Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr6
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: 26303135
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.30
Warning! 1968672 characters in sequence are not A, C, G, or T
File 62 of 66
Found at i:23957802 original size:16 final size:16
Alignment explanation
Indices: 23957766--23957811 Score: 60
Period size: 15 Copynumber: 2.9 Consensus size: 16
23957756 AAATAATAGA
*
23957766 ATTATTCAAATTTGATT
1 ATTATT-AAATTTAATT
23957783 -TTATTAAATTTAATT
1 ATTATTAAATTTAATT
23957798 ATTATT-AATTTAAT
1 ATTATTAAATTTAAT
23957812 AAAAAATTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
15 17 0.63
16 10 0.37
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (16 bp):
ATTATTAAATTTAATT
Found at i:23957921 original size:10 final size:10
Alignment explanation
Indices: 23957906--23957934 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
23957896 TACTTTATTT
23957906 TATTTATAAA
1 TATTTATAAA
23957916 TATTTAT-AA
1 TATTTATAAA
23957925 TATTTATAAA
1 TATTTATAAA
23957935 GTTTATCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (10 bp):
TATTTATAAA
Found at i:23964083 original size:3 final size:3
Alignment explanation
Indices: 23964075--23964109 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
23964065 CTATAATGTT
*
23964075 TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
23964110 TTGGACTTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:23978917 original size:2 final size:2
Alignment explanation
Indices: 23978907--23978955 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
23978897 ACACAAAAGA
*
23978907 AT AT GT 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
23978949 AT AT AT A
1 AT AT AT A
23978956 AGAAGCTATA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:23987545 original size:15 final size:16
Alignment explanation
Indices: 23987525--23987554 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23987515 CTGTTATGTG
23987525 GATTTT-ATTTTTAAT
1 GATTTTAATTTTTAAT
23987540 GATTTTAATTTTTAA
1 GATTTTAATTTTTAA
23987555 AAATTAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (16 bp):
GATTTTAATTTTTAAT
Found at i:23988527 original size:2 final size:2
Alignment explanation
Indices: 23988520--23988550 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
23988510 GAAATTTACT
23988520 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 T
23988551 TATGTTCCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23989503 original size:10 final size:10
Alignment explanation
Indices: 23989488--23989527 Score: 53
Period size: 10 Copynumber: 3.8 Consensus size: 10
23989478 CTCACCATCT
23989488 AAGAGAGAGA
1 AAGAGAGAGA
23989498 AAGAGAGAGA
1 AAGAGAGAGA
*
23989508 AAGGGATAGAGA
1 AA--GAGAGAGA
23989520 AAGAGAGA
1 AAGAGAGA
23989528 CCTTCTTCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
10 17 0.65
12 9 0.35
ACGTcount: A:0.57, C:0.00, G:0.40, T:0.03
Consensus pattern (10 bp):
AAGAGAGAGA
Found at i:23998491 original size:26 final size:26
Alignment explanation
Indices: 23998434--23998484 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
23998424 GTTAGAGAAA
23998434 CAAGGGGCAAGGAAGAAGAACAGTAC
1 CAAGGGGCAAGGAAGAAGAACAGTAC
*
23998460 CAAGGGGCAAGGGAGAAGAACAGTA
1 CAAGGGGCAAGGAAGAAGAACAGTA
23998485 TCTAGGGTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.45, C:0.14, G:0.37, T:0.04
Consensus pattern (26 bp):
CAAGGGGCAAGGAAGAAGAACAGTAC
Found at i:23998554 original size:80 final size:80
Alignment explanation
Indices: 23998452--23998612 Score: 286
Period size: 80 Copynumber: 2.0 Consensus size: 80
23998442 AAGGAAGAAG
* *
23998452 AACAGTACCAAGGGGCAAGGGAGAAGAACAGTATCTAGGGTTCTCAATCACTTATTAAACCAGTA
1 AACAGTACCAAGGGGCAAGGGAGAAGAACAGCATCTAGGGTTCTCAATCACTGATTAAACCAGTA
23998517 TTCGAGTTATAATCT
66 TTCGAGTTATAATCT
* *
23998532 AACAGTACCAAGGGGTACGGGAGAAGAACAGCATCTAGGGTTCTCAATCACTGATTAAACCAGTA
1 AACAGTACCAAGGGGCAAGGGAGAAGAACAGCATCTAGGGTTCTCAATCACTGATTAAACCAGTA
23998597 TTCGAGTTATAATCT
66 TTCGAGTTATAATCT
23998612 A
1 A
23998613 TCTCTCCTCT
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
80 77 1.00
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (80 bp):
AACAGTACCAAGGGGCAAGGGAGAAGAACAGCATCTAGGGTTCTCAATCACTGATTAAACCAGTA
TTCGAGTTATAATCT
Found at i:24003938 original size:21 final size:21
Alignment explanation
Indices: 24003900--24003939 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
24003890 CAATGATGCA
* *
24003900 AGGGCTGCTGCAGAGGCTGGC
1 AGGGCAGCTACAGAGGCTGGC
*
24003921 AGGGCAGCTACAGTGGCTG
1 AGGGCAGCTACAGAGGCTG
24003940 CCTTGCAAGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.17, C:0.23, G:0.45, T:0.15
Consensus pattern (21 bp):
AGGGCAGCTACAGAGGCTGGC
Found at i:24012052 original size:37 final size:35
Alignment explanation
Indices: 24011985--24012055 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
24011975 TTTCGTCGAC
24011985 CTCTCTCTCTCTCCTCTCAGATCTCACCCCTCTCT
1 CTCTCTCTCTCTCCTCTCAGATCTCACCCCTCTCT
*
24012020 CTCTCTCTCTCTCCTCTCAGATCTCACCCCCCTCT
1 CTCTCTCTCTCTCCTCTCAGATCTCACCCCTCTCT
24012055 C
1 C
24012056 CTTGTTTTTC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.08, C:0.54, G:0.03, T:0.35
Consensus pattern (35 bp):
CTCTCTCTCTCTCCTCTCAGATCTCACCCCTCTCT
Found at i:24012317 original size:5 final size:5
Alignment explanation
Indices: 24012301--24012353 Score: 60
Period size: 5 Copynumber: 11.2 Consensus size: 5
24012291 ATTTTTTTAA
*
24012301 TTATT ATTATT TTA-T TTA-T TTATT TTATT TTATT TAATT TT-TT TT-TT
1 TTATT -TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT
24012348 TTATT T
1 TTATT T
24012354 AGGTGTCTAC
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
4 16 0.37
5 22 0.51
6 5 0.12
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTATT
Found at i:24012328 original size:18 final size:18
Alignment explanation
Indices: 24012291--24012354 Score: 78
Period size: 18 Copynumber: 3.6 Consensus size: 18
24012281 TTTTTTTAAA
*
24012291 ATTTT-TTTAATTATTATT
1 ATTTTATTTATTTATT-TT
24012309 ATTTTATTTATTTATTTT
1 ATTTTATTTATTTATTTT
24012327 ATTTTATTTAATTT-TTTT
1 ATTTTATTT-ATTTATTTT
*
24012345 TTTTTATTTA
1 ATTTTATTTA
24012355 GGTGTCTACA
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
17 1 0.02
18 28 0.67
19 13 0.31
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (18 bp):
ATTTTATTTATTTATTTT
Found at i:24012349 original size:23 final size:23
Alignment explanation
Indices: 24012292--24012353 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
24012282 TTTTTTAAAA
** *
24012292 TTTTTTTAATTATTATTATTTTAT
1 TTTTTTTTTTTATT-TTATTTAAT
* *
24012316 TTATTTATTTTATTTTATTTAAT
1 TTTTTTTTTTTATTTTATTTAAT
24012339 TTTTTTTTTTTATTT
1 TTTTTTTTTTTATTT
24012354 AGGTGTCTAC
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
23 21 0.68
24 10 0.32
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (23 bp):
TTTTTTTTTTTATTTTATTTAAT
Found at i:24015418 original size:25 final size:25
Alignment explanation
Indices: 24015390--24015437 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
24015380 TAAGTTTTTA
24015390 TAATTAATAAT-TTATTAATTATTAT
1 TAATTAA-AATATTATTAATTATTAT
*
24015415 TAATTAAAATATTATTCATTATT
1 TAATTAAAATATTATTAATTATT
24015438 TTATATCATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 3 0.14
25 18 0.86
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (25 bp):
TAATTAAAATATTATTAATTATTAT
Found at i:24020656 original size:6 final size:6
Alignment explanation
Indices: 24020645--24020700 Score: 67
Period size: 6 Copynumber: 8.8 Consensus size: 6
24020635 GGGTGATTTG
* *
24020645 GAGGAA GAGGAA GAGGAA GAAGAG GAGGAA GAGGAA GAGGAGA TTGAGGAA
1 GAGGAA GAGGAA GAGGAA GAGGAA GAGGAA GAGGAA GAGGA-A --GAGGAA
24020696 GAGGA
1 GAGGA
24020701 GTTAGAGGAT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
6 36 0.84
7 1 0.02
8 1 0.02
9 5 0.12
ACGTcount: A:0.46, C:0.00, G:0.50, T:0.04
Consensus pattern (6 bp):
GAGGAA
Found at i:24020701 original size:15 final size:14
Alignment explanation
Indices: 24020645--24020701 Score: 60
Period size: 15 Copynumber: 3.9 Consensus size: 14
24020635 GGGTGATTTG
*
24020645 GAGGAAGAGGAAGAG
1 GAGGAAGAGG-AGAA
*
24020660 GAAGAAGAGGAGGAA
1 GAGGAAGAGGA-GAA
*
24020675 GAGGAAGAGGAGATT
1 GAGGAAGAGGAGA-A
24020690 GAGGAAGAGGAG
1 GAGGAAGAGGAG
24020702 TTAGAGGATG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
14 3 0.08
15 33 0.92
ACGTcount: A:0.46, C:0.00, G:0.51, T:0.04
Consensus pattern (14 bp):
GAGGAAGAGGAGAA
Found at i:24020708 original size:15 final size:15
Alignment explanation
Indices: 24020663--24020709 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
24020653 GGAAGAGGAA
**
24020663 GAAGAGGAGGAAGAG
1 GAAGAGGAGTTAGAG
24020678 GAAGAGGAGATT-GAG
1 GAAGAGGAG-TTAGAG
24020693 GAAGAGGAGTTAGAG
1 GAAGAGGAGTTAGAG
24020708 GA
1 GA
24020710 TGGCATTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 2 0.07
15 26 0.93
ACGTcount: A:0.43, C:0.00, G:0.49, T:0.09
Consensus pattern (15 bp):
GAAGAGGAGTTAGAG
Found at i:24024774 original size:35 final size:35
Alignment explanation
Indices: 24024723--24024831 Score: 137
Period size: 35 Copynumber: 3.1 Consensus size: 35
24024713 AAAATATTAT
*
24024723 TTTATGTAGAATAATTAAAATAAGTGAAGTGCTAC
1 TTTACGTAGAATAATTAAAATAAGTGAAGTGCTAC
* * ** *
24024758 TTTACTTAGAATAATTAAAATAAATGAAGCACTAT
1 TTTACGTAGAATAATTAAAATAAGTGAAGTGCTAC
* * *
24024793 TTTACGTAGAACAATTAAAATAAGTAAAGTGTTAC
1 TTTACGTAGAATAATTAAAATAAGTGAAGTGCTAC
24024828 TTTA
1 TTTA
24024832 AACAAAACAA
Statistics
Matches: 60, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
35 60 1.00
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.35
Consensus pattern (35 bp):
TTTACGTAGAATAATTAAAATAAGTGAAGTGCTAC
Found at i:24024844 original size:70 final size:70
Alignment explanation
Indices: 24024720--24024864 Score: 182
Period size: 70 Copynumber: 2.1 Consensus size: 70
24024710 AATAAAATAT
* * * *** * *
24024720 TATTTTATGTAGAATAATTAAAATAAGTGAAGTGCTACTTTACTTAGAATAATTAAAATAAATGA
1 TATTTTACGTAGAACAATTAAAATAAGTAAAGTGCTACTTTAAACAAAACAATTAAAATAAATGA
*
24024785 AGCAC
66 AACAC
* *
24024790 TATTTTACGTAGAACAATTAAAATAAGTAAAGTGTTACTTTAAACAAAACAATTAGAATAAATGA
1 TATTTTACGTAGAACAATTAAAATAAGTAAAGTGCTACTTTAAACAAAACAATTAAAATAAATGA
*
24024855 AACAT
66 AACAC
24024860 TATTT
1 TATTT
24024865 CATATGAACA
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
70 63 1.00
ACGTcount: A:0.48, C:0.08, G:0.11, T:0.34
Consensus pattern (70 bp):
TATTTTACGTAGAACAATTAAAATAAGTAAAGTGCTACTTTAAACAAAACAATTAAAATAAATGA
AACAC
Found at i:24025189 original size:26 final size:26
Alignment explanation
Indices: 24025146--24025195 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
24025136 ATACAGCTTC
*
24025146 TTTTTTTGTACCTATTTACGTATAAT
1 TTTTTTTATACCTATTTACGTATAAT
* *
24025172 TTTTTTTATGCCTTTTTACGTATA
1 TTTTTTTATACCTATTTACGTATA
24025196 TTTATTCTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.20, C:0.12, G:0.08, T:0.60
Consensus pattern (26 bp):
TTTTTTTATACCTATTTACGTATAAT
Found at i:24028541 original size:13 final size:13
Alignment explanation
Indices: 24028525--24028551 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
24028515 TATATATAAT
24028525 ATTTATTTAAATA
1 ATTTATTTAAATA
24028538 ATTTATTTAAATA
1 ATTTATTTAAATA
24028551 A
1 A
24028552 AAATGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTTATTTAAATA
Found at i:24039335 original size:19 final size:19
Alignment explanation
Indices: 24039311--24039351 Score: 75
Period size: 18 Copynumber: 2.2 Consensus size: 19
24039301 CGGCAGGCCA
24039311 TTTAAAAGTCTTTGTCCTT
1 TTTAAAAGTCTTTGTCCTT
24039330 TTT-AAAGTCTTTGTCCTT
1 TTTAAAAGTCTTTGTCCTT
24039348 TTTA
1 TTTA
24039352 TTTGAAAAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 18 0.86
19 3 0.14
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (19 bp):
TTTAAAAGTCTTTGTCCTT
Found at i:24043588 original size:46 final size:46
Alignment explanation
Indices: 24043521--24043624 Score: 199
Period size: 46 Copynumber: 2.3 Consensus size: 46
24043511 AATACTATAT
24043521 AACTTGCAAGTAGTTATTAGAGAAAGCTCCATAAGAATGAGTCAAG
1 AACTTGCAAGTAGTTATTAGAGAAAGCTCCATAAGAATGAGTCAAG
24043567 AACTTGCAAGTAGTTATTAGAGAAAGCTCCATAAGAATGAGTCAAG
1 AACTTGCAAGTAGTTATTAGAGAAAGCTCCATAAGAATGAGTCAAG
*
24043613 AACTTGCTAGTA
1 AACTTGCAAGTA
24043625 AGTGCCCAGT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 57 1.00
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.25
Consensus pattern (46 bp):
AACTTGCAAGTAGTTATTAGAGAAAGCTCCATAAGAATGAGTCAAG
Found at i:24047650 original size:2 final size:2
Alignment explanation
Indices: 24047643--24047669 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
24047633 TAATTCACTG
24047643 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 T
24047670 TAATTTGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:24057631 original size:24 final size:23
Alignment explanation
Indices: 24057590--24057648 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 23
24057580 AATGTTGCTT
24057590 ATAAAAAAATAATAATAAGAAAAA
1 ATAAAAAAAT-ATAATAAGAAAAA
* *
24057614 ATAGAAAAAATATGATAATAAAAA
1 ATA-AAAAAATATAATAAGAAAAA
24057638 ATAAAAAAATA
1 ATAAAAAAATA
24057649 ATTAAATATT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
23 8 0.25
24 17 0.53
25 7 0.22
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (23 bp):
ATAAAAAAATATAATAAGAAAAA
Found at i:24059016 original size:33 final size:31
Alignment explanation
Indices: 24058975--24059038 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 31
24058965 ATTTAAATAT
24058975 ATTATTAAT-AAAAATTAAATTAATAAATTAAA
1 ATTATTAATAAAAAATT-AATTAA-AAATTAAA
*
24059007 ATTACTTAATAAAAAATTAATTAAAATTTAAA
1 ATTA-TTAATAAAAAATTAATTAAAAATTAAA
24059039 GTCGTCTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 11 0.38
33 11 0.38
34 7 0.24
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (31 bp):
ATTATTAATAAAAAATTAATTAAAAATTAAA
Found at i:24059828 original size:32 final size:33
Alignment explanation
Indices: 24059784--24059857 Score: 82
Period size: 33 Copynumber: 2.2 Consensus size: 33
24059774 AAGTTTCATA
* *
24059784 TTTATCAGTTTA-TGT-TTTTTCTTTTGTACAAT
1 TTTATCAGTTTATTGTAATTTT-TTTTATACAAT
24059816 TTTATC-GTTTTATTGTAATTTTTTTTATACAAT
1 TTTATCAG-TTTATTGTAATTTTTTTTATACAAT
24059849 TGTTATCAG
1 T-TTATCAG
24059858 CTATGAAGGG
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
31 1 0.03
32 10 0.29
33 14 0.40
34 9 0.26
35 1 0.03
ACGTcount: A:0.22, C:0.08, G:0.09, T:0.61
Consensus pattern (33 bp):
TTTATCAGTTTATTGTAATTTTTTTTATACAAT
Found at i:24065805 original size:24 final size:22
Alignment explanation
Indices: 24065778--24065826 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 22
24065768 GTGATATTTT
*
24065778 AATTAATTTAATTATAATTATAAA
1 AATTAATTTAATT-TAA-AATAAA
*
24065802 AATTTATTTAATTTAAAATAAA
1 AATTAATTTAATTTAAAATAAA
24065824 AAT
1 AAT
24065827 ATCAAAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 8 0.35
23 3 0.13
24 12 0.52
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
AATTAATTTAATTTAAAATAAA
Found at i:24065842 original size:26 final size:26
Alignment explanation
Indices: 24065807--24065875 Score: 66
Period size: 29 Copynumber: 2.5 Consensus size: 26
24065797 ATAAAAATTT
* *
24065807 ATTTAATTTAAAATAAAAATATCAAA
1 ATTTTATTTAAAATAAAAATATAAAA
* *
24065833 ATTTTATTTAACGTAATGAATATATAAAA
1 ATTTTATTTAA---AATAAAAATATAAAA
*
24065862 ATTTTAATTAAAAT
1 ATTTTATTTAAAAT
24065876 TTTTTAAAAG
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
26 13 0.37
29 22 0.63
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (26 bp):
ATTTTATTTAAAATAAAAATATAAAA
Found at i:24065842 original size:31 final size:29
Alignment explanation
Indices: 24065773--24065843 Score: 79
Period size: 31 Copynumber: 2.4 Consensus size: 29
24065763 AATAAGTGAT
* * * *
24065773 ATTTTAATTAATTTAATTATAATTATAAA
1 ATTTTATTTAATTTAAATAAAAATATAAA
*
24065802 AATTTATTTAATTTAAAATAAAAATATCAAA
1 ATTTTATTTAATTT-AAATAAAAATAT-AAA
24065833 ATTTTATTTAA
1 ATTTTATTTAA
24065844 CGTAATGAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 12 0.35
30 9 0.26
31 13 0.38
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (29 bp):
ATTTTATTTAATTTAAATAAAAATATAAA
Found at i:24068885 original size:33 final size:33
Alignment explanation
Indices: 24068822--24068944 Score: 89
Period size: 33 Copynumber: 3.7 Consensus size: 33
24068812 ATAATGTTAT
*
24068822 AATTAAAATAAAATATATAATATAGAAATTAGA
1 AATTAAAATAAAATATAAAATATAGAAATTAGA
*
24068855 AATTAAAAT-AAAT-TAAAATATAAGANAATTAAAA
1 AATTAAAATAAAATATAAAATAT-AGA-AATT-AGA
*
24068889 AATTGAAAA-AAAA-A-AAAATAATA-AAATCA-A
1 AATT-AAAATAAAATATAAAAT-ATAGAAATTAGA
* *
24068919 TAATAAAAAATAAAAAATAAAATATA
1 -AAT-TAAAATAAAATATAAAATATA
24068945 TGACATTAAA
Statistics
Matches: 74, Mismatches: 4, Indels: 24
0.73 0.04 0.24
Matches are distributed among these distances:
30 1 0.01
31 15 0.20
32 14 0.19
33 18 0.24
34 17 0.23
35 9 0.12
ACGTcount: A:0.71, C:0.01, G:0.03, T:0.24
Consensus pattern (33 bp):
AATTAAAATAAAATATAAAATATAGAAATTAGA
Found at i:24068932 original size:7 final size:7
Alignment explanation
Indices: 24068884--24068940 Score: 60
Period size: 7 Copynumber: 7.7 Consensus size: 7
24068874 ATAAGANAAT
24068884 TAAAAAA
1 TAAAAAA
24068891 TTGAAAAAA
1 -T-AAAAAA
*
24068900 AAAAAAA
1 TAAAAAA
24068907 TAATAAAA
1 TAA-AAAA
* *
24068915 TCAATAA
1 TAAAAAA
24068922 TAAAAAA
1 TAAAAAA
24068929 TAAAAAA
1 TAAAAAA
24068936 TAAAA
1 TAAAA
24068941 TATATGACAT
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
7 28 0.68
8 7 0.17
9 6 0.15
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.18
Consensus pattern (7 bp):
TAAAAAA
Found at i:24073424 original size:11 final size:10
Alignment explanation
Indices: 24073405--24073448 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
24073395 AAAAAAAATA
24073405 TAAAATTTTT
1 TAAAATTTTT
24073415 TAAAATTTTT
1 TAAAATTTTT
** **
24073425 TTGAATAATT
1 TAAAATTTTT
24073435 TAAAATTTTT
1 TAAAATTTTT
24073445 TAAA
1 TAAA
24073449 TATTATATCA
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (10 bp):
TAAAATTTTT
Found at i:24073445 original size:19 final size:20
Alignment explanation
Indices: 24073413--24073450 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
24073403 TATAAAATTT
*
24073413 TTTAAAATTTTTTTGAATAA
1 TTTAAAATTTTTTTAAATAA
24073433 TTTAAAA-TTTTTTAAATA
1 TTTAAAATTTTTTTAAATA
24073451 TTATATCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (20 bp):
TTTAAAATTTTTTTAAATAA
Found at i:24077163 original size:80 final size:80
Alignment explanation
Indices: 24077030--24077193 Score: 319
Period size: 80 Copynumber: 2.0 Consensus size: 80
24077020 GGGTTGTTGG
24077030 TATTCTTTTTCCTGCAATTGTGTTTGTCTCTCTGTCACCCATTACTGAACAAGGACAGAGATATT
1 TATTCTTTTTCCTGCAATTGTGTTTGTCTCTCTGTCACCCATTACTGAACAAGGACAGAGATATT
24077095 TAATGAACTATTTAA
66 TAATGAACTATTTAA
24077110 TATTCTTTTTCCTGCAATTGTGTTTGTCTCTCTGTCACCCATTACTGAACAAGGACAGAGATATT
1 TATTCTTTTTCCTGCAATTGTGTTTGTCTCTCTGTCACCCATTACTGAACAAGGACAGAGATATT
*
24077175 TAATGAACTGTTTAA
66 TAATGAACTATTTAA
24077190 TATT
1 TATT
24077194 TATACAACAT
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 83 1.00
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.41
Consensus pattern (80 bp):
TATTCTTTTTCCTGCAATTGTGTTTGTCTCTCTGTCACCCATTACTGAACAAGGACAGAGATATT
TAATGAACTATTTAA
Found at i:24086280 original size:57 final size:57
Alignment explanation
Indices: 24086219--24086340 Score: 174
Period size: 57 Copynumber: 2.1 Consensus size: 57
24086209 AAGAGGTGGT
* * * * *
24086219 GGTGGTGGTGGAAGTTG-TGCTCTTGTTGCTACTACCTTTGACTGCAATGGAACTGGA
1 GGTGGTGGTGGAAG-GGATGCTCCTGTCGCCACTACATTTGACTGCAATGGAACTGGA
*
24086276 GGTGGTGGTGGAAGGGATGCTCCTGTCGCCACTACATTTGACTGCAATGGAGCTGGA
1 GGTGGTGGTGGAAGGGATGCTCCTGTCGCCACTACATTTGACTGCAATGGAACTGGA
24086333 GGTGGTGG
1 GGTGGTGG
24086341 CGGCGGCGGA
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
56 1 0.02
57 57 0.98
ACGTcount: A:0.17, C:0.16, G:0.38, T:0.29
Consensus pattern (57 bp):
GGTGGTGGTGGAAGGGATGCTCCTGTCGCCACTACATTTGACTGCAATGGAACTGGA
Found at i:24102473 original size:65 final size:65
Alignment explanation
Indices: 24102394--24102521 Score: 256
Period size: 65 Copynumber: 2.0 Consensus size: 65
24102384 TAACTTTTTT
24102394 AATAGAAATGAAATTTCTACCTTTACAATTGATTTTGGATATATATAGTTCCTCTTTTTCTAAAA
1 AATAGAAATGAAATTTCTACCTTTACAATTGATTTTGGATATATATAGTTCCTCTTTTTCTAAAA
24102459 AATAGAAATGAAATTTCTACCTTTACAATTGATTTTGGATATATATAGTTCCTCTTTTTCTAA
1 AATAGAAATGAAATTTCTACCTTTACAATTGATTTTGGATATATATAGTTCCTCTTTTTCTAA
24102522 CTAATTTTGC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 63 1.00
ACGTcount: A:0.34, C:0.12, G:0.09, T:0.44
Consensus pattern (65 bp):
AATAGAAATGAAATTTCTACCTTTACAATTGATTTTGGATATATATAGTTCCTCTTTTTCTAAAA
Found at i:24112725 original size:68 final size:68
Alignment explanation
Indices: 24112616--24112750 Score: 243
Period size: 68 Copynumber: 2.0 Consensus size: 68
24112606 AGGAGCACTT
* *
24112616 TCTTAGGAGTAGTTAGAAGAGTACGTTCAGTAATGGGAGAATGTGTTTGTTATGAAAGAGCAGAT
1 TCTTAGGAATAGTTAGAAGAGTACGTTCAGTAATGGGAGAATGTGCTTGTTATGAAAGAGCAGAT
24112681 AAA
66 AAA
*
24112684 TCTTAGGAATAGTTAGAAGAGTACGTTCAGTAATGGGAGAATGTGCTTGTTATGGAAGAGCAGAT
1 TCTTAGGAATAGTTAGAAGAGTACGTTCAGTAATGGGAGAATGTGCTTGTTATGAAAGAGCAGAT
24112749 AA
66 AA
24112751 CGAACGGTTT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
68 64 1.00
ACGTcount: A:0.35, C:0.07, G:0.30, T:0.29
Consensus pattern (68 bp):
TCTTAGGAATAGTTAGAAGAGTACGTTCAGTAATGGGAGAATGTGCTTGTTATGAAAGAGCAGAT
AAA
Found at i:24114249 original size:15 final size:16
Alignment explanation
Indices: 24114229--24114258 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
24114219 CTTTCGGTGG
24114229 CAAAAGA-AAAGAAAC
1 CAAAAGAGAAAGAAAC
24114244 CAAAAGAGAAAGAAA
1 CAAAAGAGAAAGAAA
24114259 ATACATGTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.73, C:0.10, G:0.17, T:0.00
Consensus pattern (16 bp):
CAAAAGAGAAAGAAAC
Found at i:24117079 original size:2 final size:2
Alignment explanation
Indices: 24117067--24117101 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
24117057 CATGGATTAG
24117067 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
24117102 AATTTTAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:24118476 original size:85 final size:85
Alignment explanation
Indices: 24118333--24118498 Score: 287
Period size: 85 Copynumber: 2.0 Consensus size: 85
24118323 ACTAAAATGA
*
24118333 TCTGATGTTTAACAAGATTTGGTAGGGCTCAGGATCATATCTTACAAGGTGGCCTAAAGCCCATT
1 TCTGATGTTTAACAAGATTTGGTAGGGCTCAGGATCATATCTTACAAAGTGGCCTAAAGCCCATT
* *
24118398 GGTTTACTATTGGTTTATGT
66 GGTTTAATATCGGTTTATGT
* *
24118418 TCTGATGTTTAACAAGATTTTGTAGGGCTCAGGATCATATCTTACAAAGTGGGCTAAAGCCCATT
1 TCTGATGTTTAACAAGATTTGGTAGGGCTCAGGATCATATCTTACAAAGTGGCCTAAAGCCCATT
24118483 GGTTTAATATCGGTTT
66 GGTTTAATATCGGTTT
24118499 CTGATTTTTC
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
85 76 1.00
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (85 bp):
TCTGATGTTTAACAAGATTTGGTAGGGCTCAGGATCATATCTTACAAAGTGGCCTAAAGCCCATT
GGTTTAATATCGGTTTATGT
Found at i:24120019 original size:22 final size:22
Alignment explanation
Indices: 24119994--24120049 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
24119984 CCATTAGTTA
24119994 TTAGGTATTATATTACTGATTT
1 TTAGGTATTATATTACTGATTT
** * *
24120016 TTAGACATTGTGTTACTGATTT
1 TTAGGTATTATATTACTGATTT
24120038 TTAGGTATTATA
1 TTAGGTATTATA
24120050 AAATTAGTTT
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.27, C:0.05, G:0.16, T:0.52
Consensus pattern (22 bp):
TTAGGTATTATATTACTGATTT
Found at i:24121800 original size:8 final size:8
Alignment explanation
Indices: 24121787--24121811 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
24121777 CAAAATTACC
24121787 TCTCTCTG
1 TCTCTCTG
24121795 TCTCTCTG
1 TCTCTCTG
24121803 TCTCTCTG
1 TCTCTCTG
24121811 T
1 T
24121812 TTTCCCCCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.00, C:0.36, G:0.12, T:0.52
Consensus pattern (8 bp):
TCTCTCTG
Found at i:24138302 original size:16 final size:16
Alignment explanation
Indices: 24138281--24138312 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
24138271 TTTGGTGAGA
24138281 TGCTCTAAAACCCCAC
1 TGCTCTAAAACCCCAC
24138297 TGCTCTAAAACCCCAC
1 TGCTCTAAAACCCCAC
24138313 GACCGATCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.44, G:0.06, T:0.19
Consensus pattern (16 bp):
TGCTCTAAAACCCCAC
Found at i:24139337 original size:94 final size:92
Alignment explanation
Indices: 24139132--24139413 Score: 365
Period size: 94 Copynumber: 3.0 Consensus size: 92
24139122 CCAAACTTAT
* * * * * *
24139132 AATAGAATGTGTAGTAACTCAATCTCTCTTAAAATTCTATCTTTAGCTGGTTTATCTGCACCACT
1 AATAGAATATGTAGTAACTCAATCTCTCTCAAAA-CCTATCTTTAGCTAGTTGATATGCACCACT
*
24139197 TTTCATTAGTTACATTTAACA-TTGAAA
65 TTACATTAGTTACATTTAACACTTGAAA
*
24139224 AATAGAATATGTAGTAACTCAATCTCTCTCAAAACCATATCTTTA-CTTTAGCTGATATGCACCA
1 AATAGAATATGTAGTAACTCAATCTCTCTCAAAACC-TATCTTTAGC--TAGTTGATATGCACCA
24139288 CTTTACATTAGTTACATTTAACACTTGAAA
63 CTTTACATTAGTTACATTTAACACTTGAAA
* *
24139318 AATA-AATTATGTAGTAACTCAATCTCTCTCAAAGCTCTATCTCTTAGCTAGTTGATATGCACCC
1 AATAGAA-TATGTAGTAACTCAATCTCTCTCAAAAC-CTATCT-TTAGCTAGTTGATATGCACCA
* *
24139382 CTTTACATTAGTTACAATTAATAC-TGAAA
63 CTTTACATTAGTTACATTTAACACTTGAAA
24139411 AAT
1 AAT
24139414 GATATGAGAG
Statistics
Matches: 169, Mismatches: 13, Indels: 15
0.86 0.07 0.08
Matches are distributed among these distances:
91 2 0.01
92 40 0.24
93 44 0.26
94 78 0.46
95 4 0.02
96 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.10, T:0.37
Consensus pattern (92 bp):
AATAGAATATGTAGTAACTCAATCTCTCTCAAAACCTATCTTTAGCTAGTTGATATGCACCACTT
TACATTAGTTACATTTAACACTTGAAA
Found at i:24139796 original size:53 final size:55
Alignment explanation
Indices: 24139731--24139839 Score: 177
Period size: 56 Copynumber: 2.0 Consensus size: 55
24139721 TTAGCTTCAC
24139731 ATGCATGGAAGTG-TT-TTTTTTTTTTCATAATCAAGTTGATTTAGTGATCTAAA
1 ATGCATGGAAGTGTTTATTTTTTTTTTCATAATCAAGTTGATTTAGTGATCTAAA
* *
24139784 ATGCATGTAAGTGTTTTATTTTTTTTTTCATAGTCAAGTTGATTTAGTGATCTAAA
1 ATGCATGGAAGTG-TTTATTTTTTTTTTCATAATCAAGTTGATTTAGTGATCTAAA
24139840 CTTGTATAAT
Statistics
Matches: 51, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
53 12 0.24
55 2 0.04
56 37 0.73
ACGTcount: A:0.28, C:0.07, G:0.17, T:0.49
Consensus pattern (55 bp):
ATGCATGGAAGTGTTTATTTTTTTTTTCATAATCAAGTTGATTTAGTGATCTAAA
Found at i:24139988 original size:17 final size:17
Alignment explanation
Indices: 24139966--24140000 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
24139956 ATGCCCATAA
*
24139966 ATTTTAGATGATAAGAT
1 ATTTTAAATGATAAGAT
24139983 ATTTTAAATGATAAGAT
1 ATTTTAAATGATAAGAT
24140000 A
1 A
24140001 GACTTGAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.14, T:0.40
Consensus pattern (17 bp):
ATTTTAAATGATAAGAT
Found at i:24142190 original size:1 final size:1
Alignment explanation
Indices: 24142186--24142313 Score: 256
Period size: 1 Copynumber: 128.0 Consensus size: 1
24142176 AAAAAACCAA
24142186 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
24142251 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
24142314 AAAAAAAAAT
Statistics
Matches: 127, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 127 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:24148091 original size:18 final size:18
Alignment explanation
Indices: 24148065--24148099 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
24148055 ATAAAAAAAA
* *
24148065 AAATTATTTAAATATTTT
1 AAATAATTTAAAGATTTT
24148083 AAATAATTTAAAGATTT
1 AAATAATTTAAAGATTT
24148100 ATTTGAGTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (18 bp):
AAATAATTTAAAGATTTT
Found at i:24149769 original size:29 final size:30
Alignment explanation
Indices: 24149692--24149769 Score: 72
Period size: 29 Copynumber: 2.6 Consensus size: 30
24149682 AATCATTAGT
* *
24149692 TATAAAAATTTATTT-GATTTAAAATAAAAA
1 TATAAAAATTTATTTAAATGT-AAATAAAAA
* * *
24149722 TATAAAAACTTGA-TAAAATGT-AATACAAA
1 TATAAAAA-TTTATTTAAATGTAAATAAAAA
24149751 TATAAAAATTTATTTAAAT
1 TATAAAAATTTATTTAAAT
24149770 TTTTTAAAAT
Statistics
Matches: 38, Mismatches: 7, Indels: 7
0.73 0.13 0.13
Matches are distributed among these distances:
28 3 0.08
29 20 0.53
30 9 0.24
31 6 0.16
ACGTcount: A:0.56, C:0.03, G:0.04, T:0.37
Consensus pattern (30 bp):
TATAAAAATTTATTTAAATGTAAATAAAAA
Found at i:24158560 original size:25 final size:25
Alignment explanation
Indices: 24158526--24158573 Score: 80
Period size: 25 Copynumber: 1.9 Consensus size: 25
24158516 GGGCTTGGAT
24158526 TAAACCACGTGGACC-TCAAAAGCCC
1 TAAACCACGT-GACCTTCAAAAGCCC
24158551 TAAACCACGTGACCTTCAAAAGC
1 TAAACCACGTGACCTTCAAAAGC
24158574 TTAAACTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.38, C:0.33, G:0.15, T:0.15
Consensus pattern (25 bp):
TAAACCACGTGACCTTCAAAAGCCC
Found at i:24158578 original size:24 final size:25
Alignment explanation
Indices: 24158525--24158579 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 25
24158515 TGGGCTTGGA
24158525 TTAAACCACGTGGACCTCAAAAGCC
1 TTAAACCACGTGGACCTCAAAAGCC
*
24158550 CTAAACCACGT-GACCTTCAAAAG-C
1 TTAAACCACGTGGACC-TCAAAAGCC
24158574 TTAAAC
1 TTAAAC
24158580 TCAAGTTGCT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 10 0.37
25 17 0.63
ACGTcount: A:0.38, C:0.31, G:0.13, T:0.18
Consensus pattern (25 bp):
TTAAACCACGTGGACCTCAAAAGCC
Found at i:24158622 original size:83 final size:83
Alignment explanation
Indices: 24158483--24158694 Score: 325
Period size: 83 Copynumber: 2.6 Consensus size: 83
24158473 TGGATGGCCA
* * * *
24158483 TCAAAAACTTAAACTCAAGTTGTTAGTAGTGATGGGCTTGGATTAAACCACGTGGACCTCAAAAG
1 TCAAAAGCTTAAACTCAAGTTGCTAGTAGTGATAGGCTTGGATTAAACCACGTGGACCTCAAAAA
* *
24158548 CCCTAAACCACGTGACCT
66 CCCTAAACCACGTAACCC
* *
24158566 TCAAAAGCTTAAACTCAAGTTGCTAATAGTGATAAGCTTGGATTAAACCACGTGGACCTCAAAAA
1 TCAAAAGCTTAAACTCAAGTTGCTAGTAGTGATAGGCTTGGATTAAACCACGTGGACCTCAAAAA
*
24158631 TCCTAAACCACGTAACCC
66 CCCTAAACCACGTAACCC
* *
24158649 TCAAAAGCTTAAACTTAAATTGCTAGTAGTGATAGGCTTGGATTAA
1 TCAAAAGCTTAAACTCAAGTTGCTAGTAGTGATAGGCTTGGATTAA
24158695 CATTTTTCTA
Statistics
Matches: 116, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
83 116 1.00
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.25
Consensus pattern (83 bp):
TCAAAAGCTTAAACTCAAGTTGCTAGTAGTGATAGGCTTGGATTAAACCACGTGGACCTCAAAAA
CCCTAAACCACGTAACCC
Found at i:24158661 original size:24 final size:25
Alignment explanation
Indices: 24158608--24158662 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
24158598 TAAGCTTGGA
* *
24158608 TTAAACCACGTGGACCTCAAAAATC
1 TTAAACCACGTGAACCTCAAAAAGC
*
24158633 CTAAACCACGT-AACCCTC-AAAAGC
1 TTAAACCACGTGAA-CCTCAAAAAGC
24158657 TTAAAC
1 TTAAAC
24158663 TTAAATTGCT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
24 11 0.44
25 14 0.56
ACGTcount: A:0.42, C:0.31, G:0.09, T:0.18
Consensus pattern (25 bp):
TTAAACCACGTGAACCTCAAAAAGC
Found at i:24169274 original size:28 final size:30
Alignment explanation
Indices: 24169234--24169290 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
24169224 AAAAATTGTG
24169234 AAAAATAACTA-TTTTCATAAATTTAATTT
1 AAAAATAACTATTTTTCATAAATTTAATTT
* * *
24169263 AAAAAT-ATTATTTTTTATAATTTTAATT
1 AAAAATAACTATTTTTCATAAATTTAATT
24169291 ATTTTTATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 3 0.12
29 21 0.88
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.51
Consensus pattern (30 bp):
AAAAATAACTATTTTTCATAAATTTAATTT
Found at i:24169293 original size:19 final size:19
Alignment explanation
Indices: 24169269--24169305 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
24169259 ATTTAAAAAT
24169269 ATTATTTTT-TATAATTTTA
1 ATTATTTTTAT-TAATTTTA
24169288 ATTATTTTTATTAATTTT
1 ATTATTTTTATTAATTTT
24169306 TGACATGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 16 0.94
20 1 0.06
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
ATTATTTTTATTAATTTTA
Found at i:24169975 original size:22 final size:22
Alignment explanation
Indices: 24169950--24170004 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
24169940 GTATTGTGTA
*
24169950 ACTAATTTTTAGGCATTACGTG
1 ACTAATTTTTAGACATTACGTG
*
24169972 ACTAGTTTTTAGACATTACGTG
1 ACTAATTTTTAGACATTACGTG
*
24169994 ACTGATTTTTA
1 ACTAATTTTTA
24170005 AGCAATGTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.27, C:0.13, G:0.16, T:0.44
Consensus pattern (22 bp):
ACTAATTTTTAGACATTACGTG
Found at i:24170103 original size:26 final size:25
Alignment explanation
Indices: 24170064--24170132 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
24170054 TACTAACAAG
*
24170064 TCACGCAATGCCTTATCAGAAACTAC
1 TCACGCAATACCTTATCA-AAACTAC
* *
24170090 TCACGTAATACCTTATCAAAACTAG
1 TCACGCAATACCTTATCAAAACTAC
24170115 TCACGCAATACC-TATCAA
1 TCACGCAATACCTTATCAA
24170133 CTAGTCACAC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
24 6 0.15
25 17 0.44
26 16 0.41
ACGTcount: A:0.38, C:0.29, G:0.09, T:0.25
Consensus pattern (25 bp):
TCACGCAATACCTTATCAAAACTAC
Found at i:24170137 original size:22 final size:24
Alignment explanation
Indices: 24170018--24170145 Score: 93
Period size: 23 Copynumber: 5.4 Consensus size: 24
24170008 AATGTTTAAA
* * *
24170018 TCACACAATGCCTTAT-TAACTAG
1 TCACGCAATACCTTATCAAACTAG
* ** * *
24170041 TCACGTAATGTCTTA-CTAACAAG
1 TCACGCAATACCTTATCAAACTAG
* *
24170064 TCACGCAATGCCTTATCAGAAACTAC
1 TCACGCAATACCTTATC--AAACTAG
*
24170090 TCACGTAATACCTTATCAAAACTAG
1 TCACGCAATACCTTATC-AAACTAG
24170115 TCACGCAATACC-TATC-AACTAG
1 TCACGCAATACCTTATCAAACTAG
*
24170137 TCACACAAT
1 TCACGCAAT
24170146 GTTTTATCAG
Statistics
Matches: 86, Mismatches: 15, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
22 14 0.16
23 31 0.36
24 5 0.06
25 17 0.20
26 19 0.22
ACGTcount: A:0.37, C:0.27, G:0.09, T:0.27
Consensus pattern (24 bp):
TCACGCAATACCTTATCAAACTAG
Found at i:24170172 original size:26 final size:25
Alignment explanation
Indices: 24170035--24170197 Score: 95
Period size: 26 Copynumber: 6.6 Consensus size: 25
24170025 ATGCCTTATT
* *
24170035 AACTAGTCACGTAATGTCTTA-C-T
1 AACTAATCACGTAATGTCTTATCAA
* *
24170058 AAC-AAGTCACGCAATGCCTTATCAGA
1 AACTAA-TCACGTAATGTCTTATCA-A
* **
24170084 AACTACTCACGTAATACCTTATCAA
1 AACTAATCACGTAATGTCTTATCAA
* * * *
24170109 AACTAGTCACGCAAT-ACCTATC--
1 AACTAATCACGTAATGTCTTATCAA
* ** *
24170131 AACTAGTCACACAATGTTTTATCAGA
1 AACTAATCACGTAATGTCTTATCA-A
*
24170157 AACTAATCATGTAATGTCTTATCAA
1 AACTAATCACGTAATGTCTTATCAA
* *
24170182 AATTAGTCACGTAATG
1 AACTAATCACGTAATG
24170198 CCCAAAGTTA
Statistics
Matches: 108, Mismatches: 23, Indels: 16
0.73 0.16 0.11
Matches are distributed among these distances:
22 15 0.14
23 20 0.19
24 6 0.06
25 28 0.26
26 38 0.35
27 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.11, T:0.29
Consensus pattern (25 bp):
AACTAATCACGTAATGTCTTATCAA
Found at i:24170208 original size:21 final size:21
Alignment explanation
Indices: 24170186--24170301 Score: 169
Period size: 21 Copynumber: 5.5 Consensus size: 21
24170176 TATCAAAATT
* * *
24170186 AGTCACGTAATGCCCAAAGTT
1 AGTCACGCAATGTCCAAAGTC
*
24170207 AGTCACGCAATGCCCAAAGTC
1 AGTCACGCAATGTCCAAAGTC
*
24170228 AGTCACGCAATATCCAAAGTC
1 AGTCACGCAATGTCCAAAGTC
*
24170249 AGTCATGCAATGTCCAAAGTC
1 AGTCACGCAATGTCCAAAGTC
*
24170270 AGTCACGCAATATCCAAAGTC
1 AGTCACGCAATGTCCAAAGTC
24170291 AGTCACGCAAT
1 AGTCACGCAAT
24170302 ACCTAAAAAC
Statistics
Matches: 87, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 87 1.00
ACGTcount: A:0.35, C:0.28, G:0.17, T:0.20
Consensus pattern (21 bp):
AGTCACGCAATGTCCAAAGTC
Found at i:24170319 original size:22 final size:21
Alignment explanation
Indices: 24170207--24170332 Score: 94
Period size: 21 Copynumber: 6.0 Consensus size: 21
24170197 GCCCAAAGTT
** **
24170207 AGTCACGCAATGCCCAAAGTC
1 AGTCACGCAATATCCAAAAAC
**
24170228 AGTCACGCAATATCCAAAGTC
1 AGTCACGCAATATCCAAAAAC
* * **
24170249 AGTCATGCAATGTCCAAAGTC
1 AGTCACGCAATATCCAAAAAC
**
24170270 AGTCACGCAATATCCAAAGTC
1 AGTCACGCAATATCCAAAAAC
24170291 AGTCACGCAATA-CCTAAAAAC
1 AGTCACGCAATATCC-AAAAAC
*
24170312 TAGTCACGTAAT-TCTCAAAAA
1 -AGTCACGCAATATC-CAAAAA
24170333 TCACCAAAAC
Statistics
Matches: 92, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
20 2 0.02
21 73 0.79
22 16 0.17
23 1 0.01
ACGTcount: A:0.39, C:0.27, G:0.14, T:0.20
Consensus pattern (21 bp):
AGTCACGCAATATCCAAAAAC
Found at i:24181782 original size:35 final size:33
Alignment explanation
Indices: 24181717--24181785 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 33
24181707 AAATTAATGG
* *
24181717 AACAGATACATAACACTCACAAATGAACATGCA
1 AACAGAAACATAAAACTCACAAATGAACATGCA
24181750 AACAGAAACATACAAACTCACAAAATGAACATGCA
1 AACAGAAACATA-AAACTCAC-AAATGAACATGCA
24181785 A
1 A
24181786 GAGAACCTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 11 0.34
34 7 0.22
35 14 0.44
ACGTcount: A:0.55, C:0.23, G:0.09, T:0.13
Consensus pattern (33 bp):
AACAGAAACATAAAACTCACAAATGAACATGCA
Found at i:24186099 original size:8 final size:7
Alignment explanation
Indices: 24186086--24186120 Score: 52
Period size: 7 Copynumber: 4.7 Consensus size: 7
24186076 AAAAATGAAA
24186086 TTTTTATT
1 TTTTTA-T
24186094 TTTTTAT
1 TTTTTAT
24186101 TTTTTAT
1 TTTTTAT
24186108 TTTTTAGT
1 TTTTTA-T
24186116 TTTTT
1 TTTTT
24186121 TCGGTTGAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 14 0.54
8 12 0.46
ACGTcount: A:0.11, C:0.00, G:0.03, T:0.86
Consensus pattern (7 bp):
TTTTTAT
Found at i:24186642 original size:23 final size:24
Alignment explanation
Indices: 24186602--24186646 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
24186592 TTTAATTAAA
*
24186602 AATAAAAATATAATAATTAAATGT
1 AATAAAAATATAAAAATTAAATGT
24186626 AATAAAAAT-TAAAAATTAAAT
1 AATAAAAATATAAAAATTAAAT
24186647 TTTTATATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (24 bp):
AATAAAAATATAAAAATTAAATGT
Found at i:24188098 original size:21 final size:22
Alignment explanation
Indices: 24188063--24188106 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
24188053 AAAAAATAAT
24188063 TTTTTATTATATTTAATTTAAA
1 TTTTTATTATATTTAATTTAAA
* *
24188085 TTTTTA-TATTTTTATTTTAAA
1 TTTTTATTATATTTAATTTAAA
24188106 T
1 T
24188107 CAAATTAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (22 bp):
TTTTTATTATATTTAATTTAAA
Found at i:24197324 original size:21 final size:21
Alignment explanation
Indices: 24197285--24197324 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
24197275 CGACACCCGA
*
24197285 GCGGGGAGGTGGGACCTCGTG
1 GCGGGGAGGTGGCACCTCGTG
* *
24197306 GCGGGGATGTGGCAGCTCG
1 GCGGGGAGGTGGCACCTCG
24197325 ATGTGCCACC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.10, C:0.20, G:0.55, T:0.15
Consensus pattern (21 bp):
GCGGGGAGGTGGCACCTCGTG
Found at i:24208713 original size:2 final size:2
Alignment explanation
Indices: 24208706--24208744 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
24208696 GTGAAAATCT
*
24208706 TA TA TA TA TA TA TA T- TA TA TA TA TA TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
24208745 CAAAATACAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:24209982 original size:22 final size:20
Alignment explanation
Indices: 24209952--24210010 Score: 73
Period size: 22 Copynumber: 2.8 Consensus size: 20
24209942 GAACAAATAG
*
24209952 AATAAAAATGAAAAAAATAAA
1 AATATAAAT-AAAAAAATAAA
24209973 CAATATAAATAAAAATAATAAA
1 -AATATAAATAAAAA-AATAAA
24209995 AATATAAACTAAAAAA
1 AATATAAA-TAAAAAA
24210011 TTTAAAGTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
21 14 0.41
22 20 0.59
ACGTcount: A:0.76, C:0.03, G:0.02, T:0.19
Consensus pattern (20 bp):
AATATAAATAAAAAAATAAA
Found at i:24209983 original size:28 final size:28
Alignment explanation
Indices: 24209943--24209998 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
24209933 ATAACATATG
24209943 AACAAATAGAATAAAAATGAA-AAAAATA
1 AACAAATAGAATAAAAAT-AATAAAAATA
24209971 AACAATATA-AATAAAAATAATAAAAATA
1 AACAA-ATAGAATAAAAATAATAAAAATA
24209999 TAAACTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
27 2 0.08
28 21 0.81
29 3 0.12
ACGTcount: A:0.75, C:0.04, G:0.04, T:0.18
Consensus pattern (28 bp):
AACAAATAGAATAAAAATAATAAAAATA
Found at i:24215184 original size:18 final size:20
Alignment explanation
Indices: 24215161--24215202 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
24215151 TTTAGATTTT
*
24215161 TTTTATG-ATATTAATTAC-
1 TTTTATGCATATAAATTACA
24215179 TTTTATGCATATAAATTACA
1 TTTTATGCATATAAATTACA
24215199 TTTT
1 TTTT
24215203 TACCTTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.33
19 10 0.48
20 4 0.19
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (20 bp):
TTTTATGCATATAAATTACA
Found at i:24218185 original size:16 final size:16
Alignment explanation
Indices: 24218133--24218186 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
24218123 GAAAAAAATC
*
24218133 TATAAAA-ATTTAAAA
1 TATAAAATAATTAAAA
*
24218148 TATATAAATAAATAAAA
1 TATA-AAATAATTAAAA
* *
24218165 AATAAAATAATTATAA
1 TATAAAATAATTAAAA
24218181 TATAAA
1 TATAAA
24218187 TTGAAAGAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
15 4 0.13
16 18 0.58
17 9 0.29
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
TATAAAATAATTAAAA
Found at i:24218198 original size:33 final size:31
Alignment explanation
Indices: 24218149--24218209 Score: 79
Period size: 33 Copynumber: 1.9 Consensus size: 31
24218139 AATTTAAAAT
*
24218149 ATATAAATAAATAAAAAA-TAAAATAATTATA
1 ATATAAATAAAGAAAAAATTAAAA-AATTATA
24218180 ATATAAATTGAAAGAAAAAATTAAAAAATT
1 ATATAAA-T-AAAGAAAAAATTAAAAAATT
24218210 TTAAATTTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
31 7 0.27
32 1 0.04
33 13 0.50
34 5 0.19
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (31 bp):
ATATAAATAAAGAAAAAATTAAAAAATTATA
Found at i:24225209 original size:25 final size:25
Alignment explanation
Indices: 24225174--24225227 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
24225164 GAGGTTCCAC
*
24225174 AAATATATTAGTTACTGATAATACA
1 AAATATATTAGTTACTAATAATACA
* **
24225199 AAATATGTTAGTTGTTAATAATACA
1 AAATATATTAGTTACTAATAATACA
24225224 AAAT
1 AAAT
24225228 TTTTGTTGGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.48, C:0.06, G:0.09, T:0.37
Consensus pattern (25 bp):
AAATATATTAGTTACTAATAATACA
Found at i:24225606 original size:21 final size:22
Alignment explanation
Indices: 24225582--24225623 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
24225572 TTGAAGCTGG
*
24225582 TCAATACAAA-ATACTAATTAT
1 TCAACACAAACATACTAATTAT
*
24225603 TCAACACAAACATACTCATTA
1 TCAACACAAACATACTAATTA
24225624 AATCACATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.50, C:0.21, G:0.00, T:0.29
Consensus pattern (22 bp):
TCAACACAAACATACTAATTAT
Found at i:24234965 original size:111 final size:107
Alignment explanation
Indices: 24234683--24234986 Score: 306
Period size: 111 Copynumber: 2.8 Consensus size: 107
24234673 CTGAGGGAAG
* * * * * *
24234683 CATTACTGGAAGTCAGATTCCTAGGAGGGAATCAAACCCCACTTCTGATGGGATCATTACTGGAG
1 CATTACTGGAAGTCAAATTTCTAGAAGGGAATC-AACCTCACTTCCGATGGGATCATTACTGGAA
**
24234748 ATCAAATTTCTAGAAGGGAATTAACTGTCACCCCTGATAGGAT
65 ATCAAATTTCTAGAAGGGAACAAACTGTCACCCCTGATAGGAT
* * * * *
24234791 CATTACTGGAAATCAAATTTCTAGAAAGGAATCAACCATCAC-CCCTGATAGGATCATTCCTGGA
1 CATTACTGGAAGTCAAATTTCTAGAAGGGAATCAACC-TCACTTCC-GATGGGATCATTACTGGA
* * * * *
24234855 AATCAGATTTCTAGAAGGGAACCAAACTCTTCTCCATCTGGT-GGCAT
64 AATCAAATTTCTAGAAGGGAA-CAAACT-GTCACC-CCTGATAGG-AT
* * * * *
24234902 CTTTACTGGAAGTCAAATTTCTAGAAGGGAGTCAACCTCTGCTTCCGATGGGATTATTGCTGGAA
1 CATTACTGGAAGTCAAATTTCTAGAAGGGAATCAACCTC-ACTTCCGATGGGATCATTACTGGAA
*
24234967 ACCAAATTTCTAGAAGGGAA
65 ATCAAATTTCTAGAAGGGAA
24234987 TCAACTTCTG
Statistics
Matches: 159, Mismatches: 29, Indels: 13
0.79 0.14 0.06
Matches are distributed among these distances:
107 5 0.03
108 66 0.42
109 4 0.03
110 8 0.05
111 74 0.47
112 2 0.01
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.27
Consensus pattern (107 bp):
CATTACTGGAAGTCAAATTTCTAGAAGGGAATCAACCTCACTTCCGATGGGATCATTACTGGAAA
TCAAATTTCTAGAAGGGAACAAACTGTCACCCCTGATAGGAT
Found at i:24235006 original size:54 final size:54
Alignment explanation
Indices: 24234644--24235013 Score: 282
Period size: 54 Copynumber: 6.8 Consensus size: 54
24234634 CTGAAAGTCT
*** * * *
24234644 AATTTCTAGAACAAAATCAACTTCTGGC-TCTGA-GGGAAGCATTACTGGAAGTCA
1 AATTTCTAGAAGGGAATCAACTTCT-ACTTCTGATGGG-ATCATTACTGGAAATCA
* * * * * *
24234698 GATTCCTAGGAGGGAATCAAAC-CCCACTTCTGATGGGATCATTACTGGAGATCA
1 AATTTCTAGAAGGGAATC-AACTTCTACTTCTGATGGGATCATTACTGGAAATCA
* ** *
24234752 AATTTCTAGAAGGGAATTAACTGTC-ACCCCTGATAGGATCATTACTGGAAATCA
1 AATTTCTAGAAGGGAATCAACT-TCTACTTCTGATGGGATCATTACTGGAAATCA
* * ** * *
24234806 AATTTCTAGAAAGGAATCAACCATC-ACCCCTGATAGGATCATTCCTGGAAATCA
1 AATTTCTAGAAGGGAATCAA-CTTCTACTTCTGATGGGATCATTACTGGAAATCA
* * * * * * * *
24234860 GATTTCTAGAAGGGAACCAAACTCTTCTCCATCTGGTGGCATCTTTACTGGAAGTCA
1 AATTTCTAGAAGGGAATC-AA--CTTCTACTTCTGATGGGATCATTACTGGAAATCA
* * * * * * *
24234917 AATTTCTAGAAGGGAGTCAACCTCTGCTTCCGATGGGATTATTGCTGGAAACCA
1 AATTTCTAGAAGGGAATCAACTTCTACTTCTGATGGGATCATTACTGGAAATCA
**
24234971 AATTTCTAGAAGGGAATCAACTTCTGTTTCTGATGGGATCATT
1 AATTTCTAGAAGGGAATCAACTTCTACTTCTGATGGGATCATT
24235014 TCTAGAAGGG
Statistics
Matches: 249, Mismatches: 58, Indels: 18
0.77 0.18 0.06
Matches are distributed among these distances:
53 4 0.02
54 195 0.78
55 10 0.04
56 5 0.02
57 35 0.14
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (54 bp):
AATTTCTAGAAGGGAATCAACTTCTACTTCTGATGGGATCATTACTGGAAATCA
Found at i:24245501 original size:2 final size:2
Alignment explanation
Indices: 24245494--24245530 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
24245484 TGCAAATAAG
24245494 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
24245531 GTTAAATCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:24265761 original size:68 final size:68
Alignment explanation
Indices: 24265652--24265791 Score: 253
Period size: 68 Copynumber: 2.1 Consensus size: 68
24265642 TTGTGGTATC
*
24265652 GCCCACTGTATCGTGCTTTTAGGTACTTAATATACTCCAATCATTTTCTATTATCGCTATTCATT
1 GCCCACTGTATCGTGCTTGTAGGTACTTAATATACTCCAATCATTTTCTATTATCGCTATTCATT
24265717 TTT
66 TTT
* *
24265720 GCCCACTGTATTGTGCTTGTAGGTACTTAATATACTCCAATCTTTTTCTATTATCGCTATTCATT
1 GCCCACTGTATCGTGCTTGTAGGTACTTAATATACTCCAATCATTTTCTATTATCGCTATTCATT
24265785 TTT
66 TTT
24265788 GCCC
1 GCCC
24265792 TTTTTTCTTT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
68 69 1.00
ACGTcount: A:0.21, C:0.23, G:0.11, T:0.45
Consensus pattern (68 bp):
GCCCACTGTATCGTGCTTGTAGGTACTTAATATACTCCAATCATTTTCTATTATCGCTATTCATT
TTT
Found at i:24267909 original size:2 final size:2
Alignment explanation
Indices: 24267902--24267930 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
24267892 AAATACTCCG
24267902 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 T
24267931 TACTATATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:24271634 original size:24 final size:24
Alignment explanation
Indices: 24271575--24271635 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 24
24271565 GGTGAGGTTG
*
24271575 TATCTGTTGT-CTTTCAATAAATA
1 TATCTGTTGTATTTTCAATAAATA
* * * *
24271598 TATTTTTTTTATTTTTAATAAATA
1 TATCTGTTGTATTTTCAATAAATA
24271622 TATCTGTTGTATTT
1 TATCTGTTGTATTT
24271636 CAACAGATTT
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
23 7 0.24
24 22 0.76
ACGTcount: A:0.28, C:0.07, G:0.07, T:0.59
Consensus pattern (24 bp):
TATCTGTTGTATTTTCAATAAATA
Found at i:24271714 original size:14 final size:15
Alignment explanation
Indices: 24271689--24271717 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
24271679 ATAATTATTT
24271689 TTTTATTTATTTTTA
1 TTTTATTTATTTTTA
24271704 TTTTA-TTATTTTTA
1 TTTTATTTATTTTTA
24271718 AAAAAATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTATTTATTTTTA
Found at i:24274943 original size:3 final size:3
Alignment explanation
Indices: 24274935--24274960 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
24274925 TTCCATTACT
24274935 GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GA
24274961 GTAGTTTTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:24277514 original size:3 final size:3
Alignment explanation
Indices: 24277498--24277553 Score: 75
Period size: 3 Copynumber: 20.0 Consensus size: 3
24277488 GTTAATTAGA
24277498 CAT CA- CAT -AT CAT CAT CAT CAT -AT CAT CAT CAT CAT CAT -AT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
*
24277542 CAT CTT CAT CAT
1 CAT CAT CAT CAT
24277554 GACAATAAGA
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
2 8 0.17
3 39 0.83
ACGTcount: A:0.34, C:0.30, G:0.00, T:0.36
Consensus pattern (3 bp):
CAT
Found at i:24277522 original size:14 final size:14
Alignment explanation
Indices: 24277498--24277553 Score: 75
Period size: 14 Copynumber: 4.2 Consensus size: 14
24277488 GTTAATTAGA
24277498 CATCA-CATATCAT
1 CATCATCATATCAT
24277511 CATCATCATATCAT
1 CATCATCATATCAT
24277525 CATCATCATCAT-AT
1 CATCATCAT-ATCAT
24277539 CATCATC-T-TCAT
1 CATCATCATATCAT
24277551 CAT
1 CAT
24277554 GACAATAAGA
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
11 1 0.03
12 5 0.12
13 6 0.15
14 26 0.65
15 2 0.05
ACGTcount: A:0.34, C:0.30, G:0.00, T:0.36
Consensus pattern (14 bp):
CATCATCATATCAT
Found at i:24277528 original size:17 final size:17
Alignment explanation
Indices: 24277506--24277553 Score: 87
Period size: 17 Copynumber: 2.8 Consensus size: 17
24277496 GACATCACAT
24277506 ATCATCATCATCATATC
1 ATCATCATCATCATATC
24277523 ATCATCATCATCATATC
1 ATCATCATCATCATATC
*
24277540 ATCATCTTCATCAT
1 ATCATCATCATCAT
24277554 GACAATAAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.33, C:0.29, G:0.00, T:0.38
Consensus pattern (17 bp):
ATCATCATCATCATATC
Found at i:24278648 original size:50 final size:50
Alignment explanation
Indices: 24278564--24278669 Score: 167
Period size: 50 Copynumber: 2.1 Consensus size: 50
24278554 GGCACAAGTA
* * * *
24278564 GGTTTTCTCACGATACCAATAATAAAACAGAACCAAAACTAGCCGTTATC
1 GGTTATCTCACGACACCAATAATAAAACAAAACCAAAACTAGCAGTTATC
*
24278614 GGTTATCTCACGACACCAATAATAAAACAAAACCAAAACTAGCAGTTATT
1 GGTTATCTCACGACACCAATAATAAAACAAAACCAAAACTAGCAGTTATC
24278664 GGTTAT
1 GGTTAT
24278670 AGTTTCACCC
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.42, C:0.22, G:0.12, T:0.25
Consensus pattern (50 bp):
GGTTATCTCACGACACCAATAATAAAACAAAACCAAAACTAGCAGTTATC
Found at i:24281353 original size:26 final size:26
Alignment explanation
Indices: 24281322--24281423 Score: 84
Period size: 28 Copynumber: 3.8 Consensus size: 26
24281312 TTTTTTATAT
24281322 TATATATTTT-ATTTTAAGTTCTTTTA
1 TATATATTTTAATTTTAA-TTCTTTTA
* *
24281348 CATATATTATATGATTTTTAATT-TTTTA
1 TATATATT-T-T-AATTTTAATTCTTTTA
* *
24281376 TATTTTATTTTAATTTATAATTCTTATA
1 TA-TATATTTTAATTT-TAATTCTTTTA
24281404 TTATATATTTT-ATTTTAATT
1 -TATATATTTTAATTTTAATT
24281424 ATAACATTAC
Statistics
Matches: 61, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
26 16 0.26
27 11 0.18
28 19 0.31
29 9 0.15
30 6 0.10
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.65
Consensus pattern (26 bp):
TATATATTTTAATTTTAATTCTTTTA
Found at i:24281985 original size:25 final size:25
Alignment explanation
Indices: 24281957--24282027 Score: 74
Period size: 25 Copynumber: 2.9 Consensus size: 25
24281947 ATAATTTTAA
*
24281957 TTTATAAATTAAATTATAAAATAAT
1 TTTATAAATAAAATTATAAAATAAT
* *
24281982 TTTAT-TATAAAAATATAAAAATAAT
1 TTTATAAATAAAATTAT-AAAATAAT
* *
24282007 TTTTTAAAAAAAATTA-AAAAT
1 TTTATAAATAAAATTATAAAAT
24282028 TAAGTTGACC
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
24 13 0.35
25 17 0.46
26 7 0.19
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (25 bp):
TTTATAAATAAAATTATAAAATAAT
Found at i:24281998 original size:24 final size:24
Alignment explanation
Indices: 24281974--24282027 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
24281964 ATTAAATTAT
*
24281974 AAAATAATTTTATTATAAAAATATA
1 AAAATAATTTT-TTAAAAAAATATA
24281999 AAAATAATTTTTTAAAAAAA-ATTA
1 AAAATAATTTTTTAAAAAAATA-TA
24282023 AAAAT
1 AAAAT
24282028 TAAGTTGACC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 1 0.04
24 15 0.56
25 11 0.41
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (24 bp):
AAAATAATTTTTTAAAAAAATATA
Found at i:24283331 original size:22 final size:22
Alignment explanation
Indices: 24283306--24283348 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
24283296 CCATCCCTCG
24283306 AAACCAAAGGCAATTAAAGAAA
1 AAACCAAAGGCAATTAAAGAAA
* * *
24283328 AAACTAAGGGCAATTACAGAA
1 AAACCAAAGGCAATTAAAGAA
24283349 TGCCATGTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.14, G:0.16, T:0.12
Consensus pattern (22 bp):
AAACCAAAGGCAATTAAAGAAA
Found at i:24296466 original size:46 final size:46
Alignment explanation
Indices: 24296413--24296506 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
24296403 CCATGATACC
24296413 ACATACAACATGATAGAGAACCATAACTACAGAAAATATTCATTGT
1 ACATACAACATGATAGAGAACCATAACTACAGAAAATATTCATTGT
24296459 ACATACAACATGATAGAGAACCATAACTACAGAAAATATTCATTGT
1 ACATACAACATGATAGAGAACCATAACTACAGAAAATATTCATTGT
24296505 AC
1 AC
24296507 CTTCCTAAAG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.48, C:0.18, G:0.11, T:0.23
Consensus pattern (46 bp):
ACATACAACATGATAGAGAACCATAACTACAGAAAATATTCATTGT
Found at i:24321150 original size:69 final size:69
Alignment explanation
Indices: 24321041--24321454 Score: 625
Period size: 69 Copynumber: 6.0 Consensus size: 69
24321031 AATCACACAA
* * * * * *
24321041 ACAGACCTTGATTGGCAGAACTGACTGAGGTATCCCCGAGGGATTCAAACTGCTTCAGGATCATC
1 ACAGATCTTGATTGGTAGAACTGACTGAGGTATCCCCGAGAGACTCAAATTGCTTCAGAATCATC
24321106 CTAC
66 CTAC
* * *
24321110 ACAGATCTTGATTGGTAGAACTGACTGATGTATCCCCGAGGGACTCAAATTGCTTCAGAATCAAC
1 ACAGATCTTGATTGGTAGAACTGACTGAGGTATCCCCGAGAGACTCAAATTGCTTCAGAATCATC
24321175 CTAC
66 CTAC
24321179 ACAGATCTTGATTGGTAGAACTGACTGAGGTATCCCCGACG-GACTCAAATTGCTTCAGAATCAT
1 ACAGATCTTGATTGGTAGAACTGACTGAGGTATCCCCGA-GAGACTCAAATTGCTTCAGAATCAT
24321243 CCTAC
65 CCTAC
* * *
24321248 ACAGATCATGACTGGTAGAACTGACTGAGGTATCCCCGAGAGACTCAATTTGCTTCAGAATCATC
1 ACAGATCTTGATTGGTAGAACTGACTGAGGTATCCCCGAGAGACTCAAATTGCTTCAGAATCATC
*
24321313 CTCC
66 CTAC
* * *
24321317 ACCGATCTGGATTGGTAGAACTG-CATGAGGTATCCCCGAGAGACTCAAATAGCTTCAGAATCAT
1 ACAGATCTTGATTGGTAGAACTGAC-TGAGGTATCCCCGAGAGACTCAAATTGCTTCAGAATCAT
24321381 CCTAC
65 CCTAC
* * *
24321386 ACAGATCTTGATTGGTAAAACTGACTGAGGTATCCCGGAGAGACTCAAATTGCTTCAGAATCACC
1 ACAGATCTTGATTGGTAGAACTGACTGAGGTATCCCCGAGAGACTCAAATTGCTTCAGAATCATC
24321451 CTAC
66 CTAC
24321455 TGCACAATAT
Statistics
Matches: 315, Mismatches: 26, Indels: 8
0.90 0.07 0.02
Matches are distributed among these distances:
68 2 0.01
69 311 0.99
70 2 0.01
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (69 bp):
ACAGATCTTGATTGGTAGAACTGACTGAGGTATCCCCGAGAGACTCAAATTGCTTCAGAATCATC
CTAC
Found at i:24322097 original size:18 final size:18
Alignment explanation
Indices: 24322074--24322109 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
24322064 TTGAGATCGA
24322074 CGGCGGTTTGGGTATGAC
1 CGGCGGTTTGGGTATGAC
24322092 CGGCGGTTTGGGTATGAC
1 CGGCGGTTTGGGTATGAC
24322110 AAATATCTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.17, G:0.44, T:0.28
Consensus pattern (18 bp):
CGGCGGTTTGGGTATGAC
Found at i:24322271 original size:18 final size:18
Alignment explanation
Indices: 24322248--24322284 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
24322238 ACAAAATACT
24322248 AAAAATCAAATACACAAA
1 AAAAATCAAATACACAAA
* *
24322266 AAAAATTAAATATACAAA
1 AAAAATCAAATACACAAA
24322284 A
1 A
24322285 TACAGAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.73, C:0.11, G:0.00, T:0.16
Consensus pattern (18 bp):
AAAAATCAAATACACAAA
Found at i:24322774 original size:64 final size:64
Alignment explanation
Indices: 24322706--24322886 Score: 220
Period size: 64 Copynumber: 2.8 Consensus size: 64
24322696 AACTTAAATT
* * * * *
24322706 TATAAAAATTAATATAAAATGTCATGTATGTTTAATTTAAATTTATATATTATTAATGTAAAAA
1 TATAAAAATTAATATAAAATATCATATATGCTTAATTTGAATTTATATATTATTAAAGTAAAAA
* * * * **
24322770 TATAAAAATTAATATAAAATATCACATATACTTCATTTGAATTTATATATTATTAAAGTGAAGG
1 TATAAAAATTAATATAAAATATCATATATGCTTAATTTGAATTTATATATTATTAAAGTAAAAA
* * *
24322834 TATAAAAGTTAACT-TAAAATATCATCTATGCTTAATTTGAATTTATATGTTAT
1 TATAAAAATTAA-TATAAAATATCATATATGCTTAATTTGAATTTATATATTAT
24322887 CAACTTAAAC
Statistics
Matches: 99, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
64 98 0.99
65 1 0.01
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (64 bp):
TATAAAAATTAATATAAAATATCATATATGCTTAATTTGAATTTATATATTATTAAAGTAAAAA
Found at i:24326175 original size:48 final size:48
Alignment explanation
Indices: 24326087--24326189 Score: 111
Period size: 48 Copynumber: 2.1 Consensus size: 48
24326077 GAATTCTGAA
** **
24326087 CCATCAGTCTCAATGGCTGAATCTCCAAATGAGGAGGTTAATCCTACT
1 CCATCAGTCTCAATGGCTGAATCAACAAATGAGGAGGTTAAGACTACT
* *
24326135 CCATCAGTCTCAGAT-GCTGAATCAATAAA-GCAGGATGTTAAGACTACT
1 CCATCAGTCTCA-ATGGCTGAATCAACAAATG-AGGAGGTTAAGACTACT
*
24326183 TCATCAG
1 CCATCAG
24326190 CAGCACCACC
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
47 1 0.02
48 43 0.93
49 2 0.04
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.26
Consensus pattern (48 bp):
CCATCAGTCTCAATGGCTGAATCAACAAATGAGGAGGTTAAGACTACT
Found at i:24335113 original size:10 final size:10
Alignment explanation
Indices: 24335098--24335122 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
24335088 TTCAGAACCC
24335098 AAAAAAACAA
1 AAAAAAACAA
24335108 AAAAAAACAA
1 AAAAAAACAA
24335118 AAAAA
1 AAAAA
24335123 CAAAGAACAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAACAA
Found at i:24336000 original size:23 final size:22
Alignment explanation
Indices: 24335939--24336000 Score: 72
Period size: 23 Copynumber: 2.8 Consensus size: 22
24335929 TTCAAGAGTT
24335939 TTTTTAAAATT-AATAAAAAAA
1 TTTTTAAAATTAAATAAAAAAA
* * *
24335960 TTTAATAAAATTACATAATAATAA
1 TTT-TTAAAATTAAATAA-AAAAA
24335984 TTTTTAAAATTAAATAA
1 TTTTTAAAATTAAATAA
24336001 GAGTAAATTT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
21 3 0.09
22 7 0.21
23 16 0.48
24 7 0.21
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
TTTTTAAAATTAAATAAAAAAA
Found at i:24336011 original size:23 final size:21
Alignment explanation
Indices: 24335940--24336011 Score: 56
Period size: 23 Copynumber: 3.2 Consensus size: 21
24335930 TCAAGAGTTT
*
24335940 TTTTAAAATT-AATAAAAAAA
1 TTTTAAAATTAAATAAATAAA
* *
24335960 TTTAATAAAATTACATAATAATAAT
1 TTT--TAAAATTAAAT-A-AATAAA
24335985 TTTTAAAATTAAATAAGAGTAAA
1 TTTTAAAATTAAATAA-A-TAAA
24336008 TTTT
1 TTTT
24336012 TTTTAATATT
Statistics
Matches: 40, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
20 3 0.08
21 1 0.03
22 9 0.22
23 19 0.47
24 1 0.03
25 7 0.17
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.40
Consensus pattern (21 bp):
TTTTAAAATTAAATAAATAAA
Found at i:24348820 original size:32 final size:32
Alignment explanation
Indices: 24348784--24348847 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
24348774 AAACTAATCA
24348784 GCAAAATTATCAGTCTCTTAACCTCGCTGCCG
1 GCAAAATTATCAGTCTCTTAACCTCGCTGCCG
* *
24348816 GCAAATTTATCAGTCTCTTAACCTCGTTGCCG
1 GCAAAATTATCAGTCTCTTAACCTCGCTGCCG
24348848 ACCATGTACC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.31
Consensus pattern (32 bp):
GCAAAATTATCAGTCTCTTAACCTCGCTGCCG
Found at i:24355387 original size:2 final size:2
Alignment explanation
Indices: 24355380--24355413 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
24355370 TAATAAACCA
24355380 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
24355414 AAGAATTGGT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:24356824 original size:2 final size:2
Alignment explanation
Indices: 24356817--24356845 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
24356807 TGTGAGGGTG
24356817 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 A
24356846 AGTGTGTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:24361960 original size:4 final size:4
Alignment explanation
Indices: 24361951--24361976 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
24361941 AGTTAAATTG
24361951 GGGA GGGA GGGA GGGA GGGA GGGA GG
1 GGGA GGGA GGGA GGGA GGGA GGGA GG
24361977 TGGCGATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.77, T:0.00
Consensus pattern (4 bp):
GGGA
Found at i:24365529 original size:14 final size:14
Alignment explanation
Indices: 24365510--24365541 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
24365500 TAAGGCTGCG
24365510 TTTGGTATTTAGTT
1 TTTGGTATTTAGTT
24365524 TTTGGTATTTAGTT
1 TTTGGTATTTAGTT
24365538 TTTG
1 TTTG
24365542 TTTTATTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.22, T:0.66
Consensus pattern (14 bp):
TTTGGTATTTAGTT
Found at i:24365855 original size:26 final size:26
Alignment explanation
Indices: 24365804--24365856 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
24365794 AAGATGAAAA
* * *
24365804 ATGTTATATTATTATATCATATTAAT
1 ATGTTATATTATCATATCAAAATAAT
24365830 ATGTTATATTATCATCAT-AAAATAAT
1 ATGTTATATTATCAT-ATCAAAATAAT
24365856 A
1 A
24365857 ATTAATTGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 21 0.91
27 2 0.09
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (26 bp):
ATGTTATATTATCATATCAAAATAAT
Found at i:24377112 original size:22 final size:22
Alignment explanation
Indices: 24377077--24377118 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
24377067 GCAAAGACAG
*
24377077 ATATCAGAACTCCAACAGAAGA
1 ATATCACAACTCCAACAGAAGA
* *
24377099 ATATCACAATTCCAAGAGAA
1 ATATCACAACTCCAACAGAA
24377119 AAAAATTCTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.50, C:0.21, G:0.12, T:0.17
Consensus pattern (22 bp):
ATATCACAACTCCAACAGAAGA
Found at i:24384312 original size:22 final size:20
Alignment explanation
Indices: 24384264--24384312 Score: 53
Period size: 22 Copynumber: 2.3 Consensus size: 20
24384254 TATATATTAT
*
24384264 TTAAATAAAATTAACAACTA
1 TTAAATAAAATTAACAAATA
*
24384284 TCAAAATAAAAATTAACAGAATA
1 T-TAAAT-AAAATTAACA-AATA
24384307 TTAAAT
1 TTAAAT
24384313 GAGCTTAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 1 0.04
21 4 0.17
22 14 0.61
23 4 0.17
ACGTcount: A:0.61, C:0.08, G:0.02, T:0.29
Consensus pattern (20 bp):
TTAAATAAAATTAACAAATA
Found at i:24403464 original size:23 final size:23
Alignment explanation
Indices: 24403438--24403483 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
24403428 ATACAAAAAC
*
24403438 CTTATCCTAATATAATTAGGAAT
1 CTTATCCTAATAGAATTAGGAAT
24403461 CTTATCCTAATAGAATTAGGAAT
1 CTTATCCTAATAGAATTAGGAAT
24403484 TGTTATTCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.37
Consensus pattern (23 bp):
CTTATCCTAATAGAATTAGGAAT
Found at i:24415936 original size:126 final size:124
Alignment explanation
Indices: 24415711--24416089 Score: 580
Period size: 126 Copynumber: 3.0 Consensus size: 124
24415701 AACATTACAG
* * *
24415711 GTGTACTTAACTTACCCAGGGGTTCAAGCTT-TACCTGAAGGTTATCAGTTATATCAAGTTTCAC
1 GTGTACTCAACTTACCCAGGGGTTCAAGCTTAT-TCTGAAGG-TATCAGGTATATCAAG-TTCAC
* * * *
24415775 AGCAACCAGTTCCTTATTGGCCATATCTATATAATGGAAGTAGTAGCATTCCAGGGGAAAAT
63 AGCAACCAGCTCCTTATTGGCCTTATCTACATAATGGAAGTAGTAGCATTCCAAGGGAAAAT
*
24415837 GTGTACTCAACTTACCCAGGTGTTCAAGCTTATTCTGAATGGTATCAGGTATATCAAGTTCAACA
1 GTGTACTCAACTTACCCAGGGGTTCAAGCTTATTCTGAA-GGTATCAGGTATATCAAGTTC-ACA
* *
24415902 GCAACCAGCTCCTTATGGGCCTTCTCTACATAATGGAAGTAGTAGCATTCCAAGGGAAAAT
64 GCAACCAGCTCCTTATTGGCCTTATCTACATAATGGAAGTAGTAGCATTCCAAGGGAAAAT
*
24415963 GTGTACTCAACTGACCCAGGGGTTCAAGCTTATTCTGAAGGGTATCAGGTATATCAAGTTCCACA
1 GTGTACTCAACTTACCCAGGGGTTCAAGCTTATTCTGAA-GGTATCAGGTATATCAAGTT-CACA
*
24416028 GCAACCAGCTCCTTATTGGCCTTATCTAGATAATGGAAGTAGTAGCATTCCAAGGGAAAAT
64 GCAACCAGCTCCTTATTGGCCTTATCTACATAATGGAAGTAGTAGCATTCCAAGGGAAAAT
24416089 G
1 G
24416090 CTGGTTCCTT
Statistics
Matches: 233, Mismatches: 16, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
125 3 0.01
126 226 0.97
127 4 0.02
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (124 bp):
GTGTACTCAACTTACCCAGGGGTTCAAGCTTATTCTGAAGGTATCAGGTATATCAAGTTCACAGC
AACCAGCTCCTTATTGGCCTTATCTACATAATGGAAGTAGTAGCATTCCAAGGGAAAAT
Found at i:24446804 original size:5 final size:5
Alignment explanation
Indices: 24446794--24446819 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
24446784 CTTTCTTTCC
24446794 CCTTT CCTTT CCTTT CCTTT CCTTT C
1 CCTTT CCTTT CCTTT CCTTT CCTTT C
24446820 ACCAAATGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (5 bp):
CCTTT
Found at i:24485779 original size:12 final size:12
Alignment explanation
Indices: 24485762--24485795 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
24485752 TCTCAACGTG
24485762 AAAACCAAAGCC
1 AAAACCAAAGCC
24485774 AAAACCAGAA-CC
1 AAAACCA-AAGCC
24485786 AAAACCAAAG
1 AAAACCAAAG
24485796 TTTCCTTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 2 0.10
12 16 0.80
13 2 0.10
ACGTcount: A:0.62, C:0.29, G:0.09, T:0.00
Consensus pattern (12 bp):
AAAACCAAAGCC
Found at i:24514134 original size:18 final size:18
Alignment explanation
Indices: 24514103--24514142 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
24514093 ATTAAAACAA
*
24514103 GAACCTGAAACAGAACCC
1 GAACCCGAAACAGAACCC
* *
24514121 GAACCCGAACCAGAACCG
1 GAACCCGAAACAGAACCC
24514139 GAAC
1 GAAC
24514143 AAGAACCTGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.35, G:0.20, T:0.03
Consensus pattern (18 bp):
GAACCCGAAACAGAACCC
Found at i:24516942 original size:2 final size:2
Alignment explanation
Indices: 24516930--24516976 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
24516920 TGGAACTATT
* *
24516930 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
24516972 TA TA T
1 TA TA T
24516977 GTGTGTGTGT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:24529296 original size:2 final size:2
Alignment explanation
Indices: 24529291--24529320 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
24529281 AAAAAATTGA
*
24529291 AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24529321 CTTAGGGCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:24530490 original size:2 final size:2
Alignment explanation
Indices: 24530485--24530531 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
24530475 TATTGGCTTA
24530485 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
24530527 AT AT A
1 AT AT A
24530532 ATTTTACTGT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:24533562 original size:20 final size:21
Alignment explanation
Indices: 24533512--24533562 Score: 52
Period size: 20 Copynumber: 2.4 Consensus size: 21
24533502 AGTTATACTA
24533512 TTATAAAAAATTAAAATTAAAAT
1 TTATAAAAAATT--AATTAAAAT
*
24533535 TT-TGAAAAAATT-ATTGAAAT
1 TTAT-AAAAAATTAATTAAAAT
24533555 TTATAAAA
1 TTATAAAA
24533563 TGTAAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
20 13 0.52
21 1 0.04
22 1 0.04
23 10 0.40
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (21 bp):
TTATAAAAAATTAATTAAAAT
Found at i:24537665 original size:3 final size:3
Alignment explanation
Indices: 24537650--24537691 Score: 68
Period size: 3 Copynumber: 14.0 Consensus size: 3
24537640 ATGTACCCCC
24537650 CCT CC- CCT CCCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT
1 CCT CCT CCT -CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT
24537692 ACATAACAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.05
3 32 0.86
4 3 0.08
ACGTcount: A:0.00, C:0.69, G:0.00, T:0.31
Consensus pattern (3 bp):
CCT
Found at i:24541239 original size:25 final size:25
Alignment explanation
Indices: 24541203--24541253 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
24541193 TATCTTTCTT
*
24541203 CTTTGAATAAAACAAATCACCAGTC
1 CTTTGAAGAAAACAAATCACCAGTC
* *
24541228 CTTTGAAGAAAACGAATCACCTGTC
1 CTTTGAAGAAAACAAATCACCAGTC
24541253 C
1 C
24541254 GGCAGGATTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.39, C:0.25, G:0.12, T:0.24
Consensus pattern (25 bp):
CTTTGAAGAAAACAAATCACCAGTC
Done.