Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold279
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: 1516008
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
File 7 of 10
Found at i:974495 original size:22 final size:21
Alignment explanation
Indices: 974459--974512 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
974449 GCTTTTGGAG
* *
974459 GAAAATAAAGAGAGATAGAGAA
1 GAAAA-AAAGAGAGAAAAAGAA
974481 GAAAAAAAGAGGAGAAAAAGAA
1 GAAAAAAAGA-GAGAAAAAGAA
*
974503 GAAAGAAAGA
1 GAAAAAAAGA
974513 ATATAAGGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 5 0.18
22 23 0.82
ACGTcount: A:0.69, C:0.00, G:0.28, T:0.04
Consensus pattern (21 bp):
GAAAAAAAGAGAGAAAAAGAA
Found at i:975702 original size:141 final size:143
Alignment explanation
Indices: 975435--975707 Score: 383
Period size: 141 Copynumber: 1.9 Consensus size: 143
975425 ATTTTATCAC
* *
975435 TAAATAAAATTATTATCTTAATTTTTCAATATTTCTAATATTCTTATGGTTTTCCATAGGGATAT
1 TAAATAAAATTATTATCTTAATTTTTCAAGATTTCTAATATTCTTATGGGTTTCCATAGGGATAT
* * *
975500 AGAAATCTTCAAAATATTTTCATATCTTTTCGGTTCTTCGTTAAGGTACAAAATGAAATTTTTAA
66 AGAAACCTTCAAAATATTTTCATATCTTTTCGGTTCTCCATTAAGGTACAAAATGAAATTTTTAA
975565 AAATTAAAAAAAT
131 AAATTAAAAAAAT
* * * *
975578 TAAATAAAAATTATTATCTTAATTTTTCAAGATTTGTGATATTCTTA-GGGTTT-CGTAGGGGTA
1 TAAAT-AAAATTATTATCTTAATTTTTCAAGATTTCTAATATTCTTATGGGTTTCCATAGGGATA
* * * *
975641 TAGAAACCTTCAAAACT-TTTT-GTATCTTTTTGGTTCTCCATTAAGGTACGAAATGAGATTTTT
65 TAGAAACCTTCAAAA-TATTTTCATATCTTTTCGGTTCTCCATTAAGGTACAAAATGAAATTTTT
975704 AAAA
129 AAAA
975708 TTTACAACTT
Statistics
Matches: 115, Mismatches: 13, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
141 40 0.35
142 26 0.23
143 11 0.10
144 38 0.33
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.43
Consensus pattern (143 bp):
TAAATAAAATTATTATCTTAATTTTTCAAGATTTCTAATATTCTTATGGGTTTCCATAGGGATAT
AGAAACCTTCAAAATATTTTCATATCTTTTCGGTTCTCCATTAAGGTACAAAATGAAATTTTTAA
AAATTAAAAAAAT
Found at i:981778 original size:33 final size:33
Alignment explanation
Indices: 981734--981798 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
981724 TTTGGGACAA
* * *
981734 TGTATCGATACAATTCGTCATGTATCGATACAT
1 TGTATCAATACAATTCGCCATATATCGATACAT
981767 TGTATCAATACAATTCGCCATATATCGATACA
1 TGTATCAATACAATTCGCCATATATCGATACA
981799 AATAGTAGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (33 bp):
TGTATCAATACAATTCGCCATATATCGATACAT
Found at i:981871 original size:19 final size:19
Alignment explanation
Indices: 981830--981901 Score: 108
Period size: 19 Copynumber: 3.7 Consensus size: 19
981820 GTAGTTTCAC
*
981830 GTATCGATACAATTATGCAT
1 GTATCGATACAATGAT-CAT
981850 GTATCGATACAATGATCAT
1 GTATCGATACAATGATCAT
*
981869 GTATCGATATAATGATCAT
1 GTATCGATACAATGATCAT
*
981888 GTATTGATACAATG
1 GTATCGATACAATG
981902 TATCGACACA
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
19 33 0.69
20 15 0.31
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.35
Consensus pattern (19 bp):
GTATCGATACAATGATCAT
Found at i:985689 original size:19 final size:19
Alignment explanation
Indices: 985665--985722 Score: 107
Period size: 19 Copynumber: 3.1 Consensus size: 19
985655 ATTATCCCAT
985665 CATGCTCACCTCGAATTCA
1 CATGCTCACCTCGAATTCA
*
985684 CATGCTCACCTCAAATTCA
1 CATGCTCACCTCGAATTCA
985703 CATGCTCACCTCGAATTCA
1 CATGCTCACCTCGAATTCA
985722 C
1 C
985723 CTTGCACTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 37 1.00
ACGTcount: A:0.28, C:0.38, G:0.09, T:0.26
Consensus pattern (19 bp):
CATGCTCACCTCGAATTCA
Found at i:989260 original size:28 final size:27
Alignment explanation
Indices: 989223--989292 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 27
989213 AATAAAATTG
*
989223 GGGTTAGAGTATCCCCTCAGAAATAAC
1 GGGTTGGAGTATCCCCTCAGAAATAAC
989250 AGGGTTGGAGTATCCCCTCAGAAATAAC
1 -GGGTTGGAGTATCCCCTCAGAAATAAC
*
989278 GAGGTCGGAGTATCC
1 G-GGTTGGAGTATCC
989293 TCGATTGTGA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
27 1 0.03
28 38 0.97
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.21
Consensus pattern (27 bp):
GGGTTGGAGTATCCCCTCAGAAATAAC
Found at i:989366 original size:28 final size:29
Alignment explanation
Indices: 989331--989401 Score: 101
Period size: 28 Copynumber: 2.5 Consensus size: 29
989321 ATAAAATTGA
989331 GGTTGGAGTATCCCCTCA-GAAATAACAG
1 GGTTGGAGTATCCCCTCATGAAATAACAG
* * *
989359 GGTTGGAGTAT-CCTTGATGAAATAACGG
1 GGTTGGAGTATCCCCTCATGAAATAACAG
989387 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
989402 GATTGTGAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 4 0.11
28 31 0.84
29 2 0.05
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (29 bp):
GGTTGGAGTATCCCCTCATGAAATAACAG
Found at i:989382 original size:107 final size:106
Alignment explanation
Indices: 989196--989506 Score: 435
Period size: 107 Copynumber: 2.9 Consensus size: 106
989186 CTGACTATGG
* * *
989196 AAAATCGATGTTCTAGAAATAAAATTGGGGTTAGAGTATCCCCTCAGAAATAACAGGGTTGGAGT
1 AAAATTGATGTTTTAGAAATAAAATTGAGGTTAGAGTATCCCCTCAGAAATAACAGGGTTGGAGT
* *
989261 ATCCCCTCA-GAAATAACGAGGTCGGAGTATCCTCGATTGTGA
66 AT-CCCTAATGAAATAACG-GGTTGGAGTATCCTCGATTGTGA
* *
989303 AAAATTGGTGTTTTAGAAATAAAATTGAGGTTGGAGTATCCCCTCAGAAATAACAGGGTTGGAGT
1 AAAATTGATGTTTTAGAAATAAAATTGAGGTTAGAGTATCCCCTCAGAAATAACAGGGTTGGAGT
* * *
989368 ATCCTTGATGAAATAACGGGGTTGGAGTATCCCCGATTGTGA
66 ATCCCTAATGAAATAAC-GGGTTGGAGTATCCTCGATTGTGA
*** * *
989410 AAAATTGATGTTTTAGAAATAAAACCAAGGTTAGAGTATCCCCTCGGAAATAACAAGGTTGGAGT
1 AAAATTGATGTTTTAGAAATAAAATTGAGGTTAGAGTATCCCCTCAGAAATAACAGGGTTGGAGT
* *
989475 ATCCCCAATGAAATAACGGCTTGGAGTATCCT
66 ATCCCTAATGAAATAACGGGTTGGAGTATCCT
989507 TGAAATGAAA
Statistics
Matches: 181, Mismatches: 21, Indels: 5
0.87 0.10 0.02
Matches are distributed among these distances:
106 17 0.09
107 163 0.90
108 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (106 bp):
AAAATTGATGTTTTAGAAATAAAATTGAGGTTAGAGTATCCCCTCAGAAATAACAGGGTTGGAGT
ATCCCTAATGAAATAACGGGTTGGAGTATCCTCGATTGTGA
Found at i:989487 original size:28 final size:28
Alignment explanation
Indices: 989435--989505 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 28
989425 GAAATAAAAC
* **
989435 CAAGGTTAGAGTATCCCCTCGGAAATAA
1 CAAGGTTGGAGTATCCCCAAGGAAATAA
*
989463 CAAGGTTGGAGTATCCCCAATGAAATAA
1 CAAGGTTGGAGTATCCCCAAGGAAATAA
989491 C--GGCTTGGAGTATCC
1 CAAGG-TTGGAGTATCC
989506 TTGAAATGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
26 2 0.05
27 11 0.29
28 25 0.66
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.23
Consensus pattern (28 bp):
CAAGGTTGGAGTATCCCCAAGGAAATAA
Found at i:990999 original size:123 final size:120
Alignment explanation
Indices: 990765--991098 Score: 391
Period size: 123 Copynumber: 2.8 Consensus size: 120
990755 GGACTAGTAG
* * * ** * *
990765 GTGCCACCAGCTTGTATGGGTTTTGCAAGGAGAAAG-CATCCTACTCTTTGAGGACTGGAAGGTG
1 GTGCCACCAACTTGTGTGGGATTTAAAAGGA-AAAGACGTCCTGCTCTTTGAGGACT-GAAGGTG
** *
990829 CCACCAATTTGTGTGGGCTTTAAAAGGAAAAGACGTCCTACTTTTTGAAGATTAGAAAA
64 CCACCAGCTTGTGTGGGCTTTAAAAGGAAAAGACGTCCTACTCTTTGAAGA--AGAAAA
*
990888 GTGCCACCAACTTGTGTGGGATTTAAAAGGAAAAGATGTCCTGCTCTTTGAGGACTAGAAGGTGC
1 GTGCCACCAACTTGTGTGGGATTTAAAAGGAAAAGACGTCCTGCTCTTTGAGGACT-GAAGGTGC
* * * * *
990953 CACCAGCTTGCGTGGGCTTTAAAAGGAAAAGGCGTTCTGCTCTTTGAGGAAGAAAA
65 CACCAGCTTGTGTGGGCTTTAAAAGGAAAAGACGTCCTACTCTTTGAAGAAGAAAA
* * * * * * *
991009 GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCTTGCACTTTAAAGACTGAACGTGCC
1 GTGCCACCAACTTGTGTGGGATTTAAAAGGAAAAGACGTCCTGCTCTTTGAGGACTGAAGGTGCC
* *
991074 ACTAGCTTGTGTGGGCTTTGAAAGG
66 ACCAGCTTGTGTGGGCTTTAAAAGG
991099 CATCTTGCTC
Statistics
Matches: 182, Mismatches: 28, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
120 30 0.16
121 55 0.30
122 4 0.02
123 93 0.51
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (120 bp):
GTGCCACCAACTTGTGTGGGATTTAAAAGGAAAAGACGTCCTGCTCTTTGAGGACTGAAGGTGCC
ACCAGCTTGTGTGGGCTTTAAAAGGAAAAGACGTCCTACTCTTTGAAGAAGAAAA
Found at i:991073 original size:60 final size:61
Alignment explanation
Indices: 990741--991153 Score: 342
Period size: 61 Copynumber: 6.9 Consensus size: 61
990731 ACTGAAATGG
* ** * * * * * **
990741 GTCCTGCTCCTTGGGGACTAGTAGGTGCCACCAGCTTGTATGGGTTTTGCAAGGAGAAAG-C
1 GTCCTGCTCTTTGAAGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAGAC
* * * * * *
990802 ATCCTACTCTTTGAGGACTGGAAGGTGCCACCAATTTGTGTGGGCTTTAAAAGGAAAAGAC
1 GTCCTGCTCTTTGAAGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGAC
* * * * *
990863 GTCCTACTTTTTGAAGATTAGAAAAGTGCCACCAACTTGTGTGGGATTTAAAAGGAAAAGAT
1 GTCCTGCTCTTTGAAGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGAC
* * * * *
990925 GTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAGCTTGCGTGGGCTTTAAAAGGAAAAGGC
1 GTCCTGCTCTTTGAAGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGAC
* * *
990986 GTTCTGCTCTTTGAGGA--AGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
1 GTCCTGCTCTTTGAAGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGAC
* * * * * * *
991046 GTCTTGCACTTTAAAGACT-GAACGTGCCACTAGCTTGTGTGGGCTTT-----G-AAAGGC
1 GTCCTGCTCTTTGAAGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGAC
* * * * * * *
991100 ATCTTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTATGGGCTTTGAAAGG
1 GTCCTGCTCTTTGAAGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
991154 CGTCCTTCTC
Statistics
Matches: 289, Mismatches: 52, Indels: 23
0.79 0.14 0.06
Matches are distributed among these distances:
54 21 0.07
55 24 0.08
59 2 0.01
60 78 0.27
61 111 0.38
62 53 0.18
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (61 bp):
GTCCTGCTCTTTGAAGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGAC
Found at i:991147 original size:55 final size:54
Alignment explanation
Indices: 990929--991177 Score: 191
Period size: 60 Copynumber: 4.4 Consensus size: 54
990919 AAAGATGTCC
** * *
990929 TGCTCTTTGAGGACTAGAAGGTGCCACCAGCTTGCGTGGGCTTTAAAAGGAAAAGGCGT-T
1 TGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCGTCT
*
990989 CTGCTCTTTGAGGA-AGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCT
1 -TGCTCTTTGAGGACTGAAAA-TGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCGTCT
* * * ** * * *
991050 TGCACTTTAAAGACTGAACGTGCCACTAGCTTGTGTGGGCTTTGAAAGGCATCT
1 TGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCT
*
991104 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTATGGGCTTTGAAAGGCGTCCT
1 TGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGT-CT
991160 T-CTCTTTGAGGACT-AAAA
1 TGCTCTTTGAGGACTGAAAA
991178 GGTGAAATAA
Statistics
Matches: 160, Mismatches: 23, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
53 4 0.03
54 21 0.13
55 45 0.28
56 3 0.02
59 3 0.02
60 67 0.42
61 17 0.11
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.27
Consensus pattern (54 bp):
TGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCT
Found at i:1004916 original size:107 final size:104
Alignment explanation
Indices: 1004709--1005055 Score: 365
Period size: 107 Copynumber: 3.2 Consensus size: 104
1004699 ACAATGGGGC
* * * * * * *
1004709 TGGAGTGTCCCCTGACTATGGAAAATTGGTGTTTTGCAAATAAAATGGGGGTTGGAGTAT-CTCT
1 TGGAGTATCCCC-GATTATGAAAAATTGGTGTTTAG-AAATAAAATCGAGGTTGGAGTATCCCCT
** *
1004773 TTAGAAATAATAGGGTTGAAGTATCCCCGATGAAATAACGAGGT
64 CGA-AAATAACAGGGTTG-AGTATCCCCGATGAAATAA-GAGGT
*
1004817 TGGAGTATTCCCGATTATGAAAAATTGGTGTTTAAGAAATAAAATCGAGGTTGGAGTATCCCCTC
1 TGGAGTATCCCCGATTATGAAAAATTGGTGTTT-AGAAATAAAATCGAGGTTGGAGTATCCCCTC
** *
1004882 GAAAATAACAGGGTTAGAGTATCTTCGATGAAATAATGGGGT
65 GAAAATAACAGGGTT-GAGTATCCCCGATGAAATAA-GAGGT
* * ** *
1004924 TGGAGTATCCCCGATTGTGAAAAAGTAATGTTTTAGAAATAAAACCGAGGTTGGAGTATCCCCTC
1 TGGAGTATCCCCGATTATGAAAAATTGGTG-TTTAGAAATAAAATCGAGGTTGGAGTATCCCCTC
* * *
1004989 GGAAATAACAAGGTTGGAGTATCCCCGATGAAATAAAAGGGT
65 GAAAATAACAGGGTT-GAGTATCCCCGATGAAATAAGA-GGT
* *
1005031 TGGAGCATCCCCGA-GATGAAAAATT
1 TGGAGTATCCCCGATTATGAAAAATT
1005056 TAGAAATTTA
Statistics
Matches: 202, Mismatches: 32, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
106 8 0.04
107 175 0.87
108 19 0.09
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.27
Consensus pattern (104 bp):
TGGAGTATCCCCGATTATGAAAAATTGGTGTTTAGAAATAAAATCGAGGTTGGAGTATCCCCTCG
AAAATAACAGGGTTGAGTATCCCCGATGAAATAAGAGGT
Found at i:1004938 original size:28 final size:30
Alignment explanation
Indices: 1004865--1004938 Score: 75
Period size: 28 Copynumber: 2.6 Consensus size: 30
1004855 ATAAAATCGA
1004865 GGTTGGAGTATCCCC--TCGAAAATAACAG
1 GGTTGGAGTATCCCCGATCGAAAATAACAG
* ** **
1004893 GGTTAGAGTATCTTCGAT-G-AAATAATGG
1 GGTTGGAGTATCCCCGATCGAAAATAACAG
1004921 GGTTGGAGTATCCCCGAT
1 GGTTGGAGTATCCCCGAT
1004939 TGTGAAAAAG
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
28 34 0.94
29 1 0.03
30 1 0.03
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.27
Consensus pattern (30 bp):
GGTTGGAGTATCCCCGATCGAAAATAACAG
Found at i:1005005 original size:28 final size:27
Alignment explanation
Indices: 1004971--1005045 Score: 96
Period size: 28 Copynumber: 2.7 Consensus size: 27
1004961 AATAAAACCG
**
1004971 AGGTTGGAGTATCCCCTCGGAAATAACA
1 AGGTTGGAGTATCCCCGAGGAAATAA-A
*
1004999 AGGTTGGAGTATCCCCGATGAAATAAA
1 AGGTTGGAGTATCCCCGAGGAAATAAA
*
1005026 AGGGTTGGAGCATCCCCGAG
1 A-GGTTGGAGTATCCCCGAG
1005046 ATGAAAAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
27 2 0.05
28 39 0.95
ACGTcount: A:0.31, C:0.20, G:0.29, T:0.20
Consensus pattern (27 bp):
AGGTTGGAGTATCCCCGAGGAAATAAA
Found at i:1005665 original size:11 final size:10
Alignment explanation
Indices: 1005636--1005661 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
1005626 CTCTTTGAGG
1005636 AAAAAATTTC
1 AAAAAATTTC
1005646 AAAAAATTTC
1 AAAAAATTTC
1005656 AAAAAA
1 AAAAAA
1005662 ATTTTTTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (10 bp):
AAAAAATTTC
Found at i:1010132 original size:19 final size:21
Alignment explanation
Indices: 1010108--1010163 Score: 82
Period size: 20 Copynumber: 2.8 Consensus size: 21
1010098 TATAGTTGTG
1010108 CATGTATCGATACA-AT-GAT
1 CATGTATCGATACATATGGAT
*
1010127 CATGTATCGATACATCTGGAT
1 CATGTATCGATACATATGGAT
1010148 -ATGTATCGATACATAT
1 CATGTATCGATACATAT
1010164 AAGGATTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 14 0.42
20 16 0.48
21 3 0.09
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (21 bp):
CATGTATCGATACATATGGAT
Found at i:1010153 original size:20 final size:20
Alignment explanation
Indices: 1010087--1010163 Score: 81
Period size: 20 Copynumber: 3.9 Consensus size: 20
1010077 ACTACCAGTT
*
1010087 TCATGTATCGATATAGT-TG-
1 TCATGTATCGATACA-TATGA
1010106 TGCATGTATCGATACA-ATGA
1 T-CATGTATCGATACATATGA
*
1010126 TCATGTATCGATACATCTGGA
1 TCATGTATCGATACATAT-GA
1010147 T-ATGTATCGATACATAT
1 TCATGTATCGATACATAT
1010164 AAGGATTTTA
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
19 17 0.34
20 30 0.60
21 3 0.06
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.36
Consensus pattern (20 bp):
TCATGTATCGATACATATGA
Found at i:1010514 original size:54 final size:54
Alignment explanation
Indices: 1010430--1010573 Score: 227
Period size: 54 Copynumber: 2.7 Consensus size: 54
1010420 GATCCTAATA
* * *
1010430 GATTCCATGCATATTGATCCATGTAA-TGCATGATTTTTCTTTTTGCCATGATTT
1 GATTCCATGCATATTGATGC-TTTAATTGCATGAATTTTCTTTTTGCCATGATTT
* *
1010484 GATTCCATGCATATTAATGCTTTAATTGCATGAATTTTGTTTTTGCCATGATTT
1 GATTCCATGCATATTGATGCTTTAATTGCATGAATTTTCTTTTTGCCATGATTT
1010538 GATTCCATGCATATTGATGCTTTAATTGCATGAATT
1 GATTCCATGCATATTGATGCTTTAATTGCATGAATT
1010574 GGTTTCATGC
Statistics
Matches: 83, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 4 0.05
54 79 0.95
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.46
Consensus pattern (54 bp):
GATTCCATGCATATTGATGCTTTAATTGCATGAATTTTCTTTTTGCCATGATTT
Found at i:1010718 original size:3 final size:3
Alignment explanation
Indices: 1010712--1010771 Score: 65
Period size: 3 Copynumber: 21.0 Consensus size: 3
1010702 TAATAATTAA
* *
1010712 ATT ATT ATT ATT ATT ATT -TT ATT -TA ATT ATA ATT A-T ATTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT
1010755 ATT ATT ATT ATT -TT ATT
1 ATT ATT ATT ATT ATT ATT
1010772 TTTTTAAATA
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
2 7 0.15
3 39 0.81
4 2 0.04
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:1010771 original size:37 final size:36
Alignment explanation
Indices: 1010699--1010772 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 36
1010689 TTTTTTATAA
1010699 TAATAATAATTAAATTATTATTATTATTATTTTATT
1 TAATAATAATTAAATTATTATTATTATTATTTTATT
* *
1010735 TAATTATAATTATATTTATTATTATTATTATTTTATT
1 TAATAATAATTA-AATTATTATTATTATTATTTTATT
1010772 T
1 T
1010773 TTTTAAATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
36 11 0.31
37 24 0.69
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (36 bp):
TAATAATAATTAAATTATTATTATTATTATTTTATT
Found at i:1011695 original size:208 final size:210
Alignment explanation
Indices: 1011259--1011695 Score: 506
Period size: 208 Copynumber: 2.1 Consensus size: 210
1011249 TTCTAGGCCT
* * * **
1011259 AAGTCGACAAGTAATCAAAAGAGAAAGAAGTCTCCCGGGTTTAAGCCAACGAGCAGACAAAGGGT
1 AAGTCGACAAGTAAACAAAAGACAAAGAAGTCTCCCGAGTCAAAGCCAACGAGCAGACAAAGGGT
* ** * **
1011324 AAAAAAGTCTCTCGGGTCAAAGCTAATGGGCAGATAAAGGATAACAAAGTCTCCTGGGTCAAAGT
66 AAAAAAGTCTCTAGGGTCAAAGCTAACAGGCAGACAAAGGATAACAAAGTCTCCTAAGTCAAAGT
* * * * * *
1011389 CGATGGGTAGATAAAAGGTAAAGAAGATTTCAAGGTCAAGGTTGACAGACAGACAAAAGGTAAAG
131 CAATGGGTAGACAAAAGGTAAAGAAGATTTCAAGGTCAAAGCTAACAGACAGACAAAAGATAAAG
* *
1011454 AAGTCTCCTGGGTCA
196 AAGTCTCCCGGATCA
* ** * ** **
1011469 AAGTCAACGGGTAAACAAAGGACAAAGAAGTCTCTTGAGTCAAAGCCAACGAGTTGACAAA-GGT
1 AAGTCGACAAGTAAACAAAAGACAAAGAAGTCTCCCGAGTCAAAGCCAACGAGCAGACAAAGGGT
*
1011533 AAAAAAGTCTCTAGGGTCAAAGCTAACAGGTAGACAAAGG-TAA-AGAAGTCTCCTAAGTCAAAG
66 AAAAAAGTCTCTAGGGTCAAAGCTAACAGGCAGACAAAGGATAACA-AAGTCTCCTAAGTCAAAG
** * *
1011596 -CTAATGGGTAGACAAAAGGTAAAGAAG-TCTTTTAGGTCAAAGCTAACAGGCAGATAAAAGATA
130 TC-AATGGGTAGACAAAAGGTAAAGAAGAT-TTCAAGGTCAAAGCTAACAGACAGACAAAAGATA
*
1011659 AGGAAGTCTCCCGGATCA
193 AAGAAGTCTCCCGGATCA
*
1011677 AAGTCGACAAGCAAACAAA
1 AAGTCGACAAGTAAACAAA
1011696 TGGTAAAAAG
Statistics
Matches: 187, Mismatches: 37, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
207 3 0.02
208 98 0.52
209 38 0.20
210 48 0.26
ACGTcount: A:0.42, C:0.16, G:0.25, T:0.17
Consensus pattern (210 bp):
AAGTCGACAAGTAAACAAAAGACAAAGAAGTCTCCCGAGTCAAAGCCAACGAGCAGACAAAGGGT
AAAAAAGTCTCTAGGGTCAAAGCTAACAGGCAGACAAAGGATAACAAAGTCTCCTAAGTCAAAGT
CAATGGGTAGACAAAAGGTAAAGAAGATTTCAAGGTCAAAGCTAACAGACAGACAAAAGATAAAG
AAGTCTCCCGGATCA
Found at i:1011736 original size:125 final size:126
Alignment explanation
Indices: 1011607--1011835 Score: 309
Period size: 125 Copynumber: 1.8 Consensus size: 126
1011597 TAATGGGTAG
* * ** * **
1011607 ACAAAAGGTAAAGAAGTCTTTTAGGTCAAAGCTAACAGGCAGATAAAAGATAAGGAAGTCTCCCG
1 ACAAAAAGTAAAAAAGTCTCCTAGGTCAAAGCTAACAGGCAAATAAAAGATAAAAAAGTCTCCCG
1011672 GATCAAAGTCGACAAGCAAACAAATGG-T-AAAAAGTCTCCTAGGTTAAAATTGACGGGCAA
66 GATCAAAGTCGACAAGCAAACAAA-GGATAAAAAAGTCTCCTAGGTTAAAATTGACGGGCAA
* * * *
1011732 ACAAAAAGTAAAAAAGTCTCCTAGGTCAAAGCTGATAGGCAAATAAAAGTTAAAAAAGTCTCCTG
1 ACAAAAAGTAAAAAAGTCTCCTAGGTCAAAGCTAACAGGCAAATAAAAGATAAAAAAGTCTCCCG
* **
1011797 GGTCAAAGTCGACCGGCAAACAAAGGATAAAAAAGTCTC
66 GATCAAAGTCGACAAGCAAACAAAGGATAAAAAAGTCTC
1011836 TCAGGTCAAA
Statistics
Matches: 88, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
124 2 0.02
125 76 0.86
126 10 0.11
ACGTcount: A:0.45, C:0.17, G:0.21, T:0.18
Consensus pattern (126 bp):
ACAAAAAGTAAAAAAGTCTCCTAGGTCAAAGCTAACAGGCAAATAAAAGATAAAAAAGTCTCCCG
GATCAAAGTCGACAAGCAAACAAAGGATAAAAAAGTCTCCTAGGTTAAAATTGACGGGCAA
Found at i:1011871 original size:333 final size:334
Alignment explanation
Indices: 1011443--1012127 Score: 923
Period size: 333 Copynumber: 2.1 Consensus size: 334
1011433 ACAGACAGAC
* * * *
1011443 AAAAGGTAAAGAAGTCTCCTGGGTCAAAGTCAACGGGTAAACAAAGGACAAAGAAGTCTCTTGAG
1 AAAAGGTAAAGAAGTCTCCTGGGTCAAAGTCAACCGGCAAACAAAGGACAAAAAAGTCTCTAGAG
** * *
1011508 TCAAAGCCAACGAGTTGACAAAGGTAAAAAAGTCTCTAGGGTCAAAGCTA-ACAGGTAGACAAAG
66 TCAAAGCCAACGAGCAGACAAAGGTAAAAAAGACTCTAGGGTCAAAGC-AGACAGGCAGACAAAG
* * * * * * *
1011572 GTAAAGAAGTCTCCTAAGTCAAAGCTAATGGGTAGACAAAAGGTAAAGAAGTCTTTTAGGTCAAA
130 GTAAAAAAGCCTCCCAAATCAAAGCTAACGGGTAGACAAAAGGTAAAGAAGTCTCTCAGGTCAAA
* * * *
1011637 GCTAACAGGCAGATAAAAGATAAGGAAGTCTCCC-GGATCAAAGTCGACAAGCAAACAAATGGTA
195 GCCAACAAGCAGATAAAAGATAAAGAAGTCTCCCAGG-TCAAAGTCGACAAGCAAACAAAAGGTA
* **
1011701 AA-AAGTCTCCTAGGTTAAAATTGACGGGCAAACAAAAAGTAAAAAAGTCTCCTAGGTCAAAGCT
259 AAGAAGTCTCCTAGGTTAAAATTGACGGGCAAACAAAAAGTAAAAAAGTCTCCCAAATCAAAGCT
1011765 GATAG-GCAAAT
324 GA-AGAGCAAAT
* * * *
1011776 AAAAGTTAAAAAAGTCTCCTGGGTCAAAGTCGACCGGCAAACAAAGGATAAAAAAGTCTCTCAG-
1 AAAAGGTAAAGAAGTCTCCTGGGTCAAAGTCAACCGGCAAACAAAGGACAAAAAAGTCTCT-AGA
* * * *
1011840 GTCAAATCCGACTG-GCAGACAAAGGTAAAAAAGACTTTAGGGTCAAAGCAGACAGGCATACAAA
65 GTCAAAGCCAAC-GAGCAGACAAAGGTAAAAAAGACTCTAGGGTCAAAGCAGACAGGCAGACAAA
1011904 GGTAAAAAAGCCTCCCAAATCAAAGCTAACGGGTAGACAAAAGGTAAAGAAGTCTCTCAGGTCAA
129 GGTAAAAAAGCCTCCCAAATCAAAGCTAACGGGTAGACAAAAGGTAAAGAAGTCTCTCAGGTCAA
* * * *
1011969 AGCCGACAAGCAGATACAAGATAAAGAAGTCTCCCAGGTCAAAGTCGACAGGTAAACAAAAGGTA
194 AGCCAACAAGCAGATAAAAGATAAAGAAGTCTCCCAGGTCAAAGTCGACAAGCAAACAAAAGGTA
* * * * *
1012034 AAGAAGTCTCCTAGGTTAAAGTTGATGGGTAGACAAAAGGTAAAAAAGTCTCCCAAATCAAAGCT
259 AAGAAGTCTCCTAGGTTAAAATTGACGGGCAAACAAAAAGTAAAAAAGTCTCCCAAATCAAAGCT
*
1012099 GACGAGCAAAT
324 GAAGAGCAAAT
1012110 AAAAGGTAAAGAAGTCTC
1 AAAAGGTAAAGAAGTCTC
1012128 TCAAGTTAAA
Statistics
Matches: 304, Mismatches: 42, Indels: 11
0.85 0.12 0.03
Matches are distributed among these distances:
332 1 0.00
333 221 0.73
334 82 0.27
ACGTcount: A:0.43, C:0.17, G:0.23, T:0.17
Consensus pattern (334 bp):
AAAAGGTAAAGAAGTCTCCTGGGTCAAAGTCAACCGGCAAACAAAGGACAAAAAAGTCTCTAGAG
TCAAAGCCAACGAGCAGACAAAGGTAAAAAAGACTCTAGGGTCAAAGCAGACAGGCAGACAAAGG
TAAAAAAGCCTCCCAAATCAAAGCTAACGGGTAGACAAAAGGTAAAGAAGTCTCTCAGGTCAAAG
CCAACAAGCAGATAAAAGATAAAGAAGTCTCCCAGGTCAAAGTCGACAAGCAAACAAAAGGTAAA
GAAGTCTCCTAGGTTAAAATTGACGGGCAAACAAAAAGTAAAAAAGTCTCCCAAATCAAAGCTGA
AGAGCAAAT
Found at i:1012307 original size:85 final size:84
Alignment explanation
Indices: 1012102--1012337 Score: 208
Period size: 85 Copynumber: 2.8 Consensus size: 84
1012092 CAAAGCTGAC
* ** * * * * *
1012102 GAGCAAATAAAAGGTAAAGAAGTCTCTCAAGTTAAAGCCAACAGGCAGATAAAATGTAAAGAAGT
1 GAGCAAACAAAAAATAAAGAAGTCTCCCAGGTCAAAGCCAACAGGCAAACAAAATGTAAAGAAGT
1012167 CTTATGGGTCAAAGCCAAT
66 CTTATGGGTCAAAGCCAAT
* * * * * ** *
1012186 GGGCAAACAAAAAGTAAAAAAGTCT-CTAGGGCCAAAGTTAACGAGGCAAACAAAATGTGAAGAA
1 GAGCAAACAAAAAATAAAGAAGTCTCCCA-GGTCAAAGCCAAC-AGGCAAACAAAATGTAAAGAA
* *
1012250 GTCTCTA-GGGTCAAAGTCGACT
64 GTCT-TATGGGTCAAAG-CCAAT
** * * *
1012272 -AGCAAACAAAAAATAAAGAAGTCTCCCAGGTCAAAGCCAATGGGCAAATAAAAGGTAAAAAAGT
1 GAGCAAACAAAAAATAAAGAAGTCTCCCAGGTCAAAGCCAACAGGCAAACAAAATGTAAAGAAGT
1012336 CT
66 CT
1012338 CCCAGGTCAA
Statistics
Matches: 118, Mismatches: 29, Indels: 10
0.75 0.18 0.06
Matches are distributed among these distances:
83 1 0.01
84 49 0.42
85 61 0.52
86 7 0.06
ACGTcount: A:0.46, C:0.16, G:0.22, T:0.17
Consensus pattern (84 bp):
GAGCAAACAAAAAATAAAGAAGTCTCCCAGGTCAAAGCCAACAGGCAAACAAAATGTAAAGAAGT
CTTATGGGTCAAAGCCAAT
Found at i:1012682 original size:42 final size:41
Alignment explanation
Indices: 1011401--1012925 Score: 632
Period size: 42 Copynumber: 36.5 Consensus size: 41
1011391 ATGGGTAGAT
* * * ** * *
1011401 AAAAGGTAAAGAAGATTTCAAGGTCAAGGTTGACAGACAGAC
1 AAAAGGTAAAGAAG-TCTCCAGGTCAAAGCCGACAGGCAAAC
* * * * *
1011443 AAAAGGTAAAGAAGTCTCCTGGGTCAAAGTCAACGGGTAAAC
1 AAAAGGTAAAGAAGTCTCC-AGGTCAAAGCCGACAGGCAAAC
* ** * ***
1011485 -AAAGGACAAAGAAGTCTCTTGAGTCAAAGCCAAC-GAGTTGAC
1 AAAAGG-TAAAGAAGTCTCCAG-GTCAAAGCCGACAG-GCAAAC
* * ** * *
1011527 -AAAGGTAAAAAAGTCTCTAGGGTCAAAGCTAACAGGTAGAC
1 AAAAGGTAAAGAAGTCTCCA-GGTCAAAGCCGACAGGCAAAC
* ** ** * *
1011568 -AAAGGTAAAGAAGTCTCCTAAGTCAAAGCTAATGGGTAGAC
1 AAAAGGTAAAGAAGTCTCC-AGGTCAAAGCCGACAGGCAAAC
** ** * *
1011609 AAAAGGTAAAGAAGTCTTTTAGGTCAAAGCTAACAGGCAGAT
1 AAAAGGTAAAGAAGTC-TCCAGGTCAAAGCCGACAGGCAAAC
* * * * *
1011651 AAAAGATAAGGAAGTCTCCCGGATCAAAGTCGACAAGCAAAC
1 AAAAGGTAAAGAAGTCTCCAGG-TCAAAGCCGACAGGCAAAC
* * *** *
1011693 AAATGGTAAA-AAGTCTCCTAGGTTAAAATTGACGGGCAAAC
1 AAAAGGTAAAGAAGTCTCC-AGGTCAAAGCCGACAGGCAAAC
* * * * *
1011734 AAAAAGTAAAAAAGTCTCCTAGGTCAAAGCTGATAGGCAAAT
1 AAAAGGTAAAGAAGTCTCC-AGGTCAAAGCCGACAGGCAAAC
* * * * *
1011776 AAAAGTTAAAAAAGTCTCCTGGGTCAAAGTCGACCGGCAAAC
1 AAAAGGTAAAGAAGTCTCC-AGGTCAAAGCCGACAGGCAAAC
* * * *
1011818 -AAAGGATAAAAAAGTCTCTCAGGTCAAATCCGACTGGCAGAC
1 AAAAGG-TAAAGAAGTCTC-CAGGTCAAAGCCGACAGGCAAAC
* * ** * *
1011860 -AAAGGTAAAAAAGACTTTAGGGTCAAAGCAGACAGGCATAC
1 AAAAGGTAAAGAAGTCTCCA-GGTCAAAGCCGACAGGCAAAC
* * ** ** * * *
1011901 -AAAGGTAAAAAAGCCTCCCAAATCAAAGCTAACGGGTAGAC
1 AAAAGGTAAAGAAGTCT-CCAGGTCAAAGCCGACAGGCAAAC
* * *
1011942 AAAAGGTAAAGAAGTCTCTCAGGTCAAAGCCGACAAGCAGAT
1 AAAAGGTAAAGAAGTCTC-CAGGTCAAAGCCGACAGGCAAAC
* * * *
1011984 ACAAGATAAAGAAGTCTCCCAGGTCAAAGTCGACAGGTAAAC
1 AAAAGGTAAAGAAGTCT-CCAGGTCAAAGCCGACAGGCAAAC
* ** ** * *
1012026 AAAAGGTAAAGAAGTCTCCTAGGTTAAAGTTGATGGGTAGAC
1 AAAAGGTAAAGAAGTCTCC-AGGTCAAAGCCGACAGGCAAAC
* ** * *
1012068 AAAAGGTAAAAAAGTCTCCCAAATCAAAGCTGAC-GAGCAAAT
1 AAAAGGTAAAGAAGTCT-CCAGGTCAAAGCCGACAG-GCAAAC
* * * * *
1012110 AAAAGGTAAAGAAGTCTCTCAAGTTAAAGCCAACAGGCAGAT
1 AAAAGGTAAAGAAGTCTC-CAGGTCAAAGCCGACAGGCAAAC
* * * **
1012152 AAAATGTAAAGAAGTCT-TATGGGTCAAAGCCAATGGGCAAAC
1 AAAAGGTAAAGAAGTCTCCA--GGTCAAAGCCGACAGGCAAAC
* * * * ***
1012194 AAAAAGTAAAAAAGTCTCTAGGGCCAAAGTTAACGAGGCAAAC
1 AAAAGGTAAAGAAGTCTCCA-GGTCAAAGCCGAC-AGGCAAAC
* * * *
1012237 AAAATGTGAAGAAGTCTCTAGGGTCAAAGTCGACTA-GCAAAC
1 AAAAGGTAAAGAAGTCTCCA-GGTCAAAGCCGAC-AGGCAAAC
** * ** *
1012279 AAAAAATAAAGAAGTCTCCCAGGTCAAAGCCAATGGGCAAAT
1 AAAAGGTAAAGAAGTCT-CCAGGTCAAAGCCGACAGGCAAAC
* * * *
1012321 AAAAGGTAAAAAAGTCTCCCAGGTCAAAGCCAACGGGAAAAC
1 AAAAGGTAAAGAAGTCT-CCAGGTCAAAGCCGACAGGCAAAC
* * * * *
1012363 ACAAGGTAAAGAAGTCTCTAGGATCAAAGCTGACAAGCAGAC
1 AAAAGGTAAAGAAGTCTCCAGG-TCAAAGCCGACAGGCAAAC
* * * * *
1012405 -AAAGGATAACA-AAGTTTGCTTA-GTCAAAGTCGACGGGCAGAC
1 AAAAGG-TAA-AGAAGTCT-C-CAGGTCAAAGCCGACAGGCAAAC
* * * * ** * *
1012447 AAAGGGTGAAGAAGTCTCTCGGGTCAAAGCTGATGGGTAGAC
1 AAAAGGTAAAGAAGTCTC-CAGGTCAAAGCCGACAGGCAAAC
* * * * * *
1012489 -AAAGGCTGAAGAAGTCTCTC-GATCTAAGCTGACGGGCAGAC
1 AAAAGG-TAAAGAAGTCTC-CAGGTCAAAGCCGACAGGCAAAC
* * * * * * *
1012530 AAAGGGTAAAAAAGTCTCCCGAGTCAAAGCTGA-TGAGTAGAC
1 AAAAGGTAAAGAAGTCTCCAG-GTCAAAGCCGACAG-GCAAAC
* * * *
1012572 AAAAGATATAGAAGTCTCTCGGGTCAAAGCCGAC-GAGCAGAC
1 AAAAGGTAAAGAAGTCTC-CAGGTCAAAGCCGACAG-GCAAAC
* *
1012614 AAAGGGTAAAGAAGTCTCCAGGGTCAAAGCCGACAGGCAAAT
1 AAAAGGTAAAGAAGTCTCCA-GGTCAAAGCCGACAGGCAAAC
* * * * * *
1012656 AAAAGGTAAAAAAGTCTCACAAGTCAAAACTGATAGTCAAAC
1 AAAAGGTAAAGAAGTCTC-CAGGTCAAAGCCGACAGGCAAAC
* * *
1012698 -AAAGGATATAGAA-TCTCCTAGGTCAAAGCTGACAGGCATAC
1 AAAAGG-TAAAGAAGTCTCC-AGGTCAAAGCCGACAGGCAAAC
** ** * *
1012739 AAAATTTAAAGAAGTCTTATAGGTCAAAGTCGA-TGGACAAAC
1 AAAAGGTAAAGAAGTC-TCCAGGTCAAAGCCGACAGG-CAAAC
*
1012781 -AAAGGATATAA-AAGTCTCTC-GAGTCAAAGCCGACAAGCAAAC
1 AAAAGG-TA-AAGAAGTCTC-CAG-GTCAAAGCCGACAGGCAAAC
* * * * * * *
1012823 AAAAGGTAAATAAGTCTCTAGGATCAAAACTGATAGGTAGAC
1 AAAAGGTAAAGAAGTCTCCAGG-TCAAAGCCGACAGGCAAAC
* * * * * * * *
1012865 AAAAGGTAAATAAGTTTTCAAGGCCAAAGTCAATAGGCAGAC
1 AAAAGGTAAAGAAG-TCTCCAGGTCAAAGCCGACAGGCAAAC
1012907 AAAAGGTAAAGAAGTCTCC
1 AAAAGGTAAAGAAGTCTCC
1012926 CGGGACAAAA
Statistics
Matches: 1153, Mismatches: 266, Indels: 129
0.74 0.17 0.08
Matches are distributed among these distances:
40 4 0.00
41 259 0.22
42 815 0.71
43 73 0.06
44 2 0.00
ACGTcount: A:0.43, C:0.17, G:0.23, T:0.17
Consensus pattern (41 bp):
AAAAGGTAAAGAAGTCTCCAGGTCAAAGCCGACAGGCAAAC
Found at i:1012932 original size:25 final size:25
Alignment explanation
Indices: 1012904--1012959 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
1012894 TCAATAGGCA
* *
1012904 GACAAAAGGTAAAGAAGTCTCCCGG
1 GACAAAAGGTAAAAAAGTCTCACGG
1012929 GACAAAAGGTAAAAAAGTCTCACGG
1 GACAAAAGGTAAAAAAGTCTCACGG
*
1012954 GTCAAA
1 GACAAA
1012960 GCTAACAGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.45, C:0.18, G:0.25, T:0.12
Consensus pattern (25 bp):
GACAAAAGGTAAAAAAGTCTCACGG
Found at i:1012998 original size:42 final size:43
Alignment explanation
Indices: 1012929--1013113 Score: 159
Period size: 42 Copynumber: 4.4 Consensus size: 43
1012919 AGTCTCCCGG
* *
1012929 GACAAAAGGTAAAAAAGTC-TCACGGGTCAAAGCTAACAGGT-
1 GACAAAAGGTAAAGAAGTCTTCACGGGTCAAAGCCAACAGGTA
* * *
1012970 GAATAAAAGGTAAAGAAGTCTTTA-GGGTCAAAGCCGACAGGTA
1 G-ACAAAAGGTAAAGAAGTCTTCACGGGTCAAAGCCAACAGGTA
* * * * * *
1013013 GACAAAAGGTAAAGAAGTC-TC-CTAGTTCCAAGTCGATAGGTA
1 GACAAAAGGTAAAGAAGTCTTCAC-GGGTCAAAGCCAACAGGTA
* * *
1013055 GACAAAAGGTAAAGAAGT-TTCTA-AGGTCAAAGCCGACAAGTA
1 GACAAAAGGTAAAGAAGTCTTC-ACGGGTCAAAGCCAACAGGTA
*
1013097 GACAAAGGGTAAAGAAG
1 GACAAAAGGTAAAGAAG
1013114 AAGGTTTAAT
Statistics
Matches: 118, Mismatches: 18, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
41 2 0.02
42 113 0.96
43 3 0.03
ACGTcount: A:0.43, C:0.14, G:0.26, T:0.17
Consensus pattern (43 bp):
GACAAAAGGTAAAGAAGTCTTCACGGGTCAAAGCCAACAGGTA
Found at i:1014024 original size:89 final size:89
Alignment explanation
Indices: 1013742--1014038 Score: 348
Period size: 90 Copynumber: 3.3 Consensus size: 89
1013732 ATCTAGCGAA
* * * * *
1013742 TGAAGGAAAAGGATATGACTAAGAAATATGTGGTCTGCACCCTTGCCCTAAGGTATTAGGATCTA
1 TGAAGGAAAAGGATATGACTAGGAAATGTGTGGTCTGCACCCTTGCCCTAAGGTATTA-GTTTTG
1013807 GGATGCATCAATATCATTTGGCAAT
65 GGATGCATCAATATCATTTGGCAAT
* * * * * *
1013832 TGAAGGAAAAGGAGATGA-TTGGAAAATGTGTGGTTTGTACCTTTGCCCTAAGGTATTAGGTTTC
1 TGAAGGAAAAGGATATGACTAGG-AAATGTGTGGTCTGCACCCTTGCCCTAAGGTATTA-GTTTT
* * * *
1013896 GAGATACATCAATATCATTTGGTAGT
64 GGGATGCATCAATATCATTTGGCAAT
* *
1013922 TAAAGGAAAAGGATATGACTAGGAAATGTGTGGTCTGCACCCTTGCCC-AAGGTATTTGTCTTTG
1 TGAAGGAAAAGGATATGACTAGGAAATGTGTGGTCTGCACCCTTGCCCTAAGGTATTAGT-TTTG
* *
1013986 GGATGCATTAATATCATCTGGCAAT
65 GGATGCATCAATATCATTTGGCAAT
*
1014011 TGAGGGAAAAGGATATGAC-AGGGAAATG
1 TGAAGGAAAAGGATATGACTA-GGAAATG
1014039 GATAGGTCAC
Statistics
Matches: 172, Mismatches: 31, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
88 3 0.02
89 56 0.33
90 110 0.64
91 3 0.02
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (89 bp):
TGAAGGAAAAGGATATGACTAGGAAATGTGTGGTCTGCACCCTTGCCCTAAGGTATTAGTTTTGG
GATGCATCAATATCATTTGGCAAT
Found at i:1016079 original size:19 final size:19
Alignment explanation
Indices: 1016055--1016153 Score: 69
Period size: 19 Copynumber: 5.8 Consensus size: 19
1016045 TTTTAGCGAT
*
1016055 TTGTATCGATACATAAATG
1 TTGTATCGATACATAAATA
1016074 TTGTATCGATAC----A-A
1 TTGTATCGATACATAAATA
*
1016088 -TGTATCGATACATAAGTA
1 TTGTATCGATACATAAATA
1016106 TTGTATCGATAC----A-A
1 TTGTATCGATACATAAATA
* *
1016120 -GGTATCGATACATAAGTA
1 TTGTATCGATACATAAATA
*
1016138 TTGCATCGATACATAA
1 TTGTATCGATACATAA
1016154 TTAGCTACTG
Statistics
Matches: 61, Mismatches: 7, Indels: 24
0.66 0.08 0.26
Matches are distributed among these distances:
13 21 0.34
14 1 0.02
15 1 0.02
18 2 0.03
19 36 0.59
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.33
Consensus pattern (19 bp):
TTGTATCGATACATAAATA
Found at i:1016092 original size:32 final size:32
Alignment explanation
Indices: 1016056--1016150 Score: 154
Period size: 32 Copynumber: 3.0 Consensus size: 32
1016046 TTTAGCGATT
* *
1016056 TGTATCGATACATAAATGTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
1016088 TGTATCGATACATAAGTATTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
* *
1016120 GGTATCGATACATAAGTATTGCATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
1016151 TAATTAGCTA
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 59 1.00
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.33
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:1016093 original size:13 final size:13
Alignment explanation
Indices: 1016075--1016131 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
1016065 ACATAAATGT
1016075 TGTATCGATACAA
1 TGTATCGATACAA
1016088 TGTATCGATACATAAGTA
1 TGTATCGATAC---A--A
1016106 TTGTATCGATACAA
1 -TGTATCGATACAA
*
1016120 GGTATCGATACA
1 TGTATCGATACA
1016132 TAAGTATTGC
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 22 0.59
14 1 0.03
16 2 0.05
18 1 0.03
19 11 0.30
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1016211 original size:13 final size:13
Alignment explanation
Indices: 1016193--1016218 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1016183 CATTTTTTTG
1016193 TGTATCGATACAT
1 TGTATCGATACAT
1016206 TGTATCGATACAT
1 TGTATCGATACAT
1016219 CTATTCTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1016765 original size:11 final size:12
Alignment explanation
Indices: 1016751--1016783 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
1016741 AATCCTTTAG
1016751 CAAAAAAAAAC-
1 CAAAAAAAAACA
*
1016762 CAAAGAAAAACA
1 CAAAAAAAAACA
1016774 CAAAAAAAAA
1 CAAAAAAAAA
1016784 TACTATTCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.82, C:0.15, G:0.03, T:0.00
Consensus pattern (12 bp):
CAAAAAAAAACA
Found at i:1018704 original size:53 final size:51
Alignment explanation
Indices: 1018588--1018710 Score: 158
Period size: 53 Copynumber: 2.4 Consensus size: 51
1018578 CAATTCTCCG
* * * *
1018588 CAATCGGGGATATTCCATCTCCGATTTTATTTTCAAAACACTAATTTTCTA
1 CAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTCTA
*
1018639 TAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTT-TCA
1 CAATCGGGGATACTCCAACTCCGATTTTATTTCC--AAAACACCAATTTTCT-A
*
1018692 CAATCGGAGATACTCCAAC
1 CAATCGGGGATACTCCAAC
1018711 CCCGTTATTG
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
51 30 0.48
52 1 0.02
53 31 0.50
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.33
Consensus pattern (51 bp):
CAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTCTA
Found at i:1018756 original size:28 final size:28
Alignment explanation
Indices: 1018700--1018770 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
1018690 CACAATCGGA
* * *
1018700 GATACTCCAACCCCGTTATTGCATCGGG
1 GATACTCCAACCCCGTTACTCCATAGGG
1018728 GATACTCCAACCCCGTTACCTCCA-AGGG
1 GATACTCCAACCCCGTTA-CTCCATAGGG
1018756 GATACTCCAACCCCG
1 GATACTCCAACCCCG
1018771 GCTTTATTCC
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
28 36 0.92
29 3 0.08
ACGTcount: A:0.24, C:0.38, G:0.18, T:0.20
Consensus pattern (28 bp):
GATACTCCAACCCCGTTACTCCATAGGG
Found at i:1020697 original size:13 final size:13
Alignment explanation
Indices: 1020679--1020703 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1020669 CAATTCTTCA
1020679 TGTATCGATACAT
1 TGTATCGATACAT
1020692 TGTATCGATACA
1 TGTATCGATACA
1020704 ATGTGCCATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1020701 original size:33 final size:33
Alignment explanation
Indices: 1020659--1020721 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
1020649 TTTGAGATAA
1020659 TGTATCGATACAAT-T-CTTCATGTATCGATACAT
1 TGTATCGATACAATGTGC--CATGTATCGATACAT
1020692 TGTATCGATACAATGTGCCATGTATCGATA
1 TGTATCGATACAATGTGCCATGTATCGATA
1020722 TAAACAGTGG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 26 0.93
34 1 0.04
35 1 0.04
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (33 bp):
TGTATCGATACAATGTGCCATGTATCGATACAT
Found at i:1025559 original size:100 final size:100
Alignment explanation
Indices: 1025386--1025585 Score: 364
Period size: 100 Copynumber: 2.0 Consensus size: 100
1025376 ACATTTTCTT
* *
1025386 CTTGCTCCTTGTGTGATGCTTGTTCTAAATTCTCTTCATATATTTCTACATCATTGTCAACAAAA
1 CTTGCTCCTTGTGTGATGCTTGTTCTAAATTCGCTTCATATATTTATACATCATTGTCAACAAAA
*
1025451 GATACCTTCTTCACGGAAGAGTTAGAATCATCAAA
66 GATACCTTCCTCACGGAAGAGTTAGAATCATCAAA
*
1025486 CTTGCTCTTTGTGTGATGCTTGTTCTAAATTCGCTTCATATATTTATACATCATTGTCAACAAAA
1 CTTGCTCCTTGTGTGATGCTTGTTCTAAATTCGCTTCATATATTTATACATCATTGTCAACAAAA
1025551 GATACCTTCCTCACGGAAGAGTTAGAATCATCAAA
66 GATACCTTCCTCACGGAAGAGTTAGAATCATCAAA
1025586 AATAATGTGG
Statistics
Matches: 96, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
100 96 1.00
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.36
Consensus pattern (100 bp):
CTTGCTCCTTGTGTGATGCTTGTTCTAAATTCGCTTCATATATTTATACATCATTGTCAACAAAA
GATACCTTCCTCACGGAAGAGTTAGAATCATCAAA
Found at i:1029604 original size:13 final size:13
Alignment explanation
Indices: 1029586--1029612 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1029576 TGCCAGTTTC
1029586 ATGTATCGATACA
1 ATGTATCGATACA
1029599 ATGTATCGATACA
1 ATGTATCGATACA
1029612 A
1 A
1029613 AGCATAATAT
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1032143 original size:13 final size:13
Alignment explanation
Indices: 1032125--1032150 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1032115 CAATTTTTTG
1032125 TGTATCGATACAT
1 TGTATCGATACAT
1032138 TGTATCGATACAT
1 TGTATCGATACAT
1032151 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1036819 original size:15 final size:15
Alignment explanation
Indices: 1036799--1036829 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1036789 ATTTCGTTTG
*
1036799 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1036814 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1036829 G
1 G
1036830 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1040915 original size:13 final size:13
Alignment explanation
Indices: 1040897--1040922 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1040887 CAATTTTTTG
1040897 TGTATCGATACAT
1 TGTATCGATACAT
1040910 TGTATCGATACAT
1 TGTATCGATACAT
1040923 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1040939 original size:32 final size:33
Alignment explanation
Indices: 1040877--1040940 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 33
1040867 TACAAGCCAA
** * *
1040877 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATAGATACAT
1040910 TGTATCGATAC-ATACTTGGTGTATAGATACA
1 TGTATCGATACAATACTTGGTGTATAGATACA
1040941 AGTTTGGCTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 16 0.59
33 11 0.41
ACGTcount: A:0.30, C:0.12, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATAGATACAT
Found at i:1043259 original size:20 final size:20
Alignment explanation
Indices: 1043234--1043321 Score: 77
Period size: 20 Copynumber: 3.9 Consensus size: 20
1043224 GTAAAAAAAC
1043234 AAAATGTATCGATACATTGA
1 AAAATGTATCGATACATTGA
1043254 AAAATGTATCGATACATCTGGGTAAAAAA
1 AAAATGTATCGATACAT-T--G------A
1043283 CAAAATGTATCGATACATTGA
1 -AAAATGTATCGATACATTGA
*
1043304 AAAATATATCGATACATT
1 AAAATGTATCGATACATT
1043322 TGGGTAAAAA
Statistics
Matches: 57, Mismatches: 1, Indels: 20
0.73 0.01 0.26
Matches are distributed among these distances:
20 34 0.60
21 2 0.04
23 1 0.02
27 1 0.02
29 2 0.04
30 17 0.30
ACGTcount: A:0.47, C:0.11, G:0.14, T:0.28
Consensus pattern (20 bp):
AAAATGTATCGATACATTGA
Found at i:1043266 original size:51 final size:51
Alignment explanation
Indices: 1043206--1043343 Score: 233
Period size: 50 Copynumber: 2.7 Consensus size: 51
1043196 AATTAACTAG
1043206 ATGTATCGATACATCTGGGTAAAAAAACAAAATGTATCGATACATTGAAAA
1 ATGTATCGATACATCTGGGTAAAAAAACAAAATGTATCGATACATTGAAAA
1043257 ATGTATCGATACATCTGGGT-AAAAAACAAAATGTATCGATACATTGAAAA
1 ATGTATCGATACATCTGGGTAAAAAAACAAAATGTATCGATACATTGAAAA
* * * *
1043307 ATATATCGATACATTTGGGTAAAAAAATAGAATGTAT
1 ATGTATCGATACATCTGGGTAAAAAAACAAAATGTAT
1043344 TAATACATGT
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
50 48 0.59
51 34 0.41
ACGTcount: A:0.46, C:0.10, G:0.16, T:0.28
Consensus pattern (51 bp):
ATGTATCGATACATCTGGGTAAAAAAACAAAATGTATCGATACATTGAAAA
Found at i:1046537 original size:15 final size:15
Alignment explanation
Indices: 1046517--1046548 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
1046507 GTATGTATGC
1046517 ATGCAAAAAAGAAAA
1 ATGCAAAAAAGAAAA
1046532 ATGCAAAAAAGAAAA
1 ATGCAAAAAAGAAAA
1046547 AT
1 AT
1046549 AAACCACATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.72, C:0.06, G:0.12, T:0.09
Consensus pattern (15 bp):
ATGCAAAAAAGAAAA
Found at i:1048413 original size:20 final size:19
Alignment explanation
Indices: 1048359--1048414 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
1048349 AAAACCCTTA
*
1048359 AAAGTATCGATACACAGTTC
1 AAAGTATCGATACA-TGTTC
1048379 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATGTT-C
*
1048399 AATGTATCGATACATG
1 AAAGTATCGATACATG
1048415 AAAAAGATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 3 0.09
20 30 0.91
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.29
Consensus pattern (19 bp):
AAAGTATCGATACATGTTC
Found at i:1048502 original size:13 final size:13
Alignment explanation
Indices: 1048484--1048522 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
1048474 TACACAAAAT
1048484 ATGTATCGATACA
1 ATGTATCGATACA
1048497 ATGTATCGATACA
1 ATGTATCGATACA
1048510 ATGTATCGATACA
1 ATGTATCGATACA
1048523 CAAAAAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1050819 original size:19 final size:20
Alignment explanation
Indices: 1050795--1050839 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 20
1050785 CTTTGCTATT
1050795 TGCTAC-TATTTTCATTTGC
1 TGCTACTTATTTTCATTTGC
*
1050814 TGCTACTGTTTTTTTCATTTGC
1 TGCTAC--TTATTTTCATTTGC
1050836 TGCT
1 TGCT
1050840 GATGTTCTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 6 0.27
22 16 0.73
ACGTcount: A:0.11, C:0.20, G:0.13, T:0.56
Consensus pattern (20 bp):
TGCTACTTATTTTCATTTGC
Found at i:1051576 original size:53 final size:51
Alignment explanation
Indices: 1051459--1051578 Score: 159
Period size: 53 Copynumber: 2.3 Consensus size: 51
1051449 GCAGCTTAAT
* *
1051459 TGCTTTCATGCATGATTTTTCTTTGCCACGATTTGATTCCGTGCATATTGA
1 TGCTTTAATGCATGATTTTTCTTTGCCACGATTTGATTCCATGCATATTGA
* * * *
1051510 TCCATATAATGCATGATTTTTTTTTGGCCATGATTTGATTCCATGCATATTGA
1 TGC-TTTAATGCATGATTTTTCTTT-GCCACGATTTGATTCCATGCATATTGA
1051563 TGCTTTAATTGCATGA
1 TGCTTTAA-TGCATGA
1051579 ATTGGTTTCA
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
51 2 0.03
52 22 0.38
53 34 0.59
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.45
Consensus pattern (51 bp):
TGCTTTAATGCATGATTTTTCTTTGCCACGATTTGATTCCATGCATATTGA
Found at i:1055313 original size:21 final size:20
Alignment explanation
Indices: 1055289--1055337 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
1055279 GATGTGCTTA
1055289 AAAAGAAAGAAGAAGAATTAG
1 AAAAGAAAGAAG-AGAATTAG
* *
1055310 AAAAGAAAATAAGTGAATTAG
1 AAAAG-AAAGAAGAGAATTAG
1055331 AAAAGAA
1 AAAAGAA
1055338 GATAATTGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 2 0.08
21 17 0.68
22 6 0.24
ACGTcount: A:0.67, C:0.00, G:0.20, T:0.12
Consensus pattern (20 bp):
AAAAGAAAGAAGAGAATTAG
Found at i:1055342 original size:21 final size:21
Alignment explanation
Indices: 1055303--1055349 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
1055293 GAAAGAAGAA
1055303 GAATTAGAAAAGAAAATAAGT
1 GAATTAGAAAAGAAAATAAGT
* *
1055324 GAATTAGAAAAGAAGATAATT
1 GAATTAGAAAAGAAAATAAGT
1055345 GAATT
1 GAATT
1055350 GGAAGATAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.57, C:0.00, G:0.19, T:0.23
Consensus pattern (21 bp):
GAATTAGAAAAGAAAATAAGT
Found at i:1055397 original size:21 final size:21
Alignment explanation
Indices: 1055373--1055414 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
1055363 AAAGAATTAG
1055373 CTAATGAA-AACAACGAA-TTGC
1 CTAA-GAAGAACAA-GAACTTGC
1055394 CTAAGAAGAACAAGAACTTGC
1 CTAAGAAGAACAAGAACTTGC
1055415 ATGATTCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.48, C:0.19, G:0.17, T:0.17
Consensus pattern (21 bp):
CTAAGAAGAACAAGAACTTGC
Found at i:1059744 original size:20 final size:20
Alignment explanation
Indices: 1059719--1059767 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
1059709 AATGAAATGC
*
1059719 ATCGATACATG-GGACATTGT
1 ATCGATACATGAAGA-ATTGT
1059739 ATCGATACATGAAGAATTGT
1 ATCGATACATGAAGAATTGT
1059759 ATCGATACA
1 ATCGATACA
1059768 CTATGCCCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 25 0.93
21 2 0.07
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (20 bp):
ATCGATACATGAAGAATTGT
Found at i:1068371 original size:19 final size:20
Alignment explanation
Indices: 1068347--1068401 Score: 85
Period size: 19 Copynumber: 2.8 Consensus size: 20
1068337 GTATCGATAT
*
1068347 ATTGTATCGATACATGTTC-
1 ATTGTATCGATACATGCTCA
*
1068366 ATTGTATCGATACATACTCA
1 ATTGTATCGATACATGCTCA
1068386 ATTGTATCGATACATG
1 ATTGTATCGATACATG
1068402 AAACTAGTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (20 bp):
ATTGTATCGATACATGCTCA
Found at i:1068379 original size:52 final size:53
Alignment explanation
Indices: 1068297--1068397 Score: 134
Period size: 52 Copynumber: 1.9 Consensus size: 53
1068287 ACCCTAGAAA
*
1068297 GTATCGATACATATCCAGATGTATCGATACATTACGC-TTTGTATCGATATATT
1 GTATCGATACATATCCAGATGTATCGATACA-TACGCAATTGTATCGATATATT
* * * *
1068350 GTATCGATACATGTTCA-TTGTATCGATACATACTCAATTGTATCGATA
1 GTATCGATACATATCCAGATGTATCGATACATACGCAATTGTATCGATA
1068398 CATGAAACTA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
51 4 0.10
52 23 0.55
53 15 0.36
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.38
Consensus pattern (53 bp):
GTATCGATACATATCCAGATGTATCGATACATACGCAATTGTATCGATATATT
Found at i:1068464 original size:13 final size:13
Alignment explanation
Indices: 1068446--1068475 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
1068436 GATACATGGG
1068446 ACATTGTATCGAT
1 ACATTGTATCGAT
1068459 ACATTGTATCGAT
1 ACATTGTATCGAT
1068472 ACAT
1 ACAT
1068476 GAAGAATTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (13 bp):
ACATTGTATCGAT
Found at i:1068472 original size:33 final size:33
Alignment explanation
Indices: 1068430--1068496 Score: 109
Period size: 33 Copynumber: 2.0 Consensus size: 33
1068420 CTAAGTGAAA
*
1068430 TGTATCGATACATG-GGACATTGTATCGATACAT
1 TGTATCGATACATGAAGA-ATTGTATCGATACAT
1068463 TGTATCGATACATGAAGAATTGTATCGATACAT
1 TGTATCGATACATGAAGAATTGTATCGATACAT
1068496 T
1 T
1068497 ATGCCTAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 30 0.94
34 2 0.06
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.34
Consensus pattern (33 bp):
TGTATCGATACATGAAGAATTGTATCGATACAT
Found at i:1070349 original size:13 final size:13
Alignment explanation
Indices: 1070331--1070366 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
1070321 GTGTTCGTAG
*
1070331 TATCGATACATTA
1 TATCGATACAGTA
*
1070344 TATCGATACAGTG
1 TATCGATACAGTA
1070357 TATCGATACA
1 TATCGATACA
1070367 AGGGTACTAT
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:0.17, G:0.14, T:0.33
Consensus pattern (13 bp):
TATCGATACAGTA
Found at i:1070471 original size:21 final size:21
Alignment explanation
Indices: 1070447--1070489 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
1070437 AACCCTAGGT
1070447 ATTCAATCTCAAATTTCATCA
1 ATTCAATCTCAAATTTCATCA
** * *
1070468 ATTCGTTTTCGAATTTCATCA
1 ATTCAATCTCAAATTTCATCA
1070489 A
1 A
1070490 ATTTACATCA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.21, G:0.05, T:0.42
Consensus pattern (21 bp):
ATTCAATCTCAAATTTCATCA
Found at i:1072018 original size:16 final size:16
Alignment explanation
Indices: 1071997--1072031 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
1071987 GTTTTGTTTT
**
1071997 TTTGCTTGTTTTTAAC
1 TTTGCTTGTACTTAAC
1072013 TTTGCTTGTACTTAAC
1 TTTGCTTGTACTTAAC
1072029 TTT
1 TTT
1072032 CCTTAATGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.14, C:0.14, G:0.11, T:0.60
Consensus pattern (16 bp):
TTTGCTTGTACTTAAC
Found at i:1073032 original size:13 final size:13
Alignment explanation
Indices: 1073014--1073038 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1073004 CATATTGGTT
1073014 TGTATCGATACAC
1 TGTATCGATACAC
1073027 TGTATCGATACA
1 TGTATCGATACA
1073039 TAGCGAATTA
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:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:1077512 original size:13 final size:13
Alignment explanation
Indices: 1077494--1077521 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1077484 ATACAAAGAT
1077494 CAATGTATCGATA
1 CAATGTATCGATA
1077507 CAATGTATCGATA
1 CAATGTATCGATA
1077520 CA
1 CA
1077522 TTGAGTAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1077518 original size:33 final size:33
Alignment explanation
Indices: 1077476--1077541 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1077466 AAATTCCCAG
1077476 ATGTATCGATACAAAGA-TCAATGTATCGATACA
1 ATGTATCGATACAAAGAGT-AATGTATCGATACA
**
1077509 ATGTATCGATACATTGAGTAATGTATCGATACA
1 ATGTATCGATACAAAGAGTAATGTATCGATACA
1077542 TTTCCTTGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.30
Consensus pattern (33 bp):
ATGTATCGATACAAAGAGTAATGTATCGATACA
Found at i:1078531 original size:101 final size:101
Alignment explanation
Indices: 1078358--1079206 Score: 1329
Period size: 101 Copynumber: 8.4 Consensus size: 101
1078348 TTGAAGATGA
** **
1078358 GAAGAATGCCAATGTGCTGATTCAAGGCCAATGACATTGGGTTTTAAAGATGACGAAGGCGCCAA
1 GAAG-ATGCCAATGTGCTGATTCAAGGCCAGCGACATT-GGACTTAAAGATGACGAAGGCGCCAA
*
1078423 TATGCTGATTCAAGGCCATCGATATTGGACTTAAAGAT
64 TATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT
* * *
1078461 GAAGGTGCCAATGTGCTGATTCAAGGCCAGCGAAATTGGACTTAAAGATGACGAAGGCACCAATA
1 GAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGCGCCAATA
** **
1078526 TGCTGATTCAAGGCCAATGATACCGGACTTAAAGAT
66 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT
* * *
1078562 GAAGATGCCAATGTGTTGATTCAAGGCCAGCGACATTAGACTTAAAGATGACGAAGGTGCCAATA
1 GAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGCGCCAATA
* ** *
1078627 TGCTGATTCAAGGCTAGCGATACCGGACATAAAGAT
66 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT
* *
1078663 GAAGATGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGACGAAGGCACCAATA
1 GAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGCGCCAATA
*
1078728 TGCTGATTCAAGGCTAGCGATATTGGACTTAAAGAT
66 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT
* * * * *
1078764 GAAGGTGCCAATTTGCTGATTCAGGGCCAGCGACATTGCACTTAAAGATGACAAAGGCGCCAATA
1 GAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGCGCCAATA
1078829 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT
66 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT
1078865 GAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGCGCCAATA
1 GAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGCGCCAATA
* * * *
1078930 TGCTAATTCAAGGCCAGTGATACTGGACTTAAGGAT
66 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT
* *
1078966 GAAGATGCCAATGTGCTGATTCAAGGCCAGTGACATTGGACTTAAAAATGACGAAGGCGCCAATA
1 GAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGCGCCAATA
1079031 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT
66 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT
* * * *
1079067 GAAGGTGCCAATGTGCTGATTCAGGGCCAGCGACATTGCACTTAAAGATGACAAAGGCGCCAATA
1 GAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGCGCCAATA
1079132 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT
66 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT
* *
1079168 GAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGG
1 GAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGG
1079207 TCTTGTGCCA
Statistics
Matches: 685, Mismatches: 61, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
101 652 0.95
102 29 0.04
103 4 0.01
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.22
Consensus pattern (101 bp):
GAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGCGCCAATA
TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT
Found at i:1079229 original size:39 final size:39
Alignment explanation
Indices: 1079172--1079332 Score: 180
Period size: 39 Copynumber: 3.9 Consensus size: 39
1079162 AAAGATGAAG
*
1079172 GTGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT
* *
1079211 GTGCCAATGTGCTAATTCAAGGCCAGCGACA-TAGTCTT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT
* *
1079249 AAAGACAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTT
1 ---------GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT
*
1079297 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGT
1079333 TTTAAAGATA
Statistics
Matches: 102, Mismatches: 10, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
38 6 0.06
39 62 0.61
47 29 0.28
48 5 0.05
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (39 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT
Found at i:1079280 original size:47 final size:47
Alignment explanation
Indices: 1079211--1079386 Score: 192
Period size: 48 Copynumber: 3.9 Consensus size: 47
1079201 CATTGGTCTT
* * *
1079211 GTGCCAATGTGCTAATTCAAGGCCAGCGACA-TAGTCTTAAAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-AAG
*
1079258 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTT------A-
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAAAG
* *
1079298 -TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTTTTAAAGATAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-AAG
*
1079345 GTGCCAATATGCTGATTCAAGGCCAGCGATATT-GTACTTAAA
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGT-CTTAAA
1079387 AGAAGACGCC
Statistics
Matches: 108, Mismatches: 10, Indels: 21
0.78 0.07 0.15
Matches are distributed among these distances:
39 35 0.32
41 1 0.01
46 1 0.01
47 31 0.29
48 40 0.37
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (47 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAAAG
Found at i:1079373 original size:87 final size:87
Alignment explanation
Indices: 1079125--1079378 Score: 384
Period size: 86 Copynumber: 2.9 Consensus size: 87
1079115 TGACAAAGGC
* * * *
1079125 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTC
1 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAT-AAGGTGCCAATATGCTGATTC
* * *
1079190 AAGGCCAACGACATTGGTCTTGT
65 AAGGCCAGCGACATTGGGCTTAT
* * *
1079213 GCCAATGTGCTAATTCAAGGCCAGCGACA-TAGTCTTAAAGACAAGGTGCCAATATGCTGATTCA
1 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAGGTGCCAATATGCTGATTCA
1079277 AGGCCAGCGACATTGGGCTTAT
66 AGGCCAGCGACATTGGGCTTAT
*
1079299 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGTTTTAAAGATAAGGTGCCAATATGCTGATTCA
1 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAGGTGCCAATATGCTGATTCA
*
1079364 AGGCCAGCGATATTG
66 AGGCCAGCGACATTG
1079379 TACTTAAAAG
Statistics
Matches: 150, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
86 68 0.45
87 56 0.37
88 26 0.17
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (87 bp):
GCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAGGTGCCAATATGCTGATTCA
AGGCCAGCGACATTGGGCTTAT
Found at i:1079471 original size:28 final size:28
Alignment explanation
Indices: 1079406--1079500 Score: 95
Period size: 29 Copynumber: 3.3 Consensus size: 28
1079396 CACCAACTTG
* **
1079406 TGTGGGCTTTTAAAAAGGTTG-CACCAACT
1 TGTGGGCTTTT--GAAGGTTGCCACTGACT
*
1079435 TGTGTGCTTTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
*
1079463 TGTGGGC-TTTGAAAAGGGTGCCACTGACT
1 TGTGGGCTTTTG--AAGGTTGCCACTGACT
1079492 TGTGGGCTT
1 TGTGGGCTT
1079501 AGAAGGAGAA
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
27 11 0.20
28 12 0.21
29 32 0.57
30 1 0.02
ACGTcount: A:0.19, C:0.17, G:0.31, T:0.34
Consensus pattern (28 bp):
TGTGGGCTTTTGAAGGTTGCCACTGACT
Found at i:1079546 original size:27 final size:27
Alignment explanation
Indices: 1079514--1079566 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
1079504 AGGAGAAAGA
1079514 TGCCACGAAATTGTGGACTTAAAAGGG
1 TGCCACGAAATTGTGGACTTAAAAGGG
* *
1079541 TGCCACGGAGTTGTGGACTTAAAAGG
1 TGCCACGAAATTGTGGACTTAAAAGG
1079567 AAAAAGGGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.30, C:0.15, G:0.32, T:0.23
Consensus pattern (27 bp):
TGCCACGAAATTGTGGACTTAAAAGGG
Found at i:1079577 original size:34 final size:34
Alignment explanation
Indices: 1079534--1079754 Score: 246
Period size: 34 Copynumber: 6.7 Consensus size: 34
1079524 TTGTGGACTT
1079534 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGA
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGA
*
1079568 AAAAGGGTGCCACGGAGTTGTGGGCTTTAGAAAGGA
1 AAAAGGGTGCCACGGAGTTGTGGAC-TTA-AAAGGA
* *
1079604 ACAA-GGTGCCACAGAGTTGTGGACTTAAAAGGA
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGA
* *
1079637 AAAAGAGTGCCACGGAGTTGTGGGCTT-------
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGA
1079664 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGA
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGA
* * * *
1079698 AACAA-AG-GCCACAGAGTTGTGGGCTTTAAAAAGA
1 AA-AAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGA
*
1079732 AAATGGGTGCCACGGAGTTGTGG
1 AAAAGGGTGCCACGGAGTTGTGG
1079755 GCTTTAGGAC
Statistics
Matches: 156, Mismatches: 17, Indels: 27
0.78 0.09 0.14
Matches are distributed among these distances:
27 25 0.16
33 25 0.16
34 60 0.38
35 37 0.24
36 9 0.06
ACGTcount: A:0.33, C:0.13, G:0.35, T:0.19
Consensus pattern (34 bp):
AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGA
Found at i:1079621 original size:35 final size:32
Alignment explanation
Indices: 1079473--1079758 Score: 243
Period size: 34 Copynumber: 8.8 Consensus size: 32
1079463 TGTGGGCTTT
* * *
1079473 GAAAAGGGTGCCACTGACTTGTGGGCTTAGAAG
1 GAAAA-GGTGCCACGGAGTTGTGGGCTTAAAAG
* * * *
1079506 GAGAAAGATGCCACGAAATTGTGGACTTAAAA-
1 GA-AAAGGTGCCACGGAGTTGTGGGCTTAAAAG
*
1079538 G----GGTGCCACGGAGTTGTGGACTTAAAAG
1 GAAAAGGTGCCACGGAGTTGTGGGCTTAAAAG
1079566 GAAAAAGGGTGCCACGGAGTTGTGGGCTTTAGAAAG
1 G-AAAA-GGTGCCACGGAGTTGTGGGC-TTA-AAAG
* *
1079602 GAACAAGGTGCCACAGAGTTGTGGACTTAAAAG
1 GAA-AAGGTGCCACGGAGTTGTGGGCTTAAAAG
1079635 GAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAA-
1 G-AAAAG-GTGCCACGGAGTTGTGGGCTTAAAAG
*
1079668 G----GGTGCCACGGAGTTGTGGACTTAAAAG
1 GAAAAGGTGCCACGGAGTTGTGGGCTTAAAAG
* * *
1079696 GAAACAAAG-GCCACAGAGTTGTGGGCTTTAAAAA
1 G-AA-AAGGTGCCACGGAGTTGTGGGC-TTAAAAG
1079730 GAAAATGGGTGCCACGGAGTTGTGGGCTT
1 GAAAA--GGTGCCACGGAGTTGTGGGCTT
1079759 TAGGACAAGA
Statistics
Matches: 208, Mismatches: 21, Indels: 47
0.75 0.08 0.17
Matches are distributed among these distances:
27 47 0.23
28 3 0.01
32 3 0.01
33 48 0.23
34 61 0.29
35 39 0.19
36 7 0.03
ACGTcount: A:0.32, C:0.14, G:0.34, T:0.20
Consensus pattern (32 bp):
GAAAAGGTGCCACGGAGTTGTGGGCTTAAAAG
Found at i:1079622 original size:69 final size:66
Alignment explanation
Indices: 1079473--1079754 Score: 302
Period size: 69 Copynumber: 4.3 Consensus size: 66
1079463 TGTGGGCTTT
* * * * * * * *
1079473 GAAAAGGGTGCCACTGACTTGTGGGCTTAGAAGGAGAAAGA-TGCCACGAAATTGTGGAC-TTAA
1 GAAAA-GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1079536 AA
65 AA
*
1079538 G----GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGGTGCCACGGAGTTGTGGGCTTTAGA
1 GAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTA-A
1079599 AA
65 AA
*
1079601 GGAACAAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGC-TTA
1 -GAA-AAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTA
1079665 AAA
64 AAA
*
1079668 G----GGTGCCACGGAGTTGTGGACTTAAAAGGAAACAA-AG-GCCACAGAGTTGTGGGCTTTAA
1 GAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAA-AAGAGTGCCACGGAGTTGTGGGCTTT-A
1079727 AAA
64 AAA
1079730 GAAAATGGGTGCCACGGAGTTGTGG
1 GAAAA--GGTGCCACGGAGTTGTGG
1079755 GCTTTAGGAC
Statistics
Matches: 186, Mismatches: 13, Indels: 33
0.80 0.06 0.14
Matches are distributed among these distances:
60 45 0.24
61 49 0.26
62 10 0.05
63 3 0.02
64 1 0.01
65 1 0.01
66 1 0.01
67 3 0.02
68 21 0.11
69 52 0.28
ACGTcount: A:0.33, C:0.13, G:0.34, T:0.20
Consensus pattern (66 bp):
GAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
A
Found at i:1079675 original size:27 final size:27
Alignment explanation
Indices: 1079637--1079696 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
1079627 CTTAAAAGGA
* *
1079637 AAAAGAGTGCCACGGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
1079664 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
1079691 AAAAGG
1 AAAAGG
1079697 AAACAAAGGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.30, C:0.13, G:0.37, T:0.20
Consensus pattern (27 bp):
AAAAGGGTGCCACGGAGTTGTGGACTT
Found at i:1079683 original size:61 final size:61
Alignment explanation
Indices: 1079608--1079728 Score: 192
Period size: 61 Copynumber: 2.0 Consensus size: 61
1079598 AAAGGAACAA
*
1079608 GGTGCCACAGAGTTGTGGACTTAAAAGGAAA-AAGAGTGCCACGGAGTTGTGGGC-TTAAAAG
1 GGTGCCACAGAGTTGTGGACTTAAAAGGAAACAA-AG-GCCACAGAGTTGTGGGCTTTAAAAG
*
1079669 GGTGCCACGGAGTTGTGGACTTAAAAGGAAACAAAGGCCACAGAGTTGTGGGCTTTAAAA
1 GGTGCCACAGAGTTGTGGACTTAAAAGGAAACAAAGGCCACAGAGTTGTGGGCTTTAAAA
1079729 AGAAAATGGG
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
60 16 0.29
61 38 0.68
62 2 0.04
ACGTcount: A:0.33, C:0.14, G:0.33, T:0.20
Consensus pattern (61 bp):
GGTGCCACAGAGTTGTGGACTTAAAAGGAAACAAAGGCCACAGAGTTGTGGGCTTTAAAAG
Found at i:1079749 original size:95 final size:96
Alignment explanation
Indices: 1079568--1079758 Score: 289
Period size: 95 Copynumber: 2.0 Consensus size: 96
1079558 CTTAAAAGGA
* *
1079568 AAAAGGGTGCCACGGAGTTGTGGGCTTTAGAAAGGAACAAGGTGCCACAGAGTTGTGGACTTAAA
1 AAAAGGGTGCCACGGAGTTGTGGACTTTAGAAAGGAACAAAGTGCCACAGAGTTGTGGACTTAAA
*
1079633 AGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
66 AAGAAAAAGAGTGCCACGGAGTTGTGGGCTT
*
1079664 AAAAGGGTGCCACGGAGTTGTGGAC-TTA-AAAGGAAACAAAG-GCCACAGAGTTGTGGGCTTTA
1 AAAAGGGTGCCACGGAGTTGTGGACTTTAGAAAGG-AACAAAGTGCCACAGAGTTGTGGAC-TTA
* *
1079726 AAAAGAAAATGGGTGCCACGGAGTTGTGGGCTT
64 AAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTT
1079759 TAGGACAAGA
Statistics
Matches: 87, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
94 21 0.24
95 42 0.48
96 24 0.28
ACGTcount: A:0.32, C:0.14, G:0.35, T:0.20
Consensus pattern (96 bp):
AAAAGGGTGCCACGGAGTTGTGGACTTTAGAAAGGAACAAAGTGCCACAGAGTTGTGGACTTAAA
AAGAAAAAGAGTGCCACGGAGTTGTGGGCTT
Found at i:1079753 original size:129 final size:129
Alignment explanation
Indices: 1079473--1079754 Score: 392
Period size: 129 Copynumber: 2.2 Consensus size: 129
1079463 TGTGGGCTTT
* * * * *
1079473 GAAAAGGGTGCCACTGACTTGTGGGCTTAGAAGGAGAAAGATGCCACGAAATTGTGGACTTAAAA
1 GAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGAAATTGTGGACTTAAAA
* * *
1079538 GGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGGTGCCACGGAGTTGTGGGCTTTAGAAAG
66 GGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAGAAAA
* * *
1079602 GAACAA-GGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAA
1 GAA-AAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGA-TGCCACGAAATTGTGGACTTAA
1079666 AAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAACAA-AG-GCCACAGAGTTGTGGGCTTTA-AA
64 AAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAA-AAGAGTGCCACAGAGTTGTGGGCTTTAGAA
1079728 AA
128 AA
*
1079730 GAAAATGGGTGCCACGGAGTTGTGG
1 GAAAA-GGGTGCCACAGAGTTGTGG
1079755 GCTTTAGGAC
Statistics
Matches: 136, Mismatches: 12, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
127 2 0.01
128 6 0.04
129 70 0.51
130 56 0.41
131 2 0.01
ACGTcount: A:0.33, C:0.13, G:0.34, T:0.20
Consensus pattern (129 bp):
GAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGAAATTGTGGACTTAAAA
GGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAGAAAA
Found at i:1079759 original size:35 final size:34
Alignment explanation
Indices: 1079664--1079760 Score: 117
Period size: 35 Copynumber: 2.9 Consensus size: 34
1079654 TTGTGGGCTT
* *
1079664 AAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGG
1 AAAAGGGTGCCACGGAGTTGTGGGCTTTAAAAAG
** *
1079697 AAACAAAG-GCCACAGAGTTGTGGGCTTTAAAAAG
1 AAA-AGGGTGCCACGGAGTTGTGGGCTTTAAAAAG
1079731 AAAATGGGTGCCACGGAGTTGTGGGCTTTA
1 AAAA-GGGTGCCACGGAGTTGTGGGCTTTA
1079761 GGACAAGATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
33 19 0.37
34 13 0.25
35 20 0.38
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.21
Consensus pattern (34 bp):
AAAAGGGTGCCACGGAGTTGTGGGCTTTAAAAAG
Found at i:1079804 original size:95 final size:94
Alignment explanation
Indices: 1079598--1079787 Score: 215
Period size: 95 Copynumber: 2.0 Consensus size: 94
1079588 TGGGCTTTAG
* *
1079598 AAAGG-AACAAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGC
1 AAAGGAAACAAGATGCCACAGAGTTGTGGACTTAAAAAGAAAAAGAGTGCCACGGAGTTGTGGGC
* * *
1079662 TTAAAAGGGTGCCACGGAGTTGTGGACTT
66 TTAAAAGGATGCCACGGAATCGTGGACTT
* * * *
1079691 AAAAGGAAACAA-AGGCCACAGAGTTGTGGGCTTTAAAAAGAAAATGGGTGCCACGGAGTTGTGG
1 -AAAGGAAACAAGATGCCACAGAGTTGTGGAC-TTAAAAAGAAAAAGAGTGCCACGGAGTTGTGG
*
1079755 GCTTTAGGACAA-GATGCCACTGAATCGTGGACT
64 GC-TTA--A-AAGGATGCCACGGAATCGTGGACT
1079788 ATGGGACAAG
Statistics
Matches: 80, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
94 21 0.26
95 36 0.45
96 3 0.04
98 18 0.22
99 2 0.03
ACGTcount: A:0.33, C:0.15, G:0.33, T:0.19
Consensus pattern (94 bp):
AAAGGAAACAAGATGCCACAGAGTTGTGGACTTAAAAAGAAAAAGAGTGCCACGGAGTTGTGGGC
TTAAAAGGATGCCACGGAATCGTGGACTT
Found at i:1079859 original size:31 final size:31
Alignment explanation
Indices: 1079739--1079944 Score: 229
Period size: 31 Copynumber: 6.6 Consensus size: 31
1079729 AGAAAATGGG
* * * * *
1079739 TGCCACGGAGTTGTGGGCTTT-AGGACAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
* * * *
1079769 TGCCACTGAATCGTGGACTATG-GGACAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
*
1079799 TGCCACTGAGTCGTAGACTTTGGAAGAAAAGA
1 TGCCACTGAGTCGTGGACTTT-GAAGAAAAGA
*
1079831 TGCCACTGAGTCATGGACTTTGAAGAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
* *
1079862 TGCCACTGAGTCGTGGTCTTTGAAGGAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
*
1079893 TGCCACTGAGTCGTGGACTTTGGGAA-AAGAGA
1 TGCCACTGAGTCGTGGACTTT--GAAGAAAAGA
*
1079925 TGCCACTGAGTCATGGACTT
1 TGCCACTGAGTCGTGGACTT
1079945 AGGAAAGAGA
Statistics
Matches: 152, Mismatches: 19, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
30 42 0.28
31 59 0.39
32 48 0.32
33 3 0.02
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
Found at i:1079900 original size:94 final size:93
Alignment explanation
Indices: 1079765--1079944 Score: 274
Period size: 94 Copynumber: 1.9 Consensus size: 93
1079755 GCTTTAGGAC
1079765 AAGATGCCACTGAATCGTGGACTATGGGACAAGATGCCACTGAGTCGTAGACTTT-GGAAGAAAA
1 AAGATGCCACTGAATCGTGGACTATGGGACAAGATGCCACTGAGTCGTAGACTTTGGGAA-AAAA
1079829 GATGCCACTGAGTCATGGACTTTGAAGAA
65 GATGCCACTGAGTCATGGACTTTGAAGAA
* * * * *
1079858 AAGATGCCACTGAGTCGTGGTCTTTGAAGGA-AAGATGCCACTGAGTCGTGGACTTTGGGAAAAG
1 AAGATGCCACTGAATCGTGGACTATG--GGACAAGATGCCACTGAGTCGTAGACTTTGGGAAAAA
1079922 AGATGCCACTGAGTCATGGACTT
64 AGATGCCACTGAGTCATGGACTT
1079945 AGGAAAGAGA
Statistics
Matches: 79, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
93 23 0.29
94 49 0.62
95 7 0.09
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (93 bp):
AAGATGCCACTGAATCGTGGACTATGGGACAAGATGCCACTGAGTCGTAGACTTTGGGAAAAAAG
ATGCCACTGAGTCATGGACTTTGAAGAA
Found at i:1080340 original size:33 final size:33
Alignment explanation
Indices: 1080303--1080369 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1080293 TTCAACGATT
1080303 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1080336 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1080369 T
1 T
1080370 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1080341 original size:13 final size:13
Alignment explanation
Indices: 1080323--1080347 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1080313 CATAAAATGT
1080323 TGTATCGATACAA
1 TGTATCGATACAA
1080336 TGTATCGATACA
1 TGTATCGATACA
1080348 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1080430 original size:13 final size:13
Alignment explanation
Indices: 1080412--1080436 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1080402 ATTACTCACA
1080412 TGTATCGATACAT
1 TGTATCGATACAT
1080425 TGTATCGATACA
1 TGTATCGATACA
1080437 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1080573 original size:52 final size:52
Alignment explanation
Indices: 1080445--1080565 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
1080435 CACTGATCTT
*
1080445 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
1080497 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1080549 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
1080566 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1084482 original size:16 final size:15
Alignment explanation
Indices: 1084461--1084492 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
1084451 GGGGTTTTCC
1084461 TCTTTTTTTTATTTTT
1 TCTTTTTTTT-TTTTT
1084477 TCTTTTTTTTTTTTT
1 TCTTTTTTTTTTTTT
1084492 T
1 T
1084493 GGTGTAGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.03, C:0.06, G:0.00, T:0.91
Consensus pattern (15 bp):
TCTTTTTTTTTTTTT
Found at i:1088957 original size:21 final size:21
Alignment explanation
Indices: 1088907--1088957 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
1088897 CAATGTCAAT
* *
1088907 AATGTTTTAAAGTTTTATATA
1 AATGTTTTAAAGCTTTAAATA
*
1088928 AGTGTTTTTAAA-CTTTAAATCA
1 AATG-TTTTAAAGCTTTAAAT-A
1088950 AATGTTTT
1 AATGTTTT
1088958 CAAGTAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
21 13 0.54
22 11 0.46
ACGTcount: A:0.35, C:0.04, G:0.10, T:0.51
Consensus pattern (21 bp):
AATGTTTTAAAGCTTTAAATA
Found at i:1089072 original size:20 final size:20
Alignment explanation
Indices: 1089047--1089137 Score: 84
Period size: 20 Copynumber: 4.6 Consensus size: 20
1089037 ACCCTAGAAA
1089047 GTATCGATACATATCT-AGAT
1 GTATCGATACATATCTCA-AT
*
1089067 GTATCGATACATTATGCT--TT
1 GTATCGATACA-TAT-CTCAAT
* *
1089087 GTATCGATACATGT-TCATT
1 GTATCGATACATATCTCAAT
1089106 GTATCGATACATA-CTCAATT
1 GTATCGATACATATCTCAA-T
1089126 GTATCGATACAT
1 GTATCGATACAT
1089138 TAAATTGGCT
Statistics
Matches: 61, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
17 1 0.02
19 19 0.31
20 36 0.59
21 3 0.05
22 2 0.03
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.38
Consensus pattern (20 bp):
GTATCGATACATATCTCAAT
Found at i:1089200 original size:13 final size:13
Alignment explanation
Indices: 1089182--1089213 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
1089172 TCGATACATA
*
1089182 ATACATTGTATCG
1 ATACATTATATCG
1089195 ATACATTATATCG
1 ATACATTATATCG
1089208 ATACAT
1 ATACAT
1089214 AGTGAAAAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (13 bp):
ATACATTATATCG
Found at i:1094823 original size:13 final size:13
Alignment explanation
Indices: 1094805--1094829 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1094795 CAAAGATCAG
1094805 TGTATCGATACAA
1 TGTATCGATACAA
1094818 TGTATCGATACA
1 TGTATCGATACA
1094830 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1094896 original size:19 final size:18
Alignment explanation
Indices: 1094872--1094969 Score: 90
Period size: 19 Copynumber: 5.8 Consensus size: 18
1094862 TAGCTTACAT
1094872 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
1094891 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
1094904 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
1094923 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
1094936 TGTATCGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
1094956 TGTATCGATACAAA
1 TGTATCGATACAAA
1094970 TCATTGAAAT
Statistics
Matches: 66, Mismatches: 0, Indels: 26
0.72 0.00 0.28
Matches are distributed among these distances:
13 22 0.33
14 2 0.03
16 4 0.06
18 1 0.02
19 24 0.36
20 13 0.20
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:1094908 original size:32 final size:32
Alignment explanation
Indices: 1094867--1094967 Score: 184
Period size: 32 Copynumber: 3.1 Consensus size: 32
1094857 GGCAATAGCT
*
1094867 TACATTGTATCGATACAAAACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
1094899 TACATTGTATCGATACAACACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
1094931 TACATTGTATCGATACAACACTTTATGTATCGA
1 TACATTGTATCGATACAACAC-TTATGTATCGA
1094964 TACA
1 TACA
1094968 AATCATTGAA
Statistics
Matches: 67, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
32 52 0.78
33 15 0.22
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.35
Consensus pattern (32 bp):
TACATTGTATCGATACAACACTTATGTATCGA
Found at i:1094909 original size:13 final size:13
Alignment explanation
Indices: 1094891--1094947 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
1094881 ACAAAACTTA
1094891 TGTATCGATACAT
1 TGTATCGATACAT
1094904 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
1094922 ATGTATCGATACAT
1 -TGTATCGATACAT
1094936 TGTATCGATACA
1 TGTATCGATACA
1094948 ACACTTTATG
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 21 0.55
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1098439 original size:27 final size:27
Alignment explanation
Indices: 1098408--1098462 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
1098398 TATTTTCACT
1098408 AAACCGCTTGACCAAAGTAGATTTTGC
1 AAACCGCTTGACCAAAGTAGATTTTGC
*
1098435 AAACCTCTTGACCAAAGTAGATTTTGC
1 AAACCGCTTGACCAAAGTAGATTTTGC
1098462 A
1 A
1098463 CCATTAGGAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (27 bp):
AAACCGCTTGACCAAAGTAGATTTTGC
Found at i:1098902 original size:13 final size:13
Alignment explanation
Indices: 1098881--1098917 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
1098871 AATGTTCTAA
1098881 GTATCGATACATT
1 GTATCGATACATT
* *
1098894 GTATTGATATATT
1 GTATCGATACATT
1098907 GTATCGATACA
1 GTATCGATACA
1098918 ATGGGACTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.41
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:1099024 original size:8 final size:9
Alignment explanation
Indices: 1099003--1099046 Score: 52
Period size: 9 Copynumber: 4.6 Consensus size: 9
1098993 CAAACAAACC
1099003 ATTCTTCAA
1 ATTCTTCAA
1099012 ATTCTTCAA
1 ATTCTTCAA
*
1099021 TTCTTCTTCAA
1 --ATTCTTCAA
1099032 ATTTCTTCAA
1 A-TTCTTCAA
1099042 ATTCT
1 ATTCT
1099047 CATAAAATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
9 13 0.43
10 9 0.30
11 8 0.27
ACGTcount: A:0.27, C:0.23, G:0.00, T:0.50
Consensus pattern (9 bp):
ATTCTTCAA
Found at i:1099029 original size:20 final size:20
Alignment explanation
Indices: 1099004--1099065 Score: 72
Period size: 20 Copynumber: 3.0 Consensus size: 20
1098994 AAACAAACCA
1099004 TTCTTCAAATTCTTCAATTC
1 TTCTTCAAATTCTTCAATTC
1099024 TTCTTCAAATTTCTTCAAATTC
1 TTCTTCAAA-TTCTTC-AATTC
* *
1099046 -TCATAAAATTCCTTCAATTC
1 TTCTTCAAATT-CTTCAATTC
1099066 CCTATCATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
20 16 0.43
21 16 0.43
22 5 0.14
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.47
Consensus pattern (20 bp):
TTCTTCAAATTCTTCAATTC
Found at i:1099039 original size:21 final size:21
Alignment explanation
Indices: 1099004--1099065 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
1098994 AAACAAACCA
1099004 TTCTTCAAA-TTCTTCAATTC
1 TTCTTCAAATTTCTTCAATTC
1099024 TTCTTCAAATTTCTTCAAATTC
1 TTCTTCAAATTTCTTC-AATTC
* * *
1099046 -TCATAAAATTCCTTCAATTC
1 TTCTTCAAATTTCTTCAATTC
1099066 CCTATCATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 14 0.38
21 18 0.49
22 5 0.14
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.47
Consensus pattern (21 bp):
TTCTTCAAATTTCTTCAATTC
Found at i:1101606 original size:13 final size:13
Alignment explanation
Indices: 1101588--1101618 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
1101578 CAATACATAG
1101588 TACATTGTATCGA
1 TACATTGTATCGA
1101601 TACATTGTATCGA
1 TACATTGTATCGA
1101614 TACAT
1 TACAT
1101619 AGTGAAAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:1101617 original size:33 final size:33
Alignment explanation
Indices: 1101572--1101641 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 33
1101562 CTACCACTGT
**
1101572 TTGTATCAATACATAGT-ACATTGTATCGATACA
1 TTGTATCAATACATAGTGA-AAAGTATCGATACA
*
1101605 TTGTATCGATACATAGTGAAAAGTATCGATACA
1 TTGTATCAATACATAGTGAAAAGTATCGATACA
1101638 TTGT
1 TTGT
1101642 CCTAACGGCT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
33 32 0.97
34 1 0.03
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.36
Consensus pattern (33 bp):
TTGTATCAATACATAGTGAAAAGTATCGATACA
Found at i:1104124 original size:153 final size:153
Alignment explanation
Indices: 1103806--1104198 Score: 467
Period size: 153 Copynumber: 2.6 Consensus size: 153
1103796 TAAAAGGATT
* * *
1103806 AACCTATCCTAAATGCATAACTTTCGCATAAAAGCATCACAGTGACTACATCAGACTTGATTCTA
1 AACCTATCCTAAATGCACATCTTTAGCATAAAAGCATC-CAGTGACTACATCAGACTTGATTCTA
* * * **
1103871 AAAAATTACCAAAACGCCTTTGGAGTATATGTTCGACATGAAAGTATCTCAATAAACCTAATGGA
65 AAAAATTACCAAAATGCCTTTGGAGTATATCTTCAACATGAAAGTATCTCAATAAACCTAAAAGA
*
1103936 CTCTAAAATGATTATGAAAGAGTG
130 CTCTAAAATGATTATAAAAGAGTG
* * *
1103960 AACCTATCCTAAATGCACAT-TTTGGGCATAAAAGCATCGCAGTAACTACATCAGACTCGATTCT
1 AACCTATCCTAAATGCACATCTTT-AGCATAAAAGCATC-CAGTGACTACATCAGACTTGATTCT
* ** *
1104024 AGAAAAATTACCAAAATG-ATCTTGG-G-ATATCTTCAACATGAAAGTATCTCCGT-AACTTTAA
64 A-AAAAATTACCAAAATGCCT-TTGGAGTATATCTTCAACATGAAAGTATCTCAATAAAC-CTAA
*
1104085 AAGACTCTAATATGATTATAAAAGAGTG
126 AAGACTCTAAAATGATTATAAAAGAGTG
* * *
1104113 AACTTATCCTAAATGCATATCTTTAGCATAAAAGTATCCTAGTGACTACAT-AGGACTTGAGTT-
1 AACCTATCCTAAATGCACATCTTTAGCATAAAAGCATCC-AGTGACTACATCA-GACTTGA-TTC
*
1104176 TAAAAAGTTACCAAAATGCCTTT
63 TAAAAAATTACCAAAATGCCTTT
1104199 AAAGACTTTT
Statistics
Matches: 205, Mismatches: 25, Indels: 20
0.82 0.10 0.08
Matches are distributed among these distances:
152 22 0.11
153 102 0.50
154 62 0.30
155 19 0.09
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (153 bp):
AACCTATCCTAAATGCACATCTTTAGCATAAAAGCATCCAGTGACTACATCAGACTTGATTCTAA
AAAATTACCAAAATGCCTTTGGAGTATATCTTCAACATGAAAGTATCTCAATAAACCTAAAAGAC
TCTAAAATGATTATAAAAGAGTG
Found at i:1107097 original size:315 final size:319
Alignment explanation
Indices: 1106643--1107226 Score: 742
Period size: 315 Copynumber: 1.8 Consensus size: 319
1106633 TTAAAAATTT
* *
1106643 CATTTCATACCTTAATGAAAGCCCGAAAAGATATGAAAAGTTTTGAAATCTTTTATACCCCTACA
1 CATTTCATACCTTAATGAAAGCCCAAAAAGATACGAAAAGTTTTGAAATCTTTTATACCCCTACA
* * * *
1106708 GATCCCCATAAAAATATAAAAGATAAAAAAAAGTTAAAGCTCCTCTAGGTTATTAAAGTATTAGC
66 GATCCCCATAAAAATATAAAAGATAAAAAAAAGTTAAAGCTCCTCTAGATTATGAAAATATTAAC
*
1106773 TTAATTTTATTTATTT-GTTTTCAAAAATTAC-ATTTTCGTACCTTAATGGAAACC-GAAAAGAT
131 TTAATTTTATTTATTTAGTTTTCAAAAA-TACTATTTT-GTACCTTAATGGAAACCTAAAAAGAT
* * * * * *
1106835 A-AGAAATTTTTTGAAAAGTTTTATACCCTTACG-GACCCCATAGGAATATAAAAGA-TTAAAAA
194 ACAAAAAGTTTTTGAAAACTTTTATACCCCTACGAAACCCCATAAGAATATAAAAGATTTAAAAA
1106897 A-ATTAATATTTATTTCAATTATAAAAGTGTTAATTTAATTTAATTTTTTTAAAAAAATAC
259 AGATTAATATTTATTTCAATTATAAAAGTGTTAATTTAATTTAATTTTTTTAAAAAAATAC
* *
1106957 CATTTCGTACCTTAATG-GAGACCCAAAAAGATACGAAAAGTTTTTGAAATCTTTTATACCCCTA
1 CATTTCATACCTTAATGAAAG-CCCAAAAAGATACGAAAAG-TTTTGAAATCTTTTATACCCCTA
* * * ** *
1107021 CAGA-CCCCTATAGAAATATAAAAGATTAAAAAATTA-TTAAA-TTTATTTCA-ATTATGAAAAT
64 CAGATCCCC-ATAAAAATATAAAAGA-TAAAAAA-AAGTTAAAGCTCCTCT-AGATTATGAAAAT
* * * * *
1107082 GTTAATTTTATTTTATTTATTTATTTTTGAAAAATACTATTTTGTACCTTAATGGAAACCTAAAA
125 ATTAACTTAATTTTATTTATTTAGTTTTCAAAAATACTATTTTGTACCTTAATGGAAACCTAAAA
* * *
1107147 AGATACAAAAAGTTTTTGAAATCTTTTATACCCCTACGAAATCCTATAAGAATATAAAAGATTTA
190 AGATACAAAAAGTTTTTGAAAACTTTTATACCCCTACGAAACCCCATAAGAATATAAAAGATTTA
1107212 AAAAATGATTAATAT
255 AAAAA-GATTAATAT
1107227 GGAAATATCT
Statistics
Matches: 227, Mismatches: 29, Indels: 21
0.82 0.10 0.08
Matches are distributed among these distances:
313 2 0.01
314 37 0.16
315 91 0.40
316 35 0.15
317 28 0.12
318 18 0.08
319 8 0.04
321 8 0.04
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.36
Consensus pattern (319 bp):
CATTTCATACCTTAATGAAAGCCCAAAAAGATACGAAAAGTTTTGAAATCTTTTATACCCCTACA
GATCCCCATAAAAATATAAAAGATAAAAAAAAGTTAAAGCTCCTCTAGATTATGAAAATATTAAC
TTAATTTTATTTATTTAGTTTTCAAAAATACTATTTTGTACCTTAATGGAAACCTAAAAAGATAC
AAAAAGTTTTTGAAAACTTTTATACCCCTACGAAACCCCATAAGAATATAAAAGATTTAAAAAAG
ATTAATATTTATTTCAATTATAAAAGTGTTAATTTAATTTAATTTTTTTAAAAAAATAC
Found at i:1107160 original size:162 final size:155
Alignment explanation
Indices: 1106618--1107217 Score: 576
Period size: 162 Copynumber: 3.8 Consensus size: 155
1106608 TTTATTTATT
* * * **
1106618 TTTTATTT-TTTATTTTTAAAAAT-TTCATTTCATACCTTAAT-GAAAGCCCGAAAAGATATGAA
1 TTTTATTTATTT-TTTTTAAAAATACT-ATTTCGTACCTTAATGGAAA-CCCAAAAAGATACAAA
* *
1106680 AAG-TTTTGAAATCTTTTATACCCCTACAGATCCCCATAAAAATATAAAAGATAAAAAAAAGTTA
63 AAGTTTTTGAAATCTTTTATACCCCTACAGA-CCCCATAGAAATATAAAAGATTAAAAAAA-TTA
** ** * * * * *
1106744 AAGCT-CCTCTAGGTTATTAAAGTATTAGCTTAA
126 AATTTATTTC-A-ATTA-TAAAATGTTA-ATTTA
* * *
1106777 TTTTATTTATTTGTTTTCAAAAATTAC-ATTTTCGTACCTTAATGGAAA-CCGAAAAGATA-AGA
1 TTTTATTTATTT-TTTTTAAAAA-TACTA-TTTCGTACCTTAATGGAAACCCAAAAAGATACAAA
* ** * * *
1106839 AATTTTTTGAAAAGTTTTATACCCTTACGGACCCCATAGGAATATAAAAGATTAAAAAAATTAAT
63 AAGTTTTTGAAATCTTTTATACCCCTACAGACCCCATAGAAATATAAAAGATTAAAAAAATTAA-
1106904 ATTTATTTCAATTATAAAAGTGTTAATTTA
127 ATTTATTTCAATTATAAAA-TGTTAATTTA
* * * * *
1106934 ATTTA---ATTTTTTTAAAAAAATACCATTTCGTACCTTAATGGAGACCCAAAAAGATACGAAAA
1 TTTTATTTATTTTTTT-TAAAAATACTATTTCGTACCTTAATGGAAACCCAAAAAGATACAAAAA
1106996 GTTTTTGAAATCTTTTATACCCCTACAGACCCCTATAGAAATATAAAAGATTAAAAAATTATTAA
65 GTTTTTGAAATCTTTTATACCCCTACAGACCCC-ATAGAAATATAAAAGATTAAAAAA--ATTAA
1107061 ATTTATTTCAATTATGAAAATGTTAATTTTA
127 ATTTATTTCAATTAT-AAAATGTTAA-TTTA
* *
1107092 TTTTATTTATTTATTTTTGAAAAATACTATTTTGTACCTTAATGGAAACCTAAAAAGATACAAAA
1 TTTTATTTATTT-TTTTT-AAAAATACTATTTCGTACCTTAATGGAAACCCAAAAAGATACAAAA
* * * *
1107157 AGTTTTTGAAATCTTTTATACCCCTACGAAATCCTATA-AGAATATAAAAGATTTAAAAAAT
64 AGTTTTTGAAATCTTTTATACCCCTAC-AGACCCCATAGA-AATATAAAAGATTAAAAAAAT
1107218 GATTAATATG
Statistics
Matches: 370, Mismatches: 46, Indels: 49
0.80 0.10 0.11
Matches are distributed among these distances:
153 25 0.07
154 20 0.05
155 31 0.08
156 23 0.06
157 32 0.09
158 28 0.08
159 40 0.11
160 51 0.14
161 19 0.05
162 97 0.26
163 4 0.01
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.37
Consensus pattern (155 bp):
TTTTATTTATTTTTTTTAAAAATACTATTTCGTACCTTAATGGAAACCCAAAAAGATACAAAAAG
TTTTTGAAATCTTTTATACCCCTACAGACCCCATAGAAATATAAAAGATTAAAAAAATTAAATTT
ATTTCAATTATAAAATGTTAATTTA
Found at i:1108025 original size:12 final size:12
Alignment explanation
Indices: 1108010--1108062 Score: 56
Period size: 12 Copynumber: 4.5 Consensus size: 12
1108000 TTTTTGCCTA
*
1108010 TTTTCTTTTATT
1 TTTTCTTTTCTT
*
1108022 TTTTCTTGTCTT
1 TTTTCTTTTCTT
1108034 TCTTTC-TTTCTT
1 T-TTTCTTTTCTT
*
1108046 TTTTCTCTT-TT
1 TTTTCTTTTCTT
1108057 TTTTCT
1 TTTTCT
1108063 CAGCTGATCA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
11 12 0.34
12 19 0.54
13 4 0.11
ACGTcount: A:0.02, C:0.17, G:0.02, T:0.79
Consensus pattern (12 bp):
TTTTCTTTTCTT
Found at i:1109936 original size:19 final size:20
Alignment explanation
Indices: 1109908--1109965 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
1109898 TGTACCGATA
* **
1109908 CATTGCATCGATACATG-TT
1 CATTGTATCGATACATGAAG
1109927 CATTGTATCGATACATGAAG
1 CATTGTATCGATACATGAAG
*
1109947 AATTGTATCGATACATGAA
1 CATTGTATCGATACATGAA
1109966 ACTGGCAGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 16 0.47
20 18 0.53
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (20 bp):
CATTGTATCGATACATGAAG
Found at i:1109953 original size:20 final size:20
Alignment explanation
Indices: 1109928--1109965 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
1109918 ATACATGTTC
1109928 ATTGTATCGATACATGAAGA
1 ATTGTATCGATACATGAAGA
1109948 ATTGTATCGATACATGAA
1 ATTGTATCGATACATGAA
1109966 ACTGGCAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (20 bp):
ATTGTATCGATACATGAAGA
Found at i:1110037 original size:20 final size:20
Alignment explanation
Indices: 1109994--1110045 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
1109984 ACCACTGTTT
**
1109994 GTATCGATACATAGTACATT
1 GTATCGATACATAGTACAAA
1110014 GTATCGATACATAGTGA-AAA
1 GTATCGATACATAGT-ACAAA
*
1110034 GTATCAATACAT
1 GTATCGATACAT
1110046 TATGCCCAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 27 0.96
21 1 0.04
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.31
Consensus pattern (20 bp):
GTATCGATACATAGTACAAA
Found at i:1112288 original size:13 final size:13
Alignment explanation
Indices: 1112270--1112300 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1112260 GTTACAAGCT
1112270 ATGTATCGATACA
1 ATGTATCGATACA
1112283 ATGTATCGATACA
1 ATGTATCGATACA
*
1112296 TTGTA
1 ATGTA
1112301 CCATGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1112389 original size:19 final size:19
Alignment explanation
Indices: 1112345--1112417 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 19
1112335 CTGCCAGTTT
**
1112345 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
1112365 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
1112384 CATGTATCGATACAAAGCAGA
1 CATGTATCGATACAATG-A-A
1112405 -ATGTATCGATACA
1 CATGTATCGATACA
1112418 TCTGGGTGTG
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
19 18 0.38
20 29 0.60
21 1 0.02
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.27
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:1114741 original size:23 final size:22
Alignment explanation
Indices: 1114698--1114741 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
1114688 ATGATTTTGA
*
1114698 TGAAAAATGAAAGTTTTTAAAG
1 TGAAAAATGAAAGTTTGTAAAG
1114720 TGAAAAATAAGAAA-TTTGTAAA
1 TGAAAAAT--GAAAGTTTGTAAA
1114742 AAATTTGATG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 8 0.42
23 7 0.37
24 4 0.21
ACGTcount: A:0.55, C:0.00, G:0.16, T:0.30
Consensus pattern (22 bp):
TGAAAAATGAAAGTTTGTAAAG
Found at i:1114874 original size:13 final size:13
Alignment explanation
Indices: 1114856--1114881 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1114846 AAATAGTACC
1114856 CAATGTATCGATA
1 CAATGTATCGATA
1114869 CAATGTATCGATA
1 CAATGTATCGATA
1114882 TGAGGAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1121079 original size:33 final size:32
Alignment explanation
Indices: 1121024--1121089 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 32
1121014 TTACAAGCTT
1121024 TGTATCGATACATTTCTTCATGTATCAATACAA
1 TGTATCGATACATTTC-TCATGTATCAATACAA
*
1121057 TGTATCGATACATTGTAC-CATGTATCGATACAA
1 TGTATCGATACATT-T-CTCATGTATCAATACAA
1121090 ATAGTGATAG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 28 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATTTCTCATGTATCAATACAA
Found at i:1121157 original size:13 final size:13
Alignment explanation
Indices: 1121139--1121165 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1121129 ACAATTGTCC
1121139 ATGTATCGATACA
1 ATGTATCGATACA
1121152 ATGTATCGATACA
1 ATGTATCGATACA
1121165 A
1 A
1121166 GCAAGAATGT
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1122501 original size:5 final size:5
Alignment explanation
Indices: 1122491--1122533 Score: 50
Period size: 5 Copynumber: 8.6 Consensus size: 5
1122481 AAACCATATC
** * *
1122491 AAATT AAATT AAATT AAACC ATATC AAATT AAATT AAATT AAA
1 AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAA
1122534 CCTAATACAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (5 bp):
AAATT
Found at i:1122509 original size:25 final size:25
Alignment explanation
Indices: 1122481--1122535 Score: 110
Period size: 25 Copynumber: 2.2 Consensus size: 25
1122471 TTCATAAAGA
1122481 AAACCATATCAAATTAAATTAAATT
1 AAACCATATCAAATTAAATTAAATT
1122506 AAACCATATCAAATTAAATTAAATT
1 AAACCATATCAAATTAAATTAAATT
1122531 AAACC
1 AAACC
1122536 TAATACATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.29
Consensus pattern (25 bp):
AAACCATATCAAATTAAATTAAATT
Found at i:1122521 original size:15 final size:15
Alignment explanation
Indices: 1122481--1122523 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
1122471 TTCATAAAGA
1122481 AAACCATATCAAATT
1 AAACCATATCAAATT
1122496 -AA--AT-T-AAATT
1 AAACCATATCAAATT
1122506 AAACCATATCAAATT
1 AAACCATATCAAATT
1122521 AAA
1 AAA
1122524 TTAAATTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 10
0.70 0.00 0.30
Matches are distributed among these distances:
10 5 0.22
11 3 0.13
12 2 0.09
13 2 0.09
14 3 0.13
15 8 0.35
ACGTcount: A:0.58, C:0.14, G:0.00, T:0.28
Consensus pattern (15 bp):
AAACCATATCAAATT
Found at i:1122658 original size:41 final size:41
Alignment explanation
Indices: 1122613--1122725 Score: 111
Period size: 48 Copynumber: 2.6 Consensus size: 41
1122603 TTATTAAACC
*
1122613 TAAATTACTACTTAAAAAATAAAAAAATAAAAAAAATATAT
1 TAAATTACTACTTTAAAAATAAAAAAATAAAAAAAATATAT
* * * *
1122654 TAAATTCTGAATTACTATTTAAAAATAATAAAAATTAAAAATATATTT
1 TAAA-T-T--ACTAC--TTTAAAAATAA-AAAAATAAAAAAAATATAT
1122702 TAAATTACTA-TTTAAAAATAAAAA
1 TAAATTACTACTTTAAAAATAAAAA
1122726 TTAAAGAATA
Statistics
Matches: 59, Mismatches: 6, Indels: 15
0.74 0.08 0.19
Matches are distributed among these distances:
40 3 0.05
41 15 0.25
42 1 0.02
43 1 0.02
44 3 0.05
45 4 0.07
46 1 0.02
47 11 0.19
48 20 0.34
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.34
Consensus pattern (41 bp):
TAAATTACTACTTTAAAAATAAAAAAATAAAAAAAATATAT
Found at i:1122669 original size:48 final size:48
Alignment explanation
Indices: 1122615--1122995 Score: 146
Period size: 51 Copynumber: 7.8 Consensus size: 48
1122605 ATTAAACCTA
1122615 AATTACTACTTAAAAAATAA-AAAAATAAAAAAAATATATTAAATTCTG
1 AATTACTA-TTAAAAAATAATAAAAATAAAAAAAATATATTAAATTCTG
* * *
1122663 AATTACTATTTAAAAATAATAAAAAT--TAAAAATATA-T---TT-TA
1 AATTACTATTAAAAAATAATAAAAATAAAAAAAATATATTAAATTCTG
* * * * **
1122704 AATTACTATTTAAAAAT-A-AAAATTAAAGAATAATTTATACTAAA-TCCA
1 AATTACTATTAAAAAATAATAAAAATAAA-AA-AA-ATATATTAAATTCTG
* ** *
1122752 AATTA-TATTTAAAAATAATAAAAAATTAAAAATATTTTATATT-AATTTTG
1 AATTACTATTAAAAAATAAT-AAAAA-TAAAAA-A-AATATATTAAATTCTG
* * * * * *
1122802 AATTACTATTTAAAAA-AACAAAAATTAAAAATATCTATTTTATTTTAAACTCTA
1 AATTACTATTAAAAAATAATAAAAA-TAAAAA-A---A--ATATATTAAATTCTG
* ** **
1122856 AATTATTATTTGAAAATAATAAAAATTAAAAATATTTTATATTAAA-TCTTG
1 AATTACTATTAAAAAATAATAAAAA-TAAAAA-A-AATATATTAAATTC-TG
* * * * *
1122907 AATTACTTTTTAAAAAATAATAAAATTAAAAAATATTTTAGGGTAAA-TCTTG
1 AATTAC-TATTAAAAAATAATAAAAATAAAAAA-AATATA--TTAAATTC-TG
* * *
1122959 AATTACTATTTAAAAATAATAAAAATTAAAAATATAT
1 AATTACTATTAAAAAATAATAAAAATAAAAAAAATAT
1122996 TCTATATATG
Statistics
Matches: 265, Mismatches: 40, Indels: 54
0.74 0.11 0.15
Matches are distributed among these distances:
39 5 0.02
40 1 0.00
41 18 0.07
42 4 0.02
43 2 0.01
44 4 0.02
45 2 0.01
46 9 0.03
47 22 0.08
48 21 0.08
49 16 0.06
50 32 0.12
51 58 0.22
52 30 0.11
53 7 0.03
54 18 0.07
55 16 0.06
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.38
Consensus pattern (48 bp):
AATTACTATTAAAAAATAATAAAAATAAAAAAAATATATTAAATTCTG
Found at i:1122706 original size:89 final size:89
Alignment explanation
Indices: 1122613--1122786 Score: 230
Period size: 89 Copynumber: 2.0 Consensus size: 89
1122603 TTATTAAACC
* **
1122613 TAAATTACTACTTAAAAAATAAAAAAATAAA-AA-AA-ATATATTAAATTCTGAATTACTATTTA
1 TAAATTACTA-TTAAAAAAT-AAAAAATAAAGAATAATATATACTAAA-TCCAAATTA-TATTTA
1122675 AAAATAAT-AAAAATTAAAAATATATTT
62 AAAATAATAAAAAATTAAAAATATATTT
* * *
1122702 TAAATTACTATTTAAAAATAAAAATTAAAGAATAATTTATACTAAATCCAAATTATATTTAAAAA
1 TAAATTACTATTAAAAAATAAAAAATAAAGAATAATATATACTAAATCCAAATTATATTTAAAAA
1122767 TAATAAAAAATTAAAAATAT
66 TAATAAAAAATTAAAAATAT
1122787 TTTATATTAA
Statistics
Matches: 75, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
87 9 0.12
88 24 0.32
89 34 0.45
90 8 0.11
ACGTcount: A:0.60, C:0.05, G:0.01, T:0.34
Consensus pattern (89 bp):
TAAATTACTATTAAAAAATAAAAAATAAAGAATAATATATACTAAATCCAAATTATATTTAAAAA
TAATAAAAAATTAAAAATATATTT
Done.