Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 101 of 335
Found at i:32018444 original size:2 final size:2
Alignment explanation
Indices: 32018437--32018472 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
32018427 TGGGATGTAG
* *
32018437 AT AT AT AT AT AT AT AT GT AT AT GT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32018473 GATGGAATGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32023110 original size:23 final size:24
Alignment explanation
Indices: 32023067--32023125 Score: 61
Period size: 23 Copynumber: 2.5 Consensus size: 24
32023057 ATCCCAATAT
*
32023067 TTTTTTCGTTTTGAGTAA-TTTAA-
1 TTTTTTC-TTTTTAGTAATTTTAAC
*
32023090 TTTTTTCTTTTTATGTTATTTTAAC
1 TTTTTTCTTTTTA-GTAATTTTAAC
32023115 TTTTTT-TTTTT
1 TTTTTTCTTTTT
32023126 CATTTTCTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
22 5 0.16
23 10 0.32
24 10 0.32
25 6 0.19
ACGTcount: A:0.15, C:0.05, G:0.07, T:0.73
Consensus pattern (24 bp):
TTTTTTCTTTTTAGTAATTTTAAC
Found at i:32024521 original size:20 final size:21
Alignment explanation
Indices: 32024488--32024531 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
32024478 AAAAATATAG
*
32024488 AAAAATTATTAAATTTTAATA
1 AAAAATTATAAAATTTTAATA
*
32024509 AAAAATTA-AAAATTTTATTA
1 AAAAATTATAAAATTTTAATA
32024529 AAA
1 AAA
32024532 TTAGAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
AAAAATTATAAAATTTTAATA
Found at i:32025405 original size:18 final size:18
Alignment explanation
Indices: 32025382--32025421 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
32025372 ATAAAAATTC
*
32025382 TATATTTCTATATATTTT
1 TATATTTCTATACATTTT
* *
32025400 TATATTTTTTTACATTTT
1 TATATTTCTATACATTTT
32025418 TATA
1 TATA
32025422 AAATTTTACA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.68
Consensus pattern (18 bp):
TATATTTCTATACATTTT
Found at i:32025424 original size:47 final size:49
Alignment explanation
Indices: 32025320--32025429 Score: 122
Period size: 47 Copynumber: 2.3 Consensus size: 49
32025310 TTATAAATTT
* *
32025320 TTTTTAT-GAAATTTATATTTCTTTACATTTTGTATAATTTTCTTACGA
1 TTTTTATAAAAATTTATATTTCTATACATTTTGTATAATTTTCTTACGA
* * *
32025368 -CTTTATAAAAATTCTATATTTCTATATATTTT-TAT-ATTTTTTTAC-A
1 TTTTTATAAAAATT-TATATTTCTATACATTTTGTATAATTTTCTTACGA
*
32025414 TTTTTATAAAATTTTA
1 TTTTTATAAAAATTTA
32025430 CAATTTTTTT
Statistics
Matches: 52, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
46 3 0.06
47 25 0.48
48 8 0.15
49 16 0.31
ACGTcount: A:0.31, C:0.07, G:0.03, T:0.59
Consensus pattern (49 bp):
TTTTTATAAAAATTTATATTTCTATACATTTTGTATAATTTTCTTACGA
Found at i:32025761 original size:92 final size:92
Alignment explanation
Indices: 32025591--32025763 Score: 213
Period size: 92 Copynumber: 1.9 Consensus size: 92
32025581 GTTTGAGGGT
* * * * * ** * *
32025591 CTTTTTGATGCATTTTAAAAGTTTAAGTACCCAATTGAATGCAAAAAAAGTAGGGGCTTAATTAC
1 CTTTTTGATACATTTTAAAAATTTAAGTACCCAAATAAATGAAAAAAAAAAAGGAGCTTAATTAA
*
32025656 TTTTTTTAAAAAAAAAGATTTGAGAAC
66 TTTATTTAAAAAAAAAGATTTGAGAAC
*
32025683 CTTTTTGATACATTTTAAAAATTTAAGTACCCAAATAAAT-AAAAAAGAAAAAGGAGCTTAGTTA
1 CTTTTTGATACATTTTAAAAATTTAAGTACCCAAATAAATGAAAAAA-AAAAAGGAGCTTAATT-
*
32025747 AATTTATTTGAAAAAAA
64 AATTTATTTAAAAAAAA
32025764 TTAAGGGTTC
Statistics
Matches: 67, Mismatches: 12, Indels: 3
0.82 0.15 0.04
Matches are distributed among these distances:
91 5 0.07
92 48 0.72
93 14 0.21
ACGTcount: A:0.45, C:0.09, G:0.13, T:0.34
Consensus pattern (92 bp):
CTTTTTGATACATTTTAAAAATTTAAGTACCCAAATAAATGAAAAAAAAAAAGGAGCTTAATTAA
TTTATTTAAAAAAAAAGATTTGAGAAC
Found at i:32030753 original size:17 final size:17
Alignment explanation
Indices: 32030731--32030768 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
32030721 TGATTTTCAC
32030731 TTATTAGCAAGGTAAAG
1 TTATTAGCAAGGTAAAG
32030748 TTATTAGCAAGGTAAAG
1 TTATTAGCAAGGTAAAG
32030765 TTAT
1 TTAT
32030769 AGCTCCTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.39, C:0.05, G:0.21, T:0.34
Consensus pattern (17 bp):
TTATTAGCAAGGTAAAG
Found at i:32033262 original size:86 final size:86
Alignment explanation
Indices: 32033117--32033274 Score: 271
Period size: 86 Copynumber: 1.8 Consensus size: 86
32033107 ATAAGCCCAA
* *
32033117 CTAGTTAGAAGTAGATCCTCTAAGTTTATTTTAGTTTCCTACTATTCACAAGAACAGTCCTTTGT
1 CTAGTTAGAAGCAGATCCTCTAAGTTCATTTTAGTTTCCTACTATTCACAAGAACAGTCCTTTGT
32033182 AACATGAGATGATCAAAAAAG
66 AACATGAGATGATCAAAAAAG
* *
32033203 CTAGTTAGAAGCAGATCCTCTAAGTTCGTTTTAGTTTCTTACTATTCACAAGAACAGTCCTTTGT
1 CTAGTTAGAAGCAGATCCTCTAAGTTCATTTTAGTTTCCTACTATTCACAAGAACAGTCCTTTGT
*
32033268 AATATGA
66 AACATGA
32033275 TATATCCATC
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
86 67 1.00
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.35
Consensus pattern (86 bp):
CTAGTTAGAAGCAGATCCTCTAAGTTCATTTTAGTTTCCTACTATTCACAAGAACAGTCCTTTGT
AACATGAGATGATCAAAAAAG
Found at i:32035986 original size:37 final size:37
Alignment explanation
Indices: 32035936--32036010 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
32035926 CACATTAGTC
32035936 ATCATACATAATTCATGTATTTATGCAAATATAATTA
1 ATCATACATAATTCATGTATTTATGCAAATATAATTA
32035973 ATCATACATAATTCATGTATTTATGCAAATATAATTA
1 ATCATACATAATTCATGTATTTATGCAAATATAATTA
32036010 A
1 A
32036011 ATACCACTCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.44, C:0.11, G:0.05, T:0.40
Consensus pattern (37 bp):
ATCATACATAATTCATGTATTTATGCAAATATAATTA
Found at i:32039790 original size:27 final size:26
Alignment explanation
Indices: 32039732--32039798 Score: 91
Period size: 27 Copynumber: 2.6 Consensus size: 26
32039722 AAGGAAACAG
*
32039732 ATTATAAATAAATAAATTTAAAAGAA
1 ATTATATATAAATAAATTTAAAAGAA
*
32039758 AATATATATATAATAAATTTAAAAGAA
1 ATTATATATA-AATAAATTTAAAAGAA
*
32039785 TTTATATA-AAATAA
1 ATTATATATAAATAA
32039799 CACGAAATCA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
25 5 0.14
26 9 0.25
27 22 0.61
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (26 bp):
ATTATATATAAATAAATTTAAAAGAA
Found at i:32039796 original size:21 final size:26
Alignment explanation
Indices: 32039734--32039798 Score: 80
Period size: 25 Copynumber: 2.5 Consensus size: 26
32039724 GGAAACAGAT
*
32039734 TATAAATA-AATAAATTTAAAAGAAAA
1 TATATATATAATAAATTTAAAAG-AAA
32039760 TATATATATAATAAATTTAAAAG-AA
1 TATATATATAATAAATTTAAAAGAAA
* *
32039785 TTTATATAAAATAA
1 TATATATATAATAA
32039799 CACGAAATCA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
25 14 0.40
26 7 0.20
27 14 0.40
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (26 bp):
TATATATATAATAAATTTAAAAGAAA
Found at i:32039797 original size:25 final size:26
Alignment explanation
Indices: 32039741--32039798 Score: 82
Period size: 25 Copynumber: 2.2 Consensus size: 26
32039731 GATTATAAAT
32039741 AAATAAATTTAAAAGAAAATATATATA
1 AAATAAATTTAAAAG-AAATATATATA
* *
32039768 TAATAAATTTAAAAG-AATTTATATA
1 AAATAAATTTAAAAGAAATATATATA
32039793 AAATAA
1 AAATAA
32039799 CACGAAATCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 14 0.50
27 14 0.50
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (26 bp):
AAATAAATTTAAAAGAAATATATATA
Found at i:32041701 original size:27 final size:27
Alignment explanation
Indices: 32041663--32041720 Score: 116
Period size: 27 Copynumber: 2.1 Consensus size: 27
32041653 TTTTTTACAG
32041663 TAAGATATTATCCTTGATATAGTAAAA
1 TAAGATATTATCCTTGATATAGTAAAA
32041690 TAAGATATTATCCTTGATATAGTAAAA
1 TAAGATATTATCCTTGATATAGTAAAA
32041717 TAAG
1 TAAG
32041721 GAAATAAAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.36
Consensus pattern (27 bp):
TAAGATATTATCCTTGATATAGTAAAA
Found at i:32042145 original size:20 final size:21
Alignment explanation
Indices: 32042111--32042164 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
32042101 TGATGGTATT
*
32042111 TTATGATTA-TTTAATTAGATA
1 TTAT-ATTATTTTAATGAGATA
32042132 -TATATTATTTTAATGAGATA
1 TTATATTATTTTAATGAGATA
*
32042152 TTTTATTATTTTA
1 TTATATTATTTTA
32042165 TTATTATTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 4 0.14
20 14 0.48
21 11 0.38
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (21 bp):
TTATATTATTTTAATGAGATA
Found at i:32042168 original size:3 final size:3
Alignment explanation
Indices: 32042150--32042198 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
32042140 TTTAATGAGA
*
32042150 TAT T-T TAT TAT T-T TAT TAT TAT T-T CAT TAT TAT T-T TAT TAT TAAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT
32042195 TAT T
1 TAT T
32042199 TAGTATAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
2 7 0.18
3 29 0.74
4 3 0.08
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:32042170 original size:11 final size:11
Alignment explanation
Indices: 32042154--32042192 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
32042144 ATGAGATATT
32042154 TTATTATTTTA
1 TTATTATTTTA
*
32042165 TTATTATTTCA
1 TTATTATTTTA
32042176 TTATTATTTTA
1 TTATTATTTTA
32042187 TTATTA
1 TTATTA
32042193 ATTATTTAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:32042178 original size:19 final size:19
Alignment explanation
Indices: 32042150--32042191 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
32042140 TTTAATGAGA
*
32042150 TATTTTATTATT-TTATTAT
1 TATTTCATTATTATT-TTAT
32042169 TATTTCATTATTATTTTAT
1 TATTTCATTATTATTTTAT
32042188 TATT
1 TATT
32042192 AATTATTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.71
Consensus pattern (19 bp):
TATTTCATTATTATTTTAT
Found at i:32045571 original size:10 final size:10
Alignment explanation
Indices: 32045556--32045582 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
32045546 ATTAAATTGT
32045556 AAAGCATGTA
1 AAAGCATGTA
32045566 AAAGCATGTA
1 AAAGCATGTA
32045576 AAAGCAT
1 AAAGCAT
32045583 TATGCGAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.52, C:0.11, G:0.19, T:0.19
Consensus pattern (10 bp):
AAAGCATGTA
Found at i:32047351 original size:20 final size:21
Alignment explanation
Indices: 32047317--32047370 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
32047307 TGATGATATT
*
32047317 TTATGATTA-TTTAATTAGATA
1 TTAT-ATTATTTTAATGAGATA
32047338 -TATATTATTTTAATGAGATA
1 TTATATTATTTTAATGAGATA
*
32047358 TTTTATTATTTTA
1 TTATATTATTTTA
32047371 TTATTAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 4 0.14
20 14 0.48
21 11 0.38
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (21 bp):
TTATATTATTTTAATGAGATA
Found at i:32055651 original size:18 final size:18
Alignment explanation
Indices: 32055630--32055664 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
32055620 TATTTATTTA
* *
32055630 GTAACAGTCAGTTATTCG
1 GTAACAATCAATTATTCG
32055648 GTAACAATCAATTATTC
1 GTAACAATCAATTATTC
32055665 AATAATAACC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.34
Consensus pattern (18 bp):
GTAACAATCAATTATTCG
Found at i:32055663 original size:36 final size:36
Alignment explanation
Indices: 32055623--32055893 Score: 172
Period size: 36 Copynumber: 7.3 Consensus size: 36
32055613 GAATAGTTAT
* *
32055623 TTATTTAGTAACAGTCAGTTATTCGGTAACAATCAA
1 TTATTCAGTAACAGTCAGTTATTCAGTAACAATCAA
* * ** * *
32055659 TTATTCAATAATAACCAGTTATTCAGTATCGATCAA
1 TTATTCAGTAACAGTCAGTTATTCAGTAACAATCAA
* *
32055695 TTGATCGGTTATCCGGTAACAGTCAATTATTCAGTAA-AATCAGA
1 TT-A-----T-T-CAGTAACAGTCAGTTATTCAGTAACAATCA-A
* * * *
32055739 -TATTCAGTAACTATTAAGTTATTCAGTAGCAGTC-A
1 TTATTCAGTAAC-AGTCAGTTATTCAGTAACAATCAA
* * **
32055774 TTCATTCAGTGACAATCAGTTATTCAGTAATGATCAA
1 TT-ATTCAGTAACAGTCAGTTATTCAGTAACAATCAA
* * *
32055811 TTATTCAGTAATATTCAGTTATTCAGTAACAGTCCAA
1 TTATTCAGTAACAGTCAGTTATTCAGTAACAAT-CAA
* * * * *
32055848 -TATCCAGTAACAGTCAATTATCCGGTAACAGTCAA
1 TTATTCAGTAACAGTCAGTTATTCAGTAACAATCAA
32055883 TTATTCAGTAA
1 TTATTCAGTAA
32055894 TAATAAGTTA
Statistics
Matches: 177, Mismatches: 42, Indels: 32
0.71 0.17 0.13
Matches are distributed among these distances:
35 10 0.06
36 121 0.68
37 20 0.11
42 2 0.01
43 6 0.03
44 18 0.10
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (36 bp):
TTATTCAGTAACAGTCAGTTATTCAGTAACAATCAA
Found at i:32055731 original size:18 final size:18
Alignment explanation
Indices: 32055710--32055893 Score: 155
Period size: 18 Copynumber: 10.2 Consensus size: 18
32055700 CGGTTATCCG
32055710 GTAACAGTCAATTATTCA
1 GTAACAGTCAATTATTCA
*
32055728 GTAA-AATCAGA-TATTCA
1 GTAACAGTCA-ATTATTCA
*
32055745 GTAACTA-TTAAGTTATTCA
1 GTAAC-AGTCAA-TTATTCA
*
32055764 GTAGCAGTC-ATTCATTCA
1 GTAACAGTCAATT-ATTCA
* * *
32055782 GTGACAATCAGTTATTCA
1 GTAACAGTCAATTATTCA
*
32055800 GTAA-TGATCAATTATTCA
1 GTAACAG-TCAATTATTCA
* * *
32055818 GTAATATTCAGTTATTCA
1 GTAACAGTCAATTATTCA
*
32055836 GTAACAGTCCAA-TATCCA
1 GTAACAGT-CAATTATTCA
* *
32055854 GTAACAGTCAATTATCCG
1 GTAACAGTCAATTATTCA
32055872 GTAACAGTCAATTATTCA
1 GTAACAGTCAATTATTCA
32055890 GTAA
1 GTAA
32055894 TAATAAGTTA
Statistics
Matches: 132, Mismatches: 22, Indels: 24
0.74 0.12 0.13
Matches are distributed among these distances:
17 20 0.15
18 96 0.73
19 16 0.12
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (18 bp):
GTAACAGTCAATTATTCA
Found at i:32055838 original size:72 final size:71
Alignment explanation
Indices: 32055704--32055905 Score: 219
Period size: 72 Copynumber: 2.8 Consensus size: 71
32055694 ATTGATCGGT
* * *
32055704 TATCCGGTAACAGTCAATTATTCAGTAAAATCAGA-TATTCAGTAACTATTAAGTTATTCAGTAG
1 TATCCAGTAACAATCAATTATTCAGTAAAATCA-ATTATTCAGTAA-TATTAAGTTATTCAGTAA
*
32055768 CAGT-CAT
64 CAGTCCAA
* * * * *
32055775 TCATTCAGTGACAATCAGTTATTCAGTAATGATCAATTATTCAGTAATATTCAGTTATTCAGTAA
1 T-ATCCAGTAACAATCAATTATTCAGTAA-AATCAATTATTCAGTAATATTAAGTTATTCAGTAA
32055840 CAGTCCAA
64 CAGTCCAA
* * * * *
32055848 TATCCAGTAACAGTCAATTATCCGGTAACAGTCAATTATTCAGTAATAATAAGTTATT
1 TATCCAGTAACAATCAATTATTCAGTAA-AATCAATTATTCAGTAATATTAAGTTATT
32055906 TTATACCTTT
Statistics
Matches: 107, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
71 1 0.01
72 89 0.83
73 17 0.16
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (71 bp):
TATCCAGTAACAATCAATTATTCAGTAAAATCAATTATTCAGTAATATTAAGTTATTCAGTAACA
GTCCAA
Found at i:32056139 original size:45 final size:45
Alignment explanation
Indices: 32056079--32056228 Score: 221
Period size: 45 Copynumber: 3.3 Consensus size: 45
32056069 AATAGTAACA
* * * *
32056079 GTAACAGTAATAGTAACAGTATTCAACACACAAAGTGCTGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACACAGTGCTGAATCG
*
32056124 GTAACGGTAACAGTAACAATATTCGACACACACAGTG-TCGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACACAGTGCT-GAATCG
* *
32056169 GTAACGGTAACAGTAACAATATTCGACACACACAGTGCCGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACACAGTGCTGAATCG
32056214 GTAACAGTAACAGTA
1 GTAACAGTAACAGTA
32056229 GCGTTAATAG
Statistics
Matches: 96, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
44 1 0.01
45 95 0.99
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.20
Consensus pattern (45 bp):
GTAACAGTAACAGTAACAATATTCGACACACACAGTGCTGAATCG
Found at i:32056648 original size:5 final size:5
Alignment explanation
Indices: 32056637--32056688 Score: 59
Period size: 5 Copynumber: 10.2 Consensus size: 5
32056627 AATTAATCAT
* * * *
32056637 AATTC CATTC CATTC CATTC AATTC AATTC AATTC AACTC AATTC AAATTC
1 AATTC AATTC AATTC AATTC AATTC AATTC AATTC AATTC AATTC -AATTC
32056688 A
1 A
32056689 CTTTTCCACT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
5 37 0.88
6 5 0.12
ACGTcount: A:0.37, C:0.27, G:0.00, T:0.37
Consensus pattern (5 bp):
AATTC
Found at i:32058108 original size:23 final size:23
Alignment explanation
Indices: 32058078--32058130 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
32058068 ATTTCTTTAT
32058078 TTTATTA-TTAAACTAT-TATAATA
1 TTTATTATTTAAAC-ATGTAT-ATA
*
32058101 TTTATTATTTATACATGTATATA
1 TTTATTATTTAAACATGTATATA
32058124 TTTATTA
1 TTTATTA
32058131 ATACACATGT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 19 0.70
24 8 0.30
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.57
Consensus pattern (23 bp):
TTTATTATTTAAACATGTATATA
Found at i:32058141 original size:22 final size:23
Alignment explanation
Indices: 32058098--32058150 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
32058088 AACTATTATA
* *
32058098 ATATTTATTATTTATACATGTAT
1 ATATTTATTATATACACATGTAT
32058121 ATATTTATTA-ATACACATGTAT
1 ATATTTATTATATACACATGTAT
32058143 -TAATTTAT
1 AT-ATTTAT
32058151 CACCTTACAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 1 0.04
22 16 0.59
23 10 0.37
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.53
Consensus pattern (23 bp):
ATATTTATTATATACACATGTAT
Found at i:32059377 original size:2 final size:2
Alignment explanation
Indices: 32059370--32059402 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
32059360 AGCCATTTGC
32059370 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
32059403 ACCAAATCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:32078826 original size:30 final size:30
Alignment explanation
Indices: 32078792--32078851 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
32078782 ATTTAATACG
32078792 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
32078822 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
32078852 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:32084896 original size:20 final size:20
Alignment explanation
Indices: 32084868--32084910 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
32084858 AATACAAATG
* *
32084868 AAAACTTATAATTATTTTTT
1 AAAACTTATAATGAATTTTT
* *
32084888 AAAATTTATTATGAATTTTT
1 AAAACTTATAATGAATTTTT
32084908 AAA
1 AAA
32084911 GTCAGAACAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (20 bp):
AAAACTTATAATGAATTTTT
Found at i:32086360 original size:30 final size:30
Alignment explanation
Indices: 32086326--32086385 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
32086316 ATTTAATACG
32086326 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
32086356 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
32086386 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:32092978 original size:18 final size:18
Alignment explanation
Indices: 32092950--32093013 Score: 74
Period size: 18 Copynumber: 3.6 Consensus size: 18
32092940 GAACAATTAT
* *
32092950 TTATTTAGTAATAGTCAG
1 TTATTCAGTAATAATCAG
* * *
32092968 TTATTCGGTAACAATCAA
1 TTATTCAGTAATAATCAG
*
32092986 TTATTCAATAATAATCAG
1 TTATTCAGTAATAATCAG
32093004 TTATTCAGTA
1 TTATTCAGTA
32093014 TCAATCAACT
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.41
Consensus pattern (18 bp):
TTATTCAGTAATAATCAG
Found at i:32093095 original size:19 final size:19
Alignment explanation
Indices: 32092968--32093097 Score: 70
Period size: 18 Copynumber: 6.7 Consensus size: 19
32092958 TAATAGTCAG
*
32092968 TTATTCGGTAACAATC-AA
1 TTATTCAGTAACAATCAAA
* * *
32092986 TTATTCAATAATAATC-AG
1 TTATTCAGTAACAATCAAA
*
32093004 TTATTCAGTATCAATCAACTGA
1 TTATTCAGTAACAATCAA---A
* *
32093026 TCGGTTATCCAGTAACAGTC-AA
1 ----TTATTCAGTAACAATCAAA
* *
32093048 TTATTCAGTAAAAATCAGA
1 TTATTCAGTAACAATCAAA
* *
32093067 -TATACAGTAACAATTAAA
1 TTATTCAGTAACAATCAAA
32093085 TTATTCAGTAACA
1 TTATTCAGTAACA
32093098 GTCTATCTTT
Statistics
Matches: 82, Mismatches: 20, Indels: 19
0.68 0.17 0.16
Matches are distributed among these distances:
18 54 0.66
19 13 0.16
22 1 0.01
25 1 0.01
26 13 0.16
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (19 bp):
TTATTCAGTAACAATCAAA
Found at i:32093343 original size:45 final size:45
Alignment explanation
Indices: 32093271--32093379 Score: 164
Period size: 45 Copynumber: 2.4 Consensus size: 45
32093261 ACAAATCTGA
* *
32093271 AACAGTAACAGTAACAGTATTCAACACACAAATTGCTGAATCGAT
1 AACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGAT
* * *
32093316 AACGGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGGT
1 AACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGAT
*
32093361 AACAGTAACGGTAACAGTA
1 AACAGTAACAGTAACAGTA
32093380 ATAGTAGTCG
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 57 1.00
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.19
Consensus pattern (45 bp):
AACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGAT
Found at i:32094441 original size:4 final size:4
Alignment explanation
Indices: 32094428--32094467 Score: 57
Period size: 4 Copynumber: 10.5 Consensus size: 4
32094418 TGAATTTTCC
*
32094428 CTTT -TTT CTTT CTTT C-TC CTTT CTTT CTTT CTTT CTTT CT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CT
32094468 CTGCTTTTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
3 5 0.16
4 27 0.84
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (4 bp):
CTTT
Found at i:32094456 original size:19 final size:18
Alignment explanation
Indices: 32094423--32094463 Score: 66
Period size: 19 Copynumber: 2.3 Consensus size: 18
32094413 AACCTTGAAT
32094423 TTTC-CCTTTTTTCTTTC
1 TTTCTCCTTTTTTCTTTC
32094440 TTTCTCCTTTCTTTCTTTC
1 TTTCTCCTTT-TTTCTTTC
32094459 TTTCT
1 TTTCT
32094464 TTCTCTGCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 4 0.18
18 5 0.23
19 13 0.59
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTCTCCTTTTTTCTTTC
Found at i:32094541 original size:2 final size:2
Alignment explanation
Indices: 32094536--32094568 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
32094526 ATTAAACCAT
32094536 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
32094569 ATAACTTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:32095954 original size:17 final size:17
Alignment explanation
Indices: 32095932--32095984 Score: 61
Period size: 17 Copynumber: 3.0 Consensus size: 17
32095922 TATGAAAAGA
*
32095932 TAATCTTCGAATATATG
1 TAATCTTAGAATATATG
*
32095949 TAATCTTAGATGTGATATG
1 TAATCTTAGA-AT-ATATG
*
32095968 TAATATTAGAATATATG
1 TAATCTTAGAATATATG
32095985 ATTCTGTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
17 14 0.47
18 2 0.07
19 14 0.47
ACGTcount: A:0.38, C:0.06, G:0.15, T:0.42
Consensus pattern (17 bp):
TAATCTTAGAATATATG
Found at i:32097797 original size:26 final size:23
Alignment explanation
Indices: 32097748--32097797 Score: 55
Period size: 23 Copynumber: 2.0 Consensus size: 23
32097738 CTCCAAAAAA
* *
32097748 AAAAAAAGAATCTGAATTCCATG
1 AAAAAAAGAATCTGAAATCAATG
32097771 AAAAAAAGAATCTAGAACATCTAATG
1 AAAAAAAGAATCT-GAA-ATC-AATG
32097797 A
1 A
32097798 CCTAGCCAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 13 0.59
24 3 0.14
25 2 0.09
26 4 0.18
ACGTcount: A:0.56, C:0.12, G:0.12, T:0.20
Consensus pattern (23 bp):
AAAAAAAGAATCTGAAATCAATG
Found at i:32101829 original size:2 final size:2
Alignment explanation
Indices: 32101822--32101849 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
32101812 TTGTCATTAT
32101822 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
32101850 AAATGTCCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:32107657 original size:3 final size:3
Alignment explanation
Indices: 32107639--32107771 Score: 60
Period size: 3 Copynumber: 42.3 Consensus size: 3
32107629 TTATCATTGG
*
32107639 TAT T-T TAT TAT CTAT TAT TAT CAT TAT TAT TATT TAT TCAT CTATT
1 TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TA-T TAT T-AT -TA-T
* * * * *
32107685 TATT TAT TACC CAT TTT GTACT TA- TAT ATAT TAT TCT GAT T-T CTAT
1 TA-T TAT TA-T TAT TAT -TA-T TAT TAT -TAT TAT TAT TAT TAT -TAT
* *
32107731 TAT TAT TTT TAT TAT TTT TAT TAT T-T TAT TAT T-T TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
32107772 TGTTTGTACA
Statistics
Matches: 99, Mismatches: 16, Indels: 30
0.68 0.11 0.21
Matches are distributed among these distances:
2 9 0.09
3 64 0.65
4 23 0.23
5 3 0.03
ACGTcount: A:0.26, C:0.08, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:32107669 original size:27 final size:30
Alignment explanation
Indices: 32107628--32107684 Score: 75
Period size: 27 Copynumber: 2.0 Consensus size: 30
32107618 CTATGTCTTC
*
32107628 ATTATCATTGGTA-T-TTTATT-ATCTATT
1 ATTATCATTAGTATTATTTATTCATCTATT
*
32107655 ATTATCATTATTATTATTTATTCATCTATT
1 ATTATCATTAGTATTATTTATTCATCTATT
32107685 TATTTATTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 11 0.44
28 1 0.04
29 6 0.24
30 7 0.28
ACGTcount: A:0.28, C:0.09, G:0.04, T:0.60
Consensus pattern (30 bp):
ATTATCATTAGTATTATTTATTCATCTATT
Found at i:32107685 original size:12 final size:11
Alignment explanation
Indices: 32107642--32107688 Score: 57
Period size: 10 Copynumber: 4.5 Consensus size: 11
32107632 TCATTGGTAT
32107642 TTTATTATCTA
1 TTTATTATCTA
32107653 -TTATTATC-A
1 TTTATTATCTA
32107662 -TTATTAT-TA
1 TTTATTATCTA
32107671 TTTATTCATCTA
1 TTTATT-ATCTA
32107683 TTTATT
1 TTTATT
32107689 TATTACCCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
9 9 0.28
10 13 0.41
11 2 0.06
12 8 0.25
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.64
Consensus pattern (11 bp):
TTTATTATCTA
Found at i:32107744 original size:9 final size:9
Alignment explanation
Indices: 32107730--32107772 Score: 72
Period size: 9 Copynumber: 5.0 Consensus size: 9
32107720 CTGATTTCTA
32107730 TTATTATTT
1 TTATTATTT
32107739 TTATTATTT
1 TTATTATTT
32107748 TTATTA-TT
1 TTATTATTT
32107756 TTATTA-TT
1 TTATTATTT
32107764 TTATTATTT
1 TTATTATTT
32107773 GTTTGTACAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
8 16 0.48
9 17 0.52
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (9 bp):
TTATTATTT
Found at i:32107757 original size:8 final size:8
Alignment explanation
Indices: 32107730--32107772 Score: 68
Period size: 8 Copynumber: 5.1 Consensus size: 8
32107720 CTGATTTCTA
32107730 TTATTATTT
1 TTATTA-TT
32107739 TTATTATTT
1 TTATTA-TT
32107748 TTATTATT
1 TTATTATT
32107756 TTATTATT
1 TTATTATT
32107764 TTATTATT
1 TTATTATT
32107772 T
1 T
32107773 GTTTGTACAT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
8 19 0.56
9 15 0.44
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (8 bp):
TTATTATT
Found at i:32108873 original size:35 final size:35
Alignment explanation
Indices: 32108827--32108896 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
32108817 AAAATCAAAT
32108827 CGACCGTTTTCAAAAAATGGTTTCGACAGTTGCCC
1 CGACCGTTTTCAAAAAATGGTTTCGACAGTTGCCC
32108862 CGACCGTTTTCAAAAAATGGTTTCGACAGTTGCCC
1 CGACCGTTTTCAAAAAATGGTTTCGACAGTTGCCC
32108897 TTACCCATTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.29
Consensus pattern (35 bp):
CGACCGTTTTCAAAAAATGGTTTCGACAGTTGCCC
Found at i:32108986 original size:32 final size:32
Alignment explanation
Indices: 32108945--32109027 Score: 166
Period size: 32 Copynumber: 2.6 Consensus size: 32
32108935 TTCAACATCC
32108945 AACAAGCTTAAAACATAATAAATCCAATATCT
1 AACAAGCTTAAAACATAATAAATCCAATATCT
32108977 AACAAGCTTAAAACATAATAAATCCAATATCT
1 AACAAGCTTAAAACATAATAAATCCAATATCT
32109009 AACAAGCTTAAAACATAAT
1 AACAAGCTTAAAACATAAT
32109028 CAATATCTAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 51 1.00
ACGTcount: A:0.54, C:0.18, G:0.04, T:0.24
Consensus pattern (32 bp):
AACAAGCTTAAAACATAATAAATCCAATATCT
Found at i:32109052 original size:27 final size:27
Alignment explanation
Indices: 32108969--32109040 Score: 81
Period size: 32 Copynumber: 2.5 Consensus size: 27
32108959 ATAATAAATC
*
32108969 CAATATCTAACAAGCTTAAAACATAATAAAT
1 CAATATCTAACAAGATTAAAAC---AT-AAT
*
32109000 CCAATATCTAACAAGCTTAAAACATAAT
1 -CAATATCTAACAAGATTAAAACATAAT
32109028 CAATATCTAACAA
1 CAATATCTAACAA
32109041 ATTCAAGACA
Statistics
Matches: 40, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
27 13 0.32
28 3 0.08
29 2 0.05
32 22 0.55
ACGTcount: A:0.53, C:0.19, G:0.03, T:0.25
Consensus pattern (27 bp):
CAATATCTAACAAGATTAAAACATAAT
Found at i:32109072 original size:59 final size:62
Alignment explanation
Indices: 32108933--32109072 Score: 153
Period size: 59 Copynumber: 2.3 Consensus size: 62
32108923 ATTGTCAATC
* *
32108933 ATTTCAACATCCAACAAGCTTAAAACATAATAAATCCAATATCTAACAAGCTTAAAACATAATA
1 ATTTCAAAATCCAACAAGCTTAAAAC--AATAAATCCAATATCTAACAAGATTAAAACATAATA
* * * * * *
32108997 AATCCAATATCTAACAAGCTTAAAAC-AT-AAT-CAATATCTAACAA-ATTCAAGACATATTA
1 ATTTCAAAATCCAACAAGCTTAAAACAATAAATCCAATATCTAACAAGATT-AAAACATAATA
32109056 ATTTCAAAATCCAACAA
1 ATTTCAAAATCCAACAA
32109073 ACTAAAATTT
Statistics
Matches: 64, Mismatches: 11, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
58 2 0.03
59 35 0.55
60 3 0.05
61 2 0.03
64 22 0.34
ACGTcount: A:0.51, C:0.20, G:0.03, T:0.26
Consensus pattern (62 bp):
ATTTCAAAATCCAACAAGCTTAAAACAATAAATCCAATATCTAACAAGATTAAAACATAATA
Found at i:32109268 original size:18 final size:15
Alignment explanation
Indices: 32109224--32109277 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 15
32109214 AAACCCTAGC
32109224 CCCAAAACCCAACAA
1 CCCAAAACCCAACAA
32109239 CCCACTAAACCCAACAGAA
1 CCCA--AAACCCAAC--AA
32109258 GCCCAAAACCCAACTAA
1 -CCCAAAACCCAAC-AA
32109275 CCC
1 CCC
32109278 TTAACCCCAT
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
15 4 0.12
16 3 0.09
17 11 0.33
18 9 0.27
19 2 0.06
20 4 0.12
ACGTcount: A:0.46, C:0.46, G:0.04, T:0.04
Consensus pattern (15 bp):
CCCAAAACCCAACAA
Found at i:32112333 original size:22 final size:21
Alignment explanation
Indices: 32112283--32112333 Score: 50
Period size: 22 Copynumber: 2.3 Consensus size: 21
32112273 TAATAAAGAT
32112283 AAAAATATATACATAAAATAG
1 AAAAATATATACATAAAATAG
* *
32112304 TAATAATATATATATAACTAATA-
1 -AAAAATATATACATAA--AATAG
32112327 AAAAATA
1 AAAAATA
32112334 AAAATAAAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
22 20 0.83
24 4 0.17
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (21 bp):
AAAAATATATACATAAAATAG
Found at i:32112476 original size:19 final size:21
Alignment explanation
Indices: 32112448--32112505 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
32112438 ACATATATAT
* **
32112448 AAATATATATAATGGTATTAG
1 AAATATATATAGTAATATTAG
32112469 AAATATATATAGTAATATTAG
1 AAATATATATAGTAATATTAG
*
32112490 AAATATACAT-GTAATA
1 AAATATATATAGTAATA
32112506 GTTCAAAAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
20 6 0.18
21 27 0.82
ACGTcount: A:0.52, C:0.02, G:0.10, T:0.36
Consensus pattern (21 bp):
AAATATATATAGTAATATTAG
Found at i:32113440 original size:15 final size:16
Alignment explanation
Indices: 32113420--32113449 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
32113410 GCTGAAGAAG
32113420 AAAAAAAGAA-AAAAA
1 AAAAAAAGAAGAAAAA
32113435 AAAAAAAGAAGAAAA
1 AAAAAAAGAAGAAAA
32113450 GAAGAAAGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (16 bp):
AAAAAAAGAAGAAAAA
Found at i:32113456 original size:8 final size:8
Alignment explanation
Indices: 32113417--32113452 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
32113407 GCAGCTGAAG
32113417 AAGAAAAA
1 AAGAAAAA
32113425 AAGAAAAA
1 AAGAAAAA
32113433 AA-AAAAA
1 AAGAAAAA
*
32113440 AAGAAGAA
1 AAGAAAAA
32113448 AAGAA
1 AAGAA
32113453 GAAAGGGGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
7 7 0.27
8 19 0.73
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (8 bp):
AAGAAAAA
Found at i:32113842 original size:26 final size:26
Alignment explanation
Indices: 32113805--32113888 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
32113795 TGATACAAAT
* *
32113805 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
32113831 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
32113857 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
32113883 TGATAA
1 TGATAA
32113889 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:32118055 original size:58 final size:58
Alignment explanation
Indices: 32117930--32118081 Score: 229
Period size: 58 Copynumber: 2.7 Consensus size: 58
32117920 AAAAGCAGAT
* *
32117930 AAGGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTGAAAAACATGAATTTA
1 AAGGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAACATAAATTGA
* *
32117985 AAAGGATCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAACATAAATTGA
1 AAGGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAACATAAATTGA
* *
32118043 AAGGGCTTAACTCACCTCTCGCAATATGACTTGATTTTT
1 AAGGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
32118082 GAAAGGTAGA
Statistics
Matches: 86, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
55 32 0.37
58 54 0.63
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (58 bp):
AAGGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAACATAAATTGA
Found at i:32118277 original size:55 final size:55
Alignment explanation
Indices: 32118194--32118366 Score: 285
Period size: 56 Copynumber: 3.1 Consensus size: 55
32118184 GAAAAGTAGA
* *
32118194 TTTTGAAAAACA-GAAATTAAAATGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 TTTTGAAAAACATGAATTTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
32118248 TTTTGAAAAACATGAATTTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
1 TTTTGAAAAACATGAATTTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGA-T
* * *
32118304 TTTTGAAAAACATAAATTGAAAGGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 TTTTGAAAAACATGAATTTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
32118359 TTTTGAAA
1 TTTTGAAA
32118367 GGTAGAAATT
Statistics
Matches: 112, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
54 12 0.11
55 48 0.43
56 52 0.46
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.31
Consensus pattern (55 bp):
TTTTGAAAAACATGAATTTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
Found at i:32118333 original size:56 final size:54
Alignment explanation
Indices: 32118194--32118366 Score: 283
Period size: 55 Copynumber: 3.1 Consensus size: 54
32118184 GAAAAGTAGA
* *
32118194 TTTTGAAAAACAGAAATTAAAATGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 TTTTGAAAAACATAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
32118248 TTTTGAAAAACATGAATTTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
1 TTTTGAAAAACAT-AAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGA-T
*
32118304 TTTTGAAAAACATAAATTGAAAGGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 TTTTGAAAAACATAAATT-AAAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
32118359 TTTTGAAA
1 TTTTGAAA
32118367 GGTAGAAATT
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
54 12 0.11
55 51 0.46
56 48 0.43
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.31
Consensus pattern (54 bp):
TTTTGAAAAACATAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
Found at i:32118512 original size:167 final size:168
Alignment explanation
Indices: 32118305--32118615 Score: 480
Period size: 167 Copynumber: 1.9 Consensus size: 168
32118295 GAGTTGATTT
* * ***
32118305 TTTGAAAAACATAAATTGAAAGGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAGGT
1 TTTGAAAAACAGAAATTGAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC
* * * * *
32118370 AGAAATTGAAAAAAAAAATGGAAATTACCTCAGCATGTCCTGAGGCTCAACTCATCTCTCGCAAT
66 AGAAATTGAAAAAAAAAATGGAAAATACCTCAACATGCCCCGAGGCTCAACTCACCTCTCGCAAT
*
32118435 ATGAGTTGATTTTTTTGAAACTTGATTTGAAAAGTAGA
131 ATGAATTGATTTTTTTGAAACTTGATTTGAAAAGTAGA
32118473 TTTGAAAAACAGAAATT-AAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC
1 TTTGAAAAACAGAAATTGAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC
* * * *
32118537 AGAAATTGAAAACAGAAATTGAAAATACCTCAACGTGCCCCGAGGCTCAACTCACCTCTCGCAAT
66 AGAAATTGAAAAAAAAAATGGAAAATACCTCAACATGCCCCGAGGCTCAACTCACCTCTCGCAAT
32118602 ATGAATTGATTTTT
131 ATGAATTGATTTTT
32118616 GAAAAACAGA
Statistics
Matches: 128, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
167 112 0.88
168 16 0.12
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (168 bp):
TTTGAAAAACAGAAATTGAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC
AGAAATTGAAAAAAAAAATGGAAAATACCTCAACATGCCCCGAGGCTCAACTCACCTCTCGCAAT
ATGAATTGATTTTTTTGAAACTTGATTTGAAAAGTAGA
Found at i:32118547 original size:14 final size:14
Alignment explanation
Indices: 32118528--32118561 Score: 61
Period size: 13 Copynumber: 2.5 Consensus size: 14
32118518 GAGTTGATTT
32118528 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
32118542 TTG-AAAACAGAAA
1 TTGAAAAACAGAAA
32118555 TTGAAAA
1 TTGAAAA
32118562 TACCTCAACG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.62, C:0.06, G:0.15, T:0.18
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:32118611 original size:86 final size:85
Alignment explanation
Indices: 32118327--32118633 Score: 304
Period size: 86 Copynumber: 3.6 Consensus size: 85
32118317 AAATTGAAAG
*** * *
32118327 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAGGTAGAAATTGAAAAAAAAAATGGA
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAAAGAAATTGA
* * *
32118392 AATTACCTCAGCATGTCCTGA
66 AAATACCTCAACATG-CCAGA
* *** * * * *
32118413 GGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTTTGAAACTTG-ATTTGAAAAGTAG-ATTT
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC-AGAAATTGAAAA-AAGAAATT
** ** *
32118476 GAAAA-A-CAGAA-AT-TAAAA
64 GAAAATACCTCAACATGCCAGA
*
32118494 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAACAGAAATTGA
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAAAGAAATTGA
* *
32118559 AAATACCTCAACGTGCCCCGA
66 AAATACCTCAACATG-CCAGA
*
32118580 GGCTCAACTCACCTCTCGCAATATGAATTGATTTTTGAAAAACAGAAATT-AAAA
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAA
32118634 TAGCAAAATA
Statistics
Matches: 175, Mismatches: 37, Indels: 19
0.76 0.16 0.08
Matches are distributed among these distances:
80 3 0.02
81 56 0.32
82 1 0.01
83 5 0.03
84 3 0.02
85 5 0.03
86 100 0.57
87 2 0.01
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (85 bp):
GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAAAGAAATTGA
AAATACCTCAACATGCCAGA
Found at i:32119515 original size:43 final size:44
Alignment explanation
Indices: 32119450--32119567 Score: 150
Period size: 45 Copynumber: 2.7 Consensus size: 44
32119440 TGTGTTAATC
* **
32119450 AAGACGCCCTTTTCGGATTTTCACCTTGAT-CCCTTTTTTTTTTT
1 AAGATGCCC-TTTCGGATTTTCACCTTGATCCCCCCTTTTTTTTT
*
32119494 AAGATGCCCTTTCGGATTTTCACCATGATCCCCCCCTTTTTTTTT
1 AAGATGCCCTTTCGGATTTTCACCTTGAT-CCCCCCTTTTTTTTT
*
32119539 AAGATGCCCTTTC-GAGTTTTCATCTTGAT
1 AAGATGCCCTTTCGGA-TTTTCACCTTGAT
32119568 TTTCTTTTTT
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
43 19 0.29
44 10 0.15
45 36 0.55
ACGTcount: A:0.16, C:0.26, G:0.13, T:0.45
Consensus pattern (44 bp):
AAGATGCCCTTTCGGATTTTCACCTTGATCCCCCCTTTTTTTTT
Found at i:32129617 original size:27 final size:27
Alignment explanation
Indices: 32129585--32129638 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
32129575 TTACATTTAC
32129585 TTATGCCTATGCGGAGGGACAAGTTAA
1 TTATGCCTATGCGGAGGGACAAGTTAA
32129612 TTATGCCTATGCGGAGGGACAAGTTAA
1 TTATGCCTATGCGGAGGGACAAGTTAA
32129639 CTCACGAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.26
Consensus pattern (27 bp):
TTATGCCTATGCGGAGGGACAAGTTAA
Found at i:32131013 original size:19 final size:21
Alignment explanation
Indices: 32130985--32131042 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
32130975 ACATATATAT
* **
32130985 AAATATATATAATGGTATTAG
1 AAATATATATAGTAATATTAG
32131006 AAATATATATAGTAATATTAG
1 AAATATATATAGTAATATTAG
*
32131027 AAATATACAT-GTAATA
1 AAATATATATAGTAATA
32131043 GTTCAAAAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
20 6 0.18
21 27 0.82
ACGTcount: A:0.52, C:0.02, G:0.10, T:0.36
Consensus pattern (21 bp):
AAATATATATAGTAATATTAG
Found at i:32131129 original size:33 final size:32
Alignment explanation
Indices: 32131065--32131129 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 32
32131055 TATGACTAAC
32131065 AATATTAAAACATATACATAATAATACACATAA
1 AATATTAAAACATATACATAATAATA-ACATAA
*
32131098 AATATTAAAAGCATATATATATATAAT-ACATA
1 AATATTAAAA-CATATACATA-ATAATAACATA
32131130 TGAAAGAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 15 0.52
34 9 0.31
35 5 0.17
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.31
Consensus pattern (32 bp):
AATATTAAAACATATACATAATAATAACATAA
Found at i:32132107 original size:25 final size:23
Alignment explanation
Indices: 32132071--32132120 Score: 57
Period size: 25 Copynumber: 2.1 Consensus size: 23
32132061 TGAGAGGTAA
32132071 TTTTTTTATATA-TATTTTTAAAT
1 TTTTTTTATATAGT-TTTTTAAAT
*
32132094 TTTTTTTATTTATAGTTTTTTAGAT
1 TTTTTTTA--TATAGTTTTTTAAAT
32132119 TT
1 TT
32132121 GTAATACTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 8 0.35
25 14 0.61
26 1 0.04
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (23 bp):
TTTTTTTATATAGTTTTTTAAAT
Found at i:32135583 original size:64 final size:64
Alignment explanation
Indices: 32135510--32135720 Score: 142
Period size: 64 Copynumber: 3.2 Consensus size: 64
32135500 CTGGGCCAGA
*
32135510 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
* * * *** * ** *
32135574 GCCCATTTCAAAATAC-ATGCAACATCAGTAAACATACGCAAGCCC--ATTTGGGTAACAGTGGT
1 GCCCATTTCAGATTACAAT--AA-A-CTG-GGCCTTA-GC---CCCTTATTCAGATAACA---GT
* *
32135636 ACTGGGCCAGA-
54 A-TGGCCCATAG
* *
32135647 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATCCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
32135711 GCCCATTTCA
1 GCCCATTTCA
32135721 AAATACATGC
Statistics
Matches: 102, Mismatches: 28, Indels: 34
0.62 0.17 0.21
Matches are distributed among these distances:
63 9 0.09
64 25 0.25
65 5 0.05
66 1 0.01
67 10 0.10
68 5 0.05
69 5 0.05
70 11 0.11
71 1 0.01
72 5 0.05
73 16 0.16
74 9 0.09
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:32135722 original size:137 final size:137
Alignment explanation
Indices: 32135476--32135762 Score: 538
Period size: 137 Copynumber: 2.1 Consensus size: 137
32135466 TATTGGGCCT
**
32135476 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
32135541 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATCCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
32135606 CATACGC
131 CATACGC
32135613 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
32135678 AGCCCCTTATCCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATCCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
*
32135743 CATATGC
131 CATACGC
32135750 AAGCCCATTTGGG
1 AAGCCCATTTGGG
32135763 GAGACTACTC
Statistics
Matches: 146, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 146 1.00
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATCCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATACGC
Found at i:32136047 original size:25 final size:27
Alignment explanation
Indices: 32136010--32136063 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
32136000 TCAAACATGC
32136010 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
* **
32136036 ATTTCGGT-AATTTTGCACCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
32136062 AT
1 AT
32136064 AACAGTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACACCTAGGGGT
Found at i:32136071 original size:26 final size:27
Alignment explanation
Indices: 32136027--32136102 Score: 82
Period size: 26 Copynumber: 2.8 Consensus size: 27
32136017 TCAATTTAAC
* * *
32136027 CCTAGGGGTATTTCGGTAATTTTGC-A
1 CCTAGGGGTATTACAGTAATTTTCCAA
*
32136053 CCTAGGGGTATAACAGTAATTTTCCATA
1 CCTAGGGGTATTACAGTAATTTTCCA-A
* *
32136081 CATAGGGGTATTATAGTAATTT
1 CCTAGGGGTATTACAGTAATTT
32136103 AGCTACTTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 21 0.51
28 20 0.49
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (27 bp):
CCTAGGGGTATTACAGTAATTTTCCAA
Found at i:32137585 original size:26 final size:26
Alignment explanation
Indices: 32137549--32137632 Score: 143
Period size: 26 Copynumber: 3.2 Consensus size: 26
32137539 CATGGAATTC
*
32137549 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
32137575 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
32137601 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCTA
32137627 TTATCA
1 TTATCA
32137633 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
26 54 0.96
27 2 0.04
ACGTcount: A:0.37, C:0.24, G:0.04, T:0.36
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:32141098 original size:25 final size:25
Alignment explanation
Indices: 32141060--32141109 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
32141050 GTAAGAGAAG
32141060 ATGAAGAACAGAAGAAGGAAAAAGA
1 ATGAAGAACAGAAGAAGGAAAAAGA
* * *
32141085 ATGAAGAACGGAAGACGGAGAAAGA
1 ATGAAGAACAGAAGAAGGAAAAAGA
32141110 GCCTTACCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.58, C:0.06, G:0.32, T:0.04
Consensus pattern (25 bp):
ATGAAGAACAGAAGAAGGAAAAAGA
Found at i:32141483 original size:12 final size:11
Alignment explanation
Indices: 32141458--32141492 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
32141448 TTGTTTAGTT
32141458 TTAGTTTT-TC
1 TTAGTTTTCTC
32141468 TTAGGTTTTCTC
1 TTA-GTTTTCTC
32141480 TTAGTTTTCTC
1 TTAGTTTTCTC
32141491 TT
1 TT
32141493 CTAATTTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 3 0.13
11 15 0.65
12 5 0.22
ACGTcount: A:0.09, C:0.14, G:0.11, T:0.66
Consensus pattern (11 bp):
TTAGTTTTCTC
Found at i:32143403 original size:761 final size:761
Alignment explanation
Indices: 32141938--32144222 Score: 4446
Period size: 761 Copynumber: 3.0 Consensus size: 761
32141928 GAGGGACCAA
32141938 AATGCAATAAATTAAACTAATTTTAATGAACCTAAAAACTTAGGATTGGTGACCCTAAGGGAATA
1 AATGCAATAAATTAAACTAATTTTAATGAACCTAAAAACTTAGGATTGGTGACCCTAAGGGAATA
32142003 TCTAAGTAAGTGAGACCGAGGGGAGATCTTGTTGAGCACCGATCAATTAGTCTCGGGTTAGCCGA
66 TCTAAGTAAGTGAGACCGAGGGGAGATCTTGTTGAGCACCGATCAATTAGTCTCGGGTTAGCCGA
32142068 TGAGATTGAGAGATAAACTGAATTAATTTGTCTAATTTGGTAAAATTGAGATTGAGAAGTAAAAT
131 TGAGATTGAGAGATAAACTGAATTAATTTGTCTAATTTGGTAAAATTGAGATTGAGAAGTAAAAT
32142133 GGAACCATTTTAGGAGTTTAAGTAATTTAGATCCCTAATTTGAGAATGAGTGAACCACATCAAGA
196 GGAACCATTTTAGGAGTTTAAGTAATTTAGATCCCTAATTTGAGAATGAGTGAACCACATCAAGA
*
32142198 TCAATCAACCACCTTTTGTTA-TTTTTTTTAATTTTGTAATTTCACATTTGTTACAATTTAGTCA
261 TCAATCAACCACCTTTTGTTATTTTTTTTTAATTTCGTAATTTCACATTTGTTACAATTTAGTCA
32142262 TTGGTAGTTAGATTGTAGATTAGTTTAATCATTCTTGACTCTATTATTTGCTGTAATATAATTTT
326 TTGGTAGTTAGATTGTAGATTAGTTTAATCATTCTTGACTCTATTATTTGCTGTAATATAATTTT
32142327 TTAGTGATTAGTTGGTTAAACTCTATATTTTGCATGTTCGTTGGTAGAAATTGTTCAATCTCTGA
391 TTAGTGATTAGTTGGTTAAACTCTATATTTTGCATGTTCGTTGGTAGAAATTGTTCAATCTCTGA
*
32142392 CTCTCTTGGGTTCAATCCTCGGAGTACTCTTGTATTCCATTATACAAATATATTAAAATTGACCT
456 CTCTCTTGGGTTCAATCCTCGGAGTACTCTTGTATCCCATTATACAAATATATTAAAATTGACCT
32142457 GTCATACTTGCAGGCACCACACCTATTAGTTTTATTCGATCCTTGTCTCTATCTGTTGATTTCTT
521 GTCATACTTGCAGGCACCACACCTATTAGTTTTATTCGATCCTTGTCTCTATCTGTTGATTTCTT
*
32142522 CCTCTCCTCCTGTCTTTCATGAGAGTGAATGGGAGATGAAGGCGGTTAACTTAACAACAAGAGGA
586 CCTCTCCTCCTGTCTTTCATGAGAGTGAATGGGAGATGAAGGCGGTCAACTTAACAACAAGAGGA
*
32142587 GTTGTAGCTCATGAAACAACAATTTTCTTTTCTATGAAACCTAGATGATGTTTCTCCAGTGCTCG
651 GTTGTAGCTCATGAAACAACAATTTTCTTTTCTATGAAACCTAGATGACGTTTCTCCAGTGCTCG
*
32142652 ATAAATCTTTAACATGAGTTGTAACCTCATGGTTCATACAAGCATC
716 ATAAATCTTTAACATGAGTTGTAACCTCATGGTTCATACGAGCATC
32142698 AATGCAATAAATTAAACTAATTTTAATGAACCTAAAAACTTAGGATTGGTGACCCTAAGGGAATA
1 AATGCAATAAATTAAACTAATTTTAATGAACCTAAAAACTTAGGATTGGTGACCCTAAGGGAATA
*
32142763 TCTAAGTAAGTGAGACCGAGGGGAGATCTTGTTGAGCACCGATCAATTAGTCTCGGGTTAACCGA
66 TCTAAGTAAGTGAGACCGAGGGGAGATCTTGTTGAGCACCGATCAATTAGTCTCGGGTTAGCCGA
*
32142828 TGAGATTGAAAGATAAACTGAATTAATTTGTCTAATTTGGTAAAATTGAGATTGAGAAGTAAAAT
131 TGAGATTGAGAGATAAACTGAATTAATTTGTCTAATTTGGTAAAATTGAGATTGAGAAGTAAAAT
32142893 GGAACCATTTTAGGAGTTTAAGTAATTTAGATCCCTAATTTGAGAATGAGTGAACCACATCAAGA
196 GGAACCATTTTAGGAGTTTAAGTAATTTAGATCCCTAATTTGAGAATGAGTGAACCACATCAAGA
32142958 TCAATCAACCACCTTTTGTTATTTTTTTTTAATTTCGTAATTTCACATTTGTTACAATTTAGTCA
261 TCAATCAACCACCTTTTGTTATTTTTTTTTAATTTCGTAATTTCACATTTGTTACAATTTAGTCA
32143023 TTGGTAGTTAGATTGTAGATTAGTTTAATCATTCTTGACTCTATTATTTGCTGTAATATAATTTT
326 TTGGTAGTTAGATTGTAGATTAGTTTAATCATTCTTGACTCTATTATTTGCTGTAATATAATTTT
32143088 TTAGTGATTAGTTGGTTAAACTCTATATTTTGCATGTTCGTTGGTAGAAATTGTTCAATCTCTGA
391 TTAGTGATTAGTTGGTTAAACTCTATATTTTGCATGTTCGTTGGTAGAAATTGTTCAATCTCTGA
32143153 CTCTCTTGGGTTCAATCCTCGGAGTACTCTTGTATCCCATTATACAAATATATTAAAATTGACCT
456 CTCTCTTGGGTTCAATCCTCGGAGTACTCTTGTATCCCATTATACAAATATATTAAAATTGACCT
*
32143218 GTCATACTTGCAGGCACCACACCTATTAGTTTTATTCGATCCTTGTCTCTATCTGTTGATATCTT
521 GTCATACTTGCAGGCACCACACCTATTAGTTTTATTCGATCCTTGTCTCTATCTGTTGATTTCTT
*
32143283 CCTCTCCTCCTGTCTTTCATGAGAGTGAATGGGAGATGAAGGCGGTCAACTTAACAACAAAAGGA
586 CCTCTCCTCCTGTCTTTCATGAGAGTGAATGGGAGATGAAGGCGGTCAACTTAACAACAAGAGGA
32143348 GTTGTAGCTCATGAAACAACAATTTTCTTTTCTATGAAACCTAGATGACGTTTCTCCAGTGCTCG
651 GTTGTAGCTCATGAAACAACAATTTTCTTTTCTATGAAACCTAGATGACGTTTCTCCAGTGCTCG
32143413 ATAAATCTTTAACATGAGTTGTAACCTCATGGTTCATACGAGCATC
716 ATAAATCTTTAACATGAGTTGTAACCTCATGGTTCATACGAGCATC
32143459 AATGCAATAAATTAAACTAATTTTAATGAACCTAAAAACTTAGGATTGGTGACCCTAAGGGAATA
1 AATGCAATAAATTAAACTAATTTTAATGAACCTAAAAACTTAGGATTGGTGACCCTAAGGGAATA
*
32143524 TCTAAGTAAGTGAGACCGAGGGGAGATCTTGTTGAGCACCGATCAATTAGTCTTGGGTTAGCCGA
66 TCTAAGTAAGTGAGACCGAGGGGAGATCTTGTTGAGCACCGATCAATTAGTCTCGGGTTAGCCGA
32143589 TGAGATTGAGAGATAAACTGAATTAATTTGTCTAATTTGGTAAAATTGAGATTGAGAAGTAAAAT
131 TGAGATTGAGAGATAAACTGAATTAATTTGTCTAATTTGGTAAAATTGAGATTGAGAAGTAAAAT
32143654 GGAACCATTTTAGGAGTTTAAGTAATTTAGATCCCTAATTTGAGAATGAGTGAACCACATCAAGA
196 GGAACCATTTTAGGAGTTTAAGTAATTTAGATCCCTAATTTGAGAATGAGTGAACCACATCAAGA
*
32143719 TCAACCAACCACCTTTTGTTATTTTTTTTTAATTTCGTAATTTCACATTTGTTACAATTTAGTCA
261 TCAATCAACCACCTTTTGTTATTTTTTTTTAATTTCGTAATTTCACATTTGTTACAATTTAGTCA
32143784 TTGGTAGTTAGATTGTAGATTAGTTTAATCATTCTTGACTCTATTATTTGCTGTAATATAATTTT
326 TTGGTAGTTAGATTGTAGATTAGTTTAATCATTCTTGACTCTATTATTTGCTGTAATATAATTTT
32143849 TTAGTGATTAGTTGGTTAAACTCTATATTTTGCATGTTCGTTGGTAGAAATTGTTCAATCTCTGA
391 TTAGTGATTAGTTGGTTAAACTCTATATTTTGCATGTTCGTTGGTAGAAATTGTTCAATCTCTGA
*
32143914 CTCTCTTGGGTTCAATCCTCGGAGTACTCTTGTATCCCATTATACAAATATATTAAATTTGACCT
456 CTCTCTTGGGTTCAATCCTCGGAGTACTCTTGTATCCCATTATACAAATATATTAAAATTGACCT
*
32143979 GTCATACTTGCAGGCACCACACCTATTAGTTTTATTCGATCCTTATCTCTATCTGTTGATTTCTT
521 GTCATACTTGCAGGCACCACACCTATTAGTTTTATTCGATCCTTGTCTCTATCTGTTGATTTCTT
32144044 CCTCTCCTCCTGTCTTTCATGAGAGTGAATGGGAGATGAAGGCGGTCAACTTAACAACAAGAGGA
586 CCTCTCCTCCTGTCTTTCATGAGAGTGAATGGGAGATGAAGGCGGTCAACTTAACAACAAGAGGA
32144109 GTTGTAGCTCATGAAACAACAATTTTCTTTTCTATGAAACCTAGATGACGTTTCTCCAGTGCTCG
651 GTTGTAGCTCATGAAACAACAATTTTCTTTTCTATGAAACCTAGATGACGTTTCTCCAGTGCTCG
32144174 ATAAATCTTTAACATGAGTTGTAACCTCATGGTTCATACGAGCATC
716 ATAAATCTTTAACATGAGTTGTAACCTCATGGTTCATACGAGCATC
32144220 AAT
1 AAT
32144223 CAAATGTTGA
Statistics
Matches: 1507, Mismatches: 17, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
760 279 0.19
761 1228 0.81
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (761 bp):
AATGCAATAAATTAAACTAATTTTAATGAACCTAAAAACTTAGGATTGGTGACCCTAAGGGAATA
TCTAAGTAAGTGAGACCGAGGGGAGATCTTGTTGAGCACCGATCAATTAGTCTCGGGTTAGCCGA
TGAGATTGAGAGATAAACTGAATTAATTTGTCTAATTTGGTAAAATTGAGATTGAGAAGTAAAAT
GGAACCATTTTAGGAGTTTAAGTAATTTAGATCCCTAATTTGAGAATGAGTGAACCACATCAAGA
TCAATCAACCACCTTTTGTTATTTTTTTTTAATTTCGTAATTTCACATTTGTTACAATTTAGTCA
TTGGTAGTTAGATTGTAGATTAGTTTAATCATTCTTGACTCTATTATTTGCTGTAATATAATTTT
TTAGTGATTAGTTGGTTAAACTCTATATTTTGCATGTTCGTTGGTAGAAATTGTTCAATCTCTGA
CTCTCTTGGGTTCAATCCTCGGAGTACTCTTGTATCCCATTATACAAATATATTAAAATTGACCT
GTCATACTTGCAGGCACCACACCTATTAGTTTTATTCGATCCTTGTCTCTATCTGTTGATTTCTT
CCTCTCCTCCTGTCTTTCATGAGAGTGAATGGGAGATGAAGGCGGTCAACTTAACAACAAGAGGA
GTTGTAGCTCATGAAACAACAATTTTCTTTTCTATGAAACCTAGATGACGTTTCTCCAGTGCTCG
ATAAATCTTTAACATGAGTTGTAACCTCATGGTTCATACGAGCATC
Found at i:32147054 original size:13 final size:13
Alignment explanation
Indices: 32147019--32147054 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
32147009 CAGCAAATTG
*
32147019 AAGTCACACAGCC
1 AAGTCACACGGCC
32147032 AAGTCACACGGCC
1 AAGTCACACGGCC
*
32147045 AAGTTACACG
1 AAGTCACACG
32147055 CCCGTGTGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.36, C:0.33, G:0.19, T:0.11
Consensus pattern (13 bp):
AAGTCACACGGCC
Found at i:32148168 original size:42 final size:42
Alignment explanation
Indices: 32148049--32148177 Score: 143
Period size: 43 Copynumber: 3.0 Consensus size: 42
32148039 CACATAGTAC
* * * **
32148049 CATACCAATGTCATATCCCGGATATGGTCTTACATGGGATCT
1 CATACCGATGTCATATCCCAGATATGGTCTTACACGAAATCT
** * * *
32148091 CATTTCGATGCCAATATTCCAGCTATGGTCTTACACGAAATCT
1 CATACCGATGTC-ATATCCCAGATATGGTCTTACACGAAATCT
32148134 CATACCGATGTCATATCCCAGATATGGTCTTACACGTAAA-CT
1 CATACCGATGTCATATCCCAGATATGGTCTTACACG-AAATCT
32148176 CA
1 CA
32148178 AATAACCTTA
Statistics
Matches: 70, Mismatches: 15, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
42 34 0.49
43 36 0.51
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.30
Consensus pattern (42 bp):
CATACCGATGTCATATCCCAGATATGGTCTTACACGAAATCT
Found at i:32150216 original size:29 final size:30
Alignment explanation
Indices: 32150152--32150222 Score: 94
Period size: 29 Copynumber: 2.4 Consensus size: 30
32150142 TATTAATTTA
32150152 TAATTTCATTATTTTTGAAGGGGTTAAATAG
1 TAATTTCATTA-TTTTGAAGGGGTTAAATAG
*
32150183 -AATTTTATTATTTT-AAGGGGTTAAAGT-G
1 TAATTTCATTATTTTGAAGGGGTTAAA-TAG
32150211 TAATTTCATTAT
1 TAATTTCATTAT
32150223 ATTTTAATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
28 12 0.33
29 15 0.42
30 9 0.25
ACGTcount: A:0.32, C:0.03, G:0.17, T:0.48
Consensus pattern (30 bp):
TAATTTCATTATTTTGAAGGGGTTAAATAG
Found at i:32152015 original size:7 final size:7
Alignment explanation
Indices: 32152003--32152028 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
32151993 TAGAATATAG
32152003 GAATTCA
1 GAATTCA
32152010 GAATTCA
1 GAATTCA
32152017 GAATTCA
1 GAATTCA
32152024 GAATT
1 GAATT
32152029 TTCCCTACTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (7 bp):
GAATTCA
Found at i:32155907 original size:31 final size:31
Alignment explanation
Indices: 32155866--32155936 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
32155856 GATAATGTGA
*
32155866 TATAGTTTAGATAT-AATTT-TAAACAACGAAG
1 TATAATTTAGATATCAATTTATAAA-AACG-AG
* *
32155897 TATAATTTAGATATCCATTTATAAAAATGAG
1 TATAATTTAGATATCAATTTATAAAAACGAG
32155928 TATAATTTA
1 TATAATTTA
32155937 AAGGGTAAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
31 24 0.69
32 7 0.20
33 4 0.11
ACGTcount: A:0.45, C:0.06, G:0.10, T:0.39
Consensus pattern (31 bp):
TATAATTTAGATATCAATTTATAAAAACGAG
Found at i:32159165 original size:31 final size:31
Alignment explanation
Indices: 32159130--32159192 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
32159120 CATGGCTGTC
32159130 CCTCCTAATAATGTCAACTCTAGGGTTTGAA
1 CCTCCTAATAATGTCAACTCTAGGGTTTGAA
32159161 CCTCCTAATAATGTCAACTCTAGGGTTTGAA
1 CCTCCTAATAATGTCAACTCTAGGGTTTGAA
32159192 C
1 C
32159193 ATGAGTTCTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.32
Consensus pattern (31 bp):
CCTCCTAATAATGTCAACTCTAGGGTTTGAA
Found at i:32159421 original size:2 final size:2
Alignment explanation
Indices: 32159414--32159438 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
32159404 TTTAAGTAGA
32159414 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
32159439 GGCCCAATTT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:32164138 original size:17 final size:19
Alignment explanation
Indices: 32164091--32164139 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 19
32164081 TTTATGTGTG
32164091 TAAAAAGCATATATTTAGAA
1 TAAAAA-CATATATTTAGAA
*
32164111 TAAAAATATATATTTA-AA
1 TAAAAACATATATTTAGAA
*
32164129 -AATAACATATA
1 TAAAAACATATA
32164140 ATAAATAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 9 0.35
18 2 0.08
19 9 0.35
20 6 0.23
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (19 bp):
TAAAAACATATATTTAGAA
Found at i:32165089 original size:18 final size:18
Alignment explanation
Indices: 32165079--32165143 Score: 69
Period size: 18 Copynumber: 3.4 Consensus size: 18
32165069 GTACAATAAA
32165079 ATTAAAATGTATAAAAAT
1 ATTAAAATGTATAAAAAT
* *
32165097 ATCTAGAGTATGCATAATAAA-
1 AT-TA-A-AATGTATAA-AAAT
32165118 ATTAAAATGTATAAAAAT
1 ATTAAAATGTATAAAAAT
32165136 ATTAAAAT
1 ATTAAAAT
32165144 AAAACTTTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
17 3 0.08
18 17 0.45
19 3 0.08
20 3 0.08
21 9 0.24
22 3 0.08
ACGTcount: A:0.57, C:0.03, G:0.08, T:0.32
Consensus pattern (18 bp):
ATTAAAATGTATAAAAAT
Found at i:32168705 original size:21 final size:22
Alignment explanation
Indices: 32168681--32168727 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
32168671 CATTGTTTAG
*
32168681 AATTAGAT-G-AATTAGGCTTGA
1 AATTAGATAGAAATTAAGCTT-A
32168702 AATT-GATAGAAATTAAGCTTA
1 AATTAGATAGAAATTAAGCTTA
32168723 AATTA
1 AATTA
32168728 TGAAAATGAC
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
20 3 0.14
21 10 0.45
22 9 0.41
ACGTcount: A:0.45, C:0.04, G:0.17, T:0.34
Consensus pattern (22 bp):
AATTAGATAGAAATTAAGCTTA
Found at i:32170511 original size:2 final size:2
Alignment explanation
Indices: 32170504--32170528 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
32170494 ACATAAATAA
32170504 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
32170529 GAGATAAATT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:32170863 original size:24 final size:26
Alignment explanation
Indices: 32170830--32170883 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 26
32170820 GATATTGCAC
*
32170830 AAAATGTTAACATAATATG-ACAAA-A
1 AAAATGTTAAAATAAT-TGCACAAATA
32170855 AAAAT-TTAAAATAATTGCACAAATA
1 AAAATGTTAAAATAATTGCACAAATA
32170880 AAAA
1 AAAA
32170884 CAAAACAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 2 0.08
24 14 0.54
25 10 0.38
ACGTcount: A:0.63, C:0.07, G:0.06, T:0.24
Consensus pattern (26 bp):
AAAATGTTAAAATAATTGCACAAATA
Found at i:32172478 original size:14 final size:14
Alignment explanation
Indices: 32172459--32172488 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
32172449 AGCTCTTAAT
*
32172459 CTGCTCTACTGCAA
1 CTGCTCCACTGCAA
32172473 CTGCTCCACTGCAA
1 CTGCTCCACTGCAA
32172487 CT
1 CT
32172489 TCAGGAAGAT
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:0.20, C:0.40, G:0.13, T:0.27
Consensus pattern (14 bp):
CTGCTCCACTGCAA
Found at i:32172580 original size:44 final size:43
Alignment explanation
Indices: 32172521--32172993 Score: 353
Period size: 44 Copynumber: 10.6 Consensus size: 43
32172511 TTTTTTATCT
* *
32172521 TGCTCTACTGCAACTTTAGAGAGATAAGGATTGTGACTTCGATC
1 TGCTCCACTGCAACTTCAGAGAGATAA-GATTGTGACTTCGATC
* * *
32172565 TGCTCCACTGCAACTTCAGGGAGATAAGATCTACTAACTTC-AGTC
1 TGCTCCACTGCAACTTCAGAGAGATAAGAT-T-GTGACTTCGA-TC
* * **
32172610 TGCTCCACTGTAACTTCAGAAAGATAAGGATTGTGGTTTCGATC
1 TGCTCCACTGCAACTTCAGAGAGATAA-GATTGTGACTTCGATC
*
32172654 TGCTCCACTGCAACTTCA-AGGAGATAAGATCTGCTAACTTC-AGTC
1 TGCTCCACTGCAACTTCAGA-GAGATAAGAT-TG-TGACTTCGA-TC
* * * * **
32172699 TGCTCCACTGCAACTTTAGGGAGATAAAACTTG-GATAATTTTATCC
1 TGCTCCACTGCAACTTCAGAGAGATAAGA-TTGTG--ACTTCGAT-C
* * *
32172745 TGCTCTACTGCAACTTTAGAGAGATAAGGATTGTGGCTTCGATC
1 TGCTCCACTGCAACTTCAGAGAGATAA-GATTGTGACTTCGATC
* * * * * **
32172789 TGCTCCACTACAATTTTAGGGAGATAAGGGTTGTGGTTTCGATC
1 TGCTCCACTGCAACTTCAGAGAGATAA-GATTGTGACTTCGATC
* * * *
32172833 TGCTCCATTGTAACTTC-GAGGAGATAAGATCTGCTAACTTCAATC
1 TGCTCCACTGCAACTTCAGA-GAGATAAGAT-TG-TGACTTCGATC
* * * * **
32172878 TACTCCACTGCAACTTCAGGGAGATAAGACTTGGGTAATTTTATCC
1 TGCTCCACTGCAACTTCAGAGAGATAAGA-TTGTG-ACTTCGAT-C
* *
32172924 TGCTCTACTGCAACTTCAGAGAGATAAGGATTGTGGCTTCGATC
1 TGCTCCACTGCAACTTCAGAGAGATAA-GATTGTGACTTCGATC
* *
32172968 TGCTCCACTGCGACTTCAGGGAGATA
1 TGCTCCACTGCAACTTCAGAGAGATA
32172994 GAACCTCCGG
Statistics
Matches: 337, Mismatches: 67, Indels: 50
0.74 0.15 0.11
Matches are distributed among these distances:
43 10 0.03
44 142 0.42
45 116 0.34
46 65 0.19
47 4 0.01
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (43 bp):
TGCTCCACTGCAACTTCAGAGAGATAAGATTGTGACTTCGATC
Found at i:32172651 original size:89 final size:89
Alignment explanation
Indices: 32172521--32172993 Score: 437
Period size: 89 Copynumber: 5.3 Consensus size: 89
32172511 TTTTTTATCT
* * **
32172521 TGCTCTACTGCAACTTTAGAGAGATAAGGATTGTGACTTCGATCTGCTCCACTGCAACTTCAGGG
1 TGCTCCACTGCAACTTTAGGGAGATAAGGATTGTGGTTTCGATCTGCTCCACTGCAACTTCAGGG
*
32172586 AGATAAGATCTACTAACTTCAGTC
66 AGATAAGATCTGCTAACTTCAGTC
* * ** *
32172610 TGCTCCACTGTAACTTCAGAAAGATAAGGATTGTGGTTTCGATCTGCTCCACTGCAACTTCAAGG
1 TGCTCCACTGCAACTTTAGGGAGATAAGGATTGTGGTTTCGATCTGCTCCACTGCAACTTCAGGG
32172675 AGATAAGATCTGCTAACTTCAGTC
66 AGATAAGATCTGCTAACTTCAGTC
* * ** * *
32172699 TGCTCCACTGCAACTTTAGGGAGATAA-AACTTG-GATAATTTTATCCTGCTCTACTGCAACTTT
1 TGCTCCACTGCAACTTTAGGGAGATAAGGA-TTGTGGT--TTCGAT-CTGCTCCACTGCAACTTC
* **
32172762 AGAGAGATAAGGAT-TG-TGGCTTC-GATC
62 AGGGAGATAA-GATCTGCTAACTTCAG-TC
* * * * *
32172789 TGCTCCACTACAATTTTAGGGAGATAAGGGTTGTGGTTTCGATCTGCTCCATTGTAACTTC-GAG
1 TGCTCCACTGCAACTTTAGGGAGATAAGGATTGTGGTTTCGATCTGCTCCACTGCAACTTCAG-G
*
32172853 GAGATAAGATCTGCTAACTTCAATC
65 GAGATAAGATCTGCTAACTTCAGTC
* * ** *
32172878 TACTCCACTGCAACTTCAGGGAGATAA-GACTTG-GGTAATTTTATCCTGCTCTACTGCAACTTC
1 TGCTCCACTGCAACTTTAGGGAGATAAGGA-TTGTGGT--TTCGAT-CTGCTCCACTGCAACTTC
* **
32172941 AGAGAGATAAGGAT-TG-TGGCTTC-GATC
62 AGGGAGATAA-GATCTGCTAACTTCAG-TC
* *
32172968 TGCTCCACTGCGACTTCAGGGAGATA
1 TGCTCCACTGCAACTTTAGGGAGATA
32172994 GAACCTCCGG
Statistics
Matches: 312, Mismatches: 53, Indels: 37
0.78 0.13 0.09
Matches are distributed among these distances:
87 4 0.01
88 30 0.10
89 145 0.46
90 74 0.24
91 52 0.17
92 7 0.02
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (89 bp):
TGCTCCACTGCAACTTTAGGGAGATAAGGATTGTGGTTTCGATCTGCTCCACTGCAACTTCAGGG
AGATAAGATCTGCTAACTTCAGTC
Found at i:32172991 original size:179 final size:179
Alignment explanation
Indices: 32172564--32172993 Score: 621
Period size: 179 Copynumber: 2.4 Consensus size: 179
32172554 TGACTTCGAT
* * * ** *
32172564 CTGCTCCACTGCAACTTCAGGGAGATAA-GATCTACTAACTTC-AGTCTGCTCCACTGTAACTTC
1 CTGCTCTACTGCAACTTCAGAGAGATAAGGAT-T-GTGGCTTCGA-TCTGCTCCACTGCAACTTC
**
32172627 AGAAAGATAAGGATTGTGGTTTCGATCTGCTCCACTGCAACTTCAAGGAGATAAGATCTGCTAAC
63 AGGGAGATAAGGATTGTGGTTTCGATCTGCTCCACTGCAACTTCAAGGAGATAAGATCTGCTAAC
* * *
32172692 TTCAGTCTGCTCCACTGCAACTTTAGGGAGATAAAACTTGGATAATTTTATC
128 TTCAATCTACTCCACTGCAACTTCAGGGAGATAAAACTTGGATAATTTTATC
* * * *
32172744 CTGCTCTACTGCAACTTTAGAGAGATAAGGATTGTGGCTTCGATCTGCTCCACTACAATTTTAGG
1 CTGCTCTACTGCAACTTCAGAGAGATAAGGATTGTGGCTTCGATCTGCTCCACTGCAACTTCAGG
* * * *
32172809 GAGATAAGGGTTGTGGTTTCGATCTGCTCCATTGTAACTTCGAGGAGATAAGATCTGCTAACTTC
66 GAGATAAGGATTGTGGTTTCGATCTGCTCCACTGCAACTTCAAGGAGATAAGATCTGCTAACTTC
* *
32172874 AATCTACTCCACTGCAACTTCAGGGAGATAAGACTTGGGTAATTTTATC
131 AATCTACTCCACTGCAACTTCAGGGAGATAAAACTTGGATAATTTTATC
*
32172923 CTGCTCTACTGCAACTTCAGAGAGATAAGGATTGTGGCTTCGATCTGCTCCACTGCGACTTCAGG
1 CTGCTCTACTGCAACTTCAGAGAGATAAGGATTGTGGCTTCGATCTGCTCCACTGCAACTTCAGG
32172988 GAGATA
66 GAGATA
32172994 GAACCTCCGG
Statistics
Matches: 222, Mismatches: 26, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
179 192 0.86
180 27 0.12
181 3 0.01
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (179 bp):
CTGCTCTACTGCAACTTCAGAGAGATAAGGATTGTGGCTTCGATCTGCTCCACTGCAACTTCAGG
GAGATAAGGATTGTGGTTTCGATCTGCTCCACTGCAACTTCAAGGAGATAAGATCTGCTAACTTC
AATCTACTCCACTGCAACTTCAGGGAGATAAAACTTGGATAATTTTATC
Found at i:32175659 original size:40 final size:40
Alignment explanation
Indices: 32175604--32175683 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
32175594 ATTTTGTAAC
32175604 AATAAGATGAGGCTTCACAAATACTCATCTGAATGAGTTT
1 AATAAGATGAGGCTTCACAAATACTCATCTGAATGAGTTT
32175644 AATAAGATGAGGCTTCACAAATACTCATCTGAATGAGTTT
1 AATAAGATGAGGCTTCACAAATACTCATCTGAATGAGTTT
32175684 TACATCTTCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (40 bp):
AATAAGATGAGGCTTCACAAATACTCATCTGAATGAGTTT
Found at i:32184224 original size:26 final size:26
Alignment explanation
Indices: 32184188--32184240 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
32184178 TGCGGAGGTG
32184188 AAAACCTCACAAAAGCATAGTTTCTT
1 AAAACCTCACAAAAGCATAGTTTCTT
32184214 AAAACCTCACAAAAGCATAGTTTCTT
1 AAAACCTCACAAAAGCATAGTTTCTT
32184240 A
1 A
32184241 CTCCCACTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.43, C:0.23, G:0.08, T:0.26
Consensus pattern (26 bp):
AAAACCTCACAAAAGCATAGTTTCTT
Found at i:32186214 original size:20 final size:20
Alignment explanation
Indices: 32186189--32186227 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
32186179 TTTCATTATT
*
32186189 GAACACCAAAATTAAATTGG
1 GAACACCAAAAGTAAATTGG
*
32186209 GAACACCGAAAGTAAATTG
1 GAACACCAAAAGTAAATTG
32186228 AAACTACCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.18
Consensus pattern (20 bp):
GAACACCAAAAGTAAATTGG
Found at i:32188456 original size:3 final size:3
Alignment explanation
Indices: 32188450--32188539 Score: 171
Period size: 3 Copynumber: 29.7 Consensus size: 3
32188440 TAGCAGCAGC
32188450 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
32188498 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA ATGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A-GA AG
32188540 CCACTTCACC
Statistics
Matches: 86, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
3 83 0.97
4 3 0.03
ACGTcount: A:0.66, C:0.00, G:0.33, T:0.01
Consensus pattern (3 bp):
AGA
Found at i:32188584 original size:21 final size:21
Alignment explanation
Indices: 32188560--32188599 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
32188550 AACGTGGCAA
32188560 GTTAACTTGCCACATCAGCTG
1 GTTAACTTGCCACATCAGCTG
*
32188581 GTTAACTTGCCACGTCAGC
1 GTTAACTTGCCACATCAGC
32188600 AATCCAGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (21 bp):
GTTAACTTGCCACATCAGCTG
Found at i:32190868 original size:2 final size:2
Alignment explanation
Indices: 32190863--32190892 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
32190853 ATATATTTTA
32190863 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32190893 TTGTTATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32195958 original size:64 final size:64
Alignment explanation
Indices: 32195885--32196095 Score: 151
Period size: 64 Copynumber: 3.2 Consensus size: 64
32195875 CTGGGCCAGA
*
32195885 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
* * * *** * ** *
32195949 GCCCATTTCAAAATAC-ATGCAACATCAGTAAACATATGCAAGCCC--ATTTGGGTAACAGTGGT
1 GCCCATTTCAGATTACAAT--AA-A-CTG-GGCCTTA-GC---CCCTTATTCAGATAACA---GT
* *
32196011 ACTGGGCCAGA-
54 A-TGGCCCATAG
*
32196022 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
32196086 GCCCATTTCA
1 GCCCATTTCA
32196096 AAATACATGC
Statistics
Matches: 103, Mismatches: 27, Indels: 34
0.63 0.16 0.21
Matches are distributed among these distances:
63 9 0.09
64 25 0.24
65 5 0.05
66 1 0.01
67 11 0.11
68 5 0.05
69 5 0.05
70 11 0.11
71 1 0.01
72 5 0.05
73 16 0.16
74 9 0.09
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:32196097 original size:137 final size:137
Alignment explanation
Indices: 32195851--32196137 Score: 556
Period size: 137 Copynumber: 2.1 Consensus size: 137
32195841 TATTGGGCCT
**
32195851 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
32195916 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
32195981 CATATGC
131 CATATGC
32195988 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
32196053 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
32196118 CATATGC
131 CATATGC
32196125 AAGCCCATTTGGG
1 AAGCCCATTTGGG
32196138 GAGACTACTC
Statistics
Matches: 148, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 148 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.24
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:32197941 original size:26 final size:26
Alignment explanation
Indices: 32197905--32198040 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
32197895 CATGATATTC
32197905 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
32197931 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
32197957 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
32197983 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
32198009 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
32198035 TTATCA
1 TTATCA
32198041 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:32202293 original size:137 final size:136
Alignment explanation
Indices: 32202086--32202371 Score: 545
Period size: 137 Copynumber: 2.1 Consensus size: 136
32202076 TATTGGGCCT
**
32202086 AAGCCCATTCAGGTAACAGTGGTATGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTA
1 AAGCCCATTTGGGTAACAGTGGTATGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTA
32202151 GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAAC
66 GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAAC
32202216 ATATGC
131 ATATGC
32202222 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTA-TGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
32202287 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
65 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
32202352 CATATGC
130 CATATGC
32202359 AAGCCCATTTGGG
1 AAGCCCATTTGGG
32202372 GAGACTACTC
Statistics
Matches: 147, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
136 22 0.15
137 125 0.85
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.24
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTATGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTA
GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAAC
ATATGC
Found at i:32202329 original size:64 final size:64
Alignment explanation
Indices: 32202119--32202329 Score: 151
Period size: 64 Copynumber: 3.2 Consensus size: 64
32202109 ATGGGCCAGA
*
32202119 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
* * * *** * ** *
32202183 GCCCATTTCAAAATAC-ATGCAACATCAGTAAACATATGCAAGCCC--ATTTGGGTAACAGTGGT
1 GCCCATTTCAGATTACAAT--AA-A-CTG-GGCCTTA-GC---CCCTTATTCAGATAACA---GT
* *
32202245 ACTGGGCCAGA-
54 A-TGGCCCATAG
*
32202256 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
32202320 GCCCATTTCA
1 GCCCATTTCA
32202330 AAATACATGC
Statistics
Matches: 103, Mismatches: 27, Indels: 34
0.63 0.16 0.21
Matches are distributed among these distances:
63 9 0.09
64 25 0.24
65 5 0.05
66 1 0.01
67 11 0.11
68 5 0.05
69 5 0.05
70 11 0.11
71 1 0.01
72 5 0.05
73 16 0.16
74 9 0.09
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:32202655 original size:25 final size:27
Alignment explanation
Indices: 32202618--32202671 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
32202608 TCAAACATGC
32202618 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
* **
32202644 ATTTCGGT-AATTTTGCACCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
32202670 AT
1 AT
32202672 AACAGTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACACCTAGGGGT
Found at i:32204181 original size:26 final size:26
Alignment explanation
Indices: 32204145--32204280 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
32204135 CATGATATTC
*
32204145 TTATGATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
32204171 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
32204197 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
32204223 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
32204249 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
32204275 TTATCA
1 TTATCA
32204281 ATTTGTATCA
Statistics
Matches: 103, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 103 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:32205949 original size:36 final size:36
Alignment explanation
Indices: 32205909--32205981 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
32205899 TATGAAAAGA
32205909 TTTTCACGTAAAATCTATGCATATTTTATTTTTCTT
1 TTTTCACGTAAAATCTATGCATATTTTATTTTTCTT
* **
32205945 TTTTCATGTAAAATCTATGTGTATTTTATTTTTCTT
1 TTTTCACGTAAAATCTATGCATATTTTATTTTTCTT
32205981 T
1 T
32205982 CTCATTGCTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.23, C:0.11, G:0.07, T:0.59
Consensus pattern (36 bp):
TTTTCACGTAAAATCTATGCATATTTTATTTTTCTT
Found at i:32222271 original size:25 final size:27
Alignment explanation
Indices: 32222234--32222286 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
32222224 TCAAACATGC
32222234 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
32222260 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
32222286 A
1 A
32222287 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:32227272 original size:14 final size:14
Alignment explanation
Indices: 32227245--32227278 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
32227235 TGAAAATAAT
*
32227245 AAAT-AATAAGATA
1 AAATAAATAAAATA
32227258 AAATAAATAAAATA
1 AAATAAATAAAATA
32227272 AAATAAA
1 AAATAAA
32227279 AATAAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 4 0.21
14 15 0.79
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (14 bp):
AAATAAATAAAATA
Found at i:32230968 original size:20 final size:20
Alignment explanation
Indices: 32230930--32230977 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
32230920 TAAATTCTAA
* **
32230930 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
32230950 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
32230970 AAA-ATAAA
1 AAAGATAAA
32230978 ATCCTAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:32231021 original size:15 final size:15
Alignment explanation
Indices: 32231001--32231030 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
32230991 ATAATCCTAA
*
32231001 TAATTATCTTAATAT
1 TAATTATCCTAATAT
32231016 TAATTATCCTAATAT
1 TAATTATCCTAATAT
32231031 AAATAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:32232904 original size:20 final size:20
Alignment explanation
Indices: 32232879--32232916 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
32232869 GGTGAAAAAA
*
32232879 ATATATTTCTTTAAAAATTT
1 ATATATTTATTTAAAAATTT
*
32232899 ATATATTTATTTATAAAT
1 ATATATTTATTTAAAAAT
32232917 AATTATATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (20 bp):
ATATATTTATTTAAAAATTT
Found at i:32238860 original size:23 final size:24
Alignment explanation
Indices: 32238818--32238870 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
32238808 AATTAAATAA
**
32238818 TAAAATAAAATTACTAAAATGTAC
1 TAAAATAAAATTACTAAAATAAAC
* *
32238842 TAAAATTAACTTA-TAAAATAAAC
1 TAAAATAAAATTACTAAAATAAAC
32238865 TAAAAT
1 TAAAAT
32238871 CCTACTAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
23 14 0.56
24 11 0.44
ACGTcount: A:0.60, C:0.08, G:0.02, T:0.30
Consensus pattern (24 bp):
TAAAATAAAATTACTAAAATAAAC
Found at i:32239808 original size:44 final size:42
Alignment explanation
Indices: 32239670--32239814 Score: 114
Period size: 44 Copynumber: 3.3 Consensus size: 42
32239660 GATCTTATCA
* ** *
32239670 CCCTAAGCAGTAGGGAAACAGATCAAAGGCAACGAGCTTTAACC
1 CCCTAAGCAGTAGGGAAA-AGATCGAAGATAATGAGCTTTAA-C
* * * * *
32239714 CCCTAAGCAGTAGGGTAACAAGCT-GAAGTTTAT-AGATCTTATC
1 CCCTAAGCAGTAGGG-AA-AAGATCGAAGATAATGAGCT-TTAAC
*
32239757 ACCCTAAGCAGTAGGGAAATAGATCGAAGATGATGAGCTTTAAC
1 -CCCTAAGCAGTAGGGAAA-AGATCGAAGATAATGAGCTTTAAC
32239801 CCTCTAAGCAGTAG
1 CC-CTAAGCAGTAG
32239815 AGTAACAAGC
Statistics
Matches: 80, Mismatches: 13, Indels: 16
0.73 0.12 0.15
Matches are distributed among these distances:
42 1 0.01
43 11 0.14
44 59 0.74
45 8 0.10
46 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.21
Consensus pattern (42 bp):
CCCTAAGCAGTAGGGAAAAGATCGAAGATAATGAGCTTTAAC
Found at i:32239808 original size:88 final size:88
Alignment explanation
Indices: 32239643--32239859 Score: 269
Period size: 88 Copynumber: 2.5 Consensus size: 88
32239633 TTCAATTTCC
* * *
32239643 AACAGGCTGAAG-ATATAGATCTTATCACCCTAAGCAGTAGGGAAACAGATCAAAGGCAACGAGC
1 AACAAGCTGAAGTTTATAGATCTTATCACCCTAAGCAGTAGGGAAACAGATCAAAGACAACGAGC
*
32239707 TTTAACCCCCTAAGCAGTAGGGT
66 TTTAACCCCCTAAGCAGTAGAGT
* * ** *
32239730 AACAAGCTGAAGTTTATAGATCTTATCACCCTAAGCAGTAGGGAAATAGATCGAAGATGATGAGC
1 AACAAGCTGAAGTTTATAGATCTTATCACCCTAAGCAGTAGGGAAACAGATCAAAGACAACGAGC
*
32239795 TTTAACCCTCTAAGCAGTAGAGT
66 TTTAACCCCCTAAGCAGTAGAGT
* * * * *
32239818 AACAAGC-CAAATTTACAGACCTTGA-CCCCCTAAGCAGTAGGG
1 AACAAGCTGAAGTTTATAGATCTT-ATCACCCTAAGCAGTAGGG
32239860 TAATGGGCTG
Statistics
Matches: 113, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
87 39 0.35
88 74 0.65
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (88 bp):
AACAAGCTGAAGTTTATAGATCTTATCACCCTAAGCAGTAGGGAAACAGATCAAAGACAACGAGC
TTTAACCCCCTAAGCAGTAGAGT
Found at i:32240081 original size:43 final size:42
Alignment explanation
Indices: 32240022--32240128 Score: 124
Period size: 43 Copynumber: 2.5 Consensus size: 42
32240012 GGGCTTCAAC
* * *
32240022 CCCCTGAGCAATAGGGTAACAAGCCAAATTTTCAAACCTTAAA
1 CCCCTAAGCAGTAGGGTAACAAGCCAAATTTCCAAACCTT-AA
* ** *
32240065 CCCCTAAGCAGTAGGGTAACAGGCTGAATTTCCAGACCTTAA
1 CCCCTAAGCAGTAGGGTAACAAGCCAAATTTCCAAACCTTAA
*
32240107 CCCCTTAAGCAGTAGGGAAACA
1 CCCC-TAAGCAGTAGGGTAACA
32240129 GATCGAAGAC
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 6 0.11
43 49 0.89
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.20
Consensus pattern (42 bp):
CCCCTAAGCAGTAGGGTAACAAGCCAAATTTCCAAACCTTAA
Found at i:32240149 original size:87 final size:85
Alignment explanation
Indices: 32240058--32240303 Score: 350
Period size: 86 Copynumber: 2.8 Consensus size: 85
32240048 AATTTTCAAA
* *
32240058 CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTCCAGACCTTAACCCCTTAAGCAGTAGG
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTCCAGATCTTAACCCC-TAAGCAGTAGG
32240123 GAAACAGATCGAAGACGAAGGG
65 G-AACAGATCGAAGACGAAGGG
* * * * *
32240145 CCTTAAACCCCTAAGCAGTAGGGTAACAGACCAAA-TTGCAGATCTTATCTCCCTAAGTAGTAGT
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTCCAGATCTTAAC-CCCTAAGCAGTAG-
*
32240209 GGAGCAGATCGAAGACGAAGGG
64 GGAACAGATCGAAGACGAAGGG
*
32240231 CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTCTAGATCTTAACCCCCTAAGCAGTAGG
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTCCAGATCTTAA-CCCCTAAGCAGTAGG
32240296 GTAACAGA
65 G-AACAGA
32240304 CCAAATTATA
Statistics
Matches: 139, Mismatches: 15, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
86 74 0.53
87 64 0.46
88 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.23, T:0.20
Consensus pattern (85 bp):
CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTCCAGATCTTAACCCCTAAGCAGTAGGG
AACAGATCGAAGACGAAGGG
Found at i:32240287 original size:216 final size:216
Alignment explanation
Indices: 32239979--32240517 Score: 716
Period size: 216 Copynumber: 2.5 Consensus size: 216
32239969 AGATCTAACC
* * * * * *
32239979 CCCTAAGCAGTAG-GGAAACAGATCGAA-AGTGATGGG-CTTCAACCCCCTGAGCAATAGGGTAA
1 CCCTAAGCAGTAGTGG-AGCAGATCGAAGA-CGAAGGGCCTT-AAACCCCTAAGCAGTAGGGTAA
* * * * * * **
32240041 CAAGCCAAATTT-TCAAACCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATT-TCCAGACCT
63 CAGGCTAAATTTCT-AGATCTTAACCCCCTAAGCAGTAGGGTAACAGACCAAATTAT--AGACCT
32240104 TAAC-CCCTTAAGCAGTAGG-GAAACAGATCGAAGACGAAGGGCCTT-AAACCCCTAAGCAGTAG
125 TAACTCCC-TAAGCAGTAGGAG-AACAGATCGAAGACGAAGGGCCTTGAAACCCCTAAGCAGTAG
32240166 GGTAACAGACCAAATTGCAGATCTTATCT
188 GGTAACAGACCAAATTGCAGATCTTATCT
*
32240195 CCCTAAGTAGTAGTGGAGCAGATCGAAGACGAAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAG
1 CCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAG
* *
32240260 GCTAAATTTCTAGATCTTAACCCCCTAAGCAGTAGGGTAACAGACCAAATTATAGATCTTATCTC
66 GCTAAATTTCTAGATCTTAACCCCCTAAGCAGTAGGGTAACAGACCAAATTATAGACCTTAACTC
* * * *
32240325 CCTAAGCAGTAGTAGAGCAGATCGAAGACGAAGGGTCTTGAACCCCCTAAGCAGTAGGGTAACAG
131 CCTAAGCAGTAGGAGAACAGATCGAAGACGAAGGGCCTTGAAACCCCTAAGCAGTAGGGTAACAG
32240390 ACCAAATTGCAGATCTTATCT
196 ACCAAATTGCAGATCTTATCT
*
32240411 CCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGGGTCTTAAACCCCTAAGCAGTAGGGTAACAG
1 CCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAG
* * * *
32240476 GCTGAATTTCCAGATCTTAACCCCATAAGCAGTAGGGAAACA
66 GCTAAATTTCTAGATCTTAACCCCCTAAGCAGTAGGGTAACA
32240518 AATCGAAGAC
Statistics
Matches: 288, Mismatches: 27, Indels: 16
0.87 0.08 0.05
Matches are distributed among these distances:
215 40 0.14
216 240 0.83
217 8 0.03
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.20
Consensus pattern (216 bp):
CCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAG
GCTAAATTTCTAGATCTTAACCCCCTAAGCAGTAGGGTAACAGACCAAATTATAGACCTTAACTC
CCTAAGCAGTAGGAGAACAGATCGAAGACGAAGGGCCTTGAAACCCCTAAGCAGTAGGGTAACAG
ACCAAATTGCAGATCTTATCT
Found at i:32240302 original size:129 final size:129
Alignment explanation
Indices: 32240146--32240423 Score: 432
Period size: 129 Copynumber: 2.2 Consensus size: 129
32240136 GACGAAGGGC
* * * *
32240146 CTTAAACCCCTAAGCAGTAGGGTAACAGACCAAATTGCAGATCTTATCTCCCTAAGTAGTAGTGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGACCAAATTACAGATCTTATCTCCCTAAGCAGTAGTAG
* * *
32240211 AGCAGATCGAAGACGAAGGGCCTT-AAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTCTAGAT
66 AGCAGATCGAAGACGAAGGGCCTTGAAACCCCTAAGCAGTAGGGTAACAGACCAAATTGC-AGAT
*
32240275 CTTAACCCCCTAAGCAGTAGGGTAACAGACCAAATTATAGATCTTATCTCCCTAAGCAGTAGTAG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGACCAAATTACAGATCTTATCTCCCTAAGCAGTAGTAG
* *
32240340 AGCAGATCGAAGACGAAGGGTCTTGAACCCCCTAAGCAGTAGGGTAACAGACCAAATTGCAGAT
66 AGCAGATCGAAGACGAAGGGCCTTGAAACCCCTAAGCAGTAGGGTAACAGACCAAATTGCAGAT
* *
32240404 CTTATCTCCCTAAGCAGTAG
1 CTTAACCCCCTAAGCAGTAG
32240424 TGGAGCAGAT
Statistics
Matches: 136, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
129 105 0.77
130 31 0.23
ACGTcount: A:0.34, C:0.23, G:0.22, T:0.22
Consensus pattern (129 bp):
CTTAACCCCCTAAGCAGTAGGGTAACAGACCAAATTACAGATCTTATCTCCCTAAGCAGTAGTAG
AGCAGATCGAAGACGAAGGGCCTTGAAACCCCTAAGCAGTAGGGTAACAGACCAAATTGCAGAT
Found at i:32240369 original size:87 final size:85
Alignment explanation
Indices: 32240274--32240558 Score: 376
Period size: 87 Copynumber: 3.3 Consensus size: 85
32240264 AATTTCTAGA
* *
32240274 TCTTAACCCCCTAAGCAGTAGGGTAACAGACCAAATTATAGATCTTATCTCCCTAAGCAGTAGTA
1 TCTTAAACCCCTAAGCAGTAGGGTAACAGACCAAATT-TAGATCTTATCTCCCTAAGCAGTAGTG
32240339 GAGCAGATCGAAGACGAAGGG
65 GAGCAGATCGAAGACGAAGGG
* *
32240360 TCTTGAACCCCCTAAGCAGTAGGGTAACAGACCAAATTGCAGATCTTATCTCCCTAAGCAGTAGT
1 TCTT-AAACCCCTAAGCAGTAGGGTAACAGACCAAATT-TAGATCTTATCTCCCTAAGCAGTAGT
32240425 GGAGCAGATCGAAGACGAAGGG
64 GGAGCAGATCGAAGACGAAGGG
* ** *
32240447 TCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTCCAGATCTTAAC-CCCATAAGCAGTAG
1 TCTTAAACCCCTAAGCAGTAGGGTAACAGACCAAATTT--AGATCTTATCTCCC-TAAGCAGTAG
* * *
32240511 -GGAAACAAATCGAAGACGATGGG
63 TGG-AGCAGATCGAAGACGAAGGG
* *
32240534 CCTTAAACCCTTAAGCAGTAGGGTA
1 TCTTAAACCCCTAAGCAGTAGGGTA
32240559 CCGGGCTGAA
Statistics
Matches: 180, Mismatches: 14, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
86 38 0.21
87 142 0.79
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.20
Consensus pattern (85 bp):
TCTTAAACCCCTAAGCAGTAGGGTAACAGACCAAATTTAGATCTTATCTCCCTAAGCAGTAGTGG
AGCAGATCGAAGACGAAGGG
Found at i:32241606 original size:20 final size:21
Alignment explanation
Indices: 32241581--32241625 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
32241571 AGGTTTATTG
32241581 TTTTTTATT-TCTTTTCTTCC
1 TTTTTTATTATCTTTTCTTCC
* *
32241601 TTTTTTATTATTTTTTCTTTC
1 TTTTTTATTATCTTTTCTTCC
32241622 TTTT
1 TTTT
32241626 CAAAACTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.07, C:0.13, G:0.00, T:0.80
Consensus pattern (21 bp):
TTTTTTATTATCTTTTCTTCC
Found at i:32242394 original size:3 final size:3
Alignment explanation
Indices: 32242388--32242475 Score: 124
Period size: 3 Copynumber: 29.0 Consensus size: 3
32242378 TTGTTATCAC
* * *
32242388 TAT TAT T-T CTAT TAT TTT TAT TAT TACT TAT TAT CAA TAT TAT TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT
32242434 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
32242476 CAATATTTAC
Statistics
Matches: 76, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
2 1 0.01
3 71 0.93
4 4 0.05
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:32242606 original size:16 final size:16
Alignment explanation
Indices: 32242582--32242612 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32242572 TATTTCACTA
32242582 TTATCATTTTTTATTG
1 TTATCATTTTTTATTG
*
32242598 TTATTATTTTTTATT
1 TTATCATTTTTTATT
32242613 ACTTACTATC
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:0.19, C:0.03, G:0.03, T:0.74
Consensus pattern (16 bp):
TTATCATTTTTTATTG
Done.