Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 200 of 318
Found at i:63169780 original size:50 final size:49
Alignment explanation
Indices: 63169724--63169818 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 49
63169714 ATGATCTTCC
*
63169724 TGTTATTAAGCTTAGATA-AGCTTCTCGTTTACAA-GCTCACATGAGCTTTT
1 TGTTATTAAGCTTAGA-AGAGCTTCCCGTTTA-AATGCTCA-ATGAGCTTTT
** *
63169774 TGTTATTTGGCTTGGAAGAGCTTCCCGTTTAAATGCTCAATGAGC
1 TGTTATTAAGCTTAGAAGAGCTTCCCGTTTAAATGCTCAATGAGC
63169819 ATTCCTGAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
49 9 0.23
50 30 0.77
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (49 bp):
TGTTATTAAGCTTAGAAGAGCTTCCCGTTTAAATGCTCAATGAGCTTTT
Found at i:63171692 original size:101 final size:102
Alignment explanation
Indices: 63171537--63171730 Score: 291
Period size: 101 Copynumber: 1.9 Consensus size: 102
63171527 AAGCATTGGC
*
63171537 AGACAATAACCAAACACTTTAATAAAACCTAGGCAATGACAGAAAATAACCAATACAAAAGCAAT
1 AGACAATAACCAAACACTTTAATAAAACCTAGGCAATGACAGAAAATAACCAATACAAAAACAAT
* * *
63171602 TTAATACAAACAAATCCATTTTTATCATACACATGGT
66 TTAACACAAACAAATACATTTCTATCATACACATGGT
* * * * *
63171639 AGACAATAATCAAACATTTTAGTACAACCTA-GCAATGGCAGAAAATAACCAATACAAAAACAAT
1 AGACAATAACCAAACACTTTAATAAAACCTAGGCAATGACAGAAAATAACCAATACAAAAACAAT
*
63171703 TTAACACAAAGAAATACATTTCTATCAT
66 TTAACACAAACAAATACATTTCTATCAT
63171731 GTACAATAAC
Statistics
Matches: 82, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
101 55 0.67
102 27 0.33
ACGTcount: A:0.51, C:0.19, G:0.08, T:0.23
Consensus pattern (102 bp):
AGACAATAACCAAACACTTTAATAAAACCTAGGCAATGACAGAAAATAACCAATACAAAAACAAT
TTAACACAAACAAATACATTTCTATCATACACATGGT
Found at i:63172321 original size:201 final size:202
Alignment explanation
Indices: 63171976--63172371 Score: 571
Period size: 201 Copynumber: 2.0 Consensus size: 202
63171966 TTGATTTGTG
* * * * * *
63171976 TCTTTCCTAAGGCAATTAGTATTCATACGGCGGACAATAAGTTTACAAAAATGCAAACCTGCAAT
1 TCTTTCCTAAGGCAATTAGTATGCACACAGCAGACAATAAGTATACAAAAATCCAAACCTGCAAT
** * *
63172041 TTAGTTTGTTACAAATAATAATCATATTTCAATCAATATTTAAAAAATATTTTGAATCATATTTG
66 TTAGTTTAATACAAACAATAATCATATTTCAATCAACATTTAAAAAATATTTTGAATCATATTTG
* * *
63172106 AATAATTCAATGACATACATAGTTTTAAATAATTCAAT-AAAACTTATTTGTCAAATAGAAACTG
131 AATAATTCAATGACATACATAGTTTCAAATAATTCAATAAAAACTGATTTATCAAATAGAAACTG
63172170 GTTTGCC
196 GTTTGCC
* * * * *
63172177 TCTTTCCTAAGGTAATTAGTATGCACATAGCAGACAATAAGTATACAAAAGTCCAAACTTGTAAT
1 TCTTTCCTAAGGCAATTAGTATGCACACAGCAGACAATAAGTATACAAAAATCCAAACCTGCAAT
*
63172242 TTAGTTTAATACAAACAATAATCATATTTGAATCAACATTTAAAAAATGA-TTTGAATCATATTT
66 TTAGTTTAATACAAACAATAATCATATTTCAATCAACATTTAAAAAAT-ATTTTGAATCATATTT
* * *
63172306 GAATAATTCAATGACATACATAGTTTCAATTAATTCAATAAAAACTGATTTATCCAATAGGAACT
130 GAATAATTCAATGACATACATAGTTTCAAATAATTCAATAAAAACTGATTTATCAAATAGAAACT
63172371 G
195 G
63172372 ATTTTTCACT
Statistics
Matches: 171, Mismatches: 22, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
201 148 0.87
202 23 0.13
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.35
Consensus pattern (202 bp):
TCTTTCCTAAGGCAATTAGTATGCACACAGCAGACAATAAGTATACAAAAATCCAAACCTGCAAT
TTAGTTTAATACAAACAATAATCATATTTCAATCAACATTTAAAAAATATTTTGAATCATATTTG
AATAATTCAATGACATACATAGTTTCAAATAATTCAATAAAAACTGATTTATCAAATAGAAACTG
GTTTGCC
Found at i:63177419 original size:29 final size:28
Alignment explanation
Indices: 63177345--63177470 Score: 123
Period size: 29 Copynumber: 4.4 Consensus size: 28
63177335 TACATACATG
*
63177345 CATATGGCCCACTAGGCCCAATCTCTA-TT
1 CATATGGCCCATTAGGCCCAAT-TC-ACTT
**
63177374 -ATATGGCCCATCCGGCCCAATTCACGTT
1 CATATGGCCCATTAGGCCCAATTCAC-TT
*
63177402 CATATGGCCTATTAGGCCCAATTCACATT
1 CATATGGCCCATTAGGCCCAATTCAC-TT
* *
63177431 CATATGGCTCATTAGGTCCAATCTCA-TT
1 CATATGGCCCATTAGGCCCAAT-TCACTT
*
63177459 TATATGGCCCAT
1 CATATGGCCCAT
63177471 CCGACCCAAA
Statistics
Matches: 81, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
26 1 0.01
27 2 0.02
28 32 0.40
29 43 0.53
30 3 0.04
ACGTcount: A:0.25, C:0.30, G:0.15, T:0.30
Consensus pattern (28 bp):
CATATGGCCCATTAGGCCCAATTCACTT
Found at i:63177728 original size:16 final size:16
Alignment explanation
Indices: 63177707--63177737 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
63177697 CCAAACTTTC
*
63177707 GGCATTTTAGCTTTTT
1 GGCATTTTAACTTTTT
63177723 GGCATTTTAACTTTT
1 GGCATTTTAACTTTT
63177738 CAGCTTTTGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.13, G:0.16, T:0.55
Consensus pattern (16 bp):
GGCATTTTAACTTTTT
Found at i:63178415 original size:16 final size:16
Alignment explanation
Indices: 63178394--63178425 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
63178384 AGTGTAACAC
63178394 CCCAAAAATCCCAAAA
1 CCCAAAAATCCCAAAA
*
63178410 CCCAAAAATCTCAAAA
1 CCCAAAAATCCCAAAA
63178426 TCCCGAACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.56, C:0.34, G:0.00, T:0.09
Consensus pattern (16 bp):
CCCAAAAATCCCAAAA
Found at i:63179725 original size:16 final size:16
Alignment explanation
Indices: 63179706--63179741 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
63179696 AGCAAAACCT
63179706 GAAATGCCGAAAAGCC
1 GAAATGCCGAAAAGCC
* *
63179722 GAAATGTCGAAAAGCT
1 GAAATGCCGAAAAGCC
63179738 GAAA
1 GAAA
63179742 GTTTGGCTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.47, C:0.17, G:0.25, T:0.11
Consensus pattern (16 bp):
GAAATGCCGAAAAGCC
Found at i:63179908 original size:27 final size:27
Alignment explanation
Indices: 63179826--63179910 Score: 66
Period size: 27 Copynumber: 3.1 Consensus size: 27
63179816 GCGATTCCGT
63179826 GGACTTGGGTTGTGATTTGGCCATATGG
1 GGACTTGGGTTGTGATTTGGCCATAT-G
** * * * **
63179854 GCCGAAATGGG--GTAAATGGGCCCGATG
1 G--GACTTGGGTTGTGATTTGGCCATATG
63179881 GGACTTGGGTTGTGATTTGGCCATATG
1 GGACTTGGGTTGTGATTTGGCCATATG
63179908 GGA
1 GGA
63179911 AGGAATGGGG
Statistics
Matches: 39, Mismatches: 14, Indels: 9
0.63 0.23 0.15
Matches are distributed among these distances:
25 6 0.15
27 16 0.41
28 11 0.28
30 6 0.15
ACGTcount: A:0.19, C:0.13, G:0.40, T:0.28
Consensus pattern (27 bp):
GGACTTGGGTTGTGATTTGGCCATATG
Found at i:63179918 original size:55 final size:55
Alignment explanation
Indices: 63179826--63179937 Score: 197
Period size: 55 Copynumber: 2.0 Consensus size: 55
63179816 GCGATTCCGT
**
63179826 GGACTTGGGTTGTGATTTGGCCATATGGGCCGAAATGGGGTAAATGGGCCCGATG
1 GGACTTGGGTTGTGATTTGGCCATATGGGAAGAAATGGGGTAAATGGGCCCGATG
*
63179881 GGACTTGGGTTGTGATTTGGCCATATGGGAAGGAATGGGGTAAATGGGCCCGATG
1 GGACTTGGGTTGTGATTTGGCCATATGGGAAGAAATGGGGTAAATGGGCCCGATG
63179936 GG
1 GG
63179938 CTGTTAGGTC
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.21, C:0.12, G:0.42, T:0.25
Consensus pattern (55 bp):
GGACTTGGGTTGTGATTTGGCCATATGGGAAGAAATGGGGTAAATGGGCCCGATG
Found at i:63180104 original size:29 final size:28
Alignment explanation
Indices: 63180012--63180120 Score: 125
Period size: 29 Copynumber: 3.9 Consensus size: 28
63180002 CATGATTATG
*
63180012 AATGTGA--TGGGCCTAACGGGCCATAT
1 AATGTGATTTGGGCCTAATGGGCCATAT
*
63180038 AAATGTCATTTGGGCCTAATGGGCCATAT
1 -AATGTGATTTGGGCCTAATGGGCCATAT
*
63180067 ACAGGTGATTTGGGCCTAATGGGCCATAT
1 A-ATGTGATTTGGGCCTAATGGGCCATAT
* *
63180096 GAATATGA-TTGGGCTTAATGGGCCA
1 -AATGTGATTTGGGCCTAATGGGCCA
63180121 GATACAGGTA
Statistics
Matches: 71, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
27 6 0.08
28 17 0.24
29 47 0.66
30 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.28
Consensus pattern (28 bp):
AATGTGATTTGGGCCTAATGGGCCATAT
Found at i:63180126 original size:57 final size:58
Alignment explanation
Indices: 63180019--63180129 Score: 161
Period size: 57 Copynumber: 1.9 Consensus size: 58
63180009 ATGAATGTGA
* *
63180019 TGGGCCTAACGGGCCATATAAATGTCATTTGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAACGGGCCATATAAATATCATTTGGGCCTAATGGGCCAGATACAGGTGATT
* * * *
63180077 TGGGCCTAATGGGCCATATGAATATGA-TTGGGCTTAATGGGCCAGATACAGGT
1 TGGGCCTAACGGGCCATATAAATATCATTTGGGCCTAATGGGCCAGATACAGGT
63180130 ATGTGAAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 24 0.51
58 23 0.49
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (58 bp):
TGGGCCTAACGGGCCATATAAATATCATTTGGGCCTAATGGGCCAGATACAGGTGATT
Found at i:63181026 original size:18 final size:18
Alignment explanation
Indices: 63180980--63181032 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
63180970 TGTAATAAGG
63180980 TTTTCATTATGTTATTATTA
1 TTTTCATTA--TTATTATTA
**
63181000 TTTGAATTATTATTATTA
1 TTTTCATTATTATTATTA
*
63181018 TTTTCATTATAATTA
1 TTTTCATTATTATTA
63181033 CGGGAATTTG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
18 21 0.75
20 7 0.25
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (18 bp):
TTTTCATTATTATTATTA
Found at i:63187657 original size:24 final size:24
Alignment explanation
Indices: 63187614--63187659 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
63187604 AAAGAAATGG
*
63187614 GAAAAAAAAGAGAAAGAAAATGAT
1 GAAAAAAAAGAGAAAAAAAATGAT
63187638 GAAAACAAAAGA-AAAAAAAATG
1 GAAAA-AAAAGAGAAAAAAAATG
63187660 TGTCCATCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.74, C:0.02, G:0.17, T:0.07
Consensus pattern (24 bp):
GAAAAAAAAGAGAAAAAAAATGAT
Found at i:63188950 original size:39 final size:39
Alignment explanation
Indices: 63188896--63189077 Score: 301
Period size: 39 Copynumber: 4.6 Consensus size: 39
63188886 TCGGTTGATA
* **
63188896 ACCGGGCTAAGTCCCGAAGGCACTCGTGCGAGTTATTAT
1 ACCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTATTAT
63188935 ACCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTATTAT
1 ACCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTATTAT
63188974 ACCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTATTAT
1 ACCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTATTAT
* * *
63189013 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTAT
1 ACCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTATTAT
63189052 AACCGGGCTAAGTCCCGAAGGCATTT
1 -ACCGGGCTAAGTCCCGAAGGCATTT
63189078 GAGCTAGTGG
Statistics
Matches: 136, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
39 111 0.82
40 25 0.18
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.25
Consensus pattern (39 bp):
ACCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTATTAT
Found at i:63192936 original size:41 final size:40
Alignment explanation
Indices: 63192775--63192936 Score: 143
Period size: 41 Copynumber: 3.9 Consensus size: 40
63192765 GCTAATCGGG
* * *
63192775 GTCTAAATCCGAGCTTGGTCTCGAAGGGCTTCTAAGCCAGT
1 GTCT-AATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
* *
63192816 G-CTAATAGCCGAACTTAGTTTCGAAGGGCTTTTTAGAGCCAGT
1 GTCTAAT--CCGAGCTTAGTCTCGAAGGGC-TTTT-GAGCCAGT
* *
63192859 GTCATAA-CC-AGACTTAGT-TCTGAAGGGCCTTCGAGCCAGT
1 GTC-TAATCCGAG-CTTAGTCTC-GAAGGGCTTTTGAGCCAGT
*
63192899 GGTCTAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCC
1 -GTCTAATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCC
63192937 GGTACTAAGA
Statistics
Matches: 98, Mismatches: 11, Indels: 24
0.74 0.08 0.18
Matches are distributed among these distances:
39 3 0.03
40 13 0.13
41 48 0.49
42 22 0.22
43 8 0.08
44 1 0.01
45 3 0.03
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.28
Consensus pattern (40 bp):
GTCTAATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
Found at i:63194603 original size:16 final size:16
Alignment explanation
Indices: 63194582--63194636 Score: 83
Period size: 16 Copynumber: 3.4 Consensus size: 16
63194572 GTTTGGTTGA
* *
63194582 CTGTAATGGGATAGGG
1 CTGTAATGGAATAGAG
*
63194598 CTGTAATTGAATAGAG
1 CTGTAATGGAATAGAG
63194614 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
63194630 CTGTAAT
1 CTGTAAT
63194637 CAGTAATTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.33, C:0.07, G:0.31, T:0.29
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:63194710 original size:44 final size:46
Alignment explanation
Indices: 63194618--63194711 Score: 138
Period size: 44 Copynumber: 2.1 Consensus size: 46
63194608 ATAGAGCTGT
*
63194618 AATGGAATAGAGCTGTAATCAGTAATTCAACTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATCAGTAATTCAACTGTTTGGTTGAATGG
***
63194664 AATGGAATAGAACTGTAAT-AGT-ATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATCAGTAATTCAACTGTTTGGTTGAATGG
63194708 AATG
1 AATG
63194712 ATATTGTAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 23 0.52
45 3 0.07
46 18 0.41
ACGTcount: A:0.32, C:0.06, G:0.27, T:0.35
Consensus pattern (46 bp):
AATGGAATAGAACTGTAATCAGTAATTCAACTGTTTGGTTGAATGG
Found at i:63194878 original size:59 final size:61
Alignment explanation
Indices: 63194814--63194982 Score: 211
Period size: 63 Copynumber: 2.8 Consensus size: 61
63194804 TTATAATAGG
63194814 ATTATTATTAAATATAATTTAAT-AATA-AATAATAAATAATTTAAT-CATACATTAATATA
1 ATTATTATTAAATATAATTTAATAAATATAATAATAAATAATTTAATACATAC-TTAATATA
* *
63194873 ATTATTATTAAATATAATTTAATAAATATAATAATATATAATTTAATAACATTCTTAATATA
1 ATTATTATTAAATATAATTTAATAAATATAATAATAAATAATTTAAT-ACATACTTAATATA
* * * *
63194935 ATTATTATTAAAATATGAA-TGAATAAAAATCATAATATATAATATTAA
1 ATTATTATT-AAATAT-AATTTAATAAATATAATAATAAATAAT-TTAA
63194983 AAAATAATAT
Statistics
Matches: 98, Mismatches: 5, Indels: 9
0.88 0.04 0.08
Matches are distributed among these distances:
59 23 0.23
60 4 0.04
61 17 0.17
62 17 0.17
63 31 0.32
64 6 0.06
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (61 bp):
ATTATTATTAAATATAATTTAATAAATATAATAATAAATAATTTAATACATACTTAATATA
Found at i:63194886 original size:16 final size:15
Alignment explanation
Indices: 63194867--63194904 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
63194857 ATCATACATT
*
63194867 AATATAATTATTATTA
1 AATATAATT-TTAATA
63194883 AATATAA-TTTAATA
1 AATATAATTTTAATA
63194897 AATATAAT
1 AATATAAT
63194905 AATATATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 12 0.60
15 1 0.05
16 7 0.35
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AATATAATTTTAATA
Found at i:63194931 original size:24 final size:24
Alignment explanation
Indices: 63194878--63194934 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
63194868 ATATAATTAT
63194878 TATTAA-ATATAATTTAATAAATA
1 TATTAATATATAATTTAATAAATA
*
63194901 TAATAATATATAATTTAATAACAT-
1 TATTAATATATAATTTAATAA-ATA
*
63194925 TCTTAATATA
1 TATTAATATA
63194935 ATTATTATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.17
24 22 0.76
25 2 0.07
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (24 bp):
TATTAATATATAATTTAATAAATA
Found at i:63195091 original size:15 final size:16
Alignment explanation
Indices: 63195067--63195105 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
63195057 CAAATAATTT
63195067 AATT-ATCTT-CTATA
1 AATTAATCTTCCTATA
63195081 AATTAATCTTCCTATA
1 AATTAATCTTCCTATA
63195097 AATTAATCT
1 AATTAATCT
63195106 CAATTTTATG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 4 0.17
15 5 0.22
16 14 0.61
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.46
Consensus pattern (16 bp):
AATTAATCTTCCTATA
Found at i:63196793 original size:40 final size:40
Alignment explanation
Indices: 63196749--63196960 Score: 347
Period size: 40 Copynumber: 5.3 Consensus size: 40
63196739 GCTCCTCGTT
* * *
63196749 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
63196789 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
63196829 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
63196869 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
63196909 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
63196948 CAAATGCCTTCGG
1 CAAATGCCTTCGG
63196961 ATCTTAGTCC
Statistics
Matches: 165, Mismatches: 6, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
39 35 0.21
40 128 0.78
41 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:63197006 original size:79 final size:80
Alignment explanation
Indices: 63196749--63197012 Score: 353
Period size: 80 Copynumber: 3.3 Consensus size: 80
63196739 GCTCCTCGTT
*
63196749 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGACTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGT-ATCTCGCACAAATGCCTTCGGGACTTAACCC
63196812 GGATTTAGTAACTCGCA
64 GGATTTAGTAACTCGCA
* *
63196829 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGG
63196894 ATTTAGTAACTCGCA
66 ATTTAGTAACTCGCA
* **
63196909 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCACAAATGCCTTCGGGA-CTTAACCCG
* *
63196972 GATATT-GTCACTTAGCA
65 GAT-TTAGTAAC-TCGCA
*
63196989 C-AA-GCCTTCAGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
63197013 CAGCATTCAA
Statistics
Matches: 167, Mismatches: 11, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
78 11 0.07
79 61 0.37
80 93 0.56
81 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGG
ATTTAGTAACTCGCA
Found at i:63207131 original size:25 final size:25
Alignment explanation
Indices: 63207103--63207172 Score: 140
Period size: 25 Copynumber: 2.8 Consensus size: 25
63207093 CTCTTTTAAT
63207103 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
63207128 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
63207153 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
63207173 AGCACTTCCT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 45 1.00
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:63207394 original size:27 final size:28
Alignment explanation
Indices: 63207332--63207395 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 28
63207322 CAGTCACTTG
*
63207332 CCCACAAGGGCAAAATAGTCATTTAACA
1 CCCACAAGGGCAAAATAGTAATTTAACA
* * *
63207360 CCC-TAAGGGCAAAATGGTAATTTTAC-
1 CCCACAAGGGCAAAATAGTAATTTAACA
63207386 CCCACAAGGG
1 CCCACAAGGG
63207396 TATCTCGGTA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
26 3 0.10
27 24 0.80
28 3 0.10
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.19
Consensus pattern (28 bp):
CCCACAAGGGCAAAATAGTAATTTAACA
Found at i:63207405 original size:27 final size:27
Alignment explanation
Indices: 63207375--63207481 Score: 142
Period size: 27 Copynumber: 4.0 Consensus size: 27
63207365 AGGGCAAAAT
* * *
63207375 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
63207402 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
63207429 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
63207456 AGTAATTCTACCCTACAGGGGTATTT
1 GGTAATTCTACCCTACAAGGGTATTT
63207482 TGATATTTTA
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:63207432 original size:54 final size:53
Alignment explanation
Indices: 63207374--63207492 Score: 184
Period size: 54 Copynumber: 2.2 Consensus size: 53
63207364 AAGGGCAAAA
*
63207374 TGGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTT
1 TGGT-ATTTTACCCCACAAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTT
* *
63207428 TGGTATTTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTT
1 TGGTATTT-TACCCCACAAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTT
*
63207482 TGATATTTTAC
1 TGGTATTTTAC
63207493 AAATCGAGAG
Statistics
Matches: 60, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
53 7 0.12
54 53 0.88
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.37
Consensus pattern (53 bp):
TGGTATTTTACCCCACAAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTT
Found at i:63207596 original size:81 final size:81
Alignment explanation
Indices: 63207502--63207652 Score: 196
Period size: 81 Copynumber: 1.9 Consensus size: 81
63207492 CAAATCGAGA
* *
63207502 GTATTTCGATAATTTCACAAATTAGA-GGTATTTTGGTAATTTTACAAGCCATGGGTATTTTAGT
1 GTATTTCGATAATTTCACAAA-TAGAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGT
63207566 AATTTTACAAACCAGGG
65 AATTTTACAAACCAGGG
* * * *** * *
63207583 GTATTTTGGTAATTTTATTGATCGAGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTA
1 GTATTTCGATAATTTCACAAATAGAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTA
63207648 ATTTT
66 ATTTT
63207653 GTAAATCGAG
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
80 3 0.05
81 56 0.95
ACGTcount: A:0.30, C:0.08, G:0.19, T:0.43
Consensus pattern (81 bp):
GTATTTCGATAATTTCACAAATAGAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTA
ATTTTACAAACCAGGG
Found at i:63207627 original size:27 final size:27
Alignment explanation
Indices: 63207474--63207720 Score: 178
Period size: 27 Copynumber: 9.2 Consensus size: 27
63207464 TACCCTACAG
* *
63207474 GGGTATTTTGAT-ATTTTACAAATCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
* * * * * *
63207500 GAGTATTTCGATAATTTCACAAAT-TA
1 GGGTATTTTGGTAATTTTATAAATCGA
* * *
63207526 GAGGTATTTTGGTAATTTTA-CAAGCCA
1 G-GGTATTTTGGTAATTTTATAAATCGA
* * *
63207553 TGGGTATTTTAGTAATTTTACAAA-CCA
1 -GGGTATTTTGGTAATTTTATAAATCGA
**
63207580 GGGGTATTTTGGTAATTTTATTGATCGA
1 -GGGTATTTTGGTAATTTTATAAATCGA
* *
63207608 GGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAATCGA
* *
63207635 GGGTATTTTAGTAATTTTGTAAATCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
*** * *
63207662 GGGTAAAATGGTAATTCTATAAATCGG
1 GGGTATTTTGGTAATTTTATAAATCGA
*** *
63207689 GGGTAAAATGGTAATTTTGTAAATCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
63207716 GGGTA
1 GGGTA
63207721 AAACGGTAAT
Statistics
Matches: 178, Mismatches: 37, Indels: 11
0.79 0.16 0.05
Matches are distributed among these distances:
26 14 0.08
27 159 0.89
28 5 0.03
ACGTcount: A:0.32, C:0.07, G:0.22, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAATCGA
Found at i:63207693 original size:81 final size:81
Alignment explanation
Indices: 63207535--63207863 Score: 248
Period size: 81 Copynumber: 4.2 Consensus size: 81
63207525 AGAGGTATTT
* * * * * * *** *
63207535 TGGTAATTTTACAAGCCATGGGTATTTTAGTAATTTTACAAA-CCAGGGGTATTTTGGTAATTTT
1 TGGTAATTTTATAAACCAAGGGTATTTTAGTAATTCTATAAATCGA-GGGTAAAATGGTAATTCT
** ***
63207599 ATTGATCGAGGGTATTT
65 ATAAATCGAGGGTAAAA
* *
63207616 TGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTA
1 TGGTAATTTTATAAACCAAGGGTATTTTAGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTA
*
63207681 TAAATCGGGGGTAAAA
66 TAAATCGAGGGTAAAA
* * * ** * *
63207697 TGGTAATTTTGTAAATCGAGGGTA----A--AA--CGGT-AAT-AACGGTAAAATGGTAATTCTA
1 TGGTAATTTTATAAACCAAGGGTATTTTAGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTA
63207752 TAAATCGAGGGTAAAA
66 TAAATCGAGGGTAAAA
* * * * *** * *
63207768 CGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTG
1 TGGTAATTTTATAAACCAAGGGTATTTTAGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTA
63207833 TAAATCGAGGGTAAAA
66 TAAATCGAGGGTAAAA
* *
63207849 CGGTAATTCTATAAA
1 TGGTAATTTTATAAA
63207864 TCGATGGTAC
Statistics
Matches: 204, Mismatches: 33, Indels: 22
0.79 0.13 0.08
Matches are distributed among these distances:
71 55 0.27
72 3 0.01
73 2 0.01
75 2 0.01
77 3 0.01
79 2 0.01
80 3 0.01
81 132 0.65
82 2 0.01
ACGTcount: A:0.36, C:0.08, G:0.22, T:0.33
Consensus pattern (81 bp):
TGGTAATTTTATAAACCAAGGGTATTTTAGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTA
TAAATCGAGGGTAAAA
Found at i:63207721 original size:27 final size:27
Alignment explanation
Indices: 63207645--63207730 Score: 136
Period size: 27 Copynumber: 3.2 Consensus size: 27
63207635 GGGTATTTTA
63207645 GTAATTTTGTAAATCGAGGGTAAAATG
1 GTAATTTTGTAAATCGAGGGTAAAATG
* * *
63207672 GTAATTCTATAAATCGGGGGTAAAATG
1 GTAATTTTGTAAATCGAGGGTAAAATG
*
63207699 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTTTGTAAATCGAGGGTAAAATG
63207726 GTAAT
1 GTAAT
63207731 AACGGTAAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.31
Consensus pattern (27 bp):
GTAATTTTGTAAATCGAGGGTAAAATG
Found at i:63207721 original size:54 final size:54
Alignment explanation
Indices: 63207645--63207872 Score: 296
Period size: 54 Copynumber: 4.4 Consensus size: 54
63207635 GGGTATTTTA
* * * *
63207645 GTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGGGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATG
* *
63207699 GTAATTTTGTAAATCGAGGGTAAAACGGT-A----AT-AA-C---GGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATG
63207743 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATG
* * *
63207797 GTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATG
*
63207851 GTAATTCTATAAATCGATGGTA
1 GTAATTCTATAAATCGAGGGTA
63207873 CTTTGGTAAT
Statistics
Matches: 157, Mismatches: 7, Indels: 20
0.85 0.04 0.11
Matches are distributed among these distances:
44 36 0.23
45 1 0.01
47 1 0.01
48 2 0.01
49 4 0.03
50 2 0.01
51 1 0.01
53 1 0.01
54 109 0.69
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (54 bp):
GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATG
Found at i:63207774 original size:98 final size:98
Alignment explanation
Indices: 63207645--63207828 Score: 305
Period size: 98 Copynumber: 1.9 Consensus size: 98
63207635 GGGTATTTTA
* * * * * *
63207645 GTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGGGGGTAAAATGGTAATTTTGTA
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATA
63207710 AATCGAGGGTAAAACGGTAATAACGGTAAAATG
66 AATCGAGGGTAAAACGGTAATAACGGTAAAATG
63207743 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATA
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATA
*
63207808 AATCGAGGGTAAAATGGTAAT
66 AATCGAGGGTAAAACGGTAAT
63207829 TCTGTAAATC
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
98 79 1.00
ACGTcount: A:0.40, C:0.07, G:0.24, T:0.29
Consensus pattern (98 bp):
GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATA
AATCGAGGGTAAAACGGTAATAACGGTAAAATG
Found at i:63207880 original size:81 final size:81
Alignment explanation
Indices: 63207734--63207897 Score: 256
Period size: 81 Copynumber: 2.0 Consensus size: 81
63207724 CGGTAATAAC
63207734 GGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGT
1 GGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGT
*
63207799 AATTCTATAAATCGAG
66 AATTCTACAAATCGAG
* * ***
63207815 GGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGATGGTACTTTGGT
1 GGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGT
* *
63207880 AATTTTACAAATTGAG
66 AATTCTACAAATCGAG
63207896 GG
1 GG
63207898 CATTTCAGTA
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 75 1.00
ACGTcount: A:0.38, C:0.09, G:0.23, T:0.30
Consensus pattern (81 bp):
GGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGT
AATTCTACAAATCGAG
Found at i:63207883 original size:27 final size:27
Alignment explanation
Indices: 63207734--63207872 Score: 242
Period size: 27 Copynumber: 5.1 Consensus size: 27
63207724 CGGTAATAAC
63207734 GGTAAAATGGTAATTCTATAAATCGAG
1 GGTAAAATGGTAATTCTATAAATCGAG
*
63207761 GGTAAAACGGTAATTCTATAAATCGAG
1 GGTAAAATGGTAATTCTATAAATCGAG
63207788 GGTAAAATGGTAATTCTATAAATCGAG
1 GGTAAAATGGTAATTCTATAAATCGAG
*
63207815 GGTAAAATGGTAATTCTGTAAATCGAG
1 GGTAAAATGGTAATTCTATAAATCGAG
* *
63207842 GGTAAAACGGTAATTCTATAAATCGAT
1 GGTAAAATGGTAATTCTATAAATCGAG
63207869 GGTA
1 GGTA
63207873 CTTTGGTAAT
Statistics
Matches: 106, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 106 1.00
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.29
Consensus pattern (27 bp):
GGTAAAATGGTAATTCTATAAATCGAG
Found at i:63217761 original size:44 final size:45
Alignment explanation
Indices: 63217664--63217793 Score: 199
Period size: 44 Copynumber: 2.9 Consensus size: 45
63217654 ATAAACAATA
*
63217664 AAAGCTATATCAATCTCGCACACTAAGTGCCAATATATATACAGCC
1 AAAGCTATCTCAATCTCGCACACTAAGTGCCAATATATATA-AGCC
*
63217710 AAAGCTATCTCAATCACGCACACTAAGTGCCAATATATAT-AGCC
1 AAAGCTATCTCAATCTCGCACACTAAGTGCCAATATATATAAGCC
** *
63217754 AAAGCTATCTCGGTCTCACACACTAAGTGCCAATATATAT
1 AAAGCTATCTCAATCTCGCACACTAAGTGCCAATATATAT
63217794 CTGAAGTTAT
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
44 40 0.51
46 38 0.49
ACGTcount: A:0.38, C:0.26, G:0.12, T:0.25
Consensus pattern (45 bp):
AAAGCTATCTCAATCTCGCACACTAAGTGCCAATATATATAAGCC
Found at i:63217819 original size:42 final size:43
Alignment explanation
Indices: 63217665--63217826 Score: 166
Period size: 46 Copynumber: 3.7 Consensus size: 43
63217655 TAAACAATAA
* *
63217665 AAGCTATATCAATCTCGCACACTAAGTGCCAATATATATACAG
1 AAGCTATCTCGATCTCGCACACTAAGTGCCAATATATATACAG
* *
63217708 CCAAAGCTATCTCAATCACGCACACTAAGTGCCAATATATATAGCCA-
1 ---AAGCTATCTCGATCTCGCACACTAAGTGCCAATATATATA--CAG
* * *
63217755 AAGCTATCTCGGTCTCACACACTAAGTGCCAATATATAT-CTG
1 AAGCTATCTCGATCTCGCACACTAAGTGCCAATATATATACAG
* * * *
63217797 AAGTTATCTCGATTTCGTACACTAAATGCC
1 AAGCTATCTCGATCTCGCACACTAAGTGCC
63217827 CATAATTAGT
Statistics
Matches: 100, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
41 1 0.01
42 24 0.24
44 35 0.35
46 38 0.38
48 2 0.02
ACGTcount: A:0.35, C:0.26, G:0.12, T:0.27
Consensus pattern (43 bp):
AAGCTATCTCGATCTCGCACACTAAGTGCCAATATATATACAG
Found at i:63219882 original size:12 final size:13
Alignment explanation
Indices: 63219846--63219883 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
63219836 AAATATTTAA
63219846 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
63219859 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
63219873 CTTG-TCTTAAT
1 CTTGTTCTTAAT
63219884 ATTCCAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:63221667 original size:13 final size:13
Alignment explanation
Indices: 63221649--63221688 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
63221639 GAAGTAATCG
63221649 CACACGGGCGTGT
1 CACACGGGCGTGT
63221662 CACACGGGCGTGT
1 CACACGGGCGTGT
*
63221675 CACACGGGCATGT
1 CACACGGGCGTGT
63221688 C
1 C
63221689 CCTGTCGAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.17, C:0.33, G:0.35, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:63225775 original size:55 final size:55
Alignment explanation
Indices: 63225711--63225815 Score: 140
Period size: 55 Copynumber: 1.9 Consensus size: 55
63225701 CGAGTGTGTA
** *
63225711 ACACACCCGTGCCTTGAAACCGTGGCCGAACCTGTC-AAACTAACACGGGCGTGCG
1 ACACACCCGTGCCGAGAAACCGTGGCCGAACCTGCCAAAAC-AACACGGGCGTGCG
* * *
63225766 ACACGCCCGTGCCGAGCAACCGTGGGCGAACCTGCCAAAACAACACGGGC
1 ACACACCCGTGCCGAGAAACCGTGGCCGAACCTGCCAAAACAACACGGGC
63225816 CTGGACCTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
55 39 0.91
56 4 0.09
ACGTcount: A:0.27, C:0.36, G:0.27, T:0.10
Consensus pattern (55 bp):
ACACACCCGTGCCGAGAAACCGTGGCCGAACCTGCCAAAACAACACGGGCGTGCG
Found at i:63235912 original size:28 final size:24
Alignment explanation
Indices: 63235859--63235906 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
63235849 ATGATAATAG
*
63235859 TTAGTTTCAAGAACGATTAATTAT
1 TTAGTTTCAAGAACGAGTAATTAT
63235883 TTAGTTTCAAGAACGAGTAATTAT
1 TTAGTTTCAAGAACGAGTAATTAT
63235907 AAATTTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.40
Consensus pattern (24 bp):
TTAGTTTCAAGAACGAGTAATTAT
Found at i:63240611 original size:17 final size:19
Alignment explanation
Indices: 63240576--63240612 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
63240566 TTTAATTAGC
63240576 ATTATGAGATAAAATTATT
1 ATTATGAGATAAAATTATT
*
63240595 ATTATTAGA-AAAA-TATT
1 ATTATGAGATAAAATTATT
63240612 A
1 A
63240613 CTGTAAGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 5 0.29
18 4 0.24
19 8 0.47
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (19 bp):
ATTATGAGATAAAATTATT
Found at i:63240701 original size:3 final size:3
Alignment explanation
Indices: 63240693--63240721 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
63240683 TTTTTATAAA
63240693 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
63240722 ATGGAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:63243062 original size:25 final size:25
Alignment explanation
Indices: 63243033--63243082 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
63243023 CCTTATAAAA
* *
63243033 TAAAAATGACCATTTTGCCCCTAGG
1 TAAAAATGACCATTATACCCCTAGG
63243058 TAAAAATGACCATTATACCCCTAGG
1 TAAAAATGACCATTATACCCCTAGG
63243083 GTTTGAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (25 bp):
TAAAAATGACCATTATACCCCTAGG
Found at i:63243166 original size:11 final size:11
Alignment explanation
Indices: 63243129--63243185 Score: 59
Period size: 11 Copynumber: 5.5 Consensus size: 11
63243119 ACATGGTATG
63243129 TATGATATGCA
1 TATGATATGCA
* *
63243140 CATGACATG--
1 TATGATATGCA
63243149 TATGATATGCA
1 TATGATATGCA
*
63243160 CATGATATG--
1 TATGATATGCA
63243169 TATGATATGCA
1 TATGATATGCA
63243180 TATGAT
1 TATGAT
63243186 GTATTCATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
9 15 0.42
11 21 0.58
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.35
Consensus pattern (11 bp):
TATGATATGCA
Found at i:63243185 original size:20 final size:20
Alignment explanation
Indices: 63243119--63243185 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
63243109 ATTTTGATAA
*
63243119 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
63243139 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
63243159 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
63243179 ATATGAT
1 ACATGAT
63243186 GTATTCATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:63243261 original size:24 final size:24
Alignment explanation
Indices: 63243234--63243382 Score: 221
Period size: 24 Copynumber: 6.2 Consensus size: 24
63243224 GGAGGAAGTG
63243234 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
63243258 TAAAAAGGGCTTACGCCCCAGTTAT
1 T-AAAAGGGCTTATGCCCCAGTTAT
*
63243283 CAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
63243307 T-AAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
* * *
63243330 CAAAAGGGCTTACGCCCCAATTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
63243354 T-AAAGGGCTTTTGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
63243377 TAAAAG
1 TAAAAG
63243383 AGGCAAAGCC
Statistics
Matches: 111, Mismatches: 11, Indels: 6
0.87 0.09 0.05
Matches are distributed among these distances:
23 42 0.38
24 47 0.42
25 22 0.20
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:63243315 original size:23 final size:23
Alignment explanation
Indices: 63243236--63243380 Score: 200
Period size: 23 Copynumber: 6.1 Consensus size: 23
63243226 AGGAAGTGTA
63243236 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
63243259 AAAAAGGGCTTACGCCCCAGTTATCA
1 --AAAGGGCTTATGCCCCAGTTAT-T
63243285 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
63243308 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
* *
63243332 AAAGGGCTTACGCCCCAATTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
63243355 AAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
63243378 AAA
1 AAA
63243381 AGAGGCAAAG
Statistics
Matches: 107, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
23 45 0.42
24 41 0.38
25 21 0.20
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:63243330 original size:47 final size:47
Alignment explanation
Indices: 63243235--63243382 Score: 233
Period size: 47 Copynumber: 3.1 Consensus size: 47
63243225 GAGGAAGTGT
*
63243235 AAAAGGGCTTATGCCCCAGTTATTAAAAAGGGCTTACGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT--AAAGGGCTTATGCCCCAGTTATC
63243284 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
* * * *
63243331 AAAAGGGCTTACGCCCCAATTATTAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
63243378 AAAAG
1 AAAAG
63243383 AGGCAAAGCC
Statistics
Matches: 94, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
47 70 0.74
49 24 0.26
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.26
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
Found at i:63249113 original size:26 final size:27
Alignment explanation
Indices: 63249077--63249129 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
63249067 TATCAGCTAG
* *
63249077 TGAAATTTTAA-TGTTCGAATGTATGC
1 TGAAATTTTAAGTGTCCGAATGCATGC
*
63249103 TGAATTTTTAAGTGTCCGAATGCATGC
1 TGAAATTTTAAGTGTCCGAATGCATGC
63249130 CAGAATTCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (27 bp):
TGAAATTTTAAGTGTCCGAATGCATGC
Found at i:63251015 original size:45 final size:45
Alignment explanation
Indices: 63250951--63251204 Score: 411
Period size: 45 Copynumber: 5.6 Consensus size: 45
63250941 CAGGCTTCGG
63250951 GCCTAGCAGGCTATGATGCCGGTGAAATACTATTCGGGCCTTTGA
1 GCCTAGCAGGCTATGATGCCGGTGAAATACTATTCGGGCCTTTGA
63250996 GCCTAGCAGGCTATGATGCCGGTGAAATACTATTCGGGCCTTTGA
1 GCCTAGCAGGCTATGATGCCGGTGAAATACTATTCGGGCCTTTGA
* *
63251041 GCCTAGCAGGCTATGATGCCGGTGAGATATTATTCGGGGCCTTTGA
1 GCCTAGCAGGCTATGATGCCGGTGAAATACTATTC-GGGCCTTTGA
* * *
63251087 GCCTAGCAGGCTATGATGCCGGTGAGATATTATTCGGGCCTTTAA
1 GCCTAGCAGGCTATGATGCCGGTGAAATACTATTCGGGCCTTTGA
* *
63251132 GCCTAGCAGGCTATAATGCCGGTGAGATACTATTCGGG-CTTTCGA
1 GCCTAGCAGGCTATGATGCCGGTGAAATACTATTCGGGCCTTT-GA
*
63251177 GCCTAGCAGGCTATAATGCCGGTGAAAT
1 GCCTAGCAGGCTATGATGCCGGTGAAAT
63251205 GATATCGGGC
Statistics
Matches: 200, Mismatches: 7, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
44 4 0.02
45 151 0.75
46 45 0.22
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (45 bp):
GCCTAGCAGGCTATGATGCCGGTGAAATACTATTCGGGCCTTTGA
Found at i:63251109 original size:91 final size:90
Alignment explanation
Indices: 63250951--63251242 Score: 425
Period size: 91 Copynumber: 3.3 Consensus size: 90
63250941 CAGGCTTCGG
*
63250951 GCCTAGCAGGCTATGATGCCGGTGAAATACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCC
1 GCCTAGCAGGCTATGATGCCGGTGAGATACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCC
*
63251016 GGTGAAATACTATTCGGGCCTTTGA
66 GGTGAAATACTATTCGGGCCTTTAA
*
63251041 GCCTAGCAGGCTATGATGCCGGTGAGATATTATTCGGGGCCTTTGAGCCTAGCAGGCTATGATGC
1 GCCTAGCAGGCTATGATGCCGGTGAGATACTATTC-GGGCCTTTGAGCCTAGCAGGCTATGATGC
* *
63251106 CGGTGAGATATTATTCGGGCCTTTAA
65 CGGTGAAATACTATTCGGGCCTTTAA
* *
63251132 GCCTAGCAGGCTATAATGCCGGTGAGATACTATTCGGG-CTTTCGAGCCTAGCAGGCTATAATGC
1 GCCTAGCAGGCTATGATGCCGGTGAGATACTATTCGGGCCTTT-GAGCCTAGCAGGCTATGATGC
*
63251196 CGGTGAAATGA-TA-TCGGG-C-TAAA
65 CGGTGAAAT-ACTATTCGGGCCTTTAA
* *
63251219 GCCTAGCAGGCGA-AATGCCGGTGA
1 GCCTAGCAGGCTATGATGCCGGTGA
63251243 TTAGAGAAAA
Statistics
Matches: 188, Mismatches: 11, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
86 11 0.06
87 15 0.08
88 1 0.01
89 9 0.05
90 66 0.35
91 86 0.46
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.25
Consensus pattern (90 bp):
GCCTAGCAGGCTATGATGCCGGTGAGATACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCC
GGTGAAATACTATTCGGGCCTTTAA
Found at i:63251196 original size:136 final size:136
Alignment explanation
Indices: 63250951--63251201 Score: 432
Period size: 136 Copynumber: 1.8 Consensus size: 136
63250941 CAGGCTTCGG
* *
63250951 GCCTAGCAGGCTATGATGCCGGTGAAATACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCC
1 GCCTAGCAGGCTATGATGCCGGTGAAATACTATTCGGGCCTTTAAGCCTAGCAGGCTATAATGCC
*
63251016 GGTGAAATACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAGATATTATTCGGGGC
66 GGTGAAATACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATATTATTCGGGGC
63251081 CTTTGA
131 CTTTGA
* *
63251087 GCCTAGCAGGCTATGATGCCGGTGAGATATTATTCGGGCCTTTAAGCCTAGCAGGCTATAATGCC
1 GCCTAGCAGGCTATGATGCCGGTGAAATACTATTCGGGCCTTTAAGCCTAGCAGGCTATAATGCC
*
63251152 GGTGAGATACTATTCGGG-CTTTCGAGCCTAGCAGGCTATAATGCCGGTGA
66 GGTGAAATACTATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCCGGTGA
63251202 AATGATATCG
Statistics
Matches: 108, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
135 4 0.04
136 104 0.96
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.27
Consensus pattern (136 bp):
GCCTAGCAGGCTATGATGCCGGTGAAATACTATTCGGGCCTTTAAGCCTAGCAGGCTATAATGCC
GGTGAAATACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATATTATTCGGGGC
CTTTGA
Found at i:63254724 original size:30 final size:30
Alignment explanation
Indices: 63254690--63254749 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
63254680 TATTTTATTA
63254690 TTAATTTTGTTATTATTTTAAAAGTATTTG
1 TTAATTTTGTTATTATTTTAAAAGTATTTG
* *
63254720 TTAATTTTGTTATTATTTTAGAGGTATTTG
1 TTAATTTTGTTATTATTTTAAAAGTATTTG
63254750 CTTGTTAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.27, C:0.00, G:0.13, T:0.60
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAAAAGTATTTG
Found at i:63262099 original size:10 final size:10
Alignment explanation
Indices: 63262086--63262116 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
63262076 TATTTTAAGC
63262086 ATCTTTAATT
1 ATCTTTAATT
63262096 ATCTTTAATT
1 ATCTTTAATT
63262106 ATCTTTAATT
1 ATCTTTAATT
63262116 A
1 A
63262117 AATGTATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.58
Consensus pattern (10 bp):
ATCTTTAATT
Found at i:63270576 original size:4 final size:4
Alignment explanation
Indices: 63270567--63270659 Score: 96
Period size: 4 Copynumber: 22.8 Consensus size: 4
63270557 GTAAGTTAAA
* ***
63270567 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG ATAG AAAG AGTT
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG
* * **
63270615 ACAG AGAG CAAATG TGAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG -AAA-G AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
63270660 TAGAAAAGGG
Statistics
Matches: 73, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
4 69 0.95
5 3 0.04
6 1 0.01
ACGTcount: A:0.67, C:0.02, G:0.26, T:0.05
Consensus pattern (4 bp):
AAAG
Found at i:63277842 original size:4 final size:4
Alignment explanation
Indices: 63277833--63277913 Score: 72
Period size: 4 Copynumber: 19.8 Consensus size: 4
63277823 AGTAAGTTAA
* *** * *
63277833 AAAG AAAG AAAG AAAG AAAG AAAG ATAG AAAG AGTT ACAG AGAG CAAACG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG -AAA-G
**
63277883 TGAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
63277914 TAGAAAAGGG
Statistics
Matches: 61, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
4 57 0.93
5 3 0.05
6 1 0.02
ACGTcount: A:0.65, C:0.04, G:0.26, T:0.05
Consensus pattern (4 bp):
AAAG
Found at i:63280426 original size:97 final size:97
Alignment explanation
Indices: 63280252--63280427 Score: 264
Period size: 97 Copynumber: 1.8 Consensus size: 97
63280242 AATTTCTAAG
* *
63280252 AATGTGTTGGGCTGAGTAACCGGGGTGAGGTGCTTGGGTTGTCATCTCTCTTCACATCAAAAGGT
1 AATGTGCTGGGCTGAGTAACCGAGGTGAGGTGCTTGGGTTGTCATCTCTCTTCACATCAAAAGGT
* *
63280317 TCGATATGTTCCTAGGAATAATAAAAATTAAT
66 ACGATATATTCCTAGGAATAATAAAAATTAAT
* ** *
63280349 AATGTGCTGGGCTGAGTAACCGAGGTGGGGTGCTTGGGTTGTCATCTCTCTTTGCGTCAAAAGGT
1 AATGTGCTGGGCTGAGTAACCGAGGTGAGGTGCTTGGGTTGTCATCTCTCTTCACATCAAAAGGT
63280414 AC-AGTATATTCCTA
66 ACGA-TATATTCCTA
63280428 AGTGAAAGTA
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
96 1 0.01
97 69 0.99
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (97 bp):
AATGTGCTGGGCTGAGTAACCGAGGTGAGGTGCTTGGGTTGTCATCTCTCTTCACATCAAAAGGT
ACGATATATTCCTAGGAATAATAAAAATTAAT
Found at i:63284996 original size:33 final size:33
Alignment explanation
Indices: 63284959--63285046 Score: 131
Period size: 33 Copynumber: 2.7 Consensus size: 33
63284949 ACCAAGAGAG
* *
63284959 TAAACACAAAAGAGAGTAAGTCCATTGGGACAA
1 TAAACACAAAATAGAGTAAGTCCATCGGGACAA
* *
63284992 TAAACACATAATAGAGTAAGTCCATCGGGACAG
1 TAAACACAAAATAGAGTAAGTCCATCGGGACAA
*
63285025 TAAACACAAAATAAAGTAAGTC
1 TAAACACAAAATAGAGTAAGTC
63285047 TGCCAAGCTA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.49, C:0.16, G:0.18, T:0.17
Consensus pattern (33 bp):
TAAACACAAAATAGAGTAAGTCCATCGGGACAA
Found at i:63293413 original size:6 final size:6
Alignment explanation
Indices: 63293402--63293428 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
63293392 AATTGAAGTA
63293402 AAAAAT AAAAAT AAAAAT AAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAA
63293429 TAATTATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:63295073 original size:20 final size:20
Alignment explanation
Indices: 63295041--63295078 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
63295031 AGTTTCACAT
63295041 TCATATAACTAATATTTATA
1 TCATATAACTAATATTTATA
*
63295061 TCAT-TAACATAATTTTTA
1 TCATATAAC-TAATATTTA
63295079 ACTTAATAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (20 bp):
TCATATAACTAATATTTATA
Found at i:63299374 original size:21 final size:21
Alignment explanation
Indices: 63299345--63299444 Score: 67
Period size: 21 Copynumber: 4.7 Consensus size: 21
63299335 AATTGGAAAG
*
63299345 ATAAAAAAATAAAGATGATAA
1 ATAATAAAATAAAGATGATAA
** *
63299366 ATAATAAAATAAAGAAAATATC
1 ATAATAAAATAAAGATGATA-A
* *** * **
63299388 ATCATTTTATCATCATGA-AA
1 ATAATAAAATAAAGATGATAA
*
63299408 GATAAAAAAATAAAGATGATAA
1 -ATAATAAAATAAAGATGATAA
63299430 ATAATAAAATAAAGA
1 ATAATAAAATAAAGA
63299445 AAATATTATC
Statistics
Matches: 53, Mismatches: 23, Indels: 6
0.65 0.28 0.07
Matches are distributed among these distances:
21 42 0.79
22 11 0.21
ACGTcount: A:0.64, C:0.04, G:0.08, T:0.24
Consensus pattern (21 bp):
ATAATAAAATAAAGATGATAA
Found at i:63299409 original size:64 final size:64
Alignment explanation
Indices: 63299340--63299467 Score: 247
Period size: 64 Copynumber: 2.0 Consensus size: 64
63299330 GATAAAATTG
63299340 GAAAGATAAAAAAATAAAGATGATAAATAATAAAATAAAGAAAATATCATCATTTTATCATCAT
1 GAAAGATAAAAAAATAAAGATGATAAATAATAAAATAAAGAAAATATCATCATTTTATCATCAT
*
63299404 GAAAGATAAAAAAATAAAGATGATAAATAATAAAATAAAGAAAATATTATCATTTTATCATCAT
1 GAAAGATAAAAAAATAAAGATGATAAATAATAAAATAAAGAAAATATCATCATTTTATCATCAT
63299468 CTTTCCCAAA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.59, C:0.05, G:0.08, T:0.27
Consensus pattern (64 bp):
GAAAGATAAAAAAATAAAGATGATAAATAATAAAATAAAGAAAATATCATCATTTTATCATCAT
Found at i:63301365 original size:20 final size:20
Alignment explanation
Indices: 63301342--63301385 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
63301332 AAATAGGTTA
*
63301342 GTACGAGACTATACAGGTAT
1 GTACGAGACGATACAGGTAT
*
63301362 GTACGAGACGATATAGGTAT
1 GTACGAGACGATACAGGTAT
63301382 GTAC
1 GTAC
63301386 AGAACCTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.34, C:0.14, G:0.27, T:0.25
Consensus pattern (20 bp):
GTACGAGACGATACAGGTAT
Found at i:63307282 original size:33 final size:34
Alignment explanation
Indices: 63307234--63307298 Score: 114
Period size: 33 Copynumber: 1.9 Consensus size: 34
63307224 TTCCCTATAG
*
63307234 AGTCAAATTTGGATTACCAGTCCAGGCTAAATCC
1 AGTCAAATTAGGATTACCAGTCCAGGCTAAATCC
63307268 AGTC-AATTAGGATTACCAGTCCAGGCTAAAT
1 AGTCAAATTAGGATTACCAGTCCAGGCTAAAT
63307299 TCTAATTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 26 0.87
34 4 0.13
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (34 bp):
AGTCAAATTAGGATTACCAGTCCAGGCTAAATCC
Found at i:63321801 original size:43 final size:43
Alignment explanation
Indices: 63321754--63321835 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
63321744 CTTACATGTT
* *
63321754 ATCA-TAAATCAATGCCACTGTCCTAGACAGGGTTTTACACGAA
1 ATCATTAAAT-AATGCCAATGTCCTAGACAGGGTCTTACACGAA
* *
63321797 ATCATTTAATAATGCCAATGTCCTAGACATGGTCTTACA
1 ATCATTAAATAATGCCAATGTCCTAGACAGGGTCTTACA
63321836 TGTAAGCACA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 30 0.88
44 4 0.12
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (43 bp):
ATCATTAAATAATGCCAATGTCCTAGACAGGGTCTTACACGAA
Found at i:63327557 original size:14 final size:14
Alignment explanation
Indices: 63327538--63327567 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
63327528 AAGCAAGTTT
63327538 GAGTTTCTTAGAAA
1 GAGTTTCTTAGAAA
63327552 GAGTTTCTTAGAAA
1 GAGTTTCTTAGAAA
63327566 GA
1 GA
63327568 AACTTGGAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.37, C:0.07, G:0.23, T:0.33
Consensus pattern (14 bp):
GAGTTTCTTAGAAA
Found at i:63331670 original size:48 final size:48
Alignment explanation
Indices: 63331602--63331795 Score: 325
Period size: 48 Copynumber: 4.0 Consensus size: 48
63331592 TACAAGATAA
* * *
63331602 ATATATATATGAGGTAAAGCCGAATGGCTAATGTAAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
63331650 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
63331698 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
63331746 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
63331794 AT
1 AT
63331796 GTGTGTATAT
Statistics
Matches: 139, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 139 1.00
ACGTcount: A:0.37, C:0.06, G:0.27, T:0.30
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:63331991 original size:37 final size:37
Alignment explanation
Indices: 63331936--63332038 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
63331926 GGAAATATAT
63331936 TCCGGGTAAGACCTGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCTGATGACTACGTGTGGAGATTATG
* *
63331973 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCTGATGACTACGTGTGGAGATTATG
* *
63332010 TCTGGGTAAGACCTGATAACTACGTGTGG
1 TCCGGGTAAGACCTGATGACTACGTGTGG
63332039 GGACTATTCG
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCTGATGACTACGTGTGGAGATTATG
Found at i:63344096 original size:92 final size:93
Alignment explanation
Indices: 63343929--63344151 Score: 227
Period size: 94 Copynumber: 2.3 Consensus size: 93
63343919 TCACTAGTGT
* *
63343929 GAGCTGGTGTAAGACATGTCTGAGACATGCATTGGCCACATTATGAGAGCCAGTGTAAGACCATG
1 GAGCTAGTGTAAGACATGTCTG-GACATGCATCGGCCACA-TATGAGAGCCAGTGTAAGACCATG
** * * *
63343994 TCTGGGACATGGCATCGGCACTGAGA-CGA
64 TCCAGGACATGACATCGGCACGGACAGCGA
* * * *
63344023 GTGCTAGTGTAAGACATGTCTAGGACATGCATCGGCTACA-A-GATGTGTCAGTGTAAGACCATG
1 GAGCTAGTGTAAGACATGTCT-GGACATGCATCGGCCACATATGA-GAGCCAGTGTAAGACCATG
* *
63344086 TCCAGGACATGACATTGGCACGGACATGTGA
64 TCCAGGACATGACATCGGCACGGACA-GCGA
*
63344117 GAGCTAGTATAAGACAATGTCTGGGACATGGCATC
1 GAGCTAGTGTAAGAC-ATGTCT-GGACAT-GCATC
63344152 AGCCTCGATG
Statistics
Matches: 107, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
91 2 0.02
92 38 0.36
94 49 0.46
95 13 0.12
96 5 0.05
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.22
Consensus pattern (93 bp):
GAGCTAGTGTAAGACATGTCTGGACATGCATCGGCCACATATGAGAGCCAGTGTAAGACCATGTC
CAGGACATGACATCGGCACGGACAGCGA
Found at i:63344234 original size:31 final size:32
Alignment explanation
Indices: 63344183--63344248 Score: 116
Period size: 31 Copynumber: 2.1 Consensus size: 32
63344173 TGTAAGACCG
63344183 TGTCTGGGACATGGCATTGGCAACTTACCCCA
1 TGTCTGGGACATGGCATTGGCAACTTACCCCA
*
63344215 TGTCTGGGA-ATTGCATTGGCAACTTACCCCA
1 TGTCTGGGACATGGCATTGGCAACTTACCCCA
63344246 TGT
1 TGT
63344249 TTGAGGCTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 24 0.73
32 9 0.27
ACGTcount: A:0.21, C:0.26, G:0.24, T:0.29
Consensus pattern (32 bp):
TGTCTGGGACATGGCATTGGCAACTTACCCCA
Found at i:63346853 original size:36 final size:36
Alignment explanation
Indices: 63346811--63346883 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
63346801 AGTTAAAAAT
63346811 TAGTATTTTGTATTATATATATAAATAGATTAATTA
1 TAGTATTTTGTATTATATATATAAATAGATTAATTA
63346847 TAGTATTTTGTATTATATATATAAATAGATTAATTA
1 TAGTATTTTGTATTATATATATAAATAGATTAATTA
63346883 T
1 T
63346884 CACCTAATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (36 bp):
TAGTATTTTGTATTATATATATAAATAGATTAATTA
Found at i:63347338 original size:25 final size:25
Alignment explanation
Indices: 63347310--63347361 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
63347300 ATTAGATAAT
*
63347310 ATATATT-TTTTTAAAAATTATAAAA
1 ATATATTATTTTGAAAAATT-TAAAA
*
63347335 ATATATTATTTTGATAAATTTAAAA
1 ATATATTATTTTGAAAAATTTAAAA
63347360 AT
1 AT
63347362 TCCAACACAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 14 0.58
26 10 0.42
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (25 bp):
ATATATTATTTTGAAAAATTTAAAA
Found at i:63355768 original size:24 final size:22
Alignment explanation
Indices: 63355741--63355830 Score: 72
Period size: 24 Copynumber: 3.7 Consensus size: 22
63355731 ACAACCTATC
*
63355741 GGAACGCTCCGAAGAGCTATAACG
1 GGAA-GCT-CGAAGAGCTATAATG
* *
63355765 GGAAGCTCACAAGAACCTTATAATG
1 GGAAGCTC-GAAG-AGC-TATAATG
63355790 GGAAGCTCGAGAGAGCTAATAATG
1 GGAAGCTCGA-AGAGCT-ATAATG
*
63355814 GGACGCTCGTAAGAGCT
1 GGAAGCTCG-AAGAGCT
63355831 GTGGTGTGTT
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
22 1 0.02
23 7 0.13
24 29 0.54
25 17 0.31
ACGTcount: A:0.34, C:0.20, G:0.29, T:0.17
Consensus pattern (22 bp):
GGAAGCTCGAAGAGCTATAATG
Found at i:63359038 original size:28 final size:28
Alignment explanation
Indices: 63358975--63359156 Score: 312
Period size: 28 Copynumber: 6.5 Consensus size: 28
63358965 ATATTAAGTC
* *
63358975 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
63359002 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
63359030 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
63359058 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
*
63359086 CACACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
63359114 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
63359142 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
63359157 GTACAATTTA
Statistics
Matches: 148, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
27 22 0.15
28 126 0.85
ACGTcount: A:0.34, C:0.29, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:63359648 original size:12 final size:12
Alignment explanation
Indices: 63359631--63359657 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
63359621 TGGGCATACT
63359631 TATGTATATATA
1 TATGTATATATA
63359643 TATGTATATATA
1 TATGTATATATA
63359655 TAT
1 TAT
63359658 ATACTTCGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
TATGTATATATA
Found at i:63366209 original size:63 final size:63
Alignment explanation
Indices: 63366105--63366234 Score: 145
Period size: 63 Copynumber: 2.1 Consensus size: 63
63366095 GGGCAAGCCG
* * ** * *
63366105 TGTAACTCACTATTTGTGCTTAAGTGTCATACGGGTTAGGGACAC-GGACGTGTGTCCAGGCTA
1 TGTAACTCACTATTTGTGCTTAAGAGTCACACGGGCCAGGGACACAAG-CATGTGTCCAGGCTA
* * * * *
63366168 TGTAACTCGCTGTTTGTGCTTAAGAGTTACATGGGCCAGGGACACAAGCATGTGTCCAGGCTG
1 TGTAACTCACTATTTGTGCTTAAGAGTCACACGGGCCAGGGACACAAGCATGTGTCCAGGCTA
63366231 TGTA
1 TGTA
63366235 CAACATTAAG
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
63 54 0.98
64 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.29
Consensus pattern (63 bp):
TGTAACTCACTATTTGTGCTTAAGAGTCACACGGGCCAGGGACACAAGCATGTGTCCAGGCTA
Found at i:63366846 original size:22 final size:22
Alignment explanation
Indices: 63366812--63366885 Score: 94
Period size: 22 Copynumber: 3.4 Consensus size: 22
63366802 GGGTAAGAAA
63366812 CTGCATCTGTATCTGATATGTT
1 CTGCATCTGTATCTGATATGTT
* * *
63366834 CTGTATCTATATCAGATATGTT
1 CTGCATCTGTATCTGATATGTT
* * *
63366856 TTACATCTGTATCTGATCTGTT
1 CTGCATCTGTATCTGATATGTT
63366878 CTGCATCT
1 CTGCATCT
63366886 TACCTGAACT
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.20, C:0.19, G:0.15, T:0.46
Consensus pattern (22 bp):
CTGCATCTGTATCTGATATGTT
Found at i:63370694 original size:33 final size:33
Alignment explanation
Indices: 63370657--63370719 Score: 126
Period size: 33 Copynumber: 1.9 Consensus size: 33
63370647 AAGGGGTAAG
63370657 AGAATTTATAATGCCTTAAAAATTATTTTTATT
1 AGAATTTATAATGCCTTAAAAATTATTTTTATT
63370690 AGAATTTATAATGCCTTAAAAATTATTTTT
1 AGAATTTATAATGCCTTAAAAATTATTTTT
63370720 GTTAAAAAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.48
Consensus pattern (33 bp):
AGAATTTATAATGCCTTAAAAATTATTTTTATT
Found at i:63371524 original size:22 final size:22
Alignment explanation
Indices: 63371494--63371563 Score: 104
Period size: 22 Copynumber: 3.2 Consensus size: 22
63371484 AGTTCTAAAG
* *
63371494 TATGAGAACCTATATGTTGATA
1 TATGTGAACCTATATGTTAATA
63371516 TATGTGAACCTATATGTTAATA
1 TATGTGAACCTATATGTTAATA
* *
63371538 TATGTGAACCTAAATGTTTATA
1 TATGTGAACCTATATGTTAATA
63371560 TATG
1 TATG
63371564 CAAGTTTATA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.40
Consensus pattern (22 bp):
TATGTGAACCTATATGTTAATA
Found at i:63371531 original size:12 final size:12
Alignment explanation
Indices: 63371494--63371554 Score: 51
Period size: 12 Copynumber: 5.4 Consensus size: 12
63371484 AGTTCTAAAG
*
63371494 TATGAGAACCTA
1 TATGTGAACCTA
63371506 TATGTTG-A--TA
1 TATG-TGAACCTA
63371516 TATGTGAACCTA
1 TATGTGAACCTA
*
63371528 TATGTTAA--TA
1 TATGTGAACCTA
63371538 TATGTGAACCTA
1 TATGTGAACCTA
*
63371550 AATGT
1 TATGT
63371555 TTATATATGC
Statistics
Matches: 39, Mismatches: 4, Indels: 12
0.71 0.07 0.22
Matches are distributed among these distances:
9 2 0.05
10 16 0.41
12 20 0.51
13 1 0.03
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.38
Consensus pattern (12 bp):
TATGTGAACCTA
Found at i:63371680 original size:43 final size:43
Alignment explanation
Indices: 63371632--63371722 Score: 119
Period size: 43 Copynumber: 2.1 Consensus size: 43
63371622 AACCCCCATG
* *
63371632 TTGTGCAAGCCCATGTTTGTGAACCTCTATGAGCGAGCCTCTA
1 TTGTGCAAGCCCATGTCTGTGAACCTCTATGAGCGAGCCCCTA
* * * * *
63371675 TTGTGCGAGGCCATGTCTGTGAACCTTTATGTGTGAGCCCCTA
1 TTGTGCAAGCCCATGTCTGTGAACCTCTATGAGCGAGCCCCTA
63371718 TTGTG
1 TTGTG
63371723 TGAGCCCTTA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.18, C:0.23, G:0.26, T:0.33
Consensus pattern (43 bp):
TTGTGCAAGCCCATGTCTGTGAACCTCTATGAGCGAGCCCCTA
Found at i:63371900 original size:15 final size:15
Alignment explanation
Indices: 63371880--63371927 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
63371870 TGTGCGAAAA
63371880 CTAGGTATGTGAACC
1 CTAGGTATGTGAACC
** *
63371895 CTAGGTGCGTGAAAC
1 CTAGGTATGTGAACC
**
63371910 CTATTTATGTGAACC
1 CTAGGTATGTGAACC
63371925 CTA
1 CTA
63371928 CATGTGCGAA
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (15 bp):
CTAGGTATGTGAACC
Found at i:63372031 original size:14 final size:14
Alignment explanation
Indices: 63371952--63372036 Score: 91
Period size: 14 Copynumber: 6.1 Consensus size: 14
63371942 TCGATATGAG
* *
63371952 CCCCTACGTACGAA
1 CCCCTAGGTGCGAA
*
63371966 -CCCTAGGTGCAAA
1 CCCCTAGGTGCGAA
*
63371979 ACCCTAGGTGCGAA
1 CCCCTAGGTGCGAA
* *
63371993 CCCCTATGTGCAAA
1 CCCCTAGGTGCGAA
*
63372007 CCCCTAGGTGTGAA
1 CCCCTAGGTGCGAA
*
63372021 CCCCTAGGTGTGAA
1 CCCCTAGGTGCGAA
63372035 CC
1 CC
63372037 ATATATGTGA
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
13 10 0.17
14 50 0.83
ACGTcount: A:0.26, C:0.34, G:0.22, T:0.18
Consensus pattern (14 bp):
CCCCTAGGTGCGAA
Found at i:63372036 original size:28 final size:28
Alignment explanation
Indices: 63371952--63372030 Score: 106
Period size: 28 Copynumber: 2.9 Consensus size: 28
63371942 TCGATATGAG
* *
63371952 CCCCTACGTACGAA-CCCTAGGTGCAAA
1 CCCCTAGGTGCGAACCCCTAGGTGCAAA
* *
63371979 ACCCTAGGTGCGAACCCCTATGTGCAAA
1 CCCCTAGGTGCGAACCCCTAGGTGCAAA
*
63372007 CCCCTAGGTGTGAACCCCTAGGTG
1 CCCCTAGGTGCGAACCCCTAGGTG
63372031 TGAACCATAT
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
27 11 0.25
28 33 0.75
ACGTcount: A:0.25, C:0.34, G:0.23, T:0.18
Consensus pattern (28 bp):
CCCCTAGGTGCGAACCCCTAGGTGCAAA
Found at i:63372746 original size:123 final size:126
Alignment explanation
Indices: 63372521--63372761 Score: 380
Period size: 123 Copynumber: 1.9 Consensus size: 126
63372511 TTATATTTGG
* *
63372521 CTATTTTATATCTAAACGATATATATGTGTGTATTTATTTATTGTTTGTTTGTTTGTTTGTTTAT
1 CTATTTTATATCTAAACGATATATATATGTGTATTTATTTA---TTTGTTTGTTTGTTTGATTAT
* *
63372586 TATTTATTAACATTATCCGTGAACATGTTCAATTATATGTTCATAAACATGTTTGTTTAATATT
63 TATTTATCAACATTATCCGTGAACATGTTCAATTATATATTCATAAACATGTTTGTTTAATATT
63372650 CTATTTTATATCTAAAC-A-ATATATATGTGTATTTATTTA-TTGTTTGTTTGTTTGATTATTAT
1 CTATTTTATATCTAAACGATATATATATGTGTATTTATTTATTTGTTTGTTTGTTTGATTATTAT
* *
63372712 TTATCAACATTGTCCGTGAACATGTTCAATTATATATTCATGAACATGTT
66 TTATCAACATTATCCGTGAACATGTTCAATTATATATTCATAAACATGTT
63372762 CGATCAAGTT
Statistics
Matches: 106, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
123 68 0.64
127 20 0.19
128 1 0.01
129 17 0.16
ACGTcount: A:0.28, C:0.09, G:0.11, T:0.52
Consensus pattern (126 bp):
CTATTTTATATCTAAACGATATATATATGTGTATTTATTTATTTGTTTGTTTGTTTGATTATTAT
TTATCAACATTATCCGTGAACATGTTCAATTATATATTCATAAACATGTTTGTTTAATATT
Found at i:63381251 original size:20 final size:20
Alignment explanation
Indices: 63381228--63381265 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
63381218 TGTAGATATA
* *
63381228 ATTTTTAAGATTATATTTTT
1 ATTTTAAAGATTAAATTTTT
63381248 ATTTTAAAGATTAAATTT
1 ATTTTAAAGATTAAATTT
63381266 GTGTTTAAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (20 bp):
ATTTTAAAGATTAAATTTTT
Found at i:63392755 original size:22 final size:22
Alignment explanation
Indices: 63392727--63392769 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
63392717 TGTTATTAGT
*
63392727 GGTAGTTTATCTGCAAATCAGG
1 GGTAGTTTAACTGCAAATCAGG
63392749 GGTAGTTTAACTGCAAATCAG
1 GGTAGTTTAACTGCAAATCAG
63392770 TGGTGACTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (22 bp):
GGTAGTTTAACTGCAAATCAGG
Found at i:63393591 original size:27 final size:27
Alignment explanation
Indices: 63393561--63393613 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
63393551 AATGGGTTTA
63393561 GTGGATTTAGTGGGTTA-AACTGGAGGT
1 GTGGATTTAGTGGGTTACAA-TGGAGGT
*
63393588 GTGGGTTTAGTGGGTTACAATGGAGG
1 GTGGATTTAGTGGGTTACAATGGAGG
63393614 CGTGATCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 22 0.92
28 2 0.08
ACGTcount: A:0.21, C:0.04, G:0.43, T:0.32
Consensus pattern (27 bp):
GTGGATTTAGTGGGTTACAATGGAGGT
Found at i:63397226 original size:20 final size:20
Alignment explanation
Indices: 63397203--63397278 Score: 59
Period size: 20 Copynumber: 3.8 Consensus size: 20
63397193 AGGCACCGAA
*
63397203 GTGCATTCAGGGACACAAAT
1 GTGCATTCAGGGACACAGAT
*
63397223 GTGC-TATCAAGGGTA-TCAGA-
1 GTGCAT-TC-AGGG-ACACAGAT
*
63397243 GTGCATTCAGGGTCACAGAT
1 GTGCATTCAGGGACACAGAT
**
63397263 GTGCAAACAGGGACAC
1 GTGCATTCAGGGACAC
63397279 TGAAGTATTT
Statistics
Matches: 43, Mismatches: 7, Indels: 12
0.69 0.11 0.19
Matches are distributed among these distances:
19 9 0.21
20 25 0.58
21 8 0.19
22 1 0.02
ACGTcount: A:0.32, C:0.20, G:0.29, T:0.20
Consensus pattern (20 bp):
GTGCATTCAGGGACACAGAT
Found at i:63397261 original size:19 final size:20
Alignment explanation
Indices: 63397203--63397267 Score: 64
Period size: 20 Copynumber: 3.2 Consensus size: 20
63397193 AGGCACCGAA
* *
63397203 GTGCATTCAGGGACACAAAT
1 GTGCATTCAGGGTCACAGAT
63397223 GTGC-TATCAAGGGT-ATCAGA-
1 GTGCAT-TC-AGGGTCA-CAGAT
63397243 GTGCATTCAGGGTCACAGAT
1 GTGCATTCAGGGTCACAGAT
63397263 GTGCA
1 GTGCA
63397268 AACAGGGACA
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
19 10 0.27
20 19 0.51
21 8 0.22
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.23
Consensus pattern (20 bp):
GTGCATTCAGGGTCACAGAT
Found at i:63399455 original size:44 final size:44
Alignment explanation
Indices: 63399391--63399503 Score: 154
Period size: 44 Copynumber: 2.6 Consensus size: 44
63399381 TATAGAACTT
* ** *
63399391 AGTGTGCAATATTGAGATAGCTTCGATTTAATGTGATGGCACTA
1 AGTGTGCAATATCGTTATAGCTTCGATTTAATGTGATGGCACGA
*
63399435 AGTTTGCAATATCGTTATAGCTTCGATTTAATGTGATGGCACGA
1 AGTGTGCAATATCGTTATAGCTTCGATTTAATGTGATGGCACGA
** *
63399479 AGTGTGTGATATTGTTATAGCTTCG
1 AGTGTGCAATATCGTTATAGCTTCG
63399504 GCTAATCATT
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 60 1.00
ACGTcount: A:0.27, C:0.12, G:0.25, T:0.37
Consensus pattern (44 bp):
AGTGTGCAATATCGTTATAGCTTCGATTTAATGTGATGGCACGA
Found at i:63402961 original size:39 final size:40
Alignment explanation
Indices: 63402844--63403067 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
63402834 GCTCCTCGTT
* *
63402844 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
63402884 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
63402924 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* *
63402963 CAAATGACTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * * *
63403002 CAAATGCCTTC-GGATCTTAGTCCGG-ATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCA
63403043 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
63403068 CATCATTCAA
Statistics
Matches: 164, Mismatches: 13, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
38 2 0.01
39 72 0.44
40 77 0.47
41 13 0.08
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:63403027 original size:118 final size:120
Alignment explanation
Indices: 63402844--63403067 Score: 296
Period size: 118 Copynumber: 1.9 Consensus size: 120
63402834 GCTCCTCGTT
* *
63402844 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGACTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
63402909 ATTTAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* * **
63402963 CAAATGACTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGACTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* *
63403025 GGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 GGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
63403068 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
117 4 0.04
118 55 0.60
119 32 0.35
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (120 bp):
CAAATGACTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:63408316 original size:24 final size:24
Alignment explanation
Indices: 63408289--63408335 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
63408279 ATTTTTGAGA
63408289 AAGAAATTTCCTAAGGGGGGGAGT
1 AAGAAATTTCCTAAGGGGGGGAGT
*
63408313 AAGAAATTTCCTAAGTGGGGGAG
1 AAGAAATTTCCTAAGGGGGGGAG
63408336 AGTTGTAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.34, C:0.09, G:0.36, T:0.21
Consensus pattern (24 bp):
AAGAAATTTCCTAAGGGGGGGAGT
Found at i:63411425 original size:26 final size:27
Alignment explanation
Indices: 63411390--63411446 Score: 107
Period size: 26 Copynumber: 2.1 Consensus size: 27
63411380 TATCACAATG
63411390 TCATCAAGTATTTAGATACATCTT-AA
1 TCATCAAGTATTTAGATACATCTTAAA
63411416 TCATCAAGTATTTAGATACATCTTAAA
1 TCATCAAGTATTTAGATACATCTTAAA
63411443 TCAT
1 TCAT
63411447 GTCATTTACA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 24 0.80
27 6 0.20
ACGTcount: A:0.39, C:0.16, G:0.07, T:0.39
Consensus pattern (27 bp):
TCATCAAGTATTTAGATACATCTTAAA
Found at i:63411760 original size:43 final size:42
Alignment explanation
Indices: 63411677--63411835 Score: 119
Period size: 43 Copynumber: 3.7 Consensus size: 42
63411667 TAAGATGCCA
* * * *
63411677 ATGCCATATCCCAGATATGGTCTCACATG-GGATCAT-ATATCG
1 ATGCCATAGCCCAGATATGGTCTTACACGAAG-TC-TCATATCG
*
63411719 ATGCCAATAGCCCA-ACTATGGTCTTACACGATGTCTCATATCG
1 ATGCC-ATAGCCCAGA-TATGGTCTTACACGAAGTCTCATATCG
* * * *
63411762 ATGCCATATCCTAGATATGGTCTTATACGAAGTCTCATTTTCG
1 ATGCCATAGCCCAGATATGGTCTTACACGAAGTCTCA-TATCG
* * **
63411805 AAGCCAT-GTCCCATACGTGGTCTTACACGAA
1 ATGCCATAG-CCCAGATATGGTCTTACACGAA
63411836 ATCGCATGCC
Statistics
Matches: 94, Mismatches: 16, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
42 33 0.35
43 60 0.64
44 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.30
Consensus pattern (42 bp):
ATGCCATAGCCCAGATATGGTCTTACACGAAGTCTCATATCG
Found at i:63414565 original size:23 final size:23
Alignment explanation
Indices: 63414539--63414590 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
63414529 AGGTTAAGCC
63414539 CAAGTCATGGAACGACAAGAATT
1 CAAGTCATGGAACGACAAGAATT
* *
63414562 CAAGTCATGGCACGACGAGAATT
1 CAAGTCATGGAACGACAAGAATT
*
63414585 TAAGTC
1 CAAGTC
63414591 GTTGCGACAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.19
Consensus pattern (23 bp):
CAAGTCATGGAACGACAAGAATT
Found at i:63417560 original size:47 final size:47
Alignment explanation
Indices: 63417508--63418101 Score: 954
Period size: 47 Copynumber: 12.6 Consensus size: 47
63417498 GATAATTGTG
* *
63417508 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
63417555 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
63417602 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
63417649 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
63417698 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGCCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
63417745 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
63417792 ATGTGAAAGTGTATATAAAAGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATAT--ATGTGATAAGGCCTAATGGCCGATGTGATGA
*
63417841 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
63417888 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTAATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
63417935 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
63417982 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
63418029 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
63418076 ATGTGAAAGCGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
63418102 TCCCGAAGGG
Statistics
Matches: 508, Mismatches: 35, Indels: 8
0.92 0.06 0.01
Matches are distributed among these distances:
47 419 0.82
49 89 0.18
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:63417671 original size:143 final size:143
Alignment explanation
Indices: 63417508--63418101 Score: 1002
Period size: 143 Copynumber: 4.2 Consensus size: 143
63417498 GATAATTGTG
63417508 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
63417571 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
66 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
63417636 GCCAATGTGATGA
131 GCCAATGTGATGA
63417649 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
63417714 ATGTGATAAGGCCTAATGCCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
66 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
63417779 GCCAATGTGATGA
131 GCCAATGTGATGA
* *
63417792 ATGTGAAAGTGTATATAAAAGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * *
63417857 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATGAGGCCTAATG
66 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
* *
63417922 GCCGATGTAATGA
131 GCCAATGTGATGA
*
63417935 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * * *
63417998 ATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTG
66 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
* *
63418063 GCCAACGTGATGG
131 GCCAATGTGATGA
*
63418076 ATGTGAAAGCGTATA-A-ATGTGATAAG
1 ATGTGAAAGTGTATATATATGTGATAAG
63418102 TCCCGAAGGG
Statistics
Matches: 425, Mismatches: 24, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
141 141 0.33
142 3 0.01
143 281 0.66
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (143 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
GCCAATGTGATGA
Found at i:63420387 original size:40 final size:40
Alignment explanation
Indices: 63420326--63420566 Score: 297
Period size: 40 Copynumber: 6.0 Consensus size: 40
63420316 AGGTCTCGAC
63420326 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* *
63420365 GATGTACCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* *
63420405 GATGTATCCGGACTAAGTCCCGAAGAGCATTCATGCCAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
** *
63420445 GATGTATCCGGGCTAAGTTACGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * * * * *
63420485 AATATATCCGTGCTAA-ACCTCGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCC-CGAAGAGCATTCATGCTAGT
* * * * *
63420525 GTTATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
63420565 GA
1 GA
63420567 CGTGTATTCG
Statistics
Matches: 173, Mismatches: 26, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
39 4 0.02
40 167 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
Found at i:63423933 original size:36 final size:39
Alignment explanation
Indices: 63423886--63424299 Score: 188
Period size: 47 Copynumber: 9.2 Consensus size: 39
63423876 GGATAATTGT
63423886 GATGTGAATGT-A-TATATATGTGATAA-GCTAATGGCC
1 GATGTGAATGTAAGTATATATGTGATAAGGCTAATGGCC
63423922 GATGTGAATGTAAGTATATATGTGATAAGGCTAATGGCC
1 GATGTGAATGTAAGTATATATGTGATAAGGCTAATGGCC
*
63423961 -ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCC
1 GA--TG-TGAATGT--AA--GTATATATGTGATAAGG-CTAATGGCC
*
63424007 AATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
1 GA--TG-TGAATGT--AA--G--TATATATGTGATAAGG-CTAATGGCC
*
63424056 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGCCC
1 GA--TG-TGAATGT--AA--GTATATATGTGATAAGG-CTAATGGCC
*
63424103 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCC
1 GA--TG-TGAATGT--AA--GTATATATGTGATAAGG-CTAATGGCC
* *
63424150 AATGTGATGAATGTGAAAGTGTATATAAAAGTGATAAGGCCTAATGGCC
1 GA--TG-TGAATGT--AA--GTATAT--ATGTGATAAGG-CTAATGGCC
*
63424199 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCC
1 GA--TG-TGAATGT--AA--GTATATATGTGATAAGG-CTAATGGCC
*
63424246 GATGTGATGAATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCC
1 GA--TG-TGAATGT--AA--GTATATATGTGATAAGG-CTAATGGCC
63424293 GATGTGA
1 GATGTGA
63424300 TGAATGTGAA
Statistics
Matches: 348, Mismatches: 14, Indels: 24
0.90 0.04 0.06
Matches are distributed among these distances:
36 11 0.03
37 1 0.00
38 15 0.04
39 10 0.03
40 2 0.01
41 7 0.02
43 2 0.01
44 3 0.01
45 19 0.05
46 8 0.02
47 181 0.52
49 89 0.26
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (39 bp):
GATGTGAATGTAAGTATATATGTGATAAGGCTAATGGCC
Found at i:63423949 original size:38 final size:37
Alignment explanation
Indices: 63423886--63423966 Score: 130
Period size: 38 Copynumber: 2.2 Consensus size: 37
63423876 GGATAATTGT
63423886 GATGTGAATGTATATATATGTGATAA-GCTAATGGCC
1 GATGTGAATGTATATATATGTGATAAGGCTAATGGCC
63423922 GATGTGAATGTAAGTATATATGTGATAAGGCTAATGGCC
1 GATGTGAATGT-A-TATATATGTGATAAGGCTAATGGCC
63423961 -ATGTGA
1 GATGTGA
63423967 TGAATGTGAA
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
36 11 0.26
37 1 0.02
38 20 0.48
39 10 0.24
ACGTcount: A:0.33, C:0.07, G:0.27, T:0.32
Consensus pattern (37 bp):
GATGTGAATGTATATATATGTGATAAGGCTAATGGCC
Found at i:63424012 original size:47 final size:47
Alignment explanation
Indices: 63423935--63424375 Score: 679
Period size: 47 Copynumber: 9.3 Consensus size: 47
63423925 GTGAATGTAA
63423935 GTATATATGTGATAAGG-CTAATGGCC-ATGTGATGAATGTGAAAGT
1 GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
* *
63423980 GTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGT
1 GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
63424027 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
1 G--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
*
63424076 GTATATATGTGATAAGGCCTAATGCCCGATGTGATGAATGTGAAAGT
1 GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
* *
63424123 GTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGT
1 GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
*
63424170 GTATATAAAAGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
1 GTATAT--ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
*
63424219 GTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGT
1 GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
*
63424266 GTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
1 GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
* * * * * * * *
63424313 GTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGC
1 GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
*
63424360 GTATAAATGTGATAAG
1 GTATATATGTGATAAG
63424376 TCCGAAGGGC
Statistics
Matches: 364, Mismatches: 26, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
45 17 0.05
46 8 0.02
47 250 0.69
49 89 0.24
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
Found at i:63424109 original size:143 final size:142
Alignment explanation
Indices: 63423935--63424375 Score: 701
Period size: 143 Copynumber: 3.1 Consensus size: 142
63423925 GTGAATGTAA
63423935 GTATATATGTGATAAGG-CTAATGGCC-ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
1 GTATATATGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
63423998 CGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGA
65 CGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGA
63424063 TGAATGTGAAAGT
130 TGAATGTGAAAGT
63424076 GTATATATGTGATAAGGCCTAATGCCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
1 GTATATATGTGATAAGGCCTAATG-CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
* *
63424141 CGAATGGCCAATGTGATGAATGTGAAAGTGTATATAAAAGTGATAAGGCCTAATGGCCGATGTGA
65 CGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGA
63424206 TGAATGTGAAAGT
130 TGAATGTGAAAGT
*
63424219 GTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATGAGGC
1 GTATATATGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
* * * * * * * *
63424284 CTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGA
65 CGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGA
* *
63424347 TGGATGTGAAAGC
130 TGAATGTGAAAGT
*
63424360 GTATAAATGTGATAAG
1 GTATATATGTGATAAG
63424376 TCCGAAGGGC
Statistics
Matches: 280, Mismatches: 16, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
141 69 0.25
142 7 0.03
143 203 0.73
144 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (142 bp):
GTATATATGTGATAAGGCCTAATGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
GAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
GAATGTGAAAGT
Found at i:63438345 original size:27 final size:28
Alignment explanation
Indices: 63438315--63438372 Score: 72
Period size: 26 Copynumber: 2.2 Consensus size: 28
63438305 TTGTTAAAAC
63438315 TCTTCTAAAA-GAAAACTCAATAGA-AAT
1 TCTTCTAAAATGAAAACTCAA-AGAGAAT
63438342 TC-T-TAAAATGAAAACTCAAAGAGAAT
1 TCTTCTAAAATGAAAACTCAAAGAGAAT
63438368 T-TTCT
1 TCTTCT
63438373 TTAACTCAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
25 8 0.30
26 16 0.59
27 3 0.11
ACGTcount: A:0.48, C:0.14, G:0.09, T:0.29
Consensus pattern (28 bp):
TCTTCTAAAATGAAAACTCAAAGAGAAT
Found at i:63438356 original size:26 final size:25
Alignment explanation
Indices: 63438320--63438368 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 25
63438310 AAAACTCTTC
63438320 TAAAAGAAAACTCAATAGA-AATTCT
1 TAAAAGAAAACTCAA-AGAGAATTCT
63438345 TAAAATGAAAACTCAAAGAGAATT
1 TAAAA-GAAAACTCAAAGAGAATT
63438369 TTCTTTAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.57, C:0.10, G:0.10, T:0.22
Consensus pattern (25 bp):
TAAAAGAAAACTCAAAGAGAATTCT
Found at i:63439783 original size:68 final size:67
Alignment explanation
Indices: 63439609--63439783 Score: 172
Period size: 68 Copynumber: 2.6 Consensus size: 67
63439599 CCTCAAAAGA
* * * * * * * * * *
63439609 GGTTACAGGTGTAAGACCACAACTCGACTATGGCGAC-TATAGAGTCTGCCAAGACATTAAACAT
1 GGTTACATGTGTAAGACCATATCTCGGCTATGACAACATGTGGAGTCCGCCAAGACACTAAACAT
63439673 AG
66 AG
* * *
63439675 GGTTACATGTGTAAGTCTATATCTCGGCTATGGCAACATGTGGAGTCCGCCAAGACACTAAACAT
1 GGTTACATGTGTAAGACCATATCTCGGCTATGACAACATGTGGAGTCCGCCAAGACACTAAACAT
*
63439740 GG
66 AG
* * * *
63439742 GGATTACATGTGTAAGACCATTTCTTGGCTATTACAGCATGT
1 GG-TTACATGTGTAAGACCATATCTCGGCTATGACAACATGT
63439784 AAGGTCCATA
Statistics
Matches: 88, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
66 30 0.34
67 26 0.30
68 32 0.36
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.26
Consensus pattern (67 bp):
GGTTACATGTGTAAGACCATATCTCGGCTATGACAACATGTGGAGTCCGCCAAGACACTAAACAT
AG
Found at i:63442891 original size:32 final size:32
Alignment explanation
Indices: 63442855--63442919 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
63442845 TATTTATGAG
63442855 ATCATTAGTGTCGTATTAAAAATTGGTTAATA
1 ATCATTAGTGTCGTATTAAAAATTGGTTAATA
63442887 ATCATTAGTGTCGTATTAAAAATTGGTTAATA
1 ATCATTAGTGTCGTATTAAAAATTGGTTAATA
63442919 A
1 A
63442920 GTTGTAATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.38, C:0.06, G:0.15, T:0.40
Consensus pattern (32 bp):
ATCATTAGTGTCGTATTAAAAATTGGTTAATA
Found at i:63444940 original size:43 final size:43
Alignment explanation
Indices: 63444893--63445028 Score: 118
Period size: 43 Copynumber: 3.2 Consensus size: 43
63444883 TCCCAGATGT
* * *
63444893 GGTCTTACATGTAATTCAATATCGATGCCTCTGTCCCAGACAG
1 GGTCTTACACGTAATTCAATATCGATGCCTATGTCCCAGACAC
* * * *
63444936 GGTCTTACACG-AAATCAGATA-CGATGTCGATGTCCCAGACAT
1 GGTCTTACACGTAATTCA-ATATCGATGCCTATGTCCCAGACAC
* * * *
63444978 GGTCGTATACGTAAATCTCAAT-T-GAGGCCTGTGTCCCAGACAC
1 GGTCTTACACGT-AAT-TCAATATCGATGCCTATGTCCCAGACAC
63445021 GGTCTTAC
1 GGTCTTAC
63445029 GCGATGTCTC
Statistics
Matches: 72, Mismatches: 16, Indels: 10
0.73 0.16 0.10
Matches are distributed among these distances:
42 31 0.43
43 34 0.47
44 4 0.06
45 3 0.04
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.27
Consensus pattern (43 bp):
GGTCTTACACGTAATTCAATATCGATGCCTATGTCCCAGACAC
Found at i:63445822 original size:6 final size:6
Alignment explanation
Indices: 63445811--63445844 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
63445801 TGGCTTTCTC
63445811 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTT
63445845 GATTTTCGGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (6 bp):
CTTTTT
Found at i:63447458 original size:20 final size:20
Alignment explanation
Indices: 63447429--63447466 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
63447419 CTAAACCGAC
*
63447429 AACTTGGAAAAATTTTACAA
1 AACTTAGAAAAATTTTACAA
*
63447449 AACTTAGAAAATTTTTAC
1 AACTTAGAAAAATTTTAC
63447467 CCTTAACAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.11, G:0.08, T:0.34
Consensus pattern (20 bp):
AACTTAGAAAAATTTTACAA
Found at i:63456056 original size:21 final size:20
Alignment explanation
Indices: 63456028--63456066 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
63456018 TTTGGGATTA
63456028 AAATATGAAAATGATAATCC
1 AAATATGAAAATGATAATCC
63456048 AAATGATGAAAATGATAAT
1 AAAT-ATGAAAATGATAAT
63456067 TATTTTTAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.56, C:0.05, G:0.13, T:0.26
Consensus pattern (20 bp):
AAATATGAAAATGATAATCC
Found at i:63466414 original size:6 final size:6
Alignment explanation
Indices: 63466405--63466434 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
63466395 ATATTTAAGA
63466405 TTAATT TTAATT TTAATT TTAATT TTAATT
1 TTAATT TTAATT TTAATT TTAATT TTAATT
63466435 AAATAATGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TTAATT
Found at i:63466419 original size:18 final size:18
Alignment explanation
Indices: 63466398--63466434 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
63466388 TTTATTTATA
63466398 TTTAAGATTAATTTTAAT
1 TTTAAGATTAATTTTAAT
**
63466416 TTTAATTTTAATTTTAAT
1 TTTAAGATTAATTTTAAT
63466434 T
1 T
63466435 AAATAATGCA
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:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (18 bp):
TTTAAGATTAATTTTAAT
Found at i:63472013 original size:3 final size:3
Alignment explanation
Indices: 63472005--63472083 Score: 86
Period size: 3 Copynumber: 26.0 Consensus size: 3
63471995 AAGGGCCCAA
* * * * * * *
63472005 ATT ATT ATT ATT ATT ATC ATC ATC ACT ACT ACT ATT ATT ATT AAAT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT
63472051 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
63472084 TACAAATAAA
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
3 67 0.97
4 2 0.03
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.57
Consensus pattern (3 bp):
ATT
Found at i:63472225 original size:10 final size:11
Alignment explanation
Indices: 63472205--63472229 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
63472195 CGAATTCTAG
63472205 TTTCTTTTTTT
1 TTTCTTTTTTT
63472216 TTTCTTTTTTT
1 TTTCTTTTTTT
63472227 TTT
1 TTT
63472230 GGTCATATAC
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:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTCTTTTTTT
Found at i:63484921 original size:18 final size:18
Alignment explanation
Indices: 63484895--63484929 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
63484885 ATATATTAAT
63484895 CCAAGTACCCAACCCAAC
1 CCAAGTACCCAACCCAAC
*
63484913 CCAATTACCCAACCCAA
1 CCAAGTACCCAACCCAA
63484930 TCATAAAAAT
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:0.49, G:0.03, T:0.09
Consensus pattern (18 bp):
CCAAGTACCCAACCCAAC
Found at i:63484922 original size:13 final size:13
Alignment explanation
Indices: 63484906--63484930 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
63484896 CAAGTACCCA
63484906 ACCCAACCCAATT
1 ACCCAACCCAATT
63484919 ACCCAACCCAAT
1 ACCCAACCCAAT
63484931 CATAAAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:63484996 original size:20 final size:20
Alignment explanation
Indices: 63484958--63484996 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
63484948 ATTTAATAAA
* **
63484958 TAAAAATAGAAATCTAAAAC
1 TAAAAATAAAAATAAAAAAC
63484978 TAAAAATAAAAATAAAAAA
1 TAAAAATAAAAATAAAAAA
63484997 TATATAATTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.74, C:0.05, G:0.03, T:0.18
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAAAC
Done.