Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007859.1 Hibiscus syriacus cultivar Beakdansim tig00110221_pilon, 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: 3538007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 18
Found at i:2222659 original size:23 final size:23
Alignment explanation
Indices: 2222582--2222650 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
2222572 CACCACAGCT
* *
2222582 CGTATAAATGCACCGAAGTGCCA
1 CGTAGAAATACACCGAAGTGCCA
* * *
2222605 CGTAGAATTACACCGTAGTGCCG
1 CGTAGAAATACACCGAAGTGCCA
2222628 CGTAGAAATACACCGAAGTGCCA
1 CGTAGAAATACACCGAAGTGCCA
2222651 TATAAAAATG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.33, C:0.26, G:0.23, T:0.17
Consensus pattern (23 bp):
CGTAGAAATACACCGAAGTGCCA
Found at i:2224097 original size:21 final size:21
Alignment explanation
Indices: 2224073--2224117 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
2224063 TTTTGTTCGT
* *
2224073 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
2224094 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
2224115 TTG
1 TTG
2224118 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:2226557 original size:24 final size:24
Alignment explanation
Indices: 2226526--2226571 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
2226516 GTCGAAATTA
*
2226526 CCACGTAGAATTTGCACCGAAGTG
1 CCACGTAGAATATGCACCGAAGTG
2226550 CCACGTAGAATATGCACCGAAG
1 CCACGTAGAATATGCACCGAAG
2226572 CACCACATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.33, C:0.26, G:0.24, T:0.17
Consensus pattern (24 bp):
CCACGTAGAATATGCACCGAAGTG
Found at i:2226577 original size:24 final size:24
Alignment explanation
Indices: 2226525--2226577 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
2226515 AGTCGAAATT
* *
2226525 ACCACGTAGAATTTGCACCGAAGT
1 ACCACGTAGAATATGCACCGAAGC
*
2226549 GCCACGTAGAATATGCACCGAAGC
1 ACCACGTAGAATATGCACCGAAGC
2226573 ACCAC
1 ACCAC
2226578 ATAGTTTTGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.34, C:0.30, G:0.21, T:0.15
Consensus pattern (24 bp):
ACCACGTAGAATATGCACCGAAGC
Found at i:2226616 original size:24 final size:25
Alignment explanation
Indices: 2226566--2226634 Score: 81
Period size: 24 Copynumber: 2.9 Consensus size: 25
2226556 AGAATATGCA
*
2226566 CCGAAGCACCACATAG--TTTTGTC
1 CCGAAGGACCACATAGAATTTTGTC
* *
2226589 CCGAAGGACCCCGTAGAATTTT-TC
1 CCGAAGGACCACATAGAATTTTGTC
*
2226613 CCGAAGGGCCACATAGAATTTT
1 CCGAAGGACCACATAGAATTTT
2226635 CCTAAAGGAC
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
23 13 0.34
24 21 0.55
25 4 0.11
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.25
Consensus pattern (25 bp):
CCGAAGGACCACATAGAATTTTGTC
Found at i:2233470 original size:15 final size:16
Alignment explanation
Indices: 2233451--2233491 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
2233441 TAAATGTCTT
2233451 AAAATTTATAA-AAT-
1 AAAATTTATAACAATC
*
2233465 ATAAATTCATAACAATC
1 A-AAATTTATAACAATC
2233482 AAAATTTATA
1 AAAATTTATA
2233492 TACATACAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 1 0.05
15 9 0.41
16 11 0.50
17 1 0.05
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (16 bp):
AAAATTTATAACAATC
Found at i:2241309 original size:12 final size:12
Alignment explanation
Indices: 2241289--2241319 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
2241279 TAATCCCGGG
*
2241289 TTTGTTTTTTCA
1 TTTGATTTTTCA
2241301 TTTGATTTTTCA
1 TTTGATTTTTCA
2241313 TTTGATT
1 TTTGATT
2241320 ATCAATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.13, C:0.06, G:0.10, T:0.71
Consensus pattern (12 bp):
TTTGATTTTTCA
Found at i:2245101 original size:85 final size:85
Alignment explanation
Indices: 2245006--2245186 Score: 238
Period size: 85 Copynumber: 2.1 Consensus size: 85
2244996 AATGATGTGT
** **
2245006 GCTTCAATGACATGCAATGTAAGTCATAAATGCGTGTCATAAATTTATGACACACAAATGTGTGT
1 GCTTCAATGACATGCAATACAAGTCATAAATGCACGTCATAAATTTATGACACACAAATGTGTGT
*
2245071 CATCT-TCATTTATGTCGGGG
66 CATCTAT-ATTTATGACGGGG
* ** * *
2245091 GCTTCAATGACGTGCAATACGCGTCATAAATGCACGTCATAGATTTATGACACACAATTGTGTGT
1 GCTTCAATGACATGCAATACAAGTCATAAATGCACGTCATAAATTTATGACACACAAATGTGTGT
*
2245156 CATCTGATATTTATGACGGTG
66 CATCT-ATATTTATGACGGGG
2245177 GCTTCAATGA
1 GCTTCAATGA
2245187 TGCGCATTTG
Statistics
Matches: 83, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
85 61 0.73
86 21 0.25
87 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (85 bp):
GCTTCAATGACATGCAATACAAGTCATAAATGCACGTCATAAATTTATGACACACAAATGTGTGT
CATCTATATTTATGACGGGG
Found at i:2246437 original size:19 final size:19
Alignment explanation
Indices: 2246415--2246456 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
2246405 TAGAACCCTT
*
2246415 AAATT-AAAGTAAATATTGA
1 AAATTCAAACTAAA-ATTGA
2246434 AAATTCAAACTAAAATTGA
1 AAATTCAAACTAAAATTGA
2246453 AAAT
1 AAAT
2246457 AAATTCATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.60, C:0.05, G:0.07, T:0.29
Consensus pattern (19 bp):
AAATTCAAACTAAAATTGA
Found at i:2252620 original size:21 final size:21
Alignment explanation
Indices: 2252596--2252642 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
2252586 GATTCCCTTA
2252596 CTTCAAACTCATAAATTATTG
1 CTTCAAACTCATAAATTATTG
2252617 CTTCAAACTCATAAATTATTG
1 CTTCAAACTCATAAATTATTG
2252638 CTTCA
1 CTTCA
2252643 TTTTCCTTAT
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:0.36, C:0.21, G:0.04, T:0.38
Consensus pattern (21 bp):
CTTCAAACTCATAAATTATTG
Found at i:2253939 original size:20 final size:20
Alignment explanation
Indices: 2253914--2253965 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
2253904 CGAAACCATA
2253914 GGTACGAGAAAATCTTTGTT
1 GGTACGAGAAAATCTTTGTT
2253934 GGTACGAGAAAATCTTTGTT
1 GGTACGAGAAAATCTTTGTT
2253954 GGTACGAGAAAA
1 GGTACGAGAAAA
2253966 GTCTATACAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.35, C:0.10, G:0.27, T:0.29
Consensus pattern (20 bp):
GGTACGAGAAAATCTTTGTT
Found at i:2256456 original size:32 final size:32
Alignment explanation
Indices: 2256420--2256481 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
2256410 ATCTCGATTT
* *
2256420 GAAAACCAACCTATCTGATATTGGCCCGACTC
1 GAAAACCAACCGATCCGATATTGGCCCGACTC
*
2256452 GAAAATCAACCGATCCGATATTGGCCCGAC
1 GAAAACCAACCGATCCGATATTGGCCCGAC
2256482 CTGATATTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.32, C:0.31, G:0.18, T:0.19
Consensus pattern (32 bp):
GAAAACCAACCGATCCGATATTGGCCCGACTC
Found at i:2256918 original size:13 final size:13
Alignment explanation
Indices: 2256896--2256929 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
2256886 TTTTCTGCCG
*
2256896 CAAGCCGCAGCCA
1 CAAGCGGCAGCCA
2256909 CAAGCGGCAGCCA
1 CAAGCGGCAGCCA
*
2256922 CAATCGGC
1 CAAGCGGC
2256930 GGAGGCACGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.29, C:0.41, G:0.26, T:0.03
Consensus pattern (13 bp):
CAAGCGGCAGCCA
Found at i:2259589 original size:20 final size:20
Alignment explanation
Indices: 2259564--2259606 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
2259554 TAATAAAAAA
*
2259564 TTATTTAAAATATTATTATT
1 TTATTTAAAATATTAATATT
2259584 TTATTTAAAATATTAATATT
1 TTATTTAAAATATTAATATT
2259604 TTA
1 TTA
2259607 ATATTTCTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
TTATTTAAAATATTAATATT
Found at i:2259956 original size:2 final size:2
Alignment explanation
Indices: 2259949--2260019 Score: 133
Period size: 2 Copynumber: 35.5 Consensus size: 2
2259939 TCAAATGTTA
2259949 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
*
2259991 AT AT AT AT AT AT AT AT AT AT AT AA AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2260020 AAATGATATT
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 67 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2261065 original size:13 final size:13
Alignment explanation
Indices: 2261047--2261076 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2261037 TTAATTGCGA
2261047 AAAATTAAAAATT
1 AAAATTAAAAATT
*
2261060 AAAATTAAAATTT
1 AAAATTAAAAATT
2261073 AAAA
1 AAAA
2261077 CATTCGATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAATTAAAAATT
Found at i:2263342 original size:38 final size:38
Alignment explanation
Indices: 2263300--2263373 Score: 121
Period size: 38 Copynumber: 1.9 Consensus size: 38
2263290 GGGTCTTTGG
*
2263300 GTTTCAAGAGAAACATTTTCAAAGGTTTTTTTGTGTGT
1 GTTTCAAGAGAAACAATTTCAAAGGTTTTTTTGTGTGT
* *
2263338 GTTTCAAGAGAAATAATTTCAAGGGTTTTTTTGTGT
1 GTTTCAAGAGAAACAATTTCAAAGGTTTTTTTGTGT
2263374 TTTAAGAGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.27, C:0.07, G:0.22, T:0.45
Consensus pattern (38 bp):
GTTTCAAGAGAAACAATTTCAAAGGTTTTTTTGTGTGT
Found at i:2263394 original size:34 final size:33
Alignment explanation
Indices: 2263295--2263386 Score: 87
Period size: 37 Copynumber: 2.6 Consensus size: 33
2263285 CTCGAGGGTC
* * *
2263295 TTTGGGTTTCAAGAGAAACATTTTCAAAGGTTTTT
1 TTTGTGTTTTAAGAGAAAC-TTTTC-AAGGGTTTT
2263330 TTGTGTGTGTTTCAAGAGAAA-TAATTTCAAGGGTTTT
1 TT-TGTGT-TTT-AAGAGAAACT--TTTCAAGGGTTTT
2263367 TTTGTGTTTTAAGAGAAACT
1 TTTGTGTTTTAAGAGAAACT
2263387 GTCTCAAGAG
Statistics
Matches: 48, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
34 8 0.17
35 6 0.12
36 10 0.21
37 12 0.25
38 12 0.25
ACGTcount: A:0.28, C:0.07, G:0.22, T:0.43
Consensus pattern (33 bp):
TTTGTGTTTTAAGAGAAACTTTTCAAGGGTTTT
Found at i:2263491 original size:37 final size:36
Alignment explanation
Indices: 2263371--2263880 Score: 736
Period size: 37 Copynumber: 14.0 Consensus size: 36
2263361 GGTTTTTTTG
* * *
2263371 TGTTTTAAGAGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAATTT
* *
2263407 TATTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAATTT
2263443 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAGATTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA-ATTT
*
2263480 TGTTTCAAGGGAAACTGTCTCAAAAGAGACAAGATTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA-ATTT
* *
2263517 TGTTTCAAAGGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAATTT
*
2263553 TGTTTCAAGGGAAACTGTTTCAAGAGAGACAAGATTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA-ATTT
2263590 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAGATTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA-ATTT
2263627 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAGATTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA-ATTT
2263664 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAGATTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA-ATTT
* *
2263701 TGTTTCAAGGGAAATTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAATTT
* *
2263737 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGAC-AAATTT
* * ** *
2263774 GGTTCCAAAAGAAACTGTCTCAAGGGAGACGAAA-TT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGAC-AAATTT
* *
2263810 TGTTTCAAGGGAAACTGTGTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAATTT
* *
2263846 TGTTTCAAGAGAAATTGTCTCAAGAGAGA-AAATTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAATTT
2263881 GTGAGCACAA
Statistics
Matches: 437, Mismatches: 33, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
35 8 0.02
36 182 0.42
37 247 0.57
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.26
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAATTT
Found at i:2263509 original size:73 final size:72
Alignment explanation
Indices: 2263371--2263882 Score: 740
Period size: 73 Copynumber: 7.0 Consensus size: 72
2263361 GGTTTTTTTG
* * *
2263371 TGTTTTAAGAGAAACTGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAACTGTCTCAAGAGAGA
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGA
2263436 CAAAATT
66 CAAAATT
* *
2263443 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAGATTTTGTTTCAAGGGAAACTGTCTCAAAAGAG
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA-AATTTGTTTCAAGGGAAACTGTCTCAAGAGAG
*
2263508 ACAAGATTT
65 ACAA-AATT
* *
2263517 TGTTTCAAAGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTTTCAAGAGAGA
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGA
*
2263582 CAAGATTT
66 CAA-AATT
*
2263590 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAGATTTTGTTTCAAGGGAAACTGTCTCAAGAGAG
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA-AATTTGTTTCAAGGGAAACTGTCTCAAGAGAG
*
2263655 ACAAGATTT
65 ACAA-AATT
* *
2263664 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAGATTTTGTTTCAAGGGAAATTGTCTCAAGAGAG
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA-AATTTGTTTCAAGGGAAACTGTCTCAAGAGAG
2263729 ACAAAATT
65 ACAAAATT
* * * ** *
2263737 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTGGTTCCAAAAGAAACTGTCTCAAGGGAG
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TTTGTTTCAAGGGAAACTGTCTCAAGAGAG
*
2263802 ACGAAATT
65 ACAAAATT
* * *
2263810 TGTTTCAAGGGAAACTGTGTCAAGAGAGACAAAATTTGTTTCAAGAGAAATTGTCTCAAGAGAG-
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGA
2263874 -AAAATT
66 CAAAATT
2263880 TGT
1 TGT
2263883 GAGCACAATT
Statistics
Matches: 404, Mismatches: 32, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
70 8 0.02
72 56 0.14
73 199 0.49
74 141 0.35
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.27
Consensus pattern (72 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGA
CAAAATT
Found at i:2263545 original size:110 final size:109
Alignment explanation
Indices: 2263371--2263882 Score: 757
Period size: 110 Copynumber: 4.7 Consensus size: 109
2263361 GGTTTTTTTG
* * * *
2263371 TGTTTTAAGAGAAACTGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAACTGTCTCAAGAGAGA
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAAGGAAACTGTCTCAAGAGAGA
2263436 CAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAGATTT
66 CAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAGATTT
* *
2263480 TGTTTCAAGGGAAACTGTCTCAAAAGAGACAAGATTTTGTTTCAAAGGAAACTGTCTCAAGAGAG
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA-AATTTGTTTCAAAGGAAACTGTCTCAAGAGAG
*
2263545 ACAAAATTTGTTTCAAGGGAAACTGTTTCAAGAGAGACAAGATTT
65 ACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAGATTT
* *
2263590 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAGATTTTGTTTCAAGGGAAACTGTCTCAAGAGAG
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA-AATTTGTTTCAAAGGAAACTGTCTCAAGAGAG
*
2263655 ACAAGATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAGATTT
65 ACAA-AATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAGATTT
*
2263701 TGTTTCAAGGGAAATTGTCTCAAGAGAGACAAAATTTGTTTC-AAGAGAAACTGTCTCAAGAGAG
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAAG-GAAACTGTCTCAAGAGAG
* * ** *
2263765 ACAAAACTTGGTTCCAAAAGAAACTGTCTCAAGGGAGACGAA-A-TT
65 ACAAAA-TTTGTTTCAAGGGAAACTGTCTCAAGAGAGAC-AAGATTT
* *
2263810 TGTTTCAAGGGAAACTGTGTCAAGAGAGACAAAATTTGTTTC-AAGAGAAATTGTCTCAAGAGAG
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAAG-GAAACTGTCTCAAGAGAG
2263874 --AAAATTTGT
65 ACAAAATTTGT
2263883 GAGCACAATT
Statistics
Matches: 374, Mismatches: 24, Indels: 13
0.91 0.06 0.03
Matches are distributed among these distances:
106 4 0.01
107 4 0.01
109 95 0.25
110 199 0.53
111 72 0.19
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.27
Consensus pattern (109 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAAGGAAACTGTCTCAAGAGAGA
CAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAGATTT
Found at i:2265141 original size:32 final size:31
Alignment explanation
Indices: 2265069--2265142 Score: 87
Period size: 32 Copynumber: 2.4 Consensus size: 31
2265059 ATTGAATTCC
*
2265069 CAAAGATG-CCCAATATTTGATGTTAAATCT
1 CAAAGATGCCCCAACATTTGATGTTAAATCT
* * *
2265099 CAAAAAATGCCCCAGCATTTGATGTTGAATCTT
1 C-AAAGATGCCCCAACATTTGATGTTAAATC-T
2265132 CAAAGATGCCC
1 CAAAGATGCCC
2265143 TCATTGTTCC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
30 1 0.03
31 6 0.17
32 27 0.75
33 2 0.06
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (31 bp):
CAAAGATGCCCCAACATTTGATGTTAAATCT
Found at i:2266286 original size:12 final size:12
Alignment explanation
Indices: 2266203--2266278 Score: 76
Period size: 11 Copynumber: 6.9 Consensus size: 12
2266193 TCTTGTCTTC
2266203 TTTTT-TCTTTG
1 TTTTTCTCTTTG
2266214 TTTTTC-CTTTG
1 TTTTTCTCTTTG
* *
2266225 TTTTTGTTTTTG
1 TTTTTCTCTTTG
2266237 -TTTT-T-TTT-
1 TTTTTCTCTTTG
*
2266245 ATTTTCTCTTTG
1 TTTTTCTCTTTG
2266257 TTTTT-TCTTTG
1 TTTTTCTCTTTG
2266268 TTTTTCTCTTT
1 TTTTTCTCTTT
2266279 TTTATTCTGA
Statistics
Matches: 55, Mismatches: 3, Indels: 13
0.77 0.04 0.18
Matches are distributed among these distances:
9 7 0.13
10 2 0.04
11 33 0.60
12 13 0.24
ACGTcount: A:0.01, C:0.11, G:0.08, T:0.80
Consensus pattern (12 bp):
TTTTTCTCTTTG
Found at i:2269250 original size:13 final size:13
Alignment explanation
Indices: 2269232--2269261 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2269222 TTAATTGTGA
2269232 AAAATTAAAAATT
1 AAAATTAAAAATT
*
2269245 AAAATTAAAATTT
1 AAAATTAAAAATT
2269258 AAAA
1 AAAA
2269262 CATTCGATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAATTAAAAATT
Found at i:2269400 original size:17 final size:18
Alignment explanation
Indices: 2269374--2269407 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
2269364 AAGTCGAGAA
2269374 AAAAAGAAAATTCAAATT
1 AAAAAGAAAATTCAAATT
*
2269392 AAAAA-AAAATTGAAAT
1 AAAAAGAAAATTCAAAT
2269408 GATTAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.71, C:0.03, G:0.06, T:0.21
Consensus pattern (18 bp):
AAAAAGAAAATTCAAATT
Found at i:2285271 original size:183 final size:182
Alignment explanation
Indices: 2284959--2285536 Score: 870
Period size: 185 Copynumber: 3.2 Consensus size: 182
2284949 TGTCAGTTTA
* *** * *
2284959 TGTCAATACTTTATAAAAATGTATCGATCCATGTCAATATAACAGGTAAAAATATGATAAAACCA
1 TGTCGATACTTTATAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCA
* * * * * *
2285024 GTCTCGAAAAGACAAAACCGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTAATATA
66 GTCTCTAAAGGACAAAATCGGTATAGAGCGACCGGATATATTGAAAGTGTCGATACTTTAATATA
* *
2285089 AGTATCGACACTTTGTGAATTTAAAAGAAAAGCCGTTTTAGCACCTATAAAG
131 AGTATCGACACTTTGTGAATTTAAAAGAAAAGCAGTTTTAGCGCCTATAAAG
*
2285141 TGTCGATACTTTATAATAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAAACC
1 TGTCGATACTTTATAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGAC-AAAACC
* **
2285206 AGTCTCTAAAGGACAAAATCGATATAGAGCGACCATATATATTGAAAGTGTCGATACTTTAATAT
65 AGTCTCTAAAGGACAAAATCGGTATAGAGCGACCGGATATATTGAAAGTGTCGATACTTTAATAT
2285271 AAGTATCGACACTTTGTGAATTTAAAAGAGAAA-CAGTTTTATTAGCGCCTATAAAG
130 AAGTATCGACACTTTGTGAATTTAAAAGA-AAAGCAG--TT-TTAGCGCCTATAAAG
* * *
2285327 TGTCGATACTTTATAACAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAATCG
1 TGTCGATACTTTATAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCA
* *
2285392 GTCTTTAAAGGACAAAATCGGTATAGAGCGACCGGATATATTAAAAGTGTCGATACTTTAATATA
66 GTCTCTAAAGGACAAAATCGGTATAGAGCGACCGGATATATTGAAAGTGTCGATACTTTAATATA
* * *
2285457 AGTATCGACACTTTGTGAATTTAAAAGAGAAGTATTTTTAGCGCCTATAAAG
131 AGTATCGACACTTTGTGAATTTAAAAGAAAAGCAGTTTTAGCGCCTATAAAG
2285509 TGTCGATACTTTATAAAAATGTATCGAT
1 TGTCGATACTTTATAAAAATGTATCGAT
2285537 AAAAATATGA
Statistics
Matches: 360, Mismatches: 30, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
182 93 0.26
183 95 0.26
184 5 0.01
185 96 0.27
186 71 0.20
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.29
Consensus pattern (182 bp):
TGTCGATACTTTATAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCA
GTCTCTAAAGGACAAAATCGGTATAGAGCGACCGGATATATTGAAAGTGTCGATACTTTAATATA
AGTATCGACACTTTGTGAATTTAAAAGAAAAGCAGTTTTAGCGCCTATAAAG
Found at i:2285470 original size:185 final size:184
Alignment explanation
Indices: 2284959--2285536 Score: 871
Period size: 183 Copynumber: 3.2 Consensus size: 184
2284949 TGTCAGTTTA
* *** * *
2284959 TGTCAATACTTTATAAAAATGTATCGATCCATGTCAATATAACAGGTAAAAATATGATAAAACCA
1 TGTCGATACTTTATAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCA
* * * * * *
2285024 GTCTCGAAAAGACAAAACCGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTAATATA
66 GTCTCTAAAGGACAAAATCGGTATAGAGCGACCGGATATATTGAAAGTGTCGATACTTTAATATA
* *
2285089 AGTATCGACACTTTGTGAATTTAAAAGA-AAAGCCG--TTTTAGCACCTATAAAG
131 AGTATCGACACTTTGTGAATTTAAAAGAGAAA-CAGTTTTTTAGCGCCTATAAAG
*
2285141 TGTCGATACTTTATAATAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAAACC
1 TGTCGATACTTTATAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGAC-AAAACC
* **
2285206 AGTCTCTAAAGGACAAAATCGATATAGAGCGACCATATATATTGAAAGTGTCGATACTTTAATAT
65 AGTCTCTAAAGGACAAAATCGGTATAGAGCGACCGGATATATTGAAAGTGTCGATACTTTAATAT
2285271 AAGTATCGACACTTTGTGAATTTAAAAGAGAAACAGTTTTATTAGCGCCTATAAAG
130 AAGTATCGACACTTTGTGAATTTAAAAGAGAAACAGTTTT-TTAGCGCCTATAAAG
* * *
2285327 TGTCGATACTTTATAACAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAATCG
1 TGTCGATACTTTATAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCA
* *
2285392 GTCTTTAAAGGACAAAATCGGTATAGAGCGACCGGATATATTAAAAGTGTCGATACTTTAATATA
66 GTCTCTAAAGGACAAAATCGGTATAGAGCGACCGGATATATTGAAAGTGTCGATACTTTAATATA
2285457 AGTATCGACACTTTGTGAATTTAAAAGAG--A-AGTATTTTTAGCGCCTATAAAG
131 AGTATCGACACTTTGTGAATTTAAAAGAGAAACAGT-TTTTTAGCGCCTATAAAG
2285509 TGTCGATACTTTATAAAAATGTATCGAT
1 TGTCGATACTTTATAAAAATGTATCGAT
2285537 AAAAATATGA
Statistics
Matches: 363, Mismatches: 27, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
182 96 0.26
183 97 0.27
184 3 0.01
185 96 0.26
186 71 0.20
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.29
Consensus pattern (184 bp):
TGTCGATACTTTATAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCA
GTCTCTAAAGGACAAAATCGGTATAGAGCGACCGGATATATTGAAAGTGTCGATACTTTAATATA
AGTATCGACACTTTGTGAATTTAAAAGAGAAACAGTTTTTTAGCGCCTATAAAG
Found at i:2288012 original size:21 final size:21
Alignment explanation
Indices: 2287988--2288031 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
2287978 AAGACAATCA
*
2287988 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTAAG
*
2288009 AGAGTCGAAGAGACACTTAAG
1 AGAGTCGAAGAGAAACTTAAG
2288030 AG
1 AG
2288032 GCATAAGGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.11, G:0.32, T:0.14
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTAAG
Found at i:2288099 original size:33 final size:33
Alignment explanation
Indices: 2288062--2288131 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 33
2288052 GAAAAATAGA
2288062 TGAAGTGGTGAAAGAAGTTGAGGTGTTGAGCGG
1 TGAAGTGGTGAAAGAAGTTGAGGTGTTGAGCGG
*
2288095 TGAAGTGGTGAAAGAAGTTGAGGTGTTGAGGGG
1 TGAAGTGGTGAAAGAAGTTGAGGTGTTGAGCGG
2288128 TGAA
1 TGAA
2288132 CTTAAGATGG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.29, C:0.01, G:0.46, T:0.24
Consensus pattern (33 bp):
TGAAGTGGTGAAAGAAGTTGAGGTGTTGAGCGG
Found at i:2288338 original size:18 final size:18
Alignment explanation
Indices: 2288315--2288353 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
2288305 GAAAAAATAT
2288315 GAAGAAAAAAAGATGGAG
1 GAAGAAAAAAAGATGGAG
*
2288333 GAAGAAGAAAAGATGGAG
1 GAAGAAAAAAAGATGGAG
2288351 GAA
1 GAA
2288354 ATGAGGAGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.36, T:0.05
Consensus pattern (18 bp):
GAAGAAAAAAAGATGGAG
Found at i:2289933 original size:19 final size:19
Alignment explanation
Indices: 2289909--2289957 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
2289899 AATGTAGGGT
2289909 TAATTTTGTATAAAATTTA
1 TAATTTTGTATAAAATTTA
**
2289928 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAAATTTA
2289947 TAATTTTGTAT
1 TAATTTTGTAT
2289958 GTGAATGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAAATTTA
Found at i:2290843 original size:200 final size:200
Alignment explanation
Indices: 2290306--2291864 Score: 2094
Period size: 200 Copynumber: 7.8 Consensus size: 200
2290296 GGTAAGCAGA
* * *
2290306 TGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAATCCATAATTATAATGTAATAG
1 TGTCGATACATTTTTAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAG
* * *
2290371 GTAATTTTGT-AATATAACCGGTATAAATATACCGGTTTTATGTGAAAATAGGTCTACATAATGT
66 GTAATTTT-TCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGT
* * * * * *
2290435 ATCGACACTTTTGAAATTGGTGTCGATACGTTTTGTCCAGAATGAATGCCCAAAATGGTGAACAC
130 ATCGACACTTGTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGTGCACCC
2290500 ATAAAG
195 ATAAAG
* * * *
2290506 TGTCGATACA-TTTAAAAAAGTATCGATCCCAGAAACATCAAAACCCATAATTATAATGTAATAG
1 TGTCGATACATTTTTAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAG
* ** * *
2290570 GTAAATTTAAAATGTAACCGGTATAACTATACCAGTTTTATGAGAGAATAGGTCTACATAATGTA
66 GTAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGTA
* * *
2290635 TCGACACTTCTGGAATTTGTGTCGATA-TTGTTTGTCCAGAAGGAATGCCCAAAAGGGTGCACCC
131 TCGACACTTGTGAAATTTGTGTCGATACTT-TTTGTCCAGAATGAATGCCCAAAAGGGTGCACCC
2290699 ATAAAG
195 ATAAAG
* * * * *
2290705 TGTTGATACATTTTTTAAAAGTGTCGATCCCAGAGACATCGAAACCTATAATTATAATGTAATAG
1 TGTCGATACATTTTTAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAG
* * * **
2290770 GTAATTTTTTAATGTAACTGATATAAATATACCGGTTTTATGTCAGAATAGGTCTACATAATGTA
66 GTAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGTA
* * * * * *
2290835 TAGACACTTTTGAAATTGGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACTCA
131 TCGACACTTGTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGTGCACCCA
*
2290900 TAAAA
196 TAAAG
*
2290905 TGTCGATACATTTTTAAAAAGTGTCGATCCCAAAGACATCGAAACCCATAATTATAATGTAATAG
1 TGTCGATACATTTTTAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAG
* *
2290970 GTAATTTTGT-AATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTATATAATGT
66 GTAATTTT-TCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGT
* * * * *
2291034 ATCGACACTTTTTAATTTTGTGTCGATA-TATTTTGTCTAGAATGAATGCCCAAAAAAATGGTGC
130 ATCGACACTTGTGAAATTTGTGTCGATACT-TTTTGTCCAGAATGAATGCCC---AAAAGGGTGC
*
2291098 ACACATAAAG
191 ACCCATAAAG
* * * * *
2291108 TGTCGATACATTTATAAAAAGTATTGATCCCATAAACATCGAAACCCATGATTATAATGTAATAG
1 TGTCGATACATTTTTAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAG
* * *
2291173 GTAATTTTTCAATGTAACCGGTATAAATATACTGGTTTTAT-ACGAGAATAGGTCTAGAAAATGT
66 GTAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGA-GAGAATAGGTCTACATAATGT
* * *
2291237 ATCGACACTTGTGTATTTTGTGTTGATACTTTTTGTCCAGAATGAATGCCCAAAAAGGGTGCACC
130 ATCGACACTTGTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCC-AAAAGGGTGCACC
2291302 CATAAAG
194 CATAAAG
* **
2291309 TGTCGATACATTTTTAAAAAGTGTCGATCCCAAAAATATCGAAACAAATAATTATAATGTAATAG
1 TGTCGATACATTTTTAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAG
* * * * *
2291374 GTAA-ATTTCAATGTAAGCGGTATAAATATACTGGTTTTATGAGAGAATAGGTCTAAAAAATGTA
66 GTAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGTA
* * *
2291438 TCGACACTTGTGGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGTCCAAAAGGGTTCACCCA
131 TCGACACTTGTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGTGCACCCA
2291503 TAAAG
196 TAAAG
* ** *
2291508 TGTCGATACATTTTTAAAAAGTGTCGATCCCAAAAACATCAAAACAGATAAATATAATGTAATAG
1 TGTCGATACATTTTTAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAG
* * * *
2291573 GTAA-ATTTCAATGTAACCGGTATAAATATACCAGTTTTATGAGAGAATATGTCTACAAAATGTA
66 GTAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGTA
* * * *
2291637 TCGACACTTCTG-GATTTCGTGTCGATACTTTTTGTCCATAAGGAATGCCCAAAAGGGTGCACCC
131 TCGACACTTGTGAAATTT-GTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGTGCACCC
2291701 ATAAAG
195 ATAAAG
* * * *
2291707 TGTCGATACATTTTAAAAAAGTTTCAATCCCAAAAACATCGAAACCGATAATTATAATGTAATAG
1 TGTCGATACATTTTTAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAG
* * * * *
2291772 GTAAATTTCCAATGTAACCGGTATAAATATACCAGTTTTATGAGAAAATAGGTC-AGCATAAAGT
66 GTAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTA-CATAATGT
* *
2291836 ATCGACAATTGTTAAATTTGTGTCGATAC
130 ATCGACACTTGTGAAATTTGTGTCGATAC
2291865 CATTTTAAAA
Statistics
Matches: 1217, Mismatches: 125, Indels: 34
0.88 0.09 0.02
Matches are distributed among these distances:
198 5 0.00
199 438 0.36
200 507 0.42
201 88 0.07
202 1 0.00
203 177 0.15
204 1 0.00
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (200 bp):
TGTCGATACATTTTTAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAG
GTAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGTA
TCGACACTTGTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGTGCACCCA
TAAAG
Found at i:2291858 original size:802 final size:802
Alignment explanation
Indices: 2290306--2291863 Score: 2298
Period size: 802 Copynumber: 1.9 Consensus size: 802
2290296 GGTAAGCAGA
*
2290306 TGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAATCCATAATTATAATGTAATAG
1 TGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAG
** *
2290371 GTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTGAAAATAGGTCTACATAATGTA
66 GTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATACGAAAATAGGTCTACAAAATGTA
* *
2290436 TCGACACTTTTGAAATTGGTGTCGATACGTTTTGTCCAGAATGAATGCCCAAAATGGTGAACACA
131 TCGACACTTGTGAAATTGGTGTCGATACGTTTTGTCCAGAATGAATGCCCAAAAGGGTGAACACA
* **
2290501 TAAAGTGTCGATACATTTAAAAAAGTATCGATCCCAGAAACATCAAAACCCATAATTATAATGTA
196 TAAAGTGTCGATACATTTAAAAAAGTATCGATCCCAAAAACATCAAAACAAATAATTATAATGTA
* * *
2290566 ATAGGTAAATTTAAAATGTAACCGGTATAACTATACCAGTTTTATGAGAGAATAGGTCTACATAA
261 ATAGGTAAATTTAAAATGTAACCGGTATAAATATACCAGTTTTATGAGAGAATAGGTCTAAAAAA
2290631 TGTATCGACACTTCTGGAATTTGTGTCGATATTGTTTGTCCAGAAGGAATGCCCAAAAGGGTGCA
326 TGTATCGACACTTCTGGAATTTGTGTCGATATTGTTTGTCCAGAAGGAATGCCCAAAAGGGTGCA
* * * * * ** *
2290696 CCCATAAAGTGTTGATACATTTTTTAAAAGTGTCGATCCCAGAGACATCGAAACCTATAATTATA
391 CCCATAAAGTGTCGATACATTTTTAAAAAGTGTCGATCCCAAAAACATCAAAACAGATAAATATA
* * * * *
2290761 ATGTAATAGGTAATTTTTTAATGTAACTGATATAAATATACCGGTTTTATGTCAGAATAGGTCTA
456 ATGTAATAGGTAATATTTCAATGTAACCGATATAAATATACCAGTTTTATGACAGAATAGGTCTA
* * * * *
2290826 CATAATGTATAGACACTTTTGAAATTGGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATG
521 CAAAATGTATAGACACTTCTGAAATTCGTGTCGATACTTTTTGTCCAGAAGGAATGCCCAAAAGG
* * * *
2290891 GTGAACTCATAAAATGTCGATACATTTTTAAAAAGTGTCGATCCCAAAGACATCGAAACCCATAA
586 GTGAACCCATAAAATGTCGATACATTTTAAAAAAGTGTCAATCCCAAAAACATCGAAACCCATAA
* ** * * *
2290956 TTATAATGTAATAGGTAATTTTGTAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATAG
651 TTATAATGTAATAGGTAAATTTCCAATGTAACCGGTATAAATATACCAGTTTTATGAGAAAATAG
* * * * *
2291021 GTCTATATAATGTATCGACACTTTTTAATTTTGTGTCGATATATTTTGTCTAGAATGAATGCCCA
716 GTCTACATAAAGTATCGACAATTGTTAAATTTGTGTCGATATATTTTGTCTAGAATGAATGCCCA
2291086 AAAAAATGGTGCACACATAAAG
781 AAAAAATGGTGCACACATAAAG
* * *
2291108 TGTCGATACATTTATAAAAAGTATTGATCCCATAAACATCGAAACCCATGATTATAATGTAATAG
1 TGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAG
* * * *
2291173 GTAATTTT-TCAATGTAACCGGTATAAATATACTGGTTTTATACGAGAATAGGTCTAGAAAATGT
66 GTAATTTTGT-AATATAACCGGTATAAATATACCGGTTTTATACGAAAATAGGTCTACAAAATGT
* * * * * * *
2291237 ATCGACACTTGTGTATTTTGTGTTGATACTTTTTGTCCAGAATGAATGCCCAAAAAGGGTGCACC
130 ATCGACACTTGTGAAATTGGTGTCGATACGTTTTGTCCAGAATGAATGCCC-AAAAGGGTGAACA
* * * *
2291302 CATAAAGTGTCGATACATTTTTAAAAAGTGTCGATCCCAAAAATATCGAAACAAATAATTATAAT
194 CATAAAGTGTCGATACA-TTTAAAAAAGTATCGATCCCAAAAACATCAAAACAAATAATTATAAT
* * **
2291367 GTAATAGGTAAATTT-CAATGTAAGCGGTATAAATATACTGGTTTTATGAGAGAATAGGTCTAAA
258 GTAATAGGTAAATTTAAAATGTAACCGGTATAAATATACCAGTTTTATGAGAGAATAGGTCTAAA
* * *
2291431 AAATGTATCGACACTTGTGGAATTTGTGTCGATACTT-TTTGTCCAGAATGAATGTCCAAAAGGG
323 AAATGTATCGACACTTCTGGAATTTGTGTCGATA-TTGTTTGTCCAGAAGGAATGCCCAAAAGGG
*
2291495 TTCACCCATAAAGTGTCGATACATTTTTAAAAAGTGTCGATCCCAAAAACATCAAAACAGATAAA
387 TGCACCCATAAAGTGTCGATACATTTTTAAAAAGTGTCGATCCCAAAAACATCAAAACAGATAAA
* * *
2291560 TATAATGTAATAGGTAA-ATTTCAATGTAACCGGTATAAATATACCAGTTTTATGAGAGAATATG
452 TATAATGTAATAGGTAATATTTCAATGTAACCGATATAAATATACCAGTTTTATGACAGAATAGG
* * * *
2291624 TCTACAAAATGTATCGACACTTCTGGATTTCGTGTCGATACTTTTTGTCCATAAGGAATGCCCAA
517 TCTACAAAATGTATAGACACTTCTGAAATTCGTGTCGATACTTTTTGTCCAGAAGGAATGCCCAA
* * * *
2291689 AAGGGTGCACCCATAAAGTGTCGATACATTTTAAAAAAGTTTCAATCCCAAAAACATCGAAACCG
582 AAGGGTGAACCCATAAAATGTCGATACATTTTAAAAAAGTGTCAATCCCAAAAACATCGAAACCC
2291754 ATAATTATAATGTAATAGGTAAATTTCCAATGTAACCGGTATAAATATACCAGTTTTATGAGAAA
647 ATAATTATAATGTAATAGGTAAATTTCCAATGTAACCGGTATAAATATACCAGTTTTATGAGAAA
2291819 ATAGGTC-AGCATAAAGTATCGACAATTGTTAAATTTGTGTCGATA
712 ATAGGTCTA-CATAAAGTATCGACAATTGTTAAATTTGTGTCGATA
2291864 CCATTTTAAA
Statistics
Matches: 669, Mismatches: 82, Indels: 10
0.88 0.11 0.01
Matches are distributed among these distances:
801 2 0.00
802 410 0.61
803 200 0.30
804 57 0.09
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (802 bp):
TGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAG
GTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATACGAAAATAGGTCTACAAAATGTA
TCGACACTTGTGAAATTGGTGTCGATACGTTTTGTCCAGAATGAATGCCCAAAAGGGTGAACACA
TAAAGTGTCGATACATTTAAAAAAGTATCGATCCCAAAAACATCAAAACAAATAATTATAATGTA
ATAGGTAAATTTAAAATGTAACCGGTATAAATATACCAGTTTTATGAGAGAATAGGTCTAAAAAA
TGTATCGACACTTCTGGAATTTGTGTCGATATTGTTTGTCCAGAAGGAATGCCCAAAAGGGTGCA
CCCATAAAGTGTCGATACATTTTTAAAAAGTGTCGATCCCAAAAACATCAAAACAGATAAATATA
ATGTAATAGGTAATATTTCAATGTAACCGATATAAATATACCAGTTTTATGACAGAATAGGTCTA
CAAAATGTATAGACACTTCTGAAATTCGTGTCGATACTTTTTGTCCAGAAGGAATGCCCAAAAGG
GTGAACCCATAAAATGTCGATACATTTTAAAAAAGTGTCAATCCCAAAAACATCGAAACCCATAA
TTATAATGTAATAGGTAAATTTCCAATGTAACCGGTATAAATATACCAGTTTTATGAGAAAATAG
GTCTACATAAAGTATCGACAATTGTTAAATTTGTGTCGATATATTTTGTCTAGAATGAATGCCCA
AAAAAATGGTGCACACATAAAG
Found at i:2292717 original size:35 final size:36
Alignment explanation
Indices: 2292662--2292732 Score: 126
Period size: 35 Copynumber: 2.0 Consensus size: 36
2292652 CTTGGTATAT
*
2292662 CCGACCTACTAGGGGGAAAACATTCAACGCTTCGAG
1 CCGACCTACTAGGGGGAAAACATTCAACGCTCCGAG
2292698 CCGACCTACT-GGGGGAAAACATTCAACGCTCCGAG
1 CCGACCTACTAGGGGGAAAACATTCAACGCTCCGAG
2292733 ACAGCGATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 24 0.71
36 10 0.29
ACGTcount: A:0.30, C:0.30, G:0.25, T:0.15
Consensus pattern (36 bp):
CCGACCTACTAGGGGGAAAACATTCAACGCTCCGAG
Found at i:2294745 original size:24 final size:24
Alignment explanation
Indices: 2294687--2294739 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
2294677 TTTCATATGT
* * *
2294687 AATTGGAGTTTGAATTTAAATTTA
1 AATTTGAGTTTAAATTTAAATATA
*
2294711 AATTTGAGTTTAAATTTCAATATA
1 AATTTGAGTTTAAATTTAAATATA
2294735 AATTT
1 AATTT
2294740 CGGTTTCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.40, C:0.02, G:0.11, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTAAATTTAAATATA
Found at i:2295477 original size:200 final size:200
Alignment explanation
Indices: 2294967--2295935 Score: 1209
Period size: 200 Copynumber: 4.8 Consensus size: 200
2294957 TAAAGTTTCT
* * *
2294967 CATAAAGTGTCGATATTTTTTTAAAAAGTATCGATCCAAAAAACATCGAAACCAAAAATTATAAT
1 CATAAAGTGTCGATATATTTTTAAAAAGTATCGATTCAAAAAACATCGAAACCGAAAATTATAAT
* * * * * * * *
2295032 GTAATAGGTAAATTTACAATATGATCGGTATAAATATACCGATTTTATGAGCAAATAGGTCAGCA
66 GTAATAGGTAAATTTACAATGTAACCGGTATAAATATACTGGTTTTATGAGAAAATAGGTGAACA
* * * * * *** * * *
2295097 TAAAGTATCGACACCTTTTAAATTTATGTCGATACTTTTTGTC--CGATCCTTTGCTCAACGAGC
131 TAATGTATCGACACTTTTTAAATTTGTGTCGATACATTTTGTCTACAAT-GAATGCTAAACGGGG
* *
2295160 TTCATG
195 TGCACG
* * * * * *
2295166 CATAAAAGTGTCGACACA--TTTAAAATTGTATTGATCCAAAAAACATCGAAACCAAAAATTATA
1 CAT-AAAGTGTCGATATATTTTTAAAA-AGTATCGATTCAAAAAACATCGAAACCGAAAATTATA
* *
2295229 ATGTAATAGGTAAATTTACAATGTAAACGGTATAAATATACCGGTTTTATGAGAAAATAGGT-AT
64 ATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACTGGTTTTATGAGAAAATAGGTGA-
* **
2295293 ACATAATATATCGACACAGTTTAAATTTGTGTCGATACATTTTGTCTACAATGAATGCTAAACGG
128 ACATAATGTATCGACACTTTTTAAATTTGTGTCGATACATTTTGTCTACAATGAATGCTAAACGG
2295358 GGTGCACG
193 GGTGCACG
*
2295366 CATAAAGTGTCGATATATTTTTAAAAAGTATCGATATC-AAAAACATCGAAACCGATAATTATAA
1 CATAAAGTGTCGATATATTTTTAAAAAGTATCGAT-TCAAAAAACATCGAAACCGAAAATTATAA
* *
2295430 TGTAATAGGTAAATTTACAATGTAACCGGTATAAGTATATTGGTTTTATGAGAAAATAGGTGAAC
65 TGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACTGGTTTTATGAGAAAATAGGTGAAC
* * * *
2295495 ATAATGTATCGATACTTTTTAGATTTGTGTCGATACATTTTGTCTAGAATGAAT-ATAAAACGGG
130 ATAATGTATCGACACTTTTTAAATTTGTGTCGATACATTTTGTCTACAATGAATGCT-AAACGGG
* *
2295559 GTTCACA
194 GTGCACG
* * *
2295566 CATAAAGTGTCGATACATTTTTTTAAAAGTATCGATCTC-AAAAACATCGAAACCGATAATTATA
1 CATAAAGTGTCGATATA-TTTTTAAAAAGTATCGAT-TCAAAAAACATCGAAACCGAAAATTATA
* * *
2295630 ATGTAATAGGTGAATTTACAATGTAACCGGTATAAGTATACTAGTTTTATGAGAAAATAGGTGAA
64 ATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACTGGTTTTATGAGAAAATAGGTGAA
* * * *
2295695 CATAATGTATCGACACTTTTTATATTTGTGTCGATACATTTTGTCCAGAATGAATGCAAAACGGG
129 CATAATGTATCGACACTTTTTAAATTTGTGTCGATACATTTTGTCTACAATGAATGCTAAACGGG
*
2295760 GTGTACG
194 GTGCACG
* * * * *
2295767 CATAAAGTGTCGATATATTTATAAAAAGTATCAATCCAAAAAACATCAAAACTGAAAATTATAAT
1 CATAAAGTGTCGATATATTTTTAAAAAGTATCGATTCAAAAAACATCGAAACCGAAAATTATAAT
* * *
2295832 GTAATAGGTAAATTTACAATGTAACCGGTATAAATATAGTGGTTTTATGATAAAATAGGTTAACA
66 GTAATAGGTAAATTTACAATGTAACCGGTATAAATATACTGGTTTTATGAGAAAATAGGTGAACA
* * *
2295897 TAATGTATCAACAC-TTTTAAATTTGTGTTGATACGTTTT
131 TAATGTATCGACACTTTTTAAATTTGTGTCGATACATTTT
2295936 TAAATTACAT
Statistics
Matches: 679, Mismatches: 78, Indels: 26
0.87 0.10 0.03
Matches are distributed among these distances:
198 8 0.01
199 170 0.25
200 304 0.45
201 197 0.29
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (200 bp):
CATAAAGTGTCGATATATTTTTAAAAAGTATCGATTCAAAAAACATCGAAACCGAAAATTATAAT
GTAATAGGTAAATTTACAATGTAACCGGTATAAATATACTGGTTTTATGAGAAAATAGGTGAACA
TAATGTATCGACACTTTTTAAATTTGTGTCGATACATTTTGTCTACAATGAATGCTAAACGGGGT
GCACG
Found at i:2295759 original size:401 final size:397
Alignment explanation
Indices: 2294967--2295935 Score: 1254
Period size: 401 Copynumber: 2.4 Consensus size: 397
2294957 TAAAGTTTCT
* * *
2294967 CATAAAGTGTCGATATTTTTTTAAAAAGTATCGAT-CCAAAAAACATCGAAACCAAAAATTATAA
1 CATAAAGTGTCGATATATTTTTAAAAAGTATCGATATCAAAAAACATCGAAACCGAAAATTATAA
* * * * * * *
2295031 TGTAATAGGTAAATTTACAATATGATCGGTATAAATATACCGATTTTATGAGCAAATAGGTCAGC
66 TGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACTGGTTTTATGAGAAAATAGGTCAAC
* * * * ** * **
2295096 ATAAAGTATCGACACCTTTTAAATTTATGTCGATACTTTTTGTCCGATCCTTTGCTCAACGAGCT
131 ATAATGTATCGACA-CTTTTAAATTTGTGTCGATACATTTTGTCAGATAATAT-CAAAACGAGCT
** *
2295161 TCATGCATAAAAGTGTCGACACATTTAAAATTGTATTGATCCAAAAAACATCGAAACCAAAAATT
194 TCACACATAAAAGTGTCGACACATTTAAAA-TGTATCGATCCAAAAAACATCGAAACCAAAAATT
*
2295226 ATAATGTAATAGGTAAATTTACAATGTAAACGGTATAAATATACCGGTTTTATGAGAAAATAGGT
258 ATAATGTAATAGGTAAATTTACAATGTAAACGGTATAAATATACCAGTTTTATGAGAAAATAGGT
* *
2295291 ATACATAATATATCGACACAGTTTAAATTTGTGTCGATACATTTTGTCTACAATGAATGCTAAAC
323 ATACATAATATATCGACACAGTTTAAATTTGTGTCGATACATTTTGTCCACAATGAATGCAAAAC
2295356 GGGGTGCACG
388 GGGGTGCACG
*
2295366 CATAAAGTGTCGATATATTTTTAAAAAGTATCGATATC-AAAAACATCGAAACCGATAATTATAA
1 CATAAAGTGTCGATATATTTTTAAAAAGTATCGATATCAAAAAACATCGAAACCGAAAATTATAA
* * *
2295430 TGTAATAGGTAAATTTACAATGTAACCGGTATAAGTATATTGGTTTTATGAGAAAATAGGTGAAC
66 TGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACTGGTTTTATGAGAAAATAGGTCAAC
* * *
2295495 ATAATGTATCGATACTTTTTAGATTTGTGTCGATACATTTTGTCTAGAATGAATAT-AAAACGGG
131 ATAATGTATCGACAC-TTTTAAATTTGTGTCGATACATTTTGTC-AG-AT-AATATCAAAACGAG
* * *
2295559 GTTCACACAT-AAAGTGTCGATACATTTTTTTAAAA-GTATCGATCTC-AAAAACATCGAAACCG
192 CTTCACACATAAAAGTGTCGACACA----TTTAAAATGTATCGATC-CAAAAAACATCGAAACCA
* * * * *
2295621 ATAATTATAATGTAATAGGTGAATTTACAATGTAACCGGTATAAGTATACTAGTTTTATGAGAAA
252 AAAATTATAATGTAATAGGTAAATTTACAATGTAAACGGTATAAATATACCAGTTTTATGAGAAA
* ** * *
2295686 ATAGGTGA-ACATAATGTATCGACACTTTTTATATTTGTGTCGATACATTTTGTCCAGAATGAAT
317 ATAGGT-ATACATAATATATCGACACAGTTTAAATTTGTGTCGATACATTTTGTCCACAATGAAT
*
2295750 GCAAAACGGGGTGTACG
381 GCAAAACGGGGTGCACG
* * *
2295767 CATAAAGTGTCGATATATTTATAAAAAGTATC-A-ATCCAAAAAACATCAAAACTGAAAATTATA
1 CATAAAGTGTCGATATATTTTTAAAAAGTATCGATAT-CAAAAAACATCGAAACCGAAAATTATA
* * *
2295830 ATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATAGTGGTTTTATGATAAAATAGGTTAA
65 ATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACTGGTTTTATGAGAAAATAGGTCAA
* * *
2295895 CATAATGTATCAACACTTTTAAATTTGTGTTGATACGTTTT
130 CATAATGTATCGACACTTTTAAATTTGTGTCGATACATTTT
2295936 TAAATTACAT
Statistics
Matches: 498, Mismatches: 59, Indels: 25
0.86 0.10 0.04
Matches are distributed among these distances:
398 1 0.00
399 165 0.33
400 38 0.08
401 283 0.57
402 4 0.01
403 7 0.01
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (397 bp):
CATAAAGTGTCGATATATTTTTAAAAAGTATCGATATCAAAAAACATCGAAACCGAAAATTATAA
TGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACTGGTTTTATGAGAAAATAGGTCAAC
ATAATGTATCGACACTTTTAAATTTGTGTCGATACATTTTGTCAGATAATATCAAAACGAGCTTC
ACACATAAAAGTGTCGACACATTTAAAATGTATCGATCCAAAAAACATCGAAACCAAAAATTATA
ATGTAATAGGTAAATTTACAATGTAAACGGTATAAATATACCAGTTTTATGAGAAAATAGGTATA
CATAATATATCGACACAGTTTAAATTTGTGTCGATACATTTTGTCCACAATGAATGCAAAACGGG
GTGCACG
Found at i:2297123 original size:19 final size:19
Alignment explanation
Indices: 2297096--2297144 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
2297086 AATGTAGGGT
*
2297096 TAATTTTGTATAATATTTA
1 TAATTTTGTATAAGATTTA
* *
2297115 TAATGTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
2297134 TAATTTTGTAT
1 TAATTTTGTAT
2297145 GTGAATGTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:2300108 original size:200 final size:197
Alignment explanation
Indices: 2299751--2300257 Score: 664
Period size: 200 Copynumber: 2.5 Consensus size: 197
2299741 TGTCCAGAAT
*
2299751 ATAAAGTGTCAATACATTTATTAAAAGTATCGATCCCAATAACATCGAAACCGATAATTATAATG
1 ATAAAGTGTCGATACATTTATTAAAAGTATCGAT-CCAA-AACATCGAAACCGATAATTATAATG
* * * * *
2299816 TAATAGGTAAATTTACAATGTAACTGGTATAAATATACCTGTTTTATACGAAAATAGGTCAGCAT
64 TAATAGGTAAATTTACAATGTACCCGATATAAATATACCAGTTTTATACGAAAATAGGTCAGAAT
* * *
2299881 AAAGTATCGACACCATTTAAATTTGTGTCGATACTTTTTGTCCATAATGAATGCCAAACGGGGTG
129 AAAGTATCGACACCATTTAAATTTGTGTCGATACTTTTT-TCCAGAATGAATGCCAAACGAGATG
2299946 CATGC
193 CATGC
* * *
2299951 ATAAAGTGTCGATACATTTATTAAAAGTATCGATCACACAAACATCGAAACAGATAATTACAGTG
1 ATAAAGTGTCGATACATTTATTAAAAGTATCGATC-CA-AAACATCGAAACCGATAATTATAATG
* * *
2300016 TGATAGGTAAATTTACAATGTACCCGATAGAAATATACCGGTTTTATGA-GAAAATAGGTCTA-A
64 TAATAGGTAAATTTACAATGTACCCGATATAAATATACCAGTTTTAT-ACGAAAATAGGTC-AGA
* ** * *
2300079 ATAATGTATCGACACTTTTTAAGTTTGTGTCGATACTTTTTTCCAGAATGAATGCCCAACGAGAT
127 ATAAAGTATCGACACCATTTAAATTTGTGTCGATACTTTTTTCCAGAATGAATGCCAAACGAGAT
2300144 GCATGC
192 GCATGC
* *
2300150 ATAAAGTGTCGATACATTTA--AAATTGTATTGATCCAAAAAACATCGAAACCGATAATTATAAT
1 ATAAAGTGTCGATACATTTATTAAA-AGTATCGATCC--AAAACATCGAAACCGATAATTATAAT
* *
2300213 GTAATAGGTAAATTTGCAATGTTACCGGA-ATAAATATACCAGTTT
63 GTAATAGGTAAATTTACAATG-TACCCGATATAAATATACCAGTTT
2300258 ACTTAGAAAA
Statistics
Matches: 270, Mismatches: 29, Indels: 18
0.85 0.09 0.06
Matches are distributed among these distances:
197 4 0.01
198 63 0.23
199 54 0.20
200 146 0.54
201 3 0.01
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (197 bp):
ATAAAGTGTCGATACATTTATTAAAAGTATCGATCCAAAACATCGAAACCGATAATTATAATGTA
ATAGGTAAATTTACAATGTACCCGATATAAATATACCAGTTTTATACGAAAATAGGTCAGAATAA
AGTATCGACACCATTTAAATTTGTGTCGATACTTTTTTCCAGAATGAATGCCAAACGAGATGCAT
GC
Found at i:2300378 original size:21 final size:23
Alignment explanation
Indices: 2300326--2300374 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
2300316 TCCGGTTAAA
**
2300326 TACCTATTTTATTATATAAGCGC
1 TACCTATTACATTATATAAGCGC
2300349 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAGCGC
2300372 TAC
1 TAC
2300375 ATTATATAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.33, C:0.20, G:0.08, T:0.39
Consensus pattern (23 bp):
TACCTATTACATTATATAAGCGC
Found at i:2300413 original size:16 final size:16
Alignment explanation
Indices: 2300356--2300406 Score: 93
Period size: 16 Copynumber: 3.2 Consensus size: 16
2300346 CGCTACCTAT
2300356 TACATTATATAAGCGC
1 TACATTATATAAGCGC
2300372 TACATTATATAAGCGC
1 TACATTATATAAGCGC
*
2300388 TACATTATATAAGCAC
1 TACATTATATAAGCGC
2300404 TAC
1 TAC
2300407 CTAATATGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (16 bp):
TACATTATATAAGCGC
Found at i:2302352 original size:42 final size:42
Alignment explanation
Indices: 2302241--2302400 Score: 146
Period size: 41 Copynumber: 3.7 Consensus size: 42
2302231 ACTTTTTTAA
* *
2302241 CTTTATAATTGAGGCCCTTAAGTTTTTTCAATCTCACTTTCTAC
1 CTTTATAATTGAAGCCC-TAAGTTTTTTCAATCTCA-ATTCTAC
* * *
2302285 TTTTATAATTGAACCCCTAAGTTTTTTCAATCTCAATTATAC
1 CTTTATAATTGAAGCCCTAAGTTTTTTCAATCTCAATTCTAC
* *
2302327 CTTTATAATTGATGCCC-ACA-TTTTTT-TATCTCAATTTCTAC
1 CTTTATAATTGAAGCCCTA-AGTTTTTTCAATCTCAA-TTCTAC
* * * *
2302368 GTTTATAATTAAAGCTTCTAATTTGTTTTCAAT
1 CTTTATAATTGAAGC-CCTAAGTT-TTTTCAAT
2302401 TTCATAAAAT
Statistics
Matches: 94, Mismatches: 15, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
40 7 0.07
41 24 0.26
42 22 0.23
43 21 0.22
44 18 0.19
45 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.07, T:0.47
Consensus pattern (42 bp):
CTTTATAATTGAAGCCCTAAGTTTTTTCAATCTCAATTCTAC
Found at i:2302373 original size:41 final size:43
Alignment explanation
Indices: 2302215--2302377 Score: 149
Period size: 43 Copynumber: 3.9 Consensus size: 43
2302205 AATTGATGTT
* * * *
2302215 CTAA-TTTTTT-AATCTCACTTTTTTAACTTTATAATTGAGGCCC
1 CTAAGTTTTTTCAATCTCA-ATTTCTACCTTTATAATTGA-ACCC
* * *
2302258 TTAAGTTTTTTCAATCTCACTTTCTACTTTTATAATTGAACCC
1 CTAAGTTTTTTCAATCTCAATTTCTACCTTTATAATTGAACCC
* **
2302301 CTAAGTTTTTTCAATCTCAA-TTATACCTTTATAATTGATGCC
1 CTAAGTTTTTTCAATCTCAATTTCTACCTTTATAATTGAACCC
* *
2302343 C-ACA-TTTTTT-TATCTCAATTTCTACGTTTATAATT
1 CTA-AGTTTTTTCAATCTCAATTTCTACCTTTATAATT
2302378 AAAGCTTCTA
Statistics
Matches: 101, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
40 7 0.07
41 21 0.21
42 20 0.20
43 24 0.24
44 22 0.22
45 7 0.07
ACGTcount: A:0.26, C:0.19, G:0.06, T:0.49
Consensus pattern (43 bp):
CTAAGTTTTTTCAATCTCAATTTCTACCTTTATAATTGAACCC
Found at i:2303815 original size:11 final size:11
Alignment explanation
Indices: 2303799--2303828 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
2303789 GTATTGTAAT
2303799 TTGTTGATATC
1 TTGTTGATATC
2303810 TTGTTGATATC
1 TTGTTGATATC
2303821 TTGTTGAT
1 TTGTTGAT
2303829 TTCTGGATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.17, C:0.07, G:0.20, T:0.57
Consensus pattern (11 bp):
TTGTTGATATC
Found at i:2309613 original size:20 final size:20
Alignment explanation
Indices: 2309583--2309634 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
2309573 TATGAAATGA
*
2309583 AATATAAATATATAATAATAAT
1 AATATATATATAT-AT-ATAAT
2309605 AATATATATATATATATAAT
1 AATATATATATATATATAAT
2309625 AATATATATA
1 AATATATATA
2309635 CGCACATAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 15 0.52
21 2 0.07
22 12 0.41
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
AATATATATATATATATAAT
Found at i:2309643 original size:20 final size:20
Alignment explanation
Indices: 2309600--2309644 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
2309590 ATATATAATA
* * *
2309600 ATAATAATATATATATATAT
1 ATAATAATATATATACACAC
*
2309620 ATAATAATATATATACGCAC
1 ATAATAATATATATACACAC
2309640 ATAAT
1 ATAAT
2309645 TAGGTGAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.38
Consensus pattern (20 bp):
ATAATAATATATATACACAC
Found at i:2310993 original size:16 final size:18
Alignment explanation
Indices: 2310972--2311016 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 18
2310962 AACATTCCCA
2310972 GTAATCTTATT-CC-CTG
1 GTAATCTTATTCCCACTG
2310988 GTAATCTTACATTCCCACTG
1 GTAATCTT--ATTCCCACTG
2311008 GTAATCTTA
1 GTAATCTTA
2311017 CATTCCGTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
16 8 0.32
18 4 0.16
19 2 0.08
20 11 0.44
ACGTcount: A:0.24, C:0.24, G:0.11, T:0.40
Consensus pattern (18 bp):
GTAATCTTATTCCCACTG
Found at i:2311010 original size:20 final size:20
Alignment explanation
Indices: 2310985--2311022 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
2310975 ATCTTATTCC
2310985 CTGGTAATCTTACATTCCCA
1 CTGGTAATCTTACATTCCCA
2311005 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
2311023 GTGAACCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.24, C:0.29, G:0.11, T:0.37
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:2311420 original size:25 final size:25
Alignment explanation
Indices: 2311392--2311447 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
2311382 TCTTTTTTTC
* *
2311392 TTTTTTTTATGGTTTTCTCTCTCTT
1 TTTTTTTTATGGTTTTCGCTCCCTT
* *
2311417 TTTTTCTTCTGGTTTTCGCTCCCTT
1 TTTTTTTTATGGTTTTCGCTCCCTT
*
2311442 TCTTTT
1 TTTTTT
2311448 CGATTTTCCT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.02, C:0.21, G:0.09, T:0.68
Consensus pattern (25 bp):
TTTTTTTTATGGTTTTCGCTCCCTT
Found at i:2312064 original size:3 final size:3
Alignment explanation
Indices: 2312056--2312106 Score: 57
Period size: 3 Copynumber: 17.0 Consensus size: 3
2312046 TATAAGTTAA
* * * * *
2312056 AAT AAT AAT AAT AAT AAT ACT AAT TAT AAT ACT ACT ACT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
2312104 AAT
1 AAT
2312107 TTTGTAGACC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:2312084 original size:18 final size:18
Alignment explanation
Indices: 2312058--2312106 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
2312048 TAAGTTAAAA
2312058 TAATAATAATAATAATAC
1 TAATAATAATAATAATAC
* * *
2312076 TAATTATAATACTACTAC
1 TAATAATAATAATAATAC
2312094 TAATAATAATAAT
1 TAATAATAATAAT
2312107 TTTGTAGACC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (18 bp):
TAATAATAATAATAATAC
Found at i:2312584 original size:133 final size:133
Alignment explanation
Indices: 2312304--2312921 Score: 568
Period size: 133 Copynumber: 4.6 Consensus size: 133
2312294 GTCGTCTAAA
* * * * * * ** * * *
2312304 GGTGACACGACTCTTACGTGATGAGAAGATCTGGCCGGTGGATGACACGACTCATACGTGATGAA
1 GGTGACACGACTCCTACATGATGAGGAGGTCTGGTCGGGGGATGACACGGTTCCTACGCGATGAG
* * ** * * * * * * *
2312369 GAGGTCTGGTCATCTTTAAGAAAGGCGATAACAC-GATTCCTATGCGATGAGGAC-ATCTGGTTA
66 GACGACAAGCCATCTTT-AGGAGGGTGATAACACAG-TTCCTACGTGATGAGGACGAT-AGGTTA
2312432 TCTAGG
128 TCTAGG
* *
2312438 GGTGACTCGACTCCTACATGATGAGGAGGTCTGGTCGAGGGATGACACGGTTCCTACGCGATGAG
1 GGTGACACGACTCCTACATGATGAGGAGGTCTGGTCGGGGGATGACACGGTTCCTACGCGATGAG
*
2312503 GACGACAAGCCATCTTTAGGAGGGTGATAACACAGTTCCTACGTGATGAGGACGGTAGGTTATCT
66 GACGACAAGCCATCTTTAGGAGGGTGATAACACAGTTCCTACGTGATGAGGACGATAGGTTATCT
2312568 AGG
131 AGG
* * ** * * *
2312571 GTTGACGA-GACTCCTACGTGATGAATAGGTCTGGTCGGGGGATGACACAGTTCCTAAGTGATGA
1 GGTGAC-ACGACTCCTACATGATGAGGAGGTCTGGTCGGGGGATGACACGGTTCCTACGCGATGA
* * ** * *
2312635 GGACGACATGCCATCTTTAGGAGGGTGATAACACAGTTCATATATGATGAGGATGATAGGTTATT
65 GGACGACAAGCCATCTTTAGGAGGGTGATAACACAGTTCCTACGTGATGAGGACGATAGGTTATC
2312700 TAGG
130 TAGG
* * * * * *
2312704 GTTGACACGGCTCCTACATGATGAGAAGGTGTGGTCGGGGGATGACAC-GTCTCATACGTGATGA
1 GGTGACACGACTCCTACATGATGAGGAGGTCTGGTCGGGGGATGACACGGT-TCCTACGCGATGA
* * ** * * * *
2312768 AGA-GTTCTGGCCATATTTAGGGAGAGTGATAACACAGTTCCTACGCGATGAGGAC-AAATGGTT
65 GGACG-ACAAGCCATCTTTA-GGAGGGTGATAACACAGTTCCTACGTGATGAGGACGATA-GGTT
2312831 ATCT-GG
127 ATCTAGG
* * * * * * *
2312837 GGTGACACGACTCTTGCGTGATGAGGAGGTCTGGTCGGGGGATGAAACGATTCGTACACGATGAG
1 GGTGACACGACTCCTACATGATGAGGAGGTCTGGTCGGGGGATGACACGGTTCCTACGCGATGAG
2312902 GACGACATA-CCATCTTTAGG
66 GACGACA-AGCCATCTTTAGG
2312922 TATAATGGTT
Statistics
Matches: 395, Mismatches: 78, Indels: 24
0.79 0.16 0.05
Matches are distributed among these distances:
132 6 0.02
133 285 0.72
134 104 0.26
ACGTcount: A:0.26, C:0.18, G:0.32, T:0.24
Consensus pattern (133 bp):
GGTGACACGACTCCTACATGATGAGGAGGTCTGGTCGGGGGATGACACGGTTCCTACGCGATGAG
GACGACAAGCCATCTTTAGGAGGGTGATAACACAGTTCCTACGTGATGAGGACGATAGGTTATCT
AGG
Found at i:2312873 original size:266 final size:266
Alignment explanation
Indices: 2312427--2312921 Score: 635
Period size: 266 Copynumber: 1.9 Consensus size: 266
2312417 GAGGACATCT
* * *
2312427 GGTTATCTAGGGGTGACTCGACTCCTACATGATGAGGAGGTCTGGTCGAGGGATGACACGGTTCC
1 GGTTATCTAGGGGTGACACGACTCCTACATGATGAGAAGGTCTGGTCGAGGGATGACACGGTTCA
* * * * *
2312492 TACGCGATGAGGACGACAAGCCATCTTTAGGAGGGTGATAACACAGTTCCTACGTGATGAGGACG
66 TACGCGATGAAGACGACAAGCCATATTTAGGAGAGTGATAACACAGTTCCTACGCGATGAGGACA
* * * *
2312557 GTAGGTTATCTAGGGTTGACGAGACTCCTACGTGATGAATAGGTCTGGTCGGGGGATGACAC-AG
131 ATAGGTTATCTAGGGGTGACGAGACTCCTACGTGATGAAGAGGTCTGGTCGGGGGATGAAACGA-
* *
2312621 TTCCTA-AGTGATGAGGACGACATGCCATCTTTAGGAGGGTGATAACACAGTTCATATATGATGA
195 TTCCTACA-CGATGAGGACGACATACCATCTTTAGGAGGGTGATAACACAGTTCATATATGATGA
2312685 GGATGATA
259 GGATGATA
* * * * *
2312693 GGTTATTTAGGGTTGACACGGCTCCTACATGATGAGAAGGTGTGGTCGGGGGATGACAC-GTCTC
1 GGTTATCTAGGGGTGACACGACTCCTACATGATGAGAAGGTCTGGTCGAGGGATGACACGGT-TC
* * **
2312757 ATACGTGATGAAGA-GTTCTGGCCATATTTAGGGAGAGTGATAACACAGTTCCTACGCGATGAGG
65 ATACGCGATGAAGACG-ACAAGCCATATTTA-GGAGAGTGATAACACAGTTCCTACGCGATGAGG
* * *
2312821 ACAA-ATGGTTATCT-GGGGTGAC-ACGACTCTTGCGTGATGAGGAGGTCTGGTCGGGGGATGAA
128 ACAATA-GGTTATCTAGGGGTGACGA-GACTCCTACGTGATGAAGAGGTCTGGTCGGGGGATGAA
*
2312883 ACGATTCGTACACGATGAGGACGACATACCATCTTTAGG
191 ACGATTCCTACACGATGAGGACGACATACCATCTTTAGG
2312922 TATAATGGTT
Statistics
Matches: 195, Mismatches: 27, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
265 4 0.02
266 148 0.76
267 43 0.22
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.25
Consensus pattern (266 bp):
GGTTATCTAGGGGTGACACGACTCCTACATGATGAGAAGGTCTGGTCGAGGGATGACACGGTTCA
TACGCGATGAAGACGACAAGCCATATTTAGGAGAGTGATAACACAGTTCCTACGCGATGAGGACA
ATAGGTTATCTAGGGGTGACGAGACTCCTACGTGATGAAGAGGTCTGGTCGGGGGATGAAACGAT
TCCTACACGATGAGGACGACATACCATCTTTAGGAGGGTGATAACACAGTTCATATATGATGAGG
ATGATA
Found at i:2312967 original size:34 final size:35
Alignment explanation
Indices: 2312929--2312997 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
2312919 AGGTATAATG
* * *
2312929 GTTTCAAGGGAAAC-AACTCAAAGATAGGTGTTTT
1 GTTTCAAAGGAAACAAACTCAAACATAGCTGTTTT
2312963 GTTTCAAAGGAAACAAACTCAAACATAGCTGTTTT
1 GTTTCAAAGGAAACAAACTCAAACATAGCTGTTTT
2312998 CAAAAGAAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
34 13 0.42
35 18 0.58
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (35 bp):
GTTTCAAAGGAAACAAACTCAAACATAGCTGTTTT
Found at i:2313066 original size:15 final size:15
Alignment explanation
Indices: 2313046--2313076 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2313036 AAACATACTC
*
2313046 AAAAAAATTTTCTCA
1 AAAAAAATTATCTCA
2313061 AAAAAAATTATCTCA
1 AAAAAAATTATCTCA
2313076 A
1 A
2313077 GATAGACAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (15 bp):
AAAAAAATTATCTCA
Found at i:2313463 original size:16 final size:15
Alignment explanation
Indices: 2313437--2313471 Score: 61
Period size: 16 Copynumber: 2.3 Consensus size: 15
2313427 TGCAAATTTC
2313437 ATGTGTAATGTATGT
1 ATGTGTAATGTATGT
2313452 ATGTGTTAATGTATGT
1 ATGTG-TAATGTATGT
2313468 ATGT
1 ATGT
2313472 TCTCAATCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.49
Consensus pattern (15 bp):
ATGTGTAATGTATGT
Found at i:2317182 original size:30 final size:31
Alignment explanation
Indices: 2317125--2317184 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
2317115 AATGACACAA
*
2317125 ACAAAAAAAAGGAAAAAAAGGAATTAGTAAC
1 ACAAAAAAAAGGAAAAAAACGAATTAGTAAC
* * *
2317156 ACAAATAAAA-GAGAAAAACGAGTTAGTAA
1 ACAAAAAAAAGGAAAAAAACGAATTAGTAA
2317185 AAGCAAGTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 16 0.64
31 9 0.36
ACGTcount: A:0.65, C:0.07, G:0.17, T:0.12
Consensus pattern (31 bp):
ACAAAAAAAAGGAAAAAAACGAATTAGTAAC
Found at i:2318886 original size:19 final size:19
Alignment explanation
Indices: 2318862--2318906 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
2318852 TATGAAATGA
2318862 AATATAAATATATAATAAT
1 AATATAAATATATAATAAT
**
2318881 AATATATCTATATAATAAT
1 AATATAAATATATAATAAT
2318900 ATATATA
1 A-ATATA
2318907 CGCACATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 18 0.78
20 5 0.22
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (19 bp):
AATATAAATATATAATAAT
Found at i:2320686 original size:3 final size:3
Alignment explanation
Indices: 2320678--2320747 Score: 124
Period size: 3 Copynumber: 23.3 Consensus size: 3
2320668 TATAAGTTAA
2320678 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
2320726 AAT AAT AAT AAT -AT AAAT AAT A
1 AAT AAT AAT AAT AAT -AAT AAT A
2320748 TTTTTGTAGA
Statistics
Matches: 65, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.03
3 61 0.94
4 2 0.03
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:2322948 original size:20 final size:20
Alignment explanation
Indices: 2322913--2322954 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
2322903 TGAACGTGAG
2322913 TTAAGTATATATTATTAAAT
1 TTAAGTATATATTATTAAAT
*
2322933 TTAA-TATATATATATTTAAT
1 TTAAGTATATAT-TATTAAAT
2322953 TT
1 TT
2322955 TAATTAAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (20 bp):
TTAAGTATATATTATTAAAT
Found at i:2325567 original size:18 final size:18
Alignment explanation
Indices: 2325544--2325578 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2325534 TCTTAATCAT
2325544 ATATATAATATTCTACTA
1 ATATATAATATTCTACTA
*
2325562 ATATATAATTTTCTACT
1 ATATATAATATTCTACT
2325579 GATGAATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.11, G:0.00, T:0.49
Consensus pattern (18 bp):
ATATATAATATTCTACTA
Found at i:2326536 original size:16 final size:16
Alignment explanation
Indices: 2326515--2326545 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
2326505 TTTATTATAT
2326515 ATATATATATACATAC
1 ATATATATATACATAC
2326531 ATATATATATACATA
1 ATATATATATACATA
2326546 TTTTAGCAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.39
Consensus pattern (16 bp):
ATATATATATACATAC
Found at i:2330696 original size:2 final size:2
Alignment explanation
Indices: 2330689--2330723 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2330679 TGTATACCCA
2330689 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2330724 CAATAAAGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2331771 original size:73 final size:71
Alignment explanation
Indices: 2331687--2332111 Score: 518
Period size: 73 Copynumber: 5.9 Consensus size: 71
2331677 TGAAGACAAA
* *
2331687 TTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCCCTTGCA-ATATTTTCTCTTGAAACAAAATT
1 TTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCCCTTG-AGACATTTTC-CTTGAAAC-AAATT
2331751 TCTTCTCCC
63 TCTTCTCCC
* * * * * *
2331760 TTGAGATAGTTTCCCTTGAAACAAATTTCGTCTCCATTGAGACAATTTCCATTGAAACAAGTTT-
1 TTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCCCTTGAGACATTTTCC-TTGAAACAAATTTC
2331824 TGTCTCCC
65 T-TCTCCC
* * * *
2331832 TTGAGACAGTTTATCTTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAGTTT
1 TTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCCCTTGAGACA-TTTTCCTTGAAACAAA-TTT
*
2331897 -TGTCTCTC
64 CT-TCTCCC
* * *
2331905 TTGAGACAGTTTCTCTTGAAACAAAGTTTGTCTCTCTTGAGATAGTTTTCCTTGAAACAAA-TTC
1 TTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCCCTTGAGACA-TTTTCCTTGAAACAAATTTC
*
2331969 GTCTCCC
65 TTCTCCC
*
2331976 TTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACATTTTCCCTTGAAACAAATTTC
1 TTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCCCTTGAGACATTTT-CCTTGAAACAAATTTC
*
2332041 GTCTCCC
65 TTCTCCC
* * *
2332048 TTGAGACAATTTCTCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAGAC-AATTTC
1 TTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCCCTTGAGACA-TTTTCCTTGAAACAAATTTC
2332112 CTTTGAAACA
Statistics
Matches: 315, Mismatches: 28, Indels: 20
0.87 0.08 0.06
Matches are distributed among these distances:
70 4 0.01
71 68 0.22
72 121 0.38
73 122 0.39
ACGTcount: A:0.26, C:0.22, G:0.13, T:0.38
Consensus pattern (71 bp):
TTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCCCTTGAGACATTTTCCTTGAAACAAATTTCT
TCTCCC
Found at i:2331794 original size:36 final size:36
Alignment explanation
Indices: 2331687--2332111 Score: 534
Period size: 36 Copynumber: 11.8 Consensus size: 36
2331677 TGAAGACAAA
*
2331687 TTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCCC
1 TTGAGACAGTTTCCCTTGAAACAAATTTCGTCTCCC
* * * *
2331723 TTGCA-ATATTTTCTCTTGAAACAAAATTTCTTCTCCC
1 TTG-AGACAGTTTCCCTTGAAAC-AAATTTCGTCTCCC
* *
2331760 TTGAGATAGTTTCCCTTGAAACAAATTTCGTCTCCA
1 TTGAGACAGTTTCCCTTGAAACAAATTTCGTCTCCC
* * * *
2331796 TTGAGACAATTTCCATTGAAACAAGTTTTGTCTCCC
1 TTGAGACAGTTTCCCTTGAAACAAATTTCGTCTCCC
** *
2331832 TTGAGACAGTTTATCTTGAAACAAATTTCGTCTCTC
1 TTGAGACAGTTTCCCTTGAAACAAATTTCGTCTCCC
* *
2331868 TTGAGACAGTTTCCCTTGAAACAAAGTTTTGTCTCTC
1 TTGAGACAGTTTCCCTTGAAACAAA-TTTCGTCTCCC
* *
2331905 TTGAGACAGTTTCTCTTGAAACAAAGTTT-GTCTCTC
1 TTGAGACAGTTTCCCTTGAAACAAA-TTTCGTCTCCC
* *
2331941 TTGAGATAGTTTTCCTTGAAACAAA-TTCGTCTCCC
1 TTGAGACAGTTTCCCTTGAAACAAATTTCGTCTCCC
* * *
2331976 TTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTC
1 TTGAGACAGTTTCCCTTGAAACAAATTTCGTCTCCC
*
2332012 TTGAGACATTTTCCCTTGAAACAAATTTCGTCTCCC
1 TTGAGACAGTTTCCCTTGAAACAAATTTCGTCTCCC
* * *
2332048 TTGAGACAATTTCTCTTGAAACAAATTTTGTCTCCC
1 TTGAGACAGTTTCCCTTGAAACAAATTTCGTCTCCC
*
2332084 TTGAGACAGTTTCCCTTGAGAC-AATTTC
1 TTGAGACAGTTTCCCTTGAAACAAATTTC
2332112 CTTTGAAACA
Statistics
Matches: 337, Mismatches: 46, Indels: 13
0.85 0.12 0.03
Matches are distributed among these distances:
34 2 0.01
35 33 0.10
36 233 0.69
37 69 0.20
ACGTcount: A:0.26, C:0.22, G:0.13, T:0.38
Consensus pattern (36 bp):
TTGAGACAGTTTCCCTTGAAACAAATTTCGTCTCCC
Found at i:2332012 original size:21 final size:21
Alignment explanation
Indices: 2331987--2332087 Score: 73
Period size: 21 Copynumber: 5.4 Consensus size: 21
2331977 TGAGACAGTT
2331987 TCTCTTGAAACAAATTTTGTC
1 TCTCTTGAAACAAATTTTGTC
*
2332008 TCTCTTGAGAC--A-TTT-TC
1 TCTCTTGAAACAAATTTTGTC
*
2332025 -C-CTTGAAACAAATTTCGTC
1 TCTCTTGAAACAAATTTTGTC
* *
2332044 TCCCTTGAGAC-AA---T-T-
1 TCTCTTGAAACAAATTTTGTC
2332059 TCTCTTGAAACAAATTTTGTC
1 TCTCTTGAAACAAATTTTGTC
*
2332080 TCCCTTGA
1 TCTCTTGA
2332088 GACAGTTTCC
Statistics
Matches: 60, Mismatches: 8, Indels: 24
0.65 0.09 0.26
Matches are distributed among these distances:
15 16 0.27
16 4 0.07
17 3 0.05
18 5 0.08
19 4 0.07
20 4 0.07
21 24 0.40
ACGTcount: A:0.26, C:0.24, G:0.11, T:0.40
Consensus pattern (21 bp):
TCTCTTGAAACAAATTTTGTC
Found at i:2332100 original size:15 final size:15
Alignment explanation
Indices: 2332080--2332122 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
2332070 AAATTTTGTC
*
2332080 TCCCTTGAGACAGTT
1 TCCCTTGAGACAATT
2332095 TCCCTTGAGACAATT
1 TCCCTTGAGACAATT
* *
2332110 TCCTTTGAAACAA
1 TCCCTTGAGACAA
2332123 AATATTTGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (15 bp):
TCCCTTGAGACAATT
Found at i:2332267 original size:36 final size:36
Alignment explanation
Indices: 2332178--2332296 Score: 109
Period size: 36 Copynumber: 3.3 Consensus size: 36
2332168 ATAGTTTCAC
* * *
2332178 AAACAAAATTTTATCGCACTCA-AGATTGTTTTCCTCA
1 AAAC-AAATTTTATCTCACT-AGAGATAGTTTCCCTCA
** * *
2332215 AAACAAGCTTTGTCTCACTAGAGACAGTTTCCCTCA
1 AAACAAATTTTATCTCACTAGAGATAGTTTCCCTCA
*
2332251 AAACAAATTTTATCTCACCT-GAGATAGTTTCTCTTC-
1 AAACAAATTTTATCTCA-CTAGAGATAGTTTC-CCTCA
2332287 AAACAAATTT
1 AAACAAATTT
2332297 CTTTTGATTC
Statistics
Matches: 67, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
35 1 0.01
36 57 0.85
37 9 0.13
ACGTcount: A:0.34, C:0.23, G:0.09, T:0.34
Consensus pattern (36 bp):
AAACAAATTTTATCTCACTAGAGATAGTTTCCCTCA
Found at i:2335840 original size:22 final size:21
Alignment explanation
Indices: 2335796--2335840 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
2335786 AGTACTATAA
**
2335796 CAGGGTATCAGTACCCTGTAG
1 CAGGGTATCAGTACCCTCCAG
*
2335817 CAGGGTATCGGTACCCCTCCAG
1 CAGGGTATCAGTA-CCCTCCAG
2335839 CA
1 CA
2335841 TTTTGGAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.22, C:0.31, G:0.27, T:0.20
Consensus pattern (21 bp):
CAGGGTATCAGTACCCTCCAG
Found at i:2337595 original size:23 final size:23
Alignment explanation
Indices: 2337565--2337618 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
2337555 ACATCTTATA
*
2337565 TGGCACTTCAGTGCATTTCTACG
1 TGGCACTTCAGTGCAATTCTACG
2337588 TGGCACTTCAGTGCAATTCTACG
1 TGGCACTTCAGTGCAATTCTACG
2337611 TGGCACTT
1 TGGCACTT
2337619 TGGTACATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.33
Consensus pattern (23 bp):
TGGCACTTCAGTGCAATTCTACG
Found at i:2337633 original size:23 final size:23
Alignment explanation
Indices: 2337565--2337633 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
2337555 ACATCTTATA
*
2337565 TGGCACTTCAGTGCATTTCTACG
1 TGGCACTTCAGTACATTTCTACG
* *
2337588 TGGCACTTCAGTGCAATTCTACG
1 TGGCACTTCAGTACATTTCTACG
** *
2337611 TGGCACTTTGGTACATTTATACG
1 TGGCACTTCAGTACATTTCTACG
2337634 AGCCGTGGTG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (23 bp):
TGGCACTTCAGTACATTTCTACG
Found at i:2338959 original size:139 final size:139
Alignment explanation
Indices: 2338709--2339249 Score: 706
Period size: 139 Copynumber: 3.9 Consensus size: 139
2338699 TGATAAATCA
* * *
2338709 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAATAACTCATCCAATGAGGGAGAAGAAGTTCAT
1 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAAGGAGAAGAAGTTCAT
* * *
2338774 AATGAGAAGAACTTGTTCAACCTTATCCCGATTCATCACATATGGAGTTGAATCAACAACAGCTC
66 AATGAGAAGAACTTGTTCAACCTTAACTCGATTCATCACATATGGAGTTGAATCAACAACACCTC
*
2338839 ACTCGAAGG
131 ACTCGAGGG
** * * ** ** *
2338848 ATCAACATTTCCAGCAGAGACTTCATAATGAGAATAACTTTTTTGATGAGGGAGAAGAAGTTCAT
1 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAAGGAGAAGAAGTTCAT
* * *
2338913 AATAATAAGAACTTGTTCAACCTTAACTCGATTCATCGCATATGGAGTTGAATCAACAACACCTC
66 AATGAGAAGAACTTGTTCAACCTTAACTCGATTCATCACATATGGAGTTGAATCAACAACACCTC
* *
2338978 AGTCGTGGG
131 ACTCGAGGG
* * * *
2338987 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCTGATGAAGAAGAATAATTTCAT
1 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAAGGAGAAGAAGTTCAT
* **
2339052 AATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCACATATGGAGTTGAATCAGTAACACCTC
66 AATGAGAAGAACTTGTTCAACCTTAACTCGATTCATCACATATGGAGTTGAATCAACAACACCTC
2339117 ACTCGAGGG
131 ACTCGAGGG
* * * ** * *
2339126 ATAAACATTTTCAATTTAGAGTTTATAATGAGAAGAACTCATCCGATGAAGGAGAATAAGTTCAT
1 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAAGGAGAAGAAGTTCAT
* * * *
2339191 AATGAGAAGAACTTGTTCAACCTTAGCTTGTTTCCATCACATAAGGAGTTGGAAT-AACA
66 AATGAGAAGAACTTGTTCAACCTTAACTCGATT-CATCACATATGGAGTT-GAATCAACA
2339250 CCAACATTTC
Statistics
Matches: 350, Mismatches: 50, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
139 329 0.94
140 17 0.05
141 4 0.01
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (139 bp):
ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAAGGAGAAGAAGTTCAT
AATGAGAAGAACTTGTTCAACCTTAACTCGATTCATCACATATGGAGTTGAATCAACAACACCTC
ACTCGAGGG
Found at i:2340810 original size:11 final size:11
Alignment explanation
Indices: 2340794--2340818 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2340784 GGTCATTAAG
2340794 TTTGACTTTGT
1 TTTGACTTTGT
2340805 TTTGACTTTGT
1 TTTGACTTTGT
2340816 TTT
1 TTT
2340819 TATACCCGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.08, G:0.16, T:0.68
Consensus pattern (11 bp):
TTTGACTTTGT
Found at i:2342457 original size:77 final size:76
Alignment explanation
Indices: 2342241--2342469 Score: 320
Period size: 76 Copynumber: 3.0 Consensus size: 76
2342231 TAAGAAATAT
*
2342241 GGTTGCATCC-AAGAATGTCATGGTTCACTAAGAAAT-AGATTGTGATCTGGAATGTTAATATTT
1 GGTTGCA-CCAAAG-ATGTCATGGTTCACTAAGAAATAAG-TTGCGATCTGGAATGTTAATATTT
2342304 TTATTAATAAAATG
63 TTATTAATAAAATG
* *
2342318 GGTTGCGCCCAAA-ATGTCATGGTTCACTAAGAAATATGTTGCGATCTGGAATGTTAATATTTTT
1 GGTTGC-ACCAAAGATGTCATGGTTCACTAAGAAATAAGTTGCGATCTGGAATGTTAATATTTTT
2342382 ATTAATAAAATG
65 ATTAATAAAATG
* * * *
2342394 GGTTGCACCAAAGACTTTCATGATTCTCTAAGAAATAAGTTGCGATTTGGAATGTTAATATTTTT
1 GGTTGCACCAAAGA-TGTCATGGTTCACTAAGAAATAAGTTGCGATCTGGAATGTTAATATTTTT
2342459 ATTAATTAAAA
65 ATTAA-TAAAA
2342470 AGCATGTAAA
Statistics
Matches: 137, Mismatches: 9, Indels: 11
0.87 0.06 0.07
Matches are distributed among these distances:
75 5 0.04
76 66 0.48
77 59 0.43
78 7 0.05
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.37
Consensus pattern (76 bp):
GGTTGCACCAAAGATGTCATGGTTCACTAAGAAATAAGTTGCGATCTGGAATGTTAATATTTTTA
TTAATAAAATG
Found at i:2342901 original size:102 final size:99
Alignment explanation
Indices: 2342669--2342960 Score: 288
Period size: 100 Copynumber: 2.9 Consensus size: 99
2342659 CCATACTTTT
* * * *
2342669 TTTTTTAAATTGTCAACCTTTTACATTATATGTATGAAACCGTTTATATTAAGAAAAAGTAAGAT
1 TTTTTT-AATTGTCAACCATTTACATTATATGTTTGAAACCGTTTTTATT-ATAAAAAGTAAGA-
* *
2342734 AAAACAAG-TT-TAAGTTTAACATTCTAGGTTGCTCC
63 AAAACAAGTTTATAAGTTTAACATTATAAGTTGCTCC
* * *
2342769 TTTTTAAAATTGTCAACCATTTATATTATATGTTTGAAATCGTTTTTATTATAAAATAGTAAGAC
1 TTTTT-TAATTGTCAACCATTTACATTATATGTTTGAAACCGTTTTTATTATAAAA-AGTAAGA-
* *
2342834 AAAACATGTTTATAAGTTTAACATTATAAGTTG-TGTC
63 AAAACAAGTTTATAAGTTTAACATTATAAGTTGCT-CC
* ** * * *
2342871 TATTTTTAATTGTCAACCACTTAGGTTATATCTTTGCAACCGTTTTTA-TATGCAAAAGTAAGAA
1 T-TTTTTAATTGTCAACCATTTACATTATATGTTTGAAACCGTTTTTATTAT-AAAAAGTAAGAA
* * *
2342935 AAATAGGTTTATAAG-TTAATATTATA
64 AAACAAGTTTATAAGTTTAACATTATA
2342961 GGTAACACTT
Statistics
Matches: 162, Mismatches: 23, Indels: 15
0.81 0.12 0.08
Matches are distributed among these distances:
99 15 0.09
100 71 0.44
101 13 0.08
102 59 0.36
103 4 0.02
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.41
Consensus pattern (99 bp):
TTTTTTAATTGTCAACCATTTACATTATATGTTTGAAACCGTTTTTATTATAAAAAGTAAGAAAA
ACAAGTTTATAAGTTTAACATTATAAGTTGCTCC
Found at i:2343839 original size:40 final size:40
Alignment explanation
Indices: 2343716--2343839 Score: 98
Period size: 40 Copynumber: 3.1 Consensus size: 40
2343706 TGTGCGTAAT
* * *
2343716 CTATTTTATTAATAAAAATATTAACATAAC-ATATCGCAAC
1 CTATTTTATTAATAAAAATATTAACAT-TCTAGATCACAAC
** * *
2343756 CTATTTCTATT--T-AAAATCA-CGACATTCTTGAGCAC-AC
1 CTATTT-TATTAATAAAAAT-ATTAACATTCTAGATCACAAC
*
2343793 CTTATTTTATTAATAAAAATATTAACATTCTAGATCACAAT
1 C-TATTTTATTAATAAAAATATTAACATTCTAGATCACAAC
2343834 CTATTT
1 CTATTT
2343840 CTTAGTGAAC
Statistics
Matches: 63, Mismatches: 12, Indels: 18
0.68 0.13 0.19
Matches are distributed among these distances:
37 8 0.13
38 17 0.27
39 4 0.06
40 28 0.44
41 6 0.10
ACGTcount: A:0.40, C:0.17, G:0.04, T:0.39
Consensus pattern (40 bp):
CTATTTTATTAATAAAAATATTAACATTCTAGATCACAAC
Found at i:2343841 original size:78 final size:78
Alignment explanation
Indices: 2343635--2343820 Score: 261
Period size: 78 Copynumber: 2.4 Consensus size: 78
2343625 GTTTTTTGGC
* * *
2343635 AACCTT-TTTTATTAATAAAAATAATAATATAACATATCACAACCTATTTCTATTCAAAACCATG
1 AACCTTATTTTATTAATAAAAATATTAACATAACATATCACAACCTATTTCTATTCAAAACCACG
*
2343699 ACATTCTTGTGCG
66 ACATTCTTGAGCG
* * * *
2343712 TAATC-TATTTTATTAATAAAAATATTAACATAACATATCGCAACCTATTTCTATTTAAAATCAC
1 -AACCTTATTTTATTAATAAAAATATTAACATAACATATCACAACCTATTTCTATTCAAAACCAC
2343776 GACATTCTTGAGC-
65 GACATTCTTGAGCG
2343789 ACACCTTATTTTATTAATAAAAATATTAACAT
1 A-ACCTTATTTTATTAATAAAAATATTAACAT
2343821 TCTAGATCAC
Statistics
Matches: 96, Mismatches: 9, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
76 1 0.01
77 3 0.03
78 92 0.96
ACGTcount: A:0.41, C:0.17, G:0.04, T:0.38
Consensus pattern (78 bp):
AACCTTATTTTATTAATAAAAATATTAACATAACATATCACAACCTATTTCTATTCAAAACCACG
ACATTCTTGAGCG
Found at i:2343877 original size:78 final size:78
Alignment explanation
Indices: 2343633--2343877 Score: 257
Period size: 78 Copynumber: 3.1 Consensus size: 78
2343623 TTGTTTTTTG
* * * *
2343633 GCAACCTTTTTTATTAATAAAAATAATAATATAACATATCACAACCTATTTCTAT-TCAAAACCA
1 GCAACCTATTTTATTAATAAAAATATTAACATAACAGATCACAACCTATTTCTATGT-AAAACCA
*
2343697 TGACATTCTTGTGC
65 TGACATTCTTGAGC
* * * * * * *
2343711 GTAATCTATTTTATTAATAAAAATATTAACATAACATATCGCAACCTATTTCTATTTAAAATCAC
1 GCAACCTATTTTATTAATAAAAATATTAACATAACAGATCACAACCTATTTCTATGTAAAACCAT
2343776 GACATTCTTGAGC
66 GACATTCTTGAGC
* * * *
2343789 AC-ACCTTATTTTATTAATAAAAATATTAACAT-TCTAGATCACAATCTATTTCT-TAGT-GAAC
1 GCAACC-TATTTTATTAATAAAAATATTAACATAAC-AGATCACAACCTATTTCTAT-GTAAAAC
*
2343850 CATGACATTCTTGGGC
63 CATGACATTCTTGAGC
2343866 GCAACCGTATTT
1 GCAACC-TATTT
2343878 CTTATATATA
Statistics
Matches: 139, Mismatches: 23, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
77 21 0.15
78 117 0.84
79 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.07, T:0.37
Consensus pattern (78 bp):
GCAACCTATTTTATTAATAAAAATATTAACATAACAGATCACAACCTATTTCTATGTAAAACCAT
GACATTCTTGAGC
Found at i:2344456 original size:411 final size:412
Alignment explanation
Indices: 2343793--2344624 Score: 1242
Period size: 411 Copynumber: 2.0 Consensus size: 412
2343783 TTGAGCACAC
* *
2343793 CTTATTTTATTAATAAAAATATTAACATTCTAGATCACAATCTATTTCTTAGTGAACCATGACAT
1 CTTATTTTATTAATAAAAATATTAACATTCAAGACCACAATCTATTTCTTAGTGAACCATGACAT
* *
2343858 TCTTGGGCGCAACCGTATTTCTTATATATATTCATAACATTTTCAACTTTTAACTTATTTTGTTA
66 TCTTGGGCGCAACCGTATTTATTATATATATTCATAACATTTACAACTTTTAACTTATTTTGTTA
* * * * * * *
2343923 TGTGGGAAAATCTAAGTCTCTATTAGCTTAAACTCTTGTAATATTTTAGGCGCAACCAATTTTAT
131 CGTAGGAAAATATAAGGCTCCAGTAGCTTAAACTCTTCTAATATTTTAGGCGCAACCAATTTTAT
* *
2343988 TACAAAGAAAATTAACATTTCAAATCGCAACCTACTCTTTTATGAACCATGACATGTTTA-AGGT
196 TACAAAGAAAATTAACATTTCAAATCGCAACCTACTCCTTTATGAACCATAACATGTTTAGAGG-
*
2344052 CAACATAAAATATTAATAATATTAATAATATTTACCGTTTATAACTTATTTTGTTATATTGAG-A
260 CAACATAAAATATTAATAATATTAATAATATTTACCGTTTATAACTTATTTTGTTATAGTGAGAA
* * * * *
2344116 TGTCTACAGCCTCGTCAGCTTAAACTCTAGTAAAATTTTAGACACAACCTTAAATGTTAATAATA
325 TATCTAAAACATCGTCAGCTTAAACTCTAGTAAAATTTTAGACACAACCTAAAATGTTAATAATA
* *
2344181 TTCATTACATTTACCGTTTATAA
390 TTCATAACATTTACCATTTATAA
*
2344204 CTTATTTTATTAATAAAAATATTAACATTCCAAG-CCGCAATCTATTTCTTAGTGAACCATGACA
1 CTTATTTTATTAATAAAAATATTAACATT-CAAGACCACAATCTATTTCTTAGTGAACCATGACA
*
2344268 TTCTTGGGCGCAACCGTATTTATTATATATATTCATAACATTTACATCTTTTAACTTATTTTGTT
65 TTCTTGGGCGCAACCGTATTTATTATATATATTCATAACATTTACAACTTTTAACTTATTTTGTT
* * * *
2344333 ACCGTAGGAAAATATAAGGCTCCAGTAGCTTAAACTTTTCTAATATTTTAGGTGCAATCGATTTT
130 A-CGTAGGAAAATATAAGGCTCCAGTAGCTTAAACTCTTCTAATATTTTAGGCGCAACCAATTTT
* * *
2344398 ATTACAAAGAAAATTAACATTTCAAATCGTAA-CTACTCCTTTGTGAATCATAACATGTTTAGAG
194 ATTACAAAGAAAATTAACATTTCAAATCGCAACCTACTCCTTTATGAACCATAACATGTTTAGAG
* * *
2344462 GCAACCTAAAATGTTAATAATATTAATAATATTTACCGTTTATAACTTATTTTGTTATCGTGAGA
259 GCAACATAAAATATTAATAATATTAATAATATTTACCGTTTATAACTTATTTTGTTATAGTGAGA
* * * * *
2344527 ATATCTAAAACATCGTTAGCTTAAATTCTAGTAACATTTTAGGCGCAACCTAAAATGTTAATAAT
324 ATATCTAAAACATCGTCAGCTTAAACTCTAGTAAAATTTTAGACACAACCTAAAATGTTAATAAT
*
2344592 ATTCATAATATTTACCATTTATAA
389 ATTCATAACATTTACCATTTATAA
*
2344616 CAT-TTTTAT
1 CTTATTTTAT
2344625 GCAACTTATT
Statistics
Matches: 377, Mismatches: 40, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
411 210 0.56
412 167 0.44
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.39
Consensus pattern (412 bp):
CTTATTTTATTAATAAAAATATTAACATTCAAGACCACAATCTATTTCTTAGTGAACCATGACAT
TCTTGGGCGCAACCGTATTTATTATATATATTCATAACATTTACAACTTTTAACTTATTTTGTTA
CGTAGGAAAATATAAGGCTCCAGTAGCTTAAACTCTTCTAATATTTTAGGCGCAACCAATTTTAT
TACAAAGAAAATTAACATTTCAAATCGCAACCTACTCCTTTATGAACCATAACATGTTTAGAGGC
AACATAAAATATTAATAATATTAATAATATTTACCGTTTATAACTTATTTTGTTATAGTGAGAAT
ATCTAAAACATCGTCAGCTTAAACTCTAGTAAAATTTTAGACACAACCTAAAATGTTAATAATAT
TCATAACATTTACCATTTATAA
Found at i:2353930 original size:71 final size:70
Alignment explanation
Indices: 2353841--2353980 Score: 262
Period size: 71 Copynumber: 2.0 Consensus size: 70
2353831 ATTGTCCAAT
2353841 GGGTCATAGCATGATTGAGATAAAATACTGTTTGCATCACGCACTATTAACACAAATTATCTGAA
1 GGGTCATAGCATGATTGAGATAAAATACTGTTTGCATCACGCACTATTAACACAAATTATCTGAA
2353906 ACATG
66 ACATG
*
2353911 GGGTCATAGCCATGATTGAGATAAAATACTGTTTGCATCACTCACTATTAACACAAATTATCTGA
1 GGGTCATAG-CATGATTGAGATAAAATACTGTTTGCATCACGCACTATTAACACAAATTATCTGA
2353976 AACAT
65 AACAT
2353981 TACAGAGCAT
Statistics
Matches: 68, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
70 9 0.13
71 59 0.87
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (70 bp):
GGGTCATAGCATGATTGAGATAAAATACTGTTTGCATCACGCACTATTAACACAAATTATCTGAA
ACATG
Found at i:2357295 original size:24 final size:24
Alignment explanation
Indices: 2357263--2357319 Score: 114
Period size: 24 Copynumber: 2.4 Consensus size: 24
2357253 TCAGACTGCT
2357263 TCAGAATGTGCAAGGTGACAACAA
1 TCAGAATGTGCAAGGTGACAACAA
2357287 TCAGAATGTGCAAGGTGACAACAA
1 TCAGAATGTGCAAGGTGACAACAA
2357311 TCAGAATGT
1 TCAGAATGT
2357320 TAGTAAGTCC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.40, C:0.16, G:0.25, T:0.19
Consensus pattern (24 bp):
TCAGAATGTGCAAGGTGACAACAA
Found at i:2366503 original size:23 final size:23
Alignment explanation
Indices: 2366450--2366521 Score: 85
Period size: 23 Copynumber: 3.1 Consensus size: 23
2366440 GAACCCGTGT
*
2366450 AGGGTATCGGTACCC--TCATGTG
1 AGGGTATCGGTACCCATTCAAG-G
*
2366472 GGGGTATCGGTACCCATTCAAGG
1 AGGGTATCGGTACCCATTCAAGG
*
2366495 AGGGTATCGGTACCCATGCAAAGG
1 AGGGTATCGGTACCCATTC-AAGG
2366519 AGG
1 AGG
2366522 CATCGATACC
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
22 14 0.33
23 18 0.42
24 11 0.26
ACGTcount: A:0.24, C:0.21, G:0.35, T:0.21
Consensus pattern (23 bp):
AGGGTATCGGTACCCATTCAAGG
Found at i:2366526 original size:23 final size:23
Alignment explanation
Indices: 2366477--2366531 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
2366467 ATGTGGGGGT
* *
2366477 ATCGGTACCCATTCAAGGAGGGT
1 ATCGGTACCCATGCAAGGAGGGC
2366500 ATCGGTACCCATGCAAAGGA-GGC
1 ATCGGTACCCATGC-AAGGAGGGC
*
2366523 ATCGATACC
1 ATCGGTACC
2366532 TATCGTCAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 23 0.82
24 5 0.18
ACGTcount: A:0.29, C:0.25, G:0.27, T:0.18
Consensus pattern (23 bp):
ATCGGTACCCATGCAAGGAGGGC
Found at i:2375769 original size:19 final size:19
Alignment explanation
Indices: 2375727--2375769 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
2375717 GGGTTTTGGT
* *
2375727 AAAAAGATATTAAATAATA
1 AAAAAGATATTAAAGAAAA
2375746 AAAAAGAT-TTAAAGAAAA
1 AAAAAGATATTAAAGAAAA
2375764 ATAAAA
1 A-AAAA
2375770 ATTGAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (19 bp):
AAAAAGATATTAAAGAAAA
Found at i:2380289 original size:7 final size:7
Alignment explanation
Indices: 2380272--2380306 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
2380262 AAAGAAGGCT
2380272 TTTATGGG
1 TTTA-GGG
2380280 TTTAGGG
1 TTTAGGG
*
2380287 TTTAGAG
1 TTTAGGG
2380294 TTTAGGG
1 TTTAGGG
2380301 TTTAGG
1 TTTAGG
2380307 CTCTTTATAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 21 0.84
8 4 0.16
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.46
Consensus pattern (7 bp):
TTTAGGG
Found at i:2381534 original size:38 final size:38
Alignment explanation
Indices: 2381485--2381559 Score: 123
Period size: 38 Copynumber: 2.0 Consensus size: 38
2381475 CAGATATGGT
* *
2381485 TAGTTTGTTGTAACCGTTTTACTATAGTGTTGGGTTAC
1 TAGTTTATTGTAACCGTTTTACTATACTGTTGGGTTAC
*
2381523 TAGTTTATTGTAACCGTTTTACTATTCTGTTGGGTTA
1 TAGTTTATTGTAACCGTTTTACTATACTGTTGGGTTA
2381560 TTTCGTTAGC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.19, C:0.11, G:0.21, T:0.49
Consensus pattern (38 bp):
TAGTTTATTGTAACCGTTTTACTATACTGTTGGGTTAC
Found at i:2389680 original size:2 final size:2
Alignment explanation
Indices: 2389675--2389713 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
2389665 TGTATGTGTG
2389675 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
2389714 CTTGTTTGTT
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:2390740 original size:22 final size:22
Alignment explanation
Indices: 2390712--2390761 Score: 100
Period size: 22 Copynumber: 2.3 Consensus size: 22
2390702 GGAAGCTTTT
2390712 GGGATTTATAGTGAGCAAAAAG
1 GGGATTTATAGTGAGCAAAAAG
2390734 GGGATTTATAGTGAGCAAAAAG
1 GGGATTTATAGTGAGCAAAAAG
2390756 GGGATT
1 GGGATT
2390762 GAAATAGATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.38, C:0.04, G:0.34, T:0.24
Consensus pattern (22 bp):
GGGATTTATAGTGAGCAAAAAG
Found at i:2393068 original size:31 final size:29
Alignment explanation
Indices: 2393027--2393110 Score: 98
Period size: 31 Copynumber: 2.8 Consensus size: 29
2393017 TTGCCTGAAG
* *
2393027 AAAAA-AAAAAGAGAAAAATAAAAAAATT
1 AAAAAGAAAAAGAAAAAAATAAAAAAATA
* *
2393055 GAAAAGATGAAAAGAAAAAAAGAAAAAAATA
1 AAAAAGA--AAAAGAAAAAAATAAAAAAATA
2393086 AAAAAGAAAAAGAAAATAAATAAAA
1 AAAAAGAAAAAGAAAA-AAATAAAA
2393111 TGGGGGTTCA
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
28 4 0.09
29 10 0.22
30 7 0.15
31 25 0.54
ACGTcount: A:0.81, C:0.00, G:0.11, T:0.08
Consensus pattern (29 bp):
AAAAAGAAAAAGAAAAAAATAAAAAAATA
Found at i:2393070 original size:29 final size:27
Alignment explanation
Indices: 2393027--2393111 Score: 73
Period size: 29 Copynumber: 3.0 Consensus size: 27
2393017 TTGCCTGAAG
*
2393027 AAAAAAAAAAGAGAAAAATAAAAAAATT
1 AAAAAAGAAA-AGAAAAATAAAAAAATT
* * *
2393055 GAAAAGATGAAAAGAAAAAAAGAAAAAAAT
1 -AAAA-AAGAAAAGAAAAATA-AAAAAATT
2393085 AAAAAAGAAAA-AGAAAATAAATAAAAT
1 AAAAAAGAAAAGA-AAAATAAA-AAAAT
2393112 GGGGGTTCAA
Statistics
Matches: 45, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
27 3 0.07
28 15 0.33
29 16 0.36
30 11 0.24
ACGTcount: A:0.80, C:0.00, G:0.11, T:0.09
Consensus pattern (27 bp):
AAAAAAGAAAAGAAAAATAAAAAAATT
Found at i:2393110 original size:15 final size:14
Alignment explanation
Indices: 2393024--2393101 Score: 63
Period size: 15 Copynumber: 5.5 Consensus size: 14
2393014 ACTTTGCCTG
2393024 AAGAAAAAAA-AAA
1 AAGAAAAAAAGAAA
*
2393037 GAGAAAAATAA-AAA
1 AAGAAAAA-AAGAAA
* *
2393051 AATTGAAAAGATG-AA
1 AA--GAAAAAAAGAAA
2393066 AAGAAAAAAAGAAA
1 AAGAAAAAAAGAAA
*
2393080 AAAATAAAAAAGAAA
1 AAGA-AAAAAAGAAA
2393095 AAGAAAA
1 AAGAAAA
2393102 TAAATAAAAT
Statistics
Matches: 51, Mismatches: 8, Indels: 11
0.73 0.11 0.16
Matches are distributed among these distances:
13 14 0.27
14 14 0.27
15 18 0.35
16 5 0.10
ACGTcount: A:0.81, C:0.00, G:0.13, T:0.06
Consensus pattern (14 bp):
AAGAAAAAAAGAAA
Found at i:2396468 original size:14 final size:14
Alignment explanation
Indices: 2396440--2396481 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
2396430 TGGACAATTA
*
2396440 AAATGAAAATAAAAT
1 AAATAAAAAT-AAAT
*
2396455 TAATAAAAATAAAT
1 AAATAAAAATAAAT
2396469 AAATAAAAATAAA
1 AAATAAAAATAAA
2396482 CAACAACGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
14 16 0.67
15 8 0.33
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.21
Consensus pattern (14 bp):
AAATAAAAATAAAT
Found at i:2396571 original size:36 final size:37
Alignment explanation
Indices: 2396524--2396600 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
2396514 TTCTACAAAC
* *
2396524 TATATAATATATA-TTTTCAAAA-GTATTTTAAAATTA
1 TATATAATATATATTTTTAAAAACGT-TTTCAAAATTA
*
2396560 TATATTATATATATTTTTAAAAACGTTTTCAAAATTA
1 TATATAATATATATTTTTAAAAACGTTTTCAAAATTA
2396597 TATA
1 TATA
2396601 ATTTTCAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
36 12 0.33
37 22 0.61
38 2 0.06
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.48
Consensus pattern (37 bp):
TATATAATATATATTTTTAAAAACGTTTTCAAAATTA
Found at i:2396779 original size:35 final size:36
Alignment explanation
Indices: 2396703--2396853 Score: 151
Period size: 36 Copynumber: 4.1 Consensus size: 36
2396693 TTTAAAAAAT
* **
2396703 TATATTTATTTTAAAAATGTTTTTTAAAACCGTATAA
1 TATATTTATTTTAAAAATG-TTTTAAAAACTATATAA
* * *
2396740 TATATTT-TCTTAAAAACGTTTTAAAAACTATATAT
1 TATATTTATTTTAAAAATGTTTTAAAAACTATATAA
* *
2396775 TATATTTATTTTCAAAGTGTTTTAAAAACTATATAA
1 TATATTTATTTTAAAAATGTTTTAAAAACTATATAA
** * * *
2396811 TATATAGATGTTTCAAATATGTTTTCAAAACTATATTA
1 TATATTTAT-TTT-AAAAATGTTTTAAAAACTATATAA
2396849 TATAT
1 TATAT
2396854 ATATGTATAT
Statistics
Matches: 93, Mismatches: 18, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
35 20 0.22
36 39 0.42
37 10 0.11
38 24 0.26
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.47
Consensus pattern (36 bp):
TATATTTATTTTAAAAATGTTTTAAAAACTATATAA
Found at i:2396843 original size:38 final size:37
Alignment explanation
Indices: 2396645--2396859 Score: 139
Period size: 36 Copynumber: 5.9 Consensus size: 37
2396635 TAAGTTTTTT
* * *
2396645 AAAATGATTTCAAAACTATATAATATATATGT-TTTC
1 AAAATGTTTTAAAAACTATATAATATATATATGTTTC
*
2396681 AAAATGTTTCTTTTTAAAAA--AT-T-ATAT-T-TAT-TTTA
1 AAAATG-----TTTTAAAAACTATATAATATATATATGTTTC
* ** *
2396716 AAAATGTTTTTTAAAACCGTATAATATAT-T-T-TCTTA
1 AAAATG-TTTTAAAAACTATATAATATATATATGT-TTC
* * *
2396752 AAAACGTTTTAAAAACTATATATTATATTTAT-TTTC
1 AAAATGTTTTAAAAACTATATAATATATATATGTTTC
* *
2396788 AAAGTGTTTTAAAAACTATATAATATATAGATGTTTC
1 AAAATGTTTTAAAAACTATATAATATATATATGTTTC
* *
2396825 AAATATGTTTTCAAAACTATATTATATATATATGT
1 AAA-ATGTTTTAAAAACTATATAATATATATATGT
2396860 ATATACAAAA
Statistics
Matches: 143, Mismatches: 21, Indels: 28
0.74 0.11 0.15
Matches are distributed among these distances:
31 9 0.06
33 1 0.01
34 1 0.01
35 35 0.24
36 47 0.33
37 13 0.09
38 28 0.20
39 2 0.01
41 7 0.05
ACGTcount: A:0.42, C:0.07, G:0.06, T:0.46
Consensus pattern (37 bp):
AAAATGTTTTAAAAACTATATAATATATATATGTTTC
Found at i:2397585 original size:81 final size:80
Alignment explanation
Indices: 2397477--2397954 Score: 472
Period size: 81 Copynumber: 5.8 Consensus size: 80
2397467 ACCCCGCAGT
** * *
2397477 TGAGTGTAATCGAACTC-GGGAGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCATA
1 TGAGTGTAATCGAACTCAAAG-GTCTTTGGCAGATAGCCCTTCTAGACTTAAGCTATGCTGCAAA
2397541 TGATGTGCCTTGGAGC
65 TGATGTGCCTTGGAGC
* * * * * * *
2397557 TGAGCGTAGTCGAACTCAAAGGTCCTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGT
1 TGAGTGTAATCGAACTCAAAGGT-CTTTGG---CAGATAGCCCTTCTAGACTTAAGCTATGCTGC
* *
2397622 AAATGATGTGCCCTCGAAGC
62 AAATGATGTG-CCTTGGAGC
**** *
2397642 TGAGTGTAATCGAACTTGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAAT
1 TGAGTGTAATCGAACTCAAAGGTCTTTGGCAGATAGCCCTTCTAGACTTAAGCTATGCTGCAAAT
*
2397707 GATATGCCTTGGAGC
66 GATGTGCCTTGGAGC
* * * * *
2397722 TGAGTGTAATCGAACTCAAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGT
1 TGAGTGTAATCGAACTCAAAGGTC-TTTGG---CAGATAGCCCTTCTAGACTTAAGCTATGCTGC
* * *
2397787 AAATGTTATGCCCTTGAAGC
62 AAATGATGTG-CCTTGGAGC
* * * *
2397807 TGAGTGTAATCGAACTTAAGGGTCTTTGGCAGATAGCCCTTCTTGACTTTAAGCTATTCTGCAAA
1 TGAGTGTAATCGAACTCAAAGGTCTTTGGCAGATAGCCCTTCTAGAC-TTAAGCTATGCTGCAAA
2397872 TGATGTGCCTTGGAGC
65 TGATGTGCCTTGGAGC
* * * * * * * *
2397888 TGAGCGTAGTCGAACTCGAAGGTCTTGGTGGCAGGTAGCCCTTCTGGCCTTGAGCTAAGCTGCAA
1 TGAGTGTAATCGAACTCAAAGGTCTT--TGGCAGATAGCCCTTCTAGACTTAAGCTATGCTGCAA
2397953 AT
64 AT
2397955 AGTTTGTTTA
Statistics
Matches: 321, Mismatches: 63, Indels: 26
0.78 0.15 0.06
Matches are distributed among these distances:
80 44 0.14
81 91 0.28
82 33 0.10
83 18 0.06
84 81 0.25
85 54 0.17
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (80 bp):
TGAGTGTAATCGAACTCAAAGGTCTTTGGCAGATAGCCCTTCTAGACTTAAGCTATGCTGCAAAT
GATGTGCCTTGGAGC
Found at i:2397717 original size:165 final size:165
Alignment explanation
Indices: 2397432--2397941 Score: 747
Period size: 165 Copynumber: 3.1 Consensus size: 165
2397422 TGACAAATAG
* * * * * * *
2397432 CCCTTCTTGCCATGAGCTATGTTGTAAATGATATGACCC-CGCAGTTGAGTGTAATCGAACTCGG
1 CCCTTCTAGCCTTGAGTTATGCTGTAAATGATATG-CCCTCGAAGCTGAGTGTAATCGAACTTGG
* *
2397496 GAGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCATATGATGTGCCTTGGAGCTGAG
65 GGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAG
2397561 CGTAGTCGAACTCAAAGGTCCTTTGGTCACAGATAA
130 CGTAGTCGAACTCAAAGGTCCTTTGGTCACAGATAA
*
2397597 CCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTTGGG
1 CCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTTGGG
* *
2397662 GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAGT
66 GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
* *
2397727 GTAATCGAACTCAAAGGTCTTTTGGTCACAGATAA
131 GTAGTCGAACTCAAAGGTCCTTTGGTCACAGATAA
* * **
2397762 CCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGCCCTTGAAGCTGAGTGTAATCGAACTTAAG
1 CCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTTGGG
* *
2397827 GGTCTTTGGCAGATAGCCCTTCTTGACTTTAAGCTATTCTGCAAATGATGTGCCTTGGAGCTGAG
66 GGTCTTTGGCAGATAGCCCTTCTCGAC-TTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAG
* ** * *
2397892 CGTAGTCGAACTCGAAGGT-C-TTGGTGGCAGGTAG
130 CGTAGTCGAACTCAAAGGTCCTTTGGTCACAGATAA
*
2397926 CCCTTCTGGCCTTGAG
1 CCCTTCTAGCCTTGAG
2397942 CTAAGCTGCA
Statistics
Matches: 312, Mismatches: 31, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
164 28 0.09
165 233 0.75
166 51 0.16
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.30
Consensus pattern (165 bp):
CCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTTGGG
GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
GTAGTCGAACTCAAAGGTCCTTTGGTCACAGATAA
Found at i:2404343 original size:14 final size:14
Alignment explanation
Indices: 2404315--2404356 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
2404305 TGGACAATTA
*
2404315 AAATGAAAATAAAAT
1 AAATAAAAAT-AAAT
*
2404330 TAATAAAAATAAAT
1 AAATAAAAATAAAT
2404344 AAATAAAAATAAA
1 AAATAAAAATAAA
2404357 CAACAACGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
14 16 0.67
15 8 0.33
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.21
Consensus pattern (14 bp):
AAATAAAAATAAAT
Found at i:2404446 original size:36 final size:37
Alignment explanation
Indices: 2404399--2404475 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
2404389 TTCTACAAAC
* *
2404399 TATATAATATATA-TTTTCAAAA-GTATTTTAAAATTA
1 TATATAATATATATTTTTAAAAACGT-TTTCAAAATTA
*
2404435 TATATTATATATATTTTTAAAAACGTTTTCAAAATTA
1 TATATAATATATATTTTTAAAAACGTTTTCAAAATTA
2404472 TATA
1 TATA
2404476 GTTTTCAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
36 12 0.33
37 22 0.61
38 2 0.06
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.48
Consensus pattern (37 bp):
TATATAATATATATTTTTAAAAACGTTTTCAAAATTA
Found at i:2404655 original size:35 final size:36
Alignment explanation
Indices: 2404579--2404729 Score: 151
Period size: 36 Copynumber: 4.1 Consensus size: 36
2404569 TTTAAAAAAT
* **
2404579 TATATTTATTTTAAAAATGTTTTTTAAAACCGTATAA
1 TATATTTATTTTAAAAATG-TTTTAAAAACTATATAA
* * *
2404616 TATATTT-TCTTAAAAACGTTTTAAAAACTATATAT
1 TATATTTATTTTAAAAATGTTTTAAAAACTATATAA
* *
2404651 TATATTTATTTTCAAAGTGTTTTAAAAACTATATAA
1 TATATTTATTTTAAAAATGTTTTAAAAACTATATAA
** * * *
2404687 TATATAGATGTTTCAAATATGTTTTCAAAACTATATTA
1 TATATTTAT-TTT-AAAAATGTTTTAAAAACTATATAA
2404725 TATAT
1 TATAT
2404730 ATATGTATAT
Statistics
Matches: 93, Mismatches: 18, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
35 20 0.22
36 39 0.42
37 10 0.11
38 24 0.26
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.47
Consensus pattern (36 bp):
TATATTTATTTTAAAAATGTTTTAAAAACTATATAA
Found at i:2404719 original size:38 final size:37
Alignment explanation
Indices: 2404521--2404735 Score: 139
Period size: 36 Copynumber: 5.9 Consensus size: 37
2404511 TAAGTTTTTT
* * *
2404521 AAAATGATTTCAAAACTATATAATATATATGT-TTTC
1 AAAATGTTTTAAAAACTATATAATATATATATGTTTC
*
2404557 AAAATGTTTCTTTTTAAAAA--AT-T-ATAT-T-TAT-TTTA
1 AAAATG-----TTTTAAAAACTATATAATATATATATGTTTC
* ** *
2404592 AAAATGTTTTTTAAAACCGTATAATATAT-T-T-TCTTA
1 AAAATG-TTTTAAAAACTATATAATATATATATGT-TTC
* * *
2404628 AAAACGTTTTAAAAACTATATATTATATTTAT-TTTC
1 AAAATGTTTTAAAAACTATATAATATATATATGTTTC
* *
2404664 AAAGTGTTTTAAAAACTATATAATATATAGATGTTTC
1 AAAATGTTTTAAAAACTATATAATATATATATGTTTC
* *
2404701 AAATATGTTTTCAAAACTATATTATATATATATGT
1 AAA-ATGTTTTAAAAACTATATAATATATATATGT
2404736 ATATACAAAA
Statistics
Matches: 143, Mismatches: 21, Indels: 28
0.74 0.11 0.15
Matches are distributed among these distances:
31 9 0.06
33 1 0.01
34 1 0.01
35 35 0.24
36 47 0.33
37 13 0.09
38 28 0.20
39 2 0.01
41 7 0.05
ACGTcount: A:0.42, C:0.07, G:0.06, T:0.46
Consensus pattern (37 bp):
AAAATGTTTTAAAAACTATATAATATATATATGTTTC
Found at i:2405079 original size:20 final size:20
Alignment explanation
Indices: 2405049--2405095 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
2405039 TCGTTTGGGT
2405049 TTATATAATTATATTATACTA
1 TTATATAATTATATTATA-TA
2405070 TTAT-TAATTATATTATATA
1 TTATATAATTATATTATATA
2405089 TTATATA
1 TTATATA
2405096 TGTTTGAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.24
20 15 0.60
21 4 0.16
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (20 bp):
TTATATAATTATATTATATA
Found at i:2405109 original size:21 final size:19
Alignment explanation
Indices: 2405083--2405133 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 19
2405073 TTAATTATAT
2405083 TATATATTATATATGTTTGAA
1 TATATATTATATATG--TGAA
*
2405104 TATATA--CTATATGTGAA
1 TATATATTATATATGTGAA
2405121 TATATA-TATATAT
1 TATATATTATATAT
2405134 ACAAGCATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 10 0.37
18 5 0.19
19 6 0.22
21 6 0.22
ACGTcount: A:0.41, C:0.02, G:0.08, T:0.49
Consensus pattern (19 bp):
TATATATTATATATGTGAA
Found at i:2405120 original size:17 final size:16
Alignment explanation
Indices: 2405084--2405131 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 16
2405074 TAATTATATT
2405084 ATATATTATATATGTTTGA
1 ATATA-TATATATG--TGA
2405103 ATATATACTATATGTGA
1 ATATATA-TATATGTGA
2405120 ATATATATATAT
1 ATATATATATAT
2405132 ATACAAGCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
16 5 0.18
17 10 0.36
18 2 0.07
19 11 0.39
ACGTcount: A:0.42, C:0.02, G:0.08, T:0.48
Consensus pattern (16 bp):
ATATATATATATGTGA
Found at i:2405236 original size:10 final size:10
Alignment explanation
Indices: 2405221--2405250 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
2405211 TCTGTATACA
2405221 TATATATTAT
1 TATATATTAT
2405231 TATATATTAT
1 TATATATTAT
2405241 TATATATTAT
1 TATATATTAT
2405251 AAATATATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (10 bp):
TATATATTAT
Found at i:2405257 original size:13 final size:11
Alignment explanation
Indices: 2405220--2405258 Score: 55
Period size: 10 Copynumber: 3.7 Consensus size: 11
2405210 GTCTGTATAC
2405220 ATATATATTAT
1 ATATATATTAT
2405231 -TATATATTAT
1 ATATATATTAT
2405241 -TATATATTAT
1 ATATATATTAT
*
2405251 AAATATAT
1 ATATATAT
2405259 GTTATAATGG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 20 0.77
11 6 0.23
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
ATATATATTAT
Found at i:2406592 original size:10 final size:10
Alignment explanation
Indices: 2406579--2406621 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
2406569 CTCACATTCA
*
2406579 AACAAAAACT
1 AACAAAAAAT
2406589 AACAAAAAAT
1 AACAAAAAAT
*
2406599 AAGAAAAAAT
1 AACAAAAAAT
*
2406609 TACAAAGAAAT
1 AACAAA-AAAT
2406620 AA
1 AA
2406622 AGGAAAGAGG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
10 22 0.81
11 5 0.19
ACGTcount: A:0.74, C:0.09, G:0.05, T:0.12
Consensus pattern (10 bp):
AACAAAAAAT
Found at i:2407053 original size:13 final size:14
Alignment explanation
Indices: 2407025--2407053 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2407015 CTATTTTAGC
2407025 AAATAAATAGAGAA
1 AAATAAATAGAGAA
2407039 AAATAAATA-AGAA
1 AAATAAATAGAGAA
2407052 AA
1 AA
2407054 TGGATAGAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.76, C:0.00, G:0.10, T:0.14
Consensus pattern (14 bp):
AAATAAATAGAGAA
Found at i:2408870 original size:31 final size:31
Alignment explanation
Indices: 2408835--2408895 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
2408825 GTTAATTTTT
2408835 TAATTTGATCCATAAACTTTACATAAAATAA
1 TAATTTGATCCATAAACTTTACATAAAATAA
* * *
2408866 TAATTTGATCCTTAAACTTTAGATTAAATA
1 TAATTTGATCCATAAACTTTACATAAAATA
2408896 TAAGTCTAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.44, C:0.11, G:0.05, T:0.39
Consensus pattern (31 bp):
TAATTTGATCCATAAACTTTACATAAAATAA
Found at i:2409902 original size:32 final size:30
Alignment explanation
Indices: 2409865--2409942 Score: 77
Period size: 29 Copynumber: 2.5 Consensus size: 30
2409855 ATATACTTGC
*
2409865 TATTATGGTTCTATTTTTTTTCTAATATATAT
1 TATTATGG-TCTATTTTTTTT-AAATATATAT
* * *
2409897 TATTATGGGCT-TATTTTTTAAATATTTAT
1 TATTATGGTCTATTTTTTTTAAATATATAT
*
2409926 TATTAGGGGTCTATTTT
1 TATTA-TGGTCTATTTT
2409943 ATAATTTATT
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
29 13 0.35
30 11 0.30
31 5 0.14
32 8 0.22
ACGTcount: A:0.24, C:0.05, G:0.12, T:0.59
Consensus pattern (30 bp):
TATTATGGTCTATTTTTTTTAAATATATAT
Found at i:2414217 original size:21 final size:21
Alignment explanation
Indices: 2414193--2414247 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
2414183 ATATTAATAA
*
2414193 ATTAATATCATAAAGTGTCAC
1 ATTAATATCATAAAGTGCCAC
2414214 ATTAATATCATAAAGTGCCAC
1 ATTAATATCATAAAGTGCCAC
2414235 ATTAATATCATAA
1 ATTAATATCATAA
2414248 TAATCAATGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.33
Consensus pattern (21 bp):
ATTAATATCATAAAGTGCCAC
Found at i:2414977 original size:35 final size:34
Alignment explanation
Indices: 2414933--2415039 Score: 101
Period size: 36 Copynumber: 3.1 Consensus size: 34
2414923 GGTAAGAAAT
* * *
2414933 TTATTTTTATGTTAATAT-TTTTTTTAAATAGTTA
1 TTATTTTTATATTAATATATTTATGTAAATA-TTA
2414967 TTATATTTTATATTAATATATTTATGTAAATATTA
1 TTAT-TTTTATATTAATATATTTATGTAAATATTA
* * *
2415002 TT-TTTTTATTAAAATAATATATTTATATAATTATTA
1 TTATTTTTA-T--ATTAATATATTTATGTAAATATTA
2415038 TT
1 TT
2415040 TATCTGGGTC
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
33 5 0.08
34 6 0.10
35 18 0.29
36 33 0.53
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (34 bp):
TTATTTTTATATTAATATATTTATGTAAATATTA
Found at i:2415791 original size:21 final size:22
Alignment explanation
Indices: 2415739--2415780 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
2415729 ATATGCCATC
*
2415739 TCCG-CAGGGTTACATTCCTAG
1 TCCGCCAGGGTTACATGCCTAG
2415760 TCCGCCA-GGTTACATGCCTAG
1 TCCGCCAGGGTTACATGCCTAG
2415781 CCCACAGGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.19, C:0.31, G:0.24, T:0.26
Consensus pattern (22 bp):
TCCGCCAGGGTTACATGCCTAG
Found at i:2416342 original size:28 final size:28
Alignment explanation
Indices: 2416310--2416404 Score: 100
Period size: 28 Copynumber: 3.2 Consensus size: 28
2416300 GATAAATGTT
*
2416310 TTTAAAATACAAATTATATTATTCGAAA
1 TTTAAAATAAAAATTATATTATTCGAAA
*
2416338 TTTAAAATAAAAATAATATTATTCGAAAATTAAA
1 TTTAAAATAAAAATTATATTATTCG------AAA
* *
2416372 TTTAAAATATAAATTATAGTATTCGAAA
1 TTTAAAATAAAAATTATATTATTCGAAA
2416400 TTTAA
1 TTTAA
2416405 CATTAAATTT
Statistics
Matches: 56, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
28 31 0.55
34 25 0.45
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.39
Consensus pattern (28 bp):
TTTAAAATAAAAATTATATTATTCGAAA
Found at i:2416411 original size:34 final size:32
Alignment explanation
Indices: 2416311--2416427 Score: 111
Period size: 34 Copynumber: 3.7 Consensus size: 32
2416301 ATAAATGTTT
*
2416311 TTAAAATACAAATTATATTATTCGAAATTTAAA
1 TTAAAATATAAATTATA-TATTCGAAATTTAAA
* *
2416344 ATAAAA-AT-AA-TAT-TATTCGAAAATTAAA
1 TTAAAATATAAATTATATATTCGAAATTTAAA
2416372 TTTAAAATATAAATTATAGTATTCGAAATTTAACA
1 -TTAAAATATAAATTATA-TATTCGAAATTTAA-A
*
2416407 TT-AAATTTCAAATTA-ATATTC
1 TTAAAATAT-AAATTATATATTC
2416428 CAATTGTATT
Statistics
Matches: 70, Mismatches: 6, Indels: 17
0.75 0.06 0.18
Matches are distributed among these distances:
28 14 0.20
29 5 0.07
30 5 0.07
31 4 0.06
32 9 0.13
33 11 0.16
34 21 0.30
35 1 0.01
ACGTcount: A:0.51, C:0.06, G:0.03, T:0.39
Consensus pattern (32 bp):
TTAAAATATAAATTATATATTCGAAATTTAAA
Found at i:2417318 original size:130 final size:128
Alignment explanation
Indices: 2416760--2417390 Score: 978
Period size: 128 Copynumber: 4.9 Consensus size: 128
2416750 TTACCTGATT
*
2416760 TACTGATATATCTAGTGTCCCCGAGGGACATTAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* * * ** *
2416825 TGACAAAATAATGGAAGGCGCGCCCACGGGAATGCGCCTTCAAGTCCCCT-GAGAAATAATAGG
66 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGT-CAATAGTGAAATAATAGG
2416888 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* * * ** * *
2416953 TGACAAAATAATGGAAGGCGCGCCCCCGAGAATGCGCCTTCAAGTCCCCT-GAGAAATAATAAG
66 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGT-CAATAGTGAAATAATAGG
2417016 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* *
2417081 TGACAAAATAATGGAAGGCACGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCAATAGTGAAATAATAGG
* * *
2417144 TACTGATATAACTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGTAATGATAATATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* * * *
2417209 TGACAAAATAATAGAAGGCGCGTCCACGGGAACGCGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACAAAATAATGGAAGGCGCGCCCCCGGGAA--CGCGCCTTCATGTCAATAGTGAAATAATAGG
* *
2417274 TATTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGTAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
2417339 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTAAATAGT
66 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCAATAGT
2417391 ACTCCGATTA
Statistics
Matches: 473, Mismatches: 27, Indels: 6
0.93 0.05 0.01
Matches are distributed among these distances:
127 1 0.00
128 350 0.74
130 122 0.26
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (128 bp):
TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCAATAGTGAAATAATAGG
Found at i:2419479 original size:3 final size:3
Alignment explanation
Indices: 2419466--2419541 Score: 86
Period size: 3 Copynumber: 26.0 Consensus size: 3
2419456 GGTTTTTTCG
** *
2419466 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCG TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
2419513 -TC TTA TTA TT- TTA TTA TTA TTTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
2419542 CAAATTTTTG
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
2 4 0.06
3 56 0.89
4 3 0.05
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:2427341 original size:106 final size:106
Alignment explanation
Indices: 2427220--2427480 Score: 429
Period size: 105 Copynumber: 2.5 Consensus size: 106
2427210 AATTTATCTG
*
2427220 AAAACTAATTTCGTCTCGCTTGAGACATTTTTTCCTTTGAGATACAAATTTTGAATTTGCTTCAC
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTTTCCTTTGAGATACAAATTTTGAATTTGCTTCAC
2427285 TTGAAACAAAATTAATCTCACTTGAGATTGTTGTTT-TTAAA
66 TTGAAACAAAATTAATCTCACTTGAGATTGTTGTTTATT-AA
* * *
2427326 AAAACAAATTTCGTCTCGCTTGGGACATTTTTTCCTTTGA-AAACAAATTTTGAATTTGCTTCGC
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTTTCCTTTGAGATACAAATTTTGAATTTGCTTCAC
**
2427390 TTGAAACAAAATTAATCTCACTTGAGATTGTTGTTTATTTC
66 TTGAAACAAAATTAATCTCACTTGAGATTGTTGTTTATTAA
*
2427431 AAAACAAATTTCGTCTCGCTTGAGACATTTTTT-CTATGAGATACAAATTT
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTTTCCTTTGAGATACAAATTT
2427481 AAATTTGTTG
Statistics
Matches: 144, Mismatches: 9, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
104 5 0.03
105 99 0.69
106 40 0.28
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.41
Consensus pattern (106 bp):
AAAACAAATTTCGTCTCGCTTGAGACATTTTTTCCTTTGAGATACAAATTTTGAATTTGCTTCAC
TTGAAACAAAATTAATCTCACTTGAGATTGTTGTTTATTAA
Found at i:2427577 original size:29 final size:29
Alignment explanation
Indices: 2427535--2427631 Score: 130
Period size: 29 Copynumber: 3.5 Consensus size: 29
2427525 TTTCTCTTGA
2427535 AAAAATCTTTGAGTTTGTTCCTTTTGAAT
1 AAAAATCTTTGAGTTTGTTCCTTTTGAAT
* *
2427564 AAAAATCTTGGAGTCTGTTCCTTTTGAAT
1 AAAAATCTTTGAGTTTGTTCCTTTTGAAT
* *
2427593 AAATATCTTTGAG-TTGTTTCTTTTG---
1 AAAAATCTTTGAGTTTGTTCCTTTTGAAT
2427618 AAAAATCTTTGAGT
1 AAAAATCTTTGAGT
2427632 CTATTTATTT
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
25 12 0.20
28 10 0.17
29 38 0.63
ACGTcount: A:0.28, C:0.10, G:0.15, T:0.46
Consensus pattern (29 bp):
AAAAATCTTTGAGTTTGTTCCTTTTGAAT
Found at i:2427642 original size:25 final size:25
Alignment explanation
Indices: 2427597--2427647 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
2427587 TTGAATAAAT
* *
2427597 ATCTTTGAGTTGTTTCTTTTGAAAA
1 ATCTTTGAGTTATTTCATTTGAAAA
2427622 ATCTTTGAGTCTATTT-ATTTGAAAA
1 ATCTTTGAGT-TATTTCATTTGAAAA
2427647 A
1 A
2427648 CAAAGTTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.29, C:0.08, G:0.14, T:0.49
Consensus pattern (25 bp):
ATCTTTGAGTTATTTCATTTGAAAA
Done.