAGATCTACTGTGGCTTTTAGCCGCT
CCAACGCCATTTCAAGAAGAAGAGATTCACTGAAACTTCAAGGAGATCTGCTATGGCTTTTAGCC
GCTCCAACGCCATTTCAGGAAGAAAAGATTCACTGAAACTTCAAGAAGATCTGCTGTGGCTTTTA
GCC
Found at i:52404664 original size:260 final size:260
Alignment explanation
Indices: 52404203--52404692 Score: 863
Period size: 260 Copynumber: 1.9 Consensus size: 260
52404193 CTGAAACTGA
* * *
52404203 GCTCCAACGCCATTTCATGAAGAAGAGATTCACTGAAACTTCAAGGAGATCTGCTGTGGCTTTTA
1 GCTCCAACGACATTTCAAGAAGAAGAGATTCACTGAAACTTCAAGGAGATCTGCTATGGCTTTTA
* *
52404268 GCCGCTCTAACCCCATTTCAAGAAGAAGAGATTCACTGAAACTTCAAGGAGATCTGCTGTGGCTT
66 GCCGCTCCAACCCCATTTCAAGAAGAAGAGATTCACTGAAACTTCAAGAAGATCTGCTGTGGCTT
* *
52404333 TTAGCCGTTCCAACGCCATTTCAGGAAGAAAAGATTCACTGAAACTTCAAGGAGATTTGCTGTGG
131 TTAGCCGTTCCAACGCCATTTCAGGAAGAAAAGATTCACTGAAACTTCAAGGAGATCTACTGTGG
52404398 CTTTTAGCCGCTCCAACGCCATTTCAAGAAGAAGACTTCAAGAAGATCTACTGTGGCTTTTAGCC
196 CTTTTAGCCGCTCCAACGCCATTTCAAGAAGAAGACTTCAAGAAGATCTACTGTGGCTTTTAGCC
*
52404463 GCTCCAATGACATTTCAAGAAGAAGAGATTCACTGAAACTTCAAGGAGATCTGCTATGGCTTTTA
1 GCTCCAACGACATTTCAAGAAGAAGAGATTCACTGAAACTTCAAGGAGATCTGCTATGGCTTTTA
* *
52404528 GCCGCTCCAACGCCATTTCAGGAAGAAGAGATTCACTGAAACTTCAAGAAGATCTGCTGTGGCTT
66 GCCGCTCCAACCCCATTTCAAGAAGAAGAGATTCACTGAAACTTCAAGAAGATCTGCTGTGGCTT
*
52404593 TTAGCCGTTCCAACGCCATTTCAGGAAGAAGAGATTCACTGAAACTTCAAGGAGATCTACTGTGG
131 TTAGCCGTTCCAACGCCATTTCAGGAAGAAAAGATTCACTGAAACTTCAAGGAGATCTACTGTGG
* *
52404658 CTTTTAGTCGCTCCAACGCCATTTCAGGAAGAAGA
196 CTTTTAGCCGCTCCAACGCCATTTCAAGAAGAAGA
52404693 GATTTGTAAT
Statistics
Matches: 217, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
260 217 1.00
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (260 bp):
GCTCCAACGACATTTCAAGAAGAAGAGATTCACTGAAACTTCAAGGAGATCTGCTATGGCTTTTA
GCCGCTCCAACCCCATTTCAAGAAGAAGAGATTCACTGAAACTTCAAGAAGATCTGCTGTGGCTT
TTAGCCGTTCCAACGCCATTTCAGGAAGAAAAGATTCACTGAAACTTCAAGGAGATCTACTGTGG
CTTTTAGCCGCTCCAACGCCATTTCAAGAAGAAGACTTCAAGAAGATCTACTGTGGCTTTTAGCC
Found at i:52404980 original size:65 final size:65
Alignment explanation
Indices: 52404899--52405024 Score: 216
Period size: 65 Copynumber: 1.9 Consensus size: 65
52404889 TGTATCTATG
*
52404899 TTTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTGATGC
1 TTTATGCCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAAATGTGATGC
* * *
52404964 TTTATGTCAAATAATTAGGATGTTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
1 TTTATGCCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAAATGTG
52405025 TTATTATATG
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
65 57 1.00
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (65 bp):
TTTATGCCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAAATGTGATGC
Found at i:52406718 original size:7 final size:7
Alignment explanation
Indices: 52406708--52406741 Score: 50
Period size: 8 Copynumber: 4.6 Consensus size: 7
52406698 TTTTTTTGCA
52406708 TTTTTTG
1 TTTTTTG
52406715 TTTTTTG
1 TTTTTTG
52406722 TTCTTTTG
1 TT-TTTTG
52406730 TTGTTTTG
1 TT-TTTTG
52406738 TTTT
1 TTTT
52406742 CTTCTTCTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
7 11 0.44
8 14 0.56
ACGTcount: A:0.00, C:0.03, G:0.15, T:0.82
Consensus pattern (7 bp):
TTTTTTG
Found at i:52406719 original size:8 final size:8
Alignment explanation
Indices: 52406698--52406773 Score: 55
Period size: 9 Copynumber: 8.9 Consensus size: 8
52406688 TAGATATAAT
52406698 TTTTTTTG
1 TTTTTTTG
*
52406706 CATTTTTTG
1 -TTTTTTTG
52406715 -TTTTTTG
1 TTTTTTTG
*
52406722 TTCTTTTG
1 TTTTTTTG
*
52406730 TTGTTTTG
1 TTTTTTTG
*
52406738 TTTTCTTCTTC
1 -TTT-TT-TTG
52406749 TTTTTTGTG
1 TTTTTT-TG
52406758 TTTTTTTGG
1 TTTTTTT-G
52406767 TTTTTTT
1 TTTTTTT
52406774 AATTTTGAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
7 7 0.13
8 15 0.27
9 26 0.47
10 5 0.09
11 2 0.04
ACGTcount: A:0.01, C:0.07, G:0.13, T:0.79
Consensus pattern (8 bp):
TTTTTTTG
Found at i:52409458 original size:30 final size:30
Alignment explanation
Indices: 52409422--52409481 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
52409412 TAAAAGGTGT
*
52409422 GACCACAATAGTCATGCGATGCAATGCAAA
1 GACCACAACAGTCATGCGATGCAATGCAAA
*
52409452 GACCACAACGGTCATGCGATGCAATGCAAA
1 GACCACAACAGTCATGCGATGCAATGCAAA
52409482 AGAATTCTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (30 bp):
GACCACAACAGTCATGCGATGCAATGCAAA
Found at i:52410436 original size:129 final size:132
Alignment explanation
Indices: 52410140--52410459 Score: 305
Period size: 129 Copynumber: 2.4 Consensus size: 132
52410130 TTCCGGAGAG
* * * * *
52410140 ATATTCGATTATTTTG-GACAAAC-AGGAGATTGCAGCCCAGCACGATAGGGCACTATTCCCTGA
1 ATATTCGATTATTTTGAG-CAAACGA-GAAATTGCAACCCAACACGATAGGGCACGATTCCCTCA
* * * * ** *
52410203 ACTGCCAAACATCGAACACTTCTTTCGTTTTAAAAGGTTTTTAGAAAACGTGAATGAAATTTCGA
64 AATGCCAAACATCGAACACTCCTTTCGTATTAAAAGGTTTTTAGAAAACATGAATGAAACCTCAA
52410268 AGGA
129 AGGA
* * * * * * **
52410272 ATCTTCGATTGTTTAGAACAAATGAAAAAGCGCAACCCAACACGATAGGGCACGA-T-CCTCAAA
1 ATATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGATAGGGCACGATTCCCTCAAA
* *
52410335 TCGCCAAACATCGAACA-TCCTTT-GTATTGAAAGGTTTTTA-ATAAACATGAGTGAAAACCT-A
66 T-GCCAAACATCGAACACTCCTTTCGTATTAAAAGGTTTTTAGA-AAACATGAATG-AAACCTCA
52410396 AAGGA
128 AAGGA
* * * *
52410401 ATATTTGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGTTAAGGCACTATTCC
1 ATATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGATAGGGCACGATTCC
52410460 GCGAATTGCC
Statistics
Matches: 147, Mismatches: 34, Indels: 15
0.75 0.17 0.08
Matches are distributed among these distances:
128 1 0.01
129 72 0.49
130 16 0.11
131 17 0.12
132 40 0.27
133 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (132 bp):
ATATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGATAGGGCACGATTCCCTCAAA
TGCCAAACATCGAACACTCCTTTCGTATTAAAAGGTTTTTAGAAAACATGAATGAAACCTCAAAG
GA
Found at i:52414011 original size:20 final size:18
Alignment explanation
Indices: 52413983--52414041 Score: 57
Period size: 20 Copynumber: 3.1 Consensus size: 18
52413973 AAAACTTATT
52413983 TAAAATTTATTAAGAATTA
1 TAAAATTTATTAA-AATTA
* *
52414002 TAAGAATTTATAAATAATGA
1 TAA-AATTTATTAA-AATTA
52414022 TTAAAATTT-TTAAAATTA
1 -TAAAATTTATTAAAATTA
52414040 TA
1 TA
52414042 TATATACATG
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
17 2 0.06
18 4 0.12
19 6 0.18
20 18 0.55
21 3 0.09
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
TAAAATTTATTAAAATTA
Found at i:52414320 original size:18 final size:17
Alignment explanation
Indices: 52414288--52414341 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
52414278 TCTCTTAAAA
*
52414288 TAATTATTAATATTTTAT
1 TAATTTTTAA-ATTTTAT
*
52414306 TTATTTTTAAGATTTT-T
1 TAATTTTTAA-ATTTTAT
52414323 TAATTTTTAAATATTTAT
1 TAATTTTTAAAT-TTTAT
52414341 T
1 T
52414342 GATGTGGCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
16 2 0.07
17 13 0.43
18 15 0.50
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (17 bp):
TAATTTTTAAATTTTAT
Found at i:52417220 original size:28 final size:28
Alignment explanation
Indices: 52417188--52417243 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
52417178 CAGTATTCAG
52417188 AACGGAAAATCTCTATGGAAAAAGGCAA
1 AACGGAAAATCTCTATGGAAAAAGGCAA
52417216 AACGGAAAATCTCTATGGAAAAAGGCAA
1 AACGGAAAATCTCTATGGAAAAAGGCAA
52417244 CCATTCATAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.50, C:0.14, G:0.21, T:0.14
Consensus pattern (28 bp):
AACGGAAAATCTCTATGGAAAAAGGCAA
Found at i:52419729 original size:59 final size:60
Alignment explanation
Indices: 52419581--52419756 Score: 189
Period size: 60 Copynumber: 2.9 Consensus size: 60
52419571 TAAATTTAAG
* * * * * * * * *
52419581 TACCAAATTGAACCTAAAAAAAGCTTAAGTACTAAATTAGAAAAAAATGCTAAGTT-TAGG
1 TACCAAATTG-GCCAAAAAAAAGTTTAAGTACCAAATTAGGAAAAAGTGCCAAGTTCCAGA
52419641 TACCAAATTGGCCCAAAAAAAAGTTTAAGTACCAAATTAGGAAAAAGTGCCAAGTTCCA-A
1 TACCAAATTGG-CCAAAAAAAAGTTTAAGTACCAAATTAGGAAAAAGTGCCAAGTTCCAGA
* *
52419701 TACCAAATTGTGCC-AAAAAAATTTTAAGTACCAAATT-GAGAAAAAGTGTCAAGTTC
1 TACCAAATTG-GCCAAAAAAAAGTTTAAGTACCAAATTAG-GAAAAAGTGCCAAGTTC
52419757 AGGTACTAAA
Statistics
Matches: 101, Mismatches: 11, Indels: 9
0.83 0.09 0.07
Matches are distributed among these distances:
58 1 0.01
59 38 0.38
60 60 0.59
61 2 0.02
ACGTcount: A:0.47, C:0.15, G:0.14, T:0.24
Consensus pattern (60 bp):
TACCAAATTGGCCAAAAAAAAGTTTAAGTACCAAATTAGGAAAAAGTGCCAAGTTCCAGA
Found at i:52423679 original size:96 final size:96
Alignment explanation
Indices: 52423509--52423833 Score: 337
Period size: 96 Copynumber: 3.4 Consensus size: 96
52423499 AGAGGCGAAT
* * * ** * *
52423509 TGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATGTTGAGACCGATGCCATGTTCC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTGGCCGATGCCATGTTCC
** * *
52423574 AGATGTGGTCTTACACTAGCTCTCGTCTCAA
66 AGACATGGTCTTACACTAGCTCTCATATCAA
* * * * *
52423605 TGCCAATGCCATGTCTCAGACATGGTCTTACACTAGCTCTTATAATGTGGCCGTTGCCATGTCCC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTGGCCGATGCCATGTTCC
* * * *
52423670 AGACATGGTCTTACACTAGCGCACCTAACAA
66 AGACATGGTCTTACACTAGCTCTCATATCAA
** * * ** * * *
52423701 TGCCGATGCCACATCCCGGACATGGTCTTACACTGGCTCTCATAACATTGCTGATGCTATGTTCC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTGGCCGATGCCATGTTCC
* *
52423766 AAACATGGTCTTATACTAGCTCTCATATC-A
66 AGACATGGTCTTACACTAGCTCTCATATCAA
* *
52423796 TGGCCGACGCCATGTCCCAGACATGGTTTTACACTAGC
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGC
52423834 ACACATATCA
Statistics
Matches: 183, Mismatches: 45, Indels: 2
0.80 0.20 0.01
Matches are distributed among these distances:
95 2 0.01
96 181 0.99
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (96 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTGGCCGATGCCATGTTCC
AGACATGGTCTTACACTAGCTCTCATATCAA
Found at i:52423841 original size:48 final size:48
Alignment explanation
Indices: 52423510--52423843 Score: 291
Period size: 48 Copynumber: 7.0 Consensus size: 48
52423500 GAGGCGAATT
* * * *
52423510 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATGT--TG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCATG
* ** * *
52423556 AGACCGATGCCATGTTCCAGATGTGGTCTTACACTAGCTCTCGTCTCAAT-
1 -G-CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATC-ATG
* * * *
52423606 GCCAATGCCATGTCTCAGACATGGTCTTACACTAGCTCTTATAAT-GTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-ATCATG
* * * * *
52423654 GCCGTTGCCATGTCCCAGACATGGTCTTACACTAGCGCACCTAACAAT-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATC-ATG
** * * * *
52423702 GCCGATGCCACATCCCGGACATGGTCTTACACTGGCTCTCATAACATT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCATG
* * * * *
52423750 GCTGATGCTATGTTCCAAACATGGTCTTATACTAGCTCTCATATCATG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCATG
* * * *
52423798 GCCGACGCCATGTCCCAGACATGGTTTTACACTAGCACACATATCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCA
52423844 CCCAAATGTC
Statistics
Matches: 224, Mismatches: 54, Indels: 17
0.76 0.18 0.06
Matches are distributed among these distances:
47 5 0.02
48 215 0.96
49 3 0.01
51 1 0.00
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCATG
Found at i:52425308 original size:49 final size:49
Alignment explanation
Indices: 52425251--52425520 Score: 248
Period size: 49 Copynumber: 5.7 Consensus size: 49
52425241 GTAAAGTGCG
* *
52425251 GATGCCATGTCCCACACATGGTCTTACACTAGCTATCATATTCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATACTCGAGGCC
* *
52425300 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATAACT-G-TGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTAT--CAT-ACTCGAGGCC
*
52425350 -ATGCCATGTCCTAGACATGGTCTTACACT-GAC-A-CAT-CTCGTA-GCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAG-CTATCATACTCG-AGGCC
* * * *
52425395 GATG-CATGTCCCAGACAT-GTCTTACACTAGC-ACTCGT-CTCAATGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTA-TCATACTCGAGGCC
* * * *
52425441 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATACTCGAGGCC
52425489 GATG-CATGT-CCAGGACAT-GTCTTACACTAGCT
1 GATGCCATGTCCCA-GACATGGTCTTACACTAGCT
52425521 CACACAAATG
Statistics
Matches: 185, Mismatches: 19, Indels: 37
0.77 0.08 0.15
Matches are distributed among these distances:
43 2 0.01
44 13 0.07
45 21 0.11
46 30 0.16
47 24 0.13
48 22 0.12
49 64 0.35
50 3 0.02
51 4 0.02
52 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (49 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATACTCGAGGCC
Found at i:52425499 original size:94 final size:92
Alignment explanation
Indices: 52425251--52425519 Score: 296
Period size: 94 Copynumber: 2.8 Consensus size: 92
52425241 GTAAAGTGCG
* * * *
52425251 GATGCCATGTCCCACACATGGTCTTACACTAGCTATCATATTCGAGGCCGATGCCATGTCCCAGA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-T-GTGGCCGATG-CATGTCCCAGA
*
52425316 CATGGTCTTACACTAGCTCTCACATAACTGT
63 CAT-GTCTTACACTAGCACTCACATAACTGT
* * * * *
52425347 GCCATGCCATGTCCTAGACATGGTCTTACACTGACACATC-T-CGTAGCCGATGCATGTCCCAGA
1 G--ATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATATGTGGCCGATGCATGTCCCAGA
*
52425410 CATGTCTTACACTAGCACTCGTC-TCAA-TGCT
63 CATGTCTTACACTAGCACTC-ACAT-AACTG-T
52425441 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGT-CCAGGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATGTGGCCGATGCATGTCCCA-GAC
52425505 ATGTCTTACACTAGC
64 ATGTCTTACACTAGC
52425520 TCACACAAAT
Statistics
Matches: 147, Mismatches: 16, Indels: 22
0.79 0.09 0.12
Matches are distributed among these distances:
91 2 0.01
92 32 0.22
93 22 0.15
94 51 0.35
95 8 0.05
96 1 0.01
98 29 0.20
99 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (92 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATGTGGCCGATGCATGTCCCAGACAT
GTCTTACACTAGCACTCACATAACTGT
Found at i:52428678 original size:48 final size:48
Alignment explanation
Indices: 52428575--52428689 Score: 149
Period size: 48 Copynumber: 2.4 Consensus size: 48
52428565 TGATATGTCT
* *
52428575 GCCAGTGTAAGACCATGTTTGGGACATGGCATTGGCCACGATATGAAA
1 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCCACGATATGAAA
* * * * * *
52428623 GCCAGTGTAAGATCATGTTTGGAACATGGCATCGGCGATGTTTTGAGA
1 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCCACGATATGAAA
*
52428671 GCTAGTGTAAGACCATGTT
1 GCCAGTGTAAGACCATGTT
52428690 GGGACATAAC
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 57 1.00
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.27
Consensus pattern (48 bp):
GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCCACGATATGAAA
Found at i:52428787 original size:48 final size:47
Alignment explanation
Indices: 52428735--52428916 Score: 187
Period size: 48 Copynumber: 3.8 Consensus size: 47
52428725 TATGTGCGCT
*
52428735 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCACATTCTGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CACATTCTGAGAGCC
*
52428783 AGTGTAAGACCATGTCTGGGACATGGCATC-G-ACATTGAGAC-GAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACATT----CTGAGAGCC
* *
52428831 AGTGTAAGACCATGTCTGGGGCATGGCATCGGCATCGA--CATGTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA-C-ATTC-TGAGAGCC
* * *
52428879 AGTGTAAGACCATGTTTGGAACATGGCATCAGCA-ATTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACATTC
52428917 ACCCTCTTGT
Statistics
Matches: 113, Mismatches: 9, Indels: 25
0.77 0.06 0.17
Matches are distributed among these distances:
45 6 0.05
46 1 0.01
47 2 0.02
48 99 0.88
49 2 0.02
50 1 0.01
51 1 0.01
52 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACATTCTGAGAGCC
Found at i:52428835 original size:157 final size:158
Alignment explanation
Indices: 52428565--52428850 Score: 409
Period size: 157 Copynumber: 1.8 Consensus size: 158
52428555 ACATTTGGGG
*
52428565 TGATATGTCTGCCAGTGTAAGACCATGTTTGGGACATGGCATTGGCCACGATATGAAAGCCAGTG
1 TGATATGTCTGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGATATGAAAGCCAGTG
* * * ****
52428630 TAAGATCATGTTTGGAACATGGCATCGGCGATGTTTTGAGAGCTAGTGTAAGACCATGT-TGGGA
66 TAAGACCATGTCTGGAACATGGCATCGACGATGAGACGAGAGCTAGTGTAAGACCATGTCTGGGA
52428694 CATAACGTCTGCGACATGGCATCGGCAT
131 CATAACGTCTGCGACATGGCATCGGCAT
* * *
52428722 TGATATGTGC-GCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCAC-ATTCTGAGAGCCAG
1 TGATATGT-CTGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGA-TATGAAAGCCAG
*
52428785 TGTAAGACCATGTCTGGGACATGGCATCGAC-ATTGAGACGAGAGCTAGTGTAAGACCATGTCTG
64 TGTAAGACCATGTCTGGAACATGGCATCGACGA-TGAGACGAGAGCTAGTGTAAGACCATGTCTG
52428849 GG
128 GG
52428851 GCATGGCATC
Statistics
Matches: 113, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
156 2 0.02
157 106 0.94
158 5 0.04
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.26
Consensus pattern (158 bp):
TGATATGTCTGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGATATGAAAGCCAGTG
TAAGACCATGTCTGGAACATGGCATCGACGATGAGACGAGAGCTAGTGTAAGACCATGTCTGGGA
CATAACGTCTGCGACATGGCATCGGCAT
Found at i:52428878 original size:96 final size:94
Alignment explanation
Indices: 52428700--52428908 Score: 267
Period size: 96 Copynumber: 2.2 Consensus size: 94
52428690 GGGACATAAC
* * * * * * *
52428700 GTCTGCGACATGGCATCGGCATTGATATGTGCGCTAGTGTAAGACCATGTTTGGGACATGGCATC
1 GTCTGGGACATGGCATCGACATTGAGACGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC
52428765 GGCCACATTCTGAGAGCCAGTGTAAGACCAT
66 GGCCACA-T-TGAGAGCCAGTGTAAGACCAT
*
52428796 GTCTGGGACATGGCATCGACATTGAGACGAGAGCTAGTGTAAGACCATGTCTGGGGCATGGCATC
1 GTCTGGGACATGGCATCGACATTGAGACGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC
*
52428861 GGCATCGACA-TGTGAGCCAGTGTAAGACCAT
66 GGC--C-ACATTGAGAGCCAGTGTAAGACCAT
* *
52428892 GTTTGGAACATGGCATC
1 GTCTGGGACATGGCATC
52428909 AGCAATTCAC
Statistics
Matches: 99, Mismatches: 11, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
96 95 0.96
98 1 0.01
99 3 0.03
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.23
Consensus pattern (94 bp):
GTCTGGGACATGGCATCGACATTGAGACGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC
GGCCACATTGAGAGCCAGTGTAAGACCAT
Found at i:52436415 original size:48 final size:48
Alignment explanation
Indices: 52436354--52436630 Score: 236
Period size: 48 Copynumber: 5.8 Consensus size: 48
52436344 ACATTTGGGT
* * *
52436354 GATATGTGTGCCAGTGTAAGACCATGTCTAGGACATGGCATTGGCCAC
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCCAC
* * * * ** *
52436402 GATATAAGAGCCAGTGTAAGATCATGTTTGGAACATGGCATTGGTGAT
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCCAC
* * * * *
52436450 GTTATGAGAGCCAGTGTAAGACCATGTCTGTGACATGGCA-TCGACATT
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCCA-C
* * * * **
52436498 GATATGTGTGCTAGTCTAAGACCATGTCTGGGACATGGCATCAGCCAC
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCCAC
* * *
52436546 -ATTATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGG-CATT
1 GA-TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCCA-C
* * * * * *
52436594 GAGACGAGATCTAGGGTAAGACCATGTATGGGACATG
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATG
52436631 ACATCTGTAA
Statistics
Matches: 182, Mismatches: 42, Indels: 10
0.78 0.18 0.04
Matches are distributed among these distances:
47 6 0.03
48 172 0.95
49 4 0.02
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (48 bp):
GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCCAC
Found at i:52436534 original size:96 final size:95
Alignment explanation
Indices: 52436363--52436635 Score: 271
Period size: 96 Copynumber: 2.8 Consensus size: 95
52436353 TGATATGTGT
* * * * * * *
52436363 GCCAGTGTAAGACCATGTCTAGGACATGGCATTGGCCA-CGATATAAGAGCCAGTGTAAGATCAT
1 GCCAGTGTAAGACCATGTCT-GGACATGGCA-TCGACATTGATATGAGTGCTAGTGTAAGACCAT
* * ** ** **
52436427 GTTTGGAACATGGCATTGGTGATGTTATGAGA
64 GTATGGGACATGGCATCAGCCACATTATGAGA
* *
52436459 GCCAGTGTAAGACCATGTCTGTGACATGGCATCGACATTGATATGTGTGCTAGTCTAAGACCATG
1 GCCAGTGTAAGACCATGTCTG-GACATGGCATCGACATTGATATGAGTGCTAGTGTAAGACCATG
*
52436524 TCTGGGACATGGCATCAGCCACATTATGAGA
65 TATGGGACATGGCATCAGCCACATTATGAGA
* * * * *
52436555 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGAGACGAGAT-CTAGGGTAAGACCAT
1 GCCAGTGTAAGACCATGTCT-GGACATGGCATCGACATTGATATGAG-TGCTAGTGTAAGACCAT
*
52436619 GTATGGGACATGACATC
64 GTATGGGACATGGCATC
52436636 TGTAACAACC
Statistics
Matches: 147, Mismatches: 26, Indels: 8
0.81 0.14 0.04
Matches are distributed among these distances:
95 5 0.03
96 140 0.95
97 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (95 bp):
GCCAGTGTAAGACCATGTCTGGACATGGCATCGACATTGATATGAGTGCTAGTGTAAGACCATGT
ATGGGACATGGCATCAGCCACATTATGAGA
Found at i:52436613 original size:144 final size:144
Alignment explanation
Indices: 52436353--52436635 Score: 363
Period size: 144 Copynumber: 2.0 Consensus size: 144
52436343 GACATTTGGG
* **
52436353 TGATATGTGTGCCAGTGTAAGACCATGTCTAGGACATGGCATTGGCCACGATATAAGAGCCAGTG
1 TGATATGTGTGCCAGTCTAAGACCATGTCTAGGACATGGCATCAGCCACGATATAAGAGCCAGTG
* * * ** * * * *
52436418 TAAGATCATGTTTGGAACATGGCATTGGTGATGTTATGAGAGCCAGTGTAAGACCATGTCTGTGA
66 TAAGACCATGTTTGGAACATGGCATCGGTCATGAGACGAGAGCCAGGGTAAGACCATGTATGGGA
*
52436483 CATGGCATCGACAT
131 CATGACATCGACAT
* * *
52436497 TGATATGTGTGCTAGTCTAAGACCATGTCTGGGACATGGCATCAGCCAC-ATTATGAGAGCCAGT
1 TGATATGTGTGCCAGTCTAAGACCATGTCTAGGACATGGCATCAGCCACGA-TATAAGAGCCAGT
* * *
52436561 GTAAGACCATGTTTGGGACATGGCATCGG-CATTGAGACGAGATCTAGGGTAAGACCATGTATGG
65 GTAAGACCATGTTTGGAACATGGCATCGGTCA-TGAGACGAGAGCCAGGGTAAGACCATGTATGG
52436625 GACATGACATC
129 GACATGACATC
52436636 TGTAACAACC
Statistics
Matches: 118, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
143 2 0.02
144 116 0.98
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.26
Consensus pattern (144 bp):
TGATATGTGTGCCAGTCTAAGACCATGTCTAGGACATGGCATCAGCCACGATATAAGAGCCAGTG
TAAGACCATGTTTGGAACATGGCATCGGTCATGAGACGAGAGCCAGGGTAAGACCATGTATGGGA
CATGACATCGACAT
Found at i:52437897 original size:42 final size:43
Alignment explanation
Indices: 52437846--52437966 Score: 138
Period size: 42 Copynumber: 2.8 Consensus size: 43
52437836 AAAGCTCGTA
52437846 CAATGCCAACATCCCAGACGTGGTCTTACACGAAATCA-AA-T
1 CAATGCCAACATCCCAGACGTGGTCTTACACGAAATCATAAGT
* * * * *
52437887 ACGATTCCAACGTCCTAGACGTGGTCTTACATGTAAATCATAAGT
1 -CAATGCCAACATCCCAGACGTGGTCTTACACG-AAATCATAAGT
* * *
52437932 CAATGCAAACTTCCCAAACGTGGTCTTACACGAAA
1 CAATGCCAACATCCCAGACGTGGTCTTACACGAAA
52437967 ACACATATTG
Statistics
Matches: 64, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
42 27 0.42
43 9 0.14
44 27 0.42
45 1 0.02
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (43 bp):
CAATGCCAACATCCCAGACGTGGTCTTACACGAAATCATAAGT
Found at i:52451166 original size:21 final size:20
Alignment explanation
Indices: 52451132--52451170 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
52451122 ATAATTAACA
*
52451132 ATAAAAATTTAAAAGAAAAAC
1 ATAAAAATTGAAAA-AAAAAC
*
52451153 ATAAAACTTGAAAAAAAA
1 ATAAAAATTGAAAAAAAA
52451171 TTTCTATGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.72, C:0.05, G:0.05, T:0.18
Consensus pattern (20 bp):
ATAAAAATTGAAAAAAAAAC
Found at i:52467610 original size:42 final size:42
Alignment explanation
Indices: 52467563--52467712 Score: 203
Period size: 42 Copynumber: 3.5 Consensus size: 42
52467553 CGATACTATG
*
52467563 TGTAAGACCATATCTGGGATATGGCATC-ATTATGAGGTTTCA
1 TGTAAGACCATATCTGGGATATGGCATCGA-TATGAGATTTCA
*
52467605 TGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTCT
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTCA
* * * * *
52467647 TGTAAGACCATAGCTGGGCTATTGGCATCGAAACGAGATCTCA
1 TGTAAGACCATATCTGGGATA-TGGCATCGATATGAGATTTCA
*
52467690 TATAAGACCATATCTGGGATATG
1 TGTAAGACCATATCTGGGATATG
52467713 AAATTAGAGT
Statistics
Matches: 95, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
42 59 0.62
43 36 0.38
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTCA
Found at i:52470626 original size:45 final size:45
Alignment explanation
Indices: 52470562--52470654 Score: 177
Period size: 45 Copynumber: 2.1 Consensus size: 45
52470552 ATAATACTAA
52470562 TGTAGTTGCATTGATTGATCCTAGATCGACTCATTCTTATGCTTG
1 TGTAGTTGCATTGATTGATCCTAGATCGACTCATTCTTATGCTTG
*
52470607 TGTAGTTGCATTGATTGATCCTAGATCGACTCATTCTTATGTTTG
1 TGTAGTTGCATTGATTGATCCTAGATCGACTCATTCTTATGCTTG
52470652 TGT
1 TGT
52470655 GAAATTGGTA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.19, C:0.16, G:0.20, T:0.44
Consensus pattern (45 bp):
TGTAGTTGCATTGATTGATCCTAGATCGACTCATTCTTATGCTTG
Found at i:52472649 original size:50 final size:50
Alignment explanation
Indices: 52472589--52472706 Score: 184
Period size: 50 Copynumber: 2.4 Consensus size: 50
52472579 TGCAATATAA
* * * *
52472589 GATCCTATGTAAGACCATGTCTGGGACATGTCATTGGCATCGATATGTGT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTAGCATCGATATGTAT
52472639 GATCCCATGTAAGACCATGTCTGGGACATGGCATTAGCATCGATATGTAT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTAGCATCGATATGTAT
52472689 GAAT-CCATGTAAGACCAT
1 G-ATCCCATGTAAGACCAT
52472707 ATTTGAATAT
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
50 61 0.97
51 2 0.03
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (50 bp):
GATCCCATGTAAGACCATGTCTGGGACATGGCATTAGCATCGATATGTAT
Found at i:52481252 original size:40 final size:40
Alignment explanation
Indices: 52481168--52481392 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
52481158 TTGAATAATG
* * * *
52481168 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
52481208 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
52481248 TCCGGGCTAA-TCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
52481287 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
52481327 TCCGGGTTAAGTCCCGAAGGCATTTGTCCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
52481368 -CCGGGCTATGTCCTGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
52481393 AACGAGGAGC
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
38 1 0.01
39 33 0.20
40 119 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:52481386 original size:80 final size:79
Alignment explanation
Indices: 52481168--52481392 Score: 267
Period size: 79 Copynumber: 2.8 Consensus size: 79
52481158 TTGAATAATG
** * * * *
52481168 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGT-CCGAGTTACTATAACCGGGCTAAG-TCCGAAGGCATT
*
52481232 TGTGCGAGATACTAAT
64 TGTGCGAGATACTAAA
* * *
52481248 TCCGGGCTAA-TCCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTCCGAGTTACTATAA-CCGGGCTAAGT-CCGAAGGCATT
*
52481311 TGTGCGAGTTACTAAA
64 TGTGCGAGATACTAAA
* *
52481327 TCCGGGTTAAGTCCCGAAGGCATTTGTCCGAGTTACTATAACCGGGCTATGTCCTGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTCCGAGTTACTATAACCGGGCTAAGTCC-GAAGGCATTT
52481392 G
65 G
52481393 AACGAGGAGC
Statistics
Matches: 123, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
78 2 0.02
79 60 0.49
80 59 0.48
81 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTCCGAGTTACTATAACCGGGCTAAGTCCGAAGGCATTTG
TGCGAGATACTAAA
Found at i:52481410 original size:80 final size:79
Alignment explanation
Indices: 52481207--52481425 Score: 214
Period size: 80 Copynumber: 2.8 Consensus size: 79
52481197 AAGTGACCAT
* ** * *
52481207 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGAT-ACTAATTCCGGGCTAATCCCGAAGGCAT
1 ATCCGGGCTAAG-TCCCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAATCCCGAAGGCAT
*
52481270 TGGTGCGAGTTACTAA
64 TGGTCCGAGTTACTAA
* ** *
52481286 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAA-TCCCGAAGGCATT
*
52481351 TGTCCGAGTTACTATA
65 GGTCCGAGTTACTA-A
* * * *
52481367 A-CCGGGCTATGTCCTGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTT-AATCCCGAAGG
52481426 TACGTGATTT
Statistics
Matches: 120, Mismatches: 14, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
78 2 0.02
79 56 0.47
80 60 0.50
81 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAATCCCGAAGGCATTG
GTCCGAGTTACTAA
Found at i:52481414 original size:119 final size:119
Alignment explanation
Indices: 52481168--52481425 Score: 265
Period size: 119 Copynumber: 2.2 Consensus size: 119
52481158 TTGAATAATG
* *
52481168 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* * ** *
52481233 GTGCGAGATACTAATTCCGGGCTAATCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTCCGAGATACTAATACCGGGCTAATCCCGAAGGCATTGGAACGAGTGACTAAA
* * * **
52481287 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * *
52481350 TTGTCCGAGTTACT-ATAACCGGGCTATGTCCTGAAGGCATTTGAACGAG-GAGCTATA
64 TTGTCCGAGATACTAAT-ACCGGGCTA-ATCCCGAAGGCATTGGAACGAGTGA-CTAAA
* *
52481407 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
52481426 TACGTGATTT
Statistics
Matches: 115, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
118 3 0.03
119 81 0.70
120 31 0.27
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTCCGAGATACTAATACCGGGCTAATCCCGAAGGCATTGGAACGAGTGACTAAA
Found at i:52489141 original size:40 final size:40
Alignment explanation
Indices: 52489057--52489280 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
52489047 TTGAATGATG
* * * *
52489057 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
52489097 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
52489137 TCC-GGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
52489175 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
52489215 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
52489256 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
52489281 AACGAGGAGC
Statistics
Matches: 163, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
38 27 0.17
39 12 0.07
40 114 0.70
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:52489192 original size:78 final size:80
Alignment explanation
Indices: 52489057--52489280 Score: 278
Period size: 78 Copynumber: 2.8 Consensus size: 80
52489047 TTGAATGATG
* * * * * *
52489057 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCAT
*
52489120 TTGTGCGAGATACTAAT
64 TTGTGCGAGATACTAAA
*
52489137 TCC-GGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAA-CCGGGCTAAGTCCCGAAGGCATT
*
52489199 TGTGCGAGTTACTAAA
65 TGTGCGAGATACTAAA
* * *
52489215 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
52489280 G
66 G
52489281 AACGAGGAGC
Statistics
Matches: 125, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
77 2 0.02
78 51 0.41
79 19 0.15
80 51 0.41
81 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:52489298 original size:80 final size:77
Alignment explanation
Indices: 52489061--52489313 Score: 244
Period size: 80 Copynumber: 3.2 Consensus size: 77
52489051 ATGATGTCCG
* * * * *
52489061 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATTTGT
1 GGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCATTTGT
*
52489124 GCGAGATACTAATTCC
64 GCGAG-GACTAA-TCC
* *
52489140 GGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGTTAAGTCCCGAAGGCATTTGTG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTAAGTCCCGAAGGCATTTGTG
*
52489203 CGAGTTACTAAATCC
65 CGAG-GACT-AATCC
* * **
52489218 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTGAA
1 -GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTG
52489283 CGAGGAGCTATATCC
65 CGAGGA-CTA-ATCC
* * *
52489298 GGTTAAATTCCGAAGG
1 GGCTAAGTCCCGAAGG
52489314 TACGTGATTT
Statistics
Matches: 148, Mismatches: 17, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
77 2 0.01
78 49 0.33
79 37 0.25
80 58 0.39
81 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (77 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGC
GAGGACTAATCC
Found at i:52492179 original size:48 final size:48
Alignment explanation
Indices: 52492108--52492589 Score: 775
Period size: 48 Copynumber: 10.0 Consensus size: 48
52492098 CAAGATAAAT
* * *
52492108 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
52492156 ATATGTATATGTGGTAAATCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
52492204 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
52492252 ATATGTATATGTGGTAAAGCTGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
52492300 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
52492348 ATATGTATAAGTGGTAAAGCTGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
52492396 ATATATATATGTGGTAAAGCCAAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
**
52492444 ATATGTATATGTGGTAAAGCCGAATGGCTAACATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
52492492 ATATATATATGTGGTAAATCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
52492540 ATATGTATATTTGGTAAAGTCGAATGGCTAATGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
52492588 AT
1 AT
52492590 GTGTGTATAT
Statistics
Matches: 400, Mismatches: 34, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 400 1.00
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.32
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:52492771 original size:37 final size:37
Alignment explanation
Indices: 52492719--52492832 Score: 194
Period size: 37 Copynumber: 3.1 Consensus size: 37
52492709 ACATGAAACT
52492719 TGGAGATATAT-TCCGGGTAAGACCCGATGACTACGTG
1 TGGAGAT-TATGTCCGGGTAAGACCCGATGACTACGTG
52492756 TGGAGATTATGTCCGGGTAAGACCCGATGACTACGTG
1 TGGAGATTATGTCCGGGTAAGACCCGATGACTACGTG
* *
52492793 TGGAGATTTTGTCCGGGTAAGACCCGATAACTACGTG
1 TGGAGATTATGTCCGGGTAAGACCCGATGACTACGTG
52492830 TGG
1 TGG
52492833 GGACTATTCG
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
36 3 0.04
37 71 0.96
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (37 bp):
TGGAGATTATGTCCGGGTAAGACCCGATGACTACGTG
Found at i:52494606 original size:13 final size:14
Alignment explanation
Indices: 52494588--52494617 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
52494578 TCTCGATTGC
52494588 ATAAATATC-TTCT
1 ATAAATATCTTTCT
52494601 ATAAATATCTTTCT
1 ATAAATATCTTTCT
52494615 ATA
1 ATA
52494618 TCCAAAAGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAAATATCTTTCT
Found at i:52498484 original size:17 final size:17
Alignment explanation
Indices: 52498462--52498496 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
52498452 ATGAAAACTT
52498462 AACTAAAATCTAACTAA
1 AACTAAAATCTAACTAA
52498479 AACTAAAATCTAACTAA
1 AACTAAAATCTAACTAA
52498496 A
1 A
52498497 GTGCTGGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.60, C:0.17, G:0.00, T:0.23
Consensus pattern (17 bp):
AACTAAAATCTAACTAA
Found at i:52499788 original size:40 final size:42
Alignment explanation
Indices: 52499744--52499824 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
52499734 GTGCCAGGCC
*
52499744 TTGCCACACAC-CCC-TGTGC-CAGGCCGTGTAACTCCCTGAG
1 TTGCCACACACGCCCATGT-CTCAGGCCGTGTAACTCACTGAG
* *
52499784 TTGCCCCACACGCCCATGTCTTAGGCCGTGTAACTCACTGA
1 TTGCCACACACGCCCATGTCTCAGGCCGTGTAACTCACTGA
52499825 CTTGTAATCT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
40 10 0.29
41 4 0.11
42 21 0.60
ACGTcount: A:0.19, C:0.38, G:0.21, T:0.22
Consensus pattern (42 bp):
TTGCCACACACGCCCATGTCTCAGGCCGTGTAACTCACTGAG
Found at i:52514960 original size:27 final size:27
Alignment explanation
Indices: 52514930--52515000 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
52514920 TTAGTTTACC
** *
52514930 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTAATTTATA
* *
52514957 AAATTACTAAAATACCCTTAATTTATA
1 AAATTACCAAAATACCCCTAATTTATA
* *
52514984 AAATTATCGAAATACCC
1 AAATTACCAAAATACCC
52515001 TTATAGGGTA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.44, C:0.20, G:0.06, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAATTTATA
Found at i:52515015 original size:27 final size:27
Alignment explanation
Indices: 52514985--52515135 Score: 214
Period size: 27 Copynumber: 5.6 Consensus size: 27
52514975 TAATTTATAA
* *
52514985 AATTATCGAAATACCCTTATAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
52515012 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
* *
52515039 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
52515066 AATTA-CTGAAATACCCCTGTAGGGTAG
1 AATTATC-GAAATACCCCTGTAGGGTAG
* * * *
52515093 AATTACCGAAATACCCCTATAGGTTAA
1 AATTATCGAAATACCCCTGTAGGGTAG
52515120 AATTATCGAAATACCC
1 AATTATCGAAATACCC
52515136 TCAGTTTGCA
Statistics
Matches: 113, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
26 1 0.01
27 111 0.98
28 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.26
Consensus pattern (27 bp):
AATTATCGAAATACCCCTGTAGGGTAG
Found at i:52515148 original size:27 final size:27
Alignment explanation
Indices: 52515118--52515322 Score: 143
Period size: 27 Copynumber: 7.6 Consensus size: 27
52515108 CCTATAGGTT
52515118 AAAATTATCGAAATACCCTC-AGTTTGC
1 AAAATTATCGAAATACCCTCGA-TTTGC
* *
52515145 AAAATTATTGAAATACCCTCGATTTGT
1 AAAATTATCGAAATACCCTCGATTTGC
* *
52515172 AAAATTA-CTGAAATACCCTCGACTTGT
1 AAAATTATC-GAAATACCCTCGATTTGC
* * **
52515199 AAAATTA-CCAAAGTACCCCCGATTTAT
1 AAAATTATCGAAA-TACCCTCGATTTGC
* * * * * *
52515226 AAAATTACCCAAATATCATTGATTTGT
1 AAAATTATCGAAATACCCTCGATTTGC
* **
52515253 AAAATTACCGAAATA-CCTTTAGTTTGC
1 AAAATTATCGAAATACCCTCGA-TTTGC
* *
52515280 AAAATTA-CTGAAATGCCCTCGATTTGT
1 AAAATTATC-GAAATACCCTCGATTTGC
52515307 AAAATTA-CTGAAATAC
1 AAAATTATC-GAAATAC
52515323 TCATGTAAGA
Statistics
Matches: 149, Mismatches: 22, Indels: 14
0.81 0.12 0.08
Matches are distributed among these distances:
26 8 0.05
27 131 0.88
28 10 0.07
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (27 bp):
AAAATTATCGAAATACCCTCGATTTGC
Found at i:52515203 original size:54 final size:54
Alignment explanation
Indices: 52514930--52515322 Score: 218
Period size: 54 Copynumber: 7.3 Consensus size: 54
52514920 TTAGTTTACC
* * * ** *
52514930 AAATTACCAAAATACCC-CTGGTTTGTAAAATTACTAAAATACCCTTAATTTATA
1 AAATTACCGAAATACCCTC-GATTTGTAAAATTACTGAAATACCCTCGATTTGTA
* * ** * **
52514984 AAATTATCGAAATACCCT-TATAGGGTAGAATTA-TCGAAATACCC-CTG-TAGGGTA
1 AAATTACCGAAATACCCTCGAT-TTGTAAAATTACT-GAAATACCCTC-GAT-TTGTA
* * ** * **
52515038 GAATTACCGAAATACCCTTG-TAGGGTAGAATTACTGAAATACCC-CTG-TAGGGTA
1 AAATTACCGAAATACCCTCGAT-TTGTAAAATTACTGAAATACCCTC-GAT-TTGTA
* * ** *
52515092 GAATTACCGAAATACCC-CTATAGGTTAAAATTA-TCGAAATACCCTC-AGTTTGCA
1 AAATTACCGAAATACCCTCGATTTG-TAAAATTACT-GAAATACCCTCGA-TTTGTA
** *
52515146 AAATTATTGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGACTTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTGTA
* * ** * * *
52515200 AAATTACC-AAAGTACCCCCGATTTATAAAATTACCCAAATATCATTGATTTGTA
1 AAATTACCGAAA-TACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTGTA
** * *
52515254 AAATTACCGAAATA-CCTTTAGTTTGCAAAATTACTGAAATGCCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGA-TTTGTAAAATTACTGAAATACCCTCGATTTGTA
*
52515308 AAATTACTGAAATAC
1 AAATTACCGAAATAC
52515323 TCATGTAAGA
Statistics
Matches: 266, Mismatches: 53, Indels: 39
0.74 0.15 0.11
Matches are distributed among these distances:
53 12 0.05
54 242 0.91
55 12 0.05
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (54 bp):
AAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTGTA
Found at i:52515409 original size:27 final size:27
Alignment explanation
Indices: 52515336--52515424 Score: 106
Period size: 27 Copynumber: 3.3 Consensus size: 27
52515326 TGTAAGATAG
* *
52515336 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTTGATTTACAA
* *
52515363 AATTACCGTCTTACCCTTGATTTACAA
1 AATTACCATTTTACCCTTGATTTACAA
* ** *
52515390 AATTACCATTTTACCATTGATCAATAA
1 AATTACCATTTTACCCTTGATTTACAA
52515417 AATTACCA
1 AATTACCA
52515425 AAATACCTCT
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.35, C:0.24, G:0.06, T:0.36
Consensus pattern (27 bp):
AATTACCATTTTACCCTTGATTTACAA
Found at i:52515431 original size:27 final size:27
Alignment explanation
Indices: 52515407--52515458 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
52515397 ATTTTACCAT
52515407 TGATCAATAAAATTACCAAAATACCTC
1 TGATCAATAAAATTACCAAAATACCTC
* ***
52515434 TGGTTTGTAAAATTACCAAAATACC
1 TGATCAATAAAATTACCAAAATACC
52515459 CTTAATTTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.44, C:0.19, G:0.08, T:0.29
Consensus pattern (27 bp):
TGATCAATAAAATTACCAAAATACCTC
Found at i:52515467 original size:27 final size:27
Alignment explanation
Indices: 52515414--52515488 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 27
52515404 CATTGATCAA
**
52515414 TAAAATTACCAAAATA-CCTCTGGTTTG
1 TAAAATTACCAAAATACCCT-TAATTTG
52515441 TAAAATTACCAAAATACCCTTAATTTG
1 TAAAATTACCAAAATACCCTTAATTTG
* *
52515468 TGAAATTACCGAAATACCCTT
1 TAAAATTACCAAAATACCCTT
52515489 GTAGGGTAGA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
27 40 0.93
28 3 0.07
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCTTAATTTG
Found at i:52515501 original size:27 final size:27
Alignment explanation
Indices: 52515471--52515809 Score: 489
Period size: 27 Copynumber: 12.6 Consensus size: 27
52515461 TAATTTGTGA
*
52515471 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
52515498 AATTACTGAAGTACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
52515525 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
52515552 AATTATCGCAATACCCCTATAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
*
52515579 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
52515606 AATTACCGGAATACCCTTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
52515633 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
52515660 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
52515687 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
52515714 AATTATCGCAATACCCCTATAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
52515741 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
52515768 AATTACTAAAATACCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
52515795 AATTACCGAGATACC
1 AATTACCGAAATACC
52515810 TTGTGGGGTA
Statistics
Matches: 275, Mismatches: 37, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 275 1.00
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:52515502 original size:81 final size:81
Alignment explanation
Indices: 52514931--52515759 Score: 334
Period size: 81 Copynumber: 10.2 Consensus size: 81
52514921 TAGTTTACCA
* ** * *
52514931 AATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTAATTTATAAAATTATCGAAA
1 AATTACCGAAATACCCCTGGTTTGTAAAATTACCGAAATACCCTTAATTTGTAAAATTACCGAAA
*
52514996 TACCCTTATAGGGTAG
66 TACCCTTGTAGGGTAG
* ** * * ** * *
52515012 AATTATCGAAATACCCCT-GTAGGGTAGAATTACCGAAATACCCTT-GTAGGGTAGAATTACTGA
1 AATTACCGAAATACCCCTGGT-TTGTAAAATTACCGAAATACCCTTAAT-TTGTAAAATTACCGA
*
52515075 AATACCCCTGTAGGGTAG
64 AATACCCTTGTAGGGTAG
* ** * * * * **
52515093 AATTACCGAAATACCCCT-ATAGGTTAAAATTATCGAAATACCCTCAGTTTGCAAAATTATTGAA
1 AATTACCGAAATACCCCTGGTTTG-TAAAATTACCGAAATACCCTTAATTTGTAAAATTACCGAA
* ** *
52515157 ATACCCTCG-ATTTGTAA
65 ATACCCTTGTA-GGGTAG
* ** *** * *
52515174 AATTACTGAAATA-CCCTCGACTTGTAAAATTACC-AAAGTACCCCCGATTTATAAAATTACCCA
1 AATTACCGAAATACCCCT-GGTTTGTAAAATTACCGAAA-TACCCTTAATTTGTAAAATTACCGA
* * ** *
52515237 AATATCATTG-ATTTGTAA
64 AATACCCTTGTA-GGGTAG
** * * * * ** *
52515255 AATTACCGAAATACCTTTAGTTTGCAAAATTACTGAAATGCCCTCGATTTGTAAAATTACTGAAA
1 AATTACCGAAATACCCCTGGTTTGTAAAATTACCGAAATACCCTTAATTTGTAAAATTACCGAAA
* * * *
52515320 TACTCATGTAAGATAG
66 TACCCTTGTAGGGTAG
** * * *** * **
52515336 AATTACC-ATTTTA-CCCTCGATT-TACAGAATTACCGTCTTACCCTTGATTTACAAAATTACC-
1 AATTACCGA-AATACCCCTGGTTTGTA-A-AATTACCGAAATACCCTTAATTTGTAAAATTACCG
** * * *
52515397 ATTTTACCATTGATCA--ATAA
63 A-AATACCCTTG-T-AGGGTAG
* * * *
52515417 AATTACCAAAATACCTCTGGTTTGTAAAATTACCAAAATACCCTTAATTTGTGAAATTACCGAAA
1 AATTACCGAAATACCCCTGGTTTGTAAAATTACCGAAATACCCTTAATTTGTAAAATTACCGAAA
52515482 TACCCTTGTAGGGTAG
66 TACCCTTGTAGGGTAG
* * ** * * ** * *
52515498 AATTACTGAAGTACCCCT-GTAGGGTAGAATTATCGAAATACCCCTGT-A-GGGTAGAATTATCG
1 AATTACCGAAATACCCCTGGT-TTGTAAAATTACCGAAATA-CCCT-TAATTTGTAAAATTACCG
* * * *
52515560 CAATACCCCTATAGGGTAA
63 AAATACCCTTGTAGGGTAG
* ** * * * * *
52515579 AATTACCAAAATACCCCT-GTAGGGTAGAATTACCGGAATACCCTTGTAA--GGTAGAATTATCG
1 AATTACCGAAATACCCCTGGT-TTGTAAAATTACCGAAATACCC-T-TAATTTGTAAAATTACCG
*
52515641 AAATACCCCTGTAGGGTAG
63 AAATACCCTTGTAGGGTAG
** * ** * *
52515660 AATTACCGAAATACCCCT-GTAGGGTAGAATTACCGAAATACCCCTGT-A-GGGTAGAATTATCG
1 AATTACCGAAATACCCCTGGT-TTGTAAAATTACCGAAATA-CCCT-TAATTTGTAAAATTACCG
* * * *
52515722 CAATACCCCTATAGGGTAA
63 AAATACCCTTGTAGGGTAG
52515741 AATTACCGAAATACCCCTG
1 AATTACCGAAATACCCCTG
52515760 TAGGGTAGAA
Statistics
Matches: 577, Mismatches: 140, Indels: 61
0.74 0.18 0.08
Matches are distributed among these distances:
79 2 0.00
80 28 0.05
81 514 0.89
82 29 0.05
83 4 0.01
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (81 bp):
AATTACCGAAATACCCCTGGTTTGTAAAATTACCGAAATACCCTTAATTTGTAAAATTACCGAAA
TACCCTTGTAGGGTAG
Found at i:52516506 original size:27 final size:27
Alignment explanation
Indices: 52516476--52516577 Score: 134
Period size: 27 Copynumber: 3.8 Consensus size: 27
52516466 ATTCTATTAA
* *
52516476 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
*
52516503 GTGGCTATGCCACAAATATCTG-TTCTG
1 GTGGCTCTGCCAC-AATATCTGTTTCTG
*
52516530 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* *
52516557 GTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTG
52516578 ATAACTGAGC
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
26 8 0.12
27 52 0.78
28 7 0.10
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTTTCTG
Found at i:52516752 original size:6 final size:6
Alignment explanation
Indices: 52516737--52516833 Score: 56
Period size: 6 Copynumber: 15.8 Consensus size: 6
52516727 ATTCTATTAC
* * * *
52516737 CTGATA CTGATT CTGATT TTGATT CTG-TT ACCTGATA CTGATT CTGGTT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
* * * *
52516786 CTAATT CTG-TCAC CTAATT CTGATT CTGATT TTGATT CT-AGTT CTGAT
1 CTGATT CTGAT--T CTGATT CTGATT CTGATT CTGATT CTGA-TT CTGAT
52516834 AATGTTTCTT
Statistics
Matches: 68, Mismatches: 15, Indels: 16
0.69 0.15 0.16
Matches are distributed among these distances:
5 4 0.06
6 56 0.82
7 6 0.09
8 2 0.03
ACGTcount: A:0.20, C:0.18, G:0.15, T:0.47
Consensus pattern (6 bp):
CTGATT
Found at i:52516768 original size:31 final size:31
Alignment explanation
Indices: 52516714--52516824 Score: 141
Period size: 31 Copynumber: 3.5 Consensus size: 31
52516704 TTGCATTCAC
* *
52516714 ATTCTGATTTTTTATTCTATTACCTGATACTG
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
52516746 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* * * * * *
52516777 ATTCTGGTTCTAATTCTGTCACCTAATTCTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
52516808 ATTCTGATTTTGATTCT
1 ATTCTGATTTTGATTCT
52516825 AGTTCTGATA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
31 61 0.90
32 7 0.10
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.50
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:52520452 original size:19 final size:20
Alignment explanation
Indices: 52520416--52520455 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
52520406 CATGGATGAA
*
52520416 TATGCTAAAAATTAGAAATT
1 TATGCTAAAAAATAGAAATT
*
52520436 TATGGTAAAAAAT-GAAATT
1 TATGCTAAAAAATAGAAATT
52520455 T
1 T
52520456 TTTTCATAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.50, C:0.03, G:0.12, T:0.35
Consensus pattern (20 bp):
TATGCTAAAAAATAGAAATT
Found at i:52522812 original size:28 final size:28
Alignment explanation
Indices: 52522766--52522846 Score: 117
Period size: 28 Copynumber: 2.9 Consensus size: 28
52522756 ATGTCGTTGA
**
52522766 ATACTCAATGCCTCACACACTAAGTTCC
1 ATACTCAATATCTCACACACTAAGTTCC
*
52522794 ATACTCAATATCTCTCACACTAAGTTCC
1 ATACTCAATATCTCACACACTAAGTTCC
* *
52522822 ACACTCAATATCTCGCACACTAAGT
1 ATACTCAATATCTCACACACTAAGT
52522847 GCCGTACACA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 48 1.00
ACGTcount: A:0.33, C:0.33, G:0.06, T:0.27
Consensus pattern (28 bp):
ATACTCAATATCTCACACACTAAGTTCC
Found at i:52522884 original size:40 final size:40
Alignment explanation
Indices: 52522834--52522930 Score: 140
Period size: 40 Copynumber: 2.4 Consensus size: 40
52522824 ACTCAATATC
*
52522834 TCGCACACTAAGTGCCGTACACAGCCGAAGCTATCTCAAA
1 TCGCACACTAAGTGCCATACACAGCCGAAGCTATCTCAAA
* * * * *
52522874 TCGCAGACTAAGTGCCATATATAGCCGAAGCTATGTCGAA
1 TCGCACACTAAGTGCCATACACAGCCGAAGCTATCTCAAA
52522914 TCGCACACTAAGTGCCA
1 TCGCACACTAAGTGCCA
52522931 CAAATAGTCA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.32, C:0.29, G:0.20, T:0.20
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATACACAGCCGAAGCTATCTCAAA
Found at i:52525044 original size:21 final size:22
Alignment explanation
Indices: 52525018--52525059 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
52525008 AGCACGGACG
*
52525018 TGTCCCATGG-TCACATGGGCA
1 TGTCCCATGGACCACATGGGCA
*
52525039 TGTCCCTTGGACCACATGGGC
1 TGTCCCATGGACCACATGGGC
52525060 GTGTGAGCCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.17, C:0.31, G:0.29, T:0.24
Consensus pattern (22 bp):
TGTCCCATGGACCACATGGGCA
Found at i:52529781 original size:40 final size:40
Alignment explanation
Indices: 52529723--52529947 Score: 231
Period size: 40 Copynumber: 5.7 Consensus size: 40
52529713 GGATATAACC
* * * *
52529723 ACTCGCAC-AAGGCCTTCGGGTCTTAGCCCGG-ATATGGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
* * * * *
52529762 ACTAGCATAAATGCCTTCGGGTCTTAGCCTGG-ATATAGCA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
*
52529802 ACTCGCACAGATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* * * *
52529842 ACTCGTACCAATGCCTTCTGGACTTAGCCCGGAATTTGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* * *
52529882 ACTCGCACAAATGCCTTCGGGACTTAGCCCGAAATTAATC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* * *
52529922 ACTAGCACACATGTCTTCGGGACTTA
1 ACTCGCACAAATGCCTTCGGGACTTA
52529948 ACCCCGTTAG
Statistics
Matches: 156, Mismatches: 28, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 6 0.04
40 148 0.95
41 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:52538077 original size:40 final size:40
Alignment explanation
Indices: 52537885--52538080 Score: 227
Period size: 40 Copynumber: 4.9 Consensus size: 40
52537875 GGATATAACC
* * * *
52537885 ACTCGCAC-AAGGCCTTCGGGTCTTAGCCCGG-ATATGGCC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGCA
* * *
52537924 ACTAGCATAAATGCCTTCGGGTCTTAGCCCGG-ATATAGCA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGCA
* * *
52537964 ACTCGCACAGATGCCTTCGGGACTTAGCCCGAAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGCA
* * * *
52538004 ACTCGTACCAATGCCTTCGGGACTTAGCCCGGAATTTGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGCA
52538044 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTA
52538081 ATCACTAGCA
Statistics
Matches: 136, Mismatches: 19, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
39 6 0.04
40 128 0.94
41 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGCA
Found at i:52538092 original size:40 final size:40
Alignment explanation
Indices: 52537884--52538109 Score: 226
Period size: 40 Copynumber: 5.7 Consensus size: 40
52537874 CGGATATAAC
* * * *
52537884 CACTCGCAC-AAGGCCTTCGGGTCTTAGCCCGG-ATATGGC
1 CACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT
* * *
52537923 CACTAGCATAAATGCCTTCGGGTCTTAGCCCGG-ATATAG-
1 CACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT
* *
52537962 CAACTCGCACAGATGCCTTCGGGACTTAGCCCGAAATTAGT
1 C-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
* * * *
52538003 AACTCGTACCAATGCCTTCGGGACTTAGCCCGGAATTTGT
1 CACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
* *
52538043 AACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAAT
1 CACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
* * * *
52538083 CACTAGCACACATGTCTTTGGGACTTA
1 CACTCGCACAAATGCCTTCGGGACTTA
52538110 ACCCCGTTAG
Statistics
Matches: 159, Mismatches: 24, Indels: 7
0.84 0.13 0.04
Matches are distributed among these distances:
39 8 0.05
40 149 0.94
41 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
Found at i:52538106 original size:80 final size:80
Alignment explanation
Indices: 52537864--52538109 Score: 250
Period size: 80 Copynumber: 3.1 Consensus size: 80
52537854 AAGTATCTTT
* * * * * * *
52537864 GGGATTTAG-CCGGATATAACCACTCGCAC-AAGGCCTTCGGGTCTTAGCCCGG-ATATGGCCAC
1 GGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTCAC
* *
52537926 TAGCATAAATGCCTTC
65 TAGCACACATGCCTTC
* * * *
52537942 GGGTCTTAGCCCGGATATAGCAACTCGCACAGATGCCTTCGGGACTTAGCCCGAAATTAGTAACT
1 GGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACT
* *
52538007 CGTAC-CAATGCCTTC
66 AGCACAC-ATGCCTTC
* * *
52538022 GGGACTTAGCCCGGA-ATTTGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAATCAC
1 GGGACTTAGCCCGGATA-TAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTCAC
* *
52538086 TAGCACACATGTCTTT
65 TAGCACACATGCCTTC
52538102 GGGACTTA
1 GGGACTTA
52538110 ACCCCGTTAG
Statistics
Matches: 136, Mismatches: 26, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
78 7 0.05
79 19 0.14
80 107 0.79
81 3 0.02
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (80 bp):
GGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACT
AGCACACATGCCTTC
Found at i:52538920 original size:50 final size:45
Alignment explanation
Indices: 52538805--52539118 Score: 171
Period size: 46 Copynumber: 6.7 Consensus size: 45
52538795 AGGGTATAAT
* *
52538805 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-CACA-CGTCAA
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACT-GATACATATCGT--A
* *
52538852 GTCAATGCCATGTCCCAGACATAGTCTTACACTGAATTTAACATATCCGT-
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTG-A--T-ACATAT-CGTA
* * *
52538902 GCCGATGCCGTGTCCCAGACATGGTCTTACACTGATACATCTTGTA
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTGATACATATCGTA
* * *
52538948 GCCGATG-CATGTCCCAGACATGTCTTACACTGGTTTACATCTC-CA
1 GCCGATGCCATGTCCCAGACATGTCTTACACT-G-ATACATATCGTA
* * * * *
52538993 GGCCGATG-CATG-CCCTAGACATGCCTTACACTAGCTCTCATTTC-AA
1 -GCCGATGCCATGTCCC-AGACATGTCTTACACT-GAT-ACATATCGTA
* * * * *
52539039 TGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCGTAAT-GTG
1 -GCCGATGCCATGTCCCAGACAT-GTCTTACACT-GAT-ACAT-ATCGTA
*
52539088 GCCGATG-CATGTCCCAGACATCTCTTACACT
1 GCCGATGCCATGTCCCAGACATGTCTTACACT
52539119 AGCACACAAT
Statistics
Matches: 218, Mismatches: 31, Indels: 37
0.76 0.11 0.13
Matches are distributed among these distances:
44 10 0.05
45 21 0.10
46 68 0.31
47 55 0.25
48 25 0.11
49 3 0.01
50 30 0.14
51 3 0.01
53 3 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.27
Consensus pattern (45 bp):
GCCGATGCCATGTCCCAGACATGTCTTACACTGATACATATCGTA
Found at i:52538987 original size:46 final size:48
Alignment explanation
Indices: 52538805--52539074 Score: 222
Period size: 46 Copynumber: 5.7 Consensus size: 48
52538795 AGGGTATAAT
* * * *
52538805 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACA-CGTCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGTTTACATCTTCTA
* * * * * *
52538852 GTCAATGCCATGTCCCAGACATAGTCTTACACTGAATTTAACATATCCGT-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTG-GTTT-ACATCTTC-TA
* * *
52538902 GCCGATGCCGTGTCCCAGACATGGTCTTACACT-G-ATACATCTTGTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGTTTACATCTTCTA
*
52538948 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGTTTACATC-TCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGTTTACATCTTCTA
* * * *
52538993 GGCCGATG-CATG-CCCTAGACAT-GCCTTACACTAGCTCT-CAT-TTCAA
1 -GCCGATGCCATGTCCC-AGACATGGTCTTACACT-GGTTTACATCTTCTA
*
52539039 TGCTGATGCCATGTCCCAGACATGGTCTTACACTGG
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGG
52539075 CTCTCGTAAT
Statistics
Matches: 178, Mismatches: 31, Indels: 28
0.75 0.13 0.12
Matches are distributed among these distances:
44 10 0.06
45 20 0.11
46 56 0.31
47 46 0.26
48 13 0.07
49 3 0.02
50 30 0.17
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGTTTACATCTTCTA
Found at i:52545999 original size:47 final size:47
Alignment explanation
Indices: 52545945--52546177 Score: 340
Period size: 47 Copynumber: 5.0 Consensus size: 47
52545935 TTAGGATTTT
** * * *
52545945 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
52545992 ATGTGATGAATGTGAACATGCATACATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
52546039 ATGTGATGAATGTGAACGTGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
52546086 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGTCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
52546133 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGC
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
52546178 TAATATGAAA
Statistics
Matches: 167, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 167 1.00
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:52546045 original size:22 final size:22
Alignment explanation
Indices: 52546017--52546092 Score: 73
Period size: 22 Copynumber: 3.3 Consensus size: 22
52546007 ACATGCATAC
52546017 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * * *
52546039 ATGTGATGAATG-TGAACGTGCATA
1 ATGTGAT-AAGGCCGAATG-GC-CA
52546063 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
52546086 ATGTGAT
1 ATGTGAT
52546093 GAATGTGAGC
Statistics
Matches: 41, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
22 18 0.44
23 6 0.15
24 6 0.15
25 11 0.27
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:52546211 original size:48 final size:48
Alignment explanation
Indices: 52546155--52546341 Score: 286
Period size: 48 Copynumber: 3.8 Consensus size: 48
52546145 TGAACATGCA
*
52546155 TATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
52546203 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
52546251 CATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG--A-A-ATATGTATGAGATATG
*
52546303 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
52546342 GGCGATGTGC
Statistics
Matches: 127, Mismatches: 6, Indels: 12
0.88 0.04 0.08
Matches are distributed among these distances:
47 1 0.01
48 80 0.63
49 1 0.01
50 2 0.02
51 1 0.01
52 41 0.32
53 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:52546320 original size:100 final size:96
Alignment explanation
Indices: 52546156--52546341 Score: 293
Period size: 100 Copynumber: 1.9 Consensus size: 96
52546146 GAACATGCAT
*
52546156 ATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAATATGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
52546221 ATGGCTAATGTGAAATATGTATGAGATATGC
66 ATGGCTAATGTGAAATATGTATGAGATATGC
*
52546252 ATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATATGAGATATGTATATGTGGTAAA
1 ATATGTGGTAAAGCCGAATGGCT-AATATG--A-A-ATATATATGAGATATGTATATGTGGTAAA
*
52546316 GCCGAATGGCTAGTGTGAAATATGTA
61 GCCGAATGGCTAATGTGAAATATGTA
52546342 GGCGATGTGC
Statistics
Matches: 82, Mismatches: 3, Indels: 6
0.90 0.03 0.07
Matches are distributed among these distances:
95 1 0.01
96 26 0.32
98 1 0.01
99 1 0.01
100 53 0.65
ACGTcount: A:0.37, C:0.07, G:0.26, T:0.31
Consensus pattern (96 bp):
ATATGTGGTAAAGCCGAATGGCTAATATGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
ATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:52546632 original size:37 final size:37
Alignment explanation
Indices: 52546487--52546631 Score: 229
Period size: 37 Copynumber: 3.9 Consensus size: 37
52546477 GGAAATATAT
* *
52546487 TCCGGGTAAGACCCAATGACTACGTGTGGAAATATAT-
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGAT-TATG
52546524 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
52546561 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
52546598 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
52546632 TCGTCTGAGC
Statistics
Matches: 102, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
36 3 0.03
37 99 0.97
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:52549462 original size:27 final size:27
Alignment explanation
Indices: 52549432--52549609 Score: 115
Period size: 27 Copynumber: 6.6 Consensus size: 27
52549422 ATATTGAGCC
* * *
52549432 CGCACACTCAGTGCTATACAATCAACT
1 CGCACACTTAGTGCTACACAATCAAAT
* **
52549459 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACACAATCAAAT
* * * *
52549486 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACACAATCA-AAT
** *** *
52549514 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACACAATCAAAT
* * **
52549541 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CACAATCAAAT
* * * *
52549568 CGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTACACAATCAAAT
52549595 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
52549610 GTACAATTTA
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACACAATCAAAT
Found at i:52549525 original size:55 final size:55
Alignment explanation
Indices: 52549432--52549609 Score: 204
Period size: 54 Copynumber: 3.3 Consensus size: 55
52549422 ATATTGAGCC
* * *
52549432 CGCACACTCAGTGCTATACA-A-TCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTAT-CATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
* * *
52549486 CGCACACTTAGTGCTA-CATAGTT-AGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATCATA-TTCA-ACTCGCACACTTAGTGCCACATAGTCAAAT
** * *
52549541 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
52549595 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
52549610 GTACAATTTA
Statistics
Matches: 104, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
52 2 0.02
53 1 0.01
54 56 0.54
55 45 0.43
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:52549571 original size:82 final size:81
Alignment explanation
Indices: 52549453--52549608 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
52549443 TGCTATACAA
* * *
52549453 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAG-TAGAATCGCA
52549518 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
52549535 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCA
52549599 CACTTAGTGC
65 CACTTAGTGC
52549609 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 20 0.31
82 45 0.69
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:52557365 original size:27 final size:27
Alignment explanation
Indices: 52557335--52557512 Score: 115
Period size: 27 Copynumber: 6.6 Consensus size: 27
52557325 ATATTGAGCC
* * *
52557335 CGCACACTCAGTGCTATACAATCAACT
1 CGCACACTTAGTGCTACACAATCAAAT
* **
52557362 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACACAATCAAAT
* * * *
52557389 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACACAATCA-AAT
** *** *
52557417 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACACAATCAAAT
* * **
52557444 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CACAATCAAAT
* * * *
52557471 CGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTACACAATCAAAT
52557498 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
52557513 GTACAATTTA
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACACAATCAAAT
Found at i:52557428 original size:55 final size:55
Alignment explanation
Indices: 52557335--52557512 Score: 204
Period size: 54 Copynumber: 3.3 Consensus size: 55
52557325 ATATTGAGCC
* * *
52557335 CGCACACTCAGTGCTATACA-A-TCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTAT-CATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
* * *
52557389 CGCACACTTAGTGCTA-CATAGTT-AGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATCATA-TTCA-ACTCGCACACTTAGTGCCACATAGTCAAAT
** * *
52557444 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
52557498 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
52557513 GTACAATTTA
Statistics
Matches: 104, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
52 2 0.02
53 1 0.01
54 56 0.54
55 45 0.43
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:52557474 original size:82 final size:81
Alignment explanation
Indices: 52557356--52557511 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
52557346 TGCTATACAA
* * *
52557356 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAG-TAGAATCGCA
52557421 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
52557438 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCA
52557502 CACTTAGTGC
65 CACTTAGTGC
52557512 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 20 0.31
82 45 0.69
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:52558753 original size:15 final size:15
Alignment explanation
Indices: 52558733--52558765 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
52558723 ATTACCATAC
52558733 TCCTTATTTTATTCT
1 TCCTTATTTTATTCT
52558748 TCCTTATTTTATTCT
1 TCCTTATTTTATTCT
52558763 TCC
1 TCC
52558766 ACTAACAAAA
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:0.12, C:0.24, G:0.00, T:0.64
Consensus pattern (15 bp):
TCCTTATTTTATTCT
Found at i:52559950 original size:10 final size:10
Alignment explanation
Indices: 52559935--52559973 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
52559925 ACTTCAAACT
52559935 TATAATTTCA
1 TATAATTTCA
52559945 TATAATTTCA
1 TATAATTTCA
*
52559955 TATAA-TACA
1 TATAATTTCA
*
52559964 TATACTTTCA
1 TATAATTTCA
52559974 CTTTTACCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
9 7 0.28
10 18 0.72
ACGTcount: A:0.41, C:0.13, G:0.00, T:0.46
Consensus pattern (10 bp):
TATAATTTCA
Found at i:52569673 original size:23 final size:23
Alignment explanation
Indices: 52569646--52569693 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
52569636 GTTGCCCATC
52569646 TACTCTGACCCAAAAGTAAACGA
1 TACTCTGACCCAAAAGTAAACGA
*
52569669 TACTCTGGCCCAAAAGTAAACGA
1 TACTCTGACCCAAAAGTAAACGA
52569692 TA
1 TA
52569694 TAGTGAAGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.42, C:0.25, G:0.15, T:0.19
Consensus pattern (23 bp):
TACTCTGACCCAAAAGTAAACGA
Found at i:52570138 original size:18 final size:17
Alignment explanation
Indices: 52570115--52570159 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
52570105 ATTTACTTTA
52570115 TTATAATAAGATAACATT
1 TTATAATAA-ATAACATT
* *
52570133 TTATAATAATTAATATT
1 TTATAATAAATAACATT
52570150 TTAT-ATAAAT
1 TTATAATAAAT
52570160 TTAATAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 5 0.21
17 10 0.42
18 9 0.38
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (17 bp):
TTATAATAAATAACATT
Found at i:52570160 original size:17 final size:18
Alignment explanation
Indices: 52570115--52570165 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
52570105 ATTTACTTTA
** *
52570115 TTATAATAAGATAACATT
1 TTATAATAATTTAATATT
52570133 TTATAATAA-TTAATATT
1 TTATAATAATTTAATATT
52570150 TTAT-ATAAATTTAATA
1 TTATAAT-AATTTAATA
52570166 AATAAAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 2 0.07
17 12 0.41
18 15 0.52
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (18 bp):
TTATAATAATTTAATATT
Found at i:52570314 original size:23 final size:23
Alignment explanation
Indices: 52570287--52570336 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
52570277 AAACAAACAC
*
52570287 TTATA-TTTATATTATTAAAATAT
1 TTATATTTTATACTA-TAAAATAT
*
52570310 TTATATTTTATACTATAAATTAT
1 TTATATTTTATACTATAAAATAT
52570333 TTAT
1 TTAT
52570337 CACTAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 16 0.67
24 8 0.33
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (23 bp):
TTATATTTTATACTATAAAATAT
Found at i:52571039 original size:17 final size:20
Alignment explanation
Indices: 52571019--52571058 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 20
52571009 ATTATGAGTG
52571019 AATATAAA-AAA-A-GAAAA
1 AATATAAATAAATACGAAAA
52571036 AATATAAATAAATACGAAAA
1 AATATAAATAAATACGAAAA
52571056 AAT
1 AAT
52571059 TCCAAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 8 0.40
18 3 0.15
19 1 0.05
20 8 0.40
ACGTcount: A:0.75, C:0.03, G:0.05, T:0.17
Consensus pattern (20 bp):
AATATAAATAAATACGAAAA
Found at i:52571975 original size:36 final size:37
Alignment explanation
Indices: 52571927--52572002 Score: 86
Period size: 36 Copynumber: 2.1 Consensus size: 37
52571917 AAATATATTA
* *
52571927 AAATTCATATAAACTTAT-AAATA-TTATAAAATTAAT
1 AAATTCATATAAA-TTATAAAATATTTACAAAATCAAT
*
52571963 AAATTC-TAATAAATTTTAAAATATTTACAAAATCAAT
1 AAATTCAT-ATAAATTATAAAATATTTACAAAATCAAT
52572000 AAA
1 AAA
52572003 CCATGTTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
35 4 0.12
36 16 0.47
37 14 0.41
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (37 bp):
AAATTCATATAAATTATAAAATATTTACAAAATCAAT
Found at i:52579826 original size:40 final size:40
Alignment explanation
Indices: 52579763--52579983 Score: 340
Period size: 40 Copynumber: 5.6 Consensus size: 40
52579753 ATTCGGATTG
52579763 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
52579802 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
52579842 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
52579882 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
52579922 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* **
52579962 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
52579984 TACTTGGTTT
Statistics
Matches: 170, Mismatches: 10, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
39 29 0.17
40 141 0.83
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.22
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:52587922 original size:40 final size:40
Alignment explanation
Indices: 52587859--52588079 Score: 340
Period size: 40 Copynumber: 5.6 Consensus size: 40
52587849 ATTCGGATTG
52587859 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
52587898 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
52587938 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
52587978 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
52588018 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* **
52588058 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
52588080 TACTTGGTTT
Statistics
Matches: 170, Mismatches: 10, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
39 29 0.17
40 141 0.83
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.22
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:52596165 original size:40 final size:40
Alignment explanation
Indices: 52595968--52596151 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
52595958 TGAATGATGT
* * * * * *
52595968 CCGGGCTAAGTCCCAAAGG-GTTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
52596008 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
52596048 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
52596087 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
52596127 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
52596152 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
39 33 0.27
40 82 0.67
41 8 0.07
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:52596173 original size:79 final size:79
Alignment explanation
Indices: 52596020--52596174 Score: 199
Period size: 79 Copynumber: 2.0 Consensus size: 79
52596010 GGACTAAGAT
* **
52596020 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAT
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAT
52596085 AACCGGGTTAAGTC
66 AACCGGGTTAAGTC
* * *
52596099 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
*
52596162 TATATCC-GGTTAA
63 TATAACCGGGTTAA
52596175 ATTCTGAAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
78 2 0.03
79 40 0.61
80 24 0.36
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAT
AACCGGGTTAAGTC
Found at i:52601838 original size:29 final size:29
Alignment explanation
Indices: 52601798--52601855 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
52601788 CATCTCAAGT
*
52601798 CGATGCCATGTCCTAGACATGGTCTTACAC
1 CGATGCCATGTCCCAGACAT-GTCTTACAC
52601828 CGATG-CATGTCCCAGACATGTCTTACAC
1 CGATGCCATGTCCCAGACATGTCTTACAC
52601856 TGGCTTACGT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 9 0.33
29 13 0.48
30 5 0.19
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (29 bp):
CGATGCCATGTCCCAGACATGTCTTACAC
Found at i:52601887 original size:75 final size:76
Alignment explanation
Indices: 52601751--52601901 Score: 202
Period size: 75 Copynumber: 2.0 Consensus size: 76
52601741 GGGTAAGGTG
*
52601751 CGATGCCATGTCCCAGACATGGTCTTACACTGGTTCACATCTCAAGTCGATGCCATGTCCTAGAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGTTCACATCTCAAGCCGATGCCATGTCCTAGAC
52601816 ATGGTCTTACAC
66 AT-GTCTTACAC
* **
52601828 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTT-ACGTCTCGTGGCCGATG-CATGTCCTAG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGG-TTCACATCTC-AAGCCGATGCCATGTCCTAG
*
52601889 ACATGTTTTACAC
64 ACATGTCTTACAC
52601902 TAGCTTTCGT
Statistics
Matches: 67, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
74 8 0.12
75 32 0.48
76 22 0.33
77 5 0.07
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (76 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGTTCACATCTCAAGCCGATGCCATGTCCTAGAC
ATGTCTTACAC
Found at i:52601894 original size:46 final size:44
Alignment explanation
Indices: 52601827--52601996 Score: 153
Period size: 46 Copynumber: 3.7 Consensus size: 44
52601817 TGGTCTTACA
52601827 CCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGTGG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCTT-CGTCT-GTGG
* * * *
52601873 CCGATGCATGTCCTAGACATGTTTTACACTAGCTTTCGTCT-TAATG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGC-TTCGTCTGT--GG
* * * * * *
52601919 CTGATGCCATGTCCCAGATATGGTCTTACAATGACTCTCATAATGTGG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TCGT-CTGTGG
*
52601967 CCAATGCATGTCCCAGACATGTCTTACACT
1 CCGATGCATGTCCCAGACATGTCTTACACT
52601997 AGCCAAAAAT
Statistics
Matches: 98, Mismatches: 18, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
44 1 0.01
46 50 0.51
47 28 0.29
48 17 0.17
49 1 0.01
50 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.19, T:0.31
Consensus pattern (44 bp):
CCGATGCATGTCCCAGACATGTCTTACACTGGCTTCGTCTGTGG
Done.