Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032244.1 Gossypioides kirkii chromosome KI_01
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: 38174113
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1000 characters in sequence are not A, C, G, or T
File 108 of 126
Found at i:32322814 original size:117 final size:116
Alignment explanation
Indices: 32322637--32323118 Score: 500
Period size: 117 Copynumber: 4.1 Consensus size: 116
32322627 TTCAGGAATA
* * * *
32322637 AAAAT-GTAATTTTTGGTGAAATTAAGGTTAAAAAATGGAATTTTGGAA-AGTTTGGGGGTAAAA
1 AAAATGGTAATTTTTGGTGAAACTAGGGTT-AAAAATGGGATTTTGGAAGA-TTCGGGGGTAAAA
*** ** * *
32322700 CAATAATTTTTGGTGAA-ATCGGGGTTAAAAATGGGATTTTGGAAAGTTT-GAGGGT
64 TGGTAATTTTT-G-GAAGATTAGGGTT-AAAATGGAATTTTAGAAAGTTTAG-GGGT
* *
32322755 AAAATGGTAATTTTTGGTGAAACTAGGGTT-AAAATGGGATTTTAGAAGATTCAGGGGTAAAATG
1 AAAATGGTAATTTTTGGTGAAACTAGGGTTAAAAATGGGATTTTGGAAGATTCGGGGGTAAAATG
* * * * * *
32322819 GTAA-TTTTGGAAGTTTTGGGGTCAAAAATGGAATTTT-GGAAGGTTCGGGGT
66 GTAATTTTTGGAAG-ATTAGGGT-TAAAATGGAATTTTAGAAAGTTTAGGGGT
* * *
32322870 AAAATGGTAATTTTTGGTGAAA-TCGGGGTTAAAAATAGGATTTTGGAATG-TTTGGGGGTAAAA
1 AAAATGGTAATTTTTGGTGAAACT-AGGGTTAAAAATGGGATTTTGGAA-GATTCGGGGGTAAAA
*
32322933 TGGTAATTTTTGGAAGTTTTAGGGTTAAAATGGAATTTTAG-AAGATTTAGGGGT
64 TGGTAATTTTTGGAAG-ATTAGGGTTAAAATGGAATTTTAGAAAG-TTTAGGGGT
* ** *
32322987 AAAATGGTAATTTTTAGTGAAACCGGGGTTAAAAATGGGATTTTGGAACATTCGGGGGTAAAATG
1 AAAATGGTAATTTTTGGTGAAACTAGGGTTAAAAATGGGATTTTGGAAGATTCGGGGGTAAAATG
* *
32323052 GTAATTTTGGGTGAA-ATTAGGGTTAAAATGGAATTTTAGAACGTTTAGGGGT
66 GTAATTTT-TG-GAAGATTAGGGTTAAAATGGAATTTTAGAAAGTTTAGGGGT
32323104 AAAATGGTAATTTTT
1 AAAATGGTAATTTTT
32323119 AGAAGTTTCG
Statistics
Matches: 315, Mismatches: 32, Indels: 35
0.82 0.08 0.09
Matches are distributed among these distances:
114 4 0.01
115 38 0.12
116 71 0.23
117 168 0.53
118 9 0.03
119 25 0.08
ACGTcount: A:0.34, C:0.02, G:0.29, T:0.34
Consensus pattern (116 bp):
AAAATGGTAATTTTTGGTGAAACTAGGGTTAAAAATGGGATTTTGGAAGATTCGGGGGTAAAATG
GTAATTTTTGGAAGATTAGGGTTAAAATGGAATTTTAGAAAGTTTAGGGGT
Found at i:32322817 original size:58 final size:59
Alignment explanation
Indices: 32322637--32323118 Score: 465
Period size: 58 Copynumber: 8.3 Consensus size: 59
32322627 TTCAGGAATA
* *
32322637 AAAAT-GTAATTTTTGGTGAAATTAAGGTTAAAAAATGGAATTTTGGAA-AGTTTGGGGGT
1 AAAATGGTAATTTTTGGTGAAATTAGGGTT-AAAAATGGAATTTTGGAAGA-TTTAGGGGT
*** ** *
32322696 AAAACAATAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAA-AGTTT-GAGGGT
1 AAAATGGTAATTTTTGGTGAAATTAGGGTTAAAAATGGAATTTTGGAAGA-TTTAG-GGGT
* * * *
32322755 AAAATGGTAATTTTTGGTGAAACTAGGGTT-AAAATGGGATTTTAGAAGATTCAGGGGT
1 AAAATGGTAATTTTTGGTGAAATTAGGGTTAAAAATGGAATTTTGGAAGATTTAGGGGT
* * * * *
32322813 AAAATGGTAA-TTTT-G-GAAGTTTTGGGGTCAAAAATGGAATTTTGGAAG-GTTCGGGGT
1 AAAATGGTAATTTTTGGTGAA--ATTAGGGTTAAAAATGGAATTTTGGAAGATTTAGGGGT
** *
32322870 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATAGG-ATTTTGGAATG-TTTGGGGGT
1 AAAATGGTAATTTTTGGTGAAATTAGGGTTAAAAAT-GGAATTTTGGAA-GATTTAGGGGT
* *
32322929 AAAATGGTAATTTTT-G-GAAGTTTTAGGGTT-AAAATGGAATTTTAGAAGATTTAGGGGT
1 AAAATGGTAATTTTTGGTGAA--ATTAGGGTTAAAAATGGAATTTTGGAAGATTTAGGGGT
* *** * * **
32322987 AAAATGGTAATTTTTAGTGAAACCGGGGTTAAAAATGGGATTTTGGAACATTCGGGGGT
1 AAAATGGTAATTTTTGGTGAAATTAGGGTTAAAAATGGAATTTTGGAAGATTTAGGGGT
* *
32323046 AAAATGGTAATTTTGGGTGAAATTAGGGTT-AAAATGGAATTTTAGAACG-TTTAGGGGT
1 AAAATGGTAATTTTTGGTGAAATTAGGGTTAAAAATGGAATTTTGGAA-GATTTAGGGGT
32323104 AAAATGGTAATTTTT
1 AAAATGGTAATTTTT
32323119 AGAAGTTTCG
Statistics
Matches: 350, Mismatches: 53, Indels: 41
0.79 0.12 0.09
Matches are distributed among these distances:
55 3 0.01
56 1 0.00
57 31 0.09
58 152 0.43
59 137 0.39
60 26 0.07
ACGTcount: A:0.34, C:0.02, G:0.29, T:0.34
Consensus pattern (59 bp):
AAAATGGTAATTTTTGGTGAAATTAGGGTTAAAAATGGAATTTTGGAAGATTTAGGGGT
Found at i:32323160 original size:29 final size:27
Alignment explanation
Indices: 32322727--32323153 Score: 126
Period size: 28 Copynumber: 14.7 Consensus size: 27
32322717 ATCGGGGTTA
*
32322727 AAAATGGGATTTTGGAAAGTTT-GAGGGT
1 AAAATGGAATTTT-GAAAGTTTAG-GGGT
* *
32322755 AAAATGGTAATTTTTGGTGAAA--CTAGGGTT
1 AAAATGG-AA--TTT--TGAAAGTTTAGGGGT
* *
32322785 AAAATGGGATTTT-AGAAGATTCAGGGGT
1 AAAATGGAATTTTGA-AAG-TTTAGGGGT
* *
32322813 AAAATGGTAATTTTGGAAGTTTTGGGGT
1 AAAATGG-AATTTTGAAAGTTTAGGGGT
* * *
32322841 CAAAAATGGAATTTTGGAAGGTTCGGGGT
1 --AAAATGGAATTTTGAAAGTTTAGGGGT
*
32322870 AAAATGGTAATTTTTGGTGAAA---TCGGGGTT
1 AAAATGG-AA--TTT--TGAAAGTTTAGGGG-T
* *
32322900 AAAAATAGG-ATTTTGGAATGTTTGGGGGT
1 -AAAAT-GGAATTTT-GAAAGTTTAGGGGT
* *
32322929 AAAATGGTAATTTTTGGAAGTTTTAGGGTT
1 AAAATGG-AA-TTTTGAAAG-TTTAGGGGT
32322959 AAAATGGAATTTT-AGAAGATTTAGGGGT
1 AAAATGGAATTTTGA-AAG-TTTAGGGGT
* **
32322987 AAAATGGTAATTTT--TAGTGAAACCGGGGTT
1 AAAATGG-AATTTTGAAAGT-TTA--GGGG-T
* **
32323017 AAAAATGGGATTTTGGAACA-TTCGGGGGT
1 -AAAATGGAATTTT-GAA-AGTTTAGGGGT
*
32323046 AAAATGGTAATTTTGGGTGAAA--TTAGGGTT
1 AAAATGG-AA-TTT---TGAAAGTTTAGGGGT
*
32323076 AAAATGGAATTTTAGAACGTTTAGGGGT
1 AAAATGGAATTTT-GAAAGTTTAGGGGT
* *
32323104 AAAATGGTAATTTTTAGAAGTTTCGGGGT
1 AAAATGG-AATTTTGA-AAGTTTAGGGGT
32323133 CAAAAATGGAATTTTGGAAAG
1 --AAAATGGAATTTT-GAAAG
32323154 CTTGGGGATT
Statistics
Matches: 304, Mismatches: 41, Indels: 106
0.67 0.09 0.24
Matches are distributed among these distances:
24 1 0.00
25 4 0.01
26 5 0.02
27 18 0.06
28 83 0.27
29 71 0.23
30 80 0.26
31 25 0.08
32 13 0.04
33 3 0.01
34 1 0.00
ACGTcount: A:0.33, C:0.03, G:0.30, T:0.34
Consensus pattern (27 bp):
AAAATGGAATTTTGAAAGTTTAGGGGT
Found at i:32324195 original size:6 final size:6
Alignment explanation
Indices: 32324184--32324299 Score: 91
Period size: 6 Copynumber: 20.0 Consensus size: 6
32324174 ATAATAATTT
* * * *
32324184 TTTAAA TTTAAA -ATAAA TTTAGA CTTAAA -TTAAA TTCAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * * *
32324230 GTTTAAT TTTAAA TTTAAA TTTAAA -ATAAA TCTAAA TTTAAA -TCAAA
1 -TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
32324277 TTT-AA TCTTAAA -ATAAA TTTAAA
1 TTTAAA T-TTAAA TTTAAA TTTAAA
32324300 AGGGCCCGAT
Statistics
Matches: 86, Mismatches: 16, Indels: 16
0.73 0.14 0.14
Matches are distributed among these distances:
5 24 0.28
6 55 0.64
7 7 0.08
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (6 bp):
TTTAAA
Found at i:32324228 original size:17 final size:17
Alignment explanation
Indices: 32324185--32324299 Score: 92
Period size: 17 Copynumber: 6.6 Consensus size: 17
32324175 TAATAATTTT
*
32324185 TTAAATTTAAA-ATAAA
1 TTAAATTTAAATTTAAA
* *
32324201 TTTAGACTTAAA-TTAAA
1 -TTAAATTTAAATTTAAA
*
32324218 TTCAAATTTAAAGTTTAATT
1 TT-AAATTTAAA-TTTAA-A
32324238 TTAAATTTAAATTTAAA
1 TTAAATTTAAATTTAAA
* *
32324255 ATAAATCTAAATTTAAA
1 TTAAATTTAAATTTAAA
*
32324272 TCAAATTT-AATCTTAAA
1 TTAAATTTAAAT-TTAAA
*
32324289 ATAAATTTAAA
1 TTAAATTTAAA
32324300 AGGGCCCGAT
Statistics
Matches: 78, Mismatches: 14, Indels: 11
0.76 0.14 0.11
Matches are distributed among these distances:
16 5 0.06
17 51 0.65
18 7 0.09
19 13 0.17
20 2 0.03
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (17 bp):
TTAAATTTAAATTTAAA
Found at i:32324242 original size:13 final size:12
Alignment explanation
Indices: 32324184--32324299 Score: 91
Period size: 11 Copynumber: 10.0 Consensus size: 12
32324174 ATAATAATTT
32324184 TTTAAATTTAAA
1 TTTAAATTTAAA
* *
32324196 -ATAAATTTAGA
1 TTTAAATTTAAA
*
32324207 CTTAAA-TTAAA
1 TTTAAATTTAAA
*
32324218 TTCAAATTTAAA
1 TTTAAATTTAAA
*
32324230 GTTTAATTTTAAA
1 -TTTAAATTTAAA
32324243 TTTAAATTTAAA
1 TTTAAATTTAAA
* *
32324255 -ATAAATCTAAA
1 TTTAAATTTAAA
*
32324266 TTTAAA-TCAAA
1 TTTAAATTTAAA
32324277 TTT-AATCTTAAA
1 TTTAAAT-TTAAA
*
32324289 -ATAAATTTAAA
1 TTTAAATTTAAA
32324300 AGGGCCCGAT
Statistics
Matches: 81, Mismatches: 16, Indels: 15
0.72 0.14 0.13
Matches are distributed among these distances:
10 2 0.02
11 38 0.47
12 31 0.38
13 10 0.12
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (12 bp):
TTTAAATTTAAA
Found at i:32325019 original size:200 final size:200
Alignment explanation
Indices: 32324603--32325638 Score: 1515
Period size: 200 Copynumber: 5.2 Consensus size: 200
32324593 TAACTTGGCC
* * * * * *
32324603 TTCTTCTCAGTGTCTCATCAGGAAAATGACTGCAATC-ATCTGTTTTAATTCGCTTCTCTGGATC
1 TTCTTCTCTGTATCTCATCAGGAAGATGACCGC-CTCGCT-TGTTTTAATTCGCTTCTCTGGATC
* * * * *
32324667 TCC-CTAGGAAGACGCATTTGATCCAC-T-TCTGTGTCTCATCAGGAAGCTAACCTTTTTATTGC
64 TCCTC-AGGAAGACGAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCATTTTATTGT
* * * *
32324729 TTCAACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGGAGATTTGCTCGCATCGAGCGTT
128 TTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCT-GGGTTCGAAGATTTGCTCGCATTGAGCGTT
*
32324794 GAGTTGGCA
192 GAGTTGGTA
* * *
32324803 TACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCGCTTGTTTTGATTCACTTCTCTGGATCTC
1 TTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCGCTTGTTTTAATTCGCTTCTCTGGATCTC
* * * * *
32324868 CTCAAGAAGACGAATCTGGTCCACTTCTTTATATCTCATCAGGAAGCTAGCCATTTTATTGTTTC
66 CTCAGGAAGACGAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCATTTTATTGTTTC
* *
32324933 GACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCACTGAGCGTTGAAT
131 GACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCATTGAGCGTTGAGT
32324998 TGGTA
196 TGGTA
*
32325003 TTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTTGCTTGTTTTAATTCGCTTCTCTGGATCTC
1 TTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCGCTTGTTTTAATTCGCTTCTCTGGATCTC
* * * * * *
32325068 CTCAGGAAGACGAATCTGATCCACTTCCCTGTATCTCCTCAAGAAGCTAGCCATTTTATTGTTTC
66 CTCAGGAAGACGAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCATTTTATTGTTTC
* *
32325133 AACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCATTAAGCGTTGAGT
131 GACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCATTGAGCGTTGAGT
32325198 TGGTA
196 TGGTA
32325203 TTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCGCTTGTTTTAATTCGCTTCTCTGGATCTC
1 TTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCGCTTGTTTTAATTCGCTTCTCTGGATCTC
*
32325268 CTCAGGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCATTTTATTGTTTC
66 CTCAGGAAGACGAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCATTTTATTGTTTC
* * *
32325333 GACCTGCTTCTCAGTGTCTCATCAAGAAGCTGGGTTCAAAGATTTGCTTGCATTGAGCGTTGAGT
131 GACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCATTGAGCGTTGAGT
*
32325398 TGGCA
196 TGGTA
*
32325403 TTCTTCTCTGTATCTCATCAGGAAGATGATCGCCTCGCTTGTTTTAATTCGCTTCTCTGGATCTC
1 TTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCGCTTGTTTTAATTCGCTTCTCTGGATCTC
* * * *
32325468 CTCAAGAAGACAAATTTGGTCCACTTCTTTGTATCTCATCAGGAAGCTAACTATTTTATTGTTTC
66 CTCAGGAAGACGAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCATTTTATTGTTTC
* * * ** *
32325533 GA-CTGGCTTCTCAGTGTCTCATTAGGAAGCTGGGTACGAAGATTGGCTCGTGTTGAGCGTTGAA
131 GACCT-GCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCATTGAGCGTTGAG
32325597 TTGGTA
195 TTGGTA
* *
32325603 TTCTTCTCTGTATCTCATCACGAAGATGACTGCCTC
1 TTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTC
32325639 ACTATCTTGT
Statistics
Matches: 757, Mismatches: 74, Indels: 10
0.90 0.09 0.01
Matches are distributed among these distances:
199 46 0.06
200 650 0.86
201 61 0.08
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.35
Consensus pattern (200 bp):
TTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCGCTTGTTTTAATTCGCTTCTCTGGATCTC
CTCAGGAAGACGAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCATTTTATTGTTTC
GACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCATTGAGCGTTGAGT
TGGTA
Found at i:32330655 original size:18 final size:18
Alignment explanation
Indices: 32330632--32330669 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
32330622 AGGTCGGCAC
32330632 GTTAGTTCTCCCTTGGAG
1 GTTAGTTCTCCCTTGGAG
32330650 GTTAGTTCTCCCTTGGAG
1 GTTAGTTCTCCCTTGGAG
32330668 GT
1 GT
32330670 ACTTCTCGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.11, C:0.21, G:0.29, T:0.39
Consensus pattern (18 bp):
GTTAGTTCTCCCTTGGAG
Found at i:32337865 original size:30 final size:30
Alignment explanation
Indices: 32337830--32337934 Score: 92
Period size: 30 Copynumber: 3.5 Consensus size: 30
32337820 CTTCCAGGGG
*
32337830 TAAAAATGTATTTTTTGGTGAAATTAAGGT
1 TAAAAATGTAATTTTTGGTGAAATTAAGGT
*
32337860 TAAAAAATG-AATTTTT-G-GAAAGTTTAAGGG
1 T-AAAAATGTAATTTTTGGTGAAA--TTAAGGT
***
32337890 T-AAAATAGTAATTTTTGGTGAAATCGGGGT
1 TAAAAAT-GTAATTTTTGGTGAAATTAAGGT
*
32337920 TAAAAATGGAATTTT
1 TAAAAATGTAATTTT
32337935 GGAAGATTCG
Statistics
Matches: 60, Mismatches: 7, Indels: 16
0.72 0.08 0.19
Matches are distributed among these distances:
28 9 0.15
29 2 0.03
30 32 0.53
31 13 0.22
32 4 0.07
ACGTcount: A:0.39, C:0.01, G:0.22, T:0.38
Consensus pattern (30 bp):
TAAAAATGTAATTTTTGGTGAAATTAAGGT
Found at i:32338012 original size:58 final size:57
Alignment explanation
Indices: 32337826--32338356 Score: 459
Period size: 58 Copynumber: 9.1 Consensus size: 57
32337816 TTAACTTCCA
* * ** *
32337826 GGGGTAAAAAT-GTATTTTTTGGTGAAATTAAGGTTAAAAAAT-GAATTTTTGGAAAGTTTA
1 GGGGT-AAAATGGTAATTTTTGGT-AAAATCGGGTT-AAAAATGGAA-TTTTGGAAAG-TTG
* * *
32337886 AGGGTAAAATAGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGG-AAGATTCG
1 GGGGTAAAATGGTAATTTTTGGTAAAATC-GGGTTAAAAATGGAATTTTGGAAAG-TT-G
* ** *
32337945 AGGGTAAAATGGTAATTTTTGG-AAGTTTCAGGGTT-AAAATGGAATTTTGGAAGGCTTG
1 GGGGTAAAATGGTAATTTTTGGTAA-AATC-GGGTTAAAAATGGAATTTTGGAAAG-TTG
* * *
32338003 GGGGTAAAATGGTAATTTTTGGTAAAATTGAGGTTAAAAAT-GAGATTTTGGAATGTTT
1 GGGGTAAAATGGTAATTTTTGGTAAAATCG-GGTTAAAAATGGA-ATTTTGGAAAGTTG
* * * * * *
32338061 AGGGTAAAATGGTAATTTTGGGTGAAACCGAGGTTAAAAATGGGATTTTGGAACGTTCG
1 GGGGTAAAATGGTAATTTTTGGTAAAATCG-GGTTAAAAATGGAATTTTGGAAAGTT-G
* * *
32338120 GGGGTAAAATGGTAATTTTGGGTAAAATCGGAGTT-AAAATGGAATTTTAGAAAGTTTA
1 GGGGTAAAATGGTAATTTTTGGTAAAATCGG-GTTAAAAATGGAATTTTGGAAAG-TTG
* * *
32338178 GGGGTAAAATGGTAATTTTTGGTAAAATCGAGGTTAAAAATGGGATTTTGGAATGTTCA
1 GGGGTAAAATGGTAATTTTTGGTAAAATCG-GGTTAAAAATGGAATTTTGGAAAGTT-G
* * *
32338237 GGGGTAAAATGGTAATTTTGGGTAAAATCGGGGTT-AAAATGAAATTTTAGAAAGTTTG
1 GGGGTAAAATGGTAATTTTTGGTAAAATC-GGGTTAAAAATGGAATTTTGGAAAG-TTG
* * ** * *
32338295 GGTGTAAAATGTTAATTTTTGG-AAGTTTTGGGGTCAAAAATGGAATTTTGGAAAGCTTG
1 GGGGTAAAATGGTAATTTTTGGTAA--AATCGGGTTAAAAATGGAATTTTGGAAAG-TTG
32338354 GGG
1 GGG
32338357 ACTAAAGAGC
Statistics
Matches: 392, Mismatches: 57, Indels: 45
0.79 0.12 0.09
Matches are distributed among these distances:
57 3 0.01
58 189 0.48
59 177 0.45
60 23 0.06
ACGTcount: A:0.34, C:0.03, G:0.29, T:0.34
Consensus pattern (57 bp):
GGGGTAAAATGGTAATTTTTGGTAAAATCGGGTTAAAAATGGAATTTTGGAAAGTTG
Found at i:32338012 original size:117 final size:115
Alignment explanation
Indices: 32337856--32338349 Score: 489
Period size: 117 Copynumber: 4.2 Consensus size: 115
32337846 GGTGAAATTA
*** * * *
32337856 AGGTTAAAAAAT-GAATTTTTGGAAAGTTTAAGGGTAAAATAGTAATTTTTGGTGAAATCGGGGT
1 AGGTT-AAAAATGGAA-TTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTGGGTAAAATCGGGGT
**
32337920 TAAAAATGGAATTTTGGAAGATTCGAGGGTAAAATGGTAATTTTTGGAAGTTTC-
64 T-AAAATGGAATTTTGGAAGATT-G-GGGTAAAATGGTAATTTTTGGAAGAATCG
* * * *
32337974 AGGGTT-AAAATGGAATTTTGGAAGGCTT-GGGGGTAAAATGGTAATTTTTGGTAAAATTGAGGT
1 A-GGTTAAAAATGGAATTTTGGAAAG-TTCGGGGGTAAAATGGTAATTTTGGGTAAAATCGGGGT
* * ** *
32338037 TAAAAAT-GAGATTTTGGAATGTTTAGGGTAAAATGGTAA-TTTTGGGTGAAACCG
64 T-AAAATGGA-ATTTTGGAA-GATTGGGGTAAAATGGTAATTTTTGGAAG-AATCG
* * *
32338091 AGGTTAAAAATGGGATTTTGGAACGTTCGGGGGTAAAATGGTAATTTTGGGTAAAATCGGAGTTA
1 AGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTGGGTAAAATCGGGGTTA
* *
32338156 AAATGGAATTTTAGAAAGTTTAGGGGTAAAATGGTAATTTTTGGTAA-AATCG
66 AAATGGAATTTT-GGAAGATT-GGGGTAAAATGGTAATTTTTGG-AAGAATCG
* * *
32338208 AGGTTAAAAATGGGATTTTGGAATGTTCAGGGGTAAAATGGTAATTTTGGGTAAAATCGGGGTTA
1 AGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTGGGTAAAATCGGGGTTA
* * * * ** *
32338273 AAATGAAATTTTAGAAAGTTTGGGTGTAAAATGTTAATTTTTGGAAGTTTTG
66 AAATGGAATTTT-GGAAGATTGGG-GTAAAATGGTAATTTTTGGAAGAATCG
* *
32338325 GGGTCAAAAATGGAATTTTGGAAAG
1 AGGTTAAAAATGGAATTTTGGAAAG
32338350 CTTGGGGACT
Statistics
Matches: 323, Mismatches: 37, Indels: 33
0.82 0.09 0.08
Matches are distributed among these distances:
115 7 0.02
116 42 0.13
117 255 0.79
118 15 0.05
119 4 0.01
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.34
Consensus pattern (115 bp):
AGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTGGGTAAAATCGGGGTTA
AAATGGAATTTTGGAAGATTGGGGTAAAATGGTAATTTTTGGAAGAATCG
Found at i:32338078 original size:28 final size:26
Alignment explanation
Indices: 32337922--32338257 Score: 136
Period size: 30 Copynumber: 11.6 Consensus size: 26
32337912 ATCGGGGTTA
32337922 AAAATGGAATTTTGGAAGATTCGAGGGT
1 AAAATGGAATTTTGGAAG-TT-GAGGGT
*
32337950 AAAATGGTAATTTTTGGAAGTTTCAGGGTT
1 AAAATGG-AA-TTTTGGAAG-TTGAGGG-T
*
32337980 AAAATGGAATTTTGGAAGGCTTGGGGGT
1 AAAATGGAATTTTGGAA-G-TTGAGGGT
* *
32338008 AAAATGGTAATTTTTGGTAAAATTGAGGTT
1 AAAATGG-AA-TTTTGG--AAGTTGAGGGT
*
32338038 AAAAAT-GAGATTTTGGAATGTTTAGGGT
1 -AAAATGGA-ATTTTGGAA-GTTGAGGGT
*** *
32338066 AAAATGGTAATTTTGGGTGAAACCGAGGTT
1 AAAATGG-AATTTT--G-GAAGTTGAGGGT
* *
32338096 AAAAATGGGATTTTGGAACGTTCGGGGGT
1 -AAAATGGAATTTTGGAA-GTT-GAGGGT
* * *
32338125 AAAATGGTAATTTTGGGTAAAATCG-GAGTT
1 AAAATGG-AATTTT-GG--AAGTTGAG-GGT
* *
32338155 AAAATGGAATTTTAGAAAGTTTAGGGGT
1 AAAATGGAATTTT-GGAAGTTGA-GGGT
* * *
32338183 AAAATGGTAATTTTTGGTAAAATCGAGGTT
1 AAAATGG-AA-TTTTGG--AAGTTGAGGGT
* *
32338213 AAAAATGGGATTTTGGAATGTTCAGGGGT
1 -AAAATGGAATTTTGGAA-GTTGA-GGGT
32338242 AAAATGGTAATTTTGG
1 AAAATGG-AATTTTGG
32338258 GTAAAATCGG
Statistics
Matches: 231, Mismatches: 43, Indels: 67
0.68 0.13 0.20
Matches are distributed among these distances:
27 15 0.06
28 61 0.26
29 61 0.26
30 63 0.27
31 27 0.12
32 4 0.02
ACGTcount: A:0.34, C:0.03, G:0.30, T:0.33
Consensus pattern (26 bp):
AAAATGGAATTTTGGAAGTTGAGGGT
Found at i:32339580 original size:6 final size:6
Alignment explanation
Indices: 32339569--32339684 Score: 91
Period size: 6 Copynumber: 20.0 Consensus size: 6
32339559 ATAATAATTT
* * * *
32339569 TTTAAA TTTAAA -ATAAA TTTAGA CTTAAA -TTAAA TTCAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * * *
32339615 GTTTAAT TTTAAA TTTAAA TTTAAA -ATAAA TCTAAA TTTAAA -TCAAA
1 -TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
32339662 TTT-AA TCTTAAA -ATAAA TTTAAA
1 TTTAAA T-TTAAA TTTAAA TTTAAA
32339685 AGGGCCCGAT
Statistics
Matches: 86, Mismatches: 16, Indels: 16
0.73 0.14 0.14
Matches are distributed among these distances:
5 24 0.28
6 55 0.64
7 7 0.08
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (6 bp):
TTTAAA
Found at i:32339613 original size:17 final size:17
Alignment explanation
Indices: 32339570--32339684 Score: 92
Period size: 17 Copynumber: 6.6 Consensus size: 17
32339560 TAATAATTTT
*
32339570 TTAAATTTAAA-ATAAA
1 TTAAATTTAAATTTAAA
* *
32339586 TTTAGACTTAAA-TTAAA
1 -TTAAATTTAAATTTAAA
*
32339603 TTCAAATTTAAAGTTTAATT
1 TT-AAATTTAAA-TTTAA-A
32339623 TTAAATTTAAATTTAAA
1 TTAAATTTAAATTTAAA
* *
32339640 ATAAATCTAAATTTAAA
1 TTAAATTTAAATTTAAA
*
32339657 TCAAATTT-AATCTTAAA
1 TTAAATTTAAAT-TTAAA
*
32339674 ATAAATTTAAA
1 TTAAATTTAAA
32339685 AGGGCCCGAT
Statistics
Matches: 78, Mismatches: 14, Indels: 11
0.76 0.14 0.11
Matches are distributed among these distances:
16 5 0.06
17 51 0.65
18 7 0.09
19 13 0.17
20 2 0.03
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (17 bp):
TTAAATTTAAATTTAAA
Found at i:32339627 original size:13 final size:12
Alignment explanation
Indices: 32339569--32339684 Score: 91
Period size: 11 Copynumber: 10.0 Consensus size: 12
32339559 ATAATAATTT
32339569 TTTAAATTTAAA
1 TTTAAATTTAAA
* *
32339581 -ATAAATTTAGA
1 TTTAAATTTAAA
*
32339592 CTTAAA-TTAAA
1 TTTAAATTTAAA
*
32339603 TTCAAATTTAAA
1 TTTAAATTTAAA
*
32339615 GTTTAATTTTAAA
1 -TTTAAATTTAAA
32339628 TTTAAATTTAAA
1 TTTAAATTTAAA
* *
32339640 -ATAAATCTAAA
1 TTTAAATTTAAA
*
32339651 TTTAAA-TCAAA
1 TTTAAATTTAAA
32339662 TTT-AATCTTAAA
1 TTTAAAT-TTAAA
*
32339674 -ATAAATTTAAA
1 TTTAAATTTAAA
32339685 AGGGCCCGAT
Statistics
Matches: 81, Mismatches: 16, Indels: 15
0.72 0.14 0.13
Matches are distributed among these distances:
10 2 0.02
11 38 0.47
12 31 0.38
13 10 0.12
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (12 bp):
TTTAAATTTAAA
Found at i:32340468 original size:2 final size:2
Alignment explanation
Indices: 32340461--32340501 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
32340451 AATAAAAATA
32340461 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
32340502 GTAGTGTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:32362921 original size:3 final size:3
Alignment explanation
Indices: 32362902--32362956 Score: 92
Period size: 3 Copynumber: 18.3 Consensus size: 3
32362892 TTACTTAGTA
* *
32362902 CTT CAT CTT CCT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
32362950 CTT CTT C
1 CTT CTT C
32362957 ATTTCAGTGT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.02, C:0.36, G:0.00, T:0.62
Consensus pattern (3 bp):
CTT
Found at i:32370516 original size:20 final size:20
Alignment explanation
Indices: 32370493--32370532 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
32370483 AATATATAAT
32370493 TTCGATTGTTAATTGGTTTA
1 TTCGATTGTTAATTGGTTTA
32370513 TTCGATTGTTAATTGGTTTA
1 TTCGATTGTTAATTGGTTTA
32370533 GTAGTGGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.05, G:0.20, T:0.55
Consensus pattern (20 bp):
TTCGATTGTTAATTGGTTTA
Found at i:32380069 original size:27 final size:27
Alignment explanation
Indices: 32380038--32380136 Score: 74
Period size: 31 Copynumber: 3.5 Consensus size: 27
32380028 TCTTGTTTTA
* *
32380038 ATTTAGAGTTAAATTGATTTTAAATTT
1 ATTTAAAGTTAAATTGATCTTAAATTT
* *
32380065 ATTTAAATTTAAATTTATCTTAAATTT
1 ATTTAAAGTTAAATTGATCTTAAATTT
* * *
32380092 AAATTTAATTATTTAAATTTACCTTAAATTT
1 --ATTTAA--AGTTAAATTGATCTTAAATTT
32380123 AAATTTAAA-TTAAA
1 --ATTTAAAGTTAAA
32380137 ATACTAAATT
Statistics
Matches: 63, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
27 23 0.37
28 5 0.08
29 7 0.11
31 28 0.44
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (27 bp):
ATTTAAAGTTAAATTGATCTTAAATTT
Found at i:32380074 original size:6 final size:6
Alignment explanation
Indices: 32380056--32380150 Score: 83
Period size: 6 Copynumber: 16.0 Consensus size: 6
32380046 TTAAATTGAT
32380056 TTTAAA TTT--A TTTAAA TTTAAA TTT--A TCTTAAA TTTAAA TTTAATTA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAAA TTTAA--A
* * * *
32380103 TTTAAA TTT-AC CTTAAA TTTAAA TTTAAA TTAAAA TACTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAAA
32380151 CATTAAAAAT
Statistics
Matches: 72, Mismatches: 8, Indels: 18
0.73 0.08 0.18
Matches are distributed among these distances:
4 6 0.08
5 5 0.07
6 49 0.68
7 6 0.08
8 6 0.08
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.49
Consensus pattern (6 bp):
TTTAAA
Found at i:32380074 original size:17 final size:16
Alignment explanation
Indices: 32380056--32380129 Score: 98
Period size: 17 Copynumber: 4.6 Consensus size: 16
32380046 TTAAATTGAT
32380056 TTTAAATTTATTTAAA
1 TTTAAATTTATTTAAA
32380072 TTTAAATTTATCTTAAA
1 TTTAAATTTAT-TTAAA
*
32380089 TTTAAATTTAATT--A
1 TTTAAATTTATTTAAA
*
32380103 TTTAAATTTACCTTAAA
1 TTTAAATTTA-TTTAAA
32380120 TTTAAATTTA
1 TTTAAATTTA
32380130 AATTAAAATA
Statistics
Matches: 52, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
14 11 0.21
15 2 0.04
16 13 0.25
17 26 0.50
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (16 bp):
TTTAAATTTATTTAAA
Found at i:32380135 original size:11 final size:11
Alignment explanation
Indices: 32380046--32380150 Score: 63
Period size: 11 Copynumber: 9.5 Consensus size: 11
32380036 TAATTTAGAG
* *
32380046 TTAAATTGATT
1 TTAAATTAAAT
*
32380057 TTAAATT-TAT
1 TTAAATTAAAT
32380067 TTAAATTTAAAT
1 TTAAA-TTAAAT
**
32380079 TTATCTTAAAT
1 TTAAATTAAAT
*
32380090 TTAAATTTAA-
1 TTAAATTAAAT
*
32380100 TT-ATTTAAAT
1 TTAAATTAAAT
**
32380110 TTACCTTAAAT
1 TTAAATTAAAT
32380121 TTAAATTTAAAT
1 TTAAA-TTAAAT
*
32380133 TAAAATACTAAAT
1 TTAAAT--TAAAT
32380146 TTAAA
1 TTAAA
32380151 CATTAAAAAT
Statistics
Matches: 71, Mismatches: 16, Indels: 12
0.72 0.16 0.12
Matches are distributed among these distances:
9 5 0.07
10 10 0.14
11 32 0.45
12 15 0.21
13 9 0.13
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.50
Consensus pattern (11 bp):
TTAAATTAAAT
Found at i:32380135 original size:17 final size:17
Alignment explanation
Indices: 32380046--32380150 Score: 92
Period size: 17 Copynumber: 6.3 Consensus size: 17
32380036 TAATTTAGAG
* *
32380046 TTAAATTGATTTTAAAT
1 TTAAATTAAATTTAAAT
*
32380063 TT-ATTTAAATTTAAAT
1 TTAAATTAAATTTAAAT
**
32380079 TTATCTTAAATTTAAAT
1 TTAAATTAAATTTAAAT
32380096 TT-AATT--ATTTAAAT
1 TTAAATTAAATTTAAAT
**
32380110 TTACCTTAAATTTAAAT
1 TTAAATTAAATTTAAAT
*
32380127 TTAAATTAAAATACTAAAT
1 TTAAATT-AAAT-TTAAAT
32380146 TTAAA
1 TTAAA
32380151 CATTAAAAAT
Statistics
Matches: 70, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
14 10 0.14
15 2 0.03
16 15 0.21
17 29 0.41
18 4 0.06
19 10 0.14
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.50
Consensus pattern (17 bp):
TTAAATTAAATTTAAAT
Found at i:32380851 original size:22 final size:22
Alignment explanation
Indices: 32380826--32380882 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
32380816 ATTTAATAAC
32380826 AATAATAATAATAATACTAATT
1 AATAATAATAATAATACTAATT
* * *
32380848 AATAGTACTAATAATATTAATT
1 AATAATAATAATAATACTAATT
32380870 AATATATATATAA
1 AATA-ATA-ATAA
32380883 AAAAGGAGGG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
22 23 0.82
23 2 0.07
24 3 0.11
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.39
Consensus pattern (22 bp):
AATAATAATAATAATACTAATT
Found at i:32380856 original size:13 final size:12
Alignment explanation
Indices: 32380819--32380863 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
32380809 TCATAATATT
* *
32380819 TAATAACAATAA
1 TAATAATAATAC
32380831 TAATAATAATAC
1 TAATAATAATAC
*
32380843 TAATTAATAGTAC
1 TAA-TAATAATAC
32380856 TAATAATA
1 TAATAATA
32380864 TTAATTAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
12 18 0.62
13 11 0.38
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.33
Consensus pattern (12 bp):
TAATAATAATAC
Found at i:32381986 original size:59 final size:59
Alignment explanation
Indices: 32381888--32382303 Score: 582
Period size: 59 Copynumber: 7.1 Consensus size: 59
32381878 GATTATAGGT
*
32381888 CCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTAC
1 CCCCAAACCTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTAC
* * * *
32381947 CCCCAAACCTTCCAAAATTCCATTTTTAATCCCGGTTTCATCGAAAATTACCATTTTAC
1 CCCCAAACCTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTAC
** ** *
32382006 CCCTGAACCTTTTAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTAA
1 CCCCAAACCTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTAC
* * *
32382065 CCCCGAACCTTCTAAAATTCTATTTTTAACCCCGATTTCACCAAAAATTACCATTTTAC
1 CCCCAAACCTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTAC
* * * *
32382124 CCCTAAACTTTCCAAAATTCCATTTTTAACTCCGATTTCATCAAAAATTACCATTTTAC
1 CCCCAAACCTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTAC
* * * * * *
32382183 TCCCGAACTTTCTAAAATTCCATTTTTAACCCTGGTTTCACCAAAAATTACCATTTTAC
1 CCCCAAACCTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTAC
* * * *
32382242 CCCCAAACATT-CTAAATTCCATTTTTAACCCCAATTTCACCAAAAATTACCATTTTGC
1 CCCCAAACCTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTAC
32382300 CCCC
1 CCCC
32382304 CGGGTATCCA
Statistics
Matches: 315, Mismatches: 42, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
58 45 0.14
59 270 0.86
ACGTcount: A:0.32, C:0.30, G:0.03, T:0.34
Consensus pattern (59 bp):
CCCCAAACCTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTAC
Found at i:32382201 original size:177 final size:177
Alignment explanation
Indices: 32381888--32382303 Score: 651
Period size: 177 Copynumber: 2.4 Consensus size: 177
32381878 GATTATAGGT
* *
32381888 CCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCAA
1 CCCCAAACATTCTAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCAA
* *
32381953 ACCTTCCAAAATTCCATTTTTAATCCCGGTTTCATCGAAAATTACCATTTTACCCCTGAACCTTT
66 ACCTTCCAAAATTCCATTTTTAATCCCGATTTCATCAAAAATTACCATTTTACCCCTGAACCTTT
32382018 TAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTAA
131 TAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTAA
* * * *
32382065 CCCCGAACCTTCTAAAATTCTATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCTAA
1 CCCCAAACATTCTAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCAA
*
32382130 ACTTTCCAAAATTCCATTTTTAA-CTCCGATTTCATCAAAAATTACCATTTTACTCCC-GAA-CT
66 ACCTTCCAAAATTCCATTTTTAATC-CCGATTTCATCAAAAATTACCATTTTAC-CCCTGAACCT
* * *
32382192 TTCTAAAATTCCATTTTTAACCCTGGTTTCACCAAAAATTACCATTTTAC
129 TT-TAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTAA
* *
32382242 CCCCAAACATTCT-AAATTCCATTTTTAACCCCAATTTCACCAAAAATTACCATTTTGCCCCC
1 CCCCAAACATTCTAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCC
32382304 CGGGTATCCA
Statistics
Matches: 219, Mismatches: 17, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
176 50 0.23
177 166 0.76
178 3 0.01
ACGTcount: A:0.32, C:0.30, G:0.03, T:0.34
Consensus pattern (177 bp):
CCCCAAACATTCTAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCAA
ACCTTCCAAAATTCCATTTTTAATCCCGATTTCATCAAAAATTACCATTTTACCCCTGAACCTTT
TAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTAA
Found at i:32394793 original size:19 final size:19
Alignment explanation
Indices: 32394741--32394791 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
32394731 AATTTGAATC
**
32394741 AAATTAAAATATCGTATATA
1 AAATTAAAAT-TTATATATA
32394761 AAATTAAAATTTATATATA
1 AAATTAAAATTTATATATA
*
32394780 ATATTATAAATT
1 AAATTA-AAATT
32394792 ATTTATGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 12 0.44
20 15 0.56
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (19 bp):
AAATTAAAATTTATATATA
Found at i:32398793 original size:40 final size:40
Alignment explanation
Indices: 32398693--32398803 Score: 123
Period size: 40 Copynumber: 2.8 Consensus size: 40
32398683 TAAATATGCA
* * * *
32398693 ATCAGGAGCACGATGGTGCTTACAGGAGCACGAATGTGCT
1 ATCAGGAGCACCATAGTGCTAACAAGAGCACGAATGTGCT
* * * * *
32398733 ATCAAGAGAACCGTAATGCTAACAAAAGCACGAATGTGCT
1 ATCAGGAGCACCATAGTGCTAACAAGAGCACGAATGTGCT
* *
32398773 GTTAGGAGCACCATAGTGCTAACAAGAGCAC
1 ATCAGGAGCACCATAGTGCTAACAAGAGCAC
32398804 CGTGCTACTA
Statistics
Matches: 55, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.35, C:0.21, G:0.26, T:0.18
Consensus pattern (40 bp):
ATCAGGAGCACCATAGTGCTAACAAGAGCACGAATGTGCT
Found at i:32402941 original size:5 final size:5
Alignment explanation
Indices: 32402931--32402966 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
32402921 AGAATGATAC
32402931 AGGTG AGGTG AGGTG AGGTG AGGTG AGGTG AGGTG A
1 AGGTG AGGTG AGGTG AGGTG AGGTG AGGTG AGGTG A
32402967 AGTACAAATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.22, C:0.00, G:0.58, T:0.19
Consensus pattern (5 bp):
AGGTG
Found at i:32425838 original size:23 final size:23
Alignment explanation
Indices: 32425807--32425960 Score: 137
Period size: 23 Copynumber: 6.7 Consensus size: 23
32425797 GGGGAAACAA
* *
32425807 TAAGCACACACAATGCAAATCAG
1 TAAGCACACACAGTGCAAATTAG
* *
32425830 TAGGCACACGCAGTGCAAATTAG
1 TAAGCACACACAGTGCAAATTAG
*
32425853 TAAGCACACATAGTGCAAATTAG
1 TAAGCACACACAGTGCAAATTAG
** * * *
32425876 TAAGCACGTATAGTGCGAATCAG
1 TAAGCACACACAGTGCAAATTAG
* * * **
32425899 TAAACATACACAGTACAAAGCAG
1 TAAGCACACACAGTGCAAATTAG
** * *
32425922 TAAGCACGTATAGTGCGAATTAG
1 TAAGCACACACAGTGCAAATTAG
32425945 TAAGCACACACAGTGC
1 TAAGCACACACAGTGC
32425961 TGAACAGTAA
Statistics
Matches: 100, Mismatches: 31, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 100 1.00
ACGTcount: A:0.41, C:0.21, G:0.20, T:0.18
Consensus pattern (23 bp):
TAAGCACACACAGTGCAAATTAG
Found at i:32425960 original size:69 final size:69
Alignment explanation
Indices: 32425807--32425970 Score: 177
Period size: 69 Copynumber: 2.4 Consensus size: 69
32425797 GGGGAAACAA
* * ** * * **
32425807 TAAGCACACACAATGCAAATCAGTAGGCACACGCAGTGCAAATTAGTAAGCACACATAGTGCAAA
1 TAAGCACACACAGTGCGAATCAGTAAACACACACAGTACAAAGCAGTAAGCACACATAGTGCAAA
32425872 TTAG
66 TTAG
** * * ** *
32425876 TAAGCACGTATAGTGCGAATCAGTAAACATACACAGTACAAAGCAGTAAGCACGTATAGTGCGAA
1 TAAGCACACACAGTGCGAATCAGTAAACACACACAGTACAAAGCAGTAAGCACACATAGTGCAAA
32425941 TTAG
66 TTAG
32425945 TAAGCACACACAGTGCTGAA-CAGTAA
1 TAAGCACACACAGTGC-GAATCAGTAA
32425971 GCGCGCTAAT
Statistics
Matches: 76, Mismatches: 18, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
69 73 0.96
70 3 0.04
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.18
Consensus pattern (69 bp):
TAAGCACACACAGTGCGAATCAGTAAACACACACAGTACAAAGCAGTAAGCACACATAGTGCAAA
TTAG
Found at i:32425972 original size:46 final size:46
Alignment explanation
Indices: 32425807--32425960 Score: 173
Period size: 46 Copynumber: 3.3 Consensus size: 46
32425797 GGGGAAACAA
* * * **** *
32425807 TAAGCACACACAATGCAAATCAGTAGGCACACGCAGTGCAAATTAG
1 TAAGCACACACAGTGCAAAGCAGTAAGCACGTATAGTGCGAATTAG
* ** *
32425853 TAAGCACACATAGTGCAAATTAGTAAGCACGTATAGTGCGAATCAG
1 TAAGCACACACAGTGCAAAGCAGTAAGCACGTATAGTGCGAATTAG
* * *
32425899 TAAACATACACAGTACAAAGCAGTAAGCACGTATAGTGCGAATTAG
1 TAAGCACACACAGTGCAAAGCAGTAAGCACGTATAGTGCGAATTAG
32425945 TAAGCACACACAGTGC
1 TAAGCACACACAGTGC
32425961 TGAACAGTAA
Statistics
Matches: 88, Mismatches: 20, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
46 88 1.00
ACGTcount: A:0.41, C:0.21, G:0.20, T:0.18
Consensus pattern (46 bp):
TAAGCACACACAGTGCAAAGCAGTAAGCACGTATAGTGCGAATTAG
Found at i:32433173 original size:23 final size:23
Alignment explanation
Indices: 32433141--32433286 Score: 195
Period size: 23 Copynumber: 6.3 Consensus size: 23
32433131 GCTGGGGAAA
32433141 CAGTAAGCACACACAGTGCAAAT
1 CAGTAAGCACACACAGTGCAAAT
*
32433164 CAGTAGGCACACACAGTGCAAAT
1 CAGTAAGCACACACAGTGCAAAT
*
32433187 CAGTAGGCACACACAGTGCAAAT
1 CAGTAAGCACACACAGTGCAAAT
* *
32433210 CAGTAAGCACGCACAATGCAAAT
1 CAGTAAGCACACACAGTGCAAAT
** * *
32433233 CAGTAAGCACGTATAGTGCGAAT
1 CAGTAAGCACACACAGTGCAAAT
*
32433256 TAGTAAGCACACACAGTGCTAAA-
1 CAGTAAGCACACACAGTGC-AAAT
32433279 CAGTAAGC
1 CAGTAAGC
32433287 GAGCTAATGT
Statistics
Matches: 108, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
23 106 0.98
24 2 0.02
ACGTcount: A:0.40, C:0.24, G:0.21, T:0.15
Consensus pattern (23 bp):
CAGTAAGCACACACAGTGCAAAT
Found at i:32435213 original size:19 final size:19
Alignment explanation
Indices: 32435187--32435235 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
32435177 TATTTTATAT
32435187 TATG-ATTTAATATTTAAGA
1 TATGTATTTAATATTTAA-A
*
32435206 TAT-TATTTATTATTTAAA
1 TATGTATTTAATATTTAAA
*
32435224 TTTGTATTTAAT
1 TATGTATTTAAT
32435236 TTATGTTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
18 3 0.12
19 22 0.88
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (19 bp):
TATGTATTTAATATTTAAA
Found at i:32436058 original size:15 final size:16
Alignment explanation
Indices: 32436038--32436067 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32436028 CTTCCCTATT
32436038 TTCTA-TTTCTTTTAG
1 TTCTATTTTCTTTTAG
32436053 TTCTATTTTCTTTTA
1 TTCTATTTTCTTTTA
32436068 TTTTTAATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.13, C:0.13, G:0.03, T:0.70
Consensus pattern (16 bp):
TTCTATTTTCTTTTAG
Found at i:32436072 original size:22 final size:22
Alignment explanation
Indices: 32436033--32436093 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
32436023 TTCGACTTCC
* *
32436033 CTATTTTCTATTT-CTTTTAGTT
1 CTATTTTCT-TTTATTTTTAATT
32436055 CTATTTTCTTTTATTTTTAATT
1 CTATTTTCTTTTATTTTTAATT
*
32436077 CT-GTTTCTTTTATTTTT
1 CTATTTTCTTTTATTTTT
32436094 CCTTAGATCA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
21 17 0.49
22 18 0.51
ACGTcount: A:0.13, C:0.11, G:0.03, T:0.72
Consensus pattern (22 bp):
CTATTTTCTTTTATTTTTAATT
Found at i:32437655 original size:21 final size:21
Alignment explanation
Indices: 32437630--32437680 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
32437620 GAATTTCAGC
*
32437630 AGCAATCTATAGATTTCCAAA
1 AGCAAACTATAGATTTCCAAA
* * *
32437651 AGCAAACTGTGGATTTTCAAA
1 AGCAAACTATAGATTTCCAAA
*
32437672 AGAAAACTA
1 AGCAAACTA
32437681 AGGCATCTAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.45, C:0.16, G:0.14, T:0.25
Consensus pattern (21 bp):
AGCAAACTATAGATTTCCAAA
Found at i:32442773 original size:21 final size:21
Alignment explanation
Indices: 32442757--32442796 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
32442747 GAATTTATTT
32442757 ATTAT-TTTCTTTTATTTTTA
1 ATTATATTTCTTTTATTTTTA
*
32442777 ATTCTATTTCTTTTATTTTT
1 ATTATATTTCTTTTATTTTT
32442797 CCTTAGATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.75
Consensus pattern (21 bp):
ATTATATTTCTTTTATTTTTA
Found at i:32445549 original size:19 final size:20
Alignment explanation
Indices: 32445500--32445569 Score: 72
Period size: 19 Copynumber: 3.4 Consensus size: 20
32445490 TATTCTTTAT
32445500 AATTTTTAAAAAATATAATTTTTG
1 AATTTTT-AAAAAT-T-A-TTTTG
*
32445524 AAATTTTTATAAA-TATTTTG
1 -AATTTTTAAAAATTATTTTG
32445544 AA-TTTTAAAAATTATTTTG
1 AATTTTTAAAAATTATTTTG
32445563 AATTTTT
1 AATTTTT
32445570 TTTGTAATTT
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
18 8 0.20
19 11 0.27
20 9 0.22
21 1 0.02
22 1 0.02
24 4 0.10
25 7 0.17
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.54
Consensus pattern (20 bp):
AATTTTTAAAAATTATTTTG
Found at i:32451286 original size:10 final size:10
Alignment explanation
Indices: 32451273--32451308 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
32451263 TCCTCAAAGA
32451273 TTTCTTTTCC
1 TTTCTTTTCC
*
32451283 TTTCTTTTCT
1 TTTCTTTTCC
32451293 TTTCTTTT-C
1 TTTCTTTTCC
32451302 TTTCTTT
1 TTTCTTT
32451309 CTTCAATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 7 0.29
10 17 0.71
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTCTTTTCC
Found at i:32451293 original size:15 final size:14
Alignment explanation
Indices: 32451273--32451308 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
32451263 TCCTCAAAGA
32451273 TTTCTTTTCCTTTC
1 TTTCTTTTCCTTTC
*
32451287 TTTTCTTTTCTTTTC
1 -TTTCTTTTCCTTTC
32451302 TTTCTTT
1 TTTCTTT
32451309 CTTCAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTCTTTTCCTTTC
Found at i:32466969 original size:13 final size:14
Alignment explanation
Indices: 32466951--32466980 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
32466941 AGAACCCTAT
32466951 ACCTTAAACTCA-A
1 ACCTTAAACTCATA
32466964 ACCTTAAACTCATA
1 ACCTTAAACTCATA
32466978 ACC
1 ACC
32466981 CCAACCCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.43, C:0.33, G:0.00, T:0.23
Consensus pattern (14 bp):
ACCTTAAACTCATA
Found at i:32468869 original size:23 final size:23
Alignment explanation
Indices: 32468837--32468882 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
32468827 TATCAAATAA
*
32468837 ATTATGCTAATAAATACTAAATT
1 ATTATACTAATAAATACTAAATT
*
32468860 ATTATACTAATAAATGCTAAATT
1 ATTATACTAATAAATACTAAATT
32468883 TTCTAGAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.48, C:0.09, G:0.04, T:0.39
Consensus pattern (23 bp):
ATTATACTAATAAATACTAAATT
Found at i:32470809 original size:24 final size:24
Alignment explanation
Indices: 32470781--32470832 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
32470771 TTTGTAGGTA
32470781 AAATAAATTAT-GCTAATAAATACT
1 AAATAAATTATAG-TAATAAATACT
*
32470805 AAATATATTATAGTAATAAATACT
1 AAATAAATTATAGTAATAAATACT
32470829 AAAT
1 AAAT
32470833 CTTTTAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 25 0.96
25 1 0.04
ACGTcount: A:0.56, C:0.06, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATAAATTATAGTAATAAATACT
Found at i:32472485 original size:16 final size:16
Alignment explanation
Indices: 32472464--32472495 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
32472454 CAGAAGTAGA
32472464 AATAAAAGAATTAAAC
1 AATAAAAGAATTAAAC
*
32472480 AATAAAATAATTAAAC
1 AATAAAAGAATTAAAC
32472496 TTTTTGAACC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.69, C:0.06, G:0.03, T:0.22
Consensus pattern (16 bp):
AATAAAAGAATTAAAC
Found at i:32475824 original size:16 final size:15
Alignment explanation
Indices: 32475803--32475832 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
32475793 AAAAGGCAAA
32475803 AAAATTTGTGTGAAAG
1 AAAATTTGT-TGAAAG
32475819 AAAATTTGTTGAAA
1 AAAATTTGTTGAAA
32475833 ACACAACAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.47, C:0.00, G:0.20, T:0.33
Consensus pattern (15 bp):
AAAATTTGTTGAAAG
Found at i:32483532 original size:19 final size:18
Alignment explanation
Indices: 32483510--32483550 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
32483500 TGGTAAAAAT
32483510 ATTTTATCAAATAA-AATAA
1 ATTTTAT-AAA-AATAATAA
32483529 A-TTTATAAAAATAATAA
1 ATTTTATAAAAATAATAA
32483546 ATTTT
1 ATTTT
32483551 TAGTTATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
16 2 0.10
17 9 0.45
18 8 0.40
19 1 0.05
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (18 bp):
ATTTTATAAAAATAATAA
Found at i:32484436 original size:21 final size:22
Alignment explanation
Indices: 32484407--32484447 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
32484397 AATCATTTTT
32484407 TTTGAATAA-ATTTATTATTAG
1 TTTGAATAATATTTATTATTAG
* *
32484428 TTTGGATAATATTTGTTATT
1 TTTGAATAATATTTATTATT
32484448 TTGATATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (22 bp):
TTTGAATAATATTTATTATTAG
Found at i:32501651 original size:11 final size:11
Alignment explanation
Indices: 32501643--32501667 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
32501633 ATTCAATTTC
32501643 TCTCAAATTAT
1 TCTCAAATTAT
32501654 TCTCAAATTAT
1 TCTCAAATTAT
32501665 TCT
1 TCT
32501668 ACTATTAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.20, G:0.00, T:0.48
Consensus pattern (11 bp):
TCTCAAATTAT
Found at i:32518222 original size:28 final size:28
Alignment explanation
Indices: 32518189--32518288 Score: 100
Period size: 28 Copynumber: 3.5 Consensus size: 28
32518179 GGATCGAAAA
32518189 CAGGGGTAAAATGAGATTTTGGAAAGTT
1 CAGGGGTAAAATGAGATTTTGGAAAGTT
32518217 CAGGGGTAAAATG-GTAATTCTTGGTGAAA--T
1 CAGGGGTAAAATGAG--ATT-TT-G-GAAAGTT
*
32518247 CAGGGTTAAAAATGAGATTTTGGAAAGTT
1 CAGGGGT-AAAATGAGATTTTGGAAAGTT
32518276 C-GAGGGTAAAATG
1 CAG-GGGTAAAATG
32518289 GTAATTTTTT
Statistics
Matches: 60, Mismatches: 2, Indels: 20
0.73 0.02 0.24
Matches are distributed among these distances:
27 5 0.08
28 21 0.35
29 10 0.17
30 12 0.20
31 7 0.12
32 5 0.08
ACGTcount: A:0.36, C:0.05, G:0.31, T:0.28
Consensus pattern (28 bp):
CAGGGGTAAAATGAGATTTTGGAAAGTT
Found at i:32518283 original size:59 final size:60
Alignment explanation
Indices: 32518196--32518533 Score: 438
Period size: 59 Copynumber: 5.7 Consensus size: 60
32518186 AAACAGGGGT
* *
32518196 AAAATGAGATTTTGGAAAGTTC-AGGGGTAAAATGGTAATTCTTGGTGAAATCAGGGTTA
1 AAAATGAGATTTTGGAAAGTTCGAGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTA
* * *
32518255 AAAATGAGATTTTGGAAAGTTCGA-GGGTAAAATGGTAATTTTTTGTAAAATCGGGGCTA
1 AAAATGAGATTTTGGAAAGTTCGAGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTA
* * * * * *
32518314 AAAATGGGATTTTAGATAG-TCCAGGGGTAAAATGATAATTTTTGGTGAAATCGAGGTTA
1 AAAATGAGATTTTGGAAAGTTCGAGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTA
* * * *
32518373 AAAATGAGATTTTGGAAAGTTTG-GGGGTAAAATGATAATTTTTGGTGAAATTGGGATTA
1 AAAATGAGATTTTGGAAAGTTCGAGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTA
* *
32518432 AAAATGGGATTTTGGAAAGTT-TAGGGGT-AAATGGTAATTTTTGGTGAAATCGGGGTTA
1 AAAATGAGATTTTGGAAAGTTCGAGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTA
***
32518490 AAAATGAGATTTTGGAAAGTT-TTTGGGTCAAAATGGTAATTTTT
1 AAAATGAGATTTTGGAAAGTTCGAGGGGT-AAAATGGTAATTTTT
32518534 AGAAGTTTTA
Statistics
Matches: 243, Mismatches: 30, Indels: 11
0.86 0.11 0.04
Matches are distributed among these distances:
58 55 0.23
59 172 0.71
60 16 0.07
ACGTcount: A:0.35, C:0.03, G:0.28, T:0.34
Consensus pattern (60 bp):
AAAATGAGATTTTGGAAAGTTCGAGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTA
Found at i:32518551 original size:177 final size:175
Alignment explanation
Indices: 32518195--32518571 Score: 449
Period size: 177 Copynumber: 2.1 Consensus size: 175
32518185 AAAACAGGGG
** *
32518195 TAAAATGAGATTTTGGAAAGTTCAGGGGTAAAATGGTAATTCTTGGTGAAATCAGGGTTAAAAAT
1 TAAAATGAGATTTTGGAAAGTTTGGGGGTAAAATGATAATTCTTGGTGAAATCAGGGTTAAAAAT
* * *
32518260 GAGATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTTGTAAAATCGGGGCTAAAAATGGGATT
66 GAGATTTTGGAAAGTTAGAGGGTAAAATGGTAATTTTTGGTAAAATCGGGGCTAAAAATGAGATT
* *
32518325 TTAGATAGTCCAGGGGTAAAATGATAATTTTTGGTGAAATCGAGGT
131 TTAGAAAGTCCAGGGGTAAAATGATAATTTTT-GAGAAATCGAGGT
* *
32518371 TAAAAATGAGATTTTGGAAAGTTTGGGGGTAAAATGATAATTTTTGGTGAAAT-TGGGATTAAAA
1 T-AAAATGAGATTTTGGAAAGTTTGGGGGTAAAATGATAATTCTTGGTGAAATCAGGG-TTAAAA
* * *
32518435 ATGGGATTTTGGAAAGTTTAG-GGGT-AAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGAG
64 ATGAGATTTTGGAAAG-TTAGAGGGTAAAATGGTAATTTTTGGTAAAATCGGGGCTAAAAATGAG
* **** * * **
32518498 ATTTTGGAAAGTTTTTGGGTCAAAATGGTAATTTTT-AGAAGTTTTAGGGT
128 ATTTTAGAAAGTCCAGGGGT-AAAATGATAATTTTTGAGAA-ATCGA-GGT
32518548 TAAAATG-GAATTTTGGAAAGTTTG
1 TAAAATGAG-ATTTTGGAAAGTTTG
32518572 AGGACCTATA
Statistics
Matches: 172, Mismatches: 22, Indels: 14
0.83 0.11 0.07
Matches are distributed among these distances:
175 4 0.02
176 75 0.44
177 90 0.52
178 3 0.02
ACGTcount: A:0.34, C:0.03, G:0.28, T:0.34
Consensus pattern (175 bp):
TAAAATGAGATTTTGGAAAGTTTGGGGGTAAAATGATAATTCTTGGTGAAATCAGGGTTAAAAAT
GAGATTTTGGAAAGTTAGAGGGTAAAATGGTAATTTTTGGTAAAATCGGGGCTAAAAATGAGATT
TTAGAAAGTCCAGGGGTAAAATGATAATTTTTGAGAAATCGAGGT
Found at i:32520464 original size:6 final size:6
Alignment explanation
Indices: 32520453--32520568 Score: 89
Period size: 6 Copynumber: 20.0 Consensus size: 6
32520443 TATAATAATT
* * * *
32520453 TTTAAA TTTAAA -ATAAA TTTAGA CTTAAA -TTAAA TTCAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * * * *
32520499 GATTAAT TTTAAA TTTAAA TTTAAA -ATAAA TCTAAA TTTAAA -TCAAA
1 -TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* *
32520546 TTTAAT TTTAAA -ATAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA
32520569 AGGACCCGAT
Statistics
Matches: 84, Mismatches: 20, Indels: 12
0.72 0.17 0.10
Matches are distributed among these distances:
5 21 0.25
6 59 0.70
7 4 0.05
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (6 bp):
TTTAAA
Found at i:32520471 original size:11 final size:11
Alignment explanation
Indices: 32520455--32520569 Score: 63
Period size: 11 Copynumber: 10.0 Consensus size: 11
32520445 TAATAATTTT
32520455 TAAATTTAAAA
1 TAAATTTAAAA
**
32520466 TAAATTTAGACT
1 TAAATTTA-AAA
*
32520478 TAAA-TTAAAT
1 TAAATTTAAAA
32520488 TCAAATTTAAAGA
1 T-AAATTTAAA-A
* *
32520501 TTAATTTTAAATT
1 -TAAATTTAAA-A
32520514 TAAATTTAAAA
1 TAAATTTAAAA
* *
32520525 TAAATCTAAATT
1 TAAATTTAAA-A
* *
32520537 TAAA-TCAAATT
1 TAAATTTAAA-A
*
32520548 TAATTTTAAAA
1 TAAATTTAAAA
32520559 TAAATTTAAAA
1 TAAATTTAAAA
32520570 GGACCCGATC
Statistics
Matches: 80, Mismatches: 17, Indels: 14
0.72 0.15 0.13
Matches are distributed among these distances:
10 3 0.04
11 41 0.51
12 27 0.34
13 8 0.10
14 1 0.01
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:32520497 original size:17 final size:16
Alignment explanation
Indices: 32520454--32520568 Score: 77
Period size: 17 Copynumber: 6.7 Consensus size: 16
32520444 ATAATAATTT
*
32520454 TTAAATTTAAAATAAA
1 TTAAATTTAAATTAAA
* *
32520470 TTTAGACTTAAATTAAA
1 -TTAAATTTAAATTAAA
*
32520487 TTCAAATTTAAAGATTAATT
1 TT-AAATTT-AA-ATTAA-A
32520507 TTAAATTTAAATTTAAA
1 TTAAATTTAAA-TTAAA
* *
32520524 ATAAATCTAAATTTAAA
1 TTAAATTTAAA-TTAAA
* *
32520541 TCAAATTTAATTTTAAA
1 TTAAATTTAA-ATTAAA
*
32520558 ATAAATTTAAA
1 TTAAATTTAAA
32520569 AGGACCCGAT
Statistics
Matches: 76, Mismatches: 16, Indels: 13
0.72 0.15 0.12
Matches are distributed among these distances:
16 2 0.03
17 53 0.70
18 8 0.11
19 11 0.14
20 2 0.03
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (16 bp):
TTAAATTTAAATTAAA
Found at i:32520518 original size:59 final size:58
Alignment explanation
Indices: 32520453--32520565 Score: 154
Period size: 59 Copynumber: 1.9 Consensus size: 58
32520443 TATAATAATT
* * * *
32520453 TTTAAATTTAAAATAAATTTAGACTTAAATTAAATTCAAATTTAAAGATTAATTTTAAA
1 TTTAAATTTAAAATAAATCTAAACTTAAATCAAATTCAAATTTAAA-ATAAATTTTAAA
* * *
32520512 TTTAAATTTAAAATAAATCTAAATTTAAATCAAATTTAATTTTAAAATAAATTT
1 TTTAAATTTAAAATAAATCTAAACTTAAATCAAATTCAAATTTAAAATAAATTT
32520566 AAAAGGACCC
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
58 7 0.15
59 40 0.85
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (58 bp):
TTTAAATTTAAAATAAATCTAAACTTAAATCAAATTCAAATTTAAAATAAATTTTAAA
Found at i:32526836 original size:15 final size:17
Alignment explanation
Indices: 32526811--32526854 Score: 58
Period size: 15 Copynumber: 2.8 Consensus size: 17
32526801 TCTCAAAATT
32526811 ATAA-AAAATTATAAAA
1 ATAATAAAATTATAAAA
*
32526827 AT-AT-AAATTATTAAA
1 ATAATAAAATTATAAAA
32526842 ATAATAAAATTAT
1 ATAATAAAATTAT
32526855 TTCATTATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
15 13 0.54
16 4 0.17
17 7 0.29
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
ATAATAAAATTATAAAA
Found at i:32528046 original size:15 final size:15
Alignment explanation
Indices: 32528028--32528079 Score: 65
Period size: 15 Copynumber: 3.6 Consensus size: 15
32528018 TAATGAGAAG
32528028 AAGATATTGGAATCA
1 AAGATATTGGAATCA
*
32528043 AAGATA-TGAGAA--G
1 AAGATATTG-GAATCA
32528056 AAGATATTGGAATCA
1 AAGATATTGGAATCA
32528071 AAGATATTG
1 AAGATATTG
32528080 AATATTTAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
13 9 0.29
14 4 0.13
15 18 0.58
ACGTcount: A:0.48, C:0.04, G:0.23, T:0.25
Consensus pattern (15 bp):
AAGATATTGGAATCA
Found at i:32528060 original size:28 final size:28
Alignment explanation
Indices: 32528020--32528077 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
32528010 AAGAAACTTA
32528020 ATGAGAAGAAGATATTGGAATCAAAGAT
1 ATGAGAAGAAGATATTGGAATCAAAGAT
32528048 ATGAGAAGAAGATATTGGAATCAAAGAT
1 ATGAGAAGAAGATATTGGAATCAAAGAT
32528076 AT
1 AT
32528078 TGAATATTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.24, T:0.22
Consensus pattern (28 bp):
ATGAGAAGAAGATATTGGAATCAAAGAT
Found at i:32528571 original size:3 final size:3
Alignment explanation
Indices: 32528565--32528623 Score: 100
Period size: 3 Copynumber: 19.7 Consensus size: 3
32528555 TTGTTGGTGT
* *
32528565 TAA TAA TAA TAA CAA CAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
32528613 TAA TAA TAA TA
1 TAA TAA TAA TA
32528624 TGAAATTGTT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:32530678 original size:20 final size:19
Alignment explanation
Indices: 32530655--32530707 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 19
32530645 CATTTGTGTT
32530655 CCTGTTTGCACTACGGTACC
1 CCTGTTTGCACTA-GGTACC
* * *
32530675 CCTGATTGCACATATGTGCC
1 CCTGTTTGCAC-TAGGTACC
32530695 CCTGTTATGCACT
1 CCTGTT-TGCACT
32530708 CTGGTGCTCC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
20 20 0.74
21 7 0.26
ACGTcount: A:0.17, C:0.32, G:0.19, T:0.32
Consensus pattern (19 bp):
CCTGTTTGCACTAGGTACC
Found at i:32534162 original size:14 final size:15
Alignment explanation
Indices: 32534133--32534171 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
32534123 TCTTTTTGTT
32534133 TTATATGTTATATTTA
1 TTATAT-TTATATTTA
*
32534149 TT-TATTTATTTTTA
1 TTATATTTATATTTA
32534163 TTATATTTA
1 TTATATTTA
32534172 AATAGTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 10 0.48
15 9 0.43
16 2 0.10
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (15 bp):
TTATATTTATATTTA
Found at i:32534927 original size:12 final size:12
Alignment explanation
Indices: 32534912--32534944 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
32534902 TTTAAATTAT
32534912 TTTAATTTTTAA
1 TTTAATTTTTAA
32534924 TTT-ATTTATTAA
1 TTTAATTT-TTAA
32534936 TTTAATTTT
1 TTTAATTTT
32534945 ACTTTATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 4 0.21
12 11 0.58
13 4 0.21
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TTTAATTTTTAA
Found at i:32534939 original size:17 final size:15
Alignment explanation
Indices: 32534895--32534943 Score: 53
Period size: 17 Copynumber: 3.0 Consensus size: 15
32534885 TTATATCTCA
*
32534895 ATTTTAATTTAAATT
1 ATTTTAATTTAATTT
32534910 ATTTTAATTTTTAATTT
1 ATTTTAA--TTTAATTT
32534927 ATTTATTAATTTAATTT
1 A-TT-TTAATTTAATTT
32534944 TACTTTATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
15 7 0.24
17 16 0.55
18 2 0.07
19 4 0.14
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
ATTTTAATTTAATTT
Found at i:32536097 original size:20 final size:20
Alignment explanation
Indices: 32536068--32536107 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
32536058 GACCTTGTAT
*
32536068 CCACCTCATCCCTACTTGCC
1 CCACCCCATCCCTACTTGCC
*
32536088 CCACCCCATCCCTGCTTGCC
1 CCACCCCATCCCTACTTGCC
32536108 TCGCCGCCCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.12, C:0.57, G:0.07, T:0.23
Consensus pattern (20 bp):
CCACCCCATCCCTACTTGCC
Found at i:32542054 original size:14 final size:14
Alignment explanation
Indices: 32542035--32542063 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
32542025 TTTAAACTCT
32542035 AAAGATAAATACAA
1 AAAGATAAATACAA
32542049 AAAGATAAATACAA
1 AAAGATAAATACAA
32542063 A
1 A
32542064 TTAAATATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.72, C:0.07, G:0.07, T:0.14
Consensus pattern (14 bp):
AAAGATAAATACAA
Found at i:32549261 original size:55 final size:55
Alignment explanation
Indices: 32549191--32549301 Score: 222
Period size: 55 Copynumber: 2.0 Consensus size: 55
32549181 GCCGGCTGGT
32549191 TACCCAGTTTGTCGCCTAATACTATTTCATTAATCCAATAATGGTTGTTCTATTC
1 TACCCAGTTTGTCGCCTAATACTATTTCATTAATCCAATAATGGTTGTTCTATTC
32549246 TACCCAGTTTGTCGCCTAATACTATTTCATTAATCCAATAATGGTTGTTCTATTC
1 TACCCAGTTTGTCGCCTAATACTATTTCATTAATCCAATAATGGTTGTTCTATTC
32549301 T
1 T
32549302 TCCTGGTCGA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.25, C:0.22, G:0.11, T:0.42
Consensus pattern (55 bp):
TACCCAGTTTGTCGCCTAATACTATTTCATTAATCCAATAATGGTTGTTCTATTC
Found at i:32549900 original size:6 final size:6
Alignment explanation
Indices: 32549891--32549915 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
32549881 CACAAACCCC
32549891 TTTGCA TTTGCA TTTGCA TTTGCA T
1 TTTGCA TTTGCA TTTGCA TTTGCA T
32549916 CTGCTCCCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.52
Consensus pattern (6 bp):
TTTGCA
Found at i:32551960 original size:6 final size:6
Alignment explanation
Indices: 32551951--32551993 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
32551941 CAGCAGCAGA
* * *
32551951 AACAAC AACAAC AACACC AACACC AACACC AACCACC ACCACC
1 AACACC AACACC AACACC AACACC AACACC AA-CACC AACACC
32551994 TTGTGGGTAC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
6 29 0.85
7 5 0.15
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (6 bp):
AACACC
Found at i:32552196 original size:24 final size:24
Alignment explanation
Indices: 32552144--32552198 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
32552134 GAGCGGTGAG
* *
32552144 GGAACAGGAAGGGATACCAGAGCTA
1 GGAAGAGGAAGGGATACCAAAGC-A
32552169 -GAAGAGGAAGGAGATACCAAAG-A
1 GGAAGAGGAAGG-GATACCAAAGCA
32552192 GGAAGAG
1 GGAAGAG
32552199 AAAAAAGTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 1 0.04
24 16 0.62
25 9 0.35
ACGTcount: A:0.45, C:0.11, G:0.38, T:0.05
Consensus pattern (24 bp):
GGAAGAGGAAGGGATACCAAAGCA
Found at i:32558614 original size:24 final size:26
Alignment explanation
Indices: 32558567--32558621 Score: 78
Period size: 24 Copynumber: 2.2 Consensus size: 26
32558557 TTTTAAATTT
32558567 ATTTAAAAATATTTATATTATTTTTA
1 ATTTAAAAATATTTATATTATTTTTA
* *
32558593 ATTTAAGAAT-TTTATATT-TTTTTC
1 ATTTAAAAATATTTATATTATTTTTA
32558617 ATTTA
1 ATTTA
32558622 TTAATTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 10 0.37
25 8 0.30
26 9 0.33
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (26 bp):
ATTTAAAAATATTTATATTATTTTTA
Found at i:32559434 original size:97 final size:98
Alignment explanation
Indices: 32559260--32559454 Score: 293
Period size: 97 Copynumber: 2.0 Consensus size: 98
32559250 AACTTTGAAA
* * * **
32559260 AAGGGTATTTGATTATCTCGGTTTGAAGAAAAAGTCACACCTAGTAAGTTCAGGCGTAAATTTTC
1 AAGGGTATTCGATTATCCCGGTTTGAAGAAAAAGTCACACCTAGTAAGTTAAGGCACAAATTTTC
*
32559325 AAAACCCGAAATAAAGGAATATTGCCTCGATTT
66 AAAACCCGAAATAAAGGAATATTGCCCCGATTT
** * *
32559358 AAGGGTATTCGATTATCCCGGTTTGAAGAAAAA-TTGCGCCTAGTAAGTTAAGGCACGAATTTTC
1 AAGGGTATTCGATTATCCCGGTTTGAAGAAAAAGTCACACCTAGTAAGTTAAGGCACAAATTTTC
32559422 AAAACCCGAAATAAAGGAATATTGCCCCGATTT
66 AAAACCCGAAATAAAGGAATATTGCCCCGATTT
32559455 TAAATATTCT
Statistics
Matches: 87, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
97 56 0.64
98 31 0.36
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.28
Consensus pattern (98 bp):
AAGGGTATTCGATTATCCCGGTTTGAAGAAAAAGTCACACCTAGTAAGTTAAGGCACAAATTTTC
AAAACCCGAAATAAAGGAATATTGCCCCGATTT
Found at i:32559597 original size:14 final size:14
Alignment explanation
Indices: 32559578--32559618 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
32559568 AAGAATAAAC
32559578 AAATATACGAAAAT
1 AAATATACGAAAAT
32559592 AAATATGA-GAAAAAT
1 AAATAT-ACG-AAAAT
32559607 AAA-ATACGAAAA
1 AAATATACGAAAA
32559619 AATAAATGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
13 5 0.21
14 10 0.42
15 9 0.38
ACGTcount: A:0.68, C:0.05, G:0.10, T:0.17
Consensus pattern (14 bp):
AAATATACGAAAAT
Found at i:32559619 original size:14 final size:15
Alignment explanation
Indices: 32559578--32559625 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
32559568 AAGAATAAAC
32559578 AAATATACG-AAAAT
1 AAATATACGAAAAAT
32559592 AAATATGA-GAAAAAT
1 AAATAT-ACGAAAAAT
32559607 AAA-ATACGAAAAAAT
1 AAATATACG-AAAAAT
32559622 AAAT
1 AAAT
32559626 GAGAAAATAC
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
13 1 0.03
14 10 0.34
15 18 0.62
ACGTcount: A:0.69, C:0.04, G:0.08, T:0.19
Consensus pattern (15 bp):
AAATATACGAAAAAT
Found at i:32559732 original size:28 final size:30
Alignment explanation
Indices: 32559695--32559773 Score: 78
Period size: 30 Copynumber: 2.7 Consensus size: 30
32559685 GGAAAAAACA
32559695 GGGTCAAAAATG-AAGTTTT-GAAGAG-TTT-G
1 GGGT-AAAAATGCAA-TTTTGGAA-AGTTTTAG
*
32559724 GGGTTAAAATGCAATTTTGGAAAGTTTTAG
1 GGGTAAAAATGCAATTTTGGAAAGTTTTAG
32559754 GGGTAAAAATGTC-ATTTTGG
1 GGGTAAAAATG-CAATTTTGG
32559774 GAAAATTCGG
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
28 12 0.28
29 12 0.28
30 18 0.42
31 1 0.02
ACGTcount: A:0.33, C:0.04, G:0.29, T:0.34
Consensus pattern (30 bp):
GGGTAAAAATGCAATTTTGGAAAGTTTTAG
Found at i:32559763 original size:30 final size:29
Alignment explanation
Indices: 32559695--32559791 Score: 78
Period size: 29 Copynumber: 3.3 Consensus size: 29
32559685 GGAAAAAACA
32559695 GGGTCAAAAATG-AAGTTTT-GAAGAGTTTG
1 GGGT-AAAAATGCAA-TTTTGGAAGAGTTTG
*
32559724 GGGTTAAAATGCAATTTTGGAA-AGTTTTAG
1 GGGTAAAAATGCAATTTTGGAAGAG-TTT-G
* *
32559754 GGGTAAAAATGTC-ATTTTGGGAA-AATTCG
1 GGGTAAAAATG-CAATTTT-GGAAGAGTTTG
32559783 GGGTAAAAA
1 GGGTAAAAA
32559792 CGTGATTTTT
Statistics
Matches: 58, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
28 12 0.21
29 22 0.38
30 18 0.31
31 6 0.10
ACGTcount: A:0.36, C:0.04, G:0.29, T:0.31
Consensus pattern (29 bp):
GGGTAAAAATGCAATTTTGGAAGAGTTTG
Found at i:32559826 original size:29 final size:29
Alignment explanation
Indices: 32559754--32559859 Score: 115
Period size: 29 Copynumber: 3.6 Consensus size: 29
32559744 AAAGTTTTAG
* * * *
32559754 GGGTAAAAATGTCATTTTGGGAAAATTCG-
1 GGGTAAAAATATGATTTTTGG-AAGTTCGA
**
32559783 GGGTAAAAACGTGATTTTTGGAAGTTCGA
1 GGGTAAAAATATGATTTTTGGAAGTTCGA
*
32559812 GGGTAAAAATATGATTTTTGAGAAGTTCAA
1 GGGTAAAAATATGATTTTTG-GAAGTTCGA
*
32559842 GGGTAAAAATATAATTTT
1 GGGTAAAAATATGATTTT
32559860 AGAAAAATGT
Statistics
Matches: 67, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
28 6 0.09
29 36 0.54
30 25 0.37
ACGTcount: A:0.37, C:0.05, G:0.25, T:0.33
Consensus pattern (29 bp):
GGGTAAAAATATGATTTTTGGAAGTTCGA
Found at i:32559852 original size:30 final size:29
Alignment explanation
Indices: 32559783--32559859 Score: 109
Period size: 30 Copynumber: 2.6 Consensus size: 29
32559773 GGAAAATTCG
** *
32559783 GGGTAAAAACGTGATTTTTGGAAGTTCGA
1 GGGTAAAAATATGATTTTTGGAAGTTCAA
32559812 GGGTAAAAATATGATTTTTGAGAAGTTCAA
1 GGGTAAAAATATGATTTTTG-GAAGTTCAA
*
32559842 GGGTAAAAATATAATTTT
1 GGGTAAAAATATGATTTT
32559860 AGAAAAATGT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
29 18 0.42
30 25 0.58
ACGTcount: A:0.38, C:0.04, G:0.25, T:0.34
Consensus pattern (29 bp):
GGGTAAAAATATGATTTTTGGAAGTTCAA
Found at i:32561758 original size:6 final size:6
Alignment explanation
Indices: 32561749--32561828 Score: 94
Period size: 6 Copynumber: 13.7 Consensus size: 6
32561739 TAATTTAGAA
* *
32561749 TAAATT TAAACT TAAA-T TAAATT TAAATT TAAAATT TAAACT TAAA-T
1 TAAATT TAAATT TAAATT TAAATT TAAATT T-AAATT TAAATT TAAATT
* *
32561796 TAAATT TAAATT TAAA-A TAAATT TAAACT TAAA
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAA
32561829 ATAAATCTAA
Statistics
Matches: 65, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
5 14 0.22
6 45 0.69
7 6 0.09
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (6 bp):
TAAATT
Found at i:32561769 original size:17 final size:17
Alignment explanation
Indices: 32561749--32561839 Score: 109
Period size: 17 Copynumber: 5.6 Consensus size: 17
32561739 TAATTTAGAA
32561749 TAAATTTAAACTTAAAT
1 TAAATTTAAACTTAAAT
32561766 TAAATTTAAA-TT---T
1 TAAATTTAAACTTAAAT
*
32561779 AAAATTTAAACTTAAAT
1 TAAATTTAAACTTAAAT
* *
32561796 TAAATTTAAATTTAAAA
1 TAAATTTAAACTTAAAT
*
32561813 TAAATTTAAACTTAAAA
1 TAAATTTAAACTTAAAT
*
32561830 TAAATCTAAA
1 TAAATTTAAA
32561840 AATGGGTTTA
Statistics
Matches: 64, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
13 10 0.16
14 2 0.03
16 2 0.03
17 50 0.78
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (17 bp):
TAAATTTAAACTTAAAT
Found at i:32561786 original size:30 final size:30
Alignment explanation
Indices: 32561750--32561813 Score: 128
Period size: 30 Copynumber: 2.1 Consensus size: 30
32561740 AATTTAGAAT
32561750 AAATTTAAACTTAAATTAAATTTAAATTTA
1 AAATTTAAACTTAAATTAAATTTAAATTTA
32561780 AAATTTAAACTTAAATTAAATTTAAATTTA
1 AAATTTAAACTTAAATTAAATTTAAATTTA
32561810 AAAT
1 AAAT
32561814 AAATTTAAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (30 bp):
AAATTTAAACTTAAATTAAATTTAAATTTA
Found at i:32562385 original size:39 final size:39
Alignment explanation
Indices: 32562334--32562869 Score: 445
Period size: 39 Copynumber: 13.7 Consensus size: 39
32562324 GTTGATGATG
* * *
32562334 ATCTGCCCCCAAGCTCGGGGTAATAGATCGAGTGGCTGCA
1 ATCTG-CCCCAAGCTCGGGGTAAGAGATCGAATGGCTGTA
* * ** *
32562374 ATCTACCCCAAGCTCGGGGTAAGAGATTGGCTGG-TGATG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGGCTG-TA
* * * * *
32562413 ATCTGCCCTAAACTCGAGGTAAGAGATCGAACGGTTGTA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGGCTGTA
* * * * *
32562452 ATCTTCCCCAGGCTCGGGGTAATAGATCGACTGG-TGATG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGGCTG-TA
* * *
32562491 ATCTGCCCCACGCTCGGGGTAAGAGATCGAACGGCTGCA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGGCTGTA
* * *
32562530 ATCTGCCCCCAGGCTCGGGGTAATAGATCGACTGG-TGATA
1 ATCTG-CCCCAAGCTCGGGGTAAGAGATCGAATGGCTG-TA
* * * * * *
32562570 ATCTGCCCCATGATCAGGGTAAGAGATCGAATAGTTGCA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGGCTGTA
* * * ** *
32562609 ATCTGCCCTAAGCTCAGGGTAAGAGATTGGCTGG-TAGTG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGGCT-GTA
* * * *
32562648 ATTTACCCCAAGCTCGGGGTAAGAAATCGAATGGCTGCA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGGCTGTA
* * * * * * *
32562687 ATCTGCCCTAGGCTCGGGGTAAGAGATTG-GTTGATGGTG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGGCT-GTA
* *
32562726 ATTTACCCCAAGCTCGGGGTAAGAGATCGAATGGCTGTA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGGCTGTA
* ** * * *
32562765 ATCTGCCCCAGGCTCGGGGTAAGAGATTTACT-GATGATG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGGCTG-TA
*
32562804 ATCTGCCCTAAGCTCGGGGTAAGAGATCGAATGGCTGTA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGGCTGTA
*
32562843 ATCTGCCCCAAGCTCGAGGTAAGAGAT
1 ATCTGCCCCAAGCTCGGGGTAAGAGAT
32562870 TTGTTGATGA
Statistics
Matches: 383, Mismatches: 100, Indels: 27
0.75 0.20 0.05
Matches are distributed among these distances:
38 11 0.03
39 324 0.85
40 48 0.13
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.23
Consensus pattern (39 bp):
ATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGGCTGTA
Found at i:32562461 original size:78 final size:78
Alignment explanation
Indices: 32562297--32562925 Score: 697
Period size: 78 Copynumber: 8.1 Consensus size: 78
32562287 AATGTCTATC
* * * *
32562297 ATCTGCCCCATGATCGGGGT--GAGATTGGTTGATGATGATCTGCCCCCAAGCTCGGGGTAATAG
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGATGATCTG-CCCCAAGCTCGGGGTAAGAG
*
32562360 ATCGAGTGGCTGCA
65 ATCGAATGGCTGCA
* * * * * *
32562374 ATCTACCCCAAGCTCGGGGTAAGAGATTGGCTGGTGATGATCTGCCCTAAACTCGAGGTAAGAGA
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGATGATCTGCCCCAAGCTCGGGGTAAGAGA
* * *
32562439 TCGAACGGTTGTA
66 TCGAATGGCTGCA
* * * * * *
32562452 ATCTTCCCCAGGCTCGGGGTAATAGATCGACTGGTGATGATCTGCCCCACGCTCGGGGTAAGAGA
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGATGATCTGCCCCAAGCTCGGGGTAAGAGA
*
32562517 TCGAACGGCTGCA
66 TCGAATGGCTGCA
* * * * * * * *
32562530 ATCTGCCCCCAGGCTCGGGGTAATAGATCGACTGGTGATAATCTGCCCCATGATCAGGGTAAGAG
1 ATCTG-CCCCAGGCTCGGGGTAAGAGATTGGCTGATGATGATCTGCCCCAAGCTCGGGGTAAGAG
* *
32562595 ATCGAATAGTTGCA
65 ATCGAATGGCTGCA
* * * * * * *
32562609 ATCTGCCCTAAGCTCAGGGTAAGAGATTGGCTGGT-AGTGATTTACCCCAAGCTCGGGGTAAGAA
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGA-TGATCTGCCCCAAGCTCGGGGTAAGAG
32562673 ATCGAATGGCTGCA
65 ATCGAATGGCTGCA
* * * * *
32562687 ATCTGCCCTAGGCTCGGGGTAAGAGATTGGTTGATGGTGATTTACCCCAAGCTCGGGGTAAGAGA
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGATGATCTGCCCCAAGCTCGGGGTAAGAGA
*
32562752 TCGAATGGCTGTA
66 TCGAATGGCTGCA
** *
32562765 ATCTGCCCCAGGCTCGGGGTAAGAGATTTACTGATGATGATCTGCCCTAAGCTCGGGGTAAGAGA
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGATGATCTGCCCCAAGCTCGGGGTAAGAGA
*
32562830 TCGAATGGCTGTA
66 TCGAATGGCTGCA
* * * * * *
32562843 ATCTGCCCCAAGCTCGAGGTAAGAGATTTGTTGATGATGATCTGCCCCAAGCTAGAGGTAAGAGA
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGATGATCTGCCCCAAGCTCGGGGTAAGAGA
* * *
32562908 ACGCATGGCTTCA
66 TCGAATGGCTGCA
32562921 ATCTG
1 ATCTG
32562926 TCCTTCTTAA
Statistics
Matches: 474, Mismatches: 73, Indels: 9
0.85 0.13 0.02
Matches are distributed among these distances:
77 18 0.04
78 365 0.77
79 91 0.19
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.24
Consensus pattern (78 bp):
ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGATGATCTGCCCCAAGCTCGGGGTAAGAGA
TCGAATGGCTGCA
Found at i:32562668 original size:196 final size:195
Alignment explanation
Indices: 32562334--32562866 Score: 469
Period size: 196 Copynumber: 2.7 Consensus size: 195
32562324 GTTGATGATG
* * *
32562334 ATCTGCCCCCAAGCTCGGGGTAATAGATCGAGTGGCTGCAATCTACCCCAAGCTCGGGGTAAGAG
1 ATCTGCCCCCAAGCTCGGGGTAATAGATCGACTGGCTGCAATCTACCCCAAGATCAGGGTAAGAG
* ** * *
32562399 ATTGGCTGGTGATGATCTGCCCTAAACTCGAGGTAAGAGATCGAACGGTTGTAATCTTCCCCAGG
66 ATCGAATGGTGA-GATCTGCCCTAAACTCGAGGTAAGAGATCGAACGGTAGTAATCTTCCCCAAG
* * *
32562464 CTCGGGGTAATAGATCGACTGG-TG-ATGATCTGCCCCACGCTCGGGGTAAGAGATCGAACGGCT
130 CTCGGGGTAAGAAATCGAATGGCTGCA--ATCTGCCCCACGCTCGGGGTAAGAGATCGAACGGCT
32562527 GCA
193 GCA
* * * *
32562530 ATCTGCCCCCAGGCTCGGGGTAATAGATCGACTGG-TGATAATCTGCCCCATGATCAGGGTAAGA
1 ATCTGCCCCCAAGCTCGGGGTAATAGATCGACTGGCTG-CAATCTACCCCAAGATCAGGGTAAGA
* * * * *
32562594 GATCGAATAGTTGCA-ATCTGCCCTAAGCTC-AGGGTAAGAGATTG-GCTGGTAGTGAT-TTACC
65 GATCGAAT-GGTG-AGATCTGCCCTAAACTCGA-GGTAAGAGATCGAAC-GGTAGTAATCTT-CC
* * * *
32562655 CCAAGCTCGGGGTAAGAAATCGAATGGCTGCAATCTGCCCTAGGCTCGGGGTAAGAGATTGGTTG
125 CCAAGCTCGGGGTAAGAAATCGAATGGCTGCAATCTGCCCCACGCTCGGGGTAAGAGA-TCG--A
*
32562720 ATGG-TG--
187 ACGGCTGCA
** * * * * * * *
32562726 AT-TTACCCCAAGCTCGGGGTAAGAGATCGAATGGCTGTAATCTGCCCCAGGCTCGGGGTAAGAG
1 ATCTGCCCCCAAGCTCGGGGTAATAGATCGACTGGCTGCAATCTACCCCAAGATCAGGGTAAGAG
** * * * * * *
32562790 ATTTACTGATGATGATCTGCCCTAAGCTCGGGGTAAGAGATCGAATGGCT-GTAATCTGCCCCAA
66 ATCGAATGGTGA-GATCTGCCCTAAACTCGAGGTAAGAGATCGAACGG-TAGTAATCTTCCCCAA
*
32562854 GCTCGAGGTAAGA
129 GCTCGGGGTAAGA
32562867 GATTTGTTGA
Statistics
Matches: 275, Mismatches: 44, Indels: 37
0.77 0.12 0.10
Matches are distributed among these distances:
193 1 0.00
194 3 0.01
195 111 0.40
196 146 0.53
197 7 0.03
198 4 0.01
199 3 0.01
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.23
Consensus pattern (195 bp):
ATCTGCCCCCAAGCTCGGGGTAATAGATCGACTGGCTGCAATCTACCCCAAGATCAGGGTAAGAG
ATCGAATGGTGAGATCTGCCCTAAACTCGAGGTAAGAGATCGAACGGTAGTAATCTTCCCCAAGC
TCGGGGTAAGAAATCGAATGGCTGCAATCTGCCCCACGCTCGGGGTAAGAGATCGAACGGCTGCA
Found at i:32562886 original size:39 final size:38
Alignment explanation
Indices: 32562297--32562907 Score: 245
Period size: 39 Copynumber: 15.7 Consensus size: 38
32562287 AATGTCTATC
* * *
32562297 ATCTGCCCCATGATCGGGGT--GAGATTGGTTGATGATG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTCGTTGATG-TG
* * * **
32562334 ATCTGCCCCCAAGCTCGGGGTAATAGA-TCGAGTGGCTGCA
1 ATCTG-CCCCAAGCTCGGGGTAAGAGATTC--GTTGATGTG
* * * *
32562374 ATCTACCCCAAGCTCGGGGTAAGAGATTGGCTGGTGATG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTCGTTGATG-TG
* * * ** * *
32562413 ATCTGCCCTAAACTCGAGGTAAGAGA-TCGAACGGTTGTA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTCG--TTGATGTG
* * * * *
32562452 ATCTTCCCCAGGCTCGGGGTAATAGA-TCGACTGGTGATG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTCG-TTGATG-TG
* ** * **
32562491 ATCTGCCCCACGCTCGGGGTAAGAGA-TCGAACGGCTGCA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTCG--TTGATGTG
* * * * *
32562530 ATCTGCCCCCAGGCTCGGGGTAATAGA-TCGACTGGTGATA
1 ATCTG-CCCCAAGCTCGGGGTAAGAGATTCG-TTGATG-TG
* * * * * **
32562570 ATCTGCCCCATGATCAGGGTAAGAGA-TCGAATAGTTGCA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTCG--TTGATGTG
* * * * *
32562609 ATCTGCCCTAAGCTCAGGGTAAGAGATTGGCTGGTAGTG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTCGTTGAT-GTG
* * * * * **
32562648 ATTTACCCCAAGCTCGGGGTAAGA-AATCGAATGGCTGCA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTCG--TTGATGTG
* * *
32562687 ATCTGCCCTAGGCTCGGGGTAAGAGATTGGTTGATGGTG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTCGTTGAT-GTG
* * * * *
32562726 ATTTACCCCAAGCTCGGGGTAAGAGA-TCGAATGGCTGTA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTCG--TTGATGTG
* ***
32562765 ATCTGCCCCAGGCTCGGGGTAAGAGATTTACTGATGATG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTCGTTGATG-TG
* * * *
32562804 ATCTGCCCTAAGCTCGGGGTAAGAGA-TCGAATGGCTGTA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTCG--TTGATGTG
* *
32562843 ATCTGCCCCAAGCTCGAGGTAAGAGATTTGTTGATGATG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTCGTTGATG-TG
* *
32562882 ATCTGCCCCAAGCTAGAGGTAAGAGA
1 ATCTGCCCCAAGCTCGGGGTAAGAGA
32562908 ACGCATGGCT
Statistics
Matches: 431, Mismatches: 115, Indels: 54
0.72 0.19 0.09
Matches are distributed among these distances:
37 5 0.01
38 42 0.10
39 314 0.73
40 65 0.15
41 5 0.01
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.23
Consensus pattern (38 bp):
ATCTGCCCCAAGCTCGGGGTAAGAGATTCGTTGATGTG
Found at i:32562992 original size:14 final size:14
Alignment explanation
Indices: 32562973--32563013 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
32562963 TTGAATGAAC
32562973 AAATATACGAAAAT
1 AAATATACGAAAAT
32562987 AAATATGA-GAAAAAT
1 AAATAT-ACG-AAAAT
32563002 AAA-ATACGAAAA
1 AAATATACGAAAA
32563014 AATAAATGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
13 5 0.21
14 10 0.42
15 9 0.38
ACGTcount: A:0.68, C:0.05, G:0.10, T:0.17
Consensus pattern (14 bp):
AAATATACGAAAAT
Found at i:32563014 original size:14 final size:15
Alignment explanation
Indices: 32562973--32563020 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
32562963 TTGAATGAAC
32562973 AAATATACG-AAAAT
1 AAATATACGAAAAAT
32562987 AAATATGA-GAAAAAT
1 AAATAT-ACGAAAAAT
32563002 AAA-ATACGAAAAAAT
1 AAATATACG-AAAAAT
32563017 AAAT
1 AAAT
32563021 GAGAAAATAC
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
13 1 0.03
14 10 0.34
15 18 0.62
ACGTcount: A:0.69, C:0.04, G:0.08, T:0.19
Consensus pattern (15 bp):
AAATATACGAAAAAT
Found at i:32563226 original size:29 final size:29
Alignment explanation
Indices: 32563192--32563346 Score: 172
Period size: 29 Copynumber: 5.3 Consensus size: 29
32563182 GTAAAACGTG
*
32563192 ATTTTTGGAAGTTTG-GGAGCAAAAATGTG
1 ATTTTTGGAAGTTTGAGG-GCAAAAATGTA
*
32563221 ACTTTTGGAAGTTTGAGGGCAAAAATGTA
1 ATTTTTGGAAGTTTGAGGGCAAAAATGTA
*
32563250 ATTTTTGGAA-TTTCGAGGGTAAAAATGTA
1 ATTTTTGGAAGTTT-GAGGGCAAAAATGTA
* *
32563279 ATTTTTGAAAGTTCGAGGGCAAAAATGTA
1 ATTTTTGGAAGTTTGAGGGCAAAAATGTA
* ** * *
32563308 ATTTTTAAGAAGTTCAAGGGTAAAAATATA
1 ATTTTT-GGAAGTTTGAGGGCAAAAATGTA
32563338 A-TTTTGGAA
1 ATTTTTGGAA
32563347 AAATGTAGGG
Statistics
Matches: 109, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
28 6 0.06
29 80 0.73
30 23 0.21
ACGTcount: A:0.37, C:0.05, G:0.25, T:0.34
Consensus pattern (29 bp):
ATTTTTGGAAGTTTGAGGGCAAAAATGTA
Found at i:32565238 original size:17 final size:16
Alignment explanation
Indices: 32565213--32565270 Score: 71
Period size: 17 Copynumber: 3.4 Consensus size: 16
32565203 AATTTTGGAC
*
32565213 ATTTTAATTTAGAATAA
1 ATTTAAATTTA-AATAA
32565230 ATTTAAATTTAAATTAA
1 ATTTAAATTTAAA-TAA
32565247 ATTTAAATTTAAAATAA
1 ATTTAAATTT-AAATAA
*
32565264 ATCTAAA
1 ATTTAAA
32565271 AATGGATTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
16 2 0.05
17 32 0.86
18 3 0.08
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (16 bp):
ATTTAAATTTAAATAA
Found at i:32565270 original size:6 final size:6
Alignment explanation
Indices: 32565227--32565259 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
32565217 TAATTTAGAA
32565227 TAAATT TAAATT TAAA-T TAAATT TAAATT TAAA
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAA
32565260 ATAAATCTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (6 bp):
TAAATT
Found at i:32573922 original size:27 final size:27
Alignment explanation
Indices: 32573862--32573921 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
32573852 TTGAGAAATG
*
32573862 AGAAACATGTGAAGTGAACTGAAAAAA
1 AGAAAAATGTGAAGTGAACTGAAAAAA
* **
32573889 AGAAAAATGTGAAGTGGAC-GAGTAAA
1 AGAAAAATGTGAAGTGAACTGAAAAAA
32573915 AGAAAAA
1 AGAAAAA
32573922 AAAGGTTGTG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 12 0.41
27 17 0.59
ACGTcount: A:0.57, C:0.05, G:0.25, T:0.13
Consensus pattern (27 bp):
AGAAAAATGTGAAGTGAACTGAAAAAA
Found at i:32574094 original size:6 final size:6
Alignment explanation
Indices: 32574083--32574113 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
32574073 TTCTCTCCTT
32574083 CCTCTC CCTCTC CCTCTC CCTCTC CCTCTC C
1 CCTCTC CCTCTC CCTCTC CCTCTC CCTCTC C
32574114 TCCAGTCCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.68, G:0.00, T:0.32
Consensus pattern (6 bp):
CCTCTC
Found at i:32575048 original size:61 final size:61
Alignment explanation
Indices: 32574893--32575073 Score: 236
Period size: 61 Copynumber: 3.0 Consensus size: 61
32574883 TTGTATTTTT
* * * * * * * *
32574893 TTAATTAGCTTCAGCTGCTCTTTGAAACTCTGATTACTGTTTTGGTTTGTGTTTCTTTTTTA
1 TTAATTAGATTCAGCTGCTATTTGAAACCCTGAATACTGATTTGATTTGTATTTC-TTTTGA
*
32574955 TTAATTAGATTCAGCTGCTATTTGAAATCCTGAATACTGATTTGATTTGTATTTCTTTTGA
1 TTAATTAGATTCAGCTGCTATTTGAAACCCTGAATACTGATTTGATTTGTATTTCTTTTGA
** * *
32575016 TTAATTAGATTCAGCTGCTATTCAAAACCCTGAATATTGAGTTGATTTGTATTTCTTT
1 TTAATTAGATTCAGCTGCTATTTGAAACCCTGAATACTGATTTGATTTGTATTTCTTT
32575074 CTAAATGCTG
Statistics
Matches: 105, Mismatches: 14, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
61 58 0.55
62 47 0.45
ACGTcount: A:0.23, C:0.13, G:0.15, T:0.49
Consensus pattern (61 bp):
TTAATTAGATTCAGCTGCTATTTGAAACCCTGAATACTGATTTGATTTGTATTTCTTTTGA
Found at i:32582433 original size:19 final size:17
Alignment explanation
Indices: 32582391--32582438 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
32582381 TATGGAGATA
*
32582391 TAAATATTTAAATTACT
1 TAAATATATAAATTACT
*
32582408 TAGATATATATAATTACAT
1 TAAATATATA-AATTAC-T
32582427 TAAATATA-AAAT
1 TAAATATATAAAT
32582439 AAATTCATAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 11 0.42
18 7 0.27
19 8 0.31
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (17 bp):
TAAATATATAAATTACT
Found at i:32582732 original size:23 final size:23
Alignment explanation
Indices: 32582706--32582755 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
32582696 AAACAAAATC
32582706 ATTGAGCTATGAATTATGTTGAT
1 ATTGAGCTATGAATTATGTTGAT
32582729 ATTGAGCTATGAATTATGTTGAT
1 ATTGAGCTATGAATTATGTTGAT
32582752 ATTG
1 ATTG
32582756 TGGATATATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.30, C:0.04, G:0.22, T:0.44
Consensus pattern (23 bp):
ATTGAGCTATGAATTATGTTGAT
Found at i:32585693 original size:16 final size:17
Alignment explanation
Indices: 32585659--32585697 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
32585649 CGCATAATAT
*
32585659 AATAAACATATTTTAAA
1 AATAAACATATTATAAA
32585676 AATAAACAT-TTATAAA
1 AATAAACATATTATAAA
32585692 AATAAA
1 AATAAA
32585698 TTAACAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (17 bp):
AATAAACATATTATAAA
Found at i:32601820 original size:24 final size:24
Alignment explanation
Indices: 32601789--32601845 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
32601779 TATAAAGAGA
32601789 TGAAAGGTTAAAGAAAATGAAAGG
1 TGAAAGGTTAAAGAAAATGAAAGG
* * * * *
32601813 TGGAAGGTCAAGGGAGATGAAAGG
1 TGAAAGGTTAAAGAAAATGAAAGG
32601837 TGAAAGGTT
1 TGAAAGGTT
32601846 GAACATCTAC
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.44, C:0.02, G:0.37, T:0.18
Consensus pattern (24 bp):
TGAAAGGTTAAAGAAAATGAAAGG
Found at i:32606825 original size:2 final size:2
Alignment explanation
Indices: 32606820--32606849 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
32606810 ACCTAGCTCA
32606820 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32606850 TCTAATAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32607541 original size:4 final size:4
Alignment explanation
Indices: 32607532--32607557 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
32607522 AACTACTACC
32607532 TTCT TTCT TTCT TTCT TTCT TTCT TT
1 TTCT TTCT TTCT TTCT TTCT TTCT TT
32607558 TATATATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (4 bp):
TTCT
Found at i:32609809 original size:19 final size:18
Alignment explanation
Indices: 32609754--32609811 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 18
32609744 ATTGTAAGAA
32609754 TAAATTAAATAAT-TAAT
1 TAAATTAAATAATATAAT
* *
32609771 TCAAAAGTAAAAAATA-AAT
1 T--AAATTAAATAATATAAT
32609790 TAAATTAAATAATCATAAT
1 TAAATTAAATAAT-ATAAT
32609809 TAA
1 TAA
32609812 TTTTATTTAG
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
17 11 0.34
18 1 0.03
19 20 0.62
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (18 bp):
TAAATTAAATAATATAAT
Found at i:32611519 original size:14 final size:14
Alignment explanation
Indices: 32611500--32611530 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
32611490 ATTGAATTGA
*
32611500 AAAATAAAGCAAAT
1 AAAATAAAGAAAAT
32611514 AAAATAAAGAAAAT
1 AAAATAAAGAAAAT
32611528 AAA
1 AAA
32611531 TTCTAATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.77, C:0.03, G:0.06, T:0.13
Consensus pattern (14 bp):
AAAATAAAGAAAAT
Found at i:32612208 original size:26 final size:28
Alignment explanation
Indices: 32612165--32612222 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 28
32612155 GTTTTATGAA
*
32612165 TTGTTTTAATATCGTTTTTAAGT-TGTTTG
1 TTGTTTTAATA-C-TTTTTAAGTGTATTTG
32612194 TTGTTTTAATA-TTTTTAAGTGTATTTG
1 TTGTTTTAATACTTTTTAAGTGTATTTG
32612221 TT
1 TT
32612223 ATATCATACT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 9 0.33
27 7 0.26
29 11 0.41
ACGTcount: A:0.19, C:0.02, G:0.16, T:0.64
Consensus pattern (28 bp):
TTGTTTTAATACTTTTTAAGTGTATTTG
Found at i:32613725 original size:39 final size:39
Alignment explanation
Indices: 32613682--32613756 Score: 141
Period size: 39 Copynumber: 1.9 Consensus size: 39
32613672 TCCATTATTC
*
32613682 CCCTTGGTATGTATACGATATGAACATAGATTTCACGGA
1 CCCTTGGTATGTATACGATAAGAACATAGATTTCACGGA
32613721 CCCTTGGTATGTATACGATAAGAACATAGATTTCAC
1 CCCTTGGTATGTATACGATAAGAACATAGATTTCAC
32613757 AGCTTTCATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.31
Consensus pattern (39 bp):
CCCTTGGTATGTATACGATAAGAACATAGATTTCACGGA
Found at i:32617228 original size:11 final size:11
Alignment explanation
Indices: 32617212--32617236 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
32617202 TATGTTATGT
32617212 ACAATTTCTAA
1 ACAATTTCTAA
32617223 ACAATTTCTAA
1 ACAATTTCTAA
32617234 ACA
1 ACA
32617237 TAGTTGCCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.32
Consensus pattern (11 bp):
ACAATTTCTAA
Found at i:32617598 original size:18 final size:18
Alignment explanation
Indices: 32617577--32617648 Score: 54
Period size: 18 Copynumber: 3.8 Consensus size: 18
32617567 GATCATCGTT
32617577 ATCACCATCATCATTACA
1 ATCACCATCATCATTACA
* ** *
32617595 ATCATCATCATCACCACT
1 ATCACCATCATCATTACA
* * *
32617613 CTCAACATCTTCACTATCACA
1 ATCACCATCATCA-T-T-ACA
32617634 ATCACCATCATCATT
1 ATCACCATCATCATT
32617649 GTTACTGTCA
Statistics
Matches: 38, Mismatches: 13, Indels: 5
0.68 0.23 0.09
Matches are distributed among these distances:
18 24 0.63
19 1 0.03
20 1 0.03
21 12 0.32
ACGTcount: A:0.35, C:0.36, G:0.00, T:0.29
Consensus pattern (18 bp):
ATCACCATCATCATTACA
Found at i:32622711 original size:13 final size:13
Alignment explanation
Indices: 32622693--32622719 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
32622683 CTGTTGTGAA
32622693 TGACGCTACATAC
1 TGACGCTACATAC
32622706 TGACGCTACATAC
1 TGACGCTACATAC
32622719 T
1 T
32622720 ACAGAAGTCG
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:0.30, C:0.30, G:0.15, T:0.26
Consensus pattern (13 bp):
TGACGCTACATAC
Found at i:32629386 original size:195 final size:194
Alignment explanation
Indices: 32628941--32629387 Score: 512
Period size: 194 Copynumber: 2.3 Consensus size: 194
32628931 TACCAGTACT
* * * ** * * *
32628941 CGATGCTGCTCACACGAGCTGTCAAGGACTCGTAACTTATGCGATACCCCAGCCATCGGTACGGT
1 CGATGCTGCTCACATGAGCTGTCGAGGACTCGCAACACATGCGGTACCCTAGCCATCGATACGGT
* * *
32629006 GTCTATCTGTACTCTAACTGTTCCCTAATGATGCTGCTCACACGAGCTGTCGAGAGTATGCATAA
66 G-CTATCTGTACTATAACTGTTCCCTAATGATGCTACTCACACGAGCTGTCGAGAATATGCATAA
* * * *
32629071 AGCATAGTCCCAGCCATCGTAGGGCCTATAATCCATTTAGGATCCATATCTTTTCTTTCAAATCA
130 AGCATAATCCCAGCCATCGCAAGGCCTATAATCCATTTAGGATCCATATCTCTTCTTTCAAATCA
* *
32629136 CGAT-CTGCTCAC-TCGAGCTGTCGAGGACTCGCAATACATACGGTA-CCTCAGCCATCGATAC-
1 CGATGCTGCTCACAT-GAGCTGTCGAGGACTCGCAACACATGCGGTACCCT-AGCCATCGATACG
* * * *
32629197 G-G-TATCTGTGCATATAACTGTTCCTTAATGATGCTACTTACATGAGCTGTCGAGAATATGCAC
64 GTGCTATCTGTAC-TATAACTGTTCCCTAATGATGCTACTCACACGAGCTGTCGAGAATATGCA-
* * * * *
32629260 TTATGCATAAATCTCAGCCATCGCAAGGTCTGTAATCCATTCTAGGATCCATATCTCTT-TTTCT
127 TAAAGCAT-AATCCCAGCCATCGCAAGGCCTATAATCCATT-TAGGATCCATATCTCTTCTTTC-
* *
32629324 GACTCA
189 AAATCA
*
32629330 CGATGCTGGTCACATGAGCTGTCGAGGACTCGCAACACATGCGGTACCCTAGCCATCG
1 CGATGCTGCTCACATGAGCTGTCGAGGACTCGCAACACATGCGGTACCCTAGCCATCG
32629388 CGTCAGTTTC
Statistics
Matches: 211, Mismatches: 31, Indels: 20
0.81 0.12 0.08
Matches are distributed among these distances:
190 8 0.04
191 44 0.21
192 7 0.03
193 33 0.16
194 67 0.32
195 48 0.23
196 4 0.02
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (194 bp):
CGATGCTGCTCACATGAGCTGTCGAGGACTCGCAACACATGCGGTACCCTAGCCATCGATACGGT
GCTATCTGTACTATAACTGTTCCCTAATGATGCTACTCACACGAGCTGTCGAGAATATGCATAAA
GCATAATCCCAGCCATCGCAAGGCCTATAATCCATTTAGGATCCATATCTCTTCTTTCAAATCA
Found at i:32635675 original size:7 final size:7
Alignment explanation
Indices: 32635665--32635689 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
32635655 TGAGATTTGA
32635665 GTTTAAG
1 GTTTAAG
32635672 GTTTAAG
1 GTTTAAG
32635679 GTTTAAG
1 GTTTAAG
32635686 GTTT
1 GTTT
32635690 GAGTTCAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (7 bp):
GTTTAAG
Found at i:32636753 original size:46 final size:47
Alignment explanation
Indices: 32636681--32636769 Score: 153
Period size: 47 Copynumber: 1.9 Consensus size: 47
32636671 GTTCCGACCC
*
32636681 ACCTCGACTCTATAGGGGT-GGTTTTTTTTTTATCTTATACGAAATG
1 ACCTCGACTCTATAGGGGTGGGTTTTTTTTTGATCTTATACGAAATG
*
32636727 ACCTCGACTCTATAGGGGTGGGTTTTTTTTTGGTCTTATACGA
1 ACCTCGACTCTATAGGGGTGGGTTTTTTTTTGATCTTATACGA
32636770 TCATTTCTTG
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
46 19 0.47
47 21 0.52
ACGTcount: A:0.19, C:0.16, G:0.22, T:0.43
Consensus pattern (47 bp):
ACCTCGACTCTATAGGGGTGGGTTTTTTTTTGATCTTATACGAAATG
Found at i:32637892 original size:20 final size:22
Alignment explanation
Indices: 32637862--32637902 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
32637852 ACTTCTCACA
32637862 TACTGACATTT-AATACATATC
1 TACTGACATTTCAATACATATC
*
32637883 TACT-ACATTTCATTACATAT
1 TACTGACATTTCAATACATAT
32637903 AACCATGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.37, C:0.20, G:0.02, T:0.41
Consensus pattern (22 bp):
TACTGACATTTCAATACATATC
Found at i:32639138 original size:408 final size:408
Alignment explanation
Indices: 32638383--32639201 Score: 1602
Period size: 408 Copynumber: 2.0 Consensus size: 408
32638373 TTTAAGACCA
32638383 ATGTCGTGACTTCATCATTTCCACGTCATGATGTCACCCACATAGTAAGTCACGTCACAACTTCA
1 ATGTCGTGACTTCATCATTTCCACGTCATGATGTCACCCACATAGTAAGTCACGTCACAACTTCA
*
32638448 TGCAATTCAACATTGCGACGTCACTTACTATCGGTTGATGTTGCAACGAGAGATGTTAGTTGTTG
66 TGCAATTCAACATTGCGACGTCACTTACTATCGGTTGATGTTGCAACGAGAGATGTTAGTCGTTG
*
32638513 AGACGTGGCCCCTGTTTTTTGGCAAAATGCACATTTTGGTACCTATTCCATAGCTTCCAACCAAA
131 AGACATGGCCCCTGTTTTTTGGCAAAATGCACATTTTGGTACCTATTCCATAGCTTCCAACCAAA
32638578 ATCTAGCAACATGTTCACCCAATTACCACATCCACATGATTCAAACATATCCAAAACATGCCAAA
196 ATCTAGCAACATGTTCACCCAATTACCACATCCACATGATTCAAACATATCCAAAACATGCCAAA
32638643 CAAGTTCAAACATTCACATTCAACCTCTTATCAAGACATTCAATACCTATTCATCAATCAAACTT
261 CAAGTTCAAACATTCACATTCAACCTCTTATCAAGACATTCAATACCTATTCATCAATCAAACTT
32638708 AGACAATTCAAATGTCATTAAAACACAACAACCAAGCCATTCAAGTTTACCACCAATTTACTTAT
326 AGACAATTCAAATGTCATTAAAACACAACAACCAAGCCATTCAAGTTTACCACCAATTTACTTAT
*
32638773 ACATTTCTTTTATTCCTT
391 ACATTTCTTTTATACCTT
32638791 ATGTCGTGACTTCATCATTTCCACGTCATGATGTCACCCACATAGTAAGTCACGTCACAACTTCA
1 ATGTCGTGACTTCATCATTTCCACGTCATGATGTCACCCACATAGTAAGTCACGTCACAACTTCA
32638856 TGCAATTCAACATTGCGACGTCACTTACTATCGGTTGATGTTGCAACGAGAGATGTTAGTCGTTG
66 TGCAATTCAACATTGCGACGTCACTTACTATCGGTTGATGTTGCAACGAGAGATGTTAGTCGTTG
*
32638921 AGACATGGCCCCTGTTTTTTGGCAAAATGCACATTTTGGTACCTGTTCCATAGCTTCCAACCAAA
131 AGACATGGCCCCTGTTTTTTGGCAAAATGCACATTTTGGTACCTATTCCATAGCTTCCAACCAAA
32638986 ATCTAGCAACATGTTCACCCAATTACCACATCCACATGATTCAAACATATCCAAAACATGCCAAA
196 ATCTAGCAACATGTTCACCCAATTACCACATCCACATGATTCAAACATATCCAAAACATGCCAAA
32639051 CAAGTTCAAACATTCACATTCAACCTCTTATCAAGACATTCAATACCTATTCATCAATCAAACTT
261 CAAGTTCAAACATTCACATTCAACCTCTTATCAAGACATTCAATACCTATTCATCAATCAAACTT
32639116 AGACAATTCAAATGTCATTAAAACACAACAACCAAGCCATTCAAGTTTACCACCAATTTACTTAT
326 AGACAATTCAAATGTCATTAAAACACAACAACCAAGCCATTCAAGTTTACCACCAATTTACTTAT
32639181 ACATTTCTTTTATACCTT
391 ACATTTCTTTTATACCTT
32639199 ATG
1 ATG
32639202 AAACTAAATG
Statistics
Matches: 407, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
408 407 1.00
ACGTcount: A:0.33, C:0.26, G:0.11, T:0.30
Consensus pattern (408 bp):
ATGTCGTGACTTCATCATTTCCACGTCATGATGTCACCCACATAGTAAGTCACGTCACAACTTCA
TGCAATTCAACATTGCGACGTCACTTACTATCGGTTGATGTTGCAACGAGAGATGTTAGTCGTTG
AGACATGGCCCCTGTTTTTTGGCAAAATGCACATTTTGGTACCTATTCCATAGCTTCCAACCAAA
ATCTAGCAACATGTTCACCCAATTACCACATCCACATGATTCAAACATATCCAAAACATGCCAAA
CAAGTTCAAACATTCACATTCAACCTCTTATCAAGACATTCAATACCTATTCATCAATCAAACTT
AGACAATTCAAATGTCATTAAAACACAACAACCAAGCCATTCAAGTTTACCACCAATTTACTTAT
ACATTTCTTTTATACCTT
Found at i:32645928 original size:143 final size:143
Alignment explanation
Indices: 32645745--32646031 Score: 565
Period size: 143 Copynumber: 2.0 Consensus size: 143
32645735 CTATCGAAAG
*
32645745 CTGAATAAGCTAACGATTAAGGATAAGTACCCCTTGTCTCTTATTGATGACCTATTCGATCAGTT
1 CTGAATAAGCTAACGATTAAGGATAAGTACCCCTTATCTCTTATTGATGACCTATTCGATCAGTT
32645810 TCGGGGAGTTACTGCGTTTTCTAATATTGACTTGAGGTCTGGATACTATCAGCTTAGAGTGAAAG
66 TCGGGGAGTTACTGCGTTTTCTAATATTGACTTGAGGTCTGGATACTATCAGCTTAGAGTGAAAG
32645875 ATTCAGATGTGTT
131 ATTCAGATGTGTT
32645888 CTGAATAAGCTAACGATTAAGGATAAGTACCCCTTATCTCTTATTGATGACCTATTCGATCAGTT
1 CTGAATAAGCTAACGATTAAGGATAAGTACCCCTTATCTCTTATTGATGACCTATTCGATCAGTT
32645953 TCGGGGAGTTACTGCGTTTTCTAATATTGACTTGAGGTCTGGATACTATCAGCTTAGAGTGAAAG
66 TCGGGGAGTTACTGCGTTTTCTAATATTGACTTGAGGTCTGGATACTATCAGCTTAGAGTGAAAG
32646018 ATTCAGATGTGTT
131 ATTCAGATGTGTT
32646031 C
1 C
32646032 AAGACAGCTT
Statistics
Matches: 143, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
143 143 1.00
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (143 bp):
CTGAATAAGCTAACGATTAAGGATAAGTACCCCTTATCTCTTATTGATGACCTATTCGATCAGTT
TCGGGGAGTTACTGCGTTTTCTAATATTGACTTGAGGTCTGGATACTATCAGCTTAGAGTGAAAG
ATTCAGATGTGTT
Found at i:32646483 original size:3 final size:3
Alignment explanation
Indices: 32646475--32646513 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
32646465 CCAAAATCAA
32646475 AAT AAT AAT AAT AAT AAT AAT AAT AAAT AA- AAT AA- AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT A
32646514 TTTATAAGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 4 0.12
3 26 0.79
4 3 0.09
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:32647908 original size:13 final size:13
Alignment explanation
Indices: 32647892--32647916 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32647882 AGGGTAGTTC
32647892 ATCTCTATAAATA
1 ATCTCTATAAATA
32647905 ATCTCTATAAAT
1 ATCTCTATAAAT
32647917 CCTTCATCCA
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:0.44, C:0.16, G:0.00, T:0.40
Consensus pattern (13 bp):
ATCTCTATAAATA
Found at i:32648779 original size:3 final size:3
Alignment explanation
Indices: 32648771--32648812 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
32648761 CCAAAACCAA
*
32648771 AAT AAT AAT AAC AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
32648813 GCAATAAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:32649890 original size:13 final size:13
Alignment explanation
Indices: 32649872--32649899 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
32649862 TTTTTCAAAA
32649872 AAAGTCAACGGTC
1 AAAGTCAACGGTC
32649885 AAAGTCAACGGTC
1 AAAGTCAACGGTC
32649898 AA
1 AA
32649900 CGACCGATCA
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:0.43, C:0.21, G:0.21, T:0.14
Consensus pattern (13 bp):
AAAGTCAACGGTC
Found at i:32650551 original size:23 final size:22
Alignment explanation
Indices: 32650502--32650558 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
32650492 AAGATACGCT
* *
32650502 GGAAAAAAGAAAGAAATGGAAA
1 GGAAAAGAGAAAGAAATAGAAA
*
32650524 AGAAAAGAGAAAGAAATAAGAAA
1 GGAAAAGAGAAAGAAAT-AGAAA
*
32650547 GGAAATGAGAAA
1 GGAAAAGAGAAA
32650559 AAAAAGTGAG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 15 0.52
23 14 0.48
ACGTcount: A:0.68, C:0.00, G:0.26, T:0.05
Consensus pattern (22 bp):
GGAAAAGAGAAAGAAATAGAAA
Found at i:32655183 original size:16 final size:16
Alignment explanation
Indices: 32655164--32655195 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
32655154 CTAATAAATC
32655164 TATAT-TCAAA-CAAA
1 TATATATCAAATCAAA
32655178 TATATATCAAATCAAA
1 TATATATCAAATCAAA
32655194 TA
1 TA
32655196 CATAACATCC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.31
15 5 0.31
16 6 0.38
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (16 bp):
TATATATCAAATCAAA
Found at i:32668469 original size:113 final size:113
Alignment explanation
Indices: 32668323--32668552 Score: 363
Period size: 113 Copynumber: 2.0 Consensus size: 113
32668313 CCATTAACCT
* * *
32668323 AAAA-AAACTTAACGTGAAGAAAATATTCAAACCAAATATATTGAATCTTTTGGTTAATGTGTTT
1 AAAAGAAACTTAACGGGAAGAAAATATTCAAACCAAAGATATTGAATCTTTTGGTTAATGGGTTT
32668387 TAAAGATTCAAGCTTTGAGACAGATTTGTAACTAAAGATATTGGAATC
66 TAAAGATTCAAGCTTTGAGACAGATTTGTAACTAAAGATATTGGAATC
* ** *
32668435 AAAAGAAACTTAACGGGAAGAAGATATTGGAACCAAAGATATTGAATTTTTTGGTTAATGGGTTT
1 AAAAGAAACTTAACGGGAAGAAAATATTCAAACCAAAGATATTGAATCTTTTGGTTAATGGGTTT
* * *
32668500 TAAAGATTCAAGCTTTGAGTCAGATTTGTAATTAAAGATATTTGAATC
66 TAAAGATTCAAGCTTTGAGACAGATTTGTAACTAAAGATATTGGAATC
32668548 AAAAG
1 AAAAG
32668553 GGAAGAATAT
Statistics
Matches: 107, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
112 4 0.04
113 103 0.96
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.33
Consensus pattern (113 bp):
AAAAGAAACTTAACGGGAAGAAAATATTCAAACCAAAGATATTGAATCTTTTGGTTAATGGGTTT
TAAAGATTCAAGCTTTGAGACAGATTTGTAACTAAAGATATTGGAATC
Done.