Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015143.1 Kokia drynarioides strain JFW-HI SEQ_130187, 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: 168324
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 207 characters in sequence are not A, C, G, or T
Found at i:2490 original size:29 final size:28
Alignment explanation
Indices: 2409--2491 Score: 69
Period size: 29 Copynumber: 2.9 Consensus size: 28
2399 TTTTTTTATT
* * *
2409 AAAATAATATAAAAATAAAATTAATTTTC
1 AAAATAATATAAAATTTAAATT-ATTTAC
** * *
2438 AAAATAAT-GCAAGTTATAATTTATTTAC
1 AAAATAATATAAAATT-TAAATTATTTAC
2466 GAAAATAATATAAAATTTAAATTATT
1 -AAAATAATATAAAATTTAAATTATT
2492 AACCAGCATA
Statistics
Matches: 40, Mismatches: 11, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
28 8 0.20
29 28 0.70
30 4 0.10
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.37
Consensus pattern (28 bp):
AAAATAATATAAAATTTAAATTATTTAC
Found at i:3261 original size:12 final size:13
Alignment explanation
Indices: 3244--3272 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
3234 AAAATATCGA
3244 TTTAATTC-CAAT
1 TTTAATTCACAAT
3256 TTTAATTCACAAT
1 TTTAATTCACAAT
3269 TTTA
1 TTTA
3273 TTATTTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.34, C:0.14, G:0.00, T:0.52
Consensus pattern (13 bp):
TTTAATTCACAAT
Found at i:20617 original size:39 final size:40
Alignment explanation
Indices: 20551--20653 Score: 124
Period size: 40 Copynumber: 2.6 Consensus size: 40
20541 AATATGTTAA
* * *
20551 TTATTATTTTTTTA-AT-TTTTATAAAAAAATTTGAATA-T
1 TTATAATTTTTTTATATATTTTTTAAAAAAA-TTCAATAGT
20589 TTATAATTTTTTTATATATTTTTTAAAAAAATTCAATAGT
1 TTATAATTTTTTTATATATTTTTTAAAAAAATTCAATAGT
* *
20629 TTTTAATTTTTTT-TATAATTTTTAA
1 TTATAATTTTTTTATATATTTTTTAA
20654 TAATTTCTTA
Statistics
Matches: 57, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
38 13 0.23
39 19 0.33
40 25 0.44
ACGTcount: A:0.37, C:0.01, G:0.02, T:0.60
Consensus pattern (40 bp):
TTATAATTTTTTTATATATTTTTTAAAAAAATTCAATAGT
Found at i:20667 original size:22 final size:22
Alignment explanation
Indices: 20632--20675 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
20622 CAATAGTTTT
* *
20632 TAATTTTTTTTATAATTTTTAA
1 TAATTTCTTATATAATTTTTAA
*
20654 TAATTTCTTATATATTTTTTAA
1 TAATTTCTTATATAATTTTTAA
20676 AATAATATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (22 bp):
TAATTTCTTATATAATTTTTAA
Found at i:27721 original size:24 final size:22
Alignment explanation
Indices: 27677--27723 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 22
27667 TTGGATCTTG
*
27677 AAAAATTATATTAATTTATTTA
1 AAAAATTATATTAATTAATTTA
*
27699 AAAAATTTTGATTCAATTAATTTA
1 AAAAATTAT-ATT-AATTAATTTA
27723 A
1 A
27724 TTGTGTGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 8 0.38
23 3 0.14
24 10 0.48
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (22 bp):
AAAAATTATATTAATTAATTTA
Found at i:40457 original size:74 final size:76
Alignment explanation
Indices: 40342--40498 Score: 273
Period size: 74 Copynumber: 2.1 Consensus size: 76
40332 CATTTTAATG
40342 TTTAAAATATAATTTTATCATTTTAATAATTTATATATCTAAAATTTTTAAAGAATT-AATTAAA
1 TTTAAAATATAATTTTATCATTTTAATAATTTATATATCTAAAATTTTTAAAGAATTAAATTAAA
*
40406 -TTTTATTATT
66 TTTTTATCATT
*
40416 TTTAAAATATAATTTTATCATTTTAATAATTTATATCTCTAAAATTTTTAAAGAATTAAATTAAA
1 TTTAAAATATAATTTTATCATTTTAATAATTTATATATCTAAAATTTTTAAAGAATTAAATTAAA
40481 TTTTTATCATT
66 TTTTTATCATT
*
40492 TTAAAAA
1 TTTAAAA
40499 AAATTAAAAT
Statistics
Matches: 78, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
74 56 0.72
75 7 0.09
76 15 0.19
ACGTcount: A:0.44, C:0.04, G:0.01, T:0.51
Consensus pattern (76 bp):
TTTAAAATATAATTTTATCATTTTAATAATTTATATATCTAAAATTTTTAAAGAATTAAATTAAA
TTTTTATCATT
Found at i:40459 original size:37 final size:37
Alignment explanation
Indices: 40344--40460 Score: 107
Period size: 37 Copynumber: 3.2 Consensus size: 37
40334 TTTTAATGTT
40344 TAAAATATAATTTTATCATTTTAATAATTTATATATC
1 TAAAATATAATTTTATCATTTTAATAATTTATATATC
* ** * * *
40381 TAAAAT-T--TTTAAAGAATTAATTAA-ATTTTATTATTTT
1 TAAAATATAATTT-TATCATT--TTAATAATTTA-TATATC
*
40418 TAAAATATAATTTTATCATTTTAATAATTTATATCTC
1 TAAAATATAATTTTATCATTTTAATAATTTATATATC
40455 TAAAAT
1 TAAAAT
40461 TTTTAAAGAA
Statistics
Matches: 60, Mismatches: 12, Indels: 16
0.68 0.14 0.18
Matches are distributed among these distances:
34 3 0.05
35 4 0.07
36 6 0.10
37 34 0.57
38 6 0.10
39 4 0.07
40 3 0.05
ACGTcount: A:0.44, C:0.04, G:0.01, T:0.51
Consensus pattern (37 bp):
TAAAATATAATTTTATCATTTTAATAATTTATATATC
Found at i:41909 original size:17 final size:17
Alignment explanation
Indices: 41887--41920 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
41877 TGCTACTAGT
41887 CCTTATACTTTGAGAAA
1 CCTTATACTTTGAGAAA
41904 CCTTATACTTTGAGAAA
1 CCTTATACTTTGAGAAA
41921 GTTGTAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (17 bp):
CCTTATACTTTGAGAAA
Found at i:44130 original size:3 final size:3
Alignment explanation
Indices: 44122--44147 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
44112 TGCCTTTGCT
44122 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
44148 TATTTTTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:44425 original size:2 final size:2
Alignment explanation
Indices: 44418--44443 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
44408 AATCACATCA
44418 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
44444 TTTGAATCTC
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:45841 original size:37 final size:37
Alignment explanation
Indices: 45794--45875 Score: 119
Period size: 37 Copynumber: 2.2 Consensus size: 37
45784 CCATCTTCGA
* * * **
45794 CCATCCCTTCATACCATATAGGGTATCAAGTATTCAT
1 CCATCCCTTCACACCATAAAAGGTATCAAGTACCCAT
45831 CCATCCCTTCACACCATAAAAGGTATCAAGTACCCAT
1 CCATCCCTTCACACCATAAAAGGTATCAAGTACCCAT
45868 CCATCCCT
1 CCATCCCT
45876 ACAAATTTCA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.30, C:0.34, G:0.09, T:0.27
Consensus pattern (37 bp):
CCATCCCTTCACACCATAAAAGGTATCAAGTACCCAT
Found at i:52151 original size:97 final size:98
Alignment explanation
Indices: 51957--52156 Score: 230
Period size: 97 Copynumber: 2.0 Consensus size: 98
51947 AAATTTTGGA
51957 AAAGGATATTCGATTATCTCGATTTGAAGAAAAGTCGCACCTAGTAAGTTAAGGCACAAATTTTC
1 AAAGGATATTCGATTATCTCGATTTGAAGAAAAGTCG-ACCTAGTAAGTTAAGGCACAAATTTTC
* *** *
52022 AGAATCAGGGGTAAAGAAACATTGTCTCGA-TTT
65 AAAATCAGAAATAAAGAAACATTGCCTCGATTTT
* * *
52055 AAAGG-TATTCGATTATTTCGATTTGAAGGAAAATTATG-CCTAGTAAGTTAAGGCACAAATTTT
1 AAAGGATATTCGATTATCTCGATTTGAA-GAAAAGT-CGACCTAGTAAGTTAAGGCACAAATTTT
* *
52118 CAAAACTC-GAAATAAA-AGAATATTGCCTTGATTTT
64 CAAAA-TCAGAAATAAAGA-AACATTGCCTCGATTTT
52153 AAAG
1 AAAG
52157 TTTTCATGAA
Statistics
Matches: 87, Mismatches: 10, Indels: 10
0.81 0.09 0.09
Matches are distributed among these distances:
96 1 0.01
97 65 0.75
98 20 0.23
99 1 0.01
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.30
Consensus pattern (98 bp):
AAAGGATATTCGATTATCTCGATTTGAAGAAAAGTCGACCTAGTAAGTTAAGGCACAAATTTTCA
AAATCAGAAATAAAGAAACATTGCCTCGATTTT
Found at i:52485 original size:31 final size:32
Alignment explanation
Indices: 52424--52547 Score: 86
Period size: 31 Copynumber: 4.1 Consensus size: 32
52414 TTTTGGGTGT
* * * *
52424 AAAATGGTAATTTTTGGAAATTTC-AAGGTAAA
1 AAAATGGCAATTTTTGGACACTTCGAGGGT-AA
52456 AAAATGG-AATTTTTGGACA-TTCGAGGGT--
1 AAAATGGCAATTTTTGGACACTTCGAGGGTAA
* *
52484 AAAATGGCAATTTTCGGA-AGCTTCG-GGGTCA
1 AAAATGGCAATTTTTGGACA-CTTCGAGGGTAA
* *
52515 AATATGG-AAATTTTGGACA-TTCGAGGGGTAA
1 AAAATGGCAATTTTTGGACACTTCGA-GGGTAA
52546 AA
1 AA
52548 TTGTAATTTT
Statistics
Matches: 76, Mismatches: 7, Indels: 19
0.75 0.07 0.19
Matches are distributed among these distances:
28 8 0.11
29 17 0.22
30 15 0.20
31 29 0.38
32 7 0.09
ACGTcount: A:0.36, C:0.08, G:0.26, T:0.30
Consensus pattern (32 bp):
AAAATGGCAATTTTTGGACACTTCGAGGGTAA
Found at i:52497 original size:29 final size:28
Alignment explanation
Indices: 52422--52882 Score: 181
Period size: 29 Copynumber: 15.7 Consensus size: 28
52412 TTTTTTGGGT
*
52422 GTAAAATGGTAATTTTTGGAAATTTC-AAG
1 GTAAAATGG-AATTTTTGGAAA-TTCGAGG
*
52451 GTAAAAAAATGGAATTTTTGGACATTCGAGG
1 GT---AAAATGGAATTTTTGGAAATTCGAGG
* *
52482 GTAAAATGGCAATTTTCGGAAGCTTCG-GG
1 GTAAAATGG-AATTTTTGGAA-ATTCGAGG
* *
52511 GTCAAATATGGAAATTTTGGACATTCGAGGG
1 GT-AAA-ATGGAATTTTTGGAAATTCGA-GG
* * * *
52542 GTAAAATTGTAA-TTTTCGAAAGTT-TAGAA
1 GTAAAA-TGGAATTTTTGGAAA-TTCGAG-G
**
52571 GTCAAAAATAAAATTTTTGGAAATTCG-GG
1 GT--AAAATGGAATTTTTGGAAATTCGAGG
* *
52600 GTAAAATGGTATTTTTTGAAAACTTCG-GG
1 GTAAAATGG-AATTTTTGGAAA-TTCGAGG
* *
52629 GTCAAAAATGGTATTTTTGGATATTCGAGG
1 GT--AAAATGGAATTTTTGGAAATTCGAGG
* * **
52659 GTAAAATTGTAATTTTTGGAAAATTTGTTG
1 GTAAAA-TGGAATTTTTGG-AAATTCGAGG
* * *
52689 TTAAAAATGGAATTTTTTGACATTCTG-GG
1 GT-AAAATGGAATTTTTGGAAATTC-GAGG
* ** **
52718 GTAAAATGGTAATTTTTGGAAGTTTTACA
1 GTAAAATGG-AATTTTTGGAAATTCGAGG
* *
52747 GTAAAAATGGAATTTTTGGACATT-TAGGG
1 GT-AAAATGGAATTTTTGGAAATTCGA-GG
* * *
52776 GTAAAATTGTAATTTTT-GAATTTTTG-GG
1 GTAAAA-TGGAATTTTTGGAA-ATTCGAGG
* * *
52804 GTCAAAAATGAAATCTTTGGATAATTTGAGG
1 GT--AAAATGGAATTTTTGGA-AATTCGAGG
**
52835 GTAAAATGGTAA-TTTTGG-AATTTTAGGG
1 GTAAAATGG-AATTTTTGGAAATTCGA-GG
*
52863 GTTAAAATGTAATTTTTGGA
1 G-TAAAATGGAATTTTTGGA
52883 GGTTTCAAGG
Statistics
Matches: 327, Mismatches: 62, Indels: 85
0.69 0.13 0.18
Matches are distributed among these distances:
27 11 0.03
28 46 0.14
29 130 0.40
30 82 0.25
31 51 0.16
32 7 0.02
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (28 bp):
GTAAAATGGAATTTTTGGAAATTCGAGG
Found at i:52539 original size:59 final size:59
Alignment explanation
Indices: 52422--52882 Score: 398
Period size: 58 Copynumber: 7.8 Consensus size: 59
52412 TTTTTTGGGT
* *** *
52422 GTAAAATGGTAATTTTTGGAAATTTCAAGGTAAAAAAATGGAATTTTTGGACATTCGAGG
1 GTAAAATGGTAATTTTTGGAAGTTTTGGGGT-CAAAAATGGAATTTTTGGACATTCGAGG
* * * * * *
52482 GTAAAATGGCAATTTTCGGAAGCTTCGGGGTCAAATATGGAAATTTTGGACATTCGAGGG
1 GTAAAATGGTAATTTTTGGAAGTTTTGGGGTCAAAAATGGAATTTTTGGACATTCGA-GG
* * * * ** ** *
52542 GTAAAATTGTAATTTTCGAAAGTTTAGAAGTCAAAAATAAAATTTTTGGAAATTCG-GG
1 GTAAAATGGTAATTTTTGGAAGTTTTGGGGTCAAAAATGGAATTTTTGGACATTCGAGG
* * ** * * *
52600 GTAAAATGGTATTTTTTGAAAACTTCGGGGTCAAAAATGGTATTTTTGGATATTCGAGG
1 GTAAAATGGTAATTTTTGGAAGTTTTGGGGTCAAAAATGGAATTTTTGGACATTCGAGG
* ** ** * *
52659 GTAAAATTGTAATTTTTGGAAAATTTGTTGTTAAAAATGGAATTTTTTGACATTCTG-GG
1 GTAAAATGGTAATTTTTGGAAGTTTTGGGGTCAAAAATGGAATTTTTGGACATTC-GAGG
*** *
52718 GTAAAATGGTAATTTTTGGAAGTTTTACAGT-AAAAATGGAATTTTTGGACATT-TAGGG
1 GTAAAATGGTAATTTTTGGAAGTTTTGGGGTCAAAAATGGAATTTTTGGACATTCGA-GG
* * * * * *
52776 GTAAAATTGTAATTTTT-GAATTTTTGGGGTCAAAAATGAAATCTTTGGATAATTTGAGG
1 GTAAAATGGTAATTTTTGGAAGTTTTGGGGTCAAAAATGGAATTTTTGGA-CATTCGAGG
* *
52835 GTAAAATGGTAA-TTTTGGAA-TTTTAGGGGT-TAAAATGTAATTTTTGGA
1 GTAAAATGGTAATTTTTGGAAGTTTT-GGGGTCAAAAATGGAATTTTTGGA
52883 GGTTTCAAGG
Statistics
Matches: 326, Mismatches: 65, Indels: 22
0.79 0.16 0.05
Matches are distributed among these distances:
57 9 0.03
58 124 0.38
59 120 0.37
60 73 0.22
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (59 bp):
GTAAAATGGTAATTTTTGGAAGTTTTGGGGTCAAAAATGGAATTTTTGGACATTCGAGG
Found at i:52640 original size:31 final size:28
Alignment explanation
Indices: 52584--52735 Score: 119
Period size: 30 Copynumber: 5.2 Consensus size: 28
52574 AAAAATAAAA
*
52584 TTTTTGGAAATTCGGGGTAAAATGGTAT
1 TTTTTGAAAATTCGGGGTAAAATGGTAT
52612 TTTTTGAAAACTTCGGGGTCAAAAATGGTA-
1 TTTTTGAAAA-TTCGGGGT--AAAATGGTAT
* * *
52642 TTTTTGGATATTCGAGGGTAAAATTGTAAT
1 TTTTTGAAAATTCG-GGGTAAAATGGT-AT
* * * * *
52672 TTTTGGAAAATTTGTTGTTAAAAATGGAAT
1 TTTTTGAAAATTCG-GGGT-AAAATGGTAT
* *
52702 TTTTTG-ACATTCTGGGGTAAAATGGTAA
1 TTTTTGAAAATTC-GGGGTAAAATGGTAT
52730 TTTTTG
1 TTTTTG
52736 GAAGTTTTAC
Statistics
Matches: 96, Mismatches: 20, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
28 30 0.31
29 19 0.20
30 32 0.33
31 15 0.16
ACGTcount: A:0.30, C:0.05, G:0.24, T:0.41
Consensus pattern (28 bp):
TTTTTGAAAATTCGGGGTAAAATGGTAT
Found at i:52704 original size:117 final size:118
Alignment explanation
Indices: 52422--52882 Score: 450
Period size: 117 Copynumber: 3.9 Consensus size: 118
52412 TTTTTTGGGT
* * * * * *
52422 GTAAAATGGTAATTTTTGGAAATTTCAAGGTAAAAAAATGGAATTTTTGGACATTCGAGGGTAAA
1 GTAAAATTGTAATTTTTGAAAATTTGAA-GT-CAAAAATGAAATTTTTGGAAATTCGAGGGTAAA
* * * *
52487 ATGGCAATTTTCGGAAGCTTCGGGGTCAAATATGGAAATTTTGGACATTCGAGGG
64 ATGGTAATTTTTGGAAGCTTCGGGGTCAAAAATGGAATTTTTGGACATTCGAGGG
* * *
52542 GTAAAATTGTAATTTTCGAAAGTTTAGAAGTCAAAAATAAAATTTTTGGAAATTCG-GGGTAAAA
1 GTAAAATTGTAATTTTTGAAAATTT-GAAGTCAAAAATGAAATTTTTGGAAATTCGAGGGTAAAA
* * * * *
52606 TGGTATTTTTTGAAAACTTCGGGGTCAAAAATGGTATTTTTGGATATTCGA-GG
65 TGGTAATTTTTGGAAGCTTCGGGGTCAAAAATGGAATTTTTGGACATTCGAGGG
** * * * *
52659 GTAAAATTGTAATTTTTGGAAAATTTGTTGTTAAAAATGGAATTTTTTGACATTCTG-GGGTAAA
1 GTAAAATTGTAATTTTT-GAAAATTTGAAGTCAAAAATGAAATTTTTGGAAATTC-GAGGGTAAA
* **** *
52723 ATGGTAATTTTTGGAAGTTTTACAGT-AAAAATGGAATTTTTGGACATT-TAGGG
64 ATGGTAATTTTTGGAAGCTTCGGGGTCAAAAATGGAATTTTTGGACATTCGAGGG
** ** * *
52776 GTAAAATTGTAATTTTTGAATTTTTGGGGTCAAAAATGAAATCTTTGGATAATTTGAGGGTAAAA
1 GTAAAATTGTAATTTTTGAAAATTTGAAGTCAAAAATGAAATTTTTGGA-AATTCGAGGGTAAAA
** * * *
52841 TGGTAA-TTTTGGAATTTTAGGGGT-TAAAATGTAATTTTTGGA
65 TGGTAATTTTTGGAAGCTTCGGGGTCAAAAATGGAATTTTTGGA
52883 GGTTTCAAGG
Statistics
Matches: 280, Mismatches: 55, Indels: 16
0.80 0.16 0.05
Matches are distributed among these distances:
116 55 0.20
117 96 0.34
118 83 0.30
119 21 0.08
120 23 0.08
121 2 0.01
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (118 bp):
GTAAAATTGTAATTTTTGAAAATTTGAAGTCAAAAATGAAATTTTTGGAAATTCGAGGGTAAAAT
GGTAATTTTTGGAAGCTTCGGGGTCAAAAATGGAATTTTTGGACATTCGAGGG
Found at i:52894 original size:58 final size:57
Alignment explanation
Indices: 52422--52900 Score: 232
Period size: 59 Copynumber: 8.1 Consensus size: 57
52412 TTTTTTGGGT
* * * * **
52422 GTAAAATGGTAATTTTTGGAAATTTCA-AGGTAAAAAAATGGAATTTTTGGACATTCGAGG
1 GTAAAATGGTAA-TTTTGG-AATTTTAGGGGT--AAAAATGAAATTTTTGGAAATTTAAGG
* ** * * * * *
52482 GTAAAATGGCAATTTTCGGAAGCTTCGGGGTCAAATATGGAAA-TTTTGGACATTCGAGGG
1 GTAAAATGGTAATTTT-GGAATTTTAGGGGT-AAAAAT-GAAATTTTTGGAAATT-TAAGG
* * * ** * **
52542 GTAAAATTGTAATTTTCGAAAGTTTAGAAGTCAAAAATAAAATTTTTGGAAA-TTCGGG
1 GTAAAATGGTAATTTT-GGAATTTTAGGGGT-AAAAATGAAATTTTTGGAAATTTAAGG
* * ** * ** * **
52600 GTAAAATGGTATTTTTTGAAAACTTCGGGGTCAAAAATGGTATTTTTGGATATTCGAGG
1 GTAAAATGGTA-ATTTTGGAATTTTAGGGGT-AAAAATGAAATTTTTGGAAATTTAAGG
* * * * * * * *
52659 GTAAAATTGTAATTTTTGGAAAATTT-GTTGTTAAAAATGGAATTTTTTGACATTCT-GGG
1 GTAAAATGGTAA-TTTTGG-AATTTTAG-GGGTAAAAATGAAATTTTTGGAAATT-TAAGG
** * * *
52718 GTAAAATGGTAATTTTTGGAAGTTTTA-CAGTAAAAATGGAATTTTTGGACATTTAGGG
1 GTAAAATGGTAA-TTTTGGAA-TTTTAGGGGTAAAAATGAAATTTTTGGAAATTTAAGG
* * * * *
52776 GTAAAATTGTAATTTTTGAATTTTTGGGGTCAAAAATGAAATCTTTGGATAATTTGAGG
1 GTAAAATGGTAATTTTGGAATTTTAGGGGT-AAAAATGAAATTTTTGGA-AATTTAAGG
* * **
52835 GTAAAATGGTAATTTTGGAATTTTAGGGGTTAAAATGTAATTTTTGGAGGTTTCAAGG
1 GTAAAATGGTAATTTTGGAATTTTAGGGGTAAAAATGAAATTTTTGGAAATTT-AAGG
52893 GTCAAAAT
1 GT-AAAAT
52901 ATGATTTCTG
Statistics
Matches: 326, Mismatches: 74, Indels: 39
0.74 0.17 0.09
Matches are distributed among these distances:
56 4 0.01
57 13 0.04
58 113 0.35
59 130 0.40
60 66 0.20
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (57 bp):
GTAAAATGGTAATTTTGGAATTTTAGGGGTAAAAATGAAATTTTTGGAAATTTAAGG
Found at i:54693 original size:17 final size:16
Alignment explanation
Indices: 54673--54718 Score: 65
Period size: 17 Copynumber: 2.8 Consensus size: 16
54663 GTTTAAAACT
*
54673 ATTTCAAATTTAATTAA
1 ATTT-AAATTTAAGTAA
54690 ATTTAAATTTAAAGTAA
1 ATTTAAATTT-AAGTAA
54707 ATTTAAATTTAA
1 ATTTAAATTTAA
54719 AATAGATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 8 0.30
17 19 0.70
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (16 bp):
ATTTAAATTTAAGTAA
Found at i:54697 original size:6 final size:6
Alignment explanation
Indices: 54673--54740 Score: 61
Period size: 6 Copynumber: 11.2 Consensus size: 6
54663 GTTTAAAACT
*
54673 ATTTCAA ATTT-A A-TTAA ATTTAA ATTTAA A-GTAA ATTTAA ATTTAAA
1 ATTT-AA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTT-AA
*
54720 ATAGATAA ATTTAA ATTTAA A
1 AT--TTAA ATTTAA ATTTAA A
54741 AGTAAATTTC
Statistics
Matches: 51, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
4 2 0.04
5 8 0.16
6 28 0.55
7 8 0.16
8 4 0.08
9 1 0.02
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.43
Consensus pattern (6 bp):
ATTTAA
Found at i:54719 original size:17 final size:18
Alignment explanation
Indices: 54687--54749 Score: 92
Period size: 17 Copynumber: 3.4 Consensus size: 18
54677 CAAATTTAAT
54687 TAAATTTAAATTT-AAAG
1 TAAATTTAAATTTAAAAG
54704 TAAATTTAAATTTAAAATAG
1 TAAATTTAAATTT-AAA-AG
54724 ATAAATTTAAATTTAAAAG
1 -TAAATTTAAATTTAAAAG
54743 TAAATTT
1 TAAATTT
54750 CAAACCAATT
Statistics
Matches: 42, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
17 13 0.31
18 7 0.17
19 4 0.10
20 5 0.12
21 13 0.31
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (18 bp):
TAAATTTAAATTTAAAAG
Found at i:55293 original size:49 final size:50
Alignment explanation
Indices: 55240--56011 Score: 603
Period size: 49 Copynumber: 15.8 Consensus size: 50
55230 AGGTTTGCCA
* ** * *
55240 TTGCGACTTAAACCTTTCCCTTTGTGT-TTTCACGGTACTGGATTCGTCG
1 TTGCGACTTAAATCTTTCCCTTCATGTCTTTCATGGTACTGGATTCGCCG
*
55289 TTGCGGCTTAAATCTTTCCC-T--T-TCATTTCATGGTACTGGATTCGCCG
1 TTGCGACTTAAATCTTTCCCTTCATGTC-TTTCATGGTACTGGATTCGCCG
* * * * * * * *
55336 TTACGGCTTAAATATTTCCTTTCATGTCTATGA-GGTATTAGG-TTCGCCA
1 TTGCGACTTAAATCTTTCCCTTCATGTCTTTCATGGTACT-GGATTCGCCG
* * *
55385 TTGCGACTTAAAACTTT-CCTT-TTG-CTTCTTCGA-GGTACTGGATTCGCCT
1 TTGCGACTTAAATCTTTCCCTTCATGTC-T-TTC-ATGGTACTGGATTCGCCG
* * * * * *
55434 TTGCGGCTTAAATTTTTCCCTTCATGTCTCTGA-GGTACAAGG-TTCACCG
1 TTGCGACTTAAATCTTTCCCTTCATGTCTTTCATGGTAC-TGGATTCGCCG
* * * * *
55483 TTGCGACTTAAACCTTTCCTTTCGTGTCTTT-GTGGTACTGGATTAGCCG
1 TTGCGACTTAAATCTTTCCCTTCATGTCTTTCATGGTACTGGATTCGCCG
* * * *
55532 TTGCGGCTTAAATCTTTCCCTTCATGTCTCTGA-GGTACAAGG-TTCGCCG
1 TTGCGACTTAAATCTTTCCCTTCATGTCTTTCATGGTAC-TGGATTCGCCG
* * *
55581 TTGCGACTTAAACCTTTCCCTTCGTGTCTTT-GTGGTACTGGATTCGCCG
1 TTGCGACTTAAATCTTTCCCTTCATGTCTTTCATGGTACTGGATTCGCCG
* * * *
55630 TTACGGCTTAAATCTTTCCCTTCATGTCTTTGA-GGTACAAGG-TTCGCCG
1 TTGCGACTTAAATCTTTCCCTTCATGTCTTTCATGGTAC-TGGATTCGCCG
* * *
55679 TTGCGACTTAAACCTTTCCCTTCGTGTC-TTCGTGGTACTGGATTCGCCG
1 TTGCGACTTAAATCTTTCCCTTCATGTCTTTCATGGTACTGGATTCGCCG
* * * *
55728 TTGCGACTTAAATCTTTCCCTTCACGTCTCT-GTGGTACTGGATTTGCCG
1 TTGCGACTTAAATCTTTCCCTTCATGTCTTTCATGGTACTGGATTCGCCG
* * * * *
55777 TTGCGAGTTAAACCTTTCCCTTCGTGTC-TTCGTGGTACTGGATTCGCTG
1 TTGCGACTTAAATCTTTCCCTTCATGTCTTTCATGGTACTGGATTCGCCG
* * ** * * * *
55826 TTGCGGCTTAAATCTTTCTCTTCACATCTCT-GTGGTATTGGATTTGCCG
1 TTGCGACTTAAATCTTTCCCTTCATGTCTTTCATGGTACTGGATTCGCCG
* * * *
55875 TTGCGATTTAAATCTTTCCCTTTATGT-TTCTGA-GGTACACGG-TTCGCCG
1 TTGCGACTTAAATCTTTCCCTTCATGTCTT-TCATGGTAC-TGGATTCGCCG
* * * ** * * *
55924 TTACGACTTAAACCTTTCCCTCCACATC-TTCGTGGTACTGGATTAGCCA
1 TTGCGACTTAAATCTTTCCCTTCATGTCTTTCATGGTACTGGATTCGCCG
*
55973 TTGAGACTTAAATCTTTCCCTTCATG--TTTCATGGTACTG
1 TTGCGACTTAAATCTTTCCCTTCATGTCTTTCATGGTACTG
56012 AGACCTGTAG
Statistics
Matches: 568, Mismatches: 120, Indels: 71
0.75 0.16 0.09
Matches are distributed among these distances:
45 1 0.00
46 2 0.00
47 40 0.07
48 32 0.06
49 466 0.82
50 21 0.04
51 5 0.01
52 1 0.00
ACGTcount: A:0.16, C:0.25, G:0.20, T:0.39
Consensus pattern (50 bp):
TTGCGACTTAAATCTTTCCCTTCATGTCTTTCATGGTACTGGATTCGCCG
Found at i:55443 original size:98 final size:98
Alignment explanation
Indices: 55319--55944 Score: 785
Period size: 98 Copynumber: 6.4 Consensus size: 98
55309 TTTCATTTCA
* * * * **
55319 TGGTACTGGATTCGCCGTTACGGCTTAAATATTTCCTTTCATGTCTATGAGGTATTAGGTTCGCC
1 TGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTCTGAGGTACAAGGTTCGCC
* * * *
55384 ATTGCGACTTAAAACTTTCCTTTTGCT-TCTTCG
66 GTTGCGACTTAAACCTTTCCCTTCG-TGTCTTCG
* * * *
55417 AGGTACTGGATTCGCCTTTGCGGCTTAAATTTTTCCCTTCATGTCTCTGAGGTACAAGGTTCACC
1 TGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTCTGAGGTACAAGGTTCGCC
* *
55482 GTTGCGACTTAAACCTTTCCTTTCGTGTCTTTG
66 GTTGCGACTTAAACCTTTCCCTTCGTGTCTTCG
*
55515 TGGTACTGGATTAGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTCTGAGGTACAAGGTTCGCC
1 TGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTCTGAGGTACAAGGTTCGCC
*
55580 GTTGCGACTTAAACCTTTCCCTTCGTGTCTTTG
66 GTTGCGACTTAAACCTTTCCCTTCGTGTCTTCG
* *
55613 TGGTACTGGATTCGCCGTTACGGCTTAAATCTTTCCCTTCATGTCTTTGAGGTACAAGGTTCGCC
1 TGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTCTGAGGTACAAGGTTCGCC
55678 GTTGCGACTTAAACCTTTCCCTTCGTGTCTTCG
66 GTTGCGACTTAAACCTTTCCCTTCGTGTCTTCG
* * * * *
55711 TGGTACTGGATTCGCCGTTGCGACTTAAATCTTTCCCTTCACGTCTCTGTGGTAC-TGGATTTGC
1 TGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTCTGAGGTACAAGG-TTCGC
*
55775 CGTTGCGAGTTAAACCTTTCCCTTCGTGTCTTCG
65 CGTTGCGACTTAAACCTTTCCCTTCGTGTCTTCG
* * ** * ** *
55809 TGGTACTGGATTCGCTGTTGCGGCTTAAATCTTTCTCTTCACATCTCTGTGGTA-TTGGATTTGC
1 TGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTCTGAGGTACAAGG-TTCGC
* * **
55873 CGTTGCGATTTAAATCTTTCCCTTTATGT-TTCTG
65 CGTTGCGACTTAAACCTTTCCCTTCGTGTCTTC-G
* * * * *
55907 AGGTACACGG-TTCGCCGTTACGACTTAAACCTTTCCCT
1 TGGTAC-TGGATTCGCCGTTGCGGCTTAAATCTTTCCCT
55945 CCACATCTTC
Statistics
Matches: 477, Mismatches: 46, Indels: 10
0.89 0.09 0.02
Matches are distributed among these distances:
97 6 0.01
98 469 0.98
99 2 0.00
ACGTcount: A:0.16, C:0.25, G:0.21, T:0.39
Consensus pattern (98 bp):
TGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTCTGAGGTACAAGGTTCGCC
GTTGCGACTTAAACCTTTCCCTTCGTGTCTTCG
Found at i:55950 original size:98 final size:98
Alignment explanation
Indices: 55273--56011 Score: 683
Period size: 98 Copynumber: 7.6 Consensus size: 98
55263 GTGTTTTCAC
* * * * * *
55273 GGTACTGGATTCGTCGTTGCGGCTTAAATCTTTCCCTT--TCAT-TTCATGGTACTGGATTCGCC
1 GGTACTGGATTTGCCGTTGCGACTTAAACCTTTCCCTTCGT-GTCTTCGTGGTACTGGATTCGCC
* * * ** * *
55335 GTTACGGCTTAAATATTTCCTTTCATGTCTATGA
65 GTTACGACTTAAATCTTTCCCTTCACATCTCTGT
* * * * * * *
55369 GGTATTAGG-TTCGCCATTGCGACTTAAAACTTTCCTTTTGCT-TCTTCGAGGTACTGGATTCGC
1 GGTACT-GGATTTGCCGTTGCGACTTAAACCTTTCCCTTCG-TGTCTTCGTGGTACTGGATTCGC
* * * * ** *
55432 CTTTGCGGCTTAAATTTTTCCCTTCATGTCTCTGA
64 CGTTACGACTTAAATCTTTCCCTTCACATCTCTGT
* ** * * *
55467 GGTACAAGG-TTCACCGTTGCGACTTAAACCTTTCCTTTCGTGTCTTTGTGGTACTGGATTAGCC
1 GGTAC-TGGATTTGCCGTTGCGACTTAAACCTTTCCCTTCGTGTCTTCGTGGTACTGGATTCGCC
* * ** *
55531 GTTGCGGCTTAAATCTTTCCCTTCATGTCTCTGA
65 GTTACGACTTAAATCTTTCCCTTCACATCTCTGT
* * *
55565 GGTACAAGG-TTCGCCGTTGCGACTTAAACCTTTCCCTTCGTGTCTTTGTGGTACTGGATTCGCC
1 GGTAC-TGGATTTGCCGTTGCGACTTAAACCTTTCCCTTCGTGTCTTCGTGGTACTGGATTCGCC
* ** * *
55629 GTTACGGCTTAAATCTTTCCCTTCATGTCTTTGA
65 GTTACGACTTAAATCTTTCCCTTCACATCTCTGT
* *
55663 GGTACAAGG-TTCGCCGTTGCGACTTAAACCTTTCCCTTCGTGTCTTCGTGGTACTGGATTCGCC
1 GGTAC-TGGATTTGCCGTTGCGACTTAAACCTTTCCCTTCGTGTCTTCGTGGTACTGGATTCGCC
* *
55727 GTTGCGACTTAAATCTTTCCCTTCACGTCTCTGT
65 GTTACGACTTAAATCTTTCCCTTCACATCTCTGT
* *
55761 GGTACTGGATTTGCCGTTGCGAGTTAAACCTTTCCCTTCGTGTCTTCGTGGTACTGGATTCGCTG
1 GGTACTGGATTTGCCGTTGCGACTTAAACCTTTCCCTTCGTGTCTTCGTGGTACTGGATTCGCCG
* * *
55826 TTGCGGCTTAAATCTTTCTCTTCACATCTCTGT
66 TTACGACTTAAATCTTTCCCTTCACATCTCTGT
* * * ** * *
55859 GGTATTGGATTTGCCGTTGCGATTTAAATCTTTCCCTTTATGT-TTCTGAGGTACACGG-TTCGC
1 GGTACTGGATTTGCCGTTGCGACTTAAACCTTTCCCTTCGTGTCTTC-GTGGTAC-TGGATTCGC
* *
55922 CGTTACGACTTAAACCTTTCCCTCCACATCT-TCGT
64 CGTTACGACTTAAATCTTTCCCTTCACATCTCT-GT
* * * * * *
55957 GGTACTGGATTAGCCATTGAGACTTAAATCTTTCCCTTCATGT-TTCATGGTACTG
1 GGTACTGGATTTGCCGTTGCGACTTAAACCTTTCCCTTCGTGTCTTCGTGGTACTG
56012 AGACCTGTAG
Statistics
Matches: 568, Mismatches: 64, Indels: 22
0.87 0.10 0.03
Matches are distributed among these distances:
96 30 0.05
97 15 0.03
98 520 0.92
99 3 0.01
ACGTcount: A:0.16, C:0.24, G:0.21, T:0.39
Consensus pattern (98 bp):
GGTACTGGATTTGCCGTTGCGACTTAAACCTTTCCCTTCGTGTCTTCGTGGTACTGGATTCGCCG
TTACGACTTAAATCTTTCCCTTCACATCTCTGT
Found at i:56452 original size:18 final size:18
Alignment explanation
Indices: 56431--56465 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
56421 CAAATTGCCG
*
56431 AATATTTACAAGAAACAA
1 AATAATTACAAGAAACAA
*
56449 AATAATTACAAGGAACA
1 AATAATTACAAGAAACA
56466 GTATTAGATG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.60, C:0.11, G:0.09, T:0.20
Consensus pattern (18 bp):
AATAATTACAAGAAACAA
Found at i:65315 original size:25 final size:25
Alignment explanation
Indices: 65287--65337 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
65277 GCTACGAACT
65287 CTTTCAAAGGGGAGTAATCTTTAGA
1 CTTTCAAAGGGGAGTAATCTTTAGA
65312 CTTTCAAAGGGGAGTAATCTTTAGA
1 CTTTCAAAGGGGAGTAATCTTTAGA
65337 C
1 C
65338 AAATACTGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (25 bp):
CTTTCAAAGGGGAGTAATCTTTAGA
Found at i:65753 original size:70 final size:70
Alignment explanation
Indices: 65640--65777 Score: 276
Period size: 70 Copynumber: 2.0 Consensus size: 70
65630 ATCTCGTAGA
65640 CTTTTCCACGTGATGCATTTATTGTCGCCTTTGACCTTAACCCGAGCTACAACCCATTGTTCGCT
1 CTTTTCCACGTGATGCATTTATTGTCGCCTTTGACCTTAACCCGAGCTACAACCCATTGTTCGCT
65705 CATTG
66 CATTG
65710 CTTTTCCACGTGATGCATTTATTGTCGCCTTTGACCTTAACCCGAGCTACAACCCATTGTTCGCT
1 CTTTTCCACGTGATGCATTTATTGTCGCCTTTGACCTTAACCCGAGCTACAACCCATTGTTCGCT
65775 CAT
66 CAT
65778 GCCGGTGATG
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 68 1.00
ACGTcount: A:0.19, C:0.30, G:0.15, T:0.36
Consensus pattern (70 bp):
CTTTTCCACGTGATGCATTTATTGTCGCCTTTGACCTTAACCCGAGCTACAACCCATTGTTCGCT
CATTG
Found at i:67430 original size:97 final size:97
Alignment explanation
Indices: 67245--67438 Score: 230
Period size: 97 Copynumber: 2.0 Consensus size: 97
67235 AAATTTGGAA
* *
67245 AAGGATATTCGATTATCTCGATTTGAAGAAAAGTCGCACCTAGGAAGTTAAGGCACAAATTTTCA
1 AAGGATATTCGATTATCTCGATTTGAAGAAAAATCGCACCTAGGAAGTTAAGACACAAATTTTCA
* * *
67310 GAATTAGAGATAAAGAAACATTGCCTCGATTT
66 AAACTAGAAATAAAGAAACATTGCCTCGATTT
* * * * * *
67342 AAGGGTATTTGATTAT-TCTGATTTGAAGAAAAATTGCGCCTAGTAAGTTAAGACGCAAATTTTC
1 AAGGATATTCGATTATCTC-GATTTGAAGAAAAATCGCACCTAGGAAGTTAAGACACAAATTTTC
* * *
67406 AAAACTCGAAATAAA-AGAATATTGCCTTGATTT
65 AAAACTAGAAATAAAGA-AACATTGCCTCGATTT
67439 TAAAGTTTCA
Statistics
Matches: 81, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
96 3 0.04
97 78 0.96
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (97 bp):
AAGGATATTCGATTATCTCGATTTGAAGAAAAATCGCACCTAGGAAGTTAAGACACAAATTTTCA
AAACTAGAAATAAAGAAACATTGCCTCGATTT
Found at i:67765 original size:59 final size:58
Alignment explanation
Indices: 67702--68152 Score: 339
Period size: 59 Copynumber: 7.7 Consensus size: 58
67692 ACACTTTTGG
* * * *
67702 GGGTAAAATTGTAACTTTTGAAAATTTCAGGGTAAAAAATGAATTTTTTGGACGTTCGA
1 GGGTAAAATGGTAATTTTTGAAAATTTC-GGGTTAAAAATGAATTTTTTGGACATTCGA
* * * * *
67761 GGGTAAAATAGTAATTTTTGAAAGTTTTGGGGTCAAAAATGGAA--ATTTGGACATTCG-
1 GGGTAAAATGGTAATTTTTGAAA-ATTTCGGGTTAAAAAT-GAATTTTTTGGACATTCGA
*
67818 GGGTTAAAATGGTAATTTTTGAAAGTTTCGAGGTTAAAAAT-AGATTTTTTGGACATTCG-
1 GGG-TAAAATGGTAATTTTTGAAAATTTCG-GGTTAAAAATGA-ATTTTTTGGACATTCGA
* * * * * * *
67877 GGTTACAATGGTAATTTTTGAAAACTTCAGGGTCAAAAATG-GTATTTTTGGATA-TCTTA
1 GGGTAAAATGGTAATTTTTGAAAATTTC-GGGTTAAAAATGAAT-TTTTTGGACATTC-GA
* * * **
67936 GGGTAAAATTGTAATTTTTGGAAAA-TTCGAGGTTAAAAATGGACTTTTTT-GATATTTTA
1 GGGTAAAATGGTAATTTTT-GAAAATTTCG-GGTTAAAAAT-GAATTTTTTGGACATTCGA
** * * * * *
67995 GGGTAAAATGGTAATTTTTGGAAGTTTTAGGGTTGAAAATGGAA-TTTTTAGACATTTGG
1 GGGTAAAATGGTAATTTTT-GAAAATTTCGGGTTAAAAAT-GAATTTTTTGGACATTCGA
* * * * * *
68054 GGGTAAAATTGTAATTTTTGGAATTTTCGAGGTTAAAAATGAAATTTTTGGATATTCAA
1 GGGTAAAATGGTAATTTTTGAAAATTTCG-GGTTAAAAATGAATTTTTTGGACATTCGA
* * *
68113 TGGGTAAAATGGTAATTTTTG-GAATTTTGGGGTAAAAATG
1 -GGGTAAAATGGTAATTTTTGAAAATTTCGGGTTAAAAATG
68153 TAAGTTTTGG
Statistics
Matches: 320, Mismatches: 50, Indels: 45
0.77 0.12 0.11
Matches are distributed among these distances:
56 1 0.00
57 11 0.03
58 105 0.33
59 162 0.51
60 40 0.12
61 1 0.00
ACGTcount: A:0.33, C:0.04, G:0.24, T:0.38
Consensus pattern (58 bp):
GGGTAAAATGGTAATTTTTGAAAATTTCGGGTTAAAAATGAATTTTTTGGACATTCGA
Found at i:68058 original size:118 final size:118
Alignment explanation
Indices: 67697--68163 Score: 470
Period size: 117 Copynumber: 4.0 Consensus size: 118
67687 TTCGGACACT
* * * *
67697 TTTGGGGGTAAAATTGTAACTTTTGAAAATTTC-AGGGTAAAAAAT-GAATTTTTTGGACGTTCG
1 TTTGGGGGTAAAATTGTAATTTTTGAAAA-TTCGA-GGTTAAAAATGGAATTTTTTGGACATTCT
* * *
67760 AGGGTAAAATAGTAATTTTTGAAAGTTTTGGGGTCAAAAATGGAA-ATTTGGACA
64 AGGGTAAAATGGTAATTTTTGAAAGTTTTAGGGTCAAAAATGGAATTTTTGGACA
* * * * *
67814 TTCGGGGTTAAAATGGTAATTTTTGAAAGTTTCGAGGTTAAAAATAG-ATTTTTTGGACATTC--
1 TTTGGGGGTAAAATTGTAATTTTTGAAA-ATTCGAGGTTAAAAATGGAATTTTTTGGACATTCTA
* ** * * *
67876 GGGTTACAATGGTAATTTTTGAAAACTTCAGGGTCAAAAATGGTATTTTTGGATA
65 GGG-TAAAATGGTAATTTTTGAAAGTTTTAGGGTCAAAAATGGAATTTTTGGACA
* * * *
67931 TCTT-AGGGTAAAATTGTAATTTTTGGAAAATTCGAGGTTAAAAATGGACTTTTTT-GATATTTT
1 T-TTGGGGGTAAAATTGTAATTTTT-GAAAATTCGAGGTTAAAAATGGAATTTTTTGGACATTCT
* ** *
67994 AGGGTAAAATGGTAATTTTTGGAAGTTTTAGGGTTGAAAATGGAATTTTTAGACA
64 AGGGTAAAATGGTAATTTTTGAAAGTTTTAGGGTCAAAAATGGAATTTTTGGACA
** * * *
68049 TTTGGGGGTAAAATTGTAATTTTTGGAATTTTCGAGGTTAAAAAT-GAAATTTTTGGATATTCAA
1 TTTGGGGGTAAAATTGTAATTTTT-GAAAATTCGAGGTTAAAAATGGAATTTTTTGGACATTCTA
* * * *
68113 TGGGTAAAATGGTAATTTTTGGAA-TTTTGGGGT-AAAAATGTAAGTTTTGGA
65 -GGGTAAAATGGTAATTTTTGAAAGTTTTAGGGTCAAAAATGGAATTTTTGGA
68164 GGCTTCAAGG
Statistics
Matches: 290, Mismatches: 47, Indels: 26
0.80 0.13 0.07
Matches are distributed among these distances:
115 3 0.01
116 34 0.12
117 119 0.41
118 108 0.37
119 26 0.09
ACGTcount: A:0.33, C:0.04, G:0.24, T:0.39
Consensus pattern (118 bp):
TTTGGGGGTAAAATTGTAATTTTTGAAAATTCGAGGTTAAAAATGGAATTTTTTGGACATTCTAG
GGTAAAATGGTAATTTTTGAAAGTTTTAGGGTCAAAAATGGAATTTTTGGACA
Found at i:68134 original size:30 final size:29
Alignment explanation
Indices: 67883--68163 Score: 168
Period size: 30 Copynumber: 9.6 Consensus size: 29
67873 TTCGGGTTAC
* *
67883 AATGGTAATTTTTGAAAACTTC-AGGGTCAAA
1 AATGGTAATTTTTGGATA-TTCTAGGGT--AA
67914 AATGGT-ATTTTTGGATA-TCTTAGGGTAA
1 AATGGTAATTTTTGGATATTC-TAGGGTAA
* * * *
67942 AATTGTAATTTTTGGAAAATTCGAGGTTAAA
1 AATGGTAATTTTTGG-ATATTCTAGGGT-AA
* * *
67973 AATGG-ACTTTTTTGATATTTTAGGGTAA
1 AATGGTAATTTTTGGATATTCTAGGGTAA
*
68001 AATGGTAATTTTTGGA-AGTTTTAGGGTTGAA
1 AATGGTAATTTTTGGATA-TTCTAGGG-T-AA
* * *
68032 AATGG-AATTTTTAGACATT-TGGGGGTAA
1 AATGGTAATTTTTGGATATTCT-AGGGTAA
* * * *
68060 AATTGTAATTTTTGGAATTTTCGAGGTTAAA
1 AATGGTAATTTTTGG-ATATTCTAGGGT-AA
* *
68091 AAT-GAAATTTTTGGATATTCAATGGGTAA
1 AATGGTAATTTTTGGATATTCTA-GGGTAA
* *
68120 AATGGTAATTTTTGGA-ATTTTGGGGTAAA
1 AATGGTAATTTTTGGATATTCTAGGGT-AA
*
68149 AAT-GTAAGTTTTGGA
1 AATGGTAATTTTTGGA
68164 GGCTTCAAGG
Statistics
Matches: 198, Mismatches: 33, Indels: 41
0.73 0.12 0.15
Matches are distributed among these distances:
28 38 0.19
29 61 0.31
30 72 0.36
31 27 0.14
ACGTcount: A:0.33, C:0.03, G:0.23, T:0.40
Consensus pattern (29 bp):
AATGGTAATTTTTGGATATTCTAGGGTAA
Found at i:68189 original size:88 final size:87
Alignment explanation
Indices: 68030--68193 Score: 197
Period size: 88 Copynumber: 1.9 Consensus size: 87
68020 TTTAGGGTTG
* * ** * *
68030 AAAATGGAATTTTTAGACATTTGGGGGTAAAATTGTAATTTTTGGAATTTTCGAGGTTAAAAATG
1 AAAATGGAATTTTTAGACATTTGGGGGTAAAAATGTAAGTTTTGGAAGCTTCAAGGTCAAAAATG
68095 AAATTTTTGGATATTCAATGGGT
66 -AATTTTTGGATATTCAATGGGT
* * *
68118 AAAATGGTAATTTTTGGA-ATTTTGGGGTAAAAATGTAAGTTTTGGAGGCTTCAAGGGTCAAAAT
1 AAAATGG-AATTTTTAGACATTTGGGGGTAAAAATGTAAGTTTTGGAAGCTTCAA-GGTCAAAA-
68182 ATG-ATTTTTGGA
63 ATGAATTTTTGGA
68194 CAGATCAGGG
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
88 45 0.70
89 16 0.25
90 3 0.05
ACGTcount: A:0.34, C:0.04, G:0.24, T:0.38
Consensus pattern (87 bp):
AAAATGGAATTTTTAGACATTTGGGGGTAAAAATGTAAGTTTTGGAAGCTTCAAGGTCAAAAATG
AATTTTTGGATATTCAATGGGT
Found at i:68189 original size:118 final size:115
Alignment explanation
Indices: 67702--68193 Score: 405
Period size: 118 Copynumber: 4.2 Consensus size: 115
67692 ACACTTTTGG
* * * *
67702 GGGTAAAATTGTAACTTTTGAAAATTTC-AGGGTAAAAAATGAATTTTTTGGACGTTCGAGGGTA
1 GGGTAAAATTG-AATTTTTGGAAATTTCGA-GGTTAAAAATGAATTTTTTGGACATTC-AGGGTA
* * *
67766 AAATAGTAATTTTTGAAAGTTTTGGGGTCAAAAATGGAAATTTGGA-CATTCG
63 AAATGGTAATTTTTGAAAGTTTTGGGGTCAAAAATGGAATTTTGGAGCATTCA
*
67818 GGGTTAAAATGGTAATTTTT-GAAAGTTTCGAGGTTAAAAAT-AGATTTTTTGGACATTC-GGGT
1 GGG-TAAAATTG-AATTTTTGGAAA-TTTCGAGGTTAAAAATGA-ATTTTTTGGACATTCAGGG-
* ** ** * * *
67880 TACAATGGTAATTTTTGAAAACTTCAGGGTCAAAAATGGTATTTTTGGA-TATCTTA
61 TAAAATGGTAATTTTTGAAAGTTTTGGGGTCAAAAATGG-AATTTTGGAGCAT-TCA
* * * *
67936 GGGTAAAATTGTAATTTTTGGAAAATTCGAGGTTAAAAATGGACTTTTTT-GATATTTTAGGGTA
1 GGGTAAAATTG-AATTTTTGGAAATTTCGAGGTTAAAAAT-GAATTTTTTGGACA-TTCAGGGTA
* * ** * **
68000 AAATGGTAATTTTTGGAAGTTTTAGGGTTGAAAATGGAATTTT-TAGACATTTGG
63 AAATGGTAATTTTTGAAAGTTTTGGGGTCAAAAATGGAATTTTGGAG-CA-TTCA
* * *
68054 GGGTAAAATTGTAATTTTTGGAATTTTCGAGGTTAAAAATGAAATTTTTGGATATTCAATGGGTA
1 GGGTAAAATTG-AATTTTTGGAAATTTCGAGGTTAAAAATGAATTTTTTGGACATTC-A-GGGTA
* *
68119 AAATGGTAATTTTTGGAA-TTTTGGGGT-AAAAATGTAAGTTTTGGAGGC-TTCAA
63 AAATGGTAATTTTTGAAAGTTTTGGGGTCAAAAATGGAA-TTTTGGA-GCATTC-A
68172 GGGTCAAAATATG-ATTTTTGGA
1 GGGT-AAAAT-TGAATTTTTGGA
68194 CAGATCAGGG
Statistics
Matches: 308, Mismatches: 44, Indels: 46
0.77 0.11 0.12
Matches are distributed among these distances:
115 3 0.01
116 41 0.13
117 107 0.35
118 119 0.39
119 35 0.11
120 3 0.01
ACGTcount: A:0.33, C:0.05, G:0.24, T:0.38
Consensus pattern (115 bp):
GGGTAAAATTGAATTTTTGGAAATTTCGAGGTTAAAAATGAATTTTTTGGACATTCAGGGTAAAA
TGGTAATTTTTGAAAGTTTTGGGGTCAAAAATGGAATTTTGGAGCATTCA
Found at i:69297 original size:17 final size:15
Alignment explanation
Indices: 69256--69298 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 15
69246 CAACTACTTC
69256 TTATTTATTTAATAA
1 TTATTTATTTAATAA
69271 TTAATATTATTTAATATA
1 TT-AT-TTATTTAATA-A
69289 TATATTTATT
1 T-TATTTATT
69299 AATTATGCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
15 2 0.08
16 2 0.08
17 15 0.62
18 4 0.17
19 1 0.04
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TTATTTATTTAATAA
Found at i:69825 original size:11 final size:11
Alignment explanation
Indices: 69791--69826 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
69781 GGTAGGGTCA
69791 TTTGTAATTGGG
1 TTTGT-ATTGGG
*
69803 CTTGTATTGGG
1 TTTGTATTGGG
69814 TTTGTATTGGG
1 TTTGTATTGGG
69825 TT
1 TT
69827 AATTAAATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 18 0.82
12 4 0.18
ACGTcount: A:0.11, C:0.03, G:0.33, T:0.53
Consensus pattern (11 bp):
TTTGTATTGGG
Found at i:70002 original size:18 final size:17
Alignment explanation
Indices: 69962--70004 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
69952 GTTTAAAACT
*
69962 ATTTCAAATTTAAGATAA
1 ATTT-AAATTTAAAATAA
*
69980 CTTTAAATTTAAAAATAA
1 ATTTAAATTT-AAAATAA
69998 ATTTAAA
1 ATTTAAA
70005 ACCCATTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (17 bp):
ATTTAAATTTAAAATAA
Found at i:76065 original size:3 final size:3
Alignment explanation
Indices: 76047--76139 Score: 141
Period size: 3 Copynumber: 30.3 Consensus size: 3
76037 AAAACATATT
*
76047 TAA TAA GTAC TAA TAA 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
* *
76093 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAAA TAG TAG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA
76139 T
1 T
76140 TAGCATTAAT
Statistics
Matches: 84, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
3 79 0.94
4 5 0.06
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:77306 original size:29 final size:28
Alignment explanation
Indices: 77265--77421 Score: 99
Period size: 29 Copynumber: 5.5 Consensus size: 28
77255 AAGGTCCCTA
*
77265 AATTGTCCAAAAATCATATTTTGACCCTTG
1 AATTTTCC-AAAATCATATTTTGA-CCTTG
*
77295 AATTTTCCAAAATTCCAT-TTTTGACGTTG
1 AATTTTCCAAAA-T-CATATTTTGACCTTG
* * **
77324 -ATTTTCCAAAAATTACCATTTT-ACCCCG
1 AATTTTCC-AAAATCA-TATTTTGACCTTG
* *
77352 AACTTTCCAAAATTCCAT-TTTTGACCTCG
1 AATTTTCCAAAA-T-CATATTTTGACCTTG
* *
77381 ATTTTTCCAAAATTATCATTTT-ACCTTG
1 AATTTTCCAAAATCAT-ATTTTGACCTTG
*
77409 AACTTTCCAAAAT
1 AATTTTCCAAAAT
77422 TCCATTTTTT
Statistics
Matches: 99, Mismatches: 17, Indels: 24
0.71 0.12 0.17
Matches are distributed among these distances:
27 3 0.03
28 36 0.36
29 42 0.42
30 15 0.15
31 3 0.03
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.40
Consensus pattern (28 bp):
AATTTTCCAAAATCATATTTTGACCTTG
Found at i:77391 original size:58 final size:57
Alignment explanation
Indices: 77298--77804 Score: 414
Period size: 57 Copynumber: 8.8 Consensus size: 57
77288 ACCCTTGAAT
* *
77298 TTTCCAAAATTCCATTTTTGACGTTGA-TTTTCCAAAAATTACCATTTTACCCCGAAC
1 TTTCCAAAATTCCATTTTTGACCTCGATTTTTCC-AAAATTACCATTTTACCCCGAAC
* **
77355 TTTCCAAAATTCCATTTTTGACCTCGATTTTTCCAAAATTATCATTTTACCTTGAAC
1 TTTCCAAAATTCCATTTTTGACCTCGATTTTTCCAAAATTACCATTTTACCCCGAAC
* **
77412 TTTCCAAAATTCCATTTTTTA-CTCCGATTTTTCCAAAAATTACCATTTTACCCTAAAC
1 TTTCCAAAATTCCATTTTTGACCT-CGATTTTTCC-AAAATTACCATTTTACCCCGAAC
*
77470 TTTCCAAAATTCCA-TTTTGA-CTCGGATTTTTCCAAAATTACCATTTTACACTCGAAC
1 TTTCCAAAATTCCATTTTTGACCTC-GATTTTTCCAAAATTACCATTTTAC-CCCGAAC
* * * * *
77527 -TCCCAAAAATTCCATTTTTGACATCAATTTTTCCAAATTTACCATTTTACCCCCAAAC
1 TTTCC-AAAATTCCATTTTTGACCTCGATTTTTCCAAAATTACCATTTTA-CCCCGAAC
* * * *
77585 -TTCCTAAAATTCCA-TTTTGACC-CTAACTTTTCCAAAATTACCATTTTACCATCGGA-
1 TTTCC-AAAATTCCATTTTTGACCTC-GATTTTTCCAAAATTACCATTTTACC-CCGAAC
* * * * ** *
77641 TGTCTAAAAATTCC-TTTTTAAACCTTGAACTTTCCAAAATTTACCATTTTACCCC-AAA
1 TTTC-CAAAATTCCATTTTT-GACCTCGATTTTTCCAAAA-TTACCATTTTACCCCGAAC
* * * * * * * *
77699 TGTCTACAAATTCTATTTTTGACCCCGAACTTTCCCAAAATTACCATTTTGCCCTCG-AG
1 TTTCCA-AAATTCCATTTTTGACCTCG-ATTTTTCCAAAATTACCATTTTACCC-CGAAC
* * * *
77758 TGTCAAAAATTACCA-TTTT-ACCCTCGA-GTGTCCAAAATTACCATTTT
1 TTTCCAAAATT-CCATTTTTGA-CCTCGATTTTTCCAAAATTACCATTTT
77805 GCCTCCATTA
Statistics
Matches: 373, Mismatches: 52, Indels: 51
0.78 0.11 0.11
Matches are distributed among these distances:
56 42 0.11
57 153 0.41
58 139 0.37
59 39 0.10
ACGTcount: A:0.30, C:0.26, G:0.06, T:0.38
Consensus pattern (57 bp):
TTTCCAAAATTCCATTTTTGACCTCGATTTTTCCAAAATTACCATTTTACCCCGAAC
Found at i:77444 original size:29 final size:28
Alignment explanation
Indices: 77294--77631 Score: 144
Period size: 28 Copynumber: 11.8 Consensus size: 28
77284 TTTGACCCTT
* **
77294 GAATTTTCCAAAATTCCATTTTTGACGTT
1 GAATTTTCCAAAATTCCATTTTTTAC-CC
77323 G-ATTTTCCAAAAATTACCA--TTTTACCCC
1 GAATTTTCC-AAAATT-CCATTTTTTA-CCC
* *
77351 GAACTTTCCAAAATTCCATTTTTGACCTC
1 GAATTTTCCAAAATTCCATTTTTTACC-C
* * *
77380 GATTTTTCCAAAATT--ATCATTTTACCTT
1 GAATTTTCCAAAATTCCAT-TTTTTACC-C
*
77408 GAACTTTCCAAAATTCCATTTTTTACTCC
1 GAATTTTCCAAAATTCCATTTTTTAC-CC
*
77437 GATTTTTCCAAAAATTACCA--TTTTACCC
1 GAATTTTCC-AAAATT-CCATTTTTTACCC
* * * *
77465 TAAACTTTCCAAAATTCCA-TTTTGACTCG
1 -GAATTTTCCAAAATTCCATTTTTTAC-CC
* ** *
77494 GATTTTTCCAAAATTACCATTTTACACTC
1 GAATTTTCCAAAATT-CCATTTTTTACCC
* * * *
77523 GAA-CTCCCAAAAATTCCATTTTTGACATC
1 GAATTTTCC-AAAATTCCATTTTTTAC-CC
*
77552 -AATTTTTCCAAATTTACCA--TTTTACCCC
1 GAA-TTTTCCAAAATT-CCATTTTTTA-CCC
* ** *
77580 CAAACTTCCTAAAATTCCA-TTTTGACCC
1 GAATTTTCC-AAAATTCCATTTTTTACCC
*
77608 TAACTTTTCCAAAATTACCATTTT
1 GAA-TTTTCCAAAATT-CCATTTT
77632 ACCATCGGAT
Statistics
Matches: 234, Mismatches: 45, Indels: 59
0.69 0.13 0.17
Matches are distributed among these distances:
27 8 0.03
28 102 0.44
29 95 0.41
30 26 0.11
31 3 0.01
ACGTcount: A:0.30, C:0.25, G:0.04, T:0.40
Consensus pattern (28 bp):
GAATTTTCCAAAATTCCATTTTTTACCC
Found at i:77476 original size:115 final size:115
Alignment explanation
Indices: 77290--77748 Score: 463
Period size: 115 Copynumber: 4.0 Consensus size: 115
77280 ATATTTTGAC
* * * *
77290 CCTTGAATTTTCCAAAATTCCATTTTTGACGTTGA-TTTTCCAAAAATTACCATTTTACCCCGAA
1 CCTTGAACTTTCCAAAATTCCATTTTTGACATCGATTTTTCCAAAAATTACCATTTTACCCCAAA
*
77354 CTTTCCAAAATTCCATTTTTGACCTC-GATTTTTCCAAAATTATCATTTTA
66 CTTTCCAAAATTCCA-TTTTGACCTCGGATTTTTCCAAAATTACCATTTTA
* *
77404 CCTTGAACTTTCCAAAATTCCATTTTTTAC-TCCGATTTTTCCAAAAATTACCATTTTACCCTAA
1 CCTTGAACTTTCCAAAATTCCATTTTTGACAT-CGATTTTTCCAAAAATTACCATTTTACCCCAA
77468 ACTTTCCAAAATTCCATTTTGA-CTCGGATTTTTCCAAAATTACCATTTTA
65 ACTTTCCAAAATTCCATTTTGACCTCGGATTTTTCCAAAATTACCATTTTA
* * * *
77518 CACTCGAAC-TCCCAAAAATTCCATTTTTGACATCAATTTTTCC-AAATTTACCATTTTACCCCC
1 C-CTTGAACTTTCC-AAAATTCCATTTTTGACATCGATTTTTCCAAAAATTACCATTTTA-CCCC
** *
77581 AAAC-TTCCTAAAATTCCATTTTGACC-CTAACTTTTCCAAAATTACCATTTTA
63 AAACTTTCC-AAAATTCCATTTTGACCTCGGATTTTTCCAAAATTACCATTTTA
* * * * * * * ** *
77633 CCATCGGA-TGTCTAAAAATTCC-TTTTTAAACCTTGAACTTTCCAAAATTTACCATTTTACCCC
1 CC-TTGAACTTTC-CAAAATTCCATTTTT-GACATCGATTTTTCCAAAAATTACCATTTTACCCC
* * * * * * *
77696 AAA-TGTCTACAAATTCTATTTTTGACCCCGAACTTTCCCAAAATTACCATTTT
63 AAACTTTCCA-AAATTCCA-TTTTGACCTCGGATTTTTCCAAAATTACCATTTT
77749 GCCCTCGAGT
Statistics
Matches: 297, Mismatches: 30, Indels: 33
0.82 0.08 0.09
Matches are distributed among these distances:
113 4 0.01
114 88 0.30
115 157 0.53
116 25 0.08
117 23 0.08
ACGTcount: A:0.31, C:0.25, G:0.05, T:0.39
Consensus pattern (115 bp):
CCTTGAACTTTCCAAAATTCCATTTTTGACATCGATTTTTCCAAAAATTACCATTTTACCCCAAA
CTTTCCAAAATTCCATTTTGACCTCGGATTTTTCCAAAATTACCATTTTA
Found at i:77770 original size:28 final size:28
Alignment explanation
Indices: 77735--77807 Score: 128
Period size: 28 Copynumber: 2.6 Consensus size: 28
77725 GAACTTTCCC
77735 AAAATTACCATTTTGCCCTCGAGTGTCA
1 AAAATTACCATTTTGCCCTCGAGTGTCA
* *
77763 AAAATTACCATTTTACCCTCGAGTGTCC
1 AAAATTACCATTTTGCCCTCGAGTGTCA
77791 AAAATTACCATTTTGCC
1 AAAATTACCATTTTGCC
77808 TCCATTATCC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.33
Consensus pattern (28 bp):
AAAATTACCATTTTGCCCTCGAGTGTCA
Found at i:77822 original size:28 final size:28
Alignment explanation
Indices: 77735--77823 Score: 110
Period size: 28 Copynumber: 3.2 Consensus size: 28
77725 GAACTTTCCC
77735 AAAATTACCATTTTGCCCTCGAGTGT-CA
1 AAAATTACCATTTTG-CCTCGAGTGTCCA
*
77763 AAAATTACCATTTTACCCTCGAGTGTCC-
1 AAAATTACCATTTT-GCCTCGAGTGTCCA
* * *
77791 AAAATTACCATTTTGCCTCCATTATCCA
1 AAAATTACCATTTTGCCTCGAGTGTCCA
77819 AAAAT
1 AAAAT
77824 CTCATTTTCG
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
27 9 0.17
28 43 0.81
29 1 0.02
ACGTcount: A:0.33, C:0.26, G:0.09, T:0.33
Consensus pattern (28 bp):
AAAATTACCATTTTGCCTCGAGTGTCCA
Found at i:80737 original size:13 final size:13
Alignment explanation
Indices: 80719--80743 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
80709 CCCAATGACA
80719 ATGCCAGAATACG
1 ATGCCAGAATACG
80732 ATGCCAGAATAC
1 ATGCCAGAATAC
80744 CATCAGAGTT
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:0.40, C:0.24, G:0.20, T:0.16
Consensus pattern (13 bp):
ATGCCAGAATACG
Found at i:85487 original size:19 final size:19
Alignment explanation
Indices: 85463--85502 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
85453 CCTCATTTCG
85463 AGCGAGATATGTGTCTTGA
1 AGCGAGATATGTGTCTTGA
85482 AGCGAGATATGTGTCTTGA
1 AGCGAGATATGTGTCTTGA
85501 AG
1 AG
85503 AACCTCAGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.28, C:0.10, G:0.33, T:0.30
Consensus pattern (19 bp):
AGCGAGATATGTGTCTTGA
Found at i:89658 original size:49 final size:50
Alignment explanation
Indices: 89601--90070 Score: 298
Period size: 49 Copynumber: 9.6 Consensus size: 50
89591 CTAAGATACA
* * * *
89601 AAGGGAAAGGTTTAAGTCGCAGCGGCGAACCTTGTACCTATGAAGA-ATG
1 AAGGGAAAGATTTAAGTCGCAACGGCGAACCTTATACCTACGAAGACATG
* * * * **
89650 AAGGGAAAGATTTAAGCCACAACAGCGAATCC-AATACC-ACGAAGACACA
1 AAGGGAAAGATTTAAGTCGCAACGGCGAA-CCTTATACCTACGAAGACATG
* * * *
89699 AAGGGAAAGGTTTAAGTCGCGATGGCGAACCTTACACCT-C-AGAGACATG
1 AAGGGAAAGATTTAAGTCGCAACGGCGAACCTTATACCTACGA-AGACATG
* * * * * **
89748 AAGGGAAAGATTTAAGCCGTAATGGTGAATCC--AGTATC-ACGAAGACACA
1 AAGGGAAAGATTTAAGTCGCAACGGCGAA-CCTTA-TACCTACGAAGACATG
* * *
89797 AAAGGAAAGGTTTAAGTCGCAACGGCGAACCTTACACCT-C-AGAGACATG
1 AAGGGAAAGATTTAAGTCGCAACGGCGAACCTTATACCTACGA-AGACATG
* * * * *
89846 AGGGGAAAGATTTAAGCCGTAACGGTGAATCC--AGTACC-ACGAAGACACG
1 AAGGGAAAGATTTAAGTCGCAACGGCGAA-CCTTA-TACCTACGAAGACATG
* * * *
89895 AAGGGAAAGGTTTAAGTCGTAATGGCGAACCTTACACCT-C-AGAGACATG
1 AAGGGAAAGATTTAAGTCGCAACGGCGAACCTTATACCTACGA-AGACATG
* * ** * *
89944 AAGGGAAAGATTTATGACTTAAAGGCGAATCC--AGTACC-ACGAAGACACG
1 AAGGGAAAGATTTAAGTCGCAACGGCGAA-CCTTA-TACCTACGAAGACATG
* *
89993 AAGGGAAATG-TTTAAGTCGCAATGGCAAACCTTATACCTTA-G-AGACATG
1 AAGGGAAA-GATTTAAGTCGCAACGGCGAACCTTATACC-TACGAAGACATG
* *
90042 AAGGGAAAGATTTAAGCCGCAATGGCGAA
1 AAGGGAAAGATTTAAGTCGCAACGGCGAA
90071 TCCAGTACAA
Statistics
Matches: 320, Mismatches: 70, Indels: 62
0.71 0.15 0.14
Matches are distributed among these distances:
48 21 0.07
49 282 0.88
50 16 0.05
51 1 0.00
ACGTcount: A:0.38, C:0.19, G:0.26, T:0.17
Consensus pattern (50 bp):
AAGGGAAAGATTTAAGTCGCAACGGCGAACCTTATACCTACGAAGACATG
Found at i:89752 original size:98 final size:98
Alignment explanation
Indices: 89586--90093 Score: 689
Period size: 98 Copynumber: 5.2 Consensus size: 98
89576 CAGGTCTCAA
* * ** **
89586 TACCACTAAGATACAAAGGGAAAGGTTTAAGTCGCAGCGGCGAACCTTGTACCT-ATGAAGA-AT
1 TACCACGAAGACACAAAGGGAAAGGTTTAAGTCGCAATGGCGAACCTTACACCTCA-G-AGACAT
** * *
89649 GAAGGGAAAGATTTAAGCCACAACAGCGAATCCAA
64 GAAGGGAAAGATTTAAGCCGTAACGGCGAATCCAG
*
89684 TACCACGAAGACACAAAGGGAAAGGTTTAAGTCGCGATGGCGAACCTTACACCTCAGAGACATGA
1 TACCACGAAGACACAAAGGGAAAGGTTTAAGTCGCAATGGCGAACCTTACACCTCAGAGACATGA
* *
89749 AGGGAAAGATTTAAGCCGTAATGGTGAATCCAG
66 AGGGAAAGATTTAAGCCGTAACGGCGAATCCAG
* * *
89782 TATCACGAAGACACAAAAGGAAAGGTTTAAGTCGCAACGGCGAACCTTACACCTCAGAGACATGA
1 TACCACGAAGACACAAAGGGAAAGGTTTAAGTCGCAATGGCGAACCTTACACCTCAGAGACATGA
* *
89847 GGGGAAAGATTTAAGCCGTAACGGTGAATCCAG
66 AGGGAAAGATTTAAGCCGTAACGGCGAATCCAG
* *
89880 TACCACGAAGACACGAAGGGAAAGGTTTAAGTCGTAATGGCGAACCTTACACCTCAGAGACATGA
1 TACCACGAAGACACAAAGGGAAAGGTTTAAGTCGCAATGGCGAACCTTACACCTCAGAGACATGA
* * * *
89945 AGGGAAAGATTTATGACTTAAAGGCGAATCCAG
66 AGGGAAAGATTTAAGCCGTAACGGCGAATCCAG
* * * * *
89978 TACCACGAAGACACGAAGGGAAATGTTTAAGTCGCAATGGCAAACCTTATACCTTAGAGACATGA
1 TACCACGAAGACACAAAGGGAAAGGTTTAAGTCGCAATGGCGAACCTTACACCTCAGAGACATGA
* *
90043 AGGGAAAGATTTAAGCCGCAATGGCGAATCCAG
66 AGGGAAAGATTTAAGCCGTAACGGCGAATCCAG
*
90076 TACAACGAAGACA-AAAGG
1 TACCACGAAGACACAAAGG
90094 TGACCCGTGA
Statistics
Matches: 366, Mismatches: 42, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
97 7 0.02
98 358 0.98
99 1 0.00
ACGTcount: A:0.39, C:0.19, G:0.25, T:0.17
Consensus pattern (98 bp):
TACCACGAAGACACAAAGGGAAAGGTTTAAGTCGCAATGGCGAACCTTACACCTCAGAGACATGA
AGGGAAAGATTTAAGCCGTAACGGCGAATCCAG
Found at i:90572 original size:29 final size:29
Alignment explanation
Indices: 90498--90929 Score: 157
Period size: 29 Copynumber: 14.8 Consensus size: 29
90488 CCCTGAAGGT
* * *
90498 CCCTAAACTATCCAAAAAT-CATATTTTGA
1 CCCTGAACTTTCCAAAATTCCAT-TTTTGA
* * *
90527 CCCTTGAACCTTGCAAAATTCTATTTTTGA
1 CCC-TGAACTTTCCAAAATTCCATTTTTGA
**
90557 -CCTCGATTTTTCCAAAAATTACCA-TTTT-A
1 CCCT-GAACTTTCC-AAAATT-CCATTTTTGA
90586 CCCTGAACTTTCCAAAATTCCATTTTTGA
1 CCCTGAACTTTCCAAAATTCCATTTTTGA
* **
90615 CCCT-AATTTTTTAAAAATTACCA-TTTT-A
1 CCCTGAA-CTTTCCAAAATT-CCATTTTTGA
*
90643 CCCTGAACTTTCCAAAATTACATTTTTGA
1 CCCTGAACTTTCCAAAATTCCATTTTTGA
* **
90672 CCCT-AATTTTTTTAAAATTACCA-TTTT-A
1 CCCTGAA-CTTTCCAAAATT-CCATTTTTGA
* *
90700 -CCTCGAACTTTCAAAAATTCCATTTTTAA
1 CCCT-GAACTTTCCAAAATTCCATTTTTGA
* *** ** * *
90729 CCTTAGTTTTTGTAAAAAATGCGA-TTTT-A
1 CCCT-GAACTT-TCCAAAATTCCATTTTTGA
* * *
90758 -CCTCGAACTTTCCTAAATTCCATTTCTAA
1 CCCT-GAACTTTCCAAAATTCCATTTTTGA
* **
90787 CCCCGATTTTTCCAAAATTACCA-TTTT-A
1 CCCTGAACTTTCCAAAATT-CCATTTTTGA
* *
90815 CCCTCTAAC-TCCCAAAAAATTCCATTTTTGGA
1 CCCT-GAACTTTCC--AAAATTCCATTTTT-GA
* * ** * **
90847 TCTTGATTTTTCCAAAATTACTATTTTCCA
1 CCCTGAACTTTCCAAAATT-CCATTTTTGA
*
90877 CTC-GAAC-TTCCTAAAATTCCATTTTTGA
1 CCCTGAACTTTCC-AAAATTCCATTTTTGA
90905 CCCTG-ACTTTTCCAAAATTACCATT
1 CCCTGAAC-TTTCCAAAATT-CCATT
90930 GTCGAAACGT
Statistics
Matches: 291, Mismatches: 74, Indels: 75
0.66 0.17 0.17
Matches are distributed among these distances:
27 18 0.06
28 77 0.26
29 95 0.33
30 75 0.26
31 20 0.07
32 6 0.02
ACGTcount: A:0.31, C:0.24, G:0.05, T:0.40
Consensus pattern (29 bp):
CCCTGAACTTTCCAAAATTCCATTTTTGA
Found at i:90651 original size:57 final size:58
Alignment explanation
Indices: 90520--90929 Score: 397
Period size: 57 Copynumber: 7.1 Consensus size: 58
90510 CAAAAATCAT
* * * *
90520 ATTTTGACCCTTGAACCTTGCAAAATTCTATTTTTGA-CCTCGATTTTTCCAAAAATTACC
1 ATTTT-ACCCTCGAACTTTCCAAAATTCCATTTTTGACCCT-GATTTTT-CAAAAATTACC
* *
90580 ATTTTACCCT-GAACTTTCCAAAATTCCATTTTTGACCCTAATTTTTTAAAAATTACC
1 ATTTTACCCTCGAACTTTCCAAAATTCCATTTTTGACCCTGATTTTTCAAAAATTACC
* * **
90637 ATTTTACCCT-GAACTTTCCAAAATTACATTTTTGACCCTAATTTTTTTAAAATTACC
1 ATTTTACCCTCGAACTTTCCAAAATTCCATTTTTGACCCTGATTTTTCAAAAATTACC
* * * * * * *
90694 ATTTTA-CCTCGAACTTTCAAAAATTCCATTTTT-AACCTTAGTTTTTGTAAAAAATGCG
1 ATTTTACCCTCGAACTTTCCAAAATTCCATTTTTGACCCTGA-TTTTT-CAAAAATTACC
* * * * *
90752 ATTTTA-CCTCGAACTTTCCTAAATTCCATTTCTAACCCCGATTTTTCCAAAATTACC
1 ATTTTACCCTCGAACTTTCCAAAATTCCATTTTTGACCCTGATTTTTCAAAAATTACC
* * * * * *
90809 ATTTTACCCTCTAAC-TCCCAAAAAATTCCATTTTTGGATCTTGATTTTTCCAAAATTACT
1 ATTTTACCCTCGAACTTTCC--AAAATTCCATTTTT-GACCCTGATTTTTCAAAAATTACC
* *
90869 ATTTT-CCACTCGAAC-TTCCTAAAATTCCATTTTTGACCCTGACTTTTCCAAAATTACC
1 ATTTTACC-CTCGAACTTTCC-AAAATTCCATTTTTGACCCTGATTTTTCAAAAATTACC
90927 ATT
1 ATT
90930 GTCGAAACGT
Statistics
Matches: 298, Mismatches: 42, Indels: 22
0.82 0.12 0.06
Matches are distributed among these distances:
56 8 0.03
57 112 0.38
58 100 0.34
59 40 0.13
60 38 0.13
ACGTcount: A:0.30, C:0.24, G:0.05, T:0.41
Consensus pattern (58 bp):
ATTTTACCCTCGAACTTTCCAAAATTCCATTTTTGACCCTGATTTTTCAAAAATTACC
Found at i:91608 original size:117 final size:118
Alignment explanation
Indices: 91421--91799 Score: 315
Period size: 117 Copynumber: 3.2 Consensus size: 118
91411 TTTTGAATAC
* * ** ** *
91421 TCGAGGGCAAAATGGTAATTTTAGGAAAGTTC-GAGGTCAAAAAAAGAATTTTTAGACA--TTCG
1 TCGAGGGTAAAATGGTAATTTTGGGAAAAATCTG-GGTCAAAAATGGAATTTTT-GAAAGTTTC-
* ** * *
91483 AGGGTAAAATGGTAATTTTTA-GAAAGTTTGGGGTTTAA-AATGGAA-TTTTCAAACAT
63 AAGGTAAAATGGTAA-TTTTAGGAAAAATTAGGG-TAAATAATGGAATTTTTCAAA-AT
* *
91539 TCG-GGTGTAAAATGGTAATTTT-GGAAAAATC-GAGGTTAAAAATGGATTTTTTGAAAGTTTCA
1 TCGAGG-GTAAAATGGTAATTTTGGGAAAAATCTG-GGTCAAAAATGGAATTTTTGAAAGTTTCA
** *
91601 AGGTAAAATGGTAATTTTAGGAAAAATTAGGGTAAATAATGGAATTTTTGGAAGT
64 AGGTAAAATGGTAATTTTAGGAAAAATTAGGGTAAATAATGGAATTTTTCAAAAT
* *
91656 TCGAGGGTAAAATGGTAATTTTGGGAAAAATCTGGGTCAAAAATGGAATTTTTGGAAG-TTCGAG
1 TCGAGGGTAAAATGGTAATTTTGGGAAAAATCTGGGTCAAAAATGGAATTTTTGAAAGTTTC-AA
* * * *
91720 GGT-AAAGGGTAATTTT-GGAAAATTCTAGGGT-AA-AATGGAATTTTTGTAAAAA
65 GGTAAAATGGTAATTTTAGGAAAAAT-TAGGGTAAATAATGGAATTTTT-CAAAAT
91772 TC-AGGGTTAAAAATGG-AATTTT-GGAAAA
1 TCGAGGG-T-AAAATGGTAATTTTGGGAAAA
91800 TTTAAGGGTA
Statistics
Matches: 221, Mismatches: 26, Indels: 31
0.79 0.09 0.11
Matches are distributed among these distances:
115 22 0.10
116 31 0.14
117 104 0.47
118 63 0.29
119 1 0.00
ACGTcount: A:0.38, C:0.04, G:0.25, T:0.32
Consensus pattern (118 bp):
TCGAGGGTAAAATGGTAATTTTGGGAAAAATCTGGGTCAAAAATGGAATTTTTGAAAGTTTCAAG
GTAAAATGGTAATTTTAGGAAAAATTAGGGTAAATAATGGAATTTTTCAAAAT
Found at i:91610 original size:58 final size:58
Alignment explanation
Indices: 91399--91815 Score: 322
Period size: 59 Copynumber: 7.1 Consensus size: 58
91389 CAATCGGAGT
* * **
91399 TAAAAAT-GAGATTTTTGAATA-CTCGAGGGCAAAATGGTAATTTTAGGAAAGTTCGA-GG
1 TAAAAATGGA-ATTTTTGAA-AGTTCGAGGGTAAAATGGTAATTTT-GGAAAAATCGAGGG
** * * ** *
91457 TCAAAAAAAGAATTTTTAGACA-TTCGAGGGTAAAATGGTAATTTTTAGAAAGTTTG-GGG
1 T-AAAAATGGAATTTTT-GAAAGTTCGAGGGTAAAATGGTAA-TTTTGGAAAAATCGAGGG
* * * *
91516 TTTAAAATGGAA-TTTTCAAACATTCG-GGTGTAAAATGGTAATTTTGGAAAAATCGAGGT
1 -TAAAAATGGAATTTTTGAAA-GTTCGAGG-GTAAAATGGTAATTTTGGAAAAATCGAGGG
* * *
91575 TAAAAATGGATTTTTTGAAAGTTTC-AAGGTAAAATGGTAATTTTAGGAAAAAT-TAGGG
1 TAAAAATGGAATTTTTGAAAG-TTCGAGGGTAAAATGGTAATTTT-GGAAAAATCGAGGG
* *
91633 TAAATAATGGAATTTTTGGAAGTTCGAGGGTAAAATGGTAATTTTGGGAAAAATC-TGGG
1 TAAA-AATGGAATTTTTGAAAGTTCGAGGGTAAAATGGTAATTTT-GGAAAAATCGAGGG
* * * *
91692 TCAAAAATGGAATTTTTGGAAGTTCGAGGGT-AAAGGGTAATTTTGGAAAATTCTAGGG
1 T-AAAAATGGAATTTTTGAAAGTTCGAGGGTAAAATGGTAATTTTGGAAAAATCGAGGG
** * **
91750 T-AAAATGGAATTTTTGTAAAAATC-AGGGTTAAAAATGG-AATTTTGGAAAATTTAAGGG
1 TAAAAATGGAATTTTTG-AAAGTTCGAGGG-T-AAAATGGTAATTTTGGAAAAATCGAGGG
91808 TAAAAATG
1 TAAAAATG
91816 TAATGTTCAA
Statistics
Matches: 298, Mismatches: 37, Indels: 47
0.78 0.10 0.12
Matches are distributed among these distances:
56 19 0.06
57 15 0.05
58 87 0.29
59 165 0.55
60 12 0.04
ACGTcount: A:0.39, C:0.04, G:0.25, T:0.32
Consensus pattern (58 bp):
TAAAAATGGAATTTTTGAAAGTTCGAGGGTAAAATGGTAATTTTGGAAAAATCGAGGG
Found at i:91618 original size:28 final size:27
Alignment explanation
Indices: 91483--91985 Score: 136
Period size: 29 Copynumber: 17.3 Consensus size: 27
91473 TAGACATTCG
*
91483 AGGGTAAAATGGTAATTTTTAGAAAGTTT
1 AGGGTAAAATGGTAA-TTTT-GAAAGTTC
* * *
91512 GGGGTTTAAAATGG-AATTTTCAAACATTC
1 AGGG--TAAAATGGTAATTTTGAAA-GTTC
* **
91541 GGGTGTAAAATGGTAATTTTGGAAAAATC
1 AGG-GTAAAATGGTAATTTT-GAAAGTTC
* *
91570 GAGGTTAAAAATGG-ATTTTTTGAAAGTTTC
1 -AGGGT-AAAATGGTA-ATTTTGAAAG-TTC
* *
91600 AAGGTAAAATGGTAATTTTAGGAAAAATT-
1 AGGGTAAAATGGTAATTTT--G-AAAGTTC
*
91629 AGGGTAAATAATGG-AATTTTTGGAAGTTC
1 AGGGT-AA-AATGGTAA-TTTTGAAAGTTC
**
91658 GAGGGTAAAATGGTAATTTTGGGAAAAATC
1 -AGGGTAAAATGGTAATTTT--GAAAGTTC
* *
91688 TGGGTCAAAAATGG-AATTTTTGGAAGTTC
1 AGGGT--AAAATGGTAA-TTTTGAAAGTTC
* *
91717 GAGGGT-AAAGGGTAATTTTGGAAAATTC
1 -AGGGTAAAATGGTAATTTT-GAAAGTTC
**
91745 TAGGGTAAAATGG-AATTTTTGTAAAAATC
1 -AGGGTAAAATGGTAA-TTTTG-AAAGTTC
* *
91774 AGGGTTAAAAATGG-AATTTTGGAAAATTTA
1 AGGG-T-AAAATGGTAATTTT-G-AAAGTTC
** *
91804 AGGGTAAAAAT-GTAATGTTCAAAAAGTTT
1 AGGGT-AAAATGGTAAT-TT-TGAAAGTTC
* * * *
91833 GGGGTCAAAAATGG-AAATTTGGAAGTTTA
1 AGGGT--AAAATGGTAATTTTGAAAG-TTC
* *
91862 AGGGTAAAAAT-GT-ATTTATAGAAAATTT
1 AGGGT-AAAATGGTAATTT-T-GAAAGTTC
91890 AGGGTTAAAAATGG-AATTTTGAAAAGTTC
1 AGGG-T-AAAATGGTAATTTTG-AAAGTTC
* *
91919 GAGGGTAAAAAT-GTAATTTTAAAAAGTTT
1 -AGGGT-AAAATGGTAATTTT-GAAAGTTC
* *
91948 AGGTTAAAAATGGT-ATTTTGGAAAGTTT
1 AGGGT-AAAATGGTAATTTT-GAAAGTTC
91976 AGGGGTAAAA
1 A-GGGTAAAA
91986 ATGTACTTTT
Statistics
Matches: 363, Mismatches: 59, Indels: 105
0.69 0.11 0.20
Matches are distributed among these distances:
27 13 0.04
28 101 0.28
29 136 0.37
30 81 0.22
31 32 0.09
ACGTcount: A:0.40, C:0.03, G:0.25, T:0.33
Consensus pattern (27 bp):
AGGGTAAAATGGTAATTTTGAAAGTTC
Found at i:91811 original size:29 final size:28
Alignment explanation
Indices: 91547--91988 Score: 260
Period size: 29 Copynumber: 15.2 Consensus size: 28
91537 ATTCGGGTGT
** *
91547 AAAATGGTAATTTTGGAAAAATCGAGGTTA
1 AAAATGG-AATTTTGG-AAAATTTAGGGTA
* * * *
91577 AAAATGGATTTTTTGAAAGTTTCAAGGT-
1 AAAATGGAATTTTGGAAAATTT-AGGGTA
*
91605 AAAATGGTAATTTTAGGAAAAATTAGGGTA
1 AAAATGG-AATTTT-GGAAAATTTAGGGTA
* *
91635 AATAATGGAATTTTTGG-AAGTTCGAGGGT-
1 AA-AATGGAA-TTTTGGAAAATT-TAGGGTA
*
91664 AAAATGGTAATTTTGGGAAAAATCT-GGGTCA
1 AAAATGG-AATTTT-GG-AAAATTTAGGGT-A
* *
91695 AAAATGGAATTTTTGG-AAGTTCGAGGGT-
1 AAAATGGAA-TTTTGGAAAATT-TAGGGTA
*
91723 -AAAGGGTAATTTTGGAAAATTCTAGGGT-
1 AAAATGG-AATTTTGGAAAATT-TAGGGTA
* * *
91751 AAAATGGAATTTTTGTAAAAATCAGGGTTA
1 AAAATGGAA-TTTTGGAAAATTTAGGG-TA
91781 AAAATGGAATTTTGGAAAATTTAAGGGTA
1 AAAATGGAATTTTGGAAAATTT-AGGGTA
* * ** *
91810 AAAATGTAATGTTCAAAAAGTTTGGGGTCA
1 AAAATGGAATTTTGGAAAA-TTTAGGGT-A
* *
91840 AAAATGGAAATTTGG-AAGTTTAAGGGTA
1 AAAATGGAATTTTGGAAAATTT-AGGGTA
* *
91868 AAAAT-GTATTTATAGAAAATTTAGGGTTA
1 AAAATGGAATTT-TGGAAAATTTAGGG-TA
*
91897 AAAATGGAATTTT-GAAAAGTTCGAGGGTA
1 AAAATGGAATTTTGGAAAA-TT-TAGGGTA
* * *
91926 AAAATGTAATTTT-AAAAAGTTTAGGTTA
1 AAAATGGAATTTTGGAAAA-TTTAGGGTA
* *
91954 AAAATGGTATTTTGGAAAGTTTAGGGGTA
1 AAAATGGAATTTTGGAAAATTTA-GGGTA
91983 AAAATG
1 AAAATG
91989 TACTTTTCAA
Statistics
Matches: 320, Mismatches: 58, Indels: 69
0.72 0.13 0.15
Matches are distributed among these distances:
27 15 0.05
28 81 0.25
29 133 0.42
30 68 0.21
31 23 0.07
ACGTcount: A:0.40, C:0.02, G:0.25, T:0.32
Consensus pattern (28 bp):
AAAATGGAATTTTGGAAAATTTAGGGTA
Found at i:91866 original size:58 final size:57
Alignment explanation
Indices: 91775--92001 Score: 271
Period size: 57 Copynumber: 3.9 Consensus size: 57
91765 GTAAAAATCA
*
91775 GGGTTAAAAATGGAATTTTGGAAAATTTAAGGGTAAAAATGTAATGTTCAAAAAGTTT
1 GGGTTAAAAATGGAATTTTGGAAAGTTTAAGGGTAAAAATGTAAT-TTCAAAAAGTTT
* * *
91833 GGGGTCAAAAATGGAAATTTGG-AAGTTTAAGGGTAAAAATGT-ATTT-ATAGAAAATTT
1 -GGGTTAAAAATGGAATTTTGGAAAGTTTAAGGGTAAAAATGTAATTTCA-A-AAAGTTT
* ** *
91890 AGGGTTAAAAATGGAATTTTGAAAAGTTCGAGGGTAAAAATGTAATTTTAAAAAGTTT
1 -GGGTTAAAAATGGAATTTTGGAAAGTTTAAGGGTAAAAATGTAATTTCAAAAAGTTT
* * * *
91948 AGGTTAAAAATGGTATTTTGGAAAGTTTAGGGGTAAAAATGTACTTTTCAAAAA
1 GGGTTAAAAATGGAATTTTGGAAAGTTTAAGGGTAAAAATGTA-ATTTCAAAAA
92002 ATTTTGAGGG
Statistics
Matches: 143, Mismatches: 19, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
55 1 0.01
56 3 0.02
57 63 0.44
58 51 0.36
59 24 0.17
60 1 0.01
ACGTcount: A:0.42, C:0.02, G:0.23, T:0.33
Consensus pattern (57 bp):
GGGTTAAAAATGGAATTTTGGAAAGTTTAAGGGTAAAAATGTAATTTCAAAAAGTTT
Found at i:94700 original size:10 final size:10
Alignment explanation
Indices: 94684--94716 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
94674 TTTAATTATT
94684 AAAAAAT-TA
1 AAAAAATATA
94693 AGAAAAATATA
1 A-AAAAATATA
94704 AAAAAATATA
1 AAAAAATATA
94714 AAA
1 AAA
94717 TTATAAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 1 0.05
10 18 0.82
11 3 0.14
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (10 bp):
AAAAAATATA
Found at i:95181 original size:11 final size:11
Alignment explanation
Indices: 95150--95208 Score: 64
Period size: 11 Copynumber: 5.1 Consensus size: 11
95140 TGCCGACGAC
*
95150 AATATTAGGATA
1 AATATTA-GATT
95162 AATATTAGATT
1 AATATTAGATT
*
95173 AACATTAGAAATT
1 AATATTAG--ATT
*
95186 AATGTTAGATT
1 AATATTAGATT
95197 AATATTAGATT
1 AATATTAGATT
95208 A
1 A
95209 GGGTTTATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
11 24 0.60
12 7 0.17
13 9 0.22
ACGTcount: A:0.47, C:0.02, G:0.12, T:0.39
Consensus pattern (11 bp):
AATATTAGATT
Found at i:112961 original size:13 final size:13
Alignment explanation
Indices: 112943--112967 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
112933 CTTCCAAATT
112943 TAAAAAAAAAAAA
1 TAAAAAAAAAAAA
112956 TAAAAAAAAAAA
1 TAAAAAAAAAAA
112968 TTGTTTTTCC
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:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (13 bp):
TAAAAAAAAAAAA
Found at i:119843 original size:15 final size:16
Alignment explanation
Indices: 119825--119858 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
119815 TAATTCGTTA
119825 AAATTATAAAAAT-AT
1 AAATTATAAAAATAAT
*
119840 AAATTATTAAAATAAT
1 AAATTATAAAAATAAT
119856 AAA
1 AAA
119859 ATTACATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATTATAAAAATAAT
Found at i:130126 original size:23 final size:21
Alignment explanation
Indices: 130096--130218 Score: 104
Period size: 23 Copynumber: 5.5 Consensus size: 21
130086 ACACTAGCGC
*
130096 GCTCTCTGTTTAGCACATCTCGT
1 GCTCTCTGTTTAGCAC-TGT-GT
*
130119 GCTCTCTGATTAGCACTTGTGT
1 GCTCTCTGTTTAGCAC-TGTGT
* *
130141 GCTCTCTGATTAGTACTTTGTGT
1 GCTCTCTGTTTAGCAC--TGTGT
130164 GCTCTCTGTTTAGCACCGTGTGT
1 GCTCTCTGTTTAGCA-C-TGTGT
* *
130187 GCTCTCTG-TTAGTACTTTGGT
1 GCTCTCTGTTTAGCACTGT-GT
*
130208 ACTCTCTGTTT
1 GCTCTCTGTTT
130219 GTTCCGTATA
Statistics
Matches: 86, Mismatches: 10, Indels: 9
0.82 0.10 0.09
Matches are distributed among these distances:
20 2 0.02
21 10 0.12
22 24 0.28
23 49 0.57
24 1 0.01
ACGTcount: A:0.11, C:0.24, G:0.21, T:0.44
Consensus pattern (21 bp):
GCTCTCTGTTTAGCACTGTGT
Found at i:130166 original size:45 final size:44
Alignment explanation
Indices: 130117--130215 Score: 146
Period size: 45 Copynumber: 2.2 Consensus size: 44
130107 AGCACATCTC
*
130117 GTGCTCTCTGATTAGCA-CTTGTGTGCTCTCTGATTAGTACTTTG
1 GTGCTCTCTGATTAGCACCGTGTGTGCTCTCTG-TTAGTACTTTG
*
130161 TGTGCTCTCTGTTTAGCACCGTGTGTGCTCTCTGTTAGTACTTTG
1 -GTGCTCTCTGATTAGCACCGTGTGTGCTCTCTGTTAGTACTTTG
*
130206 GTACTCTCTG
1 GTGCTCTCTG
130216 TTTGTTCCGT
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
44 9 0.18
45 27 0.54
46 14 0.28
ACGTcount: A:0.11, C:0.22, G:0.23, T:0.43
Consensus pattern (44 bp):
GTGCTCTCTGATTAGCACCGTGTGTGCTCTCTGTTAGTACTTTG
Found at i:137540 original size:29 final size:31
Alignment explanation
Indices: 137499--137578 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 31
137489 ACTTTAAATT
137499 AATAATGATAAAATTATATTTTAA-TTTTT-AA
1 AATAAT-A-AAAATTATATTTTAACTTTTTAAA
*
137530 AATAATAAAAATT-TAATTTAACTTTTTAAA
1 AATAATAAAAATTATATTTTAACTTTTTAAA
137560 AATAAT-AAAATTATATTTT
1 AATAATAAAAATTATATTTT
137579 TATAATCGTA
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
28 7 0.16
29 17 0.39
30 14 0.32
31 6 0.14
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (31 bp):
AATAATAAAAATTATATTTTAACTTTTTAAA
Found at i:138136 original size:10 final size:10
Alignment explanation
Indices: 138121--138145 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
138111 GTAAAATGAA
138121 ATATATATTT
1 ATATATATTT
138131 ATATATATTT
1 ATATATATTT
138141 ATATA
1 ATATA
138146 AATTACAAAT
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
ATATATATTT
Found at i:151156 original size:22 final size:21
Alignment explanation
Indices: 151122--151162 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
151112 TTAATTAAGT
*
151122 TTATGATTGAATTTGGAATTAA
1 TTATGATTAAATTT-GAATTAA
*
151144 TTATGTTTAAATTTGAATT
1 TTATGATTAAATTTGAATT
151163 TATTTAAAAA
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:0.34, C:0.00, G:0.15, T:0.51
Consensus pattern (21 bp):
TTATGATTAAATTTGAATTAA
Found at i:151159 original size:28 final size:28
Alignment explanation
Indices: 151106--151163 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
151096 CATTTTTCTG
*
151106 TTGGAATTAATTAAGTTTATGATTGAAT
1 TTGGAATTAATTAAGTTTATAATTGAAT
*
151134 TTGGAATTAATTATGTTTA-AATTTGAAT
1 TTGGAATTAATTAAGTTTATAA-TTGAAT
151162 TT
1 TT
151164 ATTTAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 1 0.04
28 26 0.96
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (28 bp):
TTGGAATTAATTAAGTTTATAATTGAAT
Found at i:151279 original size:6 final size:6
Alignment explanation
Indices: 151270--151310 Score: 57
Period size: 6 Copynumber: 6.8 Consensus size: 6
151260 TAATTTGCAT
*
151270 ACATAA ACATAA ATA-AGA ACATAA ACATAA ACATAA ACATA
1 ACATAA ACATAA ACATA-A ACATAA ACATAA ACATAA ACATA
151311 TTTAATTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 1 0.03
6 29 0.94
7 1 0.03
ACGTcount: A:0.66, C:0.15, G:0.02, T:0.17
Consensus pattern (6 bp):
ACATAA
Found at i:153695 original size:16 final size:16
Alignment explanation
Indices: 153683--153730 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
153673 AATATTTTTT
153683 TATTTTAAAATTTTAA
1 TATTTTAAAATTTTAA
*
153699 TATTTTAAAA---AAA
1 TATTTTAAAATTTTAA
153712 TTATTTTAAAATTTTAA
1 -TATTTTAAAATTTTAA
153729 TA
1 TA
153731 CAGTAAAAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
13 2 0.08
14 10 0.38
16 12 0.46
17 2 0.08
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TATTTTAAAATTTTAA
Found at i:153738 original size:30 final size:30
Alignment explanation
Indices: 153682--153747 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
153672 AAATATTTTT
***
153682 TTATTTTAAAATTTTAATATTTTAAAAAAA
1 TTATTTTAAAATTTTAATACAGTAAAAAAA
*
153712 TTATTTTAAAATTTTAATACAGTAAAAACA
1 TTATTTTAAAATTTTAATACAGTAAAAAAA
153742 -TATTTT
1 TTATTTT
153748 CCATTTATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 6 0.19
30 26 0.81
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (30 bp):
TTATTTTAAAATTTTAATACAGTAAAAAAA
Found at i:156900 original size:21 final size:20
Alignment explanation
Indices: 156876--156932 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
156866 CTGAACGATA
156876 TGTTAGAAATACTGTAA-ATTT
1 TGTTAGAAATA-T-TAATATTT
*
156897 TGTTATAAATATTAATATTT
1 TGTTAGAAATATTAATATTT
* *
156917 TTTTAGAATTATTAAT
1 TGTTAGAAATATTAAT
156933 TTATTACATT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
19 3 0.10
20 18 0.58
21 10 0.32
ACGTcount: A:0.39, C:0.02, G:0.09, T:0.51
Consensus pattern (20 bp):
TGTTAGAAATATTAATATTT
Found at i:167408 original size:39 final size:36
Alignment explanation
Indices: 167365--167440 Score: 91
Period size: 39 Copynumber: 2.0 Consensus size: 36
167355 GAAAATTAAA
167365 TTAAAT-ATTTTTATAATAATAAGAATATAAATTTATTAT
1 TTAAATAATTTTTA-AATAATAA-AAT-TAAATTT-TTAT
* *
167404 TTAAATAATTTTTAAATGATTAAATTAAATTTTTAT
1 TTAAATAATTTTTAAATAATAAAATTAAATTTTTAT
167440 T
1 T
167441 ATTTTCGAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 5 0.15
37 7 0.21
38 3 0.09
39 12 0.35
40 7 0.21
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (36 bp):
TTAAATAATTTTTAAATAATAAAATTAAATTTTTAT
Found at i:167705 original size:24 final size:23
Alignment explanation
Indices: 167668--167713 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
167658 TTGGAGAGCC
* *
167668 ATAATTAAATTATATATTTTTATG
1 ATAATAAAAATATAT-TTTTTATG
167692 ATAATAAAAATATATTTTTTAT
1 ATAATAAAAATATATTTTTTAT
167714 CATTTTAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
ATAATAAAAATATATTTTTTATG
Done.