Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 75 of 295
Found at i:23227873 original size:15 final size:15
Alignment explanation
Indices: 23227853--23227902 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
23227843 CGAGAAGGCC
*
23227853 GAGAAAGAAAATACT
1 GAGAAAGAAACTACT
*
23227868 GAGAAAGAAGCTACT
1 GAGAAAGAAACTACT
* *
23227883 AAGAAAGAATCTACT
1 GAGAAAGAAACTACT
23227898 GAGAA
1 GAGAA
23227903 CATTGTTAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.54, C:0.10, G:0.22, T:0.14
Consensus pattern (15 bp):
GAGAAAGAAACTACT
Found at i:23230120 original size:15 final size:16
Alignment explanation
Indices: 23230091--23230121 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
23230081 TGGGAATCCC
23230091 ATTTTATCATTATCAT
1 ATTTTATCATTATCAT
23230107 ATTTTATC-TTATCAT
1 ATTTTATCATTATCAT
23230122 TTTCAAGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.29, C:0.13, G:0.00, T:0.58
Consensus pattern (16 bp):
ATTTTATCATTATCAT
Found at i:23236254 original size:8 final size:8
Alignment explanation
Indices: 23236233--23236263 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
23236223 AAGGGCTATG
23236233 TGGGCCTAA
1 TGGGCCT-A
23236242 TGGGCCTA
1 TGGGCCTA
23236250 TGGGCCTA
1 TGGGCCTA
23236258 TGGGCC
1 TGGGCC
23236264 CAATTGGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 15 0.68
9 7 0.32
ACGTcount: A:0.13, C:0.26, G:0.39, T:0.23
Consensus pattern (8 bp):
TGGGCCTA
Found at i:23236369 original size:27 final size:27
Alignment explanation
Indices: 23236339--23236406 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 27
23236329 AGGCTAGCAT
23236339 TACTAAAATACCCTTGTAGGGTAGAAG
1 TACTAAAATACCCTTGTAGGGTAGAAG
* * * *
23236366 TACTGAAATGCCCCTGTAGGGTAGAAT
1 TACTAAAATACCCTTGTAGGGTAGAAG
23236393 TA-TCAAAATACCCT
1 TACT-AAAATACCCT
23236407 CGACCTGTAA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
26 1 0.03
27 32 0.97
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.26
Consensus pattern (27 bp):
TACTAAAATACCCTTGTAGGGTAGAAG
Found at i:23236420 original size:27 final size:27
Alignment explanation
Indices: 23236390--23236505 Score: 117
Period size: 27 Copynumber: 4.3 Consensus size: 27
23236380 TGTAGGGTAG
* *
23236390 AATTATCAAAATACCCTCGACCTGTAA
1 AATTACCAAAATACCCTCGACTTGTAA
* *
23236417 AATTACCAAAATA-CCTCTGATTTGTGA
1 AATTACCAAAATACCCTC-GACTTGTAA
* *
23236444 AATTACTAAAATACCCTCAACTTGTAA
1 AATTACCAAAATACCCTCGACTTGTAA
* * * * *
23236471 AATTACCAAAGTACCCCCGATTTATAG
1 AATTACCAAAATACCCTCGACTTGTAA
23236498 AATTACCA
1 AATTACCA
23236506 TTTTACCCTT
Statistics
Matches: 72, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
26 4 0.06
27 64 0.89
28 4 0.06
ACGTcount: A:0.41, C:0.23, G:0.08, T:0.28
Consensus pattern (27 bp):
AATTACCAAAATACCCTCGACTTGTAA
Found at i:23236502 original size:54 final size:55
Alignment explanation
Indices: 23236387--23236503 Score: 150
Period size: 54 Copynumber: 2.2 Consensus size: 55
23236377 CCCTGTAGGG
* * * *
23236387 TAGAATTA-TCAAAATACCCTCGACCTGTAAAATTACCAAAATACCTCTGATTTG
1 TAGAATTACTCAAAATACCCTCAACCTGTAAAATTACCAAAATACCCCCGATTTA
* *
23236441 T-GAAATTACT-AAAATACCCTCAACTTGTAAAATTACCAAAGTACCCCCGATTTA
1 TAG-AATTACTCAAAATACCCTCAACCTGTAAAATTACCAAAATACCCCCGATTTA
23236495 TAGAATTAC
1 TAGAATTAC
23236504 CATTTTACCC
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
53 1 0.02
54 51 0.94
55 2 0.04
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (55 bp):
TAGAATTACTCAAAATACCCTCAACCTGTAAAATTACCAAAATACCCCCGATTTA
Found at i:23236512 original size:27 final size:27
Alignment explanation
Indices: 23236482--23237242 Score: 885
Period size: 27 Copynumber: 28.2 Consensus size: 27
23236472 ATTACCAAAG
* *
23236482 TACCCCCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * * **
23236509 TACCCTTGATATATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
23236536 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
**
23236563 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* * **
23236590 TACCCTTGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
23236617 TACCCTCGATTTACAAAATTATCATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
23236644 TACCCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * * *
23236671 TACCCTCGATTTAAAAAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
23236698 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
*
23236725 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
23236752 TACCTTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
23236779 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
23236806 TACACTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
23236833 TACCCTCGTTTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
23236860 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
23236887 TACCCTCAATTTACAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
23236914 TACCCTCGATTTACAAAATCACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
23236941 TATCCTCGATTTACAGAATTATCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* ***
23236968 TACCCTCGATTTATAGAATTACTGCTT
1 TACCCTCGATTTACAGAATTACCATTT
*
23236995 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
23237022 TACCCTCTATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
** * *
23237049 TACCCTTAATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
23237076 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
23237103 TACCCTCGAATTACA-AAATCCCTATTT
1 TACCCTCGATTTACAGAATTACC-ATTT
* * *
23237130 TATCCTCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* * * *
23237157 TACCCTCGATTTATAAAATTACTACTT
1 TACCCTCGATTTACAGAATTACCATTT
*
23237184 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
23237211 TACCCTTGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
23237238 TACCC
1 TACCC
23237243 CTAGGATGTT
Statistics
Matches: 627, Mismatches: 105, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
26 5 0.01
27 618 0.99
28 4 0.01
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:23237775 original size:6 final size:6
Alignment explanation
Indices: 23237744--23237837 Score: 68
Period size: 6 Copynumber: 15.3 Consensus size: 6
23237734 TTCCATTCAC
* *
23237744 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
23237793 -TCACCTC ATTCTG ATTCTG ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
23237838 AATGTTTCTT
Statistics
Matches: 68, Mismatches: 12, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
5 4 0.06
6 56 0.82
7 6 0.09
8 2 0.03
ACGTcount: A:0.18, C:0.19, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:23237782 original size:31 final size:31
Alignment explanation
Indices: 23237744--23237816 Score: 110
Period size: 31 Copynumber: 2.4 Consensus size: 31
23237734 TTCCATTCAC
* * *
23237744 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTCATACTG
*
23237775 ATTCTGATTCTGATTCTGTCACCTCATTCTG
1 ATTCTGATTCTGATTCTGTCACCTCATACTG
23237806 ATTCTGATTCT
1 ATTCTGATTCT
23237817 CATTTTGATT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.18, C:0.21, G:0.14, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTCATACTG
Found at i:23237834 original size:18 final size:18
Alignment explanation
Indices: 23237738--23237828 Score: 69
Period size: 19 Copynumber: 4.9 Consensus size: 18
23237728 TTGGGATTCC
* *
23237738 ATTCACATTCTGATTTTG
1 ATTCTCATTCTGATTCTG
* *
23237756 ATTCT-GTTACCTGATACTG
1 ATTCTCATT--CTGATTCTG
*
23237775 ATTCTGATTCTGATTCTG
1 ATTCTCATTCTGATTCTG
*
23237793 -TCACCTCATTCTGATTCTG
1 AT--TCTCATTCTGATTCTG
*
23237812 ATTCTCATTTTGATTCT
1 ATTCTCATTCTGATTCT
23237829 AGTTCTGATA
Statistics
Matches: 57, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
17 3 0.05
18 25 0.44
19 26 0.46
20 3 0.05
ACGTcount: A:0.19, C:0.21, G:0.12, T:0.48
Consensus pattern (18 bp):
ATTCTCATTCTGATTCTG
Found at i:23239128 original size:18 final size:18
Alignment explanation
Indices: 23239101--23239137 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
23239091 TTATAGGTCT
*
23239101 TAATTGTAACATAAATCC
1 TAATTATAACATAAATCC
23239119 TAATTATAACATAAATCC
1 TAATTATAACATAAATCC
23239137 T
1 T
23239138 TACACATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.16, G:0.03, T:0.35
Consensus pattern (18 bp):
TAATTATAACATAAATCC
Found at i:23240884 original size:13 final size:14
Alignment explanation
Indices: 23240863--23240896 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
23240853 AATCTTAAAT
23240863 CCCAAACT-CAAAC
1 CCCAAACTCCAAAC
*
23240876 CCTAAACTCCAAAC
1 CCCAAACTCCAAAC
23240890 CCCAAAC
1 CCCAAAC
23240897 CATAAACTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.44, C:0.47, G:0.00, T:0.09
Consensus pattern (14 bp):
CCCAAACTCCAAAC
Found at i:23240922 original size:13 final size:13
Alignment explanation
Indices: 23240838--23240930 Score: 55
Period size: 13 Copynumber: 6.9 Consensus size: 13
23240828 TTTTTATCCT
23240838 AAATCTTAAACCAC
1 AAATCTTAAACC-C
*
23240852 GAATCTTAAATCCC
1 AAATCTTAAA-CCC
*
23240866 AAA-CTCAAACCC
1 AAATCTTAAACCC
*
23240878 TAAA-CTCCAAACCCC
1 -AAATCT-TAAA-CCC
* * **
23240893 AAACCATAAACTT
1 AAATCTTAAACCC
23240906 AAATCTTAAACCC
1 AAATCTTAAACCC
*
23240919 AAATCCTAAACC
1 AAATCTTAAACC
23240931 TTGAACCCTG
Statistics
Matches: 62, Mismatches: 12, Indels: 11
0.73 0.14 0.13
Matches are distributed among these distances:
12 3 0.05
13 31 0.50
14 22 0.35
15 6 0.10
ACGTcount: A:0.46, C:0.33, G:0.01, T:0.19
Consensus pattern (13 bp):
AAATCTTAAACCC
Found at i:23240996 original size:14 final size:13
Alignment explanation
Indices: 23240977--23241026 Score: 55
Period size: 14 Copynumber: 3.7 Consensus size: 13
23240967 TTTGGGTTTG
23240977 AGGTTCAGGATTCA
1 AGGTTCAGG-TTCA
23240991 AGGTTCAAGGTTCA
1 AGGTTC-AGGTTCA
* *
23241005 AGGTTTAGGGTCA
1 AGGTTCAGGTTCA
*
23241018 TGGTTCAGG
1 AGGTTCAGG
23241027 ATAAAAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
13 13 0.42
14 15 0.48
15 3 0.10
ACGTcount: A:0.24, C:0.12, G:0.34, T:0.30
Consensus pattern (13 bp):
AGGTTCAGGTTCA
Found at i:23240997 original size:7 final size:7
Alignment explanation
Indices: 23240977--23241009 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
23240967 TTTGGGTTTG
23240977 AGGTTC-
1 AGGTTCA
23240983 AGGATTCA
1 AGG-TTCA
23240991 AGGTTCA
1 AGGTTCA
23240998 AGGTTCA
1 AGGTTCA
23241005 AGGTT
1 AGGTT
23241010 TAGGGTCATG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 3 0.12
7 19 0.76
8 3 0.12
ACGTcount: A:0.27, C:0.12, G:0.30, T:0.30
Consensus pattern (7 bp):
AGGTTCA
Found at i:23241250 original size:32 final size:32
Alignment explanation
Indices: 23241214--23241280 Score: 100
Period size: 32 Copynumber: 2.1 Consensus size: 32
23241204 AATAAGAGAT
* *
23241214 GAATAAT-AAATGAAGTAGTTCAAATTCTAGTA
1 GAATAATAAAATGAAGTAATT-AAATTCTACTA
23241246 GAATAATAAAATGAAGTAATTAAATTCTACTA
1 GAATAATAAAATGAAGTAATTAAATTCTACTA
23241278 GAA
1 GAA
23241281 ATCCTTTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
32 20 0.62
33 12 0.38
ACGTcount: A:0.51, C:0.06, G:0.13, T:0.30
Consensus pattern (32 bp):
GAATAATAAAATGAAGTAATTAAATTCTACTA
Found at i:23242731 original size:25 final size:25
Alignment explanation
Indices: 23242686--23242737 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
23242676 TCACTTTGAG
23242686 TTAATAAAATTCTTTTAAGTGTTTCT
1 TTAATAAAATTCTTTTAAGTG-TTCT
*
23242712 TTAAT-AATTTCTCTTT-AGTGTTCT
1 TTAATAAAATTCT-TTTAAGTGTTCT
23242736 TT
1 TT
23242738 TAGAAGAGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 6 0.25
25 10 0.42
26 8 0.33
ACGTcount: A:0.25, C:0.10, G:0.08, T:0.58
Consensus pattern (25 bp):
TTAATAAAATTCTTTTAAGTGTTCT
Found at i:23250548 original size:40 final size:39
Alignment explanation
Indices: 23250458--23250682 Score: 256
Period size: 40 Copynumber: 5.6 Consensus size: 39
23250448 TTGAATGATG
* * * *
23250458 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
23250498 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
23250538 TCTGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
23250577 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAA
*
23250617 TCCGGGTTAAGTCCTGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCC-GAAGGCATTTGTGCGAGTTACTA-AA
*
23250658 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
23250683 AACGAGGAGC
Statistics
Matches: 160, Mismatches: 19, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
39 35 0.22
40 113 0.71
41 12 0.08
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:23250700 original size:80 final size:79
Alignment explanation
Indices: 23250552--23250705 Score: 204
Period size: 80 Copynumber: 1.9 Consensus size: 79
23250542 GGCTAAGCCC
* ** *
23250552 GAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 GAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAA
23250617 TCCGGGTTAAGTCCT
66 TCC-GGTTAAGTCCT
* *
23250632 GAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTA
1 GAAGGCATTGGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTA
*
23250695 TATCCGGTTAA
64 AATCCGGTTAA
23250706 ATTCCGAAGG
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
79 7 0.11
80 56 0.86
81 2 0.03
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.27
Consensus pattern (79 bp):
GAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAA
TCCGGTTAAGTCCT
Found at i:23250704 original size:119 final size:119
Alignment explanation
Indices: 23250458--23250715 Score: 274
Period size: 119 Copynumber: 2.2 Consensus size: 119
23250448 TTGAATGATG
* *
23250458 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* * ** *
23250523 GTGCGAGATACTAATTCTGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
* * * **
23250577 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCTGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGATCC-GAAGGCAT
* * * *
23250640 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTGA-CTAAA
* *
23250697 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
23250716 TACGTGATTT
Statistics
Matches: 116, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 5 0.04
119 80 0.69
120 31 0.27
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
Found at i:23286657 original size:39 final size:40
Alignment explanation
Indices: 23286562--23286701 Score: 159
Period size: 39 Copynumber: 3.6 Consensus size: 40
23286552 TATTCGAATG
* * *
23286562 ATATCCGGGTTAAGTCCCGAAGGCATTTGTGCTAGTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTATTGACT
*
23286601 -TAT-CGGGCTAAGTCCCGAAGGC-TTTGTGCTATTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTATTGACT
* *
23286638 ATATCCGGGCTAAGACCCGAAGGCATCTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-TTGACT
23286678 ATATCC-GGCTAA-ATCCCGAAGGCA
1 ATATCCGGGCTAAGA-CCCGAAGGCA
23286702 CTTGGGTTTG
Statistics
Matches: 90, Mismatches: 5, Indels: 12
0.84 0.05 0.11
Matches are distributed among these distances:
36 12 0.13
37 19 0.21
38 7 0.08
39 34 0.38
40 15 0.17
41 3 0.03
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTATTGACT
Found at i:23295000 original size:40 final size:40
Alignment explanation
Indices: 23294945--23295088 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
23294935 TATTCGAATG
* * *
23294945 ATATCCGGGTTAAGTCCCGAGGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
23294985 ATATCTGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
23295025 ATATCCGGGCTAAGACCCGAAGGCATCTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
23295065 ATATCC-GGCTAAATCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCA
23295089 CTTGAGTTTG
Statistics
Matches: 89, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
39 16 0.18
40 71 0.80
41 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:23298327 original size:16 final size:16
Alignment explanation
Indices: 23298306--23298337 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
23298296 TTCCAAATAC
23298306 TAACATCACCGCATTA
1 TAACATCACCGCATTA
23298322 TAACATCACCGCATTA
1 TAACATCACCGCATTA
23298338 CCATAAACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.31, G:0.06, T:0.25
Consensus pattern (16 bp):
TAACATCACCGCATTA
Found at i:23302392 original size:93 final size:96
Alignment explanation
Indices: 23302152--23302414 Score: 261
Period size: 93 Copynumber: 2.8 Consensus size: 96
23302142 ATGCCGAAGT
* * * *
23302152 CATGTCCCAGACATCGTCTTACATTAACTTTCATATATCGAGGCCGATGTCATGTCCCAGACAGG
1 CATGTCCCAGACAT-GTCTTACACTAACTCTCATACAT-GATGCCGATG-CATGTCCCAGACAGG
* **
23302217 TCTTACACTAGCTCTCATCTATCGGTGCCGATGC
63 TCTTACACTAGCTCTCATATATCGACGCCGATGC
* * * * * * *
23302251 CATGTCCCAGACAGGTCTTACACTAACACACA-ACAAGCTGAC-A-CCATGTCCCAGACAGGTCT
1 CATGTCCCAGACATGTCTTACACTAACTCTCATACATGATGCCGATGCATGTCCCAGACAGGTCT
* *
23302313 TACACTAGCT-TGTATATCTCGACGCCGATG-
66 TACACTAGCTCT-CATATATCGACGCCGATGC
* * *
23302343 CATGTCGCAGACATGTCTTACACTAGCTCTCATA-ATG-TGCCGATGCATGTCCCAGACATGTCT
1 CATGTCCCAGACATGTCTTACACTAACTCTCATACATGATGCCGATGCATGTCCCAGACAGGTCT
*
23302406 TACATTAGC
66 TACACTAGC
23302415 ACACATATCA
Statistics
Matches: 134, Mismatches: 26, Indels: 14
0.77 0.15 0.08
Matches are distributed among these distances:
91 3 0.02
92 31 0.23
93 67 0.50
95 1 0.01
96 3 0.02
97 2 0.01
98 14 0.10
99 13 0.10
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.27
Consensus pattern (96 bp):
CATGTCCCAGACATGTCTTACACTAACTCTCATACATGATGCCGATGCATGTCCCAGACAGGTCT
TACACTAGCTCTCATATATCGACGCCGATGC
Found at i:23302400 original size:45 final size:49
Alignment explanation
Indices: 23302141--23302414 Score: 237
Period size: 49 Copynumber: 5.8 Consensus size: 49
23302131 CCTAGAATAA
* * * * *
23302141 GATGCCGAAGTCATGTCCCAGACATCGTCTTACATTAACTTTCATATATC
1 GATGCCGATGTCATGTCCCAGACA-GGTCTTACACTAGCTCTCATATATC
* *
23302191 GAGGCCGATGTCATGTCCCAGACAGGTCTTACACTAGCTCTCATCTATC
1 GATGCCGATGTCATGTCCCAGACAGGTCTTACACTAGCTCTCATATATC
* * * * *
23302240 GGTGCCGATGCCATGTCCCAGACAGGTCTTACACTA--ACACACA-A-C
1 GATGCCGATGTCATGTCCCAGACAGGTCTTACACTAGCTCTCATATATC
* * *** * *
23302285 -AAGCTGACACCATGTCCCAGACAGGTCTTACACTAGCT-TGTATATCTC
1 GATGCCGATGTCATGTCCCAGACAGGTCTTACACTAGCTCT-CATATATC
* * *
23302333 GACGCCGATG-CATGTCGCAGACATGTCTTACACTAGCTCTCATA-AT-
1 GATGCCGATGTCATGTCCCAGACAGGTCTTACACTAGCTCTCATATATC
* *
23302379 G-TGCCGATG-CATGTCCCAGACATGTCTTACATTAGC
1 GATGCCGATGTCATGTCCCAGACAGGTCTTACACTAGC
23302415 ACACATATCA
Statistics
Matches: 182, Mismatches: 35, Indels: 19
0.77 0.15 0.08
Matches are distributed among these distances:
44 30 0.16
45 33 0.18
46 4 0.02
47 4 0.02
48 30 0.16
49 59 0.32
50 22 0.12
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (49 bp):
GATGCCGATGTCATGTCCCAGACAGGTCTTACACTAGCTCTCATATATC
Found at i:23310882 original size:24 final size:22
Alignment explanation
Indices: 23310825--23310890 Score: 60
Period size: 23 Copynumber: 2.8 Consensus size: 22
23310815 CGAGCTGTAA
* *
23310825 ATCGGTATGCTTTCACGAGCTAT
1 ATCGGTATGC-TCCACGAGCTAG
* *
23310848 ATTGGTATGCTACCACGAGCTGCG
1 ATCGGTATGCT-CCACGAGCT-AG
23310872 ATCGGTATGCTCTCACGAG
1 ATCGGTATGCTC-CACGAG
23310891 TTATGGGTCA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
22 1 0.03
23 18 0.51
24 16 0.46
ACGTcount: A:0.21, C:0.24, G:0.26, T:0.29
Consensus pattern (22 bp):
ATCGGTATGCTCCACGAGCTAG
Found at i:23311659 original size:17 final size:18
Alignment explanation
Indices: 23311627--23311662 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
23311617 TTTTAATTAG
23311627 ATTATGAGATAAAATATT
1 ATTATGAGATAAAATATT
*
23311645 ATTATTAGA-AAAATATT
1 ATTATGAGATAAAATATT
23311662 A
1 A
23311663 CTGCATCTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (18 bp):
ATTATGAGATAAAATATT
Found at i:23314200 original size:60 final size:59
Alignment explanation
Indices: 23314124--23314260 Score: 145
Period size: 60 Copynumber: 2.3 Consensus size: 59
23314114 AACTATGTTA
* * *
23314124 ATATGGGCAAGGCCCAATATA-TCTCGACT-TGTAATAGGGCTACGGCCCAGATTGATACT-G
1 ATATGGGCTAGACCCAATATACTCT-GA-TATGTAA-AGGGCTACGGCCCAGATTAATA-TGG
* *
23314184 ATATGGGCTAGACCCAATATACTCTGATACTGTAAGGGGCTATGGCCCAGATTAATATGG
1 ATATGGGCTAGACCCAATATACTCTGATA-TGTAAAGGGCTACGGCCCAGATTAATATGG
*
23314244 ATATAGGCTAAGACCCA
1 ATATGGGCT-AGACCCA
23314261 GTTAACACTG
Statistics
Matches: 66, Mismatches: 6, Indels: 9
0.81 0.07 0.11
Matches are distributed among these distances:
59 2 0.03
60 49 0.74
61 15 0.23
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (59 bp):
ATATGGGCTAGACCCAATATACTCTGATATGTAAAGGGCTACGGCCCAGATTAATATGG
Found at i:23322740 original size:10 final size:11
Alignment explanation
Indices: 23322727--23322759 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
23322717 TCTATTTATT
23322727 CACATTTTACCA
1 CACATTTTA-CA
23322739 CACATTTTACA
1 CACATTTTACA
23322750 -ACATTTTACA
1 CACATTTTACA
23322760 AATAAGTCCC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.48
11 2 0.10
12 9 0.43
ACGTcount: A:0.36, C:0.27, G:0.00, T:0.36
Consensus pattern (11 bp):
CACATTTTACA
Found at i:23322744 original size:12 final size:12
Alignment explanation
Indices: 23322727--23322758 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
23322717 TCTATTTATT
23322727 CACATTTTACCA
1 CACATTTTACCA
23322739 CACATTTTA-CA
1 CACATTTTACCA
23322750 -ACATTTTAC
1 CACATTTTAC
23322759 AAATAAGTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 8 0.42
11 2 0.11
12 9 0.47
ACGTcount: A:0.34, C:0.28, G:0.00, T:0.38
Consensus pattern (12 bp):
CACATTTTACCA
Found at i:23327117 original size:13 final size:13
Alignment explanation
Indices: 23327099--23327123 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23327089 CACTGGGATG
23327099 TCGTCTACCACAT
1 TCGTCTACCACAT
23327112 TCGTCTACCACA
1 TCGTCTACCACA
23327124 GTGTTGACAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.40, G:0.08, T:0.28
Consensus pattern (13 bp):
TCGTCTACCACAT
Found at i:23341790 original size:15 final size:15
Alignment explanation
Indices: 23341770--23341799 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
23341760 GTTAAAATTG
23341770 ATCTAGCACTAGCCT
1 ATCTAGCACTAGCCT
23341785 ATCTAGCACTAGCCT
1 ATCTAGCACTAGCCT
23341800 CCCTTAGGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.33, G:0.13, T:0.27
Consensus pattern (15 bp):
ATCTAGCACTAGCCT
Found at i:23344755 original size:9 final size:9
Alignment explanation
Indices: 23344703--23344784 Score: 65
Period size: 9 Copynumber: 8.7 Consensus size: 9
23344693 CTAAAACTAT
23344703 TAATTTCTAA
1 TAATTT-TAA
*
23344713 TAATTTTTA
1 TAATTTTAA
23344722 TAAATTTTAA
1 T-AATTTTAA
*
23344732 TAATTTTTA
1 TAATTTTAA
23344741 TAATTTTAA
1 TAATTTTAA
* **
23344750 TGATTTCTTTG
1 T-AATT-TTAA
*
23344761 TAATTTTTA
1 TAATTTTAA
*
23344770 TAATTTTTA
1 TAATTTTAA
23344779 TAATTT
1 TAATTT
23344785 CATAATGAAT
Statistics
Matches: 60, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
9 37 0.62
10 20 0.33
11 3 0.05
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (9 bp):
TAATTTTAA
Found at i:23345667 original size:3 final size:3
Alignment explanation
Indices: 23345659--23345683 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
23345649 ATTTGATATG
23345659 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
23345684 GGATTAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:23346208 original size:35 final size:37
Alignment explanation
Indices: 23346157--23346229 Score: 105
Period size: 35 Copynumber: 2.0 Consensus size: 37
23346147 CACGTTAGCG
*
23346157 AATAAATATAAATATAAATAATTATATATATAAATAA
1 AATAAATATAAATATAAATAAATATATATATAAATAA
* *
23346194 AATAAAT-T-AATATAAGTAAATATTTATATAAATAA
1 AATAAATATAAATATAAATAAATATATATATAAATAA
23346229 A
1 A
23346230 TATTTATATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 25 0.76
36 1 0.03
37 7 0.21
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (37 bp):
AATAAATATAAATATAAATAAATATATATATAAATAA
Found at i:23346232 original size:10 final size:10
Alignment explanation
Indices: 23346157--23346216 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
23346147 CACGTTAGCG
23346157 AATAAATATA
1 AATAAATATA
23346167 AATATAA-ATA
1 AATA-AATATA
*
23346177 ATTATATATATA
1 A--ATAAATATA
23346189 AATAAA-ATA
1 AATAAATATA
*
23346198 AATTAATATA
1 AATAAATATA
*
23346208 AGTAAATAT
1 AATAAATAT
23346217 TTATATAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
9 8 0.20
10 22 0.55
11 3 0.08
12 7 0.17
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (10 bp):
AATAAATATA
Found at i:23346233 original size:16 final size:16
Alignment explanation
Indices: 23346157--23346238 Score: 83
Period size: 16 Copynumber: 4.9 Consensus size: 16
23346147 CACGTTAGCG
**
23346157 AATAAATATAAATATA
1 AATAAATATTTATATA
* *
23346173 AATAATTATATATATA
1 AATAAATATTTATATA
*
23346189 AATAAAATAAATTAATATA
1 AAT-AAAT--ATTTATATA
*
23346208 AGTAAATATTTATATA
1 AATAAATATTTATATA
23346224 AATAAATATTTATAT
1 AATAAATATTTATAT
23346239 TTATGTAAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
16 39 0.71
17 3 0.05
18 4 0.07
19 9 0.16
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (16 bp):
AATAAATATTTATATA
Found at i:23354004 original size:24 final size:24
Alignment explanation
Indices: 23353972--23354133 Score: 150
Period size: 24 Copynumber: 6.7 Consensus size: 24
23353962 CTTACCAATA
* *
23353972 TATCAGCTCATAAGAGTTTACTAT
1 TATCAGCTCGTAAGAGCTTACTAT
*
23353996 TATCGGCTCGTAAGAGCTTACTAT
1 TATCAGCTCGTAAGAGCTTACTAT
*
23354020 TATTAGCTCGTAAGAGCTTACTAT
1 TATCAGCTCGTAAGAGCTTACTAT
* * *
23354044 TTTCAGCTCGTCAGAGCTTACCAT
1 TATCAGCTCGTAAGAGCTTACTAT
* *
23354068 T-TCAGCTC-AATAGAGCTTACTGT
1 TATCAGCTCGTA-AGAGCTTACTAT
* *
23354091 CTATCAGCTCAGGAGGAGCTTACTGAT
1 -TATCAGCTC-GTAAGAGCTTACT-AT
* *
23354118 CAT-AGCTCGAAAGAGC
1 TATCAGCTCGTAAGAGC
23354134 AGAAATGATA
Statistics
Matches: 113, Mismatches: 19, Indels: 12
0.78 0.13 0.08
Matches are distributed among these distances:
23 17 0.15
24 71 0.63
25 12 0.11
26 11 0.10
27 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (24 bp):
TATCAGCTCGTAAGAGCTTACTAT
Found at i:23354082 original size:23 final size:24
Alignment explanation
Indices: 23353959--23354087 Score: 84
Period size: 24 Copynumber: 5.3 Consensus size: 24
23353949 TAGCTTGCAT
* *
23353959 GAGCTTACCAATATATCAGCTCATAA
1 GAGCTTACC-AT-TTTCAGCTCATCA
* * * * * *
23353985 GAGTTTACTATTATCGGCTCGTAA
1 GAGCTTACCATTTTCAGCTCATCA
* * *
23354009 GAGCTTACTATTATT-AGCTCGTAA
1 GAGCTTACCATT-TTCAGCTCATCA
* *
23354033 GAGCTTACTATTTTCAGCTCGTCA
1 GAGCTTACCATTTTCAGCTCATCA
23354057 GAGCTTACCA-TTTCAGCTCAAT-A
1 GAGCTTACCATTTTCAGCTC-ATCA
23354080 GAGCTTAC
1 GAGCTTAC
23354088 TGTCTATCAG
Statistics
Matches: 90, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
23 20 0.22
24 60 0.67
25 3 0.03
26 7 0.08
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (24 bp):
GAGCTTACCATTTTCAGCTCATCA
Found at i:23358834 original size:82 final size:81
Alignment explanation
Indices: 23358619--23358874 Score: 246
Period size: 83 Copynumber: 3.1 Consensus size: 81
23358609 GAAGCAAACT
* * * * *
23358619 CAAAATCAAAATTGAATAAAATATGTCTAATGATGGGAATAAATCCCGAAACAGAATTATTTAAT
1 CAAAATCAAAATCGAATAAAAT-TTTTTAATGACGGGAATAAATCCCGAAACAGAATTATTCAAT
* ** *
23358684 TAAATCTTTTTTTAGAAA
65 TAATTC-TCGTTTGGAAA
* * * * * * * * * *
23358702 CAAAATCACAATCAAATAAAATCTGTTGAACGGCAGTAATGAATCCCGAAACAGAATTAATCAAT
1 CAAAATCAAAATCGAATAAAAT-TTTTTAATGACGGGAATAAATCCCGAAACAGAATTATTCAAT
*
23358767 TAATTCACGTTTGGAAA
65 TAATTCTCGTTTGGAAA
**
23358784 CAAAATCAAAATCGAATAAAATTTTTTAAATGACGGGAATAAATTTCGAAACA-AATTATTCAAT
1 CAAAATCAAAATCGAATAAAATTTTTT-AATGACGGGAATAAATCCCGAAACAGAATTATTCAAT
*
23358848 TAATTCTCGTTTGGGAA
65 TAATTCTCGTTTGGAAA
*
23358865 -GAAATCAAAA
1 CAAAATCAAAA
23358875 AAGGAATAAA
Statistics
Matches: 138, Mismatches: 34, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
80 9 0.07
81 28 0.20
82 45 0.33
83 56 0.41
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.29
Consensus pattern (81 bp):
CAAAATCAAAATCGAATAAAATTTTTTAATGACGGGAATAAATCCCGAAACAGAATTATTCAATT
AATTCTCGTTTGGAAA
Found at i:23358902 original size:81 final size:82
Alignment explanation
Indices: 23358653--23358907 Score: 244
Period size: 81 Copynumber: 3.1 Consensus size: 82
23358643 GTCTAATGAT
* * * *** * * * *
23358653 GGGAATAAATCCCGAAACAGAATTATTTAATTAAATCTTTTTTTAGAAACAAAATCACAATCAAA
1 GGGAATAAATCCCGAAACAGAATTAATCAATTAATTC-ACGTTTGGAAACAAAATCAAAAACGAA
23358718 TAAAATCTGTTGAACGGC
65 TAAAATCTGTTGAACGGC
* * * *
23358736 AGTAATGAATCCCGAAACAGAATTAATCAATTAATTCACGTTTGGAAACAAAATCAAAATCGAAT
1 GGGAATAAATCCCGAAACAGAATTAATCAATTAATTCACGTTTGGAAACAAAATCAAAAACGAAT
* * * * *
23358801 AAAATTTTTTAAATGAC
66 AAAATCTGTTGAACGGC
** * * * * *
23358818 GGGAATAAATTTCGAAACA-AATTATTCAATTAATTCTCGTTTGGGAA-GAAATCAAAAAAGGAA
1 GGGAATAAATCCCGAAACAGAATTAATCAATTAATTCACGTTTGGAAACAAAATC-AAAAACGAA
23358881 TAAAATCTGTTGAACGGC
65 TAAAATCTGTTGAACGGC
23358899 GGGAATAAA
1 GGGAATAAA
23358908 CCCTAAAACA
Statistics
Matches: 138, Mismatches: 33, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
80 5 0.04
81 54 0.39
82 48 0.35
83 31 0.22
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.27
Consensus pattern (82 bp):
GGGAATAAATCCCGAAACAGAATTAATCAATTAATTCACGTTTGGAAACAAAATCAAAAACGAAT
AAAATCTGTTGAACGGC
Found at i:23359082 original size:16 final size:16
Alignment explanation
Indices: 23359058--23359088 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23359048 AGCAAACAAA
23359058 TATAAATATAAATAAT
1 TATAAATATAAATAAT
*
23359074 TATATATATAAATAA
1 TATAAATATAAATAA
23359089 AACAAATTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
TATAAATATAAATAAT
Found at i:23359096 original size:22 final size:21
Alignment explanation
Indices: 23359057--23359102 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
23359047 TAGCAAACAA
*
23359057 ATATAAATATAAATAATTATAT
1 ATATAAATATAAAAAATTA-AT
23359079 ATATAAATA-AAACAAATTAAT
1 ATATAAATATAAA-AAATTAAT
23359100 ATA
1 ATA
23359103 AGCAAATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (21 bp):
ATATAAATATAAAAAATTAAT
Found at i:23359117 original size:35 final size:36
Alignment explanation
Indices: 23359051--23359124 Score: 89
Period size: 35 Copynumber: 2.1 Consensus size: 36
23359041 TCATGTTAGC
* *
23359051 AAACAAATATAAATATAAATAATTATATATATAAATA
1 AAACAAATATAAATATAAACAAATATATATATAAA-A
* *
23359088 AAACAAAT-T-AATATAAGCAAATATTTATATAAAA
1 AAACAAATATAAATATAAACAAATATATATATAAAA
23359122 AAA
1 AAA
23359125 TATTTATGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
34 4 0.12
35 20 0.61
36 1 0.03
37 8 0.24
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.30
Consensus pattern (36 bp):
AAACAAATATAAATATAAACAAATATATATATAAAA
Found at i:23366298 original size:21 final size:21
Alignment explanation
Indices: 23366251--23366298 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
23366241 TATTAACTTT
*
23366251 AAAAGTCAAGTTACAAAGGAAC
1 AAAA-TCAAGTTACAAAGAAAC
* *
23366273 TAAATCAAGTTACAAATAAAC
1 AAAATCAAGTTACAAAGAAAC
23366294 AAAAT
1 AAAAT
23366299 AAACAAAATG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 19 0.86
22 3 0.14
ACGTcount: A:0.58, C:0.12, G:0.10, T:0.19
Consensus pattern (21 bp):
AAAATCAAGTTACAAAGAAAC
Found at i:23366924 original size:41 final size:40
Alignment explanation
Indices: 23366862--23366943 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 40
23366852 TGGGACAAAG
23366862 AAAGCGTTAAATATCAATATAAACCTTAAAGTAAAATTAAA
1 AAAGCGTTAAATATCAATATAAACCTTAAA-TAAAATTAAA
*
23366903 AAAGGGTTAAATATCAATATAAACCTTAAATAAAATTAAA
1 AAAGCGTTAAATATCAATATAAACCTTAAATAAAATTAAA
23366943 A
1 A
23366944 TACTAAAATA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
40 11 0.28
41 29 0.73
ACGTcount: A:0.57, C:0.09, G:0.07, T:0.27
Consensus pattern (40 bp):
AAAGCGTTAAATATCAATATAAACCTTAAATAAAATTAAA
Found at i:23366933 original size:19 final size:19
Alignment explanation
Indices: 23366868--23366934 Score: 55
Period size: 19 Copynumber: 3.4 Consensus size: 19
23366858 AAAGAAAGCG
23366868 TTAAATATCAATATAAACC
1 TTAAATATCAATATAAACC
* * **
23366887 TTAAAGTA-AAATTAAAAAAGGG
1 TTAAA-TATCAA-T-ATAAA-CC
23366909 TTAAATATCAATATAAACC
1 TTAAATATCAATATAAACC
23366928 TTAAATA
1 TTAAATA
23366935 AAATTAAAAT
Statistics
Matches: 35, Mismatches: 8, Indels: 10
0.66 0.15 0.19
Matches are distributed among these distances:
19 14 0.40
20 7 0.20
21 7 0.20
22 7 0.20
ACGTcount: A:0.55, C:0.09, G:0.06, T:0.30
Consensus pattern (19 bp):
TTAAATATCAATATAAACC
Found at i:23372187 original size:18 final size:19
Alignment explanation
Indices: 23372158--23372209 Score: 72
Period size: 18 Copynumber: 2.8 Consensus size: 19
23372148 TTCGCTCAAA
23372158 TCTAACTCTCTCAATTCTT
1 TCTAACTCTCTCAATTCTT
*
23372177 TCTAA-TCTCTCAACTCTT
1 TCTAACTCTCTCAATTCTT
*
23372195 T-TAATTCTCTCAATT
1 TCTAACTCTCTCAATT
23372210 TCCTCAAGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
17 3 0.10
18 22 0.73
19 5 0.17
ACGTcount: A:0.23, C:0.29, G:0.00, T:0.48
Consensus pattern (19 bp):
TCTAACTCTCTCAATTCTT
Found at i:23372390 original size:32 final size:32
Alignment explanation
Indices: 23372337--23372415 Score: 92
Period size: 32 Copynumber: 2.5 Consensus size: 32
23372327 TGGTAAGATG
** *
23372337 AAATTTGAAATTTCGTT-ATTTTAAATTAAGTT
1 AAATTT-AAATTTTTTTAATTTTAAAATAAGTT
*
23372369 AAATTTAAATTTTTTTAATTTTAAAATATGTT
1 AAATTTAAATTTTTTTAATTTTAAAATAAGTT
23372401 AAA-TT-AATTTTTTTA
1 AAATTTAAATTTTTTTA
23372416 TCGATTTAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
30 10 0.24
31 10 0.24
32 22 0.52
ACGTcount: A:0.39, C:0.01, G:0.05, T:0.54
Consensus pattern (32 bp):
AAATTTAAATTTTTTTAATTTTAAAATAAGTT
Found at i:23384376 original size:51 final size:51
Alignment explanation
Indices: 23384310--23384492 Score: 280
Period size: 51 Copynumber: 3.6 Consensus size: 51
23384300 TGAACCTTAA
* *
23384310 GAATAAAATAACTTTGAACACAAGTGTGGTACTACGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTACGTGAAGGCCACTTTGT
* *
23384361 GAATATAATAGCTTTGGACACAAGTGTGGTACTATC-TGAAGGCCTCTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTA-CGTGAAGGCCACTTTGT
*
23384412 GAATAAAATAGCTTTGGACACAAGTGTGGTACTAGGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTACGTGAAGGCCACTTTGT
*
23384463 GAATAAAATAGCTTTGG-CTACAAGGGTGGT
1 GAATAAAATAGCTTTGGAC-ACAAGTGTGGT
23384493 GAACGCCACC
Statistics
Matches: 121, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
50 1 0.01
51 119 0.98
52 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTACGTGAAGGCCACTTTGT
Found at i:23390213 original size:28 final size:28
Alignment explanation
Indices: 23390181--23390264 Score: 74
Period size: 28 Copynumber: 3.2 Consensus size: 28
23390171 AACTTCGATC
23390181 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * * *
23390209 ACGTGTATCAG-A-T-GGT-TAAG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
23390231 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
23390259 ACGTGT
1 ACGTGT
23390265 ACCAAATAGA
Statistics
Matches: 40, Mismatches: 8, Indels: 16
0.62 0.12 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.20
23 2 0.05
24 3 0.08
25 4 0.10
26 3 0.08
27 2 0.05
28 14 0.35
29 2 0.05
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:23390996 original size:402 final size:402
Alignment explanation
Indices: 23390131--23391013 Score: 1408
Period size: 402 Copynumber: 2.2 Consensus size: 402
23390121 TCATGGGTCG
* * * *
23390131 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCT-ATTAACTTCGATCACGTGTGTAGTACT
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCTGATTAA--TAGGTCACGTGTGTAGTACT
* *
23390195 AAGTGCAGGCTACTACGTGTATCAGATGGTTAAGTCACGTGTGTAGTACTAAGTGCAGGCTACTA
64 AAGTGCAGGATACTAAGTGTATCAGATGGTTAAGTCACGTGTGTAGTACTAAGTGCAGGCTACTA
23390260 CGTGTACCAAATAGATAGGTCGCATGTGTAGTACTAAGTACAGGCTACTATGCGTAACCGTTAAC
129 CGTGTACCAAATAGATAGGTCGCATGTGTAGTACTAAGTACAGGCTACTATGCGTAACCGTTAAC
*
23390325 TTCAATCACGTGTGTAGTACTAAGTGTAGGCTACTACATGTATCAGATGGTTAAGTCACGTATGT
194 TTCAATCACGTGTGTAGTACTAAGTGTAGGCTACTACATGTATCAAATGGTTAAGTCACGTATGT
*
23390390 AGTACTATGTGTAGGATACTAAGTGTATCAGGTGGTTAAGTCACGTGTGTAGTATTAAGTGCAGG
259 AGTACTATGTGTAGGATACTAAGTGTATCAGATGGTTAAGTCACGTGTGTAGTATTAAGTGCAGG
* *
23390455 CTACTACGTATACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTGCCC
324 CTACTACGTATACCAGATTGATAGGTCGCATATGTAGTACTAAGTGCAGGCTACTATGCGTGCCC
23390520 GTTAACTTTGATCA
389 GTTAACTTTGATCA
* * * * * *** * * *
23390534 CGTGTGTAGTGCTAAGTGTAGGCTACTACGTGTATCAGATGGTTAAGTCACGTATGTAGTACTAT
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCTGATTAATAGGTCACGTGTGTAGTACTAA
* *
23390599 GTGTAGGATACTAAGTGTATCAGATGGTTAAGTCACGTGTGTAGTATTAAGTGCAGGCTACTACG
66 GTGCAGGATACTAAGTGTATCAGATGGTTAAGTCACGTGTGTAGTACTAAGTGCAGGCTACTACG
* * * **
23390664 TGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTGCCCGTTAACTT
131 TGTACCAAATAGATAGGTCGCATGTGTAGTACTAAGTACAGGCTACTATGCGTAACCGTTAACTT
** *
23390729 TGATCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAAATGGTTAAGTCACGTATGTAG
196 CAATCACGTGTGTAGTACTAAGTGTAGGCTACTACATGTATCAAATGGTTAAGTCACGTATGTAG
23390794 TACTATGTGTAGGATACTAAGTGTATCAGATGGTTAAGTCACGTGTGTAGTATTAAGTGCAGGCT
261 TACTATGTGTAGGATACTAAGTGTATCAGATGGTTAAGTCACGTGTGTAGTATTAAGTGCAGGCT
* *
23390859 ACTACGTGTACCATATTGATAGGTCGCATATGTAGTACTAAGTGCAGGCTACTATGCGTGCCCGT
326 ACTACGTATACCAGATTGATAGGTCGCATATGTAGTACTAAGTGCAGGCTACTATGCGTGCCCGT
23390924 TAACTTTGATCA
391 TAACTTTGATCA
* *
23390936 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCTGATTAATAGGTCGCATGTGTAGTACTAA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCTGATTAATAGGTCACGTGTGTAGTACTAA
* *
23391001 GTGCTGGCTACTA
66 GTGCAGGATACTA
23391014 TGCATACCAG
Statistics
Matches: 430, Mismatches: 49, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
402 398 0.93
403 30 0.07
404 2 0.00
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (402 bp):
CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCTGATTAATAGGTCACGTGTGTAGTACTAA
GTGCAGGATACTAAGTGTATCAGATGGTTAAGTCACGTGTGTAGTACTAAGTGCAGGCTACTACG
TGTACCAAATAGATAGGTCGCATGTGTAGTACTAAGTACAGGCTACTATGCGTAACCGTTAACTT
CAATCACGTGTGTAGTACTAAGTGTAGGCTACTACATGTATCAAATGGTTAAGTCACGTATGTAG
TACTATGTGTAGGATACTAAGTGTATCAGATGGTTAAGTCACGTGTGTAGTATTAAGTGCAGGCT
ACTACGTATACCAGATTGATAGGTCGCATATGTAGTACTAAGTGCAGGCTACTATGCGTGCCCGT
TAACTTTGATCA
Found at i:23390999 original size:201 final size:201
Alignment explanation
Indices: 23390179--23390969 Score: 1375
Period size: 201 Copynumber: 3.9 Consensus size: 201
23390169 TTAACTTCGA
* * * * * *
23390179 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAAGTCACGTGTGTAGTAC
1 TCACGTATGTAGTACTATGTGTAGGATACTAAGTGTATCAGATGGTTAAGTCACGTGTGTAGTAT
* * *
23390244 TAAGTGCAGGCTACTACGTGTACCAAATAGATAGGTCGCATGTGTAGTACTAAGTACAGGCTACT
66 TAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACT
** ** *
23390309 ATGCGTAACCGTTAACTTCAATCACGTGTGTAGTACTAAGTGTAGGCTACTACATGTATCAGATG
131 ATGCGTGCCCGTTAACTTTGATCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATG
23390374 GTTAAG
196 GTTAAG
*
23390380 TCACGTATGTAGTACTATGTGTAGGATACTAAGTGTATCAGGTGGTTAAGTCACGTGTGTAGTAT
1 TCACGTATGTAGTACTATGTGTAGGATACTAAGTGTATCAGATGGTTAAGTCACGTGTGTAGTAT
* *
23390445 TAAGTGCAGGCTACTACGTATACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGTAGGCTACT
66 TAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACT
*
23390510 ATGCGTGCCCGTTAACTTTGATCACGTGTGTAGTGCTAAGTGTAGGCTACTACGTGTATCAGATG
131 ATGCGTGCCCGTTAACTTTGATCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATG
23390575 GTTAAG
196 GTTAAG
23390581 TCACGTATGTAGTACTATGTGTAGGATACTAAGTGTATCAGATGGTTAAGTCACGTGTGTAGTAT
1 TCACGTATGTAGTACTATGTGTAGGATACTAAGTGTATCAGATGGTTAAGTCACGTGTGTAGTAT
23390646 TAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACT
66 TAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACT
*
23390711 ATGCGTGCCCGTTAACTTTGATCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAAATG
131 ATGCGTGCCCGTTAACTTTGATCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATG
23390776 GTTAAG
196 GTTAAG
23390782 TCACGTATGTAGTACTATGTGTAGGATACTAAGTGTATCAGATGGTTAAGTCACGTGTGTAGTAT
1 TCACGTATGTAGTACTATGTGTAGGATACTAAGTGTATCAGATGGTTAAGTCACGTGTGTAGTAT
* *
23390847 TAAGTGCAGGCTACTACGTGTACCATATTGATAGGTCGCATATGTAGTACTAAGTGCAGGCTACT
66 TAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACT
* *
23390912 ATGCGTGCCCGTTAACTTTGATCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA
131 ATGCGTGCCCGTTAACTTTGATCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTA
23390970 CCTGATTAAT
Statistics
Matches: 563, Mismatches: 27, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
201 563 1.00
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (201 bp):
TCACGTATGTAGTACTATGTGTAGGATACTAAGTGTATCAGATGGTTAAGTCACGTGTGTAGTAT
TAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACT
ATGCGTGCCCGTTAACTTTGATCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATG
GTTAAG
Found at i:23391022 original size:151 final size:151
Alignment explanation
Indices: 23390082--23391013 Score: 756
Period size: 151 Copynumber: 6.2 Consensus size: 151
23390072 TATTAACATT
* * * *
23390082 GTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTCATGGGTCGCATGTGTAGTACTAAG
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGTACTAAG
**
23390147 TGCAGGCTACTATGCGTACCTA-TTAACTTCGATCACGTGTGTAGTACTAAGTGCAGGCTACTAC
66 TGCAGGCTACTATGCGTACC-AGTTAACTTTAATCACGTGTGTAGTACTAAGTGCAGGCTACTAC
* *
23390211 GTGTATCAGATGGTTAAGTCAC
130 GTGTACCAGATGGATAAGTCAC
* * *
23390233 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAGATAGGTCGCATGTGTAGTACTAAG
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGTACTAAG
* * *
23390298 TACAGGCTACTATGCGTAACC-GTTAACTTCAATCACGTGTGTAGTACTAAGTGTAGGCTACTAC
66 TGCAGGCTACTATGCGT-ACCAGTTAACTTTAATCACGTGTGTAGTACTAAGTGCAGGCTACTAC
* * *
23390362 ATGTATCAGATGGTTAAGTCAC
130 GTGTACCAGATGGATAAGTCAC
* * * * * * * * * * * *
23390384 GTATGTAGTACTATGTGTAGGATACTAAGTGTATCAGGTGGTTAAGTCACGTGTGTAGTATTAAG
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGTACTAAG
* ** * * * * *
23390449 TGCAGGCTACTACGTATACCAGATTGA---TAGGTCGCATGTGTAGTACTAAGTGTAGGCTACTA
66 TGCAGGCTACTATGCGTACCAG-TTAACTTTA-ATCACGTGTGTAGTACTAAGTGCAGGCTACTA
* * * * ** **
23390511 TGCGTGCCCG-TTAACTTTGATCAC
129 CGTGTACCAGATGGA-TAAG-TCAC
* * * * * * * * *
23390535 GTGTGTAGTGCTAAGTGTAGGCTACTACGTGTATCAGATGGTTAAGTCACGTATGTAGTACTATG
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGTACTAAG
* * * * * *** *
23390600 TGTAGGATACTAAGTGTATCAG--ATGGTTAAGTCACGTGTGTAGTATTAAGTGCAGGCTACTAC
66 TGCAGGCTACTATGCGTACCAGTTAACTTTAA-TCACGTGTGTAGTACTAAGTGCAGGCTACTAC
* * *
23390663 GTGTACCAGATTGATAGGTCGC
130 GTGTACCAGATGGATAAGTCAC
* * * * * * * * *
23390685 ATGTGTAGTACTAAGTGCAGGCTACTATGCGTGCCCG-TTAACTTTGATCACGTGTGTAGTACTA
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA--TAGGTCACATGTGTAGTACTA
* * * * * * * *
23390749 AGTGTAGGCTACTACGTGTATCA---AA-TGGTTAAGTCACGTATGTAGTACTATGTGTAGGATA
64 AGTGCAGGCTACTATGCGTACCAGTTAACT--TTAA-TCACGTGTGTAGTACTAAGTGCAGGCTA
* * *
23390810 CTAAGTGTATCAGATGGTTAAGTCAC
126 CTACGTGTACCAGATGGATAAGTCAC
* * * *
23390836 GTGTGTAGTATTAAGTGCAGGCTACTACGTGTACCATATTGATAGGTCGCATATGTAGTACTAAG
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGTACTAAG
* * * *
23390901 TGCAGGCTACTATGCGTGCCCGTTAACTTTGATCACATGTGTAGTACTAAGTGCAGGCTACTACG
66 TGCAGGCTACTATGCGTACCAGTTAACTTTAATCACGTGTGTAGTACTAAGTGCAGGCTACTACG
* ** * *
23390966 TGTACCTGATTAATAGGTCGC
131 TGTACCAGATGGATAAGTCAC
* *
23390987 ATGTGTAGTACTAAGTGCTGGCTACTA
1 GTGTGTAGTACTAAGTGCAGGCTACTA
23391014 TGCATACCAG
Statistics
Matches: 621, Mismatches: 139, Indels: 42
0.77 0.17 0.05
Matches are distributed among these distances:
149 3 0.00
150 104 0.17
151 496 0.80
152 15 0.02
153 2 0.00
154 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.31
Consensus pattern (151 bp):
GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGTACTAAG
TGCAGGCTACTATGCGTACCAGTTAACTTTAATCACGTGTGTAGTACTAAGTGCAGGCTACTACG
TGTACCAGATGGATAAGTCAC
Found at i:23396991 original size:40 final size:40
Alignment explanation
Indices: 23396944--23397091 Score: 242
Period size: 40 Copynumber: 3.7 Consensus size: 40
23396934 CTACACGCTT
*
23396944 AAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACAC
1 AAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCAC
* *
23396984 AATTGCCTTCGGGACTTAGCCCGGTTATGGTAACTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCAC
**
23397024 AAATGCCTTCGGGACTTAGCCCGGACATAGTAACTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCAC
*
23397064 AAATGCCTTCTGGACTTAGCCCGGTTAT
1 AAATGCCTTCGGGACTTAGCCCGGTTAT
23397092 CATCTGAATA
Statistics
Matches: 98, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 98 1.00
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
AAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCAC
Found at i:23404935 original size:40 final size:40
Alignment explanation
Indices: 23404899--23405046 Score: 242
Period size: 40 Copynumber: 3.7 Consensus size: 40
23404889 CTACTCGCTT
23404899 AAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCAC
* *
23404939 AATTGCCTTCGGGACTTAGCCCGGTTATGGTAACTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCAC
* ** *
23404979 AAATGCCTTCTGGACTTAGCCCGGACATAGCAACTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCAC
23405019 AAATGCCTTCGGGACTTAGCCCGGTTAT
1 AAATGCCTTCGGGACTTAGCCCGGTTAT
23405047 CATCCGAATA
Statistics
Matches: 97, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 97 1.00
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
AAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCAC
Found at i:23410930 original size:51 final size:51
Alignment explanation
Indices: 23410864--23411011 Score: 226
Period size: 51 Copynumber: 2.9 Consensus size: 51
23410854 TGAACCTTAG
* *
23410864 GAATAAAATAACTTTGGACATAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* *
23410915 GAATATAATAGCTTTGGACACAAGTGTGGTACTAGGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* *
23410966 GAATAAAATAGCTTTGG-CTACAAGGGTGGTACTATGTGAACGCCAC
1 GAATAAAATAGCTTTGGAC-ACAAGTGTGGTACTATGTGAAGGCCAC
23411012 CGTGTATCTG
Statistics
Matches: 88, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
50 1 0.01
51 87 0.99
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
Found at i:23413385 original size:25 final size:25
Alignment explanation
Indices: 23413351--23413400 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
23413341 TACAGGTATG
23413351 TACGAAAAAATCTTATGAATGAACC
1 TACGAAAAAATCTTATGAATGAACC
23413376 TACGAAAAAATCTTATGAATGAACC
1 TACGAAAAAATCTTATGAATGAACC
23413401 CCGTATGTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.48, C:0.16, G:0.12, T:0.24
Consensus pattern (25 bp):
TACGAAAAAATCTTATGAATGAACC
Found at i:23417903 original size:30 final size:30
Alignment explanation
Indices: 23417869--23417930 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
23417859 TCCTTAACTC
23417869 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
23417899 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
23417929 AA
1 AA
23417931 GCTCGGGAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.37
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:23431033 original size:47 final size:47
Alignment explanation
Indices: 23430946--23431568 Score: 877
Period size: 47 Copynumber: 13.1 Consensus size: 47
23430936 CCTTTCGGGA
** * * * * * * *
23430946 CTTATCACATTTATGCACTTTCACATCCATTACGTTGGCCACTCGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* ** *
23430993 CTTGTCACGTATATACACTTTCACATTCATCAAATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
23431040 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTTGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
23431087 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTTGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
23431134 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
23431181 CTTATCACACATATACACTTTCACATTCATCATATCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
23431228 CTTATCACATATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
23431275 CTTATCACACATACACACTTTCGCATTCATCACATCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
23431322 CTTATCACACATATACACTTTCACATTCATCACGTCAGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
23431369 CTTATCATACATACACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
23431416 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGTC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
23431463 CTTATCACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ACAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
*
23431514 CTTATCACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ACAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
23431565 CTTA
1 CTTA
23431569 CTATCATTTC
Statistics
Matches: 532, Mismatches: 40, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
47 440 0.83
49 3 0.01
51 89 0.17
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:23440561 original size:15 final size:17
Alignment explanation
Indices: 23440541--23440573 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
23440531 TTCAATTAAC
23440541 AAAATTT-AATAA-ATT
1 AAAATTTCAATAATATT
23440556 AAAATTTCAATAATATT
1 AAAATTTCAATAATATT
23440573 A
1 A
23440574 TACTTGACTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 5 0.31
17 4 0.25
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (17 bp):
AAAATTTCAATAATATT
Found at i:23442303 original size:29 final size:30
Alignment explanation
Indices: 23442271--23442328 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
23442261 AGCTCAATTT
*
23442271 AGCTCATTTGAGC-T-CGTTTCAGCTCGTTG
1 AGCTCAATTGAGCTTAC-TTTCAGCTCGTTG
23442300 AGCTCAATTGAGCTTACTTTCAGCTCGTT
1 AGCTCAATTGAGCTTACTTTCAGCTCGTT
23442329 CTTTATTTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 12 0.46
30 13 0.50
31 1 0.04
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.38
Consensus pattern (30 bp):
AGCTCAATTGAGCTTACTTTCAGCTCGTTG
Found at i:23442313 original size:19 final size:20
Alignment explanation
Indices: 23442261--23442313 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 20
23442251 AGCTATGTCT
* *
23442261 AGCTCAATTTAGCTCATTTG
1 AGCTCAATTCAGCTCAGTTG
**
23442281 AGCTCGTTTCAGCTC-GTTG
1 AGCTCAATTCAGCTCAGTTG
*
23442300 AGCTCAATTGAGCT
1 AGCTCAATTCAGCT
23442314 TACTTTCAGC
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
19 14 0.54
20 12 0.46
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.36
Consensus pattern (20 bp):
AGCTCAATTCAGCTCAGTTG
Found at i:23444680 original size:93 final size:93
Alignment explanation
Indices: 23444552--23444722 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
23444542 GCCCATAAGT
* * * *
23444552 GAACTCGGACTCAACTCAATGAGCTTGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTTGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
23444617 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
23444645 GAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTT-GGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
*
23444709 ACGAGTTCGGATGC
65 ACGAGCTCGGATGC
23444723 TCAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTTGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:23444714 original size:46 final size:46
Alignment explanation
Indices: 23444544--23444719 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
23444534 TGTAACCCGC
* * *
23444544 CCATAAGTGAACTCGGACTCAACTCAATGAGCTT-GGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCAT
* *
23444590 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--T
* ***
23444636 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
23444683 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
23444720 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 15, Indels: 16
0.78 0.11 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 65 0.61
47 32 0.30
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:23444738 original size:46 final size:45
Alignment explanation
Indices: 23444595--23444738 Score: 120
Period size: 46 Copynumber: 3.1 Consensus size: 45
23444585 CGCATCCATA
*
23444595 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTA-CATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATC-CT
* *
23444644 --CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCA-AC-CATCC-T
*
23444687 AAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCATCCT
23444734 AGTGA
1 AGTGA
23444739 CATGTCACTT
Statistics
Matches: 79, Mismatches: 6, Indels: 23
0.73 0.06 0.21
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 6 0.08
44 1 0.01
46 33 0.42
47 29 0.37
48 5 0.06
49 1 0.01
50 2 0.03
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCCT
Found at i:23446373 original size:94 final size:94
Alignment explanation
Indices: 23446220--23446528 Score: 288
Period size: 94 Copynumber: 3.3 Consensus size: 94
23446210 AGAGCCAATA
* * * **
23446220 TAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGGGCTAGTGTAAGATGTGTCTGGGAC
1 TAAGACCATGTCTGGGACATGGCATCGG-ATAGAGATGAGTGCTAGTGTAAGACATGTCTGGGAC
*
23446285 ATGCATCAGCCGC-ATCATGATAGCCAGTG
65 ATGCATCAGCCGCAATCATGATAACCAGTG
* * * *
23446314 TAAGACCACT-TCTGGGACATGGCATCGGTGTAGAGGTGAGTGCCAATGTAAGACATGTCTGGGA
1 TAAGACCA-TGTCTGGGACATGGCATCGG-ATAGAGATGAGTGCTAGTGTAAGACATGTCTGGGA
* * * *
23446378 CATGCATCGGCCTCAATGATGTTAACCAGTG
64 CATGCATCAGCCGCAATCATGATAACCAGTG
* * * **
23446409 TAAGA-CGTGTCTGGGACAT-GCATCGGCTA-AGTTTCGTGCTAGTGTAAGACATGTCTGGGACA
1 TAAGACCATGTCTGGGACATGGCATCGGATAGAGATGAGTGCTAGTGTAAGACATGTCTGGGACA
* * ** * **
23446471 TGCATCAACACG-TATACACAAGAAGTAGTG
66 TGCATCAGC-CGCAAT-CATGATAACCAGTG
*
23446501 TAAGACCATGTTTGGGACATGGCATCGG
1 TAAGACCATGTCTGGGACATGGCATCGG
23446529 CTTCGATGGA
Statistics
Matches: 173, Mismatches: 35, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
91 37 0.21
92 15 0.09
93 20 0.12
94 82 0.47
95 19 0.11
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (94 bp):
TAAGACCATGTCTGGGACATGGCATCGGATAGAGATGAGTGCTAGTGTAAGACATGTCTGGGACA
TGCATCAGCCGCAATCATGATAACCAGTG
Found at i:23446468 original size:44 final size:47
Alignment explanation
Indices: 23446360--23446476 Score: 145
Period size: 44 Copynumber: 2.6 Consensus size: 47
23446350 TGAGTGCCAA
23446360 TGTAAGACATGTCTGGGACATGCATCGGCCTCAATGATGTTAACCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCTCAATGATGTTAACCAG
* ** *
23446407 TGTAAGACGTGTCTGGGACATGCATCGG-CT-AA-G-T-TTCGTGCTAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCTCAATGATGTT--AACCAG
23446451 TGTAAGACATGTCTGGGACATGCATC
1 TGTAAGACATGTCTGGGACATGCATC
23446477 AACACGTATA
Statistics
Matches: 63, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
42 2 0.03
43 1 0.02
44 29 0.46
45 2 0.03
46 2 0.03
47 27 0.43
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (47 bp):
TGTAAGACATGTCTGGGACATGCATCGGCCTCAATGATGTTAACCAG
Found at i:23453914 original size:44 final size:48
Alignment explanation
Indices: 23453797--23453920 Score: 134
Period size: 47 Copynumber: 2.7 Consensus size: 48
23453787 ATAGAGGTGA
*
23453797 GTGCCAGTGTAAGACATTTCTGGGACATGCATCGGCCTCAATGATGTT
1 GTGCCAGTGTAAGACATTTCTAGGACATGCATCGGCCTCAATGATGTT
* * * *
23453845 -AGCCAGTGAAAGACGTGTCTAGGACATGCATCGG-CT-AA-G-T-TT
1 GTGCCAGTGTAAGACATTTCTAGGACATGCATCGGCCTCAATGATGTT
* *
23453887 CGTGCTAGTGTAAGACATTTCTAGGACATACATC
1 -GTGCCAGTGTAAGACATTTCTAGGACATGCATC
23453921 AGCACATATA
Statistics
Matches: 63, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
42 2 0.03
43 1 0.02
44 27 0.43
45 2 0.03
46 2 0.03
47 29 0.46
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (48 bp):
GTGCCAGTGTAAGACATTTCTAGGACATGCATCGGCCTCAATGATGTT
Found at i:23458513 original size:69 final size:67
Alignment explanation
Indices: 23458376--23458513 Score: 213
Period size: 69 Copynumber: 2.0 Consensus size: 67
23458366 TTTTAATAGA
* * *
23458376 TTTAATGTTAAATTAAATTTAATACTTATCTAATAGTATTTTATTAATTTAATATTAAAGTAATT
1 TTTAATATTAAATTAAATTTAATACTTATCTAATAATATTATATTAATTTAATATTAAAGTAATT
23458441 GT
66 GT
* *
23458443 TTTAATATTAAATTTAATTTAATATTTATCTTAATAAATATTATATTAATTTAATATTAAAGTAA
1 TTTAATATTAAATTAAATTTAATACTTATC-TAAT-AATATTATATTAATTTAATATTAAAGTAA
23458508 TTGT
64 TTGT
23458512 TT
1 TT
23458514 ATCTTGTAGC
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
67 27 0.42
68 4 0.06
69 33 0.52
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.52
Consensus pattern (67 bp):
TTTAATATTAAATTAAATTTAATACTTATCTAATAATATTATATTAATTTAATATTAAAGTAATT
GT
Found at i:23459682 original size:27 final size:26
Alignment explanation
Indices: 23459641--23459727 Score: 113
Period size: 27 Copynumber: 3.2 Consensus size: 26
23459631 TGGATAAGTT
*
23459641 GTAGAATTACTGAAATACCTCTGTAGG
1 GTAGAATTATTGAAATACC-CTGTAGG
23459668 GTA-AATTTATTGAAATACCCCTGTAGG
1 GTAGAA-TTATTGAAATA-CCCTGTAGG
*
23459695 GTAGAATTATCGAAATACCCTTGTAGG
1 GTAGAATTATTGAAATACCC-TGTAGG
23459722 GTAGAA
1 GTAGAA
23459728 ATACCGATTT
Statistics
Matches: 54, Mismatches: 2, Indels: 8
0.84 0.03 0.12
Matches are distributed among these distances:
26 5 0.09
27 45 0.83
28 4 0.07
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.30
Consensus pattern (26 bp):
GTAGAATTATTGAAATACCCTGTAGG
Found at i:23459740 original size:27 final size:27
Alignment explanation
Indices: 23459641--23459755 Score: 99
Period size: 27 Copynumber: 4.3 Consensus size: 27
23459631 TGGATAAGTT
* * *
23459641 GTAGAATTACTGAAATACCTCTGTAGG
1 GTAGAAATACCGAAATACCCCTGTAGG
* **
23459668 GTA-AATTTATTGAAATACCCCTGTAGG
1 GTAGAA-ATACCGAAATACCCCTGTAGG
* * *
23459695 GTAGAATTATCGAAATACCCTTGTAGG
1 GTAGAAATACCGAAATACCCCTGTAGG
** *
23459722 GTAGAAATACCGATTTACCCCTGGAGG
1 GTAGAAATACCGAAATACCCCTGTAGG
23459749 GTA-AAAT
1 GTAGAAAT
23459756 GACTATTTTG
Statistics
Matches: 76, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
26 6 0.08
27 68 0.89
28 2 0.03
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.29
Consensus pattern (27 bp):
GTAGAAATACCGAAATACCCCTGTAGG
Found at i:23460429 original size:27 final size:26
Alignment explanation
Indices: 23460385--23460435 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
23460375 CTCGCTGCAA
*
23460385 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
23460412 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
23460436 AGCAGCCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:23467142 original size:66 final size:66
Alignment explanation
Indices: 23467072--23467237 Score: 170
Period size: 66 Copynumber: 2.5 Consensus size: 66
23467062 TCACTTTTTC
* ** * * *
23467072 TTTGGCATGGATTAATCCTAATGTAGCGGATGAACTTCTTTTGTGAATTCACGATACCATTTCTT
1 TTTGGCATGGATTAATCCTAGTGTAGCGGATGAACTTCCATAGTGAATTCACCACACCATTTCTT
23467137 G
66 G
* * * * * *
23467138 TTTGGCATGAATTAATCTTGGTGTAACGAATGAACTTCCATAGTGAATTCGCCACACCATTTCTT
1 TTTGGCATGGATTAATCCTAGTGTAGCGGATGAACTTCCATAGTGAATTCACCACACCATTTCTT
*
23467203 T
66 G
** * * *
23467204 TTTAACATGGATCACTCCTAGTGTAGCAGATGAA
1 TTTGGCATGGATTAATCCTAGTGTAGCGGATGAA
23467238 ATTAACACCT
Statistics
Matches: 77, Mismatches: 23, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
66 77 1.00
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (66 bp):
TTTGGCATGGATTAATCCTAGTGTAGCGGATGAACTTCCATAGTGAATTCACCACACCATTTCTT
G
Found at i:23469451 original size:40 final size:40
Alignment explanation
Indices: 23469390--23469537 Score: 242
Period size: 40 Copynumber: 3.7 Consensus size: 40
23469380 TATTCGGATG
*
23469390 ATAACCGGGCTAAGTCTCGAAGGCATTTGTGTGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACT
** * *
23469430 ATGTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACT
*
23469470 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGTGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACT
23469510 ATAACCGGGCTAAGTCCCGAAGGCATTT
1 ATAACCGGGCTAAGTCCCGAAGGCATTT
23469538 AAGCGAGTAG
Statistics
Matches: 97, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 97 1.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACT
Found at i:23469552 original size:40 final size:40
Alignment explanation
Indices: 23469390--23469571 Score: 233
Period size: 40 Copynumber: 4.6 Consensus size: 40
23469380 TATTCGGATG
* *
23469390 ATAACCGGGCTAAGTCTCGAAGGCATTTGTGTGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
** *
23469430 ATGTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
23469470 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGTGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
**
23469510 ATAACCGGGCTAAGTCCCGAAGGCATTTAAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* **
23469550 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
23469572 TACTTGGTTT
Statistics
Matches: 124, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
39 16 0.13
40 108 0.87
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:23477415 original size:40 final size:40
Alignment explanation
Indices: 23477352--23477532 Score: 242
Period size: 40 Copynumber: 4.6 Consensus size: 40
23477342 TATTCGGATG
23477352 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
** * *
23477392 ATGTCCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
23477432 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
**
23477472 ATAACCGGGCTAAGT-CCGAAGGCATTTAAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* **
23477511 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
23477533 TACTTGGTTT
Statistics
Matches: 124, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
38 8 0.06
39 30 0.24
40 86 0.69
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:23479164 original size:22 final size:22
Alignment explanation
Indices: 23479136--23479179 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
23479126 TGCAAGTTGC
23479136 AATGAAGCCTAAAAATAGTAAG
1 AATGAAGCCTAAAAATAGTAAG
23479158 AATGAAGCCTAAAAATAGTAAG
1 AATGAAGCCTAAAAATAGTAAG
23479180 TGAAACCTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.55, C:0.09, G:0.18, T:0.18
Consensus pattern (22 bp):
AATGAAGCCTAAAAATAGTAAG
Found at i:23511804 original size:21 final size:21
Alignment explanation
Indices: 23511758--23511805 Score: 89
Period size: 20 Copynumber: 2.3 Consensus size: 21
23511748 CCCTATTTCC
23511758 CAAATTTTTTTTATTTTGTTT
1 CAAATTTTTTTTATTTTGTTT
23511779 C-AATTTTTTTTATTTTGTTT
1 CAAATTTTTTTTATTTTGTTT
23511799 CAAATTT
1 CAAATTT
23511806 ATCCCTAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 20 0.77
21 6 0.23
ACGTcount: A:0.21, C:0.06, G:0.04, T:0.69
Consensus pattern (21 bp):
CAAATTTTTTTTATTTTGTTT
Found at i:23519808 original size:20 final size:20
Alignment explanation
Indices: 23519785--23519838 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
23519775 ATACCAACTA
**
23519785 AAAAATATCGATACTTTTGT
1 AAAAATATCGATACTCGTGT
*
23519805 AAAAATACCGATACTCGTGT
1 AAAAATATCGATACTCGTGT
23519825 AAAAATATCGATAC
1 AAAAATATCGATAC
23519839 CATGGGGCTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.44, C:0.15, G:0.11, T:0.30
Consensus pattern (20 bp):
AAAAATATCGATACTCGTGT
Found at i:23525478 original size:17 final size:15
Alignment explanation
Indices: 23525443--23525491 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
23525433 AAGCAACTCA
* *
23525443 AAGAAAAAAAAACAA
1 AAGAAAAAAAAGCAC
23525458 AAGAATAAAAAAGTCAC
1 AAGAA-AAAAAAG-CAC
*
23525475 AAGAAAACAAAGCAC
1 AAGAAAAAAAAGCAC
23525490 AA
1 AA
23525492 AAAGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 10 0.34
16 12 0.41
17 7 0.24
ACGTcount: A:0.73, C:0.12, G:0.10, T:0.04
Consensus pattern (15 bp):
AAGAAAAAAAAGCAC
Found at i:23532941 original size:29 final size:29
Alignment explanation
Indices: 23532902--23532967 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 29
23532892 ATAGAGACCG
* *
23532902 GATCAAATTAGTCCCTCTATTATTAAATA
1 GATCAAATTAGTCCCTATATTATTAAAAA
* *
23532931 GATCAATTTAGTCTCTATATTATTAAAAA
1 GATCAAATTAGTCCCTATATTATTAAAAA
23532960 GAATCAAA
1 G-ATCAAA
23532968 CAAGGTCAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
29 26 0.84
30 5 0.16
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.36
Consensus pattern (29 bp):
GATCAAATTAGTCCCTATATTATTAAAAA
Found at i:23541825 original size:16 final size:18
Alignment explanation
Indices: 23541806--23541838 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
23541796 CATACGAATT
23541806 CCAAAAC-ATA-ATAGTA
1 CCAAAACGATAGATAGTA
23541822 CCAAAACGATAGATAGT
1 CCAAAACGATAGATAGT
23541839 GTGACAAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.52, C:0.18, G:0.12, T:0.18
Consensus pattern (18 bp):
CCAAAACGATAGATAGTA
Found at i:23542395 original size:41 final size:43
Alignment explanation
Indices: 23542321--23542532 Score: 195
Period size: 45 Copynumber: 4.9 Consensus size: 43
23542311 TTTATCAAAT
* * *
23542321 CACCGACATT-TAGCCTGCTAGGTTTTAAA-CCCGAAT-TCATC
1 CACCGGCATTATAGCCTGCTAGG-CTCAAAGCCCGAATATCATC
* * *
23542362 CACTGGCATT-TCGCCTGCTAGGCTCAAAGCCCG-ATATCATTT
1 CACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGAATATCA-TC
*
23542404 CACCGGCATTATAGCCTGCTAGGCTCGAAGCCTCGAATAGT-ATC
1 CACCGGCATTATAGCCTGCTAGGCTCAAAGCC-CGAATA-TCATC
*
23542448 TCACCGGCATTATAGCCTGCTAGGATCAAAGGCCCGAATAGT-ATC
1 -CACCGGCATTATAGCCTGCTAGGCTCAAA-GCCCGAATA-TCATC
* * *
23542493 TCACCAGCATCATAGCCTACTAGGCTCAAAGGCCCGAATA
1 -CACCGGCATTATAGCCTGCTAGGCTCAAA-GCCCGAATA
23542533 GTATCATACG
Statistics
Matches: 146, Mismatches: 16, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
40 6 0.04
41 26 0.18
42 10 0.07
43 19 0.13
44 3 0.02
45 78 0.53
46 4 0.03
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (43 bp):
CACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGAATATCATC
Found at i:23542465 original size:45 final size:45
Alignment explanation
Indices: 23542366--23542537 Score: 228
Period size: 45 Copynumber: 3.9 Consensus size: 45
23542356 TTCATCCACT
* *
23542366 GGCATT-TCGCCTGCTAGGCTCAAA-GCCCG-ATA-TCATTTCACC
1 GGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT-ATCTCACC
*
23542408 GGCATTATAGCCTGCTAGGCTCGAA-GCCTCGAATAGTATCTCACC
1 GGCATTATAGCCTGCTAGGCTCAAAGGCC-CGAATAGTATCTCACC
*
23542453 GGCATTATAGCCTGCTAGGATCAAAGGCCCGAATAGTATCTCACC
1 GGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACC
* * *
23542498 AGCATCATAGCCTACTAGGCTCAAAGGCCCGAATAGTATC
1 GGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
23542538 ATACGATATT
Statistics
Matches: 116, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
42 6 0.05
43 19 0.16
44 2 0.02
45 85 0.73
46 4 0.03
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (45 bp):
GGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACC
Found at i:23544598 original size:51 final size:50
Alignment explanation
Indices: 23544492--23544662 Score: 177
Period size: 50 Copynumber: 3.4 Consensus size: 50
23544482 AGGGCTTTCA
* * * * *
23544492 CACTTAGTACTACACACGTGACCTCACCA-TTTGATACACGTAGTAGCCTG
1 CACTTAGTACTACACATGTGA-CTCAACAGTATGGTACACATAGTAGCCTG
* *
23544542 CACTTAGTACTACACATGTGA-TCGA-AGTAATTGAGTACGCATAGTAGCCTG
1 CACTTAGTACTACACATGTGACTCAACAGT-A-TG-GTACACATAGTAGCCTG
* * * * *
23544593 CACTTAGTACTACGCATGCGACTTAACAGTATGGTACACGTAGTAGCCTC
1 CACTTAGTACTACACATGTGACTCAACAGTATGGTACACATAGTAGCCTG
23544643 CACTTAGTACTACACATGTG
1 CACTTAGTACTACACATGTG
23544663 TATTCACAAT
Statistics
Matches: 99, Mismatches: 16, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
47 1 0.01
48 3 0.03
50 54 0.55
51 35 0.35
52 3 0.03
53 3 0.03
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (50 bp):
CACTTAGTACTACACATGTGACTCAACAGTATGGTACACATAGTAGCCTG
Found at i:23547579 original size:18 final size:18
Alignment explanation
Indices: 23547535--23547570 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
23547525 CGTTGTCGTA
23547535 AATTCAAATCTTTTTGAT
1 AATTCAAATCTTTTTGAT
23547553 AATTCAAATCTTTTTGAT
1 AATTCAAATCTTTTTGAT
23547571 TCATCAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.11, G:0.06, T:0.50
Consensus pattern (18 bp):
AATTCAAATCTTTTTGAT
Found at i:23547906 original size:29 final size:29
Alignment explanation
Indices: 23547874--23547931 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
23547864 AAAATTTGTT
*
23547874 GACACTTTTCAGTCCAATTAAACTTAACA
1 GACACTCTTCAGTCCAATTAAACTTAACA
23547903 GACACTCTTCAGTCCAATTAAACTTAACA
1 GACACTCTTCAGTCCAATTAAACTTAACA
23547932 TTCTTTTGCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.38, C:0.26, G:0.07, T:0.29
Consensus pattern (29 bp):
GACACTCTTCAGTCCAATTAAACTTAACA
Found at i:23552088 original size:50 final size:49
Alignment explanation
Indices: 23551964--23552201 Score: 228
Period size: 50 Copynumber: 4.8 Consensus size: 49
23551954 AGCCGAAGCT
* * * * * *
23551964 ATCTGATACGCATAGTAGCCTGCATTTAGTACTACACATGCGACCAACA
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGTGACTAACC
* * * * *
23552013 ATCCGGTACACGAAGTAGCCTGCACTTAGTACTACACACGTGACCTCACC
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGTGA-CTAACC
* * *
23552063 ATCTGATATACGTAGTAGCCTGCACTTAGTACTACACATGTGATTGAAGTC
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGTGACT-AA-CC
* * *
23552114 AT-TGAGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACTTAA-C
1 ATCTGA-TACACGTAGTAGCCTGCACTTAGTACTACACATGTGAC-TAACC
* * *
23552163 AGTATGGTACACGTAGTAGCCTCCACTTAGTACTACACA
1 A-TCTGATACACGTAGTAGCCTGCACTTAGTACTACACA
23552202 CGTGTATTCA
Statistics
Matches: 154, Mismatches: 28, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
49 38 0.25
50 75 0.49
51 40 0.26
52 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (49 bp):
ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGTGACTAACC
Found at i:23554517 original size:6 final size:6
Alignment explanation
Indices: 23554499--23554536 Score: 58
Period size: 6 Copynumber: 6.2 Consensus size: 6
23554489 TGCAAATGAA
*
23554499 TCATTT CTCATTT TCATTT TCATTT TCATTT CCATTT T
1 TCATTT -TCATTT TCATTT TCATTT TCATTT TCATTT T
23554537 GAGAAAATCA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.16, C:0.21, G:0.00, T:0.63
Consensus pattern (6 bp):
TCATTT
Found at i:23568453 original size:39 final size:39
Alignment explanation
Indices: 23568392--23568504 Score: 138
Period size: 39 Copynumber: 2.9 Consensus size: 39
23568382 GAATGATTTT
* * *
23568392 ATAAGTTGTGTATTAATAAAGCTCC-CCATGAGCTTATGG
1 ATAAGTTGTGTATCAA-CAAGCTCCACCATGAGCTTAAGG
* *
23568431 ATAAGTTGTGTATCAGCGAAGCTCCTCCATGAGCTTAAGG
1 ATAAGTTGTGTATCAAC-AAGCTCCACCATGAGCTTAAGG
* *
23568471 TTAAGTTGTGTATCAACAAACTCCACCATGAGCT
1 ATAAGTTGTGTATCAACAAGCTCCACCATGAGCT
23568505 AGTTGGATTG
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
39 36 0.56
40 28 0.44
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.30
Consensus pattern (39 bp):
ATAAGTTGTGTATCAACAAGCTCCACCATGAGCTTAAGG
Found at i:23568591 original size:83 final size:83
Alignment explanation
Indices: 23568449--23568605 Score: 197
Period size: 83 Copynumber: 1.9 Consensus size: 83
23568439 TGTATCAGCG
* * *
23568449 AAGCTCCTCCATGAGCTTAAGGTTAAGTTGTGTATCAACAAACTCCACCATGAGCTAGTTGGATT
1 AAGCTCCTCCATGAGCTTAAGGTTAAATTATGTATCAACAAACTCCACCATAAGCTAGTTGGATT
*
23568514 GTATCCAACAAGAAAGCA
66 ATATCCAACAAGAAAGCA
* *** * * ** *
23568532 AAGCTCCTTCATGAGCTTAAGGTTAAATTATGTATCAGTGAGCTCTACTGTAAGTTAGTTGGATT
1 AAGCTCCTCCATGAGCTTAAGGTTAAATTATGTATCAACAAACTCCACCATAAGCTAGTTGGATT
23568597 ATATCCAAC
66 ATATCCAAC
23568606 GAGACAAAGT
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
83 61 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (83 bp):
AAGCTCCTCCATGAGCTTAAGGTTAAATTATGTATCAACAAACTCCACCATAAGCTAGTTGGATT
ATATCCAACAAGAAAGCA
Found at i:23571433 original size:127 final size:132
Alignment explanation
Indices: 23571141--23571551 Score: 433
Period size: 138 Copynumber: 3.1 Consensus size: 132
23571131 GAGAATACAG
** * * * * * *
23571141 ATATAATTAATATATGAATTTGGTTCATACAAAATATTAATTTTATATATTTTACCAAGTTTATT
1 ATATAATTAATATATGAATTTAATTCA-ATAAAATACTAA--TTGTATA-TGTACTAAATTTATT
** *
23571206 AATATAAATAGTTATATTAATTAATTTTGGTCAAAATATAAAAGAAAT-AGAAATTAATATTATT
62 AATATAAATAGTTATATTAATTAA-TTTCATCAAAATAT-AAAGAAATGA-AAATTAATATTCTT
23571270 TTGAAAAGA
124 TTGAAAAGA
*
23571279 ATATAATTAATATATGAATTTAATTC-ATACAA-ACT-ATTG-AT-TGT-CTAAATTTATTAATA
1 ATATAATTAATATATGAATTTAATTCAATAAAATACTAATTGTATATGTACTAAATTTATTAATA
*
23571338 TAAATAGTTATATTAATTAATTTCATCAAAATATAAAGGACATGAAAATTAATATTCTTTCTG-A
66 TAAATAGTTATATTAATTAATTTCATCAAAATATAAA-GAAATGAAAATTAATATTCTTT-TGAA
23571402 AAGA
129 AAGA
** * * *
23571406 ATATAATTAATATATGAATTTGTTTCATATAAAATATTAATTGTATATATTTCACTGAATTTATT
1 ATATAATTAATATATGAATTTAATTCA-ATAAAATACTAATTG--TATATGT-ACTAAATTTATT
** * *
23571471 AATATAAACGGTTATATTAATTAATTTCAGTCAAAATATAGAAGATATGGAAATTAATATTCTTT
62 AATATAAATAGTTATATTAATTAATTTCA-TCAAAATATA-AAGAAATGAAAATTAATATTCTTT
23571536 TGAAAAGA
125 TGAAAAGA
23571544 ATATAATT
1 ATATAATT
23571552 CCATTTTCCA
Statistics
Matches: 234, Mismatches: 23, Indels: 32
0.81 0.08 0.11
Matches are distributed among these distances:
126 3 0.01
127 59 0.25
128 36 0.15
129 7 0.03
130 2 0.01
131 6 0.03
132 2 0.01
134 3 0.01
135 4 0.02
136 4 0.02
137 39 0.17
138 67 0.29
139 2 0.01
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.42
Consensus pattern (132 bp):
ATATAATTAATATATGAATTTAATTCAATAAAATACTAATTGTATATGTACTAAATTTATTAATA
TAAATAGTTATATTAATTAATTTCATCAAAATATAAAGAAATGAAAATTAATATTCTTTTGAAAA
GA
Found at i:23571669 original size:75 final size:74
Alignment explanation
Indices: 23571527--23571673 Score: 215
Period size: 75 Copynumber: 2.0 Consensus size: 74
23571517 ATGGAAATTA
* * *
23571527 ATATTCTTTTGAAAAGAATATAATTCCATTTTCCACATTCCATTTGCCTTCTCTATTAATAAAGG
1 ATATTATTTTGAAAAGAATATAATTCCATTTTCAACATTCAATTTGCCTTCTCTATTAATAAAGG
23571592 AATAATCTT
66 AATAATCTT
* * *
23571601 ATATTATTTTGGAAAGAATATAATT-CATATTTCTAACTTTCAATTTGCCTTCTCTATTAATAAG
1 ATATTATTTTGAAAAGAATATAATTCCAT-TTTC-AACATTCAATTTGCCTTCTCTATTAATAAA
23571665 GGAATAATC
64 GGAATAATC
23571674 CCGATTTTCC
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
73 3 0.05
74 27 0.42
75 35 0.54
ACGTcount: A:0.35, C:0.15, G:0.08, T:0.42
Consensus pattern (74 bp):
ATATTATTTTGAAAAGAATATAATTCCATTTTCAACATTCAATTTGCCTTCTCTATTAATAAAGG
AATAATCTT
Found at i:23574924 original size:40 final size:40
Alignment explanation
Indices: 23574847--23575024 Score: 261
Period size: 40 Copynumber: 4.5 Consensus size: 40
23574837 AAACCAAGTA
* * *
23574847 CCTTCAGGAATTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
23574886 CCTTCGGGATTTAGCCCGGTTATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
23574926 CTTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
23574966 CCTTCGGGACTTAGCCCGGATATAGTAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
23575006 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
23575025 TTATCATCCG
Statistics
Matches: 126, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 13 0.10
40 113 0.90
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:23607199 original size:32 final size:33
Alignment explanation
Indices: 23607152--23607265 Score: 97
Period size: 33 Copynumber: 3.5 Consensus size: 33
23607142 TACCCAAATG
*
23607152 GTACAACTTGAAAAGGTTATGTACACTTTGTGT
1 GTACAACTTGAAAAGGTTAGGTACACTTTGTGT
* *
23607185 GTAC-ACTTGGAAAGGTTAGGTATACTTTGTGT
1 GTACAACTTGAAAAGGTTAGGTACACTTTGTGT
* * ** * * *
23607217 ATACCA-TATGAAAAGGAAAGGTATACTTTATTT
1 GTACAACT-TGAAAAGGTTAGGTACACTTTGTGT
* *
23607250 GTACCACTTGGAAAGG
1 GTACAACTTGAAAAGG
23607266 AATGTACACC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
32 29 0.43
33 37 0.55
34 1 0.01
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (33 bp):
GTACAACTTGAAAAGGTTAGGTACACTTTGTGT
Found at i:23607266 original size:33 final size:33
Alignment explanation
Indices: 23607176--23607267 Score: 98
Period size: 33 Copynumber: 2.8 Consensus size: 33
23607166 GGTTATGTAC
* **
23607176 ACTTTGTGTGTA-CACTTGGAAAGGTTAGGTAT
1 ACTTTATGTGTACCACTTGGAAAGGAAAGGTAT
* * *
23607208 ACTTTGTGTATACCA-TATGAAAAGGAAAGGTAT
1 ACTTTATGTGTACCACT-TGGAAAGGAAAGGTAT
*
23607241 ACTTTATTTGTACCACTTGGAAAGGAA
1 ACTTTATGTGTACCACTTGGAAAGGAA
23607268 TGTACACCTC
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
32 12 0.24
33 36 0.73
34 1 0.02
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.34
Consensus pattern (33 bp):
ACTTTATGTGTACCACTTGGAAAGGAAAGGTAT
Found at i:23608781 original size:15 final size:15
Alignment explanation
Indices: 23608761--23608811 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
23608751 TATTTATAAA
*
23608761 TTAATTAACTTTTAT
1 TTAATTCACTTTTAT
*
23608776 TTAATTCA-TATT-T
1 TTAATTCACTTTTAT
23608789 TTAATTCACTTTTAT
1 TTAATTCACTTTTAT
23608804 TTAATTCA
1 TTAATTCA
23608812 AATCACTAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
13 9 0.29
14 6 0.19
15 16 0.52
ACGTcount: A:0.31, C:0.10, G:0.00, T:0.59
Consensus pattern (15 bp):
TTAATTCACTTTTAT
Found at i:23608821 original size:28 final size:27
Alignment explanation
Indices: 23608762--23608828 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 27
23608752 ATTTATAAAT
* ***
23608762 TAATTAACTTTTATTTAATTCATATTTT
1 TAATT-ACTTTTATTTAATTCAAATCAC
23608790 TAATTCACTTTTATTTAATTCAAATCAC
1 TAATT-ACTTTTATTTAATTCAAATCAC
23608818 TAATTACTTTT
1 TAATTACTTTT
23608829 CAATCAATAT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 6 0.18
28 28 0.82
ACGTcount: A:0.33, C:0.12, G:0.00, T:0.55
Consensus pattern (27 bp):
TAATTACTTTTATTTAATTCAAATCAC
Found at i:23622202 original size:40 final size:40
Alignment explanation
Indices: 23622150--23622381 Score: 374
Period size: 40 Copynumber: 5.8 Consensus size: 40
23622140 ATAACCACAA
* * * *
23622150 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
23622190 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
23622230 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
23622270 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATGTCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATA--TCAACTC
*
23622312 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
23622352 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
23622382 GTATTCAAAT
Statistics
Matches: 179, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
40 139 0.78
42 40 0.22
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:23622341 original size:122 final size:120
Alignment explanation
Indices: 23622150--23622381 Score: 401
Period size: 122 Copynumber: 1.9 Consensus size: 120
23622140 ATAACCACAA
* * *
23622150 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
*
23622215 CGGATATATCAACTTGCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTC
66 CGGATATATCAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
23622270 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATGTCAACTCGCACAAATGCCTTCGGGTCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATA-G-CAACTCGCACAAATGCCTTCGGGTCTTAG
23622335 CCCGGATATATCAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGAT
64 CCCGGATATATCAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGAT
23622382 GTATTCAAAT
Statistics
Matches: 105, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
120 30 0.29
121 1 0.01
122 74 0.70
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (120 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
CGGATATATCAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:23622345 original size:82 final size:81
Alignment explanation
Indices: 23622150--23622389 Score: 392
Period size: 82 Copynumber: 3.0 Consensus size: 81
23622140 ATAACCACAA
* * * *
23622150 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
*
23622215 CGGATATA-TCAACTT
66 CGGATATATTCAACTC
23622230 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
23622295 CGGATATATGTCAACTC
66 CGGATATAT-TCAACTC
* *
23622312 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAATGCCTTCGGGTCTTAGCC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
*
23622377 CGGATGTATTCAA
66 CGGATATATTCAA
23622390 ATGCTCATGC
Statistics
Matches: 150, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
80 69 0.46
81 4 0.03
82 77 0.51
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (81 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
CGGATATATTCAACTC
Found at i:23626810 original size:19 final size:20
Alignment explanation
Indices: 23626783--23626821 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
23626773 AGTTGAGTTT
23626783 AATGCAAAGAAT-CAGAAGG
1 AATGCAAAGAATCCAGAAGG
* *
23626802 AATGGAAAGAGTCCAGAAGG
1 AATGCAAAGAATCCAGAAGG
23626822 GAATTACAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.49, C:0.10, G:0.31, T:0.10
Consensus pattern (20 bp):
AATGCAAAGAATCCAGAAGG
Found at i:23639613 original size:40 final size:39
Alignment explanation
Indices: 23639481--23639712 Score: 206
Period size: 40 Copynumber: 5.7 Consensus size: 39
23639471 GATATAACCA
** * *
23639481 CACACAATGCCTTCGG-CTTAAACCGGGTATAGCAACTCG
1 CACA-AATGCCTTCGGTCTTAGCCCGGATATATCAACTCG
*
23639520 CACAAATGCC-TCGTGGTCTCTAGCCCGGATACTATCAACTTG
1 CACAAATGCCTTC--GGTCT-TAGCCCGGATA-TATCAACTCG
* * *
23639562 CCACTATTGCCTTTGGTTCTTAGCCC-GATATATCAAACTCG
1 -CACAAATGCCTTCGG-TCTTAGCCCGGATATATC-AACTCG
23639603 CACAAATGCCTTCGGTCTTAGCCCGGATATAGTGTCAACTTCG
1 CACAAATGCCTTCGGTCTTAGCCCGGATATA---TCAAC-TCG
*
23639646 CACTAGAATGCCTTCGGTCTTAG--CGGATATATCAACTTG
1 CAC-A-AATGCCTTCGGTCTTAGCCCGGATATATCAACTCG
23639685 CACAAATGCCTTC-GTCTTAGCCGCGGAT
1 CACAAATGCCTTCGGTCTTAGCC-CGGAT
23639713 GTATTCAAAT
Statistics
Matches: 161, Mismatches: 13, Indels: 38
0.76 0.06 0.18
Matches are distributed among these distances:
36 7 0.04
37 11 0.07
38 7 0.04
39 25 0.16
40 29 0.18
41 17 0.11
42 19 0.12
43 27 0.17
44 2 0.01
45 17 0.11
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (39 bp):
CACAAATGCCTTCGGTCTTAGCCCGGATATATCAACTCG
Found at i:23639641 original size:83 final size:79
Alignment explanation
Indices: 23639486--23639712 Score: 223
Period size: 83 Copynumber: 2.8 Consensus size: 79
23639476 AACCACACAC
* * *
23639486 AATGCCTTCGG-CTTAAACCGGGTATAGCAACTCGCACAAATGCC-TCGTGGTCTCTAGCCCGGA
1 AATGCCTTCGGTCTT-AGCC-GATATATCAACTCGCACAAATGCCTTC--GGTCT-TAGCCCGGA
23639549 TACTATCAACTT-GCCACT-
61 TACTATCAACTTCG-CACTA
* *
23639567 ATTGCCTTTGGTTCTTAGCCCGATATATCAAACTCGCACAAATGCCTTCGGTCTTAGCCCGGATA
1 AATGCCTTCGG-TCTTAG-CCGATATATC-AACTCGCACAAATGCCTTCGGTCTTAGCCCGGATA
23639632 -TAGTGTCAACTTCGCACTA
63 CTA---TCAACTTCGCACTA
* *
23639651 GAATGCCTTCGGTCTTAGCGGATATATCAACTTGCACAAATGCCTTC-GTCTTAGCCGCGGAT
1 -AATGCCTTCGGTCTTAGCCGATATATCAACTCGCACAAATGCCTTCGGTCTTAGCC-CGGAT
23639713 GTATTCAAAT
Statistics
Matches: 125, Mismatches: 9, Indels: 23
0.80 0.06 0.15
Matches are distributed among these distances:
80 2 0.02
81 29 0.23
82 35 0.28
83 41 0.33
84 9 0.07
85 9 0.07
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (79 bp):
AATGCCTTCGGTCTTAGCCGATATATCAACTCGCACAAATGCCTTCGGTCTTAGCCCGGATACTA
TCAACTTCGCACTA
Found at i:23649320 original size:26 final size:27
Alignment explanation
Indices: 23649257--23649323 Score: 75
Period size: 26 Copynumber: 2.5 Consensus size: 27
23649247 TTTGACTAAG
23649257 TATTACATTCACATACTAAATGAATCAC
1 TATTAC-TTCACATACTAAATGAATCAC
* * *
23649285 TATTAATTCACATTCTTAAT-AATCA-
1 TATTACTTCACATACTAAATGAATCAC
23649310 TACTTACTTCACAT
1 TA-TTACTTCACAT
23649324 CAGTTTCAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
25 2 0.06
26 15 0.44
27 12 0.35
28 5 0.15
ACGTcount: A:0.39, C:0.21, G:0.01, T:0.39
Consensus pattern (27 bp):
TATTACTTCACATACTAAATGAATCAC
Found at i:23649644 original size:38 final size:37
Alignment explanation
Indices: 23649547--23649768 Score: 155
Period size: 39 Copynumber: 5.5 Consensus size: 37
23649537 GCACCAAAAT
*
23649547 TGCCTTCGGCGTCTTA-CCCGGCGATATAGCAACTCGCCGAA
1 TGCCTTC-G-GTCTTAGCCC-G-GATATATCAACTCGCC-AA
*
23649588 TGCACTTCGGTCTTAGCCCGGATATATCAACTTGCCAA
1 TGC-CTTCGGTCTTAGCCCGGATATATCAACTCGCCAA
*
23649626 TTGCCTTTGGTCTTAGCCCGAGATATATCAACTCGCAACAAA
1 -TGCCTTCGGTCTTAGCCCG-GATATATCAACTCGC--C-AA
*
23649668 T-CCTTCGGTCTTAGCCCGGATATGTCAAAC-CGCACAA
1 TGCCTTCGGTCTTAGCCCGGATATATC-AACTCGC-CAA
* *
23649705 AGCACTTCGGCTGTAGCTTAGCCCGGAATATATCAACTTGCACAAA
1 TGC-CTTC-G--GT--CTTAGCCCGG-ATATATCAACTCGC-C-AA
23649751 T-CCTTCGGTCTTCAGCCC
1 TGCCTTCGGTCTT-AGCCC
23649769 CGATTATTCA
Statistics
Matches: 152, Mismatches: 10, Indels: 39
0.76 0.05 0.19
Matches are distributed among these distances:
37 2 0.01
38 20 0.13
39 48 0.32
40 32 0.21
41 11 0.07
42 8 0.05
43 1 0.01
44 17 0.11
45 11 0.07
46 2 0.01
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (37 bp):
TGCCTTCGGTCTTAGCCCGGATATATCAACTCGCCAA
Found at i:23657979 original size:40 final size:40
Alignment explanation
Indices: 23657927--23658156 Score: 388
Period size: 40 Copynumber: 5.8 Consensus size: 40
23657917 ATAACCACAA
* * * *
23657927 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
23657967 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
23658007 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
23658047 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
23658087 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
23658127 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
23658157 GTATTCAAAT
Statistics
Matches: 179, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 179 1.00
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:23660596 original size:2 final size:2
Alignment explanation
Indices: 23660589--23660613 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
23660579 ATACACAACT
23660589 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
23660614 CTATTTTCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23660793 original size:42 final size:41
Alignment explanation
Indices: 23660690--23660847 Score: 129
Period size: 43 Copynumber: 3.7 Consensus size: 41
23660680 CGTACAATGC
** * *
23660690 CAACGTCTTAGACGTGGTCTTACATGTAATCAAATATCGATG
1 CAACGTCCCAGACATGGTCTTACATGAAATCAAATA-CGATG
* *
23660732 CCACTATCCCAGACATGGTCTTACATGAAATCAAATACGATG
1 CAAC-GTCCCAGACATGGTCTTACATGAAATCAAATACGATG
** * *
23660774 TCAACGTCCTGGATATGGTCTTACACGTAAATCATAAGT-CGATG
1 -CAACGTCCCAGACATGGTCTTACATG-AAATCA-AA-TACGATG
* * *
23660818 CCAACGTCCCAGACGTGGTGTTACACGAAA
1 -CAACGTCCCAGACATGGTCTTACATGAAA
23660848 ACACATATTG
Statistics
Matches: 93, Mismatches: 18, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
42 25 0.27
43 39 0.42
44 28 0.30
45 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (41 bp):
CAACGTCCCAGACATGGTCTTACATGAAATCAAATACGATG
Found at i:23666901 original size:42 final size:42
Alignment explanation
Indices: 23666842--23667115 Score: 161
Period size: 43 Copynumber: 6.6 Consensus size: 42
23666832 GTTTGTGAAA
** *
23666842 AAACGCCATTATAAAACATGACCTTTAGCGATGCTTTCCCAC
1 AAACGCCGCTATAAAACATGACCTTTAGCGACGCTTTCCCAC
*
23666884 AAACGCCGCTATAAAACATGA-CATT------GCTTTCCCAC
1 AAACGCCGCTATAAAACATGACCTTTAGCGACGCTTTCCCAC
* * * *
23666919 AAACACCGCTATAAAACATGACATTTAGCTACGCTTTTCCTAC
1 AAACGCCGCTATAAAACATGACCTTTAGCGACGC-TTTCCCAC
* * * * ** *
23666962 AGACGCCACTATAAAACATAACCTTTAGTGACGCTTTTTCAA
1 AAACGCCGCTATAAAACATGACCTTTAGCGACGCTTTCCCAC
* ** * * * ** * *
23667004 AAACGCCGCTATAGAGTA-AACCTTTAGTGGCATTTTTCGCAT
1 AAACGCCGCTATAAAACATGACCTTTAGCGAC-GCTTTCCCAC
* * * *
23667046 AAACGCCACTATAGAACATGACCTTTAACAACGCTTTTCCCAC
1 AAACGCCGCTATAAAACATGACCTTTAGCGACGC-TTTCCCAC
* * *
23667089 AAACACCACTA-AAGAACATAACCTTTA
1 AAACGCCGCTATAA-AACATGACCTTTA
23667116 AAAAAATTAT
Statistics
Matches: 176, Mismatches: 44, Indels: 23
0.72 0.18 0.09
Matches are distributed among these distances:
35 30 0.17
36 2 0.01
41 15 0.09
42 59 0.34
43 70 0.40
ACGTcount: A:0.35, C:0.27, G:0.11, T:0.26
Consensus pattern (42 bp):
AAACGCCGCTATAAAACATGACCTTTAGCGACGCTTTCCCAC
Found at i:23666919 original size:35 final size:35
Alignment explanation
Indices: 23666873--23666943 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
23666863 CCTTTAGCGA
*
23666873 TGCTTTCCCACAAACGCCGCTATAAAACATGACAT
1 TGCTTTCCCACAAACACCGCTATAAAACATGACAT
23666908 TGCTTTCCCACAAACACCGCTATAAAACATGACAT
1 TGCTTTCCCACAAACACCGCTATAAAACATGACAT
23666943 T
1 T
23666944 TAGCTACGCT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.35, C:0.31, G:0.10, T:0.24
Consensus pattern (35 bp):
TGCTTTCCCACAAACACCGCTATAAAACATGACAT
Found at i:23667865 original size:43 final size:43
Alignment explanation
Indices: 23667799--23667889 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
23667789 CACATTGCAA
* * *
23667799 GGTAATAAAACATACAATGCATTTTCTTAATCAAGTAAATCTT
1 GGTAATAAAACATACAATACATTTACTTAATCAAGGAAATCTT
* *
23667842 GGTAATAAAAGATATAATACATTTACTTAATCAAGGAAATCTT
1 GGTAATAAAACATACAATACATTTACTTAATCAAGGAAATCTT
23667885 -GTAAT
1 GGTAAT
23667890 GAACTCAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 5 0.12
43 38 0.88
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.34
Consensus pattern (43 bp):
GGTAATAAAACATACAATACATTTACTTAATCAAGGAAATCTT
Found at i:23668273 original size:13 final size:13
Alignment explanation
Indices: 23668255--23668281 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
23668245 GTTCAAATGA
23668255 AGGTAAAATTCAC
1 AGGTAAAATTCAC
23668268 AGGTAAAATTCAC
1 AGGTAAAATTCAC
23668281 A
1 A
23668282 TTGACTAGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.15, G:0.15, T:0.22
Consensus pattern (13 bp):
AGGTAAAATTCAC
Found at i:23668710 original size:7 final size:7
Alignment explanation
Indices: 23668698--23668731 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
23668688 ATTAGCTGTA
23668698 TTCACAG
1 TTCACAG
23668705 TTCACAG
1 TTCACAG
23668712 TTCACAG
1 TTCACAG
23668719 TTCACAG
1 TTCACAG
23668726 TTCACA
1 TTCACA
23668732 CTCATGCATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.29
Consensus pattern (7 bp):
TTCACAG
Found at i:23670103 original size:14 final size:14
Alignment explanation
Indices: 23670081--23670110 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
23670071 GAGGGTATAG
23670081 GGTAATTTTTTTGC
1 GGTAATTTTTTTGC
*
23670095 GGTACTTTTTTTGC
1 GGTAATTTTTTTGC
23670109 GG
1 GG
23670111 CATTTATGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.10, C:0.10, G:0.27, T:0.53
Consensus pattern (14 bp):
GGTAATTTTTTTGC
Found at i:23670671 original size:29 final size:29
Alignment explanation
Indices: 23670613--23670671 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 29
23670603 TCATACAAAA
* * *
23670613 TATTAATTGTAAATATTTTTTTACTGAAT
1 TATTAATTATAAATATTTTATTAATGAAT
*
23670642 TATTAA-TATAAATATTTATATTAATTAAT
1 TATTAATTATAAATATTT-TATTAATGAAT
23670671 T
1 T
23670672 TCGGTCAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
28 10 0.40
29 15 0.60
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (29 bp):
TATTAATTATAAATATTTTATTAATGAAT
Found at i:23670693 original size:140 final size:138
Alignment explanation
Indices: 23670440--23670858 Score: 589
Period size: 134 Copynumber: 3.1 Consensus size: 138
23670430 AGAGAACATA
* * *
23670440 AATATAATTAATATATGAATTTGATTCATAAAAAATATTAATTGTATATCTTTTACTAAATTTAT
1 AATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACTGAATTTAT
* * * * *
23670505 CAATATAAATAGTTAGATTAATTAATTTCGGTCAAAATATAAAGGACATGAAAATTATTATTCTT
66 TAATATAAATAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTT
23670570 TTGGAAAG
131 TTGGAAAG
* * * *
23670578 AATATAATTAATGTATCAATTTAATTCATACAAAATATTAATTGTAAATATTTTTTTACTGAA-T
1 AATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGT--ATA-TATTTTACTGAATT
*
23670642 TATTAATATAAATATTTATATTAATTAATTTCGGTCAAAATATAAAAGACAT-AGAAATTAATAT
63 TATTAATATAAATAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGA-AAATTAATAT
*
23670706 TCTTTTAGAAAG
127 TCTTTTGGAAAG
23670718 -A-ATAA-T-ATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACTGAATTTAT
1 AATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACTGAATTTAT
* * * *
23670779 TAATATAAACAAATATATTAATTAATTTCGGTCAAAATATAAAAGATATGGAAATTAATATTCTT
66 TAATATAAATAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTT
*
23670844 TTGGAAAT
131 TTGGAAAG
23670852 AATATAA
1 AATATAA
23670859 ATATTTTTTC
Statistics
Matches: 250, Mismatches: 23, Indels: 18
0.86 0.08 0.06
Matches are distributed among these distances:
133 11 0.04
134 72 0.29
135 1 0.00
136 36 0.14
137 1 0.00
138 45 0.18
139 2 0.01
140 72 0.29
141 10 0.04
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (138 bp):
AATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACTGAATTTAT
TAATATAAATAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTT
TTGGAAAG
Found at i:23672848 original size:40 final size:40
Alignment explanation
Indices: 23672801--23672876 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
23672791 ACACACCACG
* *
23672801 TGGGGATAAAATCGACCCACCCATCCCTACACACCAAATA
1 TGGGGATAAAATCAACCCACCCAACCCTACACACCAAATA
* * *
23672841 TGGGGATAAAATTAACCCATCTAACCCTACACACCA
1 TGGGGATAAAATCAACCCACCCAACCCTACACACCA
23672877 TAAAGTCCCG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.38, C:0.33, G:0.12, T:0.17
Consensus pattern (40 bp):
TGGGGATAAAATCAACCCACCCAACCCTACACACCAAATA
Found at i:23675704 original size:23 final size:23
Alignment explanation
Indices: 23675639--23675704 Score: 73
Period size: 23 Copynumber: 3.0 Consensus size: 23
23675629 CCTGATCAGT
23675639 ATATGACACATAAAGTGCCT-AA
1 ATATGACACATAAAGTGCCTGAA
* ** * *
23675661 A-ACGACACACGAGGTGTCTGAA
1 ATATGACACATAAAGTGCCTGAA
23675683 ATATGACACATAAAGTGCCTGA
1 ATATGACACATAAAGTGCCTGA
23675705 TCGATAAAGC
Statistics
Matches: 32, Mismatches: 10, Indels: 3
0.71 0.22 0.07
Matches are distributed among these distances:
21 13 0.41
22 4 0.12
23 15 0.47
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.20
Consensus pattern (23 bp):
ATATGACACATAAAGTGCCTGAA
Done.