Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015280.1 Kokia drynarioides strain JFW-HI SEQ_130325, whole genome shotgun sequence
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: 250179
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 534 characters in sequence are not A, C, G, or T
Found at i:3037 original size:138 final size:133
Alignment explanation
Indices: 2794--3069 Score: 446
Period size: 138 Copynumber: 2.0 Consensus size: 133
2784 AGATTCTTTC
* *
2794 ATTTCAGCTAGACCAGACCGTGCTAATCCATCTATGGTGGAGAATTAAAATTTGCCGAATAAGGA
1 ATTTCAGCTAGACCAGACCATGCTAATCCATCTATAGTGGAGAATTAAAATTTGCCGAATAAGGA
*
2859 ATCATTAACCAAGTTCATGTAAACCATCGTTACTGTACTTAACTACATATACACATACATACACA
66 ATCATTAACCAAGTTCATGTAAACCATCATTACTGTACTTAACTACATATACACATACATACACA
2924 CAT
131 CAT
2927 ATTTCAGCTAGACCAGACCATGCTAATCCATCTATAGTGGAGAATTAAAATCTTGTTTGCCGAAT
1 ATTTCAGCTAGACCAGACCATGCTAATCCATCTATAGTGGAGAATTAAAA-----TTTGCCGAAT
* *
2992 AA-GAATCATTTCACCAAGTTCATGTAAACCATCATTACTGTACTTAACTCCATATACACATACA
61 AAGGAATCA-TTAACCAAGTTCATGTAAACCATCATTACTGTACTTAACTACATATACACATACA
3056 TACACACAT
125 TACACACAT
3065 ATTTC
1 ATTTC
3070 CCCAGGCTTC
Statistics
Matches: 132, Mismatches: 5, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
133 48 0.36
137 6 0.05
138 78 0.59
ACGTcount: A:0.36, C:0.22, G:0.12, T:0.29
Consensus pattern (133 bp):
ATTTCAGCTAGACCAGACCATGCTAATCCATCTATAGTGGAGAATTAAAATTTGCCGAATAAGGA
ATCATTAACCAAGTTCATGTAAACCATCATTACTGTACTTAACTACATATACACATACATACACA
CAT
Found at i:4327 original size:16 final size:17
Alignment explanation
Indices: 4296--4328 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
4286 CATAATGGAT
4296 TTTTATTTCGCAATAATG
1 TTTTATTTC-CAATAATG
4314 TTTTATTT-CAATAAT
1 TTTTATTTCCAATAAT
4329 TTCACCTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.30, C:0.09, G:0.06, T:0.55
Consensus pattern (17 bp):
TTTTATTTCCAATAATG
Found at i:6711 original size:18 final size:18
Alignment explanation
Indices: 6690--6726 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
6680 TAAATTAAAA
6690 ATAAAATCAAATTTAATT
1 ATAAAATCAAATTTAATT
6708 ATAAAATCAAATTTAATT
1 ATAAAATCAAATTTAATT
6726 A
1 A
6727 AATTAAACCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (18 bp):
ATAAAATCAAATTTAATT
Found at i:6725 original size:23 final size:22
Alignment explanation
Indices: 6679--6733 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 22
6669 CACGATATTT
6679 TTAAATTAAAAATAAAATCAAA
1 TTAAATTAAAAATAAAATCAAA
* * **
6701 TTTAATTATAAAATCAAATTTAA
1 TTAAATTA-AAAATAAAATCAAA
6724 TTAAATTAAA
1 TTAAATTAAA
6734 CCATTTCAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 9 0.33
23 18 0.67
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (22 bp):
TTAAATTAAAAATAAAATCAAA
Found at i:10898 original size:116 final size:114
Alignment explanation
Indices: 10644--10989 Score: 383
Period size: 116 Copynumber: 3.0 Consensus size: 114
10634 TAGACATTCG
* * *
10644 GGGGTAAAAGGGTAATTTTGGAA-TTTTGAGGCCAAAAATGGGATTTTTGGAAGTTCAGGGGTAA
1 GGGGAAAAAGGG-AATTTTGGAAGTTTTG-GGTCAAAAATGGGATTTTTGGAAGTTTAGGGGTAA
* ** * * *
10708 AAACATAATTTTTGGAAATTTTGGGGTCAAAATGGGATTTTTGGAAG-TTTA
64 AAATAGGATTTTT-GAAGTTTAGGGGTAAAAATGGGATTTTTGGAAGTTTTA
* * *
10759 GGGGAAAAAAGGAATTTTTGGAAGTTTTGGGATCAAAAATGGGATTTTTAGAAGTTTGGGGGTAA
1 GGGGAAAAAGGGAA-TTTTGGAAGTTTTGGG-TCAAAAATGGGATTTTTGGAAGTTTAGGGGTAA
*
10824 AAATAGGATTTTTAGAAGTTTAGGGGT-AAAATGGGATTTTTGGAAGTTTTG
64 AAATAGGATTTTT-GAAGTTTAGGGGTAAAAATGGGATTTTTGGAAGTTTTA
* * ** * * *
10875 GGGTGAAAAAGGGAATTCTGGAAGTTTAGGGTTTAAAATGGAATTTTTGGAAATTTAGGTGTCAA
1 GGG-GAAAAAGGGAATTTTGGAAGTTTTGGGTCAAAAATGGGATTTTTGGAAGTTTAGGGGT-AA
* * *
10940 AAATGGGATTTTCTGAAGTTTAGGGTTAAAAACGGGATTTTTGGAAGTTT
64 AAATAGGATTTT-TGAAGTTTAGGGGTAAAAATGGGATTTTTGGAAGTTT
10990 CGGGACCTAC
Statistics
Matches: 197, Mismatches: 26, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
114 2 0.01
115 63 0.32
116 100 0.51
117 32 0.16
ACGTcount: A:0.32, C:0.03, G:0.30, T:0.34
Consensus pattern (114 bp):
GGGGAAAAAGGGAATTTTGGAAGTTTTGGGTCAAAAATGGGATTTTTGGAAGTTTAGGGGTAAAA
ATAGGATTTTTGAAGTTTAGGGGTAAAAATGGGATTTTTGGAAGTTTTA
Found at i:10986 original size:29 final size:29
Alignment explanation
Indices: 10677--10989 Score: 292
Period size: 29 Copynumber: 10.8 Consensus size: 29
10667 TTTTGAGGCC
* *
10677 AAAAATGGGATTTTTGGAAGTTCAGGGGT
1 AAAAATGGGATTTTTGGAAGTTTAGGGTT
**** * * *
10706 AAAAACATAATTTTTGGAAATTTTGGGGT
1 AAAAATGGGATTTTTGGAAGTTTAGGGTT
* *
10735 CAAAATGGGATTTTTGGAAGTTTAGGG-G
1 AAAAATGGGATTTTTGGAAGTTTAGGGTT
* * * *
10763 AAAAAAGGAATTTTTGGAAGTTTTGGGATC
1 AAAAATGGGATTTTTGGAAGTTTAGGG-TT
* * *
10793 AAAAATGGGATTTTTAGAAGTTTGGGGGT
1 AAAAATGGGATTTTTGGAAGTTTAGGGTT
* * *
10822 AAAAATAGGATTTTTAGAAGTTTAGGGGT
1 AAAAATGGGATTTTTGGAAGTTTAGGGTT
* *
10851 -AAAATGGGATTTTTGGAAGTTTTGGGGTG
1 AAAAATGGGATTTTTGGAAG-TTTAGGGTT
* *
10880 AAAAA-GGGAATTCTGGAAGTTTAGGGTT
1 AAAAATGGGATTTTTGGAAGTTTAGGGTT
* * * *
10908 TAAAATGGAATTTTTGGAAATTTAGGTGTC
1 AAAAATGGGATTTTTGGAAGTTTAGG-GTT
10938 AAAAATGGGATTTTCT-GAAGTTTAGGGTT
1 AAAAATGGGATTTT-TGGAAGTTTAGGGTT
*
10967 AAAAACGGGATTTTTGGAAGTTT
1 AAAAATGGGATTTTTGGAAGTTT
10990 CGGGACCTAC
Statistics
Matches: 228, Mismatches: 48, Indels: 16
0.78 0.16 0.05
Matches are distributed among these distances:
28 52 0.23
29 125 0.55
30 50 0.22
31 1 0.00
ACGTcount: A:0.33, C:0.03, G:0.30, T:0.35
Consensus pattern (29 bp):
AAAAATGGGATTTTTGGAAGTTTAGGGTT
Found at i:17176 original size:50 final size:50
Alignment explanation
Indices: 17101--17199 Score: 189
Period size: 50 Copynumber: 2.0 Consensus size: 50
17091 TGATTTAAGC
17101 GTATTTAAACTCTGGATGAAAATGAAATATGTGTAAAAACAGACTCTTTT
1 GTATTTAAACTCTGGATGAAAATGAAATATGTGTAAAAACAGACTCTTTT
*
17151 GTATTTAAACTCTGGGTGAAAATGAAATATGTGTAAAAACAGACTCTTT
1 GTATTTAAACTCTGGATGAAAATGAAATATGTGTAAAAACAGACTCTTT
17200 CTTAGACAAC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.39, C:0.10, G:0.17, T:0.33
Consensus pattern (50 bp):
GTATTTAAACTCTGGATGAAAATGAAATATGTGTAAAAACAGACTCTTTT
Found at i:18346 original size:17 final size:18
Alignment explanation
Indices: 18316--18349 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
18306 TTAAAAGTAT
18316 TTTTGACATAAAAAGCAC
1 TTTTGACATAAAAAGCAC
*
18334 TTTTGA-ATCAAAAGCA
1 TTTTGACATAAAAAGCA
18350 ATGCTAACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (18 bp):
TTTTGACATAAAAAGCAC
Found at i:23221 original size:58 final size:56
Alignment explanation
Indices: 23150--23502 Score: 291
Period size: 58 Copynumber: 6.1 Consensus size: 56
23140 TGCCCAAGGG
* * * * *
23150 TAAAAAGGTAATTTTGGACACTCGGGGGCAAAATGGTAATTTTTGGAAAGTTCG-GAGT
1 TAAAAAAGAAATTTTAGACA-TCGAGGGTAAAATGGTAA-TTTTGGAAAGTTCGAG-GT
* * * * *
23208 CAAAAACGAAATTTTAGACGTCCGAGGGTAAAATGGTGATTTTTGGAAAGTTTGAGGT
1 TAAAAAAGAAATTTTAGACAT-CGAGGGTAAAATGGT-AATTTTGGAAAGTTCGAGGT
* * * *
23266 TAAAAATGGAATTTTTAGACATTG-GGGGAAAATGGTAATTTTGGAAAGATTCGAGGT
1 TAAAAA-AGAAATTTTAGACATCGAGGGTAAAATGGTAATTTTGGAAAG-TTCGAGGT
* * *
23323 TAAAAAAGAATTTTTTAGACATCTGAGGGTAAAATGGTAATTTTGGAAGGATTCGGGGTT
1 TAAAAAAGAA-ATTTTAGACATC-GAGGGTAAAATGGTAATTTTGGAAAG-TTCGAGG-T
* * * * * *
23383 TAAAATAGAATTTTTAGACATCCAAGGATAAAATGGTAATTTTTAGAAAGTTTGAGGT
1 TAAAAAAGAAATTTTAGACAT-CGAGGGTAAAATGGTAA-TTTTGGAAAGTTCGAGGT
* * * *
23441 T-AAAATGAAATTTTTAAACATTCGAGGGTAAAATGGTAATTTT-GAAAGGTTTGGGGT
1 TAAAAAAGAAA-TTTTAGACA-TCGAGGGTAAAATGGTAATTTTGGAAA-GTTCGAGGT
23498 TAAAA
1 TAAAA
23503 TGTAATTTTT
Statistics
Matches: 244, Mismatches: 36, Indels: 30
0.79 0.12 0.10
Matches are distributed among these distances:
56 18 0.07
57 55 0.23
58 78 0.32
59 74 0.30
60 19 0.08
ACGTcount: A:0.37, C:0.06, G:0.25, T:0.32
Consensus pattern (56 bp):
TAAAAAAGAAATTTTAGACATCGAGGGTAAAATGGTAATTTTGGAAAGTTCGAGGT
Found at i:23366 original size:29 final size:28
Alignment explanation
Indices: 23231--23483 Score: 124
Period size: 29 Copynumber: 8.7 Consensus size: 28
23221 TTAGACGTCC
* * *
23231 GAGGGTAAAATGGTGATTTTTGGAAAGTTT
1 GAGGGTAAAATGGTAATTTTTAGACA--TT
*
23261 GAGGTTAAAAATGG-AATTTTTAGACATT
1 GAGGGT-AAAATGGTAATTTTTAGACATT
* * * *
23289 G-GGGGAAAATGGTAATTTTGGAAAGATT
1 GAGGGTAAAATGGTAATTTT-TAGACATT
* **
23317 CGAGGTTAAAAAAG-AATTTTTTAGACATCT
1 -GAGGGTAAAATGGTAA-TTTTTAGACAT-T
* *
23347 GAGGGTAAAATGGTAA-TTTTGGAAGGATT
1 GAGGGTAAAATGGTAATTTTTAG-A-CATT
* *
23376 CG-GGGTTTAAAATAG-AATTTTTAGACATCC
1 -GAGGG--TAAAATGGTAATTTTTAGACAT-T
* * *
23406 AAGGATAAAATGGTAATTTTTAGAAAGTTT
1 GAGGGTAAAATGGTAATTTTTAGACA--TT
* * *
23436 GAGGTTAAAAT-GAAATTTTTAAACATT
1 GAGGGTAAAATGGTAATTTTTAGACATT
23463 CGAGGGTAAAATGGTAATTTT
1 -GAGGGTAAAATGGTAATTTT
23484 GAAAGGTTTG
Statistics
Matches: 165, Mismatches: 37, Indels: 43
0.67 0.15 0.18
Matches are distributed among these distances:
26 7 0.04
27 10 0.06
28 30 0.18
29 53 0.32
30 45 0.27
31 20 0.12
ACGTcount: A:0.37, C:0.04, G:0.25, T:0.34
Consensus pattern (28 bp):
GAGGGTAAAATGGTAATTTTTAGACATT
Found at i:23376 original size:59 final size:57
Alignment explanation
Indices: 23179--23502 Score: 309
Period size: 59 Copynumber: 5.6 Consensus size: 57
23169 ACTCGGGGGC
* * * * *
23179 AAAATGGTAATTTTTGGAAAGTTCG-GAGTCAAAAACGAAATTTTAGACGTCCGAGGGT
1 AAAATGGTAA-TTTTGGAAAGTTCGAG-GTTAAAAAAGAATTTTTAGACATCTGAGGGT
* * * *
23237 AAAATGGTGATTTTTGGAAAGTTTGAGGTTAAAAATGGAATTTTTAGACAT-TG-GGGG
1 AAAATGGT-AATTTTGGAAAGTTCGAGGTTAAAAA-AGAATTTTTAGACATCTGAGGGT
23294 AAAATGGTAATTTTGGAAAGATTCGAGGTTAAAAAAGAATTTTTTAGACATCTGAGGGT
1 AAAATGGTAATTTTGGAAAG-TTCGAGGTTAAAAAAGAA-TTTTTAGACATCTGAGGGT
* * * ** *
23353 AAAATGGTAATTTTGGAAGGATTCGGGGTTTAAAATAGAATTTTTAGACATCCAAGGAT
1 AAAATGGTAATTTTGGAAAG-TTCGAGG-TTAAAAAAGAATTTTTAGACATCTGAGGGT
* * * *
23412 AAAATGGTAATTTTTAGAAAGTTTGAGGTT-AAAATGAAATTTTTAAACAT-TCGAGGGT
1 AAAATGGTAA-TTTTGGAAAGTTCGAGGTTAAAAAAG-AATTTTTAGACATCT-GAGGGT
* *
23470 AAAATGGTAATTTT-GAAAGGTTTGGGGTTAAAA
1 AAAATGGTAATTTTGGAAA-GTTCGAGGTTAAAA
23503 TGTAATTTTT
Statistics
Matches: 224, Mismatches: 29, Indels: 26
0.80 0.10 0.09
Matches are distributed among these distances:
56 18 0.08
57 52 0.23
58 62 0.28
59 74 0.33
60 18 0.08
ACGTcount: A:0.37, C:0.05, G:0.25, T:0.33
Consensus pattern (57 bp):
AAAATGGTAATTTTGGAAAGTTCGAGGTTAAAAAAGAATTTTTAGACATCTGAGGGT
Found at i:23497 original size:28 final size:27
Alignment explanation
Indices: 23411--23570 Score: 92
Period size: 29 Copynumber: 5.5 Consensus size: 27
23401 CATCCAAGGA
*
23411 TAAAATGGTAATTTTTAGAAAGTTTGAGGT
1 TAAAAT-GTAA-TTTT-GAAAGTTTGAGGG
* * * *
23441 TAAAATGAAATTTTTAAACATTCGAGGG
1 TAAAATGTAATTTTGAAA-GTTTGAGGG
23469 TAAAATGGTAATTTTGAAAGGTTTG-GGG
1 TAAAAT-GTAATTTTGAAA-GTTTGAGGG
*
23497 TTAAAATGTAATTTTTGGAAAATTT-AGGG
1 -TAAAATGTAA-TTTT-GAAAGTTTGAGGG
* * *
23526 TTAAAAATGGAATTTTAAAAAG-TTCATGGG
1 -T-AAAATGTAATTTT-GAAAGTTTGA-GGG
23556 TAAAAATGTAATTTT
1 T-AAAATGTAATTTT
23571 TGGAAAAGTC
Statistics
Matches: 105, Mismatches: 16, Indels: 19
0.75 0.11 0.14
Matches are distributed among these distances:
27 3 0.03
28 25 0.24
29 56 0.53
30 21 0.20
ACGTcount: A:0.39, C:0.02, G:0.21, T:0.38
Consensus pattern (27 bp):
TAAAATGTAATTTTGAAAGTTTGAGGG
Found at i:23501 original size:29 final size:29
Alignment explanation
Indices: 23411--23546 Score: 97
Period size: 29 Copynumber: 4.7 Consensus size: 29
23401 CATCCAAGGA
* *
23411 TAAAATGGTAATTTTTAGAAAGTTTGAGGT
1 TAAAATGGTAA-TTTTAGAAAATTTGGGGT
* * *
23441 TAAAAT-GAAATTTTTA-AACATTCGAGGG-
1 TAAAATGGTAA-TTTTAGAAAATTTG-GGGT
*
23469 TAAAATGGTAATTTT-GAAAGGTTTGGGGT
1 TAAAATGGTAATTTTAGAAA-ATTTGGGGT
* *
23498 TAAAAT-GTAATTTTTGGAAAATTTAGGGT
1 TAAAATGGTAA-TTTTAGAAAATTTGGGGT
23527 TAAAAATGG-AATTTTA-AAAA
1 T-AAAATGGTAATTTTAGAAAA
23547 GTTCATGGGT
Statistics
Matches: 85, Mismatches: 12, Indels: 20
0.73 0.10 0.17
Matches are distributed among these distances:
28 28 0.33
29 39 0.46
30 17 0.20
31 1 0.01
ACGTcount: A:0.40, C:0.01, G:0.21, T:0.37
Consensus pattern (29 bp):
TAAAATGGTAATTTTAGAAAATTTGGGGT
Found at i:23531 original size:58 final size:57
Alignment explanation
Indices: 23232--23643 Score: 206
Period size: 59 Copynumber: 7.1 Consensus size: 57
23222 TAGACGTCCG
* * * * *
23232 AGGGTAAAATGGTGATTTTTGGAAA-GTTTGAGGTTAAAAATGGAATTTTTAG-ACATT-
1 AGGGTAAAATGGT-AATTTT-GAAAGGTTTGGGGTT-AAAATGTAATTTTTGGAAAATTC
* * * * * * * * *
23289 GGGGGAAAATGGTAATTTTGGAAAGATTCGAGGTTAAAAAAG-AATTTTT-TAGACATCTG
1 AGGGTAAAATGGTAATTTT-GAAAGGTTTGGGGTT-AAAATGTAATTTTTGGA-AAAT-TC
* * * * *
23348 AGGGTAAAATGGTAATTTTGGAAGGATTCGGGGTTTAAAATAG-AATTTTTAG-ACATCC
1 AGGGTAAAATGGTAATTTTGAAAGG-TTTGGGG-TTAAAAT-GTAATTTTTGGAAAATTC
* * *
23406 AAGGATAAAATGGTAATTTTTAGAAA-GTTTGAGGTTAAAATGAAATTTTT--AAACATTC
1 -AGGGTAAAATGGTAA-TTTT-GAAAGGTTTGGGGTTAAAATGTAATTTTTGGAAA-ATTC
*
23464 GAGGGTAAAATGGTAATTTTGAAAGGTTTGGGGTTAAAATGTAATTTTTGGAAAATTT
1 -AGGGTAAAATGGTAATTTTGAAAGGTTTGGGGTTAAAATGTAATTTTTGGAAAATTC
* * * *
23522 AGGGTTAAAAATGG-AATTTTAAAAAGTTCAT-GGGTAAAAATGTAATTTTTGGAAAAGTC
1 AGGG-T-AAAATGGTAATTTTGAAAGGTT--TGGGGTTAAAATGTAATTTTTGGAAAATTC
* * * ** * *
23581 -GAGATCAAAAAT-GTAATTTTGGAATGTTTAAGGTAAAAATGGAA-TTTTGGAAAAGTTC
1 AG-GGT--AAAATGGTAATTTTGAAAGGTTTGGGGTTAAAATGTAATTTTTGGAAAA-TTC
23639 AGGGT
1 AGGGT
23644 CAAAGTATGT
Statistics
Matches: 287, Mismatches: 40, Indels: 55
0.75 0.10 0.14
Matches are distributed among these distances:
56 21 0.07
57 72 0.25
58 71 0.25
59 104 0.36
60 16 0.06
61 3 0.01
ACGTcount: A:0.38, C:0.03, G:0.25, T:0.34
Consensus pattern (57 bp):
AGGGTAAAATGGTAATTTTGAAAGGTTTGGGGTTAAAATGTAATTTTTGGAAAATTC
Found at i:23557 original size:87 final size:88
Alignment explanation
Indices: 23411--23643 Score: 223
Period size: 87 Copynumber: 2.7 Consensus size: 88
23401 CATCCAAGGA
* * *
23411 TAAAATGGTAATTTTTAGAAAGTTT-GAGGTT-AAAATGAAATTTTTAAACA-TTCGAGGGT-AA
1 TAAAAT-GTAATTTTTGGAAAGTTTAG-GGTTAAAAATGGAA-TTTTAAAAAGTTC-AGGGTAAA
* * * *
23472 AATGGTAA-TTTT-GAAAGGTTTGGGGT-
62 AAT-GTAATTTTTGGAAAAG-TCGAGATC
*
23498 TAAAATGTAATTTTTGGAAAATTTAGGGTTAAAAATGGAATTTTAAAAAGTTCATGGGTAAAAAT
1 TAAAATGTAATTTTTGGAAAGTTTAGGGTTAAAAATGGAATTTTAAAAAGTTCA-GGGTAAAAAT
23563 GTAATTTTTGGAAAAGTCGAGATC
65 GTAATTTTTGGAAAAGTCGAGATC
* * * *
23587 AAAAATGTAA-TTTTGGAATGTTTAAGG-TAAAAATGGAATTTTGGAAAAGTTCAGGGT
1 TAAAATGTAATTTTTGGAAAGTTTAGGGTTAAAAATGGAATTTT-AAAAAGTTCAGGGT
23644 CAAAGTATGT
Statistics
Matches: 124, Mismatches: 13, Indels: 18
0.80 0.08 0.12
Matches are distributed among these distances:
86 29 0.23
87 45 0.36
88 36 0.29
89 14 0.11
ACGTcount: A:0.39, C:0.03, G:0.23, T:0.35
Consensus pattern (88 bp):
TAAAATGTAATTTTTGGAAAGTTTAGGGTTAAAAATGGAATTTTAAAAAGTTCAGGGTAAAAATG
TAATTTTTGGAAAAGTCGAGATC
Found at i:23583 original size:117 final size:115
Alignment explanation
Indices: 23179--23643 Score: 305
Period size: 116 Copynumber: 4.0 Consensus size: 115
23169 ACTCGGGGGC
** * * *
23179 AAAATGGTAATTTTTGGAAAGTTCG-GAGTCAAAAACGAAA-TTTTAGAC-GTCCGAGGGTAAAA
1 AAAATGGTAATTTTTAAAAAGTTTGAG-GT-AAAAATGAAATTTTTAAACAGT-CGAGGGTAAAA
* * * * * **
23241 TGGTGATTTTTGGAAAGTTTGAGGTTAAAAATGGAATTTTTAG-ACATT--GGGGG
63 TGGT-AATTTTGGAAGGTTTGGGGTT-AAAAT-GAATTTTTGGAAAATTCAGGGTT
** * * * *
23294 AAAATGGTAA-TTTTGGAAAGATTCGAGGTTAAAAAAGAATTTTTTAGACA-TCTGAGGGTAAAA
1 AAAATGGTAATTTTTAAAAAG-TTTGAGG-TAAAAATGAAATTTTTAAACAGTC-GAGGGTAAAA
* * * * * *
23357 TGGTAATTTTGGAAGGATTCGGGGTTTAAAATAGAATTTTTAG-ACATCCAAGGAT
63 TGGTAATTTTGGAAGG-TTTGGGG-TTAAAAT-GAATTTTTGGAAAATTCAGGGTT
* * *
23412 AAAATGGTAATTTTTAGAAAGTTTGAGGTTAAAATGAAATTTTTAAACATTCGAGGGTAAAATGG
1 AAAATGGTAATTTTTAAAAAGTTTGAGGTAAAAATGAAATTTTTAAACAGTCGAGGGTAAAATGG
* *
23477 TAATTTTGAAAGGTTTGGGGTTAAAATGTAATTTTTGGAAAATTTAGGGTT
66 TAATTTTGGAAGGTTTGGGGTTAAAATG-AATTTTTGGAAAATTCAGGGTT
* *
23528 AAAAATGG-AA-TTTTAAAAAGTTCATG-GGTAAAAATGTAATTTTTGGAAA-AGTCGA-GATCA
1 -AAAATGGTAATTTTTAAAAAGTT--TGAGGTAAAAATGAAATTTTT--AAACAGTCGAGGGT--
* ** *
23588 AAAAT-GTAATTTTGGAATGTTTAAGGTAAAAATGGAA-TTTTGGAAAAGTTCAGGGT
59 AAAATGGTAATTTTGGAAGGTTTGGGGTTAAAAT-GAATTTTTGGAAAA-TTCAGGGT
23644 CAAAGTATGT
Statistics
Matches: 291, Mismatches: 36, Indels: 44
0.78 0.10 0.12
Matches are distributed among these distances:
114 11 0.04
115 60 0.21
116 92 0.32
117 90 0.31
118 29 0.10
119 9 0.03
ACGTcount: A:0.38, C:0.04, G:0.24, T:0.33
Consensus pattern (115 bp):
AAAATGGTAATTTTTAAAAAGTTTGAGGTAAAAATGAAATTTTTAAACAGTCGAGGGTAAAATGG
TAATTTTGGAAGGTTTGGGGTTAAAATGAATTTTTGGAAAATTCAGGGTT
Found at i:24862 original size:29 final size:29
Alignment explanation
Indices: 24788--24966 Score: 150
Period size: 29 Copynumber: 6.1 Consensus size: 29
24778 AAAAATGAAA
* *
24788 TTTTAGACATTTGAGGGTAAAATGGTGAT
1 TTTTAGACATTCGAGGGTAAAATGGTAAT
* * *
24817 TTTTGGAAAGTTCGAGGTTAAAAATGG-AAT
1 TTTTAGACA-TTCGAGGGT-AAAATGGTAAT
*
24847 TTTTAGACATCCGAGGGTAAAATGGTAA-
1 TTTTAGACATTCGAGGGTAAAATGGTAAT
* *
24875 TTTTAGAAGGATTTG-GGGTTAAAAATGG-AAT
1 TTTTAG-A-CATTCGAGGG-T-AAAATGGTAAT
** * *
24906 AGTTAGACATTTGGGGGTAAAATGGTAAT
1 TTTTAGACATTCGAGGGTAAAATGGTAAT
**
24935 TTTTAGACATTTAAGGGTAAAATGGTAAT
1 TTTTAGACATTCGAGGGTAAAATGGTAAT
24964 TTT
1 TTT
24967 GGAATTTTTA
Statistics
Matches: 121, Mismatches: 19, Indels: 20
0.76 0.12 0.12
Matches are distributed among these distances:
28 20 0.17
29 57 0.47
30 26 0.21
31 18 0.15
ACGTcount: A:0.35, C:0.04, G:0.26, T:0.35
Consensus pattern (29 bp):
TTTTAGACATTCGAGGGTAAAATGGTAAT
Found at i:24878 original size:59 final size:58
Alignment explanation
Indices: 24748--25089 Score: 248
Period size: 59 Copynumber: 5.7 Consensus size: 58
24738 ACTCGGCAGC
* * *
24748 AAAATGGTAATTTTTGGAAAGTTCG-GAGTCAAAAAT-GAAATTTTAGACATTTGAGGGT
1 AAAATGGTAA-TTTTGGAAAGTTCGAG-GTTAAAAATGGAATTTTTAGACATTCGAGGGT
* *
24806 AAAATGGTGATTTTTGGAAAGTTCGAGGTTAAAAATGGAATTTTTAGACATCCGAGGGT
1 AAAATGGT-AATTTTGGAAAGTTCGAGGTTAAAAATGGAATTTTTAGACATTCGAGGGT
* * * * ** * *
24865 AAAATGGTAATTTTAGAAGGATTTGGGGTTAAAAATGGAATAGTTAGACATTTGGGGGT
1 AAAATGGTAATTTTGGAAAG-TTCGAGGTTAAAAATGGAATTTTTAGACATTCGAGGGT
* * ** * *
24924 AAAATGGTAATTTTTAGACA-TTTAAGGGTAAAATGGTAATTTTGGAATTTTTAGACA-TCCAGG
1 AAAATGGTAA-TTTTGGAAAGTTCGA-GGTTAAA----AA---TGGAATTTTTAGACATTCGA-G
24987 GGT
56 GGT
* * * * * * * *
24990 AAAATGGTAATTTTGGAAGGTTTGAGG-TCAAAATGTAATTTTTTGAAATTCAAGGTT
1 AAAATGGTAATTTTGGAAAGTTCGAGGTTAAAAATGGAATTTTTAGACATTCGAGGGT
25047 AAAAATGG-AATTTTGGAAAGTTCG-GGTTTAAAAATGGAATTTT
1 -AAAATGGTAATTTTGGAAAGTTCGAGG-TTAAAAATGGAATTTT
25090 GGAAAAATTC
Statistics
Matches: 225, Mismatches: 40, Indels: 38
0.74 0.13 0.13
Matches are distributed among these distances:
56 2 0.01
57 29 0.13
58 65 0.29
59 76 0.34
60 9 0.04
63 2 0.01
64 2 0.01
65 9 0.04
66 31 0.14
ACGTcount: A:0.36, C:0.04, G:0.25, T:0.35
Consensus pattern (58 bp):
AAAATGGTAATTTTGGAAAGTTCGAGGTTAAAAATGGAATTTTTAGACATTCGAGGGT
Found at i:24973 original size:37 final size:37
Alignment explanation
Indices: 24932--25007 Score: 125
Period size: 37 Copynumber: 2.1 Consensus size: 37
24922 GTAAAATGGT
**
24932 AATTTTTAGACATTTAAGGGTAAAATGGTAATTTTGG
1 AATTTTTAGACATCCAAGGGTAAAATGGTAATTTTGG
*
24969 AATTTTTAGACATCCAGGGGTAAAATGGTAATTTTGG
1 AATTTTTAGACATCCAAGGGTAAAATGGTAATTTTGG
25006 AA
1 AA
25008 GGTTTGAGGT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.36, C:0.05, G:0.22, T:0.37
Consensus pattern (37 bp):
AATTTTTAGACATCCAAGGGTAAAATGGTAATTTTGG
Found at i:25065 original size:28 final size:29
Alignment explanation
Indices: 25019--25103 Score: 93
Period size: 29 Copynumber: 2.9 Consensus size: 29
25009 GTTTGAGGTC
* *
25019 AAAATGTAATTTTTTGAAATTCAAGG-TTA
1 AAAATGGAA-TTTTGGAAATTCAAGGTTTA
*
25048 AAAATGGAATTTTGGAAAGTTC-GGGTTTA
1 AAAATGGAATTTTGGAAA-TTCAAGGTTTA
25077 AAAATGGAATTTTGGAAAAATTCAAGG
1 AAAATGGAATTTTGG--AAATTCAAGG
25104 GTCAAAATAT
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
28 10 0.21
29 29 0.62
30 3 0.06
31 5 0.11
ACGTcount: A:0.41, C:0.04, G:0.21, T:0.34
Consensus pattern (29 bp):
AAAATGGAATTTTGGAAATTCAAGGTTTA
Found at i:26184 original size:3 final size:3
Alignment explanation
Indices: 26176--26233 Score: 80
Period size: 3 Copynumber: 19.0 Consensus size: 3
26166 TCGTTTTCTT
* * *
26176 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA ATG TTA TTA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
26224 TTAA TTA TTA
1 TT-A TTA TTA
26234 CATTTATTAC
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
3 45 0.94
4 3 0.06
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:26250 original size:22 final size:22
Alignment explanation
Indices: 26205--26250 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
26195 TATTATTATT
*
26205 ATTATTAATGTTATTAATATTA
1 ATTATTAATGTTATTAATACTA
*
26227 ATTATTACAT-TTATTACTACTA
1 ATTATTA-ATGTTATTAATACTA
26249 AT
1 AT
26251 AAAATTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 19 0.90
23 2 0.10
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (22 bp):
ATTATTAATGTTATTAATACTA
Found at i:26963 original size:6 final size:6
Alignment explanation
Indices: 26911--26990 Score: 69
Period size: 6 Copynumber: 13.8 Consensus size: 6
26901 GACTTTGAAA
* * * * *
26911 TTAAAT TTAAAG TTAAGT TTAAA- AT-CAT TTCAAAT TTAAA- CTAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TT-AAAT TTAAAT TTAAAT
*
26957 TTAAAT TTAAAT TTAAAT TTAAA- GTAAAT TTAAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAA
26991 ACCAATCTAA
Statistics
Matches: 57, Mismatches: 12, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
4 1 0.02
5 10 0.18
6 42 0.74
7 4 0.07
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (6 bp):
TTAAAT
Found at i:28704 original size:29 final size:29
Alignment explanation
Indices: 28630--28808 Score: 150
Period size: 29 Copynumber: 6.1 Consensus size: 29
28620 AAAAATGAAA
* *
28630 TTTTAGACATTTGAGGGTAAAATGGTGAT
1 TTTTAGACATTCGAGGGTAAAATGGTAAT
* * *
28659 TTTTGGAAAGTTCGAGGTTAAAAATGG-AAT
1 TTTTAGACA-TTCGAGGGT-AAAATGGTAAT
*
28689 TTTTAGACATCCGAGGGTAAAATGGTAA-
1 TTTTAGACATTCGAGGGTAAAATGGTAAT
* *
28717 TTTTAGAAGGATTTG-GGGTTAAAAATGG-AAT
1 TTTTAG-A-CATTCGAGGG-T-AAAATGGTAAT
** * *
28748 AGTTAGACATTTGGGGGTAAAATGGTAAT
1 TTTTAGACATTCGAGGGTAAAATGGTAAT
**
28777 TTTTAGACATTTAAGGGTAAAATGGTAAT
1 TTTTAGACATTCGAGGGTAAAATGGTAAT
28806 TTT
1 TTT
28809 GGAATTTTTA
Statistics
Matches: 121, Mismatches: 19, Indels: 20
0.76 0.12 0.12
Matches are distributed among these distances:
28 20 0.17
29 57 0.47
30 26 0.21
31 18 0.15
ACGTcount: A:0.35, C:0.04, G:0.26, T:0.35
Consensus pattern (29 bp):
TTTTAGACATTCGAGGGTAAAATGGTAAT
Found at i:28720 original size:59 final size:58
Alignment explanation
Indices: 28590--28931 Score: 248
Period size: 59 Copynumber: 5.7 Consensus size: 58
28580 ACTCGGCAGC
* * *
28590 AAAATGGTAATTTTTGGAAAGTTCG-GAGTCAAAAAT-GAAATTTTAGACATTTGAGGGT
1 AAAATGGTAA-TTTTGGAAAGTTCGAG-GTTAAAAATGGAATTTTTAGACATTCGAGGGT
* *
28648 AAAATGGTGATTTTTGGAAAGTTCGAGGTTAAAAATGGAATTTTTAGACATCCGAGGGT
1 AAAATGGT-AATTTTGGAAAGTTCGAGGTTAAAAATGGAATTTTTAGACATTCGAGGGT
* * * * ** * *
28707 AAAATGGTAATTTTAGAAGGATTTGGGGTTAAAAATGGAATAGTTAGACATTTGGGGGT
1 AAAATGGTAATTTTGGAAAG-TTCGAGGTTAAAAATGGAATTTTTAGACATTCGAGGGT
* * ** * *
28766 AAAATGGTAATTTTTAGACA-TTTAAGGGTAAAATGGTAATTTTGGAATTTTTAGACA-TCCAGG
1 AAAATGGTAA-TTTTGGAAAGTTCGA-GGTTAAA----AA---TGGAATTTTTAGACATTCGA-G
28829 GGT
56 GGT
* * * * * * * *
28832 AAAATGGTAATTTTGGAAGGTTTGAGG-TCAAAATGTAATTTTTTGAAATTCAAGGTT
1 AAAATGGTAATTTTGGAAAGTTCGAGGTTAAAAATGGAATTTTTAGACATTCGAGGGT
28889 AAAAATGG-AATTTTGGAAAGTTCG-GGTTTAAAAATGGAATTTT
1 -AAAATGGTAATTTTGGAAAGTTCGAGG-TTAAAAATGGAATTTT
28932 GGAAAAATTC
Statistics
Matches: 225, Mismatches: 40, Indels: 38
0.74 0.13 0.13
Matches are distributed among these distances:
56 2 0.01
57 29 0.13
58 65 0.29
59 76 0.34
60 9 0.04
63 2 0.01
64 2 0.01
65 9 0.04
66 31 0.14
ACGTcount: A:0.36, C:0.04, G:0.25, T:0.35
Consensus pattern (58 bp):
AAAATGGTAATTTTGGAAAGTTCGAGGTTAAAAATGGAATTTTTAGACATTCGAGGGT
Found at i:28815 original size:37 final size:37
Alignment explanation
Indices: 28774--28849 Score: 125
Period size: 37 Copynumber: 2.1 Consensus size: 37
28764 GTAAAATGGT
**
28774 AATTTTTAGACATTTAAGGGTAAAATGGTAATTTTGG
1 AATTTTTAGACATCCAAGGGTAAAATGGTAATTTTGG
*
28811 AATTTTTAGACATCCAGGGGTAAAATGGTAATTTTGG
1 AATTTTTAGACATCCAAGGGTAAAATGGTAATTTTGG
28848 AA
1 AA
28850 GGTTTGAGGT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.36, C:0.05, G:0.22, T:0.37
Consensus pattern (37 bp):
AATTTTTAGACATCCAAGGGTAAAATGGTAATTTTGG
Found at i:28907 original size:28 final size:29
Alignment explanation
Indices: 28861--28945 Score: 93
Period size: 29 Copynumber: 2.9 Consensus size: 29
28851 GTTTGAGGTC
* *
28861 AAAATGTAATTTTTTGAAATTCAAGG-TTA
1 AAAATGGAA-TTTTGGAAATTCAAGGTTTA
*
28890 AAAATGGAATTTTGGAAAGTTC-GGGTTTA
1 AAAATGGAATTTTGGAAA-TTCAAGGTTTA
28919 AAAATGGAATTTTGGAAAAATTCAAGG
1 AAAATGGAATTTTGG--AAATTCAAGG
28946 GTCAAAATAT
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
28 10 0.21
29 29 0.62
30 3 0.06
31 5 0.11
ACGTcount: A:0.41, C:0.04, G:0.21, T:0.34
Consensus pattern (29 bp):
AAAATGGAATTTTGGAAATTCAAGGTTTA
Found at i:30026 original size:3 final size:3
Alignment explanation
Indices: 30018--30075 Score: 80
Period size: 3 Copynumber: 19.0 Consensus size: 3
30008 TCGTTTTCTT
* * *
30018 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA ATG TTA TTA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
30066 TTAA TTA TTA
1 TT-A TTA TTA
30076 CATTTATTAC
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
3 45 0.94
4 3 0.06
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:30092 original size:22 final size:22
Alignment explanation
Indices: 30047--30092 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
30037 TATTATTATT
*
30047 ATTATTAATGTTATTAATATTA
1 ATTATTAATGTTATTAATACTA
*
30069 ATTATTACAT-TTATTACTACTA
1 ATTATTA-ATGTTATTAATACTA
30091 AT
1 AT
30093 AAAATTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 19 0.90
23 2 0.10
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (22 bp):
ATTATTAATGTTATTAATACTA
Found at i:30805 original size:6 final size:6
Alignment explanation
Indices: 30753--30832 Score: 69
Period size: 6 Copynumber: 13.8 Consensus size: 6
30743 GACTTTGAAA
* * * * *
30753 TTAAAT TTAAAG TTAAGT TTAAA- AT-CAT TTCAAAT TTAAA- CTAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TT-AAAT TTAAAT TTAAAT
*
30799 TTAAAT TTAAAT TTAAAT TTAAA- GTAAAT TTAAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAA
30833 ACCAATCTAA
Statistics
Matches: 57, Mismatches: 12, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
4 1 0.02
5 10 0.18
6 42 0.74
7 4 0.07
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (6 bp):
TTAAAT
Found at i:33933 original size:17 final size:18
Alignment explanation
Indices: 33872--33934 Score: 67
Period size: 17 Copynumber: 3.6 Consensus size: 18
33862 ATTTGTTTAA
* *
33872 AAATTTAAATTTAAT-TC
1 AAATTTAAAATTATTATC
* * *
33889 AAGTTTAAATTTATTTTC
1 AAATTTAAAATTATTATC
33907 AAATTTAAAATTATTAT-
1 AAATTTAAAATTATTATC
33924 AAATTTAAAAT
1 AAATTTAAAAT
33935 AAATAAAGTT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
17 24 0.60
18 16 0.40
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.48
Consensus pattern (18 bp):
AAATTTAAAATTATTATC
Found at i:34188 original size:15 final size:15
Alignment explanation
Indices: 34170--34203 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
34160 TCAACCGCCA
34170 CTGCCACCGCCAAAC
1 CTGCCACCGCCAAAC
34185 CTGCCACCGCCAAAC
1 CTGCCACCGCCAAAC
34200 CTGC
1 CTGC
34204 AAAAAAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.24, C:0.53, G:0.15, T:0.09
Consensus pattern (15 bp):
CTGCCACCGCCAAAC
Found at i:34566 original size:29 final size:29
Alignment explanation
Indices: 34534--34802 Score: 174
Period size: 29 Copynumber: 9.2 Consensus size: 29
34524 AAAATTACCC
34534 TTTTGACCCCCGAACTTCCAAAAATCCCA
1 TTTTGACCCCCGAACTTCCAAAAATCCCA
* ***
34563 TTTTTTACCCTAAAACTTCCAAAAAAT-CCA
1 -TTTTGACCCCCGAACTTCC-AAAAATCCCA
* * * * *
34593 TTTTTACCCTCGAACTTTCAAAAATTCCG
1 TTTTGACCCCCGAACTTCCAAAAATCCCA
*
34622 TTTTCACCCCCGAACTTCCAAAAATCCCA
1 TTTTGACCCCCGAACTTCCAAAAATCCCA
* ** * *
34651 TTTTCACCCCTAAAACTTCCAAAAATTCAA
1 TTTTGACCCC-CGAACTTCCAAAAATCCCA
* * *
34681 TTTTCACCCCCGAACGTCCAAAAA-CTCTA
1 TTTTGACCCCCGAACTTCCAAAAATC-CCA
* * ** *
34710 TCTTCGACCTCAAAAC-TCTCAAAATTACCC-
1 T-TTTGACCCCCGAACTTC-CAAAAAT-CCCA
*
34740 TTTT-ACCCCCGAACTTCCAAAAATTCCA
1 TTTTGACCCCCGAACTTCCAAAAATCCCA
*
34768 TTTTTGA--CCCGAAACTTCCAAAAATTACCA
1 -TTTTGACCCCCG-AACTTCCAAAAA-TCCCA
34798 TTTTG
1 TTTTG
34803 CCCTCGGATG
Statistics
Matches: 189, Mismatches: 36, Indels: 29
0.74 0.14 0.11
Matches are distributed among these distances:
27 2 0.01
28 23 0.12
29 93 0.49
30 63 0.33
31 7 0.04
32 1 0.01
ACGTcount: A:0.33, C:0.33, G:0.04, T:0.30
Consensus pattern (29 bp):
TTTTGACCCCCGAACTTCCAAAAATCCCA
Found at i:34652 original size:58 final size:57
Alignment explanation
Indices: 34546--34801 Score: 200
Period size: 58 Copynumber: 4.4 Consensus size: 57
34536 TTGACCCCCG
* * *** *
34546 AACTTCCAAAAATCCCATTTTTTACCCTAAAACTTCCAAAAAAT-CCATTTTTACCCTCG
1 AACTTCCAAAAATTCCA-TTTTCACCCCCGAACTTCC-AAAAATCCCATTTTTA-CCTCA
* * * *
34605 AACTTTCAAAAATTCCGTTTTCACCCCCGAACTTCCAAAAATCCCATTTTCACCCCTAA
1 AACTTCCAAAAATTCCATTTTCACCCCCGAACTTCCAAAAATCCCATTTTTA--CCTCA
* * * **
34664 AACTTCCAAAAATTCAATTTTCACCCCCGAACGTCCAAAAA-CTCTATCTTCGACCTCAA
1 AACTTCCAAAAATTCCATTTTCACCCCCGAACTTCCAAAAATC-CCAT-TTTTACCTC-A
* *
34723 AAC-TCTC-AAAATTACCCTTTT-ACCCCCGAACTTCCAAAAATTCCATTTTTGACC-CGA
1 AACTTC-CAAAAATT-CCATTTTCACCCCCGAACTTCCAAAAATCCCATTTTT-ACCTC-A
34780 AACTTCCAAAAATTACCATTTT
1 AACTTCCAAAAATT-CCATTTT
34802 GCCCTCGGAT
Statistics
Matches: 159, Mismatches: 27, Indels: 23
0.76 0.13 0.11
Matches are distributed among these distances:
57 14 0.09
58 74 0.47
59 68 0.43
60 3 0.02
ACGTcount: A:0.34, C:0.32, G:0.04, T:0.30
Consensus pattern (57 bp):
AACTTCCAAAAATTCCATTTTCACCCCCGAACTTCCAAAAATCCCATTTTTACCTCA
Found at i:34671 original size:88 final size:89
Alignment explanation
Indices: 34524--34704 Score: 258
Period size: 88 Copynumber: 2.0 Consensus size: 89
34514 AAACTGTCTC
* *
34524 AAAATTACCCTTTTGACCCCCGAACTTCCAAAAATCCCATTTTTTACCCTAAAACTTCCAAAAAA
1 AAAATTACCCTTTTCACCCCCGAACTTCCAAAAATCCCATTTTTCACCCTAAAACTTCCAAAAAA
* * * * *
34589 TCCATTTTTACCCTCGAACTTTCA
66 TCAATTTTCACCCCCGAACGTCCA
*
34613 AAAATT-CCGTTTTCACCCCCGAACTTCCAAAAATCCCA-TTTTCACCCCTAAAACTTCCAAAAA
1 AAAATTACCCTTTTCACCCCCGAACTTCCAAAAATCCCATTTTTCA-CCCTAAAACTTCCAAAAA
*
34676 TTCAATTTTCACCCCCGAACGTCCA
65 ATCAATTTTCACCCCCGAACGTCCA
34701 AAAA
1 AAAA
34705 CTCTATCTTC
Statistics
Matches: 82, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
87 5 0.06
88 71 0.87
89 6 0.07
ACGTcount: A:0.35, C:0.33, G:0.04, T:0.28
Consensus pattern (89 bp):
AAAATTACCCTTTTCACCCCCGAACTTCCAAAAATCCCATTTTTCACCCTAAAACTTCCAAAAAA
TCAATTTTCACCCCCGAACGTCCA
Found at i:34685 original size:59 final size:57
Alignment explanation
Indices: 34546--34801 Score: 207
Period size: 59 Copynumber: 4.4 Consensus size: 57
34536 TTGACCCCCG
* * *** * **
34546 AACTTCCAAAAATCCCATTTTTTACCCTAAAACTTCCAAAAAAT-CCATTTTTACCCTCG
1 AACTTCCAAAAATTCCA-TTTTCACCCCCGAACTTCC-AAAAATCCCATTTTCACCC-AA
* *
34605 AACTTTCAAAAATTCCGTTTTCACCCCCGAACTTCCAAAAATCCCATTTTCACCCCTAA
1 AACTTCCAAAAATTCCATTTTCACCCCCGAACTTCCAAAAATCCCATTTTCA-CCC-AA
* * * *
34664 AACTTCCAAAAATTCAATTTTCACCCCCGAACGTCCAAAAA-CTCTATCTTCGACCTCAA
1 AACTTCCAAAAATTCCATTTTCACCCCCGAACTTCCAAAAATC-CCATTTTC-ACC-CAA
* * * *
34723 AAC-TCTC-AAAATTACCCTTTT-ACCCCCGAACTTCCAAAAATTCCATTTTTGACCCGA
1 AACTTC-CAAAAATT-CCATTTTCACCCCCGAACTTCCAAAAATCCCA-TTTTCACCCAA
34780 AACTTCCAAAAATTACCATTTT
1 AACTTCCAAAAATT-CCATTTT
34802 GCCCTCGGAT
Statistics
Matches: 161, Mismatches: 25, Indels: 23
0.77 0.12 0.11
Matches are distributed among these distances:
57 12 0.07
58 70 0.43
59 77 0.48
60 2 0.01
ACGTcount: A:0.34, C:0.32, G:0.04, T:0.30
Consensus pattern (57 bp):
AACTTCCAAAAATTCCATTTTCACCCCCGAACTTCCAAAAATCCCATTTTCACCCAA
Found at i:34817 original size:58 final size:56
Alignment explanation
Indices: 34580--34922 Score: 200
Period size: 58 Copynumber: 5.9 Consensus size: 56
34570 CCCTAAAACT
* * *
34580 TCCAAAAAATCCATTTTT-ACCCTCG-AACTTTCAAAAATT-CCGTTTTCACCCCCGAACT-
1 TCCAAAAATTCCATTTTTGA-CC-CGAAAC-TTCCAAAATTACCATTTT-A-CCCCGAA-TG
* * * * *
34638 TCCAAAAATCCCA-TTTTCACCCCTAAAACTTCCAAAAATT-CAATTTTCACCCCCGAACG
1 TCCAAAAATTCCATTTTTGA-CCC-GAAACTTCC-AAAATTACCATTTT-A-CCCCGAATG
* * * * * *
34697 TCCAAAAACTCTATCTTCGACCTCAAAAC-TCTCAAAATTACCCTTTTACCCCCGAACT-
1 TCCAAAAATTCCATTTTTGACC-CGAAACTTC-CAAAATTACCATTTTA-CCCCGAA-TG
* *
34755 TCCAAAAATTCCATTTTTGACCCGAAACTTCCAAAAATTACCATTTTGCCCTCGGATG
1 TCCAAAAATTCCATTTTTGACCCGAAACTTCC-AAAATTACCATTTTACCC-CGAATG
* * * *
34813 TCCAAAAACTCCATTCTCGACCTCGAAAC-TCTCAAAATTACCCTTTTACCCCGAATG
1 TCCAAAAATTCCATTTTTGACC-CGAAACTTC-CAAAATTACCATTTTACCCCGAATG
* * ** * *
34870 TCTAAAAATTCCATTTTTTACCCTGAATTTTCCCAAAATTATCATTTCACCCC
1 TCCAAAAATTCCATTTTTGACCC-GAAACTT-CCAAAATTACCATTTTACCCC
34923 CAAGAATCCA
Statistics
Matches: 226, Mismatches: 40, Indels: 38
0.74 0.13 0.12
Matches are distributed among these distances:
56 1 0.00
57 40 0.18
58 126 0.56
59 55 0.24
60 4 0.02
ACGTcount: A:0.32, C:0.33, G:0.05, T:0.30
Consensus pattern (56 bp):
TCCAAAAATTCCATTTTTGACCCGAAACTTCCAAAATTACCATTTTACCCCGAATG
Found at i:34842 original size:116 final size:118
Alignment explanation
Indices: 34600--34923 Score: 371
Period size: 116 Copynumber: 2.8 Consensus size: 118
34590 CCATTTTTAC
* * *
34600 CCTCG-AACTTTCAAAAATT-CCGTTTTCACCCCCGAACTTCCAAAAATCCCA-TTTTCACCCCT
1 CCTCGAAACTCTC-AAAATTACCCTTTT-ACCCCCGAACTTCCAAAAATTCCATTTTTCA-CCCT
* * *
34662 AAAACTTCCAAAAATT-CAATTTTCACCCCCGAACGTCCAAAAACTCTATCTTCGA
63 GAAACTTCCAAAAATTACCATTTTCACCCCCGAACGTCCAAAAACTCCATCTTCGA
* *
34717 CCTCAAAACTCTCAAAATTACCCTTTTACCCCCGAACTTCCAAAAATTCCATTTTTGACCC-GAA
1 CCTCGAAACTCTCAAAATTACCCTTTTACCCCCGAACTTCCAAAAATTCCATTTTTCACCCTGAA
* * * *
34781 ACTTCCAAAAATTACCATTTT-GCCCTCGGATGTCCAAAAACTCCAT-TCTCGA
66 ACTTCCAAAAATTACCATTTTCACCCCCGAACGTCCAAAAACTCCATCT-TCGA
* *
34833 CCTCGAAACTCTCAAAATTACCCTTTTA-CCCCGAA-TGTCTAAAAATTCCATTTTTTACCCTGA
1 CCTCGAAACTCTCAAAATTACCCTTTTACCCCCGAACT-TCCAAAAATTCCATTTTTCACCCTGA
** * *
34896 ATTTTCCCAAAATTATCA-TTTCACCCCC
65 AACTTCCAAAAATTACCATTTTCACCCCC
34924 AAGAATCCAA
Statistics
Matches: 178, Mismatches: 21, Indels: 17
0.82 0.10 0.08
Matches are distributed among these distances:
114 1 0.01
115 32 0.18
116 86 0.48
117 42 0.24
118 17 0.10
ACGTcount: A:0.31, C:0.33, G:0.06, T:0.30
Consensus pattern (118 bp):
CCTCGAAACTCTCAAAATTACCCTTTTACCCCCGAACTTCCAAAAATTCCATTTTTCACCCTGAA
ACTTCCAAAAATTACCATTTTCACCCCCGAACGTCCAAAAACTCCATCTTCGA
Found at i:41569 original size:30 final size:30
Alignment explanation
Indices: 41535--41599 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
41525 CAACTTAACA
*
41535 AACAAATACCTCTAAAATAGTAACAAAATT
1 AACAAATACCTCTAAAATAATAACAAAATT
*
41565 AACAAATGCCTCTAAAATAATAACAAAATT
1 AACAAATACCTCTAAAATAATAACAAAATT
41595 AACAA
1 AACAA
41600 TAAAATAAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.58, C:0.17, G:0.03, T:0.22
Consensus pattern (30 bp):
AACAAATACCTCTAAAATAATAACAAAATT
Found at i:43267 original size:22 final size:22
Alignment explanation
Indices: 43239--43283 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
43229 ACTCTGGGTG
43239 AAAAAAAGTATGACTAAAAACA
1 AAAAAAAGTATGACTAAAAACA
*
43261 AAAAAAAGTATGAGTAAAAACA
1 AAAAAAAGTATGACTAAAAACA
43283 A
1 A
43284 TCTCTTTCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.69, C:0.07, G:0.11, T:0.13
Consensus pattern (22 bp):
AAAAAAAGTATGACTAAAAACA
Found at i:46936 original size:17 final size:17
Alignment explanation
Indices: 46914--46946 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
46904 ATCTATAAAT
*
46914 ATAAATTCAATACAATC
1 ATAAATTAAATACAATC
46931 ATAAATTAAATACAAT
1 ATAAATTAAATACAAT
46947 ATAGTTATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (17 bp):
ATAAATTAAATACAATC
Found at i:46946 original size:22 final size:24
Alignment explanation
Indices: 46903--46947 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
46893 TTCTTTTTAG
*
46903 AATCTATAAATATAAATTCAATAC
1 AATCTATAAATATAAATACAATAC
46927 AATC-ATAAAT-TAAATACAATA
1 AATCTATAAATATAAATACAATA
46948 TAGTTATGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 10 0.50
23 6 0.30
24 4 0.20
ACGTcount: A:0.58, C:0.11, G:0.00, T:0.31
Consensus pattern (24 bp):
AATCTATAAATATAAATACAATAC
Found at i:50819 original size:7 final size:7
Alignment explanation
Indices: 50807--50838 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
50797 TGTATGTCTG
50807 TTGGCTT
1 TTGGCTT
50814 TTGGCTT
1 TTGGCTT
50821 TTGGCTT
1 TTGGCTT
50828 TTGGCTT
1 TTGGCTT
50835 TTGG
1 TTGG
50839 ATGGGCATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.00, C:0.12, G:0.31, T:0.56
Consensus pattern (7 bp):
TTGGCTT
Found at i:51520 original size:25 final size:25
Alignment explanation
Indices: 51492--51576 Score: 75
Period size: 25 Copynumber: 3.4 Consensus size: 25
51482 ATTTCGCGTA
51492 TATTTATAAATGATTAATTTAGATT
1 TATTTATAAATGATTAATTTAGATT
* ** * *
51517 TATTTAT--ATTACTCCATTTTGCATA
1 TATTTATAAATGA-TTAATTTAG-ATT
* *
51542 TATTTATAAATGATTAATTCAAATT
1 TATTTATAAATGATTAATTTAGATT
51567 TATTTATAAA
1 TATTTATAAA
51577 CTTTTTAAAG
Statistics
Matches: 44, Mismatches: 12, Indels: 8
0.69 0.19 0.12
Matches are distributed among these distances:
23 3 0.07
24 6 0.14
25 28 0.64
26 4 0.09
27 3 0.07
ACGTcount: A:0.39, C:0.06, G:0.05, T:0.51
Consensus pattern (25 bp):
TATTTATAAATGATTAATTTAGATT
Found at i:51550 original size:50 final size:50
Alignment explanation
Indices: 51475--51574 Score: 164
Period size: 50 Copynumber: 2.0 Consensus size: 50
51465 CGTCTAATTT
* * *
51475 TTACTCCATTTCGCGTATATTTATAAATGATTAATTTAGATTTATTTATA
1 TTACTCCATTTCGCATATATTTATAAATGATTAATTCAAATTTATTTATA
*
51525 TTACTCCATTTTGCATATATTTATAAATGATTAATTCAAATTTATTTATA
1 TTACTCCATTTCGCATATATTTATAAATGATTAATTCAAATTTATTTATA
51575 AACTTTTTAA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.34, C:0.10, G:0.06, T:0.50
Consensus pattern (50 bp):
TTACTCCATTTCGCATATATTTATAAATGATTAATTCAAATTTATTTATA
Found at i:54923 original size:3 final size:3
Alignment explanation
Indices: 54915--54948 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
54905 ATTGAATTAA
54915 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
54949 AATGAATCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:65006 original size:2 final size:2
Alignment explanation
Indices: 65001--65038 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
64991 ATGTATCTAC
65001 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
65039 ATGAAGCAGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:67499 original size:23 final size:22
Alignment explanation
Indices: 67473--67528 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
67463 ATTATGTATT
*
67473 AATAACATGAAAAAAATTATAAA
1 AATAACAT-AAAAAAATTAAAAA
* * *
67496 AATATCATTAAATAATTAAAAA
1 AATAACATAAAAAAATTAAAAA
*
67518 AATATCATAAA
1 AATAACATAAA
67529 TAATGTGATG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 21 0.75
23 7 0.25
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (22 bp):
AATAACATAAAAAAATTAAAAA
Found at i:67528 original size:21 final size:22
Alignment explanation
Indices: 67487--67532 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
67477 ACATGAAAAA
*
67487 AATTATAAAAATATCATTAAAT
1 AATTAAAAAAATATCATTAAAT
67509 AATTAAAAAAATATCA-TAAAT
1 AATTAAAAAAATATCATTAAAT
67530 AAT
1 AAT
67533 GTGATGAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 8 0.35
22 15 0.65
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (22 bp):
AATTAAAAAAATATCATTAAAT
Found at i:67859 original size:14 final size:15
Alignment explanation
Indices: 67842--67871 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
67832 TTTGATTTTT
67842 TATTTATTT-TAAAA
1 TATTTATTTATAAAA
67856 TATTTATTTATAAAA
1 TATTTATTTATAAAA
67871 T
1 T
67872 TTAAATTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TATTTATTTATAAAA
Found at i:69487 original size:5 final size:5
Alignment explanation
Indices: 69477--69504 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
69467 TGAGCGGAAA
69477 AGAAG AGAAG AGAAG AGAAG AGAAG AGA
1 AGAAG AGAAG AGAAG AGAAG AGAAG AGA
69505 CGACACGGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (5 bp):
AGAAG
Found at i:74692 original size:17 final size:17
Alignment explanation
Indices: 74672--74706 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
74662 TTTAAATTGT
*
74672 TTTTATATAAAAATAAA
1 TTTTAAATAAAAATAAA
*
74689 TTTTAAATAATAATAAA
1 TTTTAAATAAAAATAAA
74706 T
1 T
74707 CAAATATATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TTTTAAATAAAAATAAA
Found at i:75976 original size:5 final size:5
Alignment explanation
Indices: 75966--75994 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
75956 CAAAGGAAAT
75966 GGTTG GGTTG GGTTG GGTTG GGTTG GGTT
1 GGTTG GGTTG GGTTG GGTTG GGTTG GGTT
75995 TGGGGTTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.59, T:0.41
Consensus pattern (5 bp):
GGTTG
Found at i:77727 original size:23 final size:25
Alignment explanation
Indices: 77701--77747 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
77691 CAAATTAGGG
77701 AATTA-TTGTTTAG-ATTTAATTCA
1 AATTACTTGTTTAGAATTTAATTCA
*
77724 AATTATCTTTTTTAGAATTTAATT
1 AATTA-CTTGTTTAGAATTTAATT
77748 TGGATCCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 5 0.25
25 7 0.35
26 8 0.40
ACGTcount: A:0.34, C:0.04, G:0.06, T:0.55
Consensus pattern (25 bp):
AATTACTTGTTTAGAATTTAATTCA
Found at i:81149 original size:63 final size:63
Alignment explanation
Indices: 81050--81170 Score: 224
Period size: 63 Copynumber: 1.9 Consensus size: 63
81040 TCTTACGAGA
81050 GTAACACACTAATAACATAATCATTGAAGAAAGCATAAATCTAAGTTCAATCATAGTATGAGG
1 GTAACACACTAATAACATAATCATTGAAGAAAGCATAAATCTAAGTTCAATCATAGTATGAGG
* *
81113 GTAACACACTAATGACATAATCATTGAAGAAAGCATAAATCTAAGTTCAGTCATAGTA
1 GTAACACACTAATAACATAATCATTGAAGAAAGCATAAATCTAAGTTCAATCATAGTA
81171 CTTTTGATGG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 56 1.00
ACGTcount: A:0.45, C:0.15, G:0.14, T:0.26
Consensus pattern (63 bp):
GTAACACACTAATAACATAATCATTGAAGAAAGCATAAATCTAAGTTCAATCATAGTATGAGG
Found at i:114839 original size:20 final size:20
Alignment explanation
Indices: 114810--114848 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
114800 AAATTTGCAT
* *
114810 ATTTTGAATTTATTTCAATA
1 ATTTTCAATTTAATTCAATA
114830 ATTTTCAATTTAATTCAAT
1 ATTTTCAATTTAATTCAAT
114849 CTTTGTCATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.54
Consensus pattern (20 bp):
ATTTTCAATTTAATTCAATA
Found at i:119258 original size:22 final size:22
Alignment explanation
Indices: 119233--119278 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
119223 AATTAAGATT
*
119233 AATTGGGAGCGAAGAA-AAGAAG
1 AATTAGGAG-GAAGAAGAAGAAG
*
119255 AATTAGGAGGAAGAAGAGGAAG
1 AATTAGGAGGAAGAAGAAGAAG
119277 AA
1 AA
119279 AAAGATCAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.52, C:0.02, G:0.37, T:0.09
Consensus pattern (22 bp):
AATTAGGAGGAAGAAGAAGAAG
Found at i:121363 original size:8 final size:8
Alignment explanation
Indices: 121326--121362 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
121316 TAACTAAGAT
121326 AAATAATA
1 AAATAATA
121334 AAATAATA
1 AAATAATA
*
121342 AAATAACA
1 AAATAATA
*
121350 AAATAGTA
1 AAATAATA
121358 AAATA
1 AAATA
121363 GCATGATTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.73, C:0.03, G:0.03, T:0.22
Consensus pattern (8 bp):
AAATAATA
Found at i:125895 original size:2 final size:2
Alignment explanation
Indices: 125888--125917 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
125878 AGTTTCATGG
125888 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
125918 GGTTAATTTC
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:128097 original size:18 final size:17
Alignment explanation
Indices: 128074--128117 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
128064 TAAATTATGA
128074 AAAAAATACAAAAAGTTT
1 AAAAAATA-AAAAAGTTT
* *
128092 AAAAAATTAAACATGTTT
1 AAAAAA-TAAAAAAGTTT
128110 AAAAAATA
1 AAAAAATA
128118 TGTCACTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 2 0.09
18 19 0.83
19 2 0.09
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.25
Consensus pattern (17 bp):
AAAAAATAAAAAAGTTT
Found at i:129124 original size:22 final size:22
Alignment explanation
Indices: 129090--129144 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
129080 AGTATATAAA
* *
129090 ATAAGAAATTATAATTAAACATT
1 ATAA-AAAATATAATTAAAAATT
129113 -TCAAAAAATATAATTAAAAATT
1 AT-AAAAAATATAATTAAAAATT
129135 ATAAAAAATA
1 ATAAAAAATA
129145 GGTAAAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
22 25 0.89
23 3 0.11
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.31
Consensus pattern (22 bp):
ATAAAAAATATAATTAAAAATT
Found at i:141442 original size:6 final size:6
Alignment explanation
Indices: 141431--141456 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
141421 ATCAAACCTT
141431 ATCTTG ATCTTG ATCTTG ATCTTG AT
1 ATCTTG ATCTTG ATCTTG ATCTTG AT
141457 GTTTATGGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.50
Consensus pattern (6 bp):
ATCTTG
Found at i:141537 original size:21 final size:19
Alignment explanation
Indices: 141494--141540 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
141484 TTCATAACAG
*
141494 TTTTATATTTTTTTTTGAA
1 TTTTATATTCTTTTTTGAA
*
141513 TTTTATATATCTTTTTTGAG
1 TTTTATAT-TCTTTTTTGAA
141533 TTTT-TATT
1 TTTTATATT
141541 TTTATTTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 1 0.04
19 11 0.44
20 13 0.52
ACGTcount: A:0.19, C:0.02, G:0.06, T:0.72
Consensus pattern (19 bp):
TTTTATATTCTTTTTTGAA
Found at i:141549 original size:21 final size:19
Alignment explanation
Indices: 141494--141548 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 19
141484 TTCATAACAG
141494 TTTTATATTTTTTTTTGAA
1 TTTTATATTTTTTTTTGAA
* *
141513 TTTTATATATCTTTTTTGAG
1 TTTTATAT-TTTTTTTTGAA
141533 TTTT-TATTTTTATTTT
1 TTTTATATTTTT-TTTT
141549 TCATTAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
18 3 0.10
19 15 0.48
20 13 0.42
ACGTcount: A:0.18, C:0.02, G:0.05, T:0.75
Consensus pattern (19 bp):
TTTTATATTTTTTTTTGAA
Found at i:142615 original size:15 final size:15
Alignment explanation
Indices: 142595--142624 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
142585 CTACCCTTCT
142595 TCCTTAATTGAAAAG
1 TCCTTAATTGAAAAG
142610 TCCTTAATTGAAAAG
1 TCCTTAATTGAAAAG
142625 GCATTGGCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (15 bp):
TCCTTAATTGAAAAG
Found at i:151629 original size:21 final size:21
Alignment explanation
Indices: 151605--151648 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
151595 TACTTCTAAC
151605 TTATGATGTT-GAAATATT-TTT
1 TTAT-ATGTTAGAAA-ATTGTTT
151626 TTATATGTTAGAAAATTGTTT
1 TTATATGTTAGAAAATTGTTT
151647 TT
1 TT
151649 TTTTTTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.30, C:0.00, G:0.14, T:0.57
Consensus pattern (21 bp):
TTATATGTTAGAAAATTGTTT
Found at i:151647 original size:20 final size:21
Alignment explanation
Indices: 151605--151647 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
151595 TACTTCTAAC
*
151605 TTATGATGTTGAAATATTTTT
1 TTATGATGTTGAAATATTGTT
151626 TTAT-ATGTTAGAAA-ATTGTT
1 TTATGATGTT-GAAATATTGTT
151646 TT
1 TT
151648 TTTTTTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.30, C:0.00, G:0.14, T:0.56
Consensus pattern (21 bp):
TTATGATGTTGAAATATTGTT
Found at i:153367 original size:22 final size:21
Alignment explanation
Indices: 153326--153368 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
153316 AAAAAATTTT
*
153326 AAAAATGATTAAATTGATAAA
1 AAAAATGATTAAATTAATAAA
153347 AAAAAT-ATATAAATTTAATAAA
1 AAAAATGAT-TAAA-TTAATAAA
153369 GTGAATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 2 0.11
21 10 0.53
22 7 0.37
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (21 bp):
AAAAATGATTAAATTAATAAA
Found at i:153716 original size:60 final size:59
Alignment explanation
Indices: 153621--153737 Score: 171
Period size: 60 Copynumber: 2.0 Consensus size: 59
153611 CATCTGTTAG
* * *
153621 TAAATTTATTTTTAATCACTTAACTATGAACAGTTACAAAATGGTCACTTAACTATTAA
1 TAAATTTATTTTTAATCACCTAACTATGAAAAGTTACAAAATGATCACTTAACTATTAA
** *
153680 TAAATTTATTTTTTGGTCACCTAATTATGAAAAGTTACAAAATGATCACTTAACTATT
1 TAAATTTA-TTTTTAATCACCTAACTATGAAAAGTTACAAAATGATCACTTAACTATT
153738 TAATTTTGTG
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
59 8 0.16
60 43 0.84
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.40
Consensus pattern (59 bp):
TAAATTTATTTTTAATCACCTAACTATGAAAAGTTACAAAATGATCACTTAACTATTAA
Found at i:154807 original size:17 final size:17
Alignment explanation
Indices: 154787--154821 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
154777 TTTAAAAATT
154787 AAAAAA-TAAAATGTATA
1 AAAAAATTAAAA-GTATA
154804 AAAAAATTAAAAGTATA
1 AAAAAATTAAAAGTATA
154821 A
1 A
154822 TTACTAGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (17 bp):
AAAAAATTAAAAGTATA
Found at i:166530 original size:45 final size:45
Alignment explanation
Indices: 166480--166570 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
166470 CAACCCGACG
166480 ATGTACAACTCTAATACTAACCTTTATTCCCTTTGCACAAAACTT
1 ATGTACAACTCTAATACTAACCTTTATTCCCTTTGCACAAAACTT
*
166525 ATGTACAACTCTAATATTAACCTTTATTCCCTTTGCACAAAACTT
1 ATGTACAACTCTAATACTAACCTTTATTCCCTTTGCACAAAACTT
166570 A
1 A
166571 CTCAACAAGT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.34, C:0.25, G:0.04, T:0.36
Consensus pattern (45 bp):
ATGTACAACTCTAATACTAACCTTTATTCCCTTTGCACAAAACTT
Found at i:170035 original size:21 final size:22
Alignment explanation
Indices: 170011--170051 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
170001 ACGAAATTTG
*
170011 ATTGA-ATTAACAGAAAAAAGA
1 ATTGATATTAAAAGAAAAAAGA
*
170032 ATTGATATTAAAATAAAAAA
1 ATTGATATTAAAAGAAAAAA
170052 TATATTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.63, C:0.02, G:0.10, T:0.24
Consensus pattern (22 bp):
ATTGATATTAAAAGAAAAAAGA
Found at i:172464 original size:29 final size:31
Alignment explanation
Indices: 172397--172464 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 31
172387 TTAACGTGTA
*
172397 ATTATATATATAAATTTTGATTTTATATAAT
1 ATTATATATATAAATTTTGATTTAATATAAT
*
172428 TTTATATATA-AAATTTTGATTTAAT-TAAAT
1 ATTATATATATAAATTTTGATTTAATAT-AAT
172458 ATT-TATA
1 ATTATATA
172465 AATTATTAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 5 0.15
30 19 0.58
31 9 0.27
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (31 bp):
ATTATATATATAAATTTTGATTTAATATAAT
Found at i:174308 original size:16 final size:18
Alignment explanation
Indices: 174279--174322 Score: 74
Period size: 17 Copynumber: 2.6 Consensus size: 18
174269 CTTATTTAAC
174279 AATAATTTTATATC-AAA
1 AATAATTTTATATCTAAA
174296 AATAATTTT-TATCTAAA
1 AATAATTTTATATCTAAA
174313 AATAATTTTA
1 AATAATTTTA
174323 GAAGCAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.16
17 21 0.84
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (18 bp):
AATAATTTTATATCTAAA
Found at i:175033 original size:11 final size:12
Alignment explanation
Indices: 175017--175063 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
175007 TAAGATGATG
175017 TTTTATTA-TAT
1 TTTTATTATTAT
*
175028 TTTTATCATTAT
1 TTTTATTATTAT
*
175040 TTTTATTACATTAA
1 TTTTATT--ATTAT
175054 TTTTATTATT
1 TTTTATTATT
175064 CATCCTTATG
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
11 7 0.23
12 12 0.40
14 11 0.37
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTTATTATTAT
Found at i:175051 original size:14 final size:14
Alignment explanation
Indices: 175025--175061 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
175015 TGTTTTATTA
175025 TATTTTTA-T-CAT
1 TATTTTTATTACAT
175037 TATTTTTATTACAT
1 TATTTTTATTACAT
*
175051 TAATTTTATTA
1 TATTTTTATTA
175062 TTCATCCTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 8 0.36
13 1 0.05
14 13 0.59
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (14 bp):
TATTTTTATTACAT
Found at i:179955 original size:2 final size:2
Alignment explanation
Indices: 179948--179973 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
179938 ACATACATGG
179948 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
179974 TTCTGATTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:186416 original size:24 final size:24
Alignment explanation
Indices: 186384--186442 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
186374 GGGACCAACG
186384 AAAAA-AGAAGGAAAAAAGAAAGA
1 AAAAAGAGAAGGAAAAAAGAAAGA
* * *
186407 AAAAAGAGAAAGAAAGAAGAAGGA
1 AAAAAGAGAAGGAAAAAAGAAAGA
* *
186431 AGAAGGAGAAGG
1 AAAAAGAGAAGG
186443 GGAAGGAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
23 5 0.17
24 24 0.83
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (24 bp):
AAAAAGAGAAGGAAAAAAGAAAGA
Found at i:186427 original size:11 final size:10
Alignment explanation
Indices: 186383--186427 Score: 56
Period size: 11 Copynumber: 4.3 Consensus size: 10
186373 GGGGACCAAC
186383 GAAAAAAGAA
1 GAAAAAAGAA
186393 GGAAAAAAGAAA
1 -GAAAAAAG-AA
186405 GAAAAAAG-A
1 GAAAAAAGAA
186414 GAAAGAAAGAA
1 GAAA-AAAGAA
186425 GAA
1 GAA
186428 GGAAGAAGGA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
9 5 0.16
10 4 0.13
11 20 0.65
12 2 0.06
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (10 bp):
GAAAAAAGAA
Found at i:186765 original size:163 final size:163
Alignment explanation
Indices: 186571--186928 Score: 662
Period size: 163 Copynumber: 2.2 Consensus size: 163
186561 TTGATTAAAA
** * * *
186571 GAGTAAATTAAGAGGAGTGGAAGATATGTAAGTTTAGTTAATATTTTAAGTATGGTTAATTTTAA
1 GAGTAAATTAAGAGGAGAAGAAGAAATGTAAGTTTAATTAAAATTTTAAGTATGGTTAATTTTAA
186636 AATATTTTAATTTGTTAGTTAATTTGATTATTTTAAGTTTTTTGTTTTCTTTAATTTAATTTTTA
66 AATATTTTAATTTGTTAGTTAATTTGATTATTTTAAGTTTTTTGTTTTCTTTAATTTAATTTTTA
186701 ATTGATTTGTTATTTAATGTTGTTATAGTTGGT
131 ATTGATTTGTTATTTAATGTTGTTATAGTTGGT
186734 GAGTAAATTAAGAGGAGAAGAAGAAATGTAAGTTTAATTAAAATTTTAAGTATGGTTAATTTTAA
1 GAGTAAATTAAGAGGAGAAGAAGAAATGTAAGTTTAATTAAAATTTTAAGTATGGTTAATTTTAA
186799 AATATTTTAATTTGTTAGTTAATTTGATTATTTTAAGTTTTTTGTTTTCTTTAATTTAATTTTTA
66 AATATTTTAATTTGTTAGTTAATTTGATTATTTTAAGTTTTTTGTTTTCTTTAATTTAATTTTTA
186864 ATTGATTTGTTATTTAATGTTGTTATAGTTGGT
131 ATTGATTTGTTATTTAATGTTGTTATAGTTGGT
*
186897 GAGTAAATTAAGAAGAGAAGAAGAAATGTAAG
1 GAGTAAATTAAGAGGAGAAGAAGAAATGTAAG
186929 CTTGTTATTA
Statistics
Matches: 189, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
163 189 1.00
ACGTcount: A:0.34, C:0.01, G:0.17, T:0.49
Consensus pattern (163 bp):
GAGTAAATTAAGAGGAGAAGAAGAAATGTAAGTTTAATTAAAATTTTAAGTATGGTTAATTTTAA
AATATTTTAATTTGTTAGTTAATTTGATTATTTTAAGTTTTTTGTTTTCTTTAATTTAATTTTTA
ATTGATTTGTTATTTAATGTTGTTATAGTTGGT
Found at i:187326 original size:29 final size:29
Alignment explanation
Indices: 187294--187391 Score: 94
Period size: 29 Copynumber: 3.3 Consensus size: 29
187284 TAAACTTAGC
187294 TAATTAATTACCAAAATATAATATACAAA
1 TAATTAATTACCAAAATATAATATACAAA
* * **
187323 TAATTAATTATC-AAA-ATAATATCCCCA
1 TAATTAATTACCAAAATATAATATACAAA
*
187350 TCATATT-ATTGACCAAAATATAATATAAAAAA
1 T-A-ATTAATT-ACCAAAATATAATAT-ACAAA
187382 TAATTAATTA
1 TAATTAATTA
187392 TGAAAATAAT
Statistics
Matches: 53, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
27 10 0.19
28 7 0.13
29 16 0.30
30 7 0.13
31 11 0.21
32 2 0.04
ACGTcount: A:0.54, C:0.11, G:0.01, T:0.34
Consensus pattern (29 bp):
TAATTAATTACCAAAATATAATATACAAA
Found at i:187341 original size:16 final size:16
Alignment explanation
Indices: 187294--187342 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
187284 TAAACTTAGC
*
187294 TAATTAATTACCAAAA
1 TAATTAATTATCAAAA
187310 T-A-TAA-TAT-ACAAA
1 TAATTAATTATCA-AAA
187323 TAATTAATTATCAAAA
1 TAATTAATTATCAAAA
187339 TAAT
1 TAAT
187343 ATCCCCATCA
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
12 1 0.04
13 6 0.22
14 4 0.15
15 4 0.15
16 11 0.41
17 1 0.04
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (16 bp):
TAATTAATTATCAAAA
Found at i:193153 original size:24 final size:24
Alignment explanation
Indices: 193116--193176 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
193106 GACTAATAAA
* * *
193116 AATTTGACTCAAACAACTAAACAG
1 AATTTAACTGAAACAAATAAACAG
* *
193140 AGTTTAATTGAAACAAATAAACAG
1 AATTTAACTGAAACAAATAAACAG
193164 AATTTAACTGAAA
1 AATTTAACTGAAA
193177 GATTATTTCT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.52, C:0.13, G:0.10, T:0.25
Consensus pattern (24 bp):
AATTTAACTGAAACAAATAAACAG
Found at i:198880 original size:16 final size:18
Alignment explanation
Indices: 198844--198877 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
198834 AAAATGTTGC
198844 AATAAATAAGAATATTTT
1 AATAAATAAGAATATTTT
*
198862 AATATATAA-AATATTT
1 AATAAATAAGAATATTT
198878 AATCCTCACC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (18 bp):
AATAAATAAGAATATTTT
Found at i:205218 original size:10 final size:10
Alignment explanation
Indices: 205203--205227 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
205193 TTAGGATCAA
205203 TCTGATTCAG
1 TCTGATTCAG
205213 TCTGATTCAG
1 TCTGATTCAG
205223 TCTGA
1 TCTGA
205228 ATATGGACCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (10 bp):
TCTGATTCAG
Found at i:205553 original size:11 final size:11
Alignment explanation
Indices: 205536--205593 Score: 50
Period size: 11 Copynumber: 5.5 Consensus size: 11
205526 ATAGCAAAAT
205536 AACAACATAAC
1 AACAACATAAC
** *
205547 AGTAACAAAAC
1 AACAACATAAC
205558 AACAACATAAC
1 AACAACATAAC
*
205569 AACAATA-AAC
1 AACAACATAAC
205579 AA-AAGCA-AAC
1 AACAA-CATAAC
205589 AACAA
1 AACAA
205594 TAGGGTTTTT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
9 2 0.05
10 11 0.30
11 24 0.65
ACGTcount: A:0.67, C:0.22, G:0.03, T:0.07
Consensus pattern (11 bp):
AACAACATAAC
Found at i:208056 original size:2 final size:2
Alignment explanation
Indices: 208049--208083 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
208039 AACTAACTCA
208049 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
208084 CTTGGAGCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:212222 original size:2 final size:2
Alignment explanation
Indices: 212215--212241 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
212205 TGTAAAATGC
212215 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 A
212242 GTGATAAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:214788 original size:16 final size:18
Alignment explanation
Indices: 214767--214806 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
214757 ATAAAAGGAT
214767 AGAGAGT-AAAGAGC-AA
1 AGAGAGTGAAAGAGCAAA
*
214783 AGAGAGTGAGAGAGCAAA
1 AGAGAGTGAAAGAGCAAA
214801 AGAGAG
1 AGAGAG
214807 AGCATATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 7 0.33
17 6 0.29
18 8 0.38
ACGTcount: A:0.53, C:0.05, G:0.38, T:0.05
Consensus pattern (18 bp):
AGAGAGTGAAAGAGCAAA
Found at i:217247 original size:6 final size:6
Alignment explanation
Indices: 217238--217294 Score: 66
Period size: 6 Copynumber: 10.0 Consensus size: 6
217228 TTATGATTTA
* * *
217238 TTTATT TTTA-T TTTA-- TTTACT TTTATT TTTATT TTTGTA TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
217283 TTTATT TTTATT
1 TTTATT TTTATT
217295 ATGCACTGTA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
4 4 0.09
5 5 0.11
6 35 0.80
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.79
Consensus pattern (6 bp):
TTTATT
Found at i:217249 original size:10 final size:10
Alignment explanation
Indices: 217234--217289 Score: 55
Period size: 10 Copynumber: 5.7 Consensus size: 10
217224 AGTTTTATGA
217234 TTTATTTATT
1 TTTATTTATT
*
217244 TTTATTT-TA
1 TTTATTTATT
217253 TTTACTTTTATT
1 TTTA--TTTATT
217265 TTTA-TT-TT
1 TTTATTTATT
*
217273 TGTATTTATT
1 TTTATTTATT
217283 TTTATTT
1 TTTATTT
217290 TTATTATGCA
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
8 5 0.14
9 9 0.24
10 15 0.41
11 3 0.08
12 5 0.14
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.79
Consensus pattern (10 bp):
TTTATTTATT
Found at i:217285 original size:24 final size:23
Alignment explanation
Indices: 217238--217294 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 23
217228 TTATGATTTA
217238 TTTATTTTTA--TTTTATTTACT
1 TTTATTTTTATTTTTTATTTACT
*
217259 TTTATTTTTATTTTTGTATTTATT
1 TTTATTTTTATTTTT-TATTTACT
217283 TTTATTTTTATT
1 TTTATTTTTATT
217295 ATGCACTGTA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
21 10 0.31
23 3 0.09
24 19 0.59
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.79
Consensus pattern (23 bp):
TTTATTTTTATTTTTTATTTACT
Found at i:217309 original size:24 final size:24
Alignment explanation
Indices: 217238--217312 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 24
217228 TTATGATTTA
*
217238 TTTATTTTTATTT-T--ATTTACT
1 TTTATTTTTATTTATGCATGTACT
* * * *
217259 TTTATTTTTATTTTTGTATTTATT
1 TTTATTTTTATTTATGCATGTACT
217283 TTTATTTTTA-TTATGCACTGTACT
1 TTTATTTTTATTTATGCA-TGTACT
217307 TTTATT
1 TTTATT
217313 GTTTTGTTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
21 13 0.29
22 1 0.02
23 5 0.11
24 26 0.58
ACGTcount: A:0.19, C:0.05, G:0.04, T:0.72
Consensus pattern (24 bp):
TTTATTTTTATTTATGCATGTACT
Found at i:221015 original size:22 final size:22
Alignment explanation
Indices: 220987--221054 Score: 136
Period size: 22 Copynumber: 3.1 Consensus size: 22
220977 GATGTTGTAA
220987 TAGTGCACATTGTTGTATCCCT
1 TAGTGCACATTGTTGTATCCCT
221009 TAGTGCACATTGTTGTATCCCT
1 TAGTGCACATTGTTGTATCCCT
221031 TAGTGCACATTGTTGTATCCCT
1 TAGTGCACATTGTTGTATCCCT
221053 TA
1 TA
221055 TCTTTATGTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.19, C:0.22, G:0.18, T:0.41
Consensus pattern (22 bp):
TAGTGCACATTGTTGTATCCCT
Found at i:228136 original size:19 final size:20
Alignment explanation
Indices: 228104--228145 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
228094 TTAAATTGAT
*
228104 TTTTTTACAAAATTTTATAA
1 TTTTTTACAAAATTTAATAA
*
228124 TTTTTTA-ATAATTTAATAA
1 TTTTTTACAAAATTTAATAA
228143 TTT
1 TTT
228146 ATAGATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTTTTACAAAATTTAATAA
Found at i:228245 original size:26 final size:25
Alignment explanation
Indices: 228216--228266 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
228206 TTACAAAAGC
*
228216 TATTATT-ATAAATGATAATTTTTTTT
1 TATTATTAAT-AAT-ATAATTATTTTT
*
228242 TATTTTTAATAATATAATTATTTTT
1 TATTATTAATAATATAATTATTTTT
228267 AAGAGACAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 11 0.50
26 9 0.41
27 2 0.09
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (25 bp):
TATTATTAATAATATAATTATTTTT
Found at i:232263 original size:121 final size:122
Alignment explanation
Indices: 232042--232288 Score: 478
Period size: 121 Copynumber: 2.0 Consensus size: 122
232032 GCAAGACAGC
*
232042 AGCTAGCCCAAATAGTTTTTGAGTATGCACACTAAAAAATTAAATGTTTTATGGTTTTTGCATCA
1 AGCTAGCCCAAATAGTTTTCGAGTATGCACACTAAAAAATTAAATGTTTTATGGTTTTTGCATCA
232107 GCGAGACACAGAGCATCTTCCACCAATGTCCATTCCCTTAACAATAAGTCAGTCACA
66 GCGAGACACAGAGCATCTTCCACCAATGTCCATTCCCTTAACAATAAGTCAGTCACA
232164 AGCTAG-CCAAATAGTTTTCGAGTATGCACACTAAAAAATTAAATGTTTTATGGTTTTTGCATCA
1 AGCTAGCCCAAATAGTTTTCGAGTATGCACACTAAAAAATTAAATGTTTTATGGTTTTTGCATCA
232228 GCGAGACACAGAGCATCTTCCACCAATGTCCATTCCCTTAACAATAAGTCAGTCACA
66 GCGAGACACAGAGCATCTTCCACCAATGTCCATTCCCTTAACAATAAGTCAGTCACA
232285 AGCT
1 AGCT
232289 GGCAACCATT
Statistics
Matches: 124, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
121 118 0.95
122 6 0.05
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (122 bp):
AGCTAGCCCAAATAGTTTTCGAGTATGCACACTAAAAAATTAAATGTTTTATGGTTTTTGCATCA
GCGAGACACAGAGCATCTTCCACCAATGTCCATTCCCTTAACAATAAGTCAGTCACA
Found at i:237286 original size:23 final size:22
Alignment explanation
Indices: 237258--237382 Score: 90
Period size: 21 Copynumber: 6.1 Consensus size: 22
237248 GTTATTAAAT
237258 TTTAATAATATTATTAAATATAA
1 TTTAATAATATTATT-AATATAA
* * *
237281 TTTAATAAAAATAATAA-ATAA
1 TTTAATAATATTATTAATATAA
*
237302 TTTAATTATATT-TTAATATAA
1 TTTAATAATATTATTAATATAA
*
237323 -TT-AT--TATTA--AATACAA
1 TTTAATAATATTATTAATATAA
* *
237339 TTTAATAA-AATAAT-ATATAA
1 TTTAATAATATTATTAATATAA
* *
237359 TTTAATAACATTTTTAATATAA
1 TTTAATAATATTATTAATATAA
237381 TT
1 TT
237383 ATTTTTAAAA
Statistics
Matches: 79, Mismatches: 13, Indels: 21
0.70 0.12 0.19
Matches are distributed among these distances:
16 6 0.08
17 6 0.08
18 2 0.03
19 5 0.06
20 18 0.23
21 20 0.25
22 10 0.13
23 12 0.15
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (22 bp):
TTTAATAATATTATTAATATAA
Found at i:237423 original size:58 final size:57
Alignment explanation
Indices: 237262--237416 Score: 199
Period size: 58 Copynumber: 2.7 Consensus size: 57
237252 TTAAATTTTA
* *
237262 ATAA-TATTATTAAATATAATTTAATAAAAATAATAAATAATTTAATTATATTTTAAT
1 ATAATTATTATTAAATATAATTTAATAAAAATAAT-AATAATTTAATAACATTTTAAT
*
237319 ATAATTATTATTAAATACAATTTAAT-AAAATAATATATAATTTAATAACATTTTTAAT
1 ATAATTATTATTAAATATAATTTAATAAAAATAATA-ATAATTTAATAACA-TTTTAAT
* *
237377 ATAATTATTTTTAAAATATGAA-TTAATAAAAATCATAATA
1 ATAATTATTATT-AAATAT-AATTTAATAAAAATAATAATA
237417 TATAATATTA
Statistics
Matches: 86, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
56 1 0.01
57 24 0.28
58 38 0.44
59 13 0.15
60 10 0.12
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.44
Consensus pattern (57 bp):
ATAATTATTATTAAATATAATTTAATAAAAATAATAATAATTTAATAACATTTTAAT
Found at i:245122 original size:13 final size:13
Alignment explanation
Indices: 245104--245156 Score: 56
Period size: 13 Copynumber: 4.2 Consensus size: 13
245094 TTGACTTGGA
245104 TTTTAGTTTGGGG
1 TTTTAGTTTGGGG
*
245117 TTTTAGTTTGAGG
1 TTTTAGTTTGGGG
*
245130 TTTTAGGTTT--TG
1 TTTTA-GTTTGGGG
*
245142 TTTTAGTTTAGGG
1 TTTTAGTTTGGGG
245155 TT
1 TT
245157 ATGAGTTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
11 4 0.12
12 6 0.18
13 20 0.59
14 4 0.12
ACGTcount: A:0.11, C:0.00, G:0.30, T:0.58
Consensus pattern (13 bp):
TTTTAGTTTGGGG
Found at i:247886 original size:17 final size:17
Alignment explanation
Indices: 247860--247921 Score: 81
Period size: 17 Copynumber: 3.6 Consensus size: 17
247850 CTTTAGAATT
247860 TAAATTTAAATTTAATC
1 TAAATTTAAATTTAATC
* *
247877 TAAGTTTAAATTTATATT
1 TAAATTTAAATTTA-ATC
*
247895 TAAATTTAAA-TTATTC
1 TAAATTTAAATTTAATC
247911 TAAATTTAAAT
1 TAAATTTAAAT
247922 GAATAAAAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
16 11 0.29
17 16 0.42
18 11 0.29
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (17 bp):
TAAATTTAAATTTAATC
Found at i:247921 original size:6 final size:6
Alignment explanation
Indices: 247834--247906 Score: 78
Period size: 6 Copynumber: 12.3 Consensus size: 6
247824 CTAAACTCAT
** * *
247834 TTTAAA TTTAAA TTT-GC TTTAGAA TTTAAA TTTAAA TTT-AA TCTAAG
1 TTTAAA TTTAAA TTTAAA TTTA-AA TTTAAA TTTAAA TTTAAA TTTAAA
*
247881 TTTAAA TTTATA TTTAAA TTTAAA TT
1 TTTAAA TTTAAA TTTAAA TTTAAA TT
247907 ATTCTAAATT
Statistics
Matches: 54, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
5 7 0.13
6 43 0.80
7 4 0.07
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.52
Consensus pattern (6 bp):
TTTAAA
Found at i:250002 original size:21 final size:21
Alignment explanation
Indices: 249978--250022 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
249968 ATTTTCTAAT
*
249978 TTTGGGGCTTAGGGGTTAGGG
1 TTTGGGGCTTAGGGGTTAAGG
*
249999 TTTGGGGTTTAGGGGTTAAGG
1 TTTGGGGCTTAGGGGTTAAGG
250020 TTT
1 TTT
250023 AAGCTTTGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.11, C:0.02, G:0.47, T:0.40
Consensus pattern (21 bp):
TTTGGGGCTTAGGGGTTAAGG
Found at i:250055 original size:7 final size:7
Alignment explanation
Indices: 249986--250162 Score: 78
Period size: 7 Copynumber: 25.3 Consensus size: 7
249976 ATTTTGGGGC
*
249986 TTAGGGG
1 TTAGGGT
249993 TTAGGGT
1 TTAGGGT
*
250000 TTGGGGT
1 TTAGGGT
*
250007 TTAGGGG
1 TTAGGGT
*
250014 TTAAGGT
1 TTAGGGT
* *
250021 TTAAGCT
1 TTAGGGT
*
250028 TTGGGGT
1 TTAGGGT
250035 TT-GGG-
1 TTAGGGT
250040 TTAGAGGT
1 TTAG-GGT
250048 TTAGGGT
1 TTAGGGT
* *
250055 TTATGGC
1 TTAGGGT
*
250062 TTAGGGC
1 TTAGGGT
*
250069 TTGGGGT
1 TTAGGGT
*
250076 TTATGGT
1 TTAGGGT
*
250083 TTATGGTT
1 TTA-GGGT
*
250091 TTTGGGT
1 TTAGGGT
* *
250098 TTTGAGT
1 TTAGGGT
250105 TT-GTGGT
1 TTAG-GGT
*
250112 TTAGGGC
1 TTAGGGT
*
250119 TT-GTGGC
1 TTAG-GGT
*
250126 TTAGGGC
1 TTAGGGT
250133 TT-GAGGT
1 TTAG-GGT
*
250140 TTGGGGT
1 TTAGGGT
250147 TT-GAGGT
1 TTAG-GGT
250154 TTAGGGT
1 TTAGGGT
250161 TT
1 TT
250163 TAAAATATTA
Statistics
Matches: 133, Mismatches: 25, Indels: 24
0.73 0.14 0.13
Matches are distributed among these distances:
5 2 0.02
6 8 0.06
7 111 0.83
8 12 0.09
ACGTcount: A:0.11, C:0.03, G:0.42, T:0.44
Consensus pattern (7 bp):
TTAGGGT
Found at i:250073 original size:41 final size:41
Alignment explanation
Indices: 249982--250077 Score: 104
Period size: 41 Copynumber: 2.3 Consensus size: 41
249972 TCTAATTTTG
* * * *
249982 GGGCTTAGGGGTTAGGGTTTGGGGTTTAGGGGTTAAGGTTTA
1 GGGCTT-GGGGTTTGGGTTAGAGGTTTAGGGGTTAAGGCTTA
* * *
250024 -AGCTTTGGGGTTTGGGTTAGAGGTTTAGGGTTTATGGCTTA
1 GGGC-TTGGGGTTTGGGTTAGAGGTTTAGGGGTTAAGGCTTA
250065 GGGCTTGGGGTTT
1 GGGCTTGGGGTTT
250078 ATGGTTTATG
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
41 40 0.91
42 4 0.09
ACGTcount: A:0.12, C:0.04, G:0.45, T:0.39
Consensus pattern (41 bp):
GGGCTTGGGGTTTGGGTTAGAGGTTTAGGGGTTAAGGCTTA
Found at i:250106 original size:22 final size:22
Alignment explanation
Indices: 250072--250113 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
250062 TTAGGGCTTG
250072 GGGTTTATGGTTTATGGTTTTT
1 GGGTTTATGGTTTATGGTTTTT
*
250094 GGGTTT-TGAGTTTGTGGTTT
1 GGGTTTATG-GTTTATGGTTT
250114 AGGGCTTGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.07, C:0.00, G:0.36, T:0.57
Consensus pattern (22 bp):
GGGTTTATGGTTTATGGTTTTT
Found at i:250148 original size:64 final size:64
Alignment explanation
Indices: 250027--250148 Score: 163
Period size: 64 Copynumber: 1.9 Consensus size: 64
250017 AGGTTTAAGC
* * * *
250027 TTTGGGGTTTGGGTTAGAGGTTTAGGGTTTATGGCTTAGGGCTTGGGGTTTATGGTTTATGGTT
1 TTTGGGGTTTGAGTTAGAGGTTTAGGGCTTATGGCTTAGGGCTTGAGGTTTAGGGTTTATGGTT
* * * * *
250091 TTTGGGTTTTGAGTTTGTGGTTTAGGGCTTGTGGCTTAGGGCTTGAGGTTTGGGGTTT
1 TTTGGGGTTTGAGTTAGAGGTTTAGGGCTTATGGCTTAGGGCTTGAGGTTTAGGGTTT
250149 GAGGTTTAGG
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
64 49 1.00
ACGTcount: A:0.09, C:0.04, G:0.41, T:0.46
Consensus pattern (64 bp):
TTTGGGGTTTGAGTTAGAGGTTTAGGGCTTATGGCTTAGGGCTTGAGGTTTAGGGTTTATGGTT
Found at i:250155 original size:64 final size:63
Alignment explanation
Indices: 250027--250163 Score: 159
Period size: 64 Copynumber: 2.2 Consensus size: 63
250017 AGGTTTAAGC
* * * * *
250027 TTTGGGGTTTGGGTTAGAGGTTTAGGGTTTATGGCTTAGGGCTTGGGGTTTATGGTTTATGGTT
1 TTTGGGTTTTGAGTTAGAGGTTTAGGGCTTATGGCTTAGGGCTTGAGGTTTAGGGTTTATGG-T
* * * *
250091 TTTGGGTTTTGAGTTTGTGGTTTAGGGCTTGTGGCTTAGGGCTTGAGGTTTGGGGTTTGA-GGT
1 TTTGGGTTTTGAGTTAGAGGTTTAGGGCTTATGGCTTAGGGCTTGAGGTTTAGGGTTT-ATGGT
*
250154 TTAGGGTTTT
1 TTTGGGTTTT
250164 AAAATATTAA
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
63 10 0.16
64 51 0.82
65 1 0.02
ACGTcount: A:0.09, C:0.04, G:0.41, T:0.46
Consensus pattern (63 bp):
TTTGGGTTTTGAGTTAGAGGTTTAGGGCTTATGGCTTAGGGCTTGAGGTTTAGGGTTTATGGT
Done.