Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 320 of 378
Found at i:97385821 original size:19 final size:20
Alignment explanation
Indices: 97385784--97385821 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
97385774 ATAAGGTGGT
97385784 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
97385804 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
97385822 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:97398397 original size:25 final size:25
Alignment explanation
Indices: 97398356--97398415 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
97398346 ATTCATATTT
97398356 AGGAATGCTCTTACGAGAACATA-AAC
1 AGGAA-GCTCTTACGAG-ACATATAAC
* *
97398382 AGGAAGCTCTTTCGAGCCATATAAC
1 AGGAAGCTCTTACGAGACATATAAC
*
97398407 GGGAAGCTC
1 AGGAAGCTC
97398416 ATGTGAGCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.13
25 21 0.70
26 5 0.17
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (25 bp):
AGGAAGCTCTTACGAGACATATAAC
Found at i:97398423 original size:25 final size:25
Alignment explanation
Indices: 97398395--97398515 Score: 179
Period size: 25 Copynumber: 4.8 Consensus size: 25
97398385 AAGCTCTTTC
* *
97398395 GAGCCATATAACGGGAAGCTCATGT
1 GAGCCATGTAATGGGAAGCTCATGT
97398420 GAGCCATGTAATGGGAAGCTCATGT
1 GAGCCATGTAATGGGAAGCTCATGT
*
97398445 GAGCCATGTAATGGGAAGCTCATAT
1 GAGCCATGTAATGGGAAGCTCATGT
* *
97398470 GAGCCATGTAATGGAAAGCTTATGT
1 GAGCCATGTAATGGGAAGCTCATGT
* *
97398495 GAGCCATGTAACGGAAAGCTC
1 GAGCCATGTAATGGGAAGCTC
97398516 CAGAGAACCA
Statistics
Matches: 88, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 88 1.00
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.22
Consensus pattern (25 bp):
GAGCCATGTAATGGGAAGCTCATGT
Found at i:97398514 original size:75 final size:74
Alignment explanation
Indices: 97398370--97398547 Score: 193
Period size: 75 Copynumber: 2.4 Consensus size: 74
97398360 ATGCTCTTAC
* * *
97398370 GAGAA-CA-TAAACAGGAAGCTC-TTTCGAGCCATATAACGGGAAGCTCATGTGAGCCATGTAAT
1 GAGAACCATTAAA-AGGAAGCTCATAT-GAGCCATATAACGGAAAGCTCATGTGAGCCATGTAAC
*
97398432 GGGAAGCT-CA
64 GGAAAGCTCCA
* * ** * * *
97398442 TGTGAGCCATGTAATGGGAAGCTCATATGAGCCATGTAATGGAAAGCTTATGTGAGCCATGTAAC
1 -GAGAACCAT-TAAAAGGAAGCTCATATGAGCCATATAACGGAAAGCTCATGTGAGCCATGTAAC
97398507 GGAAAGCTCCA
64 GGAAAGCTCCA
97398518 GAGAACCATTAAAAGGAAGCTCATATGAGC
1 GAGAACCATTAAAAGGAAGCTCATATGAGC
97398548 TAATATCAGA
Statistics
Matches: 85, Mismatches: 15, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
73 3 0.04
74 21 0.25
75 54 0.64
76 7 0.08
ACGTcount: A:0.35, C:0.18, G:0.26, T:0.21
Consensus pattern (74 bp):
GAGAACCATTAAAAGGAAGCTCATATGAGCCATATAACGGAAAGCTCATGTGAGCCATGTAACGG
AAAGCTCCA
Found at i:97398776 original size:24 final size:24
Alignment explanation
Indices: 97398719--97398805 Score: 70
Period size: 24 Copynumber: 3.6 Consensus size: 24
97398709 CAAACGAGAT
* *
97398719 GCTCCGAAGAGCTATTAACAGGAT
1 GCTCTGAAGAGCTATTAACAGGAA
**
97398743 GCTCTGAAGAGCTATTAATGGGAA
1 GCTCTGAAGAGCTATTAACAGGAA
* * *
97398767 GCTC-GCAAGAACCATAAAACAGGAA
1 GCTCTG-AAGAGCTAT-TAACAGGAA
97398792 GCTCATGAA-AGCTA
1 GCTC-TGAAGAGCTA
97398806 ATAATGGGAT
Statistics
Matches: 48, Mismatches: 11, Indels: 7
0.73 0.17 0.11
Matches are distributed among these distances:
23 1 0.02
24 31 0.65
25 13 0.27
26 2 0.04
27 1 0.02
ACGTcount: A:0.38, C:0.20, G:0.24, T:0.18
Consensus pattern (24 bp):
GCTCTGAAGAGCTATTAACAGGAA
Found at i:97399160 original size:21 final size:20
Alignment explanation
Indices: 97399132--97399170 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
97399122 ATGAATTTAA
*
97399132 CATTAATTTAATACAATTCG
1 CATTAATTCAATACAATTCG
*
97399152 CATTCAATTCAATCCAATT
1 CATT-AATTCAATACAATT
97399171 GACATCTTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.38, C:0.21, G:0.03, T:0.38
Consensus pattern (20 bp):
CATTAATTCAATACAATTCG
Found at i:97418403 original size:25 final size:25
Alignment explanation
Indices: 97418375--97418446 Score: 81
Period size: 27 Copynumber: 2.8 Consensus size: 25
97418365 CCGATATATT
* *
97418375 GCTCTTCAAAGCTTCCCGATTAAAG
1 GCTCTTCAGAGCTTCCCAATTAAAG
* *
97418400 GCTCTTTCATGAGCTTCCTAATTAATG
1 GCTC-TTCA-GAGCTTCCCAATTAAAG
*
97418427 GCTCTTCGGAGCTTCCCAAT
1 GCTCTTCAGAGCTTCCCAAT
97418447 ATTGGGTCGC
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
25 15 0.38
26 7 0.18
27 17 0.44
ACGTcount: A:0.22, C:0.28, G:0.17, T:0.33
Consensus pattern (25 bp):
GCTCTTCAGAGCTTCCCAATTAAAG
Found at i:97418489 original size:24 final size:24
Alignment explanation
Indices: 97418435--97418491 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
97418425 TGGCTCTTCG
*
97418435 GAGCTTCCCAATATTGGGTCGCTT
1 GAGCTTCCCAATATTGGCTCGCTT
* *
97418459 GAACTTCTCAATATTGGCTCG-TAT
1 GAGCTTCCCAATATTGGCTCGCT-T
97418483 GAGCTTCCC
1 GAGCTTCCC
97418492 GTTAATGGCT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 1 0.04
24 26 0.96
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.33
Consensus pattern (24 bp):
GAGCTTCCCAATATTGGCTCGCTT
Found at i:97418500 original size:24 final size:25
Alignment explanation
Indices: 97418473--97418565 Score: 89
Period size: 25 Copynumber: 3.8 Consensus size: 25
97418463 TTCTCAATAT
*
97418473 TGGCTCGTATGAGCTTCCCGTTA-A
1 TGGCTCATATGAGCTTCCCGTTACA
* **
97418497 TGGCTCTTCGGAGCTTCCCGTTACA
1 TGGCTCATATGAGCTTCCCGTTACA
* * * *
97418522 TGGCTCACATGAGTTTCCCATTATA
1 TGGCTCATATGAGCTTCCCGTTACA
* *
97418547 TGGCTCAAAAGAGCTTCCC
1 TGGCTCATATGAGCTTCCC
97418566 ATTTATGTGG
Statistics
Matches: 55, Mismatches: 13, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
24 20 0.36
25 35 0.64
ACGTcount: A:0.19, C:0.28, G:0.22, T:0.31
Consensus pattern (25 bp):
TGGCTCATATGAGCTTCCCGTTACA
Found at i:97418566 original size:25 final size:25
Alignment explanation
Indices: 97418507--97418572 Score: 80
Period size: 25 Copynumber: 2.7 Consensus size: 25
97418497 TGGCTCTTCG
* * * *
97418507 GAGCTTCCCGTTACATGGCTCACAT
1 GAGCTTCCCATTATATGGCTCAAAA
*
97418532 GAGTTTCCCATTATATGGCTCAAAA
1 GAGCTTCCCATTATATGGCTCAAAA
97418557 GAGCTTCCCATT-TATG
1 GAGCTTCCCATTATATG
97418573 TGGCCGTATG
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
24 4 0.11
25 31 0.89
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (25 bp):
GAGCTTCCCATTATATGGCTCAAAA
Found at i:97421331 original size:44 final size:44
Alignment explanation
Indices: 97421268--97421355 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
97421258 GTAGCATGAA
97421268 AGGTTGAAAATGTTTTCTTTAACAAGTCCTCATCAGTTATATTT
1 AGGTTGAAAATGTTTTCTTTAACAAGTCCTCATCAGTTATATTT
97421312 AGGTTGAAAATGTTTTCTTTAACAAGTCCTCATCAGTTATATTT
1 AGGTTGAAAATGTTTTCTTTAACAAGTCCTCATCAGTTATATTT
97421356 TCTCAACATA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.43
Consensus pattern (44 bp):
AGGTTGAAAATGTTTTCTTTAACAAGTCCTCATCAGTTATATTT
Found at i:97422900 original size:103 final size:101
Alignment explanation
Indices: 97422721--97422931 Score: 237
Period size: 103 Copynumber: 2.1 Consensus size: 101
97422711 GATGCCCTTT
* * ** * *
97422721 CCATGGTCTTACATTCGTAGTGCCATAACCTAGTTATGGTCTTACCATCAGGATGTCATAGCCCA
1 CCATGGTCTTACATTCGAAGTGCCATAACCCAGTTATGGTCTTACCATCAAAATGCCATAGACCA
*
97422786 GCTATGGTCTTACACATAAATATACT-ACCATGGTCTAA
66 GCTATGGTCTTACACATAAATAT--TGA-CATGGTCCAA
* ** * **
97422824 CCATGGTCTTACGTTC-AAGATGCCATAACCCAGTTATGGTCTTTTCATTAAAATGCCATAGATT
1 CCATGGTCTTACATTCGAAG-TGCCATAACCCAGTTATGGTCTTACCATCAAAATGCCATAGACC
**
97422888 AGCTATGGTCTTACATTTAAATATTGACATGGTCCAA
65 AGCTATGGTCTTACACATAAATATTGACATGGTCCAA
97422925 CCATGGT
1 CCATGGT
97422932 TTTATCTGTC
Statistics
Matches: 91, Mismatches: 15, Indels: 6
0.81 0.13 0.05
Matches are distributed among these distances:
101 17 0.19
102 3 0.03
103 71 0.78
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (101 bp):
CCATGGTCTTACATTCGAAGTGCCATAACCCAGTTATGGTCTTACCATCAAAATGCCATAGACCA
GCTATGGTCTTACACATAAATATTGACATGGTCCAA
Found at i:97428124 original size:20 final size:20
Alignment explanation
Indices: 97428096--97428133 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
97428086 TACATTAAGT
97428096 TAAAAATTATGTTA-ATGATA
1 TAAAAATTA-GTTATATGATA
*
97428116 TAAATATTAGTTATATGA
1 TAAAAATTAGTTATATGA
97428134 ATGTGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (20 bp):
TAAAAATTAGTTATATGATA
Found at i:97429724 original size:6 final size:6
Alignment explanation
Indices: 97429715--97429744 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
97429705 TCTGTGTCTA
97429715 GAGGTG GAGGTG GAGGTG GAGGTG GAGGTG
1 GAGGTG GAGGTG GAGGTG GAGGTG GAGGTG
97429745 TCAGAAGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.67, T:0.17
Consensus pattern (6 bp):
GAGGTG
Found at i:97432140 original size:10 final size:10
Alignment explanation
Indices: 97432125--97432174 Score: 66
Period size: 10 Copynumber: 5.0 Consensus size: 10
97432115 TAATTTTAGG
*
97432125 ATTTATATTT
1 ATTTATCTTT
97432135 ATTTATCTTT
1 ATTTATCTTT
*
97432145 AATTATCTTT
1 ATTTATCTTT
97432155 ATTTAT-TTGT
1 ATTTATCTT-T
97432165 ATTTATCTTT
1 ATTTATCTTT
97432175 TAGAATTTGA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 2 0.06
10 31 0.89
11 2 0.06
ACGTcount: A:0.24, C:0.06, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:97433482 original size:46 final size:46
Alignment explanation
Indices: 97433394--97433714 Score: 394
Period size: 46 Copynumber: 7.0 Consensus size: 46
97433384 TTATCTTCGA
* * * * * * *
97433394 CATGATGCCATAGTATCTTTCAACTATAGTTTTACTCGTTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTC-ATTTCATAT
* * * ***
97433440 CATGTTGTCATAGTATCTTTCAACCATGGTCTTATTCATTTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATAT
* *
97433487 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
*
97433533 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACGT-ATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTAC-TCATTTCATAT
*
97433579 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
* * * *
97433625 CAGGTTGCCATGTTATCTTTCAACCATGGTTTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
* *
97433671 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT
97433715 TTCAGAGAGC
Statistics
Matches: 249, Mismatches: 22, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
46 210 0.84
47 39 0.16
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
Found at i:97436243 original size:21 final size:21
Alignment explanation
Indices: 97436226--97436268 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
97436216 TTGCTTTGTT
97436226 TCTTCATTTCTATCCTTTTTC
1 TCTTCATTTCTATCCTTTTTC
*
97436247 TCTTCATTTCTGTCCTTTTTC
1 TCTTCATTTCTATCCTTTTTC
97436268 T
1 T
97436269 TTCTTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.07, C:0.28, G:0.02, T:0.63
Consensus pattern (21 bp):
TCTTCATTTCTATCCTTTTTC
Found at i:97436448 original size:21 final size:20
Alignment explanation
Indices: 97436424--97436479 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
97436414 AAAATCTTAT
97436424 AATATAATTATTTAATTAATA
1 AATAT-ATTATTTAATTAATA
*
97436445 AATATATT-TTATAAAATAATA
1 AATATATTATT-T-AATTAATA
97436466 AATAT-TTATTTAAT
1 AATATATTATTTAAT
97436480 GTCTAATACA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
19 4 0.13
20 7 0.23
21 19 0.63
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
AATATATTATTTAATTAATA
Found at i:97436652 original size:19 final size:21
Alignment explanation
Indices: 97436606--97436652 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 21
97436596 TATAATAAAT
* *
97436606 TAATTTAATATCATTTATTAC
1 TAATTAAATATCATATATTAC
97436627 TAA-TAAATAT-ATATATTA-
1 TAATTAAATATCATATATTAC
97436645 TAATTAAA
1 TAATTAAA
97436653 ATCTAAGATT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 3 0.13
19 11 0.48
20 6 0.26
21 3 0.13
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (21 bp):
TAATTAAATATCATATATTAC
Found at i:97441656 original size:14 final size:14
Alignment explanation
Indices: 97441637--97441668 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
97441627 GGAGGCCAAT
97441637 TCTTTTGGGAGAAG
1 TCTTTTGGGAGAAG
97441651 TCTTTTGGGAGAAG
1 TCTTTTGGGAGAAG
97441665 TCTT
1 TCTT
97441669 GAAAGTGTCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.19, C:0.09, G:0.31, T:0.41
Consensus pattern (14 bp):
TCTTTTGGGAGAAG
Found at i:97442287 original size:22 final size:20
Alignment explanation
Indices: 97442256--97442302 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 20
97442246 ATTATAAATG
97442256 AAAATATGAG-TCTAAAAGAACA
1 AAAATATGAGAT-TAAAA-AA-A
*
97442278 AAAATGTGAGATTAAAAAAA
1 AAAATATGAGATTAAAAAAA
97442298 AAAAT
1 AAAAT
97442303 CAATTTTCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 6 0.26
21 2 0.09
22 14 0.61
23 1 0.04
ACGTcount: A:0.64, C:0.04, G:0.13, T:0.19
Consensus pattern (20 bp):
AAAATATGAGATTAAAAAAA
Found at i:97446538 original size:32 final size:26
Alignment explanation
Indices: 97446476--97446527 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
97446466 TTATCCTATG
97446476 AATAAAGTCGTAAAATTAGTTTTATT
1 AATAAAGTCGTAAAATTAGTTTTATT
97446502 AATAAAGTCGTAAAATTAGTTTTATT
1 AATAAAGTCGTAAAATTAGTTTTATT
97446528 CTTAAAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.04, G:0.12, T:0.42
Consensus pattern (26 bp):
AATAAAGTCGTAAAATTAGTTTTATT
Found at i:97446724 original size:2 final size:2
Alignment explanation
Indices: 97446717--97446755 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
97446707 GTACTGAAAT
97446717 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
97446756 TTTAAGTTGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:97449279 original size:15 final size:14
Alignment explanation
Indices: 97449261--97449320 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
97449251 TAAATCTTGT
97449261 ATCTTGAAATTTTAA
1 ATCTT-AAATTTTAA
** *
97449276 ATCTTGAAATCATGA
1 ATCTT-AAATTTTAA
97449291 ATCTTAAATTTTAA
1 ATCTTAAATTTTAA
* *
97449305 ACCCTAAATTTTAA
1 ATCTTAAATTTTAA
97449319 AT
1 AT
97449321 TATAGATACC
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
14 19 0.53
15 17 0.47
ACGTcount: A:0.42, C:0.12, G:0.05, T:0.42
Consensus pattern (14 bp):
ATCTTAAATTTTAA
Found at i:97455398 original size:26 final size:26
Alignment explanation
Indices: 97455369--97455476 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
97455359 TGGTACAAAT
97455369 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
97455395 TGATAATGGATTAGGTAAATATTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
97455421 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
97455447 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
97455473 TGAT
1 TGAT
97455477 GGACATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:97458840 original size:170 final size:170
Alignment explanation
Indices: 97458512--97458851 Score: 504
Period size: 171 Copynumber: 2.0 Consensus size: 170
97458502 CTCTGCGTTT
* * *
97458512 TCTGGGAAAGTGTTGGAGCCAAGGTCTGTTTGAAGGATTAGAGTTTGATGTGATCAGCTAACTTC
1 TCTGGGAAAGTGTTGGAGCCAAGGCCTGTTTGAAGGATTAGAGTTTGATATGATCAACTAACTTC
** * *
97458577 ACAATCATGAAACATGGTAAATAATGATAAAACTCTAACTATTTTCGTGATTATTTATGGGACCA
66 ACAATCATGAAACATGGTAAATAACAATAAAACTCTAACTATTTTCGTGATTATTTACGGAACCA
97458642 TAAGGTTTCATACTTTAGGAATAAATTAAAGATTAAGGGA
131 TAAGGTTTCATACTTTAGGAATAAATTAAAGATTAAGGGA
* *
97458682 TCTGGGAAAGTGTTTGAGCCAAGGCCTGTTTGAAGGATTAGAGTTTTGTTATGATCAACTAACTT
1 TCTGGGAAAGTGTTGGAGCCAAGGCCTGTTTGAAGGATTAGAG-TTTGATATGATCAACTAACTT
* * * * *
97458747 CACCATCGTGAAACATGGTAAATAACAATGAAACTCTAACTGTTTTCGTGATTCTTTACGGAACC
65 CACAATCATGAAACATGGTAAATAACAATAAAACTCTAACTATTTTCGTGATTATTTACGGAACC
* *
97458812 CT-AGGATTTCATGCTTTAGGAA-AAATTAAAGATTAAGGGA
130 ATAAGG-TTTCATACTTTAGGAATAAATTAAAGATTAAGGGA
97458852 AGAAAACTTT
Statistics
Matches: 152, Mismatches: 16, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
170 62 0.41
171 90 0.59
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (170 bp):
TCTGGGAAAGTGTTGGAGCCAAGGCCTGTTTGAAGGATTAGAGTTTGATATGATCAACTAACTTC
ACAATCATGAAACATGGTAAATAACAATAAAACTCTAACTATTTTCGTGATTATTTACGGAACCA
TAAGGTTTCATACTTTAGGAATAAATTAAAGATTAAGGGA
Found at i:97460037 original size:13 final size:13
Alignment explanation
Indices: 97460021--97460047 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
97460011 CATCCTAGGT
97460021 AGATGCCAAATCC
1 AGATGCCAAATCC
97460034 AGATGCCAAATCC
1 AGATGCCAAATCC
97460047 A
1 A
97460048 AATTAAAAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.30, G:0.15, T:0.15
Consensus pattern (13 bp):
AGATGCCAAATCC
Found at i:97462090 original size:25 final size:25
Alignment explanation
Indices: 97462062--97462111 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
97462052 ATGAGTCTAG
97462062 TTTACAGAATCGAAATCCAAAAATC
1 TTTACAGAATCGAAATCCAAAAATC
97462087 TTTACAGAATCGAAATCCAAAAATC
1 TTTACAGAATCGAAATCCAAAAATC
97462112 ACACTTTTCG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.48, C:0.20, G:0.08, T:0.24
Consensus pattern (25 bp):
TTTACAGAATCGAAATCCAAAAATC
Found at i:97464932 original size:21 final size:23
Alignment explanation
Indices: 97464900--97464957 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 23
97464890 TCAATAATTT
*
97464900 TTTTCTCTTTTTTATGTT-TTTC
1 TTTTCGCTTTTTTATGTTCTTTC
*
97464922 TTTTC-CTTTTTT-TTTTCTTTC
1 TTTTCGCTTTTTTATGTTCTTTC
*
97464943 TTTTCGATTTTTTAT
1 TTTTCGCTTTTTTAT
97464958 TCTTTTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 3 0.10
21 16 0.52
22 11 0.35
23 1 0.03
ACGTcount: A:0.05, C:0.14, G:0.03, T:0.78
Consensus pattern (23 bp):
TTTTCGCTTTTTTATGTTCTTTC
Found at i:97464960 original size:21 final size:21
Alignment explanation
Indices: 97464907--97464967 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
97464897 TTTTTTTCTC
* *
97464907 TTTTTTATGTTTTTCTTTTCCT
1 TTTTTTAT-TCTTTCTTTTCCA
* *
97464929 TTTTTTTTTCTTTCTTTTCGA
1 TTTTTTATTCTTTCTTTTCCA
*
97464950 TTTTTTATTCTTTTTTTT
1 TTTTTTATTCTTTCTTTT
97464968 AGAACAAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 26 0.79
22 7 0.21
ACGTcount: A:0.05, C:0.11, G:0.03, T:0.80
Consensus pattern (21 bp):
TTTTTTATTCTTTCTTTTCCA
Found at i:97466422 original size:22 final size:22
Alignment explanation
Indices: 97466377--97466423 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
97466367 TGTGTACCAC
* *
97466377 TTTTTTACTTTTTTTCTTTCTT
1 TTTTTTAATTTTTTTCATTCTT
*
97466399 TTTTTTAATTTTTTTCAAT-TT
1 TTTTTTAATTTTTTTCATTCTT
97466420 TTTT
1 TTTT
97466424 CATTGTAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.11, C:0.09, G:0.00, T:0.81
Consensus pattern (22 bp):
TTTTTTAATTTTTTTCATTCTT
Found at i:97467998 original size:24 final size:25
Alignment explanation
Indices: 97467921--97467979 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 25
97467911 CAATTTGGAG
* * *
97467921 GAGCTTACCAATATTCAGATCGGAT
1 GAGCTTACCTATATTCAGCTCGAAT
97467946 GAGCTTACCTATATTCAGCTCGAAT
1 GAGCTTACCTATATTCAGCTCGAAT
97467971 GAGCTTACC
1 GAGCTTACC
97467980 GTTTATCGCT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (25 bp):
GAGCTTACCTATATTCAGCTCGAAT
Found at i:97468430 original size:25 final size:25
Alignment explanation
Indices: 97468401--97468453 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
97468391 ATGAATACAT
97468401 GGCTAATTTGGTAAATGGTTCAATG
1 GGCTAATTTGGTAAATGGTTCAATG
97468426 GGCTAATTTGGTAAATGGTTCAATG
1 GGCTAATTTGGTAAATGGTTCAATG
97468451 GGC
1 GGC
97468454 AATGTTTTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.26, C:0.09, G:0.30, T:0.34
Consensus pattern (25 bp):
GGCTAATTTGGTAAATGGTTCAATG
Found at i:97471073 original size:34 final size:34
Alignment explanation
Indices: 97471035--97471102 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
97471025 GTGAAAGGAT
*
97471035 AGACATTAGTAAAAGTGTATACGATGGAAGATAC
1 AGACATTACTAAAAGTGTATACGATGGAAGATAC
* *
97471069 AGACATTACTAAAAGTGTATACGGTGGACGATAC
1 AGACATTACTAAAAGTGTATACGATGGAAGATAC
97471103 TTCTGCTTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.41, C:0.12, G:0.24, T:0.24
Consensus pattern (34 bp):
AGACATTACTAAAAGTGTATACGATGGAAGATAC
Found at i:97474347 original size:25 final size:25
Alignment explanation
Indices: 97474319--97474379 Score: 95
Period size: 25 Copynumber: 2.4 Consensus size: 25
97474309 AGCTTGCATA
97474319 AGCTTACCGTTATCCAGCTCGGAGG
1 AGCTTACCGTTATCCAGCTCGGAGG
* * *
97474344 AGCTTACCGATATTCAGCTCGGATG
1 AGCTTACCGTTATCCAGCTCGGAGG
97474369 AGCTTACCGTT
1 AGCTTACCGTT
97474380 TGTCTCTCGT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.21, C:0.26, G:0.25, T:0.28
Consensus pattern (25 bp):
AGCTTACCGTTATCCAGCTCGGAGG
Found at i:97478797 original size:12 final size:12
Alignment explanation
Indices: 97478780--97478811 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
97478770 TAGTTAGAAA
97478780 AAGAAATTATTG
1 AAGAAATTATTG
97478792 AAGAAATTATTG
1 AAGAAATTATTG
97478804 AAGAAATT
1 AAGAAATT
97478812 GGGTAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.31
Consensus pattern (12 bp):
AAGAAATTATTG
Found at i:97480026 original size:109 final size:109
Alignment explanation
Indices: 97479835--97480033 Score: 380
Period size: 109 Copynumber: 1.8 Consensus size: 109
97479825 AGGGGCTTAA
97479835 ATTTATATGCATAGAATCTTGAATGAGTCTATTTTCAATAGAAACAAACGAAAACATCATTCGAA
1 ATTTATATGCATAGAATCTTGAATGAGTCTATTTTCAATAGAAACAAACGAAAACATCATTCGAA
97479900 TTTTTTATGAAGAGATAATTAATTTCTATAATTTCATTATTATT
66 TTTTTTATGAAGAGATAATTAATTTCTATAATTTCATTATTATT
* *
97479944 ATTTATATGCATAGGATCTTGAATGAGTCTATTTTCAATAGAAACAAATGAAAACATCATTCGAA
1 ATTTATATGCATAGAATCTTGAATGAGTCTATTTTCAATAGAAACAAACGAAAACATCATTCGAA
97480009 TTTTTTATGAAGAGATAATTAATTT
66 TTTTTTATGAAGAGATAATTAATTT
97480034 TTAGTGAAGA
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
109 88 1.00
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.39
Consensus pattern (109 bp):
ATTTATATGCATAGAATCTTGAATGAGTCTATTTTCAATAGAAACAAACGAAAACATCATTCGAA
TTTTTTATGAAGAGATAATTAATTTCTATAATTTCATTATTATT
Found at i:97481394 original size:23 final size:23
Alignment explanation
Indices: 97481368--97481412 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
97481358 TGGGTATGTG
*
97481368 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
97481391 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
97481413 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:97481670 original size:18 final size:18
Alignment explanation
Indices: 97481647--97481683 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
97481637 GAGGTGCAAA
97481647 AAGCTACTGATTATTTTG
1 AAGCTACTGATTATTTTG
97481665 AAGCTACTGATTATTTTG
1 AAGCTACTGATTATTTTG
97481683 A
1 A
97481684 CTATCATTCA
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:0.30, C:0.11, G:0.16, T:0.43
Consensus pattern (18 bp):
AAGCTACTGATTATTTTG
Found at i:97481916 original size:17 final size:17
Alignment explanation
Indices: 97481894--97481947 Score: 63
Period size: 18 Copynumber: 3.1 Consensus size: 17
97481884 AGAATGTAAA
97481894 ATTAAATTAAAAAAAAT
1 ATTAAATTAAAAAAAAT
* *
97481911 ATTAAAATAAAATAAAAAC
1 ATT-AAATTAAA-AAAAAT
*
97481930 ATTAAATTAATAAAAAT
1 ATTAAATTAAAAAAAAT
97481947 A
1 A
97481948 AAGTTTTCCT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
17 9 0.30
18 13 0.43
19 8 0.27
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (17 bp):
ATTAAATTAAAAAAAAT
Found at i:97483848 original size:299 final size:299
Alignment explanation
Indices: 97483277--97483884 Score: 789
Period size: 299 Copynumber: 2.0 Consensus size: 299
97483267 CAACTAATAG
* * *
97483277 AGATAATAACTTGTGCATATTAAAATAAAAATGATAAAATATGTCAAAAATAAAAATTTGGTTTA
1 AGATAATAACTTGCGCATATTAAAATAAAAATGATAAAATATATCAAAAATAAAAATTTGGTTGA
* * *
97483342 GTGATAAATTTAATATTTTACTAATCTAATTTGCGCGGATTCAAATCCCACCATATTCATATTTT
66 ATGATAAATTTAAGATTTTA-TAATCTAATTGGCGCGGATTCAAATCCCACCATATTCATATTTT
* * * *
97483407 AATTAGTTTTTGTTAAAATGAAAAGACTAAAATACCCTCGAATAGTATAGCTTTTTTAATGAGGG
130 AATTAGTTTTTCTTAAAATGAAAAGACTAAAATACCCTCAAATAATATAACTTTTTTAATGAGGG
*
97483472 AAGGATATTTCCATAATTTCCTAACCGAGTTGGTCACTCGATTGAGGATGACACCAACTCAATAA
195 AAGGACATTTCCATAATTTCCTAACCGAGTTGGTCACTCGATTGAGGATGACACCAACTCAATAA
97483537 AACACTTAATAAATAGTAAGTATTGATATACAATTGATGA
260 AACACTTAATAAATAGTAAGTATTGATATACAATTGATGA
* * * * **
97483577 AGATATTAACTTGCGCATATTAAAATAAAAATGTCTAAAATATAT-TAAAATGAAGCTTTGGTTG
1 AGATAATAACTTGCGCATATTAAAATAAAAATG-ATAAAATATATCAAAAATAAAAATTTGGTTG
* * * * *
97483641 AATGGTAAATTTAAGGATTTT-T-TTCTAATTGGCGCGGATTTAAATCCTACCATCTAT-ATATT
65 AATGATAAATTTAA-GATTTTATAATCTAATTGGCGCGGATTCAAATCCCACCATAT-TCATATT
* * * *
97483703 TTAATT-GTTTTTTCTTAAAATGAAAAGATTAAACTACCCTCAAATAATATAACTTATTTTAGTT
128 TTAATTAG-TTTTTCTTAAAATGAAAAGACTAAAATACCCTCAAATAATATAACTT-TTTTAATG
* * * * * * * *
97483767 ATGGAATGACATTTTCGTAATTTCCTAACCGAGTTGGTGACTTGGTTGAGGGA-GCCACCAACTC
191 AGGGAAGGACATTTCCATAATTTCCTAACCGAGTTGGTCACTCGATTGA-GGATGACACCAACTC
97483831 AATAAAACACTTAATAAATAGTAAGTATTGATATACAATTGATGTA
255 AATAAAACACTTAATAAATAGTAAGTATTGATATACAATTGATG-A
97483877 AG-TAATAA
1 AGATAATAA
97483885 AATGTGAATA
Statistics
Matches: 266, Mismatches: 35, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
297 1 0.00
298 80 0.30
299 108 0.41
300 63 0.24
301 14 0.05
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (299 bp):
AGATAATAACTTGCGCATATTAAAATAAAAATGATAAAATATATCAAAAATAAAAATTTGGTTGA
ATGATAAATTTAAGATTTTATAATCTAATTGGCGCGGATTCAAATCCCACCATATTCATATTTTA
ATTAGTTTTTCTTAAAATGAAAAGACTAAAATACCCTCAAATAATATAACTTTTTTAATGAGGGA
AGGACATTTCCATAATTTCCTAACCGAGTTGGTCACTCGATTGAGGATGACACCAACTCAATAAA
ACACTTAATAAATAGTAAGTATTGATATACAATTGATGA
Found at i:97484034 original size:299 final size:298
Alignment explanation
Indices: 97483366--97484068 Score: 687
Period size: 299 Copynumber: 2.4 Consensus size: 298
97483356 ATTTTACTAA
* * * * *
97483366 TCTAATTTGCGCGGATTCAAATCCCACCATAT-TCATATTTTAATTAGT-TTTTGTTAAAATGAA
1 TCTAATTGGCGAGGATTCAAAT-CCACCATCTAT-AAATTTTAATT-GTCTTTTCTTAAAATGAA
* * * * * * * * * * * *
97483429 AAGACTAAAATACCCTCGAATAGTATAGCTT-TTTTAATGAGGGAAGGATATTTCCATAATTTCC
63 AAGATTAAACTACCATCAAATAATATAACTTATTTTAATTATGGAATGACATTTTCGTAATTTCC
97483493 TAACCGAGTTGGTCACTCGATTGAGGATGACACCAACTCAATAAAACACTTAATAAATAGTAAGT
128 TAACCGAGTTGGTCACTCGATTGAGGATGACACCAACTCAATAAAACACTTAATAAATAGTAAGT
* ** * * * *
97483558 ATTGATATACAATTGATGAAGATATTAACTTGCGCATATTAAAATAAAAATGTCTAAAATATATT
193 ATTGATATACAATTGATGAAGATAATAAAATGCGAATAATAAAATAAAAATATATAAAATATATT
* * ** **
97483623 AAAATGAAGCTTTGGTTGAATGGTAAATTTAAGGATTTTTT
258 AAAATAAAGCTTTAGTTGAATCATAAATTTAAACATTTTTT
* * * *
97483664 TCTAATTGGCGCGGATTTAAATCCTACCATCTATATATTTTAATTGTTTTTTCTTAAAATGAAAA
1 TCTAATTGGCGAGGATTCAAATCC-ACCATCTATAAATTTTAATTGTCTTTTCTTAAAATGAAAA
* *
97483729 GATTAAACTACCCTCAAATAATATAACTTATTTTAGTTATGGAATGACATTTTCGTAATTTCCTA
65 GATTAAACTACCATCAAATAATATAACTTATTTTAATTATGGAATGACATTTTCGTAATTTCCTA
* * * *
97483794 ACCGAGTTGGTGACTTGGTTGAGGGA-GCCACCAACTCAATAAAACACTTAATAAATAGTAAGTA
130 ACCGAGTTGGTCACTCGATTGA-GGATGACACCAACTCAATAAAACACTTAATAAATAGTAAGTA
* * *
97483858 TTGATATACAATTGATGTAAG-TAATAAAATGTGAATAATAAAATTAAAATATATTAAA-ATATT
194 TTGATATACAATTGATG-AAGATAATAAAATGCGAATAATAAAATAAAAATATATAAAATATATT
*
97483921 AAAATAAAGTTTTAGTT-AAGTCATAAA-TTAAACATTTTGTT
258 AAAATAAAGCTTTAGTTGAA-TCATAAATTTAAACATTTT-TT
* ** * **
97483962 AATGTAATTGGTTTAGG-TTCAAAT-C-CCATTGTATACGAATGTTTTTTTGTCTTTT-TT-AAA
1 --TCTAATTGG-CGAGGATTCAAATCCACCA-TCTATA--AAT-TTTAATTGTCTTTTCTTAAAA
* **
97484022 T-AAAAGGATTAAAGTACCATTGAATAATATAACTTATTTTAATTATG
59 TGAAAA-GATTAAACTACCATCAAATAATATAACTTATTTTAATTATG
97484069 AAAATTTCCC
Statistics
Matches: 337, Mismatches: 52, Indels: 31
0.80 0.12 0.07
Matches are distributed among these distances:
297 18 0.05
298 112 0.33
299 170 0.50
300 24 0.07
301 13 0.04
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (298 bp):
TCTAATTGGCGAGGATTCAAATCCACCATCTATAAATTTTAATTGTCTTTTCTTAAAATGAAAAG
ATTAAACTACCATCAAATAATATAACTTATTTTAATTATGGAATGACATTTTCGTAATTTCCTAA
CCGAGTTGGTCACTCGATTGAGGATGACACCAACTCAATAAAACACTTAATAAATAGTAAGTATT
GATATACAATTGATGAAGATAATAAAATGCGAATAATAAAATAAAAATATATAAAATATATTAAA
ATAAAGCTTTAGTTGAATCATAAATTTAAACATTTTTT
Found at i:97485100 original size:19 final size:19
Alignment explanation
Indices: 97485078--97485120 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
97485068 TTAGATAAAA
97485078 TTAATA-TATTATTTAATAT
1 TTAATATTA-TATTTAATAT
*
97485097 TTAAAATTATATTTAATAT
1 TTAATATTATATTTAATAT
97485116 TTAAT
1 TTAAT
97485121 TTAATACTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TTAATATTATATTTAATAT
Found at i:97488476 original size:3 final size:3
Alignment explanation
Indices: 97488468--97488512 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
97488458 TTGGGATTGG
97488468 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
97488513 TTCCATGCAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:97490097 original size:18 final size:19
Alignment explanation
Indices: 97490067--97490103 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
97490057 GATTTCTGAA
97490067 AAATGATTTACTTTTCTGG
1 AAATGATTTACTTTTCTGG
97490086 AAATGA-TTACTTTTCTGG
1 AAATGATTTACTTTTCTGG
97490104 TGTTTGGATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.27, C:0.11, G:0.16, T:0.46
Consensus pattern (19 bp):
AAATGATTTACTTTTCTGG
Found at i:97494774 original size:41 final size:40
Alignment explanation
Indices: 97494688--97494807 Score: 123
Period size: 41 Copynumber: 2.9 Consensus size: 40
97494678 ACGATTCGAG
* * * * * *
97494688 ATAGCTTCGGCTATATAGGGCACTTAGTGTGTGAAACCGAG
1 ATAGCTTCGGCTATGTAAGGCACTTAGTGTGCGAGA-TGAA
*
97494729 ATAGCTTCGGCTATGTAAGGCACTTAGTGTGCGAGATTATA
1 ATAGCTTCGGCTATGTAAGGCACTTAGTGTGCGAGATGA-A
** *
97494770 ATAGCTTCAACTATGTATTGGCACTTAGTGTGCGAGAT
1 ATAGCTTCGGCTATGTA-AGGCACTTAGTGTGCGAGAT
97494808 ATCGAGTATT
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
40 1 0.01
41 47 0.70
42 19 0.28
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.31
Consensus pattern (40 bp):
ATAGCTTCGGCTATGTAAGGCACTTAGTGTGCGAGATGAA
Found at i:97494803 original size:42 final size:41
Alignment explanation
Indices: 97494729--97494807 Score: 122
Period size: 42 Copynumber: 1.9 Consensus size: 41
97494719 TGAAACCGAG
**
97494729 ATAGCTTCGGCTATGTAAGGCACTTAGTGTGCGAGATTATA
1 ATAGCTTCAACTATGTAAGGCACTTAGTGTGCGAGATTATA
*
97494770 ATAGCTTCAACTATGTATTGGCACTTAGTGTGCGAGAT
1 ATAGCTTCAACTATGTA-AGGCACTTAGTGTGCGAGAT
97494808 ATCGAGTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
41 15 0.44
42 19 0.56
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (41 bp):
ATAGCTTCAACTATGTAAGGCACTTAGTGTGCGAGATTATA
Found at i:97503698 original size:2 final size:2
Alignment explanation
Indices: 97503691--97503717 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
97503681 CAATCACTTA
97503691 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
97503718 AAGCTAGCAT
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:97505136 original size:21 final size:21
Alignment explanation
Indices: 97505110--97505156 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
97505100 TTGGGTGTGG
97505110 TTCGGGACTAAACCGAGAACT
1 TTCGGGACTAAACCGAGAACT
97505131 TTCGGGACTAAACCGAGAACT
1 TTCGGGACTAAACCGAGAACT
97505152 TTCGG
1 TTCGG
97505157 AACTTTCATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.21
Consensus pattern (21 bp):
TTCGGGACTAAACCGAGAACT
Found at i:97505800 original size:27 final size:27
Alignment explanation
Indices: 97505770--97505836 Score: 68
Period size: 27 Copynumber: 2.4 Consensus size: 27
97505760 ATATTTTATA
97505770 ATTATTTAATTAGATAA-ATATTATTTT
1 ATTATTT-ATTAGATAAGATATTATTTT
*
97505797 ATTAATATT-TTA-ATAAGATATTTTTTT
1 ATT-AT-TTATTAGATAAGATATTATTTT
97505824 ATTATTTTATTAG
1 ATTA-TTTATTAG
97505837 TATATAAAGA
Statistics
Matches: 33, Mismatches: 1, Indels: 11
0.73 0.02 0.24
Matches are distributed among these distances:
26 7 0.21
27 22 0.67
28 2 0.06
29 2 0.06
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.58
Consensus pattern (27 bp):
ATTATTTATTAGATAAGATATTATTTT
Found at i:97507957 original size:46 final size:46
Alignment explanation
Indices: 97507905--97508178 Score: 379
Period size: 46 Copynumber: 6.0 Consensus size: 46
97507895 AGTGTGCTCT
* *
97507905 CTGATATGAAATGTGTAAGACTATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ** *
97507951 CTGATATGAATTGTTTAAGACCATGGTTGAAATATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
97507997 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
97508043 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
97508089 ATGATATGAAATGAATAATACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
97508135 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
97508179 TCATGTCAAA
Statistics
Matches: 209, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 1 0.00
46 208 1.00
ACGTcount: A:0.40, C:0.14, G:0.22, T:0.24
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:97511198 original size:11 final size:11
Alignment explanation
Indices: 97511184--97511228 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
97511174 AGATAAATAT
97511184 TATTTTATTAA
1 TATTTTATTAA
*
97511195 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
97511208 TATTTTATTAT
1 TATTTTATTAA
97511219 TATTTTATTA
1 TATTTTATTA
97511229 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:97515231 original size:2 final size:2
Alignment explanation
Indices: 97515218--97515254 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
97515208 TGAACACCAA
*
97515218 AC AC AC AT AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
97515255 TATATATATG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.46, G:0.00, T:0.03
Consensus pattern (2 bp):
AC
Found at i:97531244 original size:22 final size:21
Alignment explanation
Indices: 97531193--97531275 Score: 62
Period size: 22 Copynumber: 3.8 Consensus size: 21
97531183 CACCCCAATT
* *
97531193 TTATTTTATTTATTATTAATTG
1 TTATATTATTTATT-TTTATTG
97531215 TTATATTATTTATTTTTATT-
1 TTATATTATTTATTTTTATTG
* **
97531235 TTACTAATTAATTTATTCTTATAC
1 TTA-T-ATT-ATTTATTTTTATTG
97531259 TTATATT-TTTAATTTTT
1 TTATATTATTT-ATTTTT
97531276 TTATATTTTA
Statistics
Matches: 51, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
20 6 0.12
21 11 0.22
22 19 0.37
23 12 0.24
24 3 0.06
ACGTcount: A:0.28, C:0.04, G:0.01, T:0.67
Consensus pattern (21 bp):
TTATATTATTTATTTTTATTG
Found at i:97531266 original size:37 final size:36
Alignment explanation
Indices: 97531191--97531274 Score: 89
Period size: 37 Copynumber: 2.2 Consensus size: 36
97531181 ATCACCCCAA
* * *
97531191 TTTTATTTTATTTATTATTAATTGTTATATTATTTAT
1 TTTTATTTTACTAATTATTAATTCTTATATTA-TTAT
*
97531228 TTTTATTTTACTAATTAATTTATTCTTATACTTA-TAT
1 TTTTATTTTACTAATT-ATTAATTCTTATA-TTATTAT
97531265 TTTTAATTTT
1 TTTT-ATTTT
97531275 TTTATATTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
37 21 0.52
38 16 0.40
39 3 0.08
ACGTcount: A:0.27, C:0.04, G:0.01, T:0.68
Consensus pattern (36 bp):
TTTTATTTTACTAATTATTAATTCTTATATTATTAT
Found at i:97531286 original size:16 final size:16
Alignment explanation
Indices: 97531259--97531299 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
97531249 ATTCTTATAC
97531259 TTATATTTTTAATTTTT
1 TTATA-TTTTAATTTTT
97531276 TTATATTTTAATTTTT
1 TTATATTTTAATTTTT
97531292 TTA-ATTTT
1 TTATATTTT
97531300 TTATATTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 5 0.21
16 14 0.58
17 5 0.21
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATATTTTAATTTTT
Found at i:97531410 original size:5 final size:5
Alignment explanation
Indices: 97531400--97531472 Score: 51
Period size: 5 Copynumber: 14.2 Consensus size: 5
97531390 ATTGAGATTA
* * * *
97531400 TTATT TTATT TT-TA TTATTT TTATCT TCTTTT TTAATT TTGTT TTA-G
1 TTATT TTATT TTATT TTA-TT TTAT-T T-TATT TT-ATT TTATT TTATT
*
97531447 TTGTT TTATT TTATT TTATT TTATT T
1 TTATT TTATT TTATT TTATT TTATT T
97531473 AACTTATTTT
Statistics
Matches: 52, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
4 5 0.10
5 33 0.63
6 12 0.23
7 2 0.04
ACGTcount: A:0.16, C:0.03, G:0.04, T:0.77
Consensus pattern (5 bp):
TTATT
Found at i:97533345 original size:30 final size:30
Alignment explanation
Indices: 97533300--97533356 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
97533290 TAGGCATTTT
**
97533300 CACACGGGATGGCCACATGCCCATGTGATC
1 CACACGGGATGGCCACACACCCATGTGATC
* *
97533330 CACATGGGCTGGCCACACACCCATGTG
1 CACACGGGATGGCCACACACCCATGTG
97533357 CCAATCCGTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.23, C:0.35, G:0.26, T:0.16
Consensus pattern (30 bp):
CACACGGGATGGCCACACACCCATGTGATC
Found at i:97537960 original size:17 final size:17
Alignment explanation
Indices: 97537938--97537971 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
97537928 AGCTAAGAGA
97537938 AAGAAATTCAAGCAAGC
1 AAGAAATTCAAGCAAGC
97537955 AAGAAATTCAAGCAAGC
1 AAGAAATTCAAGCAAGC
97537972 TTAATTGGGT
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:0.53, C:0.18, G:0.18, T:0.12
Consensus pattern (17 bp):
AAGAAATTCAAGCAAGC
Found at i:97538930 original size:26 final size:27
Alignment explanation
Indices: 97538888--97538945 Score: 84
Period size: 26 Copynumber: 2.2 Consensus size: 27
97538878 CTCTTATAAG
97538888 CTTCCCTGTAATATGGCTCTTTGTGAA
1 CTTCCCTGTAATATGGCTCTTTGTGAA
*
97538915 CTTCCC-GTTAAT-TGGCTCTTTGTGAG
1 CTTCCCTG-TAATATGGCTCTTTGTGAA
97538941 CTTCC
1 CTTCC
97538946 TGATATGACT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 19 0.66
27 10 0.34
ACGTcount: A:0.14, C:0.26, G:0.19, T:0.41
Consensus pattern (27 bp):
CTTCCCTGTAATATGGCTCTTTGTGAA
Found at i:97543042 original size:47 final size:47
Alignment explanation
Indices: 97542986--97543425 Score: 668
Period size: 47 Copynumber: 9.4 Consensus size: 47
97542976 GATGTACAAG
*
97542986 ATATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 ATATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
97543033 ATATATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAA
1 ATATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
97543080 GTATATATATGTGATAAGGCCGAATGGCCAATATGATGAATGTGAAA
1 ATATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
97543127 A-ATATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAA
1 ATATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
97543173 GTATATATATGTGATAAGGCCGAATGGCCAATTTGATGAATGTGAAA
1 ATATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
97543220 ATATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAT
1 ATATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * *
97543267 ATATATATATGTGATAAGGCCGAGTGGCCAACGTGATGAATGTGGAA
1 ATATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
97543314 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 ATATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * * * * *
97543361 GTGTATATATGAGATAAGACCTAATGGCCAATGTGATGGATGTGAAA
1 ATATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
97543408 GTGA-ATAAATGTGATAAG
1 AT-ATATATATGTGATAAG
97543426 TCCCGAAGGG
Statistics
Matches: 361, Mismatches: 30, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
46 43 0.12
47 318 0.88
ACGTcount: A:0.36, C:0.08, G:0.28, T:0.28
Consensus pattern (47 bp):
ATATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
Found at i:97545869 original size:40 final size:40
Alignment explanation
Indices: 97545810--97546163 Score: 530
Period size: 40 Copynumber: 8.9 Consensus size: 40
97545800 AGGTCTCGAC
* **
97545810 GATG-ATCCGGGCTAAGCCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGATAAGTTCCGAAGAGCATTCGTGCTAGT
* ** *
97545849 GATGTATCCGGGCTAAGCCCCAAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGATAAGTTCCGAAGAGCATTCGTGCTAGT
* **
97545889 GATGTATCCGGGTTAAGCCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGATAAGTTCCGAAGAGCATTCGTGCTAGT
* **
97545929 GATGTATCCGGGCTAAGCCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGATAAGTTCCGAAGAGCATTCGTGCTAGT
*
97545969 GATGTATCCGGAATAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGATAAGTTCCGAAGAGCATTCGTGCTAGT
*
97546009 GATGTATCCGGAATAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGATAAGTTCCGAAGAGCATTCGTGCTAGT
97546049 GATGTATCCGGGATAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGATAAGTTCCGAAGAGCATTCGTGCTAGT
* *
97546089 GATGTATCTGGGATAAGTTCCGAAGAGCGTTCGTGCTAGT
1 GATGTATCCGGGATAAGTTCCGAAGAGCATTCGTGCTAGT
* *
97546129 GATGTATCCGGGCTAAGTTCCAAAGAGCATTCGTG
1 GATGTATCCGGGATAAGTTCCGAAGAGCATTCGTG
97546164 TAACATCCTG
Statistics
Matches: 299, Mismatches: 15, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
39 4 0.01
40 295 0.99
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (40 bp):
GATGTATCCGGGATAAGTTCCGAAGAGCATTCGTGCTAGT
Found at i:97547887 original size:25 final size:25
Alignment explanation
Indices: 97547858--97547905 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
97547848 TTATAATATG
* * *
97547858 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
97547883 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
97547906 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:97547974 original size:20 final size:20
Alignment explanation
Indices: 97547949--97548007 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
97547939 TAAATATGGT
97547949 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
97547969 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
97547989 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
97548008 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:97547989 original size:11 final size:11
Alignment explanation
Indices: 97547953--97548007 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
97547943 TATGGTATGT
97547953 ATGATATGCAC
1 ATGATATGCAC
* *
97547964 ATGAAATG--T
1 ATGATATGCAC
97547973 ATGATATGCAC
1 ATGATATGCAC
*
97547984 ATGATATG--T
1 ATGATATGCAC
97547993 ATGATATGCAC
1 ATGATATGCAC
97548004 ATGA
1 ATGA
97548008 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:97548085 original size:24 final size:24
Alignment explanation
Indices: 97548058--97548200 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
97548048 GAGGAAGTGA
*
97548058 AAAAGGGCTTATGCCCTAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
97548082 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
97548106 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
97548129 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
97548153 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
97548177 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
97548201 ATGATAAAGC
Statistics
Matches: 110, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.69
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:97548150 original size:47 final size:47
Alignment explanation
Indices: 97548058--97548200 Score: 198
Period size: 47 Copynumber: 3.0 Consensus size: 47
97548048 GAGGAAGTGA
*
97548058 AAAAGGGCTTATGCCCTAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
97548106 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
97548153 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
97548201 ATGATAAAGC
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
47 43 0.49
48 33 0.38
49 11 0.13
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:97548174 original size:71 final size:72
Alignment explanation
Indices: 97548058--97548201 Score: 211
Period size: 71 Copynumber: 2.0 Consensus size: 72
97548048 GAGGAAGTGA
* *
97548058 AAAAGGGCTTATGCCCTAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
97548121 CCAGTTAT
65 CCAGTTAT
** * *
97548129 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
97548194 CAGTTAT
66 CAGTTAT
97548201 A
1 A
97548202 TGATAAAGCA
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
71 53 0.82
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:97548477 original size:30 final size:31
Alignment explanation
Indices: 97548392--97548516 Score: 234
Period size: 31 Copynumber: 4.1 Consensus size: 31
97548382 CGTTTACAGT
97548392 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
97548423 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
97548454 AAAGGCTTCGGCCCAGT-ATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
97548484 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
97548515 AA
1 AA
97548517 TATGAAAAGG
Statistics
Matches: 92, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
30 30 0.33
31 62 0.67
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:97548483 original size:61 final size:62
Alignment explanation
Indices: 97548392--97548516 Score: 234
Period size: 61 Copynumber: 2.0 Consensus size: 62
97548382 CGTTTACAGT
97548392 AAAGGCTTCGGCCCAGTAATATGAAATATGAAAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGAAAAGGCTTCGGCCCAGTAATATGAAATATGA
*
97548454 AAAGGCTTCGGCCCAGT-ATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGAAAAGGCTTCGGCCCAGTAATATGAAATATGA
97548515 AA
1 AA
97548517 TATGAAAAGG
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
61 45 0.73
62 17 0.27
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.23
Consensus pattern (62 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGAAAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:97549299 original size:40 final size:40
Alignment explanation
Indices: 97549225--97549318 Score: 107
Period size: 40 Copynumber: 2.4 Consensus size: 40
97549215 GGGTGTTACA
* * *
97549225 ATTCGTGCTAGTGATATATCCGTGCTAAACCCCGAAGAGT
1 ATTCGTGCTGGTGATATATCCGGGCTAAACCCCGAAGAGC
* ***
97549265 ATTCGTGCTGGTGTTATATCCGGGCTAGGTCCCGAAGAGC
1 ATTCGTGCTGGTGATATATCCGGGCTAAACCCCGAAGAGC
* *
97549305 AATCATGCTGGTGA
1 ATTCGTGCTGGTGA
97549319 CGTGTATTCG
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
ATTCGTGCTGGTGATATATCCGGGCTAAACCCCGAAGAGC
Found at i:97552782 original size:47 final size:47
Alignment explanation
Indices: 97552726--97553168 Score: 672
Period size: 47 Copynumber: 9.4 Consensus size: 47
97552716 GATGTACAAG
*
97552726 ATATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 ATATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
97552773 ATATATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAA
1 ATATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
97552820 GTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 ATATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
97552867 AAATATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAA
1 ATATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
97552914 GTATATATATGTGATAAGGCCGAATGGCCAATTTGATGAATGTGAAA
1 ATATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
97552961 ATATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATA
1 ATATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-A
* * *
97553009 TATATATATATGTGATAAGGCCGAGTGGCCAACGTGATGAATGTGGAA
1 -ATATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
97553057 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 ATATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * * * * *
97553104 GTGTATATATGAGATAAGACCTAATGGCCAATGTGATGGATGTGAAA
1 ATATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
97553151 GTGA-ATAAATGTGATAAG
1 AT-ATATATATGTGATAAG
97553169 TCCCGAAGGG
Statistics
Matches: 365, Mismatches: 28, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
47 320 0.88
48 2 0.01
49 43 0.12
ACGTcount: A:0.36, C:0.08, G:0.28, T:0.28
Consensus pattern (47 bp):
ATATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
Found at i:97561603 original size:43 final size:43
Alignment explanation
Indices: 97561518--97561604 Score: 99
Period size: 43 Copynumber: 2.0 Consensus size: 43
97561508 ATTTGTGATT
** *
97561518 TCGATATGTGTTTACGAGTAAGACCCTGTCTGGGACAGTGGCA
1 TCGATATGTGGCTACGAGTAAGACCCTGTCTGGAACAGTGGCA
97561561 TCGATATGTGGCTAC-ATGTAAGACCAC-GTCTGGAAC-GTTGGCA
1 TCGATATGTGGCTACGA-GTAAGACC-CTGTCTGGAACAG-TGGCA
97561604 T
1 T
97561605 TGTACGATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.05
43 35 0.92
44 1 0.03
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.28
Consensus pattern (43 bp):
TCGATATGTGGCTACGAGTAAGACCCTGTCTGGAACAGTGGCA
Found at i:97567264 original size:30 final size:30
Alignment explanation
Indices: 97567228--97567287 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
97567218 TTCCCGAGCC
97567228 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
* *
97567258 TAGGGGCAAAATTGTAATTTTGCAAAAGTT
1 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
97567288 CGTATTAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAATTATGCAAAAGTT
Found at i:97571241 original size:26 final size:26
Alignment explanation
Indices: 97571208--97571366 Score: 257
Period size: 26 Copynumber: 6.2 Consensus size: 26
97571198 TGATACAAAT
97571208 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
97571234 TGACAATGGCTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
97571260 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
97571286 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
97571312 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
97571338 TGATAATGGTTTAGGTAAATGTT-CA
1 TGATAATGGGTTAGGTAAATGTTCCA
97571363 TGAT
1 TGAT
97571367 GGGCATTTCA
Statistics
Matches: 122, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
25 6 0.05
26 116 0.95
ACGTcount: A:0.33, C:0.08, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:97577108 original size:26 final size:25
Alignment explanation
Indices: 97577050--97577209 Score: 232
Period size: 26 Copynumber: 6.2 Consensus size: 25
97577040 TGATACAAAT
97577050 TGATAATGGTTAGGTAAATGTT-CA
1 TGATAATGGTTAGGTAAATGTTCCA
* *
97577074 TGACAATGGATTAGGTAAATATTCCA
1 TGATAATGG-TTAGGTAAATGTTCCA
97577100 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAAT-GGTTAGGTAAATGTTCCA
97577126 TGATAATGGTTAGGTAAATTAGGTTCCA
1 TGATAATGGTTAGGTAAA-T--GTTCCA
97577154 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAAT-GGTTAGGTAAATGTTCCA
97577180 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGG-TTAGGTAAATGTTCCA
97577206 TGAT
1 TGAT
97577210 GGCATTTCAT
Statistics
Matches: 124, Mismatches: 4, Indels: 14
0.87 0.03 0.10
Matches are distributed among these distances:
24 8 0.06
25 25 0.20
26 64 0.52
27 2 0.02
28 14 0.11
29 11 0.09
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (25 bp):
TGATAATGGTTAGGTAAATGTTCCA
Found at i:97577168 original size:80 final size:76
Alignment explanation
Indices: 97577050--97577209 Score: 248
Period size: 80 Copynumber: 2.1 Consensus size: 76
97577040 TGATACAAAT
97577050 TGATAATGGTTAGGTAAATGTTCATGACAATGGATTAGGTAAATATTCCATGATAATGGGTTAGG
1 TGATAATGGTTAGGTAAATGTTCATGACAATGGATTAGGTAAATATTCCATGATAATGGGTTAGG
97577115 TAAATGTTCCA
66 TAAATGTTCCA
* * * *
97577126 TGATAATGGTTAGGTAAATTAGGTTCCATGATAATGGGTTAGGTAAATGTTCCATGATAATGGTT
1 TGATAATGGTTAGGTAAA-T--GTT-CATGACAATGGATTAGGTAAATATTCCATGATAATGGGT
97577191 TAGGTAAATGTTCCA
62 TAGGTAAATGTTCCA
97577206 TGAT
1 TGAT
97577210 GGCATTTCAT
Statistics
Matches: 76, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
76 18 0.24
77 1 0.01
79 3 0.04
80 54 0.71
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (76 bp):
TGATAATGGTTAGGTAAATGTTCATGACAATGGATTAGGTAAATATTCCATGATAATGGGTTAGG
TAAATGTTCCA
Found at i:97577174 original size:54 final size:53
Alignment explanation
Indices: 97577050--97577209 Score: 240
Period size: 54 Copynumber: 3.1 Consensus size: 53
97577040 TGATACAAAT
*
97577050 TGATAAT-GGTTAGGTAAATGTT-CATGACAATGGATTAGGTAAA-TATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATTATTCCA
97577100 TGATAATGGGTTAGGTAAATGTTCCATGATAATGG-TTAGGTAAATTAGGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATTA--TTCCA
* *
97577154 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAA-TGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATTATTCCA
97577206 TGAT
1 TGAT
97577210 GGCATTTCAT
Statistics
Matches: 102, Mismatches: 2, Indels: 10
0.89 0.02 0.09
Matches are distributed among these distances:
50 7 0.07
51 24 0.24
52 21 0.21
54 41 0.40
55 9 0.09
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (53 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATTATTCCA
Found at i:97582663 original size:21 final size:21
Alignment explanation
Indices: 97582637--97582678 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
97582627 AGACAAGGAG
97582637 AAACAAGGGCAAAATGAGAAA
1 AAACAAGGGCAAAATGAGAAA
97582658 AAACAAGGGCAAAATGAGAAA
1 AAACAAGGGCAAAATGAGAAA
97582679 TTTTGCAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.62, C:0.10, G:0.24, T:0.05
Consensus pattern (21 bp):
AAACAAGGGCAAAATGAGAAA
Found at i:97584488 original size:41 final size:41
Alignment explanation
Indices: 97584431--97584513 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
97584421 ATCCACTACT
97584431 TTGGGTACTTTTATAAGTTGAATTAGAAATTATGGCATGTA
1 TTGGGTACTTTTATAAGTTGAATTAGAAATTATGGCATGTA
97584472 TTGGGTACTTTTATAAGTTGAATTAGAAATTATGGCATGTA
1 TTGGGTACTTTTATAAGTTGAATTAGAAATTATGGCATGTA
97584513 T
1 T
97584514 AAGCTAAAGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.31, C:0.05, G:0.22, T:0.42
Consensus pattern (41 bp):
TTGGGTACTTTTATAAGTTGAATTAGAAATTATGGCATGTA
Found at i:97588245 original size:25 final size:25
Alignment explanation
Indices: 97588209--97588258 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
97588199 GTAGAAAATG
*
97588209 AAAGGTTGTTGATAGATAAACAACT
1 AAAGGTTGTTGAAAGATAAACAACT
* *
97588234 AAAGGTTTTTGAAAGGTAAACAACT
1 AAAGGTTGTTGAAAGATAAACAACT
97588259 TTTGTAAAGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.44, C:0.08, G:0.20, T:0.28
Consensus pattern (25 bp):
AAAGGTTGTTGAAAGATAAACAACT
Found at i:97589027 original size:26 final size:27
Alignment explanation
Indices: 97588981--97589043 Score: 101
Period size: 26 Copynumber: 2.4 Consensus size: 27
97588971 TTAGCTCTTA
* *
97588981 TGAGCTTCCCGATTATATGGCTCTTTG
1 TGAGCTTCCCGATAATATGGCTCTTCG
97589008 TGAGCTTCCCGATAAT-TGGCTCTTCG
1 TGAGCTTCCCGATAATATGGCTCTTCG
97589034 TGAGCTTCCC
1 TGAGCTTCCC
97589044 AATATGACTC
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
26 19 0.56
27 15 0.44
ACGTcount: A:0.14, C:0.27, G:0.22, T:0.37
Consensus pattern (27 bp):
TGAGCTTCCCGATAATATGGCTCTTCG
Found at i:97596166 original size:16 final size:19
Alignment explanation
Indices: 97596131--97596168 Score: 55
Period size: 16 Copynumber: 2.2 Consensus size: 19
97596121 ATTTACACAA
97596131 TAAAAAACAATTTCAAATT
1 TAAAAAACAATTTCAAATT
97596150 TAAAAAA-AA-TT-AAATT
1 TAAAAAACAATTTCAAATT
97596166 TAA
1 TAA
97596169 CATTATTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 2 0.11
18 2 0.11
19 7 0.37
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (19 bp):
TAAAAAACAATTTCAAATT
Found at i:97600816 original size:23 final size:22
Alignment explanation
Indices: 97600772--97600817 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
97600762 TGTCACATTG
**
97600772 TTGAAATTAAAATTTTTTAATA
1 TTGAAATTAAAATTTTAAAATA
*
97600794 TTGAAATTTTAAATTTTAAAATA
1 TTGAAA-TTAAAATTTTAAAATA
97600817 T
1 T
97600818 CAAAATCAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (22 bp):
TTGAAATTAAAATTTTAAAATA
Found at i:97602125 original size:21 final size:21
Alignment explanation
Indices: 97602092--97602131 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
97602082 TAACGGGACT
97602092 GCTGACGTCGCAAGTTAACGA
1 GCTGACGTCGCAAGTTAACGA
* *
97602113 GCTGATGTGGCAAGTTAAC
1 GCTGACGTCGCAAGTTAAC
97602132 TTGCCATGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (21 bp):
GCTGACGTCGCAAGTTAACGA
Found at i:97602603 original size:12 final size:12
Alignment explanation
Indices: 97602588--97602631 Score: 63
Period size: 12 Copynumber: 3.7 Consensus size: 12
97602578 TTTCGATTCT
97602588 GATTTTGATTTC
1 GATTTTGATTTC
97602600 GATTTCT-ATTTC
1 GATTT-TGATTTC
97602612 GATTTTGATTTC
1 GATTTTGATTTC
*
97602624 AATTTTGA
1 GATTTTGA
97602632 AACACTCACT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
11 1 0.03
12 27 0.93
13 1 0.03
ACGTcount: A:0.20, C:0.09, G:0.14, T:0.57
Consensus pattern (12 bp):
GATTTTGATTTC
Found at i:97602622 original size:18 final size:18
Alignment explanation
Indices: 97602577--97602628 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
97602567 ATTTAGGGTT
*
97602577 ATTTCGA-TTCTGATTTTG
1 ATTTCGATTTCT-ATTTCG
97602595 ATTTCGATTTCTATTTCG
1 ATTTCGATTTCTATTTCG
* *
97602613 ATTTTGATTTCAATTT
1 ATTTCGATTTCTATTT
97602629 TGAAACACTC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
18 26 0.87
19 4 0.13
ACGTcount: A:0.19, C:0.12, G:0.12, T:0.58
Consensus pattern (18 bp):
ATTTCGATTTCTATTTCG
Found at i:97602628 original size:6 final size:6
Alignment explanation
Indices: 97602577--97602628 Score: 52
Period size: 6 Copynumber: 8.7 Consensus size: 6
97602567 ATTTAGGGTT
* * * *
97602577 ATTTCG A-TTCTG ATTTTG ATTTCG ATTTCT ATTTCG ATTTTG ATTTCA
1 ATTTCG ATTTC-G ATTTCG ATTTCG ATTTCG ATTTCG ATTTCG ATTTCG
97602625 ATTT
1 ATTT
97602629 TGAAACACTC
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
5 3 0.08
6 32 0.86
7 2 0.05
ACGTcount: A:0.19, C:0.12, G:0.12, T:0.58
Consensus pattern (6 bp):
ATTTCG
Found at i:97602762 original size:48 final size:46
Alignment explanation
Indices: 97602724--97602882 Score: 210
Period size: 48 Copynumber: 3.3 Consensus size: 46
97602714 GTTTATAATT
*
97602724 TGTATCTGCCATTGTATAAATGCCATTATCAAACTGATGTTTGTTG
1 TGTATCTGCCATTGTATGAATGCCATTATCAAACTGATGTTTGTTG
* *
97602770 TGTATATTTGCCATTGTATGAATGCCATTATCAAACCGATGTTTGTTG
1 TG--TATCTGCCATTGTATGAATGCCATTATCAAACTGATGTTTGTTG
* * *
97602818 TGTATAACTACCATTGTATGAATGCCATTATCAAAATGATATTTGTTG
1 TGTAT--CTGCCATTGTATGAATGCCATTATCAAACTGATGTTTGTTG
97602866 TGCATATCTGCCATTGT
1 TG--TATCTGCCATTGT
97602883 TTGTATCCAA
Statistics
Matches: 98, Mismatches: 9, Indels: 10
0.84 0.08 0.09
Matches are distributed among these distances:
46 5 0.05
48 90 0.92
50 3 0.03
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.41
Consensus pattern (46 bp):
TGTATCTGCCATTGTATGAATGCCATTATCAAACTGATGTTTGTTG
Found at i:97602987 original size:89 final size:89
Alignment explanation
Indices: 97602836--97603015 Score: 315
Period size: 89 Copynumber: 2.0 Consensus size: 89
97602826 TACCATTGTA
97602836 TGAATGCCATTATCAAAATGATATTTGTTGTGCATATCTGCCATTGTTTGTATCCAAGCTGCTAT
1 TGAATGCCATTATCAAAATGATATTTGTTGTGCATATCTGCCATTGTTTGTATCCAAGCTGCTAT
*
97602901 ATTGTATGTGGCAAAATCAAAATT
66 ATTGTATGTGGAAAAATCAAAATT
* * * *
97602925 TGAATGCCATTATCAAACTTATGTTTGTTGTGTATATCTGCCATTGTTTGTATCCAAGCTGCTAT
1 TGAATGCCATTATCAAAATGATATTTGTTGTGCATATCTGCCATTGTTTGTATCCAAGCTGCTAT
97602990 ATTGTATGTGGAAAAATCAAAATT
66 ATTGTATGTGGAAAAATCAAAATT
97603014 TG
1 TG
97603016 TCATTTACCT
Statistics
Matches: 86, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
89 86 1.00
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.39
Consensus pattern (89 bp):
TGAATGCCATTATCAAAATGATATTTGTTGTGCATATCTGCCATTGTTTGTATCCAAGCTGCTAT
ATTGTATGTGGAAAAATCAAAATT
Found at i:97605088 original size:28 final size:28
Alignment explanation
Indices: 97605027--97605091 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
97605017 TGGTGTGTTG
* * *
97605027 ACTTTTTTTTAATATGCATGCAGTGAGT
1 ACTTTTTTATAATATGCATACAGTGACT
* *
97605055 ATTTTTTTATAATATGCATATAGTGACT
1 ACTTTTTTATAATATGCATACAGTGACT
*
97605083 GCTTTTTTA
1 ACTTTTTTA
97605092 GGGGTGTGTG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.26, C:0.09, G:0.14, T:0.51
Consensus pattern (28 bp):
ACTTTTTTATAATATGCATACAGTGACT
Found at i:97609583 original size:3 final size:3
Alignment explanation
Indices: 97609568--97609615 Score: 62
Period size: 3 Copynumber: 16.3 Consensus size: 3
97609558 CCATTTTTCC
* * *
97609568 TCT TCT CCT TCT TCT TCT TCT T-T TCC TCT TCT TCT TCT TCT TTT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
97609615 T
1 T
97609616 TTTTCTAACC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:97609591 original size:26 final size:26
Alignment explanation
Indices: 97609562--97609617 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
97609552 GCATCTCCAT
97609562 TTTTCCTCTTCTCCTTCTTCTTCTTC
1 TTTTCCTCTTCTCCTTCTTCTTCTTC
* *
97609588 TTTTCCTCTTCTTCTTCTTCTTTTTC
1 TTTTCCTCTTCTCCTTCTTCTTCTTC
97609614 TTTT
1 TTTT
97609618 TTCTAACCCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (26 bp):
TTTTCCTCTTCTCCTTCTTCTTCTTC
Found at i:97614173 original size:6 final size:6
Alignment explanation
Indices: 97614162--97614216 Score: 58
Period size: 6 Copynumber: 8.7 Consensus size: 6
97614152 AAGCAGGCCT
*
97614162 AGAAAA AGAAAA AGAAAA AGAAGAAA AGAGAAA A-AAGA AGAAAA AGAAAA
1 AGAAAA AGAAAA AGAAAA AG-A-AAA AGA-AAA AGAAAA AGAAAA AGAAAA
97614212 GAGAA
1 -AGAA
97614217 TGAGGGAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
5 3 0.07
6 24 0.56
7 11 0.26
8 5 0.12
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:97614187 original size:9 final size:9
Alignment explanation
Indices: 97614173--97614209 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
97614163 GAAAAAGAAA
97614173 AAGAAAAAG
1 AAGAAAAAG
97614182 AAG-AAAAG
1 AAGAAAAAG
97614190 -AGAAAAAAG
1 AAG-AAAAAG
97614199 AAGAAAAAG
1 AAGAAAAAG
97614208 AA
1 AA
97614210 AAGAGAATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
7 2 0.08
8 5 0.20
9 16 0.64
10 2 0.08
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (9 bp):
AAGAAAAAG
Found at i:97614584 original size:14 final size:14
Alignment explanation
Indices: 97614567--97614593 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
97614557 TATTTTTCTA
97614567 ATTTTTCATTTCAC
1 ATTTTTCATTTCAC
97614581 ATTTTTCATTTCA
1 ATTTTTCATTTCA
97614594 TTAATTAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.19, G:0.00, T:0.59
Consensus pattern (14 bp):
ATTTTTCATTTCAC
Found at i:97617072 original size:45 final size:44
Alignment explanation
Indices: 97617009--97617229 Score: 180
Period size: 45 Copynumber: 4.9 Consensus size: 44
97616999 ATACGCCTAA
*
97617009 ATAAA-AAAAGTAAGACCATGGCTGAAAGATGCTATGCTATCATG
1 ATAAACAAGAGTAAGACCATGGCTGAAAGATGCTATGC-ATCATG
* * *
97617053 ATAAAGATGAGTAAGACCATAGCTGAAAGATGCTATGACATCATG
1 ATAAACAAGAGTAAGACCATGGCTGAAAGATGCTATG-CATCATG
* * ** *
97617098 ATATAA-ATGAGTACAG-CTATGATTGAAAGATGCTATGGCATCACG
1 ATA-AACAAGAGTA-AGACCATGGCTGAAAGATGCTAT-GCATCATG
* * * * * *
97617143 GTAAACAAGACTAAGACCATGACTGAAAGACGTTATAGTATCAT-
1 ATAAACAAGAGTAAGACCATGGCTGAAAGATGCTAT-GCATCATG
* * *
97617187 AGTAAACAAGACTAAGACCATAGCTGAAAGACGCTATGACATC
1 A-TAAACAAGAGTAAGACCATGGCTGAAAGATGCTATG-CATC
97617230 CTAATAGTTT
Statistics
Matches: 145, Mismatches: 23, Indels: 17
0.78 0.12 0.09
Matches are distributed among these distances:
44 10 0.07
45 129 0.89
46 6 0.04
ACGTcount: A:0.42, C:0.15, G:0.20, T:0.22
Consensus pattern (44 bp):
ATAAACAAGAGTAAGACCATGGCTGAAAGATGCTATGCATCATG
Found at i:97619742 original size:41 final size:41
Alignment explanation
Indices: 97619681--97619782 Score: 109
Period size: 41 Copynumber: 2.5 Consensus size: 41
97619671 CTCCTCTTTT
* * * * *
97619681 CATGTTGGTGTTGTAGAGTTTTGAATTGATCT-TCCCTTCGC
1 CATGTTGGTTTTGCAAAGTTTGGAAGTGATCTATCCC-TCGC
* *
97619722 CATGTTGGTATTT-CAAAGTTTGGAAGTGATCTATCTCTCTC
1 CATGTTGGT-TTTGCAAAGTTTGGAAGTGATCTATCCCTCGC
97619763 CATGTTGGTTTTGCAAAGTT
1 CATGTTGGTTTTGCAAAGTT
97619783 CGAAACTAGT
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
40 3 0.06
41 43 0.84
42 5 0.10
ACGTcount: A:0.19, C:0.16, G:0.23, T:0.43
Consensus pattern (41 bp):
CATGTTGGTTTTGCAAAGTTTGGAAGTGATCTATCCCTCGC
Found at i:97619767 original size:82 final size:82
Alignment explanation
Indices: 97619587--97619782 Score: 191
Period size: 82 Copynumber: 2.4 Consensus size: 82
97619577 CATTACAACT
* ** * * *
97619587 TCTATCTTTCTCCATGTTAATGTTGCAGAGTTTGAAGTTCATTTTTCCTTCTCCATGTTGGTATT
1 TCTATCTCTCTCCATGTTGGTGTTGCAGAGTTTGAAGTTCATCTTCCCTTCGCCATGTTGGTATT
* *
97619652 ACAGAGTTCGGAATTAG
66 ACAAAGTTCGGAATGAG
* * * * *
97619669 TCCT-CCTCTTTTCATGTTGGTGTTGTAGAGTTTTGAA-TTGATCTTCCCTTCGCCATGTTGGTA
1 T-CTATCTCTCTCCATGTTGGTGTTGCAGAG-TTTGAAGTTCATCTTCCCTTCGCCATGTTGGTA
* *
97619732 TTTCAAAGTTTGGAAGTGA-
64 TTACAAAGTTCGGAA-TGAG
* *
97619751 TCTATCTCTCTCCATGTTGGTTTTGCAAAGTT
1 TCTATCTCTCTCCATGTTGGTGTTGCAGAGTT
97619783 CGAAACTAGT
Statistics
Matches: 89, Mismatches: 21, Indels: 9
0.75 0.18 0.08
Matches are distributed among these distances:
81 4 0.04
82 75 0.84
83 10 0.11
ACGTcount: A:0.18, C:0.18, G:0.19, T:0.44
Consensus pattern (82 bp):
TCTATCTCTCTCCATGTTGGTGTTGCAGAGTTTGAAGTTCATCTTCCCTTCGCCATGTTGGTATT
ACAAAGTTCGGAATGAG
Found at i:97619891 original size:71 final size:69
Alignment explanation
Indices: 97619808--97619994 Score: 187
Period size: 71 Copynumber: 2.7 Consensus size: 69
97619798 TCTTATCAAT
* * *
97619808 TTGATGTTGCAAAGTTTGTGATGAATCCACCTTGGTTATCATAGATGTCACATACTTCGTTGTTA
1 TTGATGTTGCAAA-TTTGT-ATGAATCCACCTTGGTCATCATAGATGTCACATACTTCATTATTA
97619873 GCCATG
64 GCCATG
* * ** * ** * * *
97619879 TTGATTTTGCAAAATTTATAATGGGTCCACTTTGGTCATCACGGATGTTACCTACTTCATTATTC
1 TTGATGTTGC-AAATTTGT-ATGAATCCACCTTGGTCATCATAGATGTCACATACTTCATTATTA
*
97619944 TCCATG
64 GCCATG
*
97619950 TTGATGTTGC-AATTTGTAAGTAATCCACCTTGGTCATCATAGATG
1 TTGATGTTGCAAATTTGTATG-AATCCACCTTGGTCATCATAGATG
97619995 CTGCCCAACT
Statistics
Matches: 91, Mismatches: 23, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
68 2 0.02
69 25 0.27
71 61 0.67
72 3 0.03
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.39
Consensus pattern (69 bp):
TTGATGTTGCAAATTTGTATGAATCCACCTTGGTCATCATAGATGTCACATACTTCATTATTAGC
CATG
Found at i:97621531 original size:14 final size:13
Alignment explanation
Indices: 97621512--97621549 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
97621502 ATTTAATGTT
97621512 TAATTATATTAGGA
1 TAATTAT-TTAGGA
*
97621526 TAATTATTAAGGA
1 TAATTATTTAGGA
97621539 TAATTATTTAG
1 TAATTATTTAG
97621550 ATTTAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (13 bp):
TAATTATTTAGGA
Found at i:97621579 original size:10 final size:10
Alignment explanation
Indices: 97621564--97621615 Score: 59
Period size: 10 Copynumber: 5.1 Consensus size: 10
97621554 AAATTTTAGG
97621564 ATTTATTTTT
1 ATTTATTTTT
*
97621574 ATTTATCTTT
1 ATTTATTTTT
* *
97621584 AATTATCTTT
1 ATTTATTTTT
*
97621594 ATTTATTTGT
1 ATTTATTTTT
97621604 ATTTATCTTTT
1 ATTTAT-TTTT
97621615 A
1 A
97621616 GAATTTAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
10 31 0.89
11 4 0.11
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.69
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:97621609 original size:20 final size:20
Alignment explanation
Indices: 97621564--97621613 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
97621554 AAATTTTAGG
*
97621564 ATTTATTTTTATTTATCTTT
1 ATTTATCTTTATTTATCTTT
*
97621584 AATTATCTTTATTTAT-TTGT
1 ATTTATCTTTATTTATCTT-T
97621604 ATTTATCTTT
1 ATTTATCTTT
97621614 TAGAATTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 2 0.08
20 24 0.92
ACGTcount: A:0.22, C:0.06, G:0.02, T:0.70
Consensus pattern (20 bp):
ATTTATCTTTATTTATCTTT
Found at i:97623520 original size:17 final size:18
Alignment explanation
Indices: 97623497--97623544 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
97623487 ACTTATCCAT
* *
97623497 TTCAGTAACAGTCAGTCA
1 TTCAGTAATAGTCAGTAA
*
97623515 -TCAGTAATAATCAGTAA
1 TTCAGTAATAGTCAGTAA
97623532 TTCAGTAATAGTC
1 TTCAGTAATAGTC
97623545 CACTATTCAG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
17 14 0.56
18 11 0.44
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.31
Consensus pattern (18 bp):
TTCAGTAATAGTCAGTAA
Found at i:97623721 original size:6 final size:6
Alignment explanation
Indices: 97623682--97623720 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
97623672 GGAATACACC
* *
97623682 GTAACA GTAACA GTAACA GTAACA GCAACA GTAGCA GTA
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA GTA
97623721 GTGGTACACA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (6 bp):
GTAACA
Found at i:97625001 original size:19 final size:21
Alignment explanation
Indices: 97624961--97625005 Score: 67
Period size: 19 Copynumber: 2.2 Consensus size: 21
97624951 AAAATCTTAT
97624961 AATATAATTATTTAATTAATA
1 AATATAATTATTTAATTAATA
*
97624982 AATAT-ATTTTTTAA-TAATA
1 AATATAATTATTTAATTAATA
97625001 AATAT
1 AATAT
97625006 CTATTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 10 0.43
20 8 0.35
21 5 0.22
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AATATAATTATTTAATTAATA
Found at i:97631239 original size:5 final size:5
Alignment explanation
Indices: 97631220--97631273 Score: 58
Period size: 5 Copynumber: 10.8 Consensus size: 5
97631210 GTAACTTAAT
* *
97631220 TTTTA TTTT- TATTTA TTTTA TTTTA CTTTA TTTTA TTATT- TATTA TTTTA
1 TTTTA TTTTA T-TTTA TTTTA TTTTA TTTTA TTTTA TT-TTA TTTTA TTTTA
97631270 TTTT
1 TTTT
97631274 TGGATGTTGA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
4 3 0.07
5 35 0.85
6 3 0.07
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:97631240 original size:15 final size:15
Alignment explanation
Indices: 97631220--97631274 Score: 78
Period size: 15 Copynumber: 3.7 Consensus size: 15
97631210 GTAACTTAAT
97631220 TTTTATTTTTATTTA
1 TTTTATTTTTATTTA
97631235 TTTTA-TTTTACTTTA
1 TTTTATTTTTA-TTTA
97631250 TTTTATTATTTA-TTA
1 TTTTATT-TTTATTTA
97631265 TTTTATTTTT
1 TTTTATTTTT
97631275 GGATGTTGAT
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
14 8 0.22
15 24 0.65
16 1 0.03
17 4 0.11
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTATTTTTATTTA
Found at i:97631473 original size:75 final size:75
Alignment explanation
Indices: 97631349--97631487 Score: 215
Period size: 75 Copynumber: 1.9 Consensus size: 75
97631339 AGAAGGAAAA
* * *
97631349 AAAACCTACAGCCAAACAGTCTTTAATCTATCCCTATTCTATCCAAGAATAGTGCATTCTTACCC
1 AAAACCTACAGCCAAACAGTCTTTAATATATCCCTATTCCAGCCAAGAATAGTGCATTCTTACCC
97631414 TAGCATATCT
66 TAGCATATCT
** * *
97631424 AAAACCTACAGCCAAACAGTCTTTGTTATATCCCTATTCCAGCCTAGAATAGTGCGTTCTTACC
1 AAAACCTACAGCCAAACAGTCTTTAATATATCCCTATTCCAGCCAAGAATAGTGCATTCTTACC
97631488 TTAGAATTCC
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
75 57 1.00
ACGTcount: A:0.32, C:0.28, G:0.10, T:0.30
Consensus pattern (75 bp):
AAAACCTACAGCCAAACAGTCTTTAATATATCCCTATTCCAGCCAAGAATAGTGCATTCTTACCC
TAGCATATCT
Found at i:97633872 original size:125 final size:125
Alignment explanation
Indices: 97633733--97633984 Score: 459
Period size: 125 Copynumber: 2.0 Consensus size: 125
97633723 TGTTGCTCCT
*
97633733 AAGTCCTCCAAAATTAAAATTTCGTTAAAAAATAATAATGTTTCCGTGGTTATGAGTACAGCTTA
1 AAGTCCTCCAAAATTAAAATTTCATTAAAAAATAATAATGTTTCCGTGGTTATGAGTACAGCTTA
* *
97633798 AGACGTGACTAGCTGAGTAATCGGGGTAGGGTGCTTGGGTTGTCATCCTATTTCGCGTCA
66 AGACGTGACTAGCTGAGTAACCAGGGTAGGGTGCTTGGGTTGTCATCCTATTTCGCGTCA
*
97633858 AAGTCCTCCAAAATTAAAATTTCATTTAAAAATAATAATGTTTCCGTGGTTATGAGTACAGCTTA
1 AAGTCCTCCAAAATTAAAATTTCATTAAAAAATAATAATGTTTCCGTGGTTATGAGTACAGCTTA
*
97633923 AGACGTGACTAGCTGAGTAACCATGGTAGGGTGCTTGGGTTGTCATCCTATTTCGCGTCA
66 AGACGTGACTAGCTGAGTAACCAGGGTAGGGTGCTTGGGTTGTCATCCTATTTCGCGTCA
97633983 AA
1 AA
97633985 AGGTTGTGTG
Statistics
Matches: 122, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
125 122 1.00
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (125 bp):
AAGTCCTCCAAAATTAAAATTTCATTAAAAAATAATAATGTTTCCGTGGTTATGAGTACAGCTTA
AGACGTGACTAGCTGAGTAACCAGGGTAGGGTGCTTGGGTTGTCATCCTATTTCGCGTCA
Found at i:97634852 original size:14 final size:13
Alignment explanation
Indices: 97634833--97634870 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
97634823 ATTTAATGTT
97634833 TAATTATATTAGGA
1 TAATTAT-TTAGGA
*
97634847 TAATTATTAAGGA
1 TAATTATTTAGGA
97634860 TAATTATTTAG
1 TAATTATTTAG
97634871 ATTTAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (13 bp):
TAATTATTTAGGA
Found at i:97634900 original size:10 final size:10
Alignment explanation
Indices: 97634885--97634936 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
97634875 AAATTTTAGG
97634885 ATTTATTTTT
1 ATTTATTTTT
*
97634895 ATTTATCTTT
1 ATTTATTTTT
* *
97634905 AATTATCTTT
1 ATTTATTTTT
* *
97634915 AATTATTTGT
1 ATTTATTTTT
97634925 ATTTATCTTTT
1 ATTTAT-TTTT
97634936 A
1 A
97634937 GAATTTAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
10 31 0.89
11 4 0.11
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.67
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:97636730 original size:2 final size:2
Alignment explanation
Indices: 97636723--97636772 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
97636713 TAATGGTGAA
97636723 AT AT AT AT AT AT 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 AT AT AT AT AT AT
97636765 AT A- AT AT A
1 AT AT AT AT A
97636773 CATTGGCTAG
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 46 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:97636930 original size:23 final size:23
Alignment explanation
Indices: 97636904--97636947 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
97636894 AAATGGTTAA
97636904 ATTATATATATATA-AATATATAT
1 ATTATATATATA-AGAATATATAT
*
97636927 ATTATATTTATAAGAATATAT
1 ATTATATATATAAGAATATAT
97636948 CATTTTTGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 1 0.05
23 18 0.95
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (23 bp):
ATTATATATATAAGAATATATAT
Found at i:97636938 original size:21 final size:21
Alignment explanation
Indices: 97636908--97636947 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
97636898 GGTTAAATTA
97636908 TATATATATAA-ATATATATAT
1 TATATATATAAGA-ATATATAT
*
97636929 TATATTTATAAGAATATAT
1 TATATATATAAGAATATAT
97636948 CATTTTTGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (21 bp):
TATATATATAAGAATATATAT
Found at i:97639562 original size:28 final size:28
Alignment explanation
Indices: 97639522--97639578 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
97639512 TTTCTTCAGG
97639522 ATAAAATCCTGAAATTCAGGATAAGAAT
1 ATAAAATCCTGAAATTCAGGATAAGAAT
*
97639550 ATAAAATCTTGAAATTCAGGATAAGAAT
1 ATAAAATCCTGAAATTCAGGATAAGAAT
97639578 A
1 A
97639579 CTGATATGGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.51, C:0.09, G:0.14, T:0.26
Consensus pattern (28 bp):
ATAAAATCCTGAAATTCAGGATAAGAAT
Found at i:97640033 original size:15 final size:15
Alignment explanation
Indices: 97640010--97640060 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
97640000 GCTAAATATG
*
97640010 TAAATTCAAAGAAAA
1 TAAAATCAAAGAAAA
97640025 TAAAATCAAATG-AAA
1 TAAAATCAAA-GAAAA
* *
97640040 TAAAATTAATTGAAAA
1 TAAAATCAA-AGAAAA
97640056 TAAAA
1 TAAAA
97640061 CCAATCTTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
15 21 0.70
16 9 0.30
ACGTcount: A:0.67, C:0.04, G:0.06, T:0.24
Consensus pattern (15 bp):
TAAAATCAAAGAAAA
Found at i:97641410 original size:19 final size:19
Alignment explanation
Indices: 97641386--97641423 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
97641376 AGGCATTGCC
97641386 TTAATGTGGGATTGATATG
1 TTAATGTGGGATTGATATG
97641405 TTAATGTGGGATTGATATG
1 TTAATGTGGGATTGATATG
97641424 CTTGTATCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (19 bp):
TTAATGTGGGATTGATATG
Found at i:97643492 original size:12 final size:12
Alignment explanation
Indices: 97643471--97643500 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
97643461 AGGTTTCCAA
*
97643471 AAATGGAAATGG
1 AAATGAAAATGG
97643483 AAATGAAAATGG
1 AAATGAAAATGG
97643495 AAATGA
1 AAATGA
97643501 TCCATTTGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.27, T:0.17
Consensus pattern (12 bp):
AAATGAAAATGG
Found at i:97643693 original size:26 final size:26
Alignment explanation
Indices: 97643648--97643717 Score: 104
Period size: 26 Copynumber: 2.7 Consensus size: 26
97643638 TATTTTCTTG
* *
97643648 AAATTTTACAAAGGGCAAAATCATCA
1 AAATTTTACTAAGGGTAAAATCATCA
*
97643674 AAATTTTACTAAGAGTAAAATCATCA
1 AAATTTTACTAAGGGTAAAATCATCA
*
97643700 AAATTTTGCTAAGGGTAA
1 AAATTTTACTAAGGGTAA
97643718 GATATGGATG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.47, C:0.11, G:0.13, T:0.29
Consensus pattern (26 bp):
AAATTTTACTAAGGGTAAAATCATCA
Done.