Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr2
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: 43198478
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2088848 characters in sequence are not A, C, G, or T
File 2 of 131
Found at i:590078 original size:12 final size:12
Alignment explanation
Indices: 590057--590088 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
590047 CATGATTATC
590057 CTAATCCTAATG
1 CTAATCCTAATG
*
590069 CTAATGCTAATG
1 CTAATCCTAATG
590081 CTAATCCT
1 CTAATCCT
590089 CTAATCTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.31, C:0.25, G:0.09, T:0.34
Consensus pattern (12 bp):
CTAATCCTAATG
Found at i:594338 original size:3 final size:3
Alignment explanation
Indices: 594330--594357 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
594320 GTTGGAGCTC
594330 CAT CAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT C
594358 TACAGCTGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:597493 original size:100 final size:100
Alignment explanation
Indices: 597229--597526 Score: 381
Period size: 99 Copynumber: 3.0 Consensus size: 100
597219 AATCAATACT
*
597229 AAATCATAACAAATACTAATATGTAATCAGTTAACACTATATCATCACAAATACAACAGCTAGCT
1 AAATCATAACAAATACTAATAT-TAATCAATTAACACTATATCATCACAAATACAACAGCTAGCT
* * *
597294 CATTCCGAGTAAATAAATTCATCAAAGTAAAAGTTA
65 CACTCCGAGTAAATAAATTCATCAAATTAAAAGTCA
* * *
597330 AAA-C-TAA-ATCATAACAAATATTAA-CAAATTAACACTATAACATCACAAATACAACAGCTAG
1 AAATCATAACA-AAT-ACTAATATTAATC-AATTAACACTATATCATCACAAATACAACAGCTAG
* *
597391 CTCACTCCGAGTAAATAAATTCATTAAATTAAACG-CA
63 CTCACTCCGAGTAAATAAATTCATCAAATTAAAAGTCA
* * * *
597428 AAATCATAACAAATACTAATCTCTAATCAATTAACAATATATCATCATAAATACAACCGCTAGCT
1 AAATCATAACAAATACTAATAT-TAATCAATTAACACTATATCATCACAAATACAACAGCTAGCT
*
597493 CACTCAGAGTAAAATAAATTCATCAAATTAAAAG
65 CACTCCGAGT-AAATAAATTCATCAAATTAAAAG
597527 CAGAATTCTA
Statistics
Matches: 169, Mismatches: 19, Indels: 18
0.82 0.09 0.09
Matches are distributed among these distances:
98 6 0.04
99 79 0.47
100 58 0.34
101 26 0.15
ACGTcount: A:0.49, C:0.19, G:0.06, T:0.26
Consensus pattern (100 bp):
AAATCATAACAAATACTAATATTAATCAATTAACACTATATCATCACAAATACAACAGCTAGCTC
ACTCCGAGTAAATAAATTCATCAAATTAAAAGTCA
Found at i:598333 original size:21 final size:22
Alignment explanation
Indices: 598293--598335 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
598283 ATTTATATTT
*
598293 TTAAATTTGAAAAGTATAAAAA
1 TTAAATTTCAAAAGTATAAAAA
*
598315 TTAAATTTCATAA-TATAAAAA
1 TTAAATTTCAAAAGTATAAAAA
598336 CAAGAGATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (22 bp):
TTAAATTTCAAAAGTATAAAAA
Found at i:606961 original size:69 final size:69
Alignment explanation
Indices: 606845--606984 Score: 271
Period size: 69 Copynumber: 2.0 Consensus size: 69
606835 TGAGGGCTGC
606845 AATCGCCGCTAGTTTGATGGATTCTTCTCCAGCCACGGCCAGCGGTGAGTCCAGCATCCCTAAAA
1 AATCGCCGCTAGTTTGATGGATTCTTCTCCAGCCACGGCCAGCGGTGAGTCCAGCATCCCTAAAA
606910 CTGA
66 CTGA
*
606914 AATCGCCGCTAGTTTGATGGATTCTTCTCCAGCCACGGCCAGTGGTGAGTCCAGCATCCCTAAAA
1 AATCGCCGCTAGTTTGATGGATTCTTCTCCAGCCACGGCCAGCGGTGAGTCCAGCATCCCTAAAA
606979 CTGA
66 CTGA
606983 AA
1 AA
606985 ATAAAGATAT
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (69 bp):
AATCGCCGCTAGTTTGATGGATTCTTCTCCAGCCACGGCCAGCGGTGAGTCCAGCATCCCTAAAA
CTGA
Found at i:609876 original size:2 final size:2
Alignment explanation
Indices: 609869--609893 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
609859 AACAAAATTG
609869 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 A
609894 AAGCTTACTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:611303 original size:15 final size:15
Alignment explanation
Indices: 611267--611296 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
611257 TCAAGGGTTG
611267 TCTCTTTTTTTGGTC
1 TCTCTTTTTTTGGTC
611282 TCTCTTTTTTTGGTC
1 TCTCTTTTTTTGGTC
611297 GTTCTTTCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.00, C:0.20, G:0.13, T:0.67
Consensus pattern (15 bp):
TCTCTTTTTTTGGTC
Found at i:618169 original size:19 final size:19
Alignment explanation
Indices: 618145--618184 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
618135 TAGAGTAAAA
618145 AAAATAGCAAAAAATAATT
1 AAAATAGCAAAAAATAATT
** *
618164 AAAATAGTTAATAATAATT
1 AAAATAGCAAAAAATAATT
618183 AA
1 AA
618185 CAAAAAATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.28
Consensus pattern (19 bp):
AAAATAGCAAAAAATAATT
Found at i:626042 original size:14 final size:14
Alignment explanation
Indices: 626023--626052 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
626013 CAAATTTTGT
626023 TTACAGATTTTATA
1 TTACAGATTTTATA
626037 TTACAGATTTTATA
1 TTACAGATTTTATA
626051 TT
1 TT
626053 CCATTTCTTA
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:0.33, C:0.07, G:0.07, T:0.53
Consensus pattern (14 bp):
TTACAGATTTTATA
Found at i:635378 original size:41 final size:41
Alignment explanation
Indices: 635321--635402 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
635311 ACTATTGGAC
635321 CCCAAATCGGCAGAGCCAACCACAACAAAAAGTAGGGGCTA
1 CCCAAATCGGCAGAGCCAACCACAACAAAAAGTAGGGGCTA
635362 CCCAAATCGGCAGAGCCAACCACAACAAAAAGTAGGGGCTA
1 CCCAAATCGGCAGAGCCAACCACAACAAAAAGTAGGGGCTA
635403 TGTGATGGAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.41, C:0.29, G:0.22, T:0.07
Consensus pattern (41 bp):
CCCAAATCGGCAGAGCCAACCACAACAAAAAGTAGGGGCTA
Found at i:636548 original size:24 final size:24
Alignment explanation
Indices: 636516--636563 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
636506 CATTCAAAGA
*
636516 TGAAAGCTTGATTTATGACTTGAT
1 TGAAAGCTTGATTCATGACTTGAT
636540 TGAAAGCTTGATTCATGACTTGAT
1 TGAAAGCTTGATTCATGACTTGAT
636564 GAATAAATGA
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:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (24 bp):
TGAAAGCTTGATTCATGACTTGAT
Found at i:637415 original size:37 final size:37
Alignment explanation
Indices: 637374--637448 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
637364 CTTGCTCAAA
637374 AACGTGCAGCAAGGAAGCAATCTGCGTTACACAACTG
1 AACGTGCAGCAAGGAAGCAATCTGCGTTACACAACTG
* *
637411 AACGTGTAGCAAGGAAGCAATCTGCTTTACACAACTG
1 AACGTGCAGCAAGGAAGCAATCTGCGTTACACAACTG
637448 A
1 A
637449 TATGCTTACT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.19
Consensus pattern (37 bp):
AACGTGCAGCAAGGAAGCAATCTGCGTTACACAACTG
Found at i:643999 original size:16 final size:13
Alignment explanation
Indices: 643967--643996 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
643957 TCAAAACATT
643967 ACAAAGTAACTCA
1 ACAAAGTAACTCA
*
643980 ACAAAGTAACTAA
1 ACAAAGTAACTCA
643993 ACAA
1 ACAA
643997 CAACCTTGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.60, C:0.20, G:0.07, T:0.13
Consensus pattern (13 bp):
ACAAAGTAACTCA
Found at i:650640 original size:20 final size:19
Alignment explanation
Indices: 650616--650680 Score: 51
Period size: 19 Copynumber: 3.3 Consensus size: 19
650606 AAGCTATATG
*
650616 ATTTTGATTTTTAAAATTA
1 ATTTTTATTTTTAAAATTA
**
650635 ATTTTTATTTATT-ATTTTGA
1 ATTTTTATTT-TTAAAATT-A
*
650655 TATTTTAATTTTTAAAATTA
1 -ATTTTTATTTTTAAAATTA
650675 TATTTT
1 -ATTTT
650681 AAATAGAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
19 12 0.33
20 12 0.33
21 12 0.33
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (19 bp):
ATTTTTATTTTTAAAATTA
Found at i:650681 original size:20 final size:20
Alignment explanation
Indices: 650616--650682 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 20
650606 AAGCTATATG
*
650616 ATTTTGATTTTTAAAATTA-
1 ATTTTAATTTTTAAAATTAT
* **
650635 ATTTTTATTTATT-ATTTTGAT
1 ATTTTAATTT-TTAAAATT-AT
650656 ATTTTAATTTTTAAAATTAT
1 ATTTTAATTTTTAAAATTAT
650676 ATTTTAA
1 ATTTTAA
650683 ATAGAAAAGG
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
19 12 0.32
20 14 0.37
21 12 0.32
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (20 bp):
ATTTTAATTTTTAAAATTAT
Found at i:651203 original size:106 final size:106
Alignment explanation
Indices: 651073--651475 Score: 582
Period size: 106 Copynumber: 3.8 Consensus size: 106
651063 CAAGTATCAG
*
651073 TAAAAAAAGTAAATTTTTTTTACTGTGCTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTT
1 TAAAAAAAGTAAATTTTTTTTACTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTT
*
651138 TTTTTTTACTTTTTTCGTATACTGATACCTGATATTGACAC
66 TTTTTTTACTTTTTTCGTATACTGATACCTGATACTGACAC
*
651179 TAAAAAAAGTAAATTTTTTTTACTGTGCTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTT
1 TAAAAAAAGTAAATTTTTTTTACTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTT
651244 TTTTTTTACTTTTTTCGTATACTGATACCTGATACTGACAC
66 TTTTTTTACTTTTTTCGTATACTGATACCTGATACTGACAC
***** * *
651285 -AAAAAAA-TAAAAAAAATTTACTATACTAGGTGCCGGCCATTGACAGGCCAGCACCCAAAA-TT
1 TAAAAAAAGTAAATTTTTTTTACTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTT
* * *
651347 TTTTTTAATTTTTTTCGTATATTGATACCTGATACTGACAC
66 TTTTTTTACTTTTTTCGTATACTGATACCTGATACTGACAC
* * * *
651388 GAAAAAAAGTTTACATTTTTTTTTACTGTACTGGGTGCCAGCCATTGATAGGCCAGCACCCAAAA
1 TAAAAAAAG--TA-AATTTTTTTTACTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAA
651453 TTTTTTTTCTT-CTTTTTT-GTATA
63 TTTTTTTT-TTACTTTTTTCGTATA
651476 TCAGTATTAT
Statistics
Matches: 266, Mismatches: 24, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
103 40 0.15
104 52 0.20
105 7 0.03
106 105 0.39
107 2 0.01
108 46 0.17
109 13 0.05
110 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.37
Consensus pattern (106 bp):
TAAAAAAAGTAAATTTTTTTTACTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTT
TTTTTTTACTTTTTTCGTATACTGATACCTGATACTGACAC
Found at i:652904 original size:116 final size:115
Alignment explanation
Indices: 652678--652889 Score: 300
Period size: 116 Copynumber: 1.8 Consensus size: 115
652668 TTAAAAAAAA
* * * * *
652678 GGACTAAATTTTAAATACTAAAAAATCACAGGGATTAGAAGAAGAGTTTGACCTATAAAACAAAA
1 GGACTAAATTTTAAATACTAAAAAACCAAAGGGATTAGAAGAAGAGTTTAACCCATAAAAAAAAA
* *
652743 AAAAAATTCAAAGCTCTCCCGCGTTTTCTTTCCTCCATATTAAAAATAGAG
66 AAAAAATTCAAAACTCTCCCGCGTTTTCTTT-CTCCATATAAAAAATAGAG
*
652794 GGACTAAATTTTAAATATTAAAAAACCAAAGGGATTAGAAGAAGA-TTTAAACCCATCAAACAAA
1 GGACTAAATTTTAAATACTAAAAAACCAAAGGGATTAGAAGAAGAGTTT-AACCCAT-AAA-AAA
652858 ACAAAAAAAATTCAAAACTCTCCCGCGTTTTC
63 A-AAAAAAAATTCAAAACTCTCCCGCGTTTTC
652890 GTTTTTCAAA
Statistics
Matches: 85, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
115 3 0.04
116 47 0.55
117 3 0.04
118 3 0.04
119 29 0.34
ACGTcount: A:0.46, C:0.17, G:0.12, T:0.25
Consensus pattern (115 bp):
GGACTAAATTTTAAATACTAAAAAACCAAAGGGATTAGAAGAAGAGTTTAACCCATAAAAAAAAA
AAAAAATTCAAAACTCTCCCGCGTTTTCTTTCTCCATATAAAAAATAGAG
Found at i:659316 original size:29 final size:29
Alignment explanation
Indices: 659232--659317 Score: 73
Period size: 30 Copynumber: 2.9 Consensus size: 29
659222 TAGGGTAACC
* *
659232 AATTTAAAATAACACATAGTTGGGTGACCA
1 AATTTAAAA-AATACATAGTTGAGTGACCA
*** * * *
659262 AAAAGAAACAAATCCATAATTAAGTGACCA
1 AATTTAAA-AAATACATAGTTGAGTGACCA
*
659292 AATTTAAAAAATTCATAGTTGAGTGA
1 AATTTAAAAAATACATAGTTGAGTGA
659318 TTAAAAAAAG
Statistics
Matches: 41, Mismatches: 14, Indels: 3
0.71 0.24 0.05
Matches are distributed among these distances:
29 15 0.37
30 25 0.61
31 1 0.02
ACGTcount: A:0.49, C:0.12, G:0.14, T:0.26
Consensus pattern (29 bp):
AATTTAAAAAATACATAGTTGAGTGACCA
Found at i:678980 original size:22 final size:22
Alignment explanation
Indices: 678937--678981 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
678927 TATATATTTA
*
678937 AAATATTATACATTTGAAATAT
1 AAATATTATACATTTCAAATAT
*
678959 AAATATT-TACTTTTCAATATAT
1 AAATATTATACATTTCAA-ATAT
678981 A
1 A
678982 CTATTCTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (22 bp):
AAATATTATACATTTCAAATAT
Found at i:680065 original size:24 final size:24
Alignment explanation
Indices: 680038--680086 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
680028 AGAGGAAAGT
680038 TTAAATAACATAAAAGAAAAAAAA
1 TTAAATAACATAAAAGAAAAAAAA
* * *
680062 TTAAATTACTTAAAAGGAAAAAAA
1 TTAAATAACATAAAAGAAAAAAAA
680086 T
1 T
680087 ATAGGGATCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.67, C:0.04, G:0.06, T:0.22
Consensus pattern (24 bp):
TTAAATAACATAAAAGAAAAAAAA
Found at i:683274 original size:61 final size:60
Alignment explanation
Indices: 683209--683345 Score: 152
Period size: 61 Copynumber: 2.2 Consensus size: 60
683199 GTTAAATGTT
* *
683209 CAATTTGTATTAGATATT-ATAATTATTTAACT-TTAGTTTTTACCTAATTAATATTTAGATA
1 CAATTTGTATTAGATATTGAT-ATTA-TTAAATATTA-TTTTTACCAAATTAATATTTAGATA
* * * *
683270 CAATTTATATTTAGATATTGCTATTATTAAATATTATTTTTATCAAATTAATATTTAGATG
1 CAATTTGTA-TTAGATATTGATATTATTAAATATTATTTTTACCAAATTAATATTTAGATA
683331 CTAAATTTGTATTAG
1 C--AATTTGTATTAG
683346 TTTACTAAAT
Statistics
Matches: 64, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
61 36 0.56
62 20 0.31
63 8 0.12
ACGTcount: A:0.36, C:0.06, G:0.07, T:0.50
Consensus pattern (60 bp):
CAATTTGTATTAGATATTGATATTATTAAATATTATTTTTACCAAATTAATATTTAGATA
Found at i:683279 original size:17 final size:17
Alignment explanation
Indices: 683254--683286 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
683244 GTTTTTACCT
683254 AATTAATATTTAGATAC
1 AATTAATATTTAGATAC
*
683271 AATTTATATTTAGATA
1 AATTAATATTTAGATA
683287 TTGCTATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (17 bp):
AATTAATATTTAGATAC
Found at i:685711 original size:4 final size:4
Alignment explanation
Indices: 685704--685735 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
685694 TAAAATAAAT
685704 ATTA ATTA ATTA ATTTA ATTA ATTA ATTA ATT
1 ATTA ATTA ATTA A-TTA ATTA ATTA ATTA ATT
685736 TCTCAATTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (4 bp):
ATTA
Found at i:685726 original size:17 final size:17
Alignment explanation
Indices: 685704--685736 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
685694 TAAAATAAAT
685704 ATTAATTAATTAATTTA
1 ATTAATTAATTAATTTA
685721 ATTAATTAATTAATTT
1 ATTAATTAATTAATTT
685737 CTCAATTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTAATTAATTAATTTA
Found at i:694127 original size:2 final size:2
Alignment explanation
Indices: 694122--694166 Score: 54
Period size: 2 Copynumber: 22.0 Consensus size: 2
694112 TTTTTTCTAA
* * *
694122 AT AT AT AA AT AT CAT AA AT AT AA 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
694165 AT
1 AT
694167 TGTATGAATC
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
2 34 0.94
3 2 0.06
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (2 bp):
AT
Found at i:699794 original size:155 final size:155
Alignment explanation
Indices: 699472--699813 Score: 503
Period size: 155 Copynumber: 2.2 Consensus size: 155
699462 TCAGAGAGCA
* *
699472 AAATGC-ACATTTCAGTACCAAAATAAAAAGGCCAGATATGACTATAATTAAGTATACTTGAACT
1 AAATGCTACATTTCAGTACCAAAA-CAAAAGGCCAGAAATGACTATAATTAAGTATACTTGAACT
** * * *
699536 TTGTAATGCATAAACACACACTAAACAATCTCAAATGACCCTGAAATTCTTTCGAGAAAGAGAGT
65 TTGTAACACATAAACACACACTAAACAAACACAAATGACCCTGAAATTCTTTCGAGAAACAGAGT
699601 AAAAGTAACAACTTAAACCCTAATTC
130 AAAAGTAACAACTTAAACCCTAATTC
*
699627 AAATGCTACATTTCAGTACCAAAACAGAAGGCCAGAAAATGAAC-ATAATTAAGTATACTTGAAC
1 AAATGCTACATTTCAGTACCAAAACAAAAGGCCAG-AAATG-ACTATAATTAAGTATACTTGAAC
* * *
699691 TTTGTAACACATAAACACACCCTAAACAAACACGAATGA-CCTGAAATTCTTTCGAGAATCAGCA
64 TTTGTAACACATAAACACACACTAAACAAACACAAATGACCCTGAAATTCTTTCGAGAAACAG-A
*
699755 -TAAAAGTAACACCTTAAACCCTAATTC
128 GTAAAAGTAACAACTTAAACCCTAATTC
*
699782 AAATGCTACATTTCAATACCAAAACAAAAGGC
1 AAATGCTACATTTCAGTACCAAAACAAAAGGC
699814 ACATAAACAC
Statistics
Matches: 169, Mismatches: 14, Indels: 8
0.88 0.07 0.04
Matches are distributed among these distances:
155 92 0.54
156 75 0.44
157 2 0.01
ACGTcount: A:0.45, C:0.20, G:0.11, T:0.23
Consensus pattern (155 bp):
AAATGCTACATTTCAGTACCAAAACAAAAGGCCAGAAATGACTATAATTAAGTATACTTGAACTT
TGTAACACATAAACACACACTAAACAAACACAAATGACCCTGAAATTCTTTCGAGAAACAGAGTA
AAAGTAACAACTTAAACCCTAATTC
Found at i:699900 original size:115 final size:114
Alignment explanation
Indices: 699698--699927 Score: 363
Period size: 115 Copynumber: 2.0 Consensus size: 114
699688 AACTTTGTAA
* * * *
699698 CACATAAACACACCCTAAACAAACACGAATGACCTGAAATTCTTTCGAGAATCAGCATAAAAGTA
1 CACATAAACACACACTAAACAAACACAAATGACCCGAAATTCTTTCGAGAAACAGCATAAAAGTA
699763 ACACCTTAAACCCTAATTCAAATGCTACATTTCAATACCAAAACAAAAGG
66 ACACCTTAAACCCTAATTCAAATGCTACATTTC-ATACCAAAACAAAAGG
* * *
699813 CACATAAACACACACTAAACAATCTCAAATGACCCGATATTCTTTCGAGAAACAAG-ATAAAAGT
1 CACATAAACACACACTAAACAAACACAAATGACCCGAAATTCTTTCGAGAAAC-AGCATAAAAGT
*
699877 AACACCTTAAACCCTAATTCAAATGCTAGATTTCATACCAAAACAAAAGG
65 AACACCTTAAACCCTAATTCAAATGCTACATTTCATACCAAAACAAAAGG
699927 C
1 C
699928 CAGAAAATGA
Statistics
Matches: 106, Mismatches: 8, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
114 17 0.16
115 87 0.82
116 2 0.02
ACGTcount: A:0.46, C:0.25, G:0.09, T:0.20
Consensus pattern (114 bp):
CACATAAACACACACTAAACAAACACAAATGACCCGAAATTCTTTCGAGAAACAGCATAAAAGTA
ACACCTTAAACCCTAATTCAAATGCTACATTTCATACCAAAACAAAAGG
Found at i:700026 original size:270 final size:271
Alignment explanation
Indices: 699544--700059 Score: 824
Period size: 270 Copynumber: 1.9 Consensus size: 271
699534 CTTTGTAATG
*
699544 CATAAACACACACTAAACAATCTCAAATGACCCTGAAATTCTTTCGAGAAAGAGAGTAAAAGTAA
1 CATAAACACACACTAAACAATCTCAAATGACCCTGAAATTCTTTCGAGAAAAAGAGTAAAAGTAA
*
699609 CAACTTAAACCCTAATTCAAATGCTACATTTCAGTACCAAAACAGAAGGCCAGAAAATGAACATA
66 CAACTTAAACCCTAATTCAAATGCTACATTTCAGTACCAAAACAAAAGGCCAGAAAATGAACATA
* * * * **
699674 ATTAAGTATACTTGAACTTTGTAACACATAAACACACCCTAAACAAACACGAATGACCTGAAATT
131 ATTAAGTATACTTGAACTTTGCAACACACAAACACACACTAAACAAACACAAATGACCCAAAATT
*
699739 CTTTCGAGAATCAGCATAAAAGTAACACCTTAAACCCTAATTCAAATGCTACATTTCAATACCAA
196 CTTTCGAGAAACAGCATAAAAGTAACACCTTAAACCCTAATTCAAATGCTACATTTCAATACCAA
699804 AACAAAAGGCA
261 AACAAAAGGCA
*
699815 CATAAACACACACTAAACAATCTCAAATGACCC-GATATTCTTTCGAGAAACAAGA-TAAAAGTA
1 CATAAACACACACTAAACAATCTCAAATGACCCTGAAATTCTTTCGAGAAA-AAGAGTAAAAGTA
* *
699878 ACACCTTAAACCCTAATTCAAATGCTAGATTTCA-TACCAAAACAAAAGGCCAGAAAATG-ACTA
65 ACAACTTAAACCCTAATTCAAATGCTACATTTCAGTACCAAAACAAAAGGCCAGAAAATGAAC-A
* * *
699941 TAATTAAGTATTACTTGAACTTTGCAACACACAAACACACATTAAACAATCTCAAATGACCCAAA
129 TAATTAAGTA-TACTTGAACTTTGCAACACACAAACACACACTAAACAAACACAAATGACCCAAA
* *
700006 ATTCTTTCGAGAAACAGCATAAAAGTATCACCTTCAACCCTAATTCAAATGCTA
193 ATTCTTTCGAGAAACAGCATAAAAGTAACACCTTAAACCCTAATTCAAATGCTA
700060 AAACAATGCC
Statistics
Matches: 225, Mismatches: 17, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
268 2 0.01
269 35 0.16
270 152 0.68
271 36 0.16
ACGTcount: A:0.45, C:0.23, G:0.09, T:0.22
Consensus pattern (271 bp):
CATAAACACACACTAAACAATCTCAAATGACCCTGAAATTCTTTCGAGAAAAAGAGTAAAAGTAA
CAACTTAAACCCTAATTCAAATGCTACATTTCAGTACCAAAACAAAAGGCCAGAAAATGAACATA
ATTAAGTATACTTGAACTTTGCAACACACAAACACACACTAAACAAACACAAATGACCCAAAATT
CTTTCGAGAAACAGCATAAAAGTAACACCTTAAACCCTAATTCAAATGCTACATTTCAATACCAA
AACAAAAGGCA
Found at i:701900 original size:166 final size:167
Alignment explanation
Indices: 701670--702004 Score: 663
Period size: 166 Copynumber: 2.0 Consensus size: 167
701660 TATTGTAACT
701670 ATTTTGTTGTTATTGTTTGAATATTGTATAATTATTATTTTATTGTTAATTTTACAACTATTTTG
1 ATTTTGTTGTTATTGTTTGAATATTGTATAATTATTATTTTATTGTTAATTTTACAACTATTTTG
701735 GAGGCATTTGTTTGTTAGTTAAATTGCACATATCTTAGTGTTATCTAAATATATAGACTTTTTTT
66 GAGGCATTTGTTTGTTAGTTAAATTGCACATATCTTAGTGTTATCTAAATATATAGACTTTTTTT
701800 TAATTTATTTTCAATTTTTTAGAAAACA-TTATTTTA
131 TAATTTATTTTCAATTTTTTAGAAAACATTTATTTTA
701836 ATTTTGTTGTTATTGTTTGAATATTGTATAATTATTATTTTATTGTTAATTTTACAACTATTTTG
1 ATTTTGTTGTTATTGTTTGAATATTGTATAATTATTATTTTATTGTTAATTTTACAACTATTTTG
701901 GAGGCATTTGTTTGTTAGTTAAATTGCACATATCTTAGTGTTATCTAAATATATAGACTTTTTTT
66 GAGGCATTTGTTTGTTAGTTAAATTGCACATATCTTAGTGTTATCTAAATATATAGACTTTTTTT
701966 TAATTTATTTTCAATTTTTTAGAAAACATTTATTTTA
131 TAATTTATTTTCAATTTTTTAGAAAACATTTATTTTA
702003 AT
1 AT
702005 ATTTTTAGTG
Statistics
Matches: 168, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
166 158 0.94
167 10 0.06
ACGTcount: A:0.29, C:0.06, G:0.11, T:0.54
Consensus pattern (167 bp):
ATTTTGTTGTTATTGTTTGAATATTGTATAATTATTATTTTATTGTTAATTTTACAACTATTTTG
GAGGCATTTGTTTGTTAGTTAAATTGCACATATCTTAGTGTTATCTAAATATATAGACTTTTTTT
TAATTTATTTTCAATTTTTTAGAAAACATTTATTTTA
Found at i:703771 original size:19 final size:19
Alignment explanation
Indices: 703747--703789 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
703737 TATTGTTTTT
*
703747 AAAAAAACCTTTTTTTGAC
1 AAAAAAACATTTTTTTGAC
*
703766 AAAAAAACATTTTTTTGAT
1 AAAAAAACATTTTTTTGAC
703785 AAAAA
1 AAAAA
703790 TATTCCTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.51, C:0.09, G:0.05, T:0.35
Consensus pattern (19 bp):
AAAAAAACATTTTTTTGAC
Found at i:709079 original size:4 final size:4
Alignment explanation
Indices: 709064--709110 Score: 85
Period size: 4 Copynumber: 11.8 Consensus size: 4
709054 AGGTAAAGAG
*
709064 TGTA TTTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGT
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGT
709111 GTGTGTGTGT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 41 1.00
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.53
Consensus pattern (4 bp):
TGTA
Found at i:714106 original size:139 final size:139
Alignment explanation
Indices: 713833--714152 Score: 425
Period size: 139 Copynumber: 2.3 Consensus size: 139
713823 CTATGTCAAC
713833 TTGTGGCTGTAGTTTAGTGGTAAGAATTCCACGTTGTGGCCGTGGAGACCTGGGCTCGAATCCCA
1 TTGTGGCTGTAGTTTAGTGGTAAGAATTCCACGTTGTGGCCGTGGAGACCTGGGCTCGAATCCCA
* * ** *
713898 GCAGCCACACTAAACCTTTTTTCTTTAATATGTTTTGGTTAATTTTAGATATTAGTTTCTTGACC
66 GCAGCCACACTAAACCTTTTTTCTTTAATATGTTTTGGTTAATATTAGATATTACTTTCTCAAAC
*
713963 TTTAACAAG
131 TTTAACAAA
713972 TTGTGGCTGTAGTTTAGTGGTAAGAATTCCACGTTGTGGCCGTGGAGACCTGGGCTCGAATCCCA
1 TTGTGGCTGTAGTTTAGTGGTAAGAATTCCACGTTGTGGCCGTGGAGACCTGGGCTCGAATCCCA
* * * * * *
714037 GCAGCCACATTAAA-C-TTTTT-TTTAATTTGGTTAATT-TTTACTATTAGTCCTTTTACTTT-T
66 GCAGCCACACTAAACCTTTTTTCTTTAATAT-GTT--TTGGTTAATATTAG--ATATTACTTTCT
*
714097 CAAATTTTAACAAA
126 CAAACTTTAACAAA
* *
714111 TTGTGGCTGTAGTTTAGTGGTAAGCATTCCAAGTTGTGGCCG
1 TTGTGGCTGTAGTTTAGTGGTAAGAATTCCACGTTGTGGCCG
714153 CCACACTGAA
Statistics
Matches: 161, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
136 7 0.04
137 8 0.05
138 9 0.06
139 130 0.81
140 7 0.04
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.38
Consensus pattern (139 bp):
TTGTGGCTGTAGTTTAGTGGTAAGAATTCCACGTTGTGGCCGTGGAGACCTGGGCTCGAATCCCA
GCAGCCACACTAAACCTTTTTTCTTTAATATGTTTTGGTTAATATTAGATATTACTTTCTCAAAC
TTTAACAAA
Found at i:714390 original size:31 final size:32
Alignment explanation
Indices: 714353--714434 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 32
714343 AGAATTTAAA
*
714353 ATTTAAAAAGTATAGGGACTAAAATCTATCAA-
1 ATTTAAAAAGTATAGGGACTAAAATATA-CAAT
714385 A-TT--AAAGTATAGGGACT-AAATATACAAT
1 ATTTAAAAAGTATAGGGACTAAAATATACAAT
714413 ATTTGAAAAA-TATAGGGACTAA
1 ATTT-AAAAAGTATAGGGACTAA
714435 TATTAGAATT
Statistics
Matches: 43, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
27 3 0.07
28 7 0.16
29 16 0.37
31 12 0.28
32 5 0.12
ACGTcount: A:0.50, C:0.07, G:0.15, T:0.28
Consensus pattern (32 bp):
ATTTAAAAAGTATAGGGACTAAAATATACAAT
Found at i:719166 original size:16 final size:16
Alignment explanation
Indices: 719145--719186 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
719135 AGGTCGGATA
719145 ATTTCAGATTTGGGTC
1 ATTTCAGATTTGGGTC
* *
719161 ATTTCAGGTTT-TGTC
1 ATTTCAGATTTGGGTC
719176 A-TTCAGATTTG
1 ATTTCAGATTTG
719187 ACACTCAAGC
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
14 8 0.36
15 4 0.18
16 10 0.45
ACGTcount: A:0.19, C:0.12, G:0.21, T:0.48
Consensus pattern (16 bp):
ATTTCAGATTTGGGTC
Found at i:731494 original size:147 final size:149
Alignment explanation
Indices: 731148--731589 Score: 507
Period size: 148 Copynumber: 3.0 Consensus size: 149
731138 TGTTTTGCTT
* ** * *
731148 AAAAATACAGA-TGAAGCTTACGAGCTAAGACTGCTAAGATTTACGTAGGAAGAACAGATTTAAC
1 AAAAATACAGACTGAAGTTTACGAGCTAAGTTTGCTAAGATTTACGTAGGAAGAACAGCTTTAGC
* * * *
731212 TTGTTTTTAGATTCTAGTTCGAAGCTTGAATGGTACCGCTTTTTGAATCTTTATGTGAACTGTTA
66 TTGTTTTTAGATTCTAGTTCGAAGC-TGAATCGTACTGTTTTTTGAATCCTTATGTGAACTGTTA
*
731277 GCTATTTGATGAGTTGCAAAAA
130 GCTATTTGATGAATT-C-AAAA
* * * * * *
731299 AAAAAAAAAAACTGAAGTTTACGAGCTATGTTTGCTATGA-CTAGCGTAGGAAGAACAGCTTTAG
1 AAAAATACAGACTGAAGTTTACGAGCTAAGTTTGCTAAGATTTA-CGTAGGAAGAACAGCTTTAG
* * *
731363 CTTG-TTTTAGATTATAGTTCGAAGCTGAATCGTACTGTTTTTTGTATCCTTATGTGAGCTG-TA
65 CTTGTTTTTAGATTCTAGTTCGAAGCTGAATCGTACTGTTTTTTGAATCCTTATGTGAACTGTTA
*
731426 GCTATTTGATGAATT-ACAA
130 GCTATTTGATGAATTCAAAA
* * * * *
731445 AAAAATACAGATCTGAAGTTTACGAGCTAAGTTTTCCAAGATTTACGTAGGGAGAACAACCTTAG
1 AAAAATACAGA-CTGAAGTTTACGAGCTAAGTTTGCTAAGATTTACGTAGGAAGAACAGCTTTAG
* * * ** * *
731510 CTTGTTTTTAGATCCTAGTTCAAAGCTGAATCGTACTGTTTCTTGAATATTTAGGTGAATTGTTA
65 CTTGTTTTTAGATTCTAGTTCGAAGCTGAATCGTACTGTTTTTTGAATCCTTATGTGAACTGTTA
*
731575 GCTATTTGTTGAATT
130 GCTATTTGATGAATT
731590 AAACTTTGGC
Statistics
Matches: 243, Mismatches: 42, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
146 11 0.05
147 46 0.19
148 49 0.20
149 32 0.13
150 30 0.12
151 30 0.12
152 45 0.19
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.36
Consensus pattern (149 bp):
AAAAATACAGACTGAAGTTTACGAGCTAAGTTTGCTAAGATTTACGTAGGAAGAACAGCTTTAGC
TTGTTTTTAGATTCTAGTTCGAAGCTGAATCGTACTGTTTTTTGAATCCTTATGTGAACTGTTAG
CTATTTGATGAATTCAAAA
Found at i:734209 original size:22 final size:22
Alignment explanation
Indices: 734184--734230 Score: 53
Period size: 22 Copynumber: 2.1 Consensus size: 22
734174 CATCTCTGTC
734184 AATTCATATTGT-AAAAT-TCATA
1 AATTCAT-TTGTCAAAATCT-ATA
*
734206 AATTTATTTGTCAAAATCTATA
1 AATTCATTTGTCAAAATCTATA
734228 AAT
1 AAT
734231 GAACACGGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 4 0.18
22 17 0.77
23 1 0.05
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.43
Consensus pattern (22 bp):
AATTCATTTGTCAAAATCTATA
Found at i:744883 original size:21 final size:22
Alignment explanation
Indices: 744843--744885 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
744833 AATGATATTT
744843 TTTGATACCTAAATTTTTTTAG
1 TTTGATACCTAAATTTTTTTAG
*
744865 TTTGATACTTAAATTTTTTTA
1 TTTGATACCTAAATTTTTTTA
744886 ATCAAAATTA
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:0.28, C:0.07, G:0.07, T:0.58
Consensus pattern (22 bp):
TTTGATACCTAAATTTTTTTAG
Found at i:747618 original size:23 final size:24
Alignment explanation
Indices: 747581--747631 Score: 61
Period size: 23 Copynumber: 2.1 Consensus size: 24
747571 CATTAAAGAG
*
747581 AAAACAGAGAAGAAA-ATAGAAGAAA
1 AAAACAGAG-AGAAACAGAGAA-AAA
747606 AAAACAGAG-GAAACAGAGAAAAA
1 AAAACAGAGAGAAACAGAGAAAAA
747629 AAA
1 AAA
747632 GTGAAAGAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 10 0.42
24 5 0.21
25 9 0.38
ACGTcount: A:0.73, C:0.06, G:0.20, T:0.02
Consensus pattern (24 bp):
AAAACAGAGAGAAACAGAGAAAAA
Found at i:748081 original size:17 final size:17
Alignment explanation
Indices: 748051--748085 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
748041 AATTAAACAT
* *
748051 TATCTGAAATAACAAAA
1 TATCTAAAACAACAAAA
748068 TATCTAAAACAACAAAA
1 TATCTAAAACAACAAAA
748085 T
1 T
748086 CAGGGGAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.60, C:0.14, G:0.03, T:0.23
Consensus pattern (17 bp):
TATCTAAAACAACAAAA
Found at i:748402 original size:29 final size:30
Alignment explanation
Indices: 748370--748436 Score: 100
Period size: 29 Copynumber: 2.2 Consensus size: 30
748360 TTTAACAATC
*
748370 CAATGACTTAAATAAAAAC-TTGAATAGTT
1 CAATGACTTAAATAAAAACTTTGAATAATT
*
748399 CAATGACTTAAATGAAAACTTTTGAATAATT
1 CAATGACTTAAATAAAAAC-TTTGAATAATT
748430 CAATGAC
1 CAATGAC
748437 CATTTTGTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
29 18 0.53
31 16 0.47
ACGTcount: A:0.46, C:0.12, G:0.10, T:0.31
Consensus pattern (30 bp):
CAATGACTTAAATAAAAACTTTGAATAATT
Found at i:750579 original size:29 final size:29
Alignment explanation
Indices: 750541--750616 Score: 134
Period size: 29 Copynumber: 2.6 Consensus size: 29
750531 TTGCCTCATA
*
750541 TTACATTTTAGTCATTTATGTTTAAAATG
1 TTACATTTTAGTCACTTATGTTTAAAATG
*
750570 TTACATTTTAGTTACTTATGTTTAAAATG
1 TTACATTTTAGTCACTTATGTTTAAAATG
750599 TTACATTTTAGTCACTTA
1 TTACATTTTAGTCACTTA
750617 CGTTATCGTT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.30, C:0.09, G:0.09, T:0.51
Consensus pattern (29 bp):
TTACATTTTAGTCACTTATGTTTAAAATG
Found at i:755955 original size:6 final size:6
Alignment explanation
Indices: 755941--755985 Score: 65
Period size: 6 Copynumber: 7.7 Consensus size: 6
755931 TTGTTAGATT
* *
755941 AAAAGA AAAA-A AAAACA AAAATA AAAATA AAAATA AAAATA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAA
755986 AGCAAATTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
5 5 0.14
6 32 0.86
ACGTcount: A:0.87, C:0.02, G:0.02, T:0.09
Consensus pattern (6 bp):
AAAATA
Found at i:760942 original size:3 final size:3
Alignment explanation
Indices: 760934--760960 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
760924 TGTAACTTTG
760934 GGT GGT GGT GGT GGT GGT GGT GGT GGT
1 GGT GGT GGT GGT GGT GGT GGT GGT GGT
760961 AGTGTCGTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.67, T:0.33
Consensus pattern (3 bp):
GGT
Found at i:765314 original size:3 final size:3
Alignment explanation
Indices: 765308--765335 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
765298 ATCATCATCA
765308 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
765336 GTCGTCTTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:768541 original size:12 final size:12
Alignment explanation
Indices: 768524--768548 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
768514 TAAAATAAGG
768524 AATTTTTGTTTT
1 AATTTTTGTTTT
768536 AATTTTTGTTTT
1 AATTTTTGTTTT
768548 A
1 A
768549 GACCCCTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.20, C:0.00, G:0.08, T:0.72
Consensus pattern (12 bp):
AATTTTTGTTTT
Found at i:775426 original size:17 final size:17
Alignment explanation
Indices: 775379--775425 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
775369 GTTTAAATAA
775379 AAAATAATTAAAAATTC
1 AAAATAATTAAAAATTC
*
775396 AAACA-AATTAAAAATTT
1 AAA-ATAATTAAAAATTC
775413 AAAATAA-TAAAAA
1 AAAATAATTAAAAA
775426 AAACTCAGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 7 0.26
17 19 0.70
18 1 0.04
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAATAATTAAAAATTC
Found at i:776380 original size:57 final size:57
Alignment explanation
Indices: 776228--776411 Score: 192
Period size: 57 Copynumber: 3.2 Consensus size: 57
776218 TTTCACATTG
* * ** * * *
776228 GGGCTTGAACTTTTCTTTGTCTAAGTTAGTCTTTAGACTTGGCAATTGTTCTCACATTG
1 GGGCATGAACTTTT-TTTTTC-AAGTTAGTCCCTAAACTTGGCAATTGTTCTCATATTT
* * * *
776287 GGGCTTGAAC-TTTTGTTTCAAGTTAGCCCCTGAACTTGGCAATTGTTCTCATATTT
1 GGGCATGAACTTTTTTTTTCAAGTTAGTCCCTAAACTTGGCAATTGTTCTCATATTT
* **
776343 GGGCATGAACTTTTTTTTTCAAGTTAATCCCTAAACTTAACAATTGTTCTCATA-TT
1 GGGCATGAACTTTTTTTTTCAAGTTAGTCCCTAAACTTGGCAATTGTTCTCATATTT
*
776399 GAGGTATGAACTT
1 G-GGCATGAACTT
776412 GTCTCTATTC
Statistics
Matches: 106, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
56 42 0.40
57 51 0.48
58 3 0.03
59 10 0.09
ACGTcount: A:0.23, C:0.17, G:0.18, T:0.42
Consensus pattern (57 bp):
GGGCATGAACTTTTTTTTTCAAGTTAGTCCCTAAACTTGGCAATTGTTCTCATATTT
Found at i:781703 original size:30 final size:31
Alignment explanation
Indices: 781669--781726 Score: 77
Period size: 30 Copynumber: 1.9 Consensus size: 31
781659 CAGGCAGACA
781669 TAAATTT-T-AAAATATGAAAAGTA-AAGAGAT
1 TAAATTTCTGAAAATA--AAAAGTATAAGAGAT
781699 TAAATTTCTGAAAATAAAAAGTATAAGA
1 TAAATTTCTGAAAATAAAAAGTATAAGA
781727 ACTTGTGGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
30 14 0.56
31 5 0.20
32 6 0.24
ACGTcount: A:0.57, C:0.02, G:0.12, T:0.29
Consensus pattern (31 bp):
TAAATTTCTGAAAATAAAAAGTATAAGAGAT
Found at i:783505 original size:185 final size:186
Alignment explanation
Indices: 783193--783565 Score: 739
Period size: 185 Copynumber: 2.0 Consensus size: 186
783183 AAGTGTTTTG
783193 AATTTTCTTTTTTTGACTCATCCAAAATAGTTGGATTTAATTTTCGATTTTTTCATATTAATTTT
1 AATTTTCTTTTTTTGACTCATCCAAAATAGTTGGATTTAATTTTCGATTTTTTCATATTAATTTT
783258 TTATTTTGAATTTTTTAACTTATTTTGAGATAAATGAATTTATTTCAATTTTTTGAATATTATTG
66 TTATTTTGAATTTTTTAACTTATTTTGAGATAAATGAATTTATTTCAATTTTTTGAATATTATTG
783323 AATAAATTTTAAATTTTTTTATAAATATTTCTAAAAAAATACA-TTTCGAATAAAA
131 AATAAATTTTAAATTTTTTTATAAATATTTCTAAAAAAATACATTTTCGAATAAAA
783378 AATTTTCTTTTTTTGACTCATCCAAAATAGTTGGATTTAATTTTCGATTTTTTCATATTAATTTT
1 AATTTTCTTTTTTTGACTCATCCAAAATAGTTGGATTTAATTTTCGATTTTTTCATATTAATTTT
783443 TTATTTTGAATTTTTTAACTTATTTTGAGATAAATGAATTTATTTCAATTTTTTGAATATTATTG
66 TTATTTTGAATTTTTTAACTTATTTTGAGATAAATGAATTTATTTCAATTTTTTGAATATTATTG
783508 AATAAATTTTAAATTTTTTTATAAATATTTCTAAAAAAATACATTTTCGAATAAAA
131 AATAAATTTTAAATTTTTTTATAAATATTTCTAAAAAAATACATTTTCGAATAAAA
783564 AA
1 AA
783566 AATTATTAAC
Statistics
Matches: 187, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
185 173 0.93
186 14 0.07
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.52
Consensus pattern (186 bp):
AATTTTCTTTTTTTGACTCATCCAAAATAGTTGGATTTAATTTTCGATTTTTTCATATTAATTTT
TTATTTTGAATTTTTTAACTTATTTTGAGATAAATGAATTTATTTCAATTTTTTGAATATTATTG
AATAAATTTTAAATTTTTTTATAAATATTTCTAAAAAAATACATTTTCGAATAAAA
Found at i:783698 original size:23 final size:21
Alignment explanation
Indices: 783638--783695 Score: 82
Period size: 22 Copynumber: 2.7 Consensus size: 21
783628 ATTTTCGATA
783638 TTTTAAATATAAAATATTTAT
1 TTTTAAATATAAAATATTTAT
783659 TTTTGATAA-ATAAAATATTTAT
1 TTTT-A-AATATAAAATATTTAT
783681 TTTTAAATCATAAAA
1 TTTTAAAT-ATAAAA
783696 ATAAATTTAG
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
20 2 0.06
21 5 0.15
22 24 0.73
23 2 0.06
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (21 bp):
TTTTAAATATAAAATATTTAT
Found at i:785477 original size:22 final size:22
Alignment explanation
Indices: 785451--785496 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
785441 TTTGAATCGA
*
785451 GTCTATTTAGATTTGATCAATT
1 GTCTATTTAGATTGGATCAATT
* *
785473 GTCTATTTGGATTGGATTAATT
1 GTCTATTTAGATTGGATCAATT
785495 GT
1 GT
785497 TGTTTTAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.24, C:0.07, G:0.20, T:0.50
Consensus pattern (22 bp):
GTCTATTTAGATTGGATCAATT
Found at i:790163 original size:27 final size:27
Alignment explanation
Indices: 790102--790168 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 27
790092 CAAGAGACTG
790102 ATAGGCGGCACCAAAGATGCCATTCCC
1 ATAGGCGGCACCAAAGATGCCATTCCC
* * * * *
790129 ATAAGCGGCACCGATGGTGCCATTCTC
1 ATAGGCGGCACCAAAGATGCCATTCCC
* *
790156 ATGGGCGGTACCA
1 ATAGGCGGCACCA
790169 CTCGTGTTAT
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.25, C:0.30, G:0.27, T:0.18
Consensus pattern (27 bp):
ATAGGCGGCACCAAAGATGCCATTCCC
Found at i:790542 original size:40 final size:36
Alignment explanation
Indices: 790482--790567 Score: 93
Period size: 40 Copynumber: 2.3 Consensus size: 36
790472 NNNNNNNNNN
* * *
790482 TATTATTATGGTTAGTTATTATTTTTAGTA-AAACCC
1 TATTATTATTGTTAGTTATTATTTTGAGTATAAA-AC
790518 TAATTATTATTGTTAGTTACTATTATTTTGAGTATAAAAC
1 T-ATTATTATTGTTAG-T--TATTATTTTGAGTATAAAAC
790558 TATTATTATT
1 TATTATTATT
790568 TTTATTGTGT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
36 1 0.02
37 13 0.31
38 1 0.02
39 9 0.21
40 15 0.36
41 3 0.07
ACGTcount: A:0.33, C:0.06, G:0.09, T:0.52
Consensus pattern (36 bp):
TATTATTATTGTTAGTTATTATTTTGAGTATAAAAC
Found at i:795328 original size:315 final size:315
Alignment explanation
Indices: 794756--795390 Score: 1200
Period size: 315 Copynumber: 2.0 Consensus size: 315
794746 CTGTATATCA
*
794756 GGACAGTGTGTGACCTCTCGATACCCGGACGAACACTCCACCTACAAAAAACAAATATAGGGTTT
1 GGACAGTGTGTGACCTCCCGATACCCGGACGAACACTCCACCTACAAAAAACAAATATAGGGTTT
794821 AGGGTTGGTAACATTAGTCAATATATTATGACTACAAATAATGACAATTTATATTTTATCACCTG
66 AGGGTTGGTAACATTAGTCAATATATTATGACTACAAATAATGACAATTTATATTTTATCACCTG
* *
794886 TTCACCAGTGGATAAACATACGGTTGGTGACTAACTGATGTCAAAAATGGCATCCGATAGAGCGC
131 TTCACCAGTGGATAAACATACGGTTGGTGACTAACCGATGTCAAAAATGACATCCGATAGAGCGC
794951 CCAGGATTGCAGCAATGTGAGGCATTCGCCCATGTCTACAACATCTGGGTTTGTCACCCGACAAA
196 CCAGGATTGCAGCAATGTGAGGCATTCGCCCATGTCTACAACATCTGGGTTTGTCACCCGACAAA
795016 GCTCCCGATACAACACTGCTAGAACGACGGAGCCCCAGCTATACGAGCTAACACT
261 GCTCCCGATACAACACTGCTAGAACGACGGAGCCCCAGCTATACGAGCTAACACT
795071 GGACAGTGTGTGACCTCCCGATACCCGGACGAACACTCCACCTACAAAAAACAAATATAGGGTTT
1 GGACAGTGTGTGACCTCCCGATACCCGGACGAACACTCCACCTACAAAAAACAAATATAGGGTTT
795136 AGGGTTGGTAACATTAGTCAATATATTATGACTACAAATAATGACAATTTATATTTTATCACCTG
66 AGGGTTGGTAACATTAGTCAATATATTATGACTACAAATAATGACAATTTATATTTTATCACCTG
795201 TTCACCAGTGGATAAACATACGGTTGGTGACTAACCGATG-CTAAAAATGACATCCGATAGAGCG
131 TTCACCAGTGGATAAACATACGGTTGGTGACTAACCGATGTC-AAAAATGACATCCGATAGAGCG
*
795265 CCCAGGATTGCAGCAATGTGAGGCATTCGCTCATGTCTACAACATCTGGGTTTGTCACCCGACAA
195 CCCAGGATTGCAGCAATGTGAGGCATTCGCCCATGTCTACAACATCTGGGTTTGTCACCCGACAA
* *
795330 AGCTCCTGATACAACACTGCTAGAACGGCGGAGCCCCAGCTATACGAGCTAACACT
260 AGCTCCCGATACAACACTGCTAGAACGACGGAGCCCCAGCTATACGAGCTAACACT
795386 GGACA
1 GGACA
795391 AATCAGCTAA
Statistics
Matches: 313, Mismatches: 6, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
314 1 0.00
315 312 1.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (315 bp):
GGACAGTGTGTGACCTCCCGATACCCGGACGAACACTCCACCTACAAAAAACAAATATAGGGTTT
AGGGTTGGTAACATTAGTCAATATATTATGACTACAAATAATGACAATTTATATTTTATCACCTG
TTCACCAGTGGATAAACATACGGTTGGTGACTAACCGATGTCAAAAATGACATCCGATAGAGCGC
CCAGGATTGCAGCAATGTGAGGCATTCGCCCATGTCTACAACATCTGGGTTTGTCACCCGACAAA
GCTCCCGATACAACACTGCTAGAACGACGGAGCCCCAGCTATACGAGCTAACACT
Found at i:796492 original size:18 final size:18
Alignment explanation
Indices: 796469--796506 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
796459 TTTTCTCCGC
796469 ATTTTATTACTTTAAAAA
1 ATTTTATTACTTTAAAAA
796487 ATTTTATTACTTTAAAAA
1 ATTTTATTACTTTAAAAA
796505 AT
1 AT
796507 ATCATAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (18 bp):
ATTTTATTACTTTAAAAA
Found at i:797051 original size:285 final size:285
Alignment explanation
Indices: 796224--797103 Score: 1314
Period size: 304 Copynumber: 3.0 Consensus size: 285
796214 ATTATGTTTG
* *
796224 AAATTTATTAATTTAATGTG-TTTTTAAATTAATTTAGTGTCAAAAAAACCCTTATTCCTGCCCT
1 AAATTTATTAATTTAGTGTGTTTTTTAAATTAATTTAGTGTCAAAAAAACCATTATTCCTGCCCT
*
796288 TTGCTCGTATTATTTTCCCGAATTTTATTACTTTCAATAAAAAAATTTATTTTCGTATTTTATTA
66 TTGCTCGTATTATTTTCCCGAATTTTATTACTTTCAATAAAAATA-TTATTTTCGTATTTTATTA
* * *
796353 TTTTTTATTATTTCAGTACATTTTGTTTCAAATATTTGTATTAATTACTTCTGAATTTTTAAAAA
130 TTTTATATTATTTCAGTACATTTTGTTTGAAATATTTGTATTAATTATTTCTGAATTTTTAAAAA
* * *
796418 ATTTTGTAAAACACTCTTACCTCGGTCATTTCTTCATATTTTTTTCTCCGCATTTTATTACTTTA
195 ATTTTGTAAAACACTCTTACTTCGGCCATTTCTTCGTATTTTTTTCTCCG-------------T-
796483 AAAAATTTTATTACTTTAAAAAATATCATAATTTCTAATTTTAT
246 ----ATTTTATTACTTTAAAAAATATCATAATTTCTAATTTTAT
* *
796527 AAATTTATTAATTTAGTGTGTTTTTTAGATTAATTTAGTGTCAAAAAAACCATTATTCATGCCCT
1 AAATTTATTAATTTAGTGTGTTTTTTAAATTAATTTAGTGTCAAAAAAACCATTATTCCTGCCCT
* *
796592 TTGCTCATATTATTTTCCCGAATTTTGTTACTTTCAATAAAAAATATTATTTTCGTATTTTATTA
66 TTGCTCGTATTATTTTCCCGAATTTTATTACTTTCAAT-AAAAATATTATTTTCGTATTTTATTA
796657 TTTTATATTATTTCAGTACATTTTGTTTGAAATATTTGTATTAATTATTTCTGAATTTTTAAAAA
130 TTTTATATTATTTCAGTACATTTTGTTTGAAATATTTGTATTAATTATTTCTGAATTTTTAAAAA
* *
796722 ATTTAGCAAAACACTCTTACTTCGGCCATTTCTTCGTA-TTTTTTCTCCGTATTTTATTACTTTA
195 ATTTTGTAAAACACTCTTACTTCGGCCATTTCTTCGTATTTTTTTCTCCGTATTTTATTACTTTA
796786 AAAAATATCATAATTTCTAATTTTAT
260 AAAAATATCATAATTTCTAATTTTAT
* **
796812 AAATTTATTAATTTAGTGTGTTTTTTAAATTAATTTAGTGTAAAAAAAACTTTTATTCCTGCCCT
1 AAATTTATTAATTTAGTGTGTTTTTTAAATTAATTTAGTGTCAAAAAAACCATTATTCCTGCCCT
* * *
796877 TTGCTCGTATTATTTTCTCGAATTTTATTACTTTGAATAAAAATATTATTTTTGTATTTTATTAT
66 TTGCTCGTATTATTTTCCCGAATTTTATTACTTTCAATAAAAATATTATTTTCGTATTTTATTAT
* *
796942 TTTATATTATTTCAGTATATTTTGTTTGAAATATTTGTATTAATTATTTCTGAATTTTTATAAAA
131 TTTATATTATTTCAGTACATTTTGTTTGAAATATTTGTATTAATTATTTCTGAATTTTTAAAAAA
* ** *
797007 TTTTGTAAAACGCTCTTACTTCGGCCATTTCTTCGTATTTTTTTCTTTGCATTTTATTACTTTAA
196 TTTTGTAAAACACTCTTACTTCGGCCATTTCTTCGTATTTTTTTCTCCGTATTTTATTACTTTAA
797072 AAAATATCATAATTTCTAATTTTAT
261 AAAATATCATAATTTCTAATTTTAT
*
797097 AATTTTA
1 AAATTTA
797104 CTTTATTTCA
Statistics
Matches: 540, Mismatches: 34, Indels: 24
0.90 0.06 0.04
Matches are distributed among these distances:
284 123 0.23
285 189 0.35
290 1 0.00
303 30 0.06
304 191 0.35
305 6 0.01
ACGTcount: A:0.31, C:0.11, G:0.07, T:0.51
Consensus pattern (285 bp):
AAATTTATTAATTTAGTGTGTTTTTTAAATTAATTTAGTGTCAAAAAAACCATTATTCCTGCCCT
TTGCTCGTATTATTTTCCCGAATTTTATTACTTTCAATAAAAATATTATTTTCGTATTTTATTAT
TTTATATTATTTCAGTACATTTTGTTTGAAATATTTGTATTAATTATTTCTGAATTTTTAAAAAA
TTTTGTAAAACACTCTTACTTCGGCCATTTCTTCGTATTTTTTTCTCCGTATTTTATTACTTTAA
AAAATATCATAATTTCTAATTTTAT
Found at i:797526 original size:18 final size:18
Alignment explanation
Indices: 797505--797615 Score: 57
Period size: 19 Copynumber: 6.6 Consensus size: 18
797495 TTCTTTTTTT
797505 TTTTCTCTTCTCCTTTCC
1 TTTTCTCTTCTCCTTTCC
797523 -TTT-TCTT-TCC-TT-C
1 TTTTCTCTTCTCCTTTCC
797536 TTTT-TCTT-T-CTTT-C
1 TTTTCTCTTCTCCTTTCC
*
797550 -TTTCTTTTTCTCCTTTCC
1 TTTTC-TCTTCTCCTTTCC
* *
797568 TTTTCT-TTCCTTCTTTTTC
1 TTTTCTCTT-C-TCCTTTCC
* *
797587 TTTCTTTCCTCTCCTTTCC
1 TTT-TCTCTTCTCCTTTCC
797606 TTTTCT-TTCT
1 TTTTCTCTTCT
797616 TTTTCTTTCT
Statistics
Matches: 72, Mismatches: 9, Indels: 25
0.68 0.08 0.24
Matches are distributed among these distances:
13 5 0.07
14 13 0.18
15 6 0.08
16 5 0.07
17 12 0.17
18 5 0.07
19 22 0.31
20 3 0.04
21 1 0.01
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTCTCTTCTCCTTTCC
Found at i:797532 original size:10 final size:10
Alignment explanation
Indices: 797517--797647 Score: 86
Period size: 10 Copynumber: 13.6 Consensus size: 10
797507 TTCTCTTCTC
797517 CTTTCCTTTT
1 CTTTCCTTTT
797527 CTTTCCTTCTT
1 CTTTCCTT-TT
797538 -TTT-C-TTT
1 CTTTCCTTTT
797545 CTTT-C-TTT
1 CTTTCCTTTT
*
797553 CTTT--TTCTC
1 CTTTCCTT-TT
797562 CTTTCCTTTT
1 CTTTCCTTTT
797572 CTTTCCTTCTT
1 CTTTCCTT-TT
797583 -TTT-C-TTT
1 CTTTCCTTTT
* *
797590 CTTTCCTCTC
1 CTTTCCTTTT
797600 CTTTCCTTTT
1 CTTTCCTTTT
*
797610 CTTTCTTTTT
1 CTTTCCTTTT
*
797620 CTTTCTTTCTTT
1 CTTTC-CT-TTT
797632 CTTT-CTTCTT
1 CTTTCCTT-TT
797642 CTTTCC
1 CTTTCC
797648 CTCTCCTTCC
Statistics
Matches: 99, Mismatches: 8, Indels: 27
0.74 0.06 0.20
Matches are distributed among these distances:
7 4 0.04
8 17 0.17
9 9 0.09
10 53 0.54
11 9 0.09
12 7 0.07
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (10 bp):
CTTTCCTTTT
Found at i:797542 original size:14 final size:14
Alignment explanation
Indices: 797523--797647 Score: 94
Period size: 14 Copynumber: 8.7 Consensus size: 14
797513 TCTCCTTTCC
797523 TTTTCTTTCCTTCT
1 TTTTCTTTCCTTCT
*
797537 TTTTCTTTCTTTCT
1 TTTTCTTTCCTTCT
* *
797551 TTCTTTTTCTCCTTTCC
1 TT-TTCTT-TCC-TTCT
797568 TTTTCTTTCCTTCT
1 TTTTCTTTCCTTCT
* *
797582 TTTTCTTTCTTTCC
1 TTTTCTTTCCTTCT
* *
797596 TCTCCTTTCCTT-T
1 TTTTCTTTCCTTCT
797609 TCTTTCTTT--TTCTT
1 T-TTTCTTTCCTTC-T
*
797623 TCTTTCTTTCTTTCT
1 T-TTTCTTTCCTTCT
*
797638 TCTTCTTTCC
1 TTTTCTTTCC
797648 CTCTCCTTCC
Statistics
Matches: 87, Mismatches: 16, Indels: 16
0.73 0.13 0.13
Matches are distributed among these distances:
12 2 0.02
13 1 0.01
14 61 0.70
15 9 0.10
16 9 0.10
17 5 0.06
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTTCTTTCCTTCT
Found at i:797545 original size:4 final size:4
Alignment explanation
Indices: 797524--797646 Score: 84
Period size: 4 Copynumber: 31.0 Consensus size: 4
797514 CTCCTTTCCT
*
797524 TTTC TTTC CTTC -TT- TTTC TTTC TTTC TTTC TTT- TTCTCC TTTCC TTTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT-T-C TTT-C -TTTC
* *
797573 TTTC CTTC -TT- TTTC TTTC TTTCC TCTCC TTTCC TTTTC TTTC -TT-
1 TTTC TTTC TTTC TTTC TTTC TTT-C T-TTC TTT-C -TTTC TTTC TTTC
797617 TTTC TTTC TTTC TTTC TTTC -TTC -TTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
797647 CCTCTCCTTC
Statistics
Matches: 100, Mismatches: 4, Indels: 30
0.75 0.03 0.22
Matches are distributed among these distances:
3 20 0.20
4 61 0.61
5 10 0.10
6 9 0.09
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (4 bp):
TTTC
Found at i:797561 original size:45 final size:44
Alignment explanation
Indices: 797488--797643 Score: 191
Period size: 45 Copynumber: 3.6 Consensus size: 44
797478 TTCCTCCCCT
* * *
797488 CTTCTTCTTCTTTTTTTTTTTCTCTTCTCCTTTCCTTTTCTTTC
1 CTTCTTTTTCTTTCTTTCTTTCTCTTCTCCTTTCCTTTTCTTTC
*
797532 CTTCTTTTTCTTTCTTTCTTTCTTTTTCTCCTTTCCTTTTCTTTC
1 CTTCTTTTTCTTTCTTTCTTTC-TCTTCTCCTTTCCTTTTCTTTC
797577 CTTC---TT-TTTCTTTCTTTC-C-TCTCCTTTCCTTTTCTTT-
1 CTTCTTTTTCTTTCTTTCTTTCTCTTCTCCTTTCCTTTTCTTTC
*
797614 CTTTTTCTTTCTTTCTTTCTTTCTTCTTCT
1 CTTCTT-TTTCTTTCTTTCTTTC-TCTTCT
797644 TTCCCTCTCC
Statistics
Matches: 97, Mismatches: 6, Indels: 17
0.81 0.05 0.14
Matches are distributed among these distances:
37 3 0.03
38 18 0.19
41 14 0.14
42 14 0.14
44 20 0.21
45 28 0.29
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (44 bp):
CTTCTTTTTCTTTCTTTCTTTCTCTTCTCCTTTCCTTTTCTTTC
Found at i:797600 original size:83 final size:81
Alignment explanation
Indices: 797458--797643 Score: 243
Period size: 83 Copynumber: 2.2 Consensus size: 81
797448 AAAAAATTAC
797458 CTTTCTTTCTTTCTTTTTCCTTCCTCCCCTCTTCTTCTTCTTTTTTTTTTTCTCTTCTCCTTTCC
1 CTTTCTTTCTTTCTTTTT-C-TCCTCCCCTCTTCTTCTTCTTTTTTTTTTTCTCTTCTCCTTTCC
797523 TTTTCTTTCCTTCTT-TTT
64 TTTTCTTT-CTTCTTCTTT
** *
797541 CTTTCTTTCTTTCTTTTTCTCCTTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTC-C-TCTCCTTT
1 CTTTCTTTCTTTCTTTTTCTCCTCCCCTCTTC-TT-CTTCTTTTT-TTT-TTTCTCTTCTCCTTT
*
797604 CCTTTTCTTTCTTTTTCTTT
62 CCTTTTCTTTCTTCTTCTTT
*
797624 CTTTCTTTCTTTCTTCTTCT
1 CTTTCTTTCTTTCTTTTTCT
797644 TTCCCTCTCC
Statistics
Matches: 93, Mismatches: 5, Indels: 10
0.86 0.05 0.09
Matches are distributed among these distances:
81 10 0.11
82 8 0.09
83 67 0.72
84 4 0.04
85 4 0.04
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (81 bp):
CTTTCTTTCTTTCTTTTTCTCCTCCCCTCTTCTTCTTCTTTTTTTTTTTCTCTTCTCCTTTCCTT
TTCTTTCTTCTTCTTT
Found at i:797630 original size:18 final size:18
Alignment explanation
Indices: 797458--797646 Score: 115
Period size: 18 Copynumber: 10.5 Consensus size: 18
797448 AAAAAATTAC
797458 CTTTCTTTCTTTCTTTTT
1 CTTTCTTTCTTTCTTTTT
* * * ** *
797476 CCTTCCTCCCCTCTTCTT
1 CTTTCTTTCTTTCTTTTT
797494 C-TTCTTT-TTT-TTTTT
1 CTTTCTTTCTTTCTTTTT
* *
797509 CTCTTC-TCCTTTCCTTTT
1 CT-TTCTTTCTTTCTTTTT
*
797527 CTTTCCTTCTTT-TTCTTT
1 CTTTCTTTCTTTCTT-TTT
* *
797545 CTTTCTTTCTTT-TTCTC
1 CTTTCTTTCTTTCTTTTT
*
797562 CTTTCCTTTTCTTTCCTTCTT
1 CTTT-C-TTTCTTT-CTTTTT
* * *
797583 -TTTCTTTCTTTCCTCTC
1 CTTTCTTTCTTTCTTTTT
797600 CTTTCCTTTTCTTTCTTTTT
1 CTTT-C-TTTCTTTCTTTTT
797620 CTTTCTTTCTTTCTTTCTT
1 CTTTCTTTCTTTCTTT-TT
797639 C-TTCTTTC
1 CTTTCTTTC
797647 CCTCTCCTTC
Statistics
Matches: 133, Mismatches: 24, Indels: 28
0.72 0.13 0.15
Matches are distributed among these distances:
15 5 0.04
16 2 0.02
17 23 0.17
18 69 0.52
19 13 0.10
20 17 0.13
21 4 0.03
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (18 bp):
CTTTCTTTCTTTCTTTTT
Found at i:798491 original size:18 final size:19
Alignment explanation
Indices: 798458--798497 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
798448 TTTAGAATTG
**
798458 TTTTTAAAAATTTAT-AAT
1 TTTTTAAAAAAATATAAAT
798476 TTTTTAAAAAAATATAAAT
1 TTTTTAAAAAAATATAAAT
798495 TTT
1 TTT
798498 AGAATTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTTTAAAAAAATATAAAT
Found at i:798523 original size:19 final size:19
Alignment explanation
Indices: 798488--798544 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
798478 TTTAAAAAAA
*
798488 TATAAAT-TTTAGAATTTT
1 TATAAATATTTTGAATTTT
798506 TATAAATATTTTGAATTTT
1 TATAAATATTTTGAATTTT
798525 TGA-AAATTATTTTG-ATTTT
1 T-ATAAA-TATTTTGAATTTT
798544 T
1 T
798545 TTTTTTGTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
18 7 0.20
19 20 0.57
20 8 0.23
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (19 bp):
TATAAATATTTTGAATTTT
Found at i:803903 original size:125 final size:126
Alignment explanation
Indices: 803681--803931 Score: 495
Period size: 125 Copynumber: 2.0 Consensus size: 126
803671 ACAGAGTGGA
803681 TCATGTTGAACAGAAAAAGCTTAGGGACATTCATGGAAGTGAACCAAAGCGCATTTATAAGCACA
1 TCATGTTGAACAGAAAAAGCTTAGGGACATTCATGGAAGTGAACCAAAGCGCATTTATAAGCACA
803746 AGATGAGAGCTGCTGTCAAGCGAAAATGTTGAACTATTTACAATATGTTA-ATATATATAT
66 AGATGAGAGCTGCTGTCAAGCGAAAATGTTGAACTATTTACAATATGTTATATATATATAT
803806 TCATGTTGAACAGAAAAAGCTTAGGGACATTCATGGAAGTGAACCAAAGCGCATTTATAAGCACA
1 TCATGTTGAACAGAAAAAGCTTAGGGACATTCATGGAAGTGAACCAAAGCGCATTTATAAGCACA
803871 AGATGAGAGCTGCTGTCAAGCGAAAATGTTGAACTATTTACAATATGTTATATATATATAT
66 AGATGAGAGCTGCTGTCAAGCGAAAATGTTGAACTATTTACAATATGTTATATATATATAT
803932 ATATATATAT
Statistics
Matches: 125, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
125 115 0.92
126 10 0.08
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (126 bp):
TCATGTTGAACAGAAAAAGCTTAGGGACATTCATGGAAGTGAACCAAAGCGCATTTATAAGCACA
AGATGAGAGCTGCTGTCAAGCGAAAATGTTGAACTATTTACAATATGTTATATATATATAT
Found at i:803926 original size:2 final size:2
Alignment explanation
Indices: 803919--803945 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
803909 TACAATATGT
803919 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
803946 GTGCCCTTTA
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:805473 original size:26 final size:26
Alignment explanation
Indices: 805437--805487 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
805427 CTCATGAATG
805437 AAAGTATTCTTGAAAGTGGACCGATT
1 AAAGTATTCTTGAAAGTGGACCGATT
805463 AAAGTATTCTTGAAAGTGGACCGAT
1 AAAGTATTCTTGAAAGTGGACCGAT
805488 ATCAACTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (26 bp):
AAAGTATTCTTGAAAGTGGACCGATT
Found at i:806844 original size:26 final size:27
Alignment explanation
Indices: 806815--806873 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
806805 GTTAAGTAGA
806815 GAAAA-GTCGGTCTATTAGCGTGAGTG
1 GAAAATGTCGGTCTATTAGCGTGAGTG
* *
806841 GAAAATTTTGGTCTATTAGCGTGAGTG
1 GAAAATGTCGGTCTATTAGCGTGAGTG
806868 GAAAAT
1 GAAAAT
806874 TTTACCAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 5 0.17
27 25 0.83
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.31
Consensus pattern (27 bp):
GAAAATGTCGGTCTATTAGCGTGAGTG
Found at i:806854 original size:27 final size:27
Alignment explanation
Indices: 806823--806876 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
806813 GAGAAAAGTC
806823 GGTCTATTAGCGTGAGTGGAAAATTTT
1 GGTCTATTAGCGTGAGTGGAAAATTTT
806850 GGTCTATTAGCGTGAGTGGAAAATTTT
1 GGTCTATTAGCGTGAGTGGAAAATTTT
806877 ACCAATTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.07, G:0.30, T:0.37
Consensus pattern (27 bp):
GGTCTATTAGCGTGAGTGGAAAATTTT
Found at i:819469 original size:33 final size:33
Alignment explanation
Indices: 819427--819570 Score: 105
Period size: 33 Copynumber: 4.3 Consensus size: 33
819417 TGTTTATATG
*
819427 TAAGGCCATAGTTGGGCTATGACATTCTGATGA
1 TAAGACCATAGTTGGGCTATGACATTCTGATGA
* * * * *
819460 TAAGACCATAATTGGGTTATGACACTATGA-GCG
1 TAAGACCATAGTTGGGCTATGACATTCTGATG-A
* * * * *
819493 TAAGACCATGGTTGGACCATGGCAGTGT-TTAT-A
1 TAAGACCATAGTTGGGCTATGACA-T-TCTGATGA
* *
819526 TCTAAGACCATAGTTGGGTTATGGCATTCTGATGA
1 --TAAGACCATAGTTGGGCTATGACATTCTGATGA
819561 TAAGACCATA
1 TAAGACCATA
819571 ACTGTGTTAT
Statistics
Matches: 83, Mismatches: 20, Indels: 16
0.70 0.17 0.13
Matches are distributed among these distances:
32 1 0.01
33 54 0.65
34 6 0.07
35 22 0.27
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (33 bp):
TAAGACCATAGTTGGGCTATGACATTCTGATGA
Found at i:819495 original size:101 final size:101
Alignment explanation
Indices: 819359--819596 Score: 386
Period size: 101 Copynumber: 2.4 Consensus size: 101
819349 AATTGACGGT
*
819359 TAAGACCATAATTGGGTTATGGCACTATGAACGTAAGACCATGGTTGGACCATGGCAGTGTTTAT
1 TAAGACCATAATTGGGTTATGACACTATGAACGTAAGACCATGGTTGGACCATGGCAGTGTTTAT
* *
819424 ATGTAAGGCCATAGTTGGGCTATGACATTCTGATGA
66 ATCTAAGACCATAGTTGGGCTATGACATTCTGATGA
*
819460 TAAGACCATAATTGGGTTATGACACTATGAGCGTAAGACCATGGTTGGACCATGGCAGTGTTTAT
1 TAAGACCATAATTGGGTTATGACACTATGAACGTAAGACCATGGTTGGACCATGGCAGTGTTTAT
* *
819525 ATCTAAGACCATAGTTGGGTTATGGCATTCTGATGA
66 ATCTAAGACCATAGTTGGGCTATGACATTCTGATGA
* * * *
819561 TAAGACCATAACTGTGTTATGACACTACGAATGTAA
1 TAAGACCATAATTGGGTTATGACACTATGAACGTAA
819597 AGGACGAATT
Statistics
Matches: 126, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
101 126 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (101 bp):
TAAGACCATAATTGGGTTATGACACTATGAACGTAAGACCATGGTTGGACCATGGCAGTGTTTAT
ATCTAAGACCATAGTTGGGCTATGACATTCTGATGA
Found at i:825623 original size:8 final size:8
Alignment explanation
Indices: 825582--825624 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
825572 TGCATGTGTG
825582 TGTATATA
1 TGTATATA
*
825590 TATATATA
1 TGTATATA
*
825598 TATATATA
1 TGTATATA
*
825606 TGTATGTA
1 TGTATATA
*
825614 TGTGTATA
1 TGTATATA
825622 TGT
1 TGT
825625 TGATTTGATA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (8 bp):
TGTATATA
Found at i:826522 original size:19 final size:20
Alignment explanation
Indices: 826498--826535 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
826488 TTTTAACCAT
826498 ATAAAAAT-TATTAAAAATC
1 ATAAAAATATATTAAAAATC
*
826517 ATAAAAATATTTTAAAAAT
1 ATAAAAATATATTAAAAAT
826536 AAAAAAAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (20 bp):
ATAAAAATATATTAAAAATC
Found at i:827095 original size:54 final size:54
Alignment explanation
Indices: 827036--827147 Score: 224
Period size: 54 Copynumber: 2.1 Consensus size: 54
827026 ATAGAAATTG
827036 AAGTATAGTTTAGGGGTCAATTTACTAATAAAGCACATTTTTCTTTGGATCAAC
1 AAGTATAGTTTAGGGGTCAATTTACTAATAAAGCACATTTTTCTTTGGATCAAC
827090 AAGTATAGTTTAGGGGTCAATTTACTAATAAAGCACATTTTTCTTTGGATCAAC
1 AAGTATAGTTTAGGGGTCAATTTACTAATAAAGCACATTTTTCTTTGGATCAAC
827144 AAGT
1 AAGT
827148 GGATTATTTT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 58 1.00
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (54 bp):
AAGTATAGTTTAGGGGTCAATTTACTAATAAAGCACATTTTTCTTTGGATCAAC
Found at i:830669 original size:31 final size:31
Alignment explanation
Indices: 830634--830700 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
830624 TTGGCACATC
*
830634 AACTTGACACTTTTTCCTAATTTGGTACCTA
1 AACTTGACACTTTTTCCTAAGTTGGTACCTA
* * * *
830665 AACTTGATACTTTTTCTTAAGTTGGTGCTTA
1 AACTTGACACTTTTTCCTAAGTTGGTACCTA
830696 AACTT
1 AACTT
830701 TTTGGGGGTC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.25, C:0.18, G:0.12, T:0.45
Consensus pattern (31 bp):
AACTTGACACTTTTTCCTAAGTTGGTACCTA
Found at i:831257 original size:59 final size:59
Alignment explanation
Indices: 831158--831307 Score: 171
Period size: 59 Copynumber: 2.5 Consensus size: 59
831148 AATTGAACCT
* ** * *
831158 AAAAAAAAGCTTAGATTTCAAATTAGGATAAAATGCCAAGTTCAGGTACCAAATTGGGTC
1 AAAAAAAAGTTTAGATACCAAATTAGGA-AAAATGCCAAGTTCAGATACCAAATTGGGAC
* * *
831218 -CAAAAAAGTTTA-AGTACCAAATTAGGAAAAACTGTCAAGTTTAGATACCAAATTGGGAC
1 AAAAAAAAGTTTAGA-TACCAAATTAGGAAAAA-TGCCAAGTTCAGATACCAAATTGGGAC
*
831277 AAAAAAAAGTTTAGATATCAAATT-GGAAAAA
1 AAAAAAAAGTTTAGATACCAAATTAGGAAAAA
831308 AGTATCAAAT
Statistics
Matches: 76, Mismatches: 10, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
58 5 0.07
59 51 0.67
60 19 0.25
61 1 0.01
ACGTcount: A:0.48, C:0.11, G:0.17, T:0.24
Consensus pattern (59 bp):
AAAAAAAAGTTTAGATACCAAATTAGGAAAAATGCCAAGTTCAGATACCAAATTGGGAC
Found at i:836596 original size:184 final size:184
Alignment explanation
Indices: 836287--836647 Score: 722
Period size: 184 Copynumber: 2.0 Consensus size: 184
836277 TGTATAAATT
836287 CCCATATCCACACGCACCACCTGAATGAAAAAGAGAGTGAAATTTGAGCAGCGAATAAAAATGGG
1 CCCATATCCACACGCACCACCTGAATGAAAAAGAGAGTGAAATTTGAGCAGCGAATAAAAATGGG
836352 TTTTTTTTGTTTAATGAAATAAAATTACTTACCCATTGTGCCAGAAGCATCACTGCCGCCATAGA
66 TTTTTTTTGTTTAATGAAATAAAATTACTTACCCATTGTGCCAGAAGCATCACTGCCGCCATAGA
836417 AAGTGGCATGAGCAGTTTCCCAGGATCCACCGGTGTAAACACCGGGGTTTTTTC
131 AAGTGGCATGAGCAGTTTCCCAGGATCCACCGGTGTAAACACCGGGGTTTTTTC
836471 CCCATATCCACACGCACCACCTGAATGAAAAAGAGAGTGAAATTTGAGCAGCGAATAAAAATGGG
1 CCCATATCCACACGCACCACCTGAATGAAAAAGAGAGTGAAATTTGAGCAGCGAATAAAAATGGG
836536 TTTTTTTTGTTTAATGAAATAAAATTACTTACCCATTGTGCCAGAAGCATCACTGCCGCCATAGA
66 TTTTTTTTGTTTAATGAAATAAAATTACTTACCCATTGTGCCAGAAGCATCACTGCCGCCATAGA
836601 AAGTGGCATGAGCAGTTTCCCAGGATCCACCGGTGTAAACACCGGGG
131 AAGTGGCATGAGCAGTTTCCCAGGATCCACCGGTGTAAACACCGGGG
836648 ATTCTTGCGT
Statistics
Matches: 177, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
184 177 1.00
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (184 bp):
CCCATATCCACACGCACCACCTGAATGAAAAAGAGAGTGAAATTTGAGCAGCGAATAAAAATGGG
TTTTTTTTGTTTAATGAAATAAAATTACTTACCCATTGTGCCAGAAGCATCACTGCCGCCATAGA
AAGTGGCATGAGCAGTTTCCCAGGATCCACCGGTGTAAACACCGGGGTTTTTTC
Found at i:842997 original size:20 final size:21
Alignment explanation
Indices: 842974--843013 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
842964 TTCACCTAAG
*
842974 CTATACATT-TTTCATTCAAA
1 CTATACATTACTTCATTCAAA
*
842994 CTATTCATTACTTCATTCAA
1 CTATACATTACTTCATTCAA
843014 GAAATGCGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.45
Consensus pattern (21 bp):
CTATACATTACTTCATTCAAA
Found at i:851380 original size:150 final size:150
Alignment explanation
Indices: 851170--851470 Score: 584
Period size: 150 Copynumber: 2.0 Consensus size: 150
851160 TCGGGCTTGA
*
851170 ACATTCAAGGCCCAAGTCCAACGTATTTTTAAGTTTATAATATTTTATATTATGTTATTCTTATA
1 ACATGCAAGGCCCAAGTCCAACGTATTTTTAAGTTTATAATATTTTATATTATGTTATTCTTATA
851235 TATTATGTAATTTAGAAAATATTTAAAAAAAAACCTATACTAAATATATAAGACTACTCTAATGT
66 TATTATGTAATTTAGAAAATATTTAAAAAAAAACCTATACTAAATATATAAGACTACTCTAATGT
851300 AAGATTATATAAAAAATTTC
131 AAGATTATATAAAAAATTTC
*
851320 ACATGCAAGTCCCAAGTCCAACGTATTTTTAAGTTTATAATATTTTATATTATGTTATTCTTATA
1 ACATGCAAGGCCCAAGTCCAACGTATTTTTAAGTTTATAATATTTTATATTATGTTATTCTTATA
851385 TATTATGTAATTTAGAAAATATTTAAAAAAAAACCTATACTAAATATATAAGACTACTCTAATGT
66 TATTATGTAATTTAGAAAATATTTAAAAAAAAACCTATACTAAATATATAAGACTACTCTAATGT
851450 AAGATTATATAAAAAATTTC
131 AAGATTATATAAAAAATTTC
851470 A
1 A
851471 ATAAATAAAA
Statistics
Matches: 149, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
150 149 1.00
ACGTcount: A:0.43, C:0.11, G:0.07, T:0.39
Consensus pattern (150 bp):
ACATGCAAGGCCCAAGTCCAACGTATTTTTAAGTTTATAATATTTTATATTATGTTATTCTTATA
TATTATGTAATTTAGAAAATATTTAAAAAAAAACCTATACTAAATATATAAGACTACTCTAATGT
AAGATTATATAAAAAATTTC
Found at i:853281 original size:3 final size:3
Alignment explanation
Indices: 853273--853300 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
853263 TTCAAACCAC
853273 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
853301 AAGAAGAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:858406 original size:34 final size:35
Alignment explanation
Indices: 858362--858428 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
858352 CAGTAAAGTA
*
858362 TTTTCCGTAAAATGATTT-CAGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACAGGAAAATATTTTAC
* *
858396 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACAGGAAAATATTTT
858429 TTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACAGGAAAATATTTTAC
Found at i:866023 original size:27 final size:28
Alignment explanation
Indices: 865975--866055 Score: 69
Period size: 27 Copynumber: 2.9 Consensus size: 28
865965 TTTTAAAATT
* * *
865975 ATATAATATTAAATTACGAATATATTGAA
1 ATATATTAATAAATTA-TAATATATTGAA
* *
866004 ATTTA-T-ATAAATATATAATAT-TTTAA
1 ATATATTAATAAAT-TATAATATATTGAA
866030 ATATATTAATAAATTATAATAATATT
1 ATATATTAATAAATTATAAT-ATATT
866056 TGAGTGTGGA
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
26 8 0.19
27 17 0.40
28 11 0.26
29 6 0.14
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.44
Consensus pattern (28 bp):
ATATATTAATAAATTATAATATATTGAA
Found at i:871412 original size:4 final size:4
Alignment explanation
Indices: 871403--871432 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
871393 TATACATTCA
*
871403 ATGT ATGT ATGT ATAT ATGT ATGT ATGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
871433 AATTATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:871424 original size:16 final size:16
Alignment explanation
Indices: 871403--871433 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
871393 TATACATTCA
871403 ATGTATGTATGTATAT
1 ATGTATGTATGTATAT
871419 ATGTATGTATGTATA
1 ATGTATGTATGTATA
871434 ATTATTTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.48
Consensus pattern (16 bp):
ATGTATGTATGTATAT
Found at i:872337 original size:2 final size:2
Alignment explanation
Indices: 872330--872363 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
872320 TCTAAAACTA
*
872330 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
872364 GTATGAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:874755 original size:16 final size:16
Alignment explanation
Indices: 874734--874764 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
874724 AAATATTGCA
874734 AGTTCTAATAATTTTG
1 AGTTCTAATAATTTTG
*
874750 AGTTCTAATTATTTT
1 AGTTCTAATAATTTT
874765 AGGTTTAAAT
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:0.29, C:0.06, G:0.10, T:0.55
Consensus pattern (16 bp):
AGTTCTAATAATTTTG
Found at i:879759 original size:22 final size:21
Alignment explanation
Indices: 879734--879775 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
879724 TCTATTTAAT
*
879734 AATATTAAAATTTATAATATTC
1 AATATCAAAATTT-TAATATTC
*
879756 AATATCAATATTTTAATATT
1 AATATCAAAATTTTAATATT
879776 TTCAAAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (21 bp):
AATATCAAAATTTTAATATTC
Found at i:883566 original size:27 final size:26
Alignment explanation
Indices: 883527--883577 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
883517 ATTAATTTTT
* *
883527 TTAAAATTATAATACATAAAAAATTA
1 TTAAAAATATAATAAATAAAAAATTA
*
883553 TTAAAAATATTAATAAATTAAAAAT
1 TTAAAAATA-TAATAAATAAAAAAT
883578 AATAAATATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 8 0.38
27 13 0.62
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (26 bp):
TTAAAAATATAATAAATAAAAAATTA
Found at i:883572 original size:17 final size:18
Alignment explanation
Indices: 883552--883607 Score: 60
Period size: 19 Copynumber: 3.1 Consensus size: 18
883542 ATAAAAAATT
883552 ATTAAAAATATTAATA-A
1 ATTAAAAATATTAATATA
*
883569 ATTAAAAATAATAAATATA
1 ATTAAAAAT-ATTAATATA
* *
883588 CTTAAATAATATTAAGATA
1 ATTAAA-AATATTAATATA
883607 A
1 A
883608 ATGTAACTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
17 9 0.29
18 6 0.19
19 13 0.42
20 3 0.10
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (18 bp):
ATTAAAAATATTAATATA
Found at i:883592 original size:27 final size:27
Alignment explanation
Indices: 883528--883602 Score: 64
Period size: 26 Copynumber: 2.7 Consensus size: 27
883518 TTAATTTTTT
* * * *
883528 TAAAATTA-TAATACATAAAAAATTAT
1 TAAAAATATTAATAAATTAAAAATTAA
883554 TAAAAATATTAATAAATTAAAAA-TAA
1 TAAAAATATTAATAAATTAAAAATTAA
*
883580 TAAATATACTTAAATAATATTAA
1 TAAAAATA-TT-AATAA-ATTAA
883603 GATAAATGTA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
26 16 0.40
27 14 0.35
28 5 0.12
29 5 0.12
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.35
Consensus pattern (27 bp):
TAAAAATATTAATAAATTAAAAATTAA
Found at i:883602 original size:10 final size:10
Alignment explanation
Indices: 883551--883607 Score: 52
Period size: 9 Copynumber: 6.0 Consensus size: 10
883541 CATAAAAAAT
883551 TATTAAA-AA
1 TATTAAATAA
883560 TATT-AATAA
1 TATTAAATAA
883569 -ATTAAA-AA
1 TATTAAATAA
*
883577 TAATAAAT-A
1 TATTAAATAA
883586 TACTTAAATAA
1 TA-TTAAATAA
883597 TATTAAGATAA
1 TATTAA-ATAA
883608 ATGTAACTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
8 7 0.18
9 16 0.41
10 9 0.23
11 7 0.18
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (10 bp):
TATTAAATAA
Found at i:886686 original size:140 final size:140
Alignment explanation
Indices: 886434--886703 Score: 540
Period size: 140 Copynumber: 1.9 Consensus size: 140
886424 AAAGGTTAAA
886434 TTACTGTATTAGTCTTTGTATTTTATGAAAGTTATGGATTTAATTTTTTTACTTTAATTTTCATC
1 TTACTGTATTAGTCTTTGTATTTTATGAAAGTTATGGATTTAATTTTTTTACTTTAATTTTCATC
886499 AATTTTAGTCCCTATATTCGAATTTCAAAATTTTAACCTTGACCCAAATAATAGTAGTTAAATTC
66 AATTTTAGTCCCTATATTCGAATTTCAAAATTTTAACCTTGACCCAAATAATAGTAGTTAAATTC
886564 TACTAGTCAT
131 TACTAGTCAT
886574 TTACTGTATTAGTCTTTGTATTTTATGAAAGTTATGGATTTAATTTTTTTACTTTAATTTTCATC
1 TTACTGTATTAGTCTTTGTATTTTATGAAAGTTATGGATTTAATTTTTTTACTTTAATTTTCATC
886639 AATTTTAGTCCCTATATTCGAATTTCAAAATTTTAACCTTGACCCAAATAATAGTAGTTAAATTC
66 AATTTTAGTCCCTATATTCGAATTTCAAAATTTTAACCTTGACCCAAATAATAGTAGTTAAATTC
886704 AATTACTAGT
Statistics
Matches: 130, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
140 130 1.00
ACGTcount: A:0.31, C:0.13, G:0.09, T:0.47
Consensus pattern (140 bp):
TTACTGTATTAGTCTTTGTATTTTATGAAAGTTATGGATTTAATTTTTTTACTTTAATTTTCATC
AATTTTAGTCCCTATATTCGAATTTCAAAATTTTAACCTTGACCCAAATAATAGTAGTTAAATTC
TACTAGTCAT
Found at i:888067 original size:38 final size:38
Alignment explanation
Indices: 888016--888090 Score: 141
Period size: 38 Copynumber: 2.0 Consensus size: 38
888006 AGGTAGGCAA
*
888016 CTTTTTTTTTTACGATTTTTCTCAACTCTTTTTTTTTT
1 CTTTTTTTTTTACGACTTTTCTCAACTCTTTTTTTTTT
888054 CTTTTTTTTTTACGACTTTTCTCAACTCTTTTTTTTT
1 CTTTTTTTTTTACGACTTTTCTCAACTCTTTTTTTTT
888091 GCGCTTTTTG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.11, C:0.17, G:0.03, T:0.69
Consensus pattern (38 bp):
CTTTTTTTTTTACGACTTTTCTCAACTCTTTTTTTTTT
Found at i:888099 original size:38 final size:38
Alignment explanation
Indices: 888019--888099 Score: 126
Period size: 38 Copynumber: 2.1 Consensus size: 38
888009 TAGGCAACTT
* * **
888019 TTTTTTTTACGATTTTTCTCAACTCTTTTTTTTTTCTT
1 TTTTTTTTACGACTTTTCTCAACTCTTTTTTTTTGCGC
888057 TTTTTTTTACGACTTTTCTCAACTCTTTTTTTTTGCGC
1 TTTTTTTTACGACTTTTCTCAACTCTTTTTTTTTGCGC
888095 TTTTT
1 TTTTT
888100 GCTTTTTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.10, C:0.17, G:0.05, T:0.68
Consensus pattern (38 bp):
TTTTTTTTACGACTTTTCTCAACTCTTTTTTTTTGCGC
Found at i:889213 original size:82 final size:82
Alignment explanation
Indices: 889114--889375 Score: 524
Period size: 82 Copynumber: 3.2 Consensus size: 82
889104 TAGTCCTTTC
889114 TTATTGTTATTATTATCCTACTTTTTATACTTTCGAAAATTAGATTGTTTATGTTTTTTTGACTC
1 TTATTGTTATTATTATCCTACTTTTTATACTTTCGAAAATTAGATTGTTTATGTTTTTTTGACTC
889179 ACACATTTATTGTATTA
66 ACACATTTATTGTATTA
889196 TTATTGTTATTATTATCCTACTTTTTATACTTTCGAAAATTAGATTGTTTATGTTTTTTTGACTC
1 TTATTGTTATTATTATCCTACTTTTTATACTTTCGAAAATTAGATTGTTTATGTTTTTTTGACTC
889261 ACACATTTATTGTATTA
66 ACACATTTATTGTATTA
889278 TTATTGTTATTATTATCCTACTTTTTATACTTTCGAAAATTAGATTGTTTATGTTTTTTTGACTC
1 TTATTGTTATTATTATCCTACTTTTTATACTTTCGAAAATTAGATTGTTTATGTTTTTTTGACTC
889343 ACACATTTATTGTATTA
66 ACACATTTATTGTATTA
889360 TTATTGTTATTATTAT
1 TTATTGTTATTATTAT
889376 TATTATTATT
Statistics
Matches: 180, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 180 1.00
ACGTcount: A:0.26, C:0.10, G:0.08, T:0.56
Consensus pattern (82 bp):
TTATTGTTATTATTATCCTACTTTTTATACTTTCGAAAATTAGATTGTTTATGTTTTTTTGACTC
ACACATTTATTGTATTA
Found at i:889403 original size:3 final size:3
Alignment explanation
Indices: 889355--889385 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
889345 ACATTTATTG
*
889355 TAT TAT TAT TGT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
889386 TATTTTTCCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:889499 original size:20 final size:21
Alignment explanation
Indices: 889474--889518 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
889464 TAGTACCATA
889474 ATTATTAT-AAAATCGATATT
1 ATTATTATAAAAATCGATATT
*
889494 ATTATTATAAAAATTGATATT
1 ATTATTATAAAAATCGATATT
889515 ATTA
1 ATTA
889519 CTACAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (21 bp):
ATTATTATAAAAATCGATATT
Found at i:889526 original size:21 final size:20
Alignment explanation
Indices: 889482--889534 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 20
889472 TAATTATTAT
* * *
889482 AAAATCGATATTATTATTATA
1 AAAATTGATATTATTACTA-C
889503 AAAATTGATATTATTACTAC
1 AAAATTGATATTATTACTAC
*
889523 AAAATTGGTATT
1 AAAATTGATATT
889535 CTCATTATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 11 0.39
21 17 0.61
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.42
Consensus pattern (20 bp):
AAAATTGATATTATTACTAC
Found at i:889528 original size:20 final size:21
Alignment explanation
Indices: 889474--889534 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 21
889464 TAGTACCATA
* *
889474 ATTATTAT-AAAATCGATATT
1 ATTACTATAAAAATTGATATT
*
889494 ATTATTATAAAAATTGATATT
1 ATTACTATAAAAATTGATATT
* *
889515 ATTACTA-CAAAATTGGTATT
1 ATTACTATAAAAATTGATATT
889535 CTCATTATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
20 19 0.53
21 17 0.47
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (21 bp):
ATTACTATAAAAATTGATATT
Found at i:893893 original size:26 final size:25
Alignment explanation
Indices: 893827--893893 Score: 71
Period size: 26 Copynumber: 2.6 Consensus size: 25
893817 ATTTAATCTT
*
893827 TTAAAAATTATAAATATATAATTTA
1 TTAAAAATTATAATTATATAATTTA
* * **
893852 TTAAAATAATAAAATTATATTTTTTA
1 TTAAAA-ATTATAATTATATAATTTA
893878 TTATAAAATTATAATT
1 TTA-AAAATTATAATT
893894 TAATTTCTAT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
25 6 0.18
26 24 0.73
27 3 0.09
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
TTAAAAATTATAATTATATAATTTA
Found at i:895528 original size:23 final size:23
Alignment explanation
Indices: 895498--895558 Score: 90
Period size: 22 Copynumber: 2.7 Consensus size: 23
895488 GCCCGGCCCG
895498 TTTTTAATTAAAATTAAAAAAAA
1 TTTTTAATTAAAATTAAAAAAAA
*
895521 TTTTTAA-TAAAATTAAAACAAA
1 TTTTTAATTAAAATTAAAAAAAA
*
895543 TTGTT-ATTAAAATTAA
1 TTTTTAATTAAAATTAA
895559 TTGTTAGTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
21 1 0.03
22 27 0.77
23 7 0.20
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (23 bp):
TTTTTAATTAAAATTAAAAAAAA
Found at i:895551 original size:16 final size:16
Alignment explanation
Indices: 895532--895570 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
895522 TTTTAATAAA
895532 ATTAAAACAAATTGTT
1 ATTAAAACAAATTGTT
**
895548 ATTAAAATTAATTGTT
1 ATTAAAACAAATTGTT
*
895564 AGTAAAA
1 ATTAAAA
895571 TTATCAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.51, C:0.03, G:0.08, T:0.38
Consensus pattern (16 bp):
ATTAAAACAAATTGTT
Found at i:895571 original size:16 final size:16
Alignment explanation
Indices: 895541--895573 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
895531 AATTAAAACA
*
895541 AATTGTTATTAAAATT
1 AATTGTTAGTAAAATT
895557 AATTGTTAGTAAAATT
1 AATTGTTAGTAAAATT
895573 A
1 A
895574 TCAAATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (16 bp):
AATTGTTAGTAAAATT
Found at i:895632 original size:66 final size:68
Alignment explanation
Indices: 895562--895704 Score: 236
Period size: 68 Copynumber: 2.1 Consensus size: 68
895552 AAATTAATTG
* *
895562 TTAGTAAAATTATCAAATTATTAA-T-TGTTAATTGTATTAATTGTTATAATAAAATCTAACATT
1 TTAGTAAAATTATCAAATTATTAACTGTATTAATTGTATTAATTGTTATAACAAAATCTAACATT
895625 TGA
66 TGA
* *
895628 TTAGTAAATTTATCAAATTATTAACTGTATTAATTGTATTAATTGTTGTAACAAAATCTAACATT
1 TTAGTAAAATTATCAAATTATTAACTGTATTAATTGTATTAATTGTTATAACAAAATCTAACATT
895693 TGA
66 TGA
895696 TTAGTAAAA
1 TTAGTAAAA
895705 CAAACTTGAT
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
66 23 0.33
67 1 0.01
68 46 0.66
ACGTcount: A:0.42, C:0.06, G:0.08, T:0.44
Consensus pattern (68 bp):
TTAGTAAAATTATCAAATTATTAACTGTATTAATTGTATTAATTGTTATAACAAAATCTAACATT
TGA
Found at i:897765 original size:20 final size:21
Alignment explanation
Indices: 897740--897784 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
897730 TAGTAGCATA
897740 ATTATTAT-AAAATCGATATT
1 ATTATTATAAAAATCGATATT
*
897760 ATTATTATAAAAATTGATATT
1 ATTATTATAAAAATCGATATT
897781 ATTA
1 ATTA
897785 CTACAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (21 bp):
ATTATTATAAAAATCGATATT
Found at i:897792 original size:21 final size:20
Alignment explanation
Indices: 897748--897800 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 20
897738 TAATTATTAT
* * *
897748 AAAATCGATATTATTATTATA
1 AAAATTGATATTATTACTA-C
897769 AAAATTGATATTATTACTAC
1 AAAATTGATATTATTACTAC
*
897789 AAAATTGGTATT
1 AAAATTGATATT
897801 CTCATTATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 11 0.39
21 17 0.61
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.42
Consensus pattern (20 bp):
AAAATTGATATTATTACTAC
Found at i:897794 original size:20 final size:21
Alignment explanation
Indices: 897740--897800 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 21
897730 TAGTAGCATA
* *
897740 ATTATTAT-AAAATCGATATT
1 ATTACTATAAAAATTGATATT
*
897760 ATTATTATAAAAATTGATATT
1 ATTACTATAAAAATTGATATT
* *
897781 ATTACTA-CAAAATTGGTATT
1 ATTACTATAAAAATTGATATT
897801 CTCATTATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
20 19 0.53
21 17 0.47
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (21 bp):
ATTACTATAAAAATTGATATT
Found at i:901713 original size:3 final size:3
Alignment explanation
Indices: 901705--901740 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
901695 CGGAGAACAG
*
901705 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT AAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
901741 AACGATGACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.36, C:0.00, G:0.31, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:909863 original size:6 final size:6
Alignment explanation
Indices: 909852--909877 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
909842 TAGTGATATG
909852 TACATA TACATA TACATA TACATA TA
1 TACATA TACATA TACATA TACATA TA
909878 TATGGGTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (6 bp):
TACATA
Found at i:911408 original size:30 final size:31
Alignment explanation
Indices: 911350--911428 Score: 81
Period size: 31 Copynumber: 2.5 Consensus size: 31
911340 GGTTTAAATA
911350 AAAATTTT-AAAACTTTTAGAGGACTTAATG
1 AAAATTTTCAAAACTTTTAGAGGACTTAATG
* * * * *
911380 ACAATTTTCAAAAGTTTTAGTGG-TTTAATT
1 AAAATTTTCAAAACTTTTAGAGGACTTAATG
911410 AAAATTTTTCAAAAACTTT
1 AAAA-TTTTC-AAAACTTT
911429 AAGGGGTTAA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
30 15 0.38
31 17 0.44
32 7 0.18
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.42
Consensus pattern (31 bp):
AAAATTTTCAAAACTTTTAGAGGACTTAATG
Found at i:911439 original size:31 final size:29
Alignment explanation
Indices: 911315--911447 Score: 83
Period size: 30 Copynumber: 4.4 Consensus size: 29
911305 TTTAGGGTAC
**
911315 TAATTAAAA-TTTCAAAAAAATTAAGGGTT
1 TAATTAAAATTTTC-AAAACTTTAAGGGTT
* **
911344 TAAATAAAAATTTT-AAAACTTTTAGAGGACT
1 T-AATTAAAATTTTCAAAAC-TTTA-AGGGTT
* * * *
911375 TAATGACAATTTTCAAAAGTTTTAGTGGTT
1 TAATTAAAATTTTCAAAACTTTAAG-GGTT
*
911405 TAATTAAAATTTTTCAAAAACTTTAAGGGGT
1 TAATTAAAA-TTTTC-AAAACTTTAAGGGTT
911436 TAA-TAAGAATTT
1 TAATTAA-AATTT
911448 CTAAAATTTT
Statistics
Matches: 79, Mismatches: 16, Indels: 17
0.71 0.14 0.15
Matches are distributed among these distances:
29 7 0.09
30 38 0.48
31 25 0.32
32 9 0.11
ACGTcount: A:0.44, C:0.05, G:0.12, T:0.38
Consensus pattern (29 bp):
TAATTAAAATTTTCAAAACTTTAAGGGTT
Found at i:911478 original size:92 final size:90
Alignment explanation
Indices: 911315--911489 Score: 196
Period size: 92 Copynumber: 1.9 Consensus size: 90
911305 TTTAGGGTAC
* *
911315 TAATTAAAATTTCAAAAAAATTAAGGGTTTAAATAAAAATTTTAAAACTTTTAGAGGACTTAATG
1 TAATTAAAATTTCAAAAAAATTAAGGGGTTAAATAAAAATTTTAAAACTTTTAGAAGACTTAATG
*
911380 ACAATTTTCA-AAAGTTTTAGTGGTT
66 AAAATTTTCATAAA-TTTTAGTGGTT
** * *
911405 TAATTAAAATTTTTCAAAAACTTTAAGGGGTT-AATAAGAATTTCTAAAA-TTTTTGAAAGACTT
1 TAATTAAAA--TTTCAAAAAAATTAAGGGGTTAAATAAAAATTT-TAAAACTTTTAG-AAGACTT
*
911468 AGCT-AAAATTTTCATAAATTTT
62 A-ATGAAAATTTTCATAAATTTT
911490 GAAGAGCTTA
Statistics
Matches: 71, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
90 9 0.13
91 15 0.21
92 43 0.61
93 4 0.06
ACGTcount: A:0.43, C:0.06, G:0.11, T:0.39
Consensus pattern (90 bp):
TAATTAAAATTTCAAAAAAATTAAGGGGTTAAATAAAAATTTTAAAACTTTTAGAAGACTTAATG
AAAATTTTCATAAATTTTAGTGGTT
Found at i:913767 original size:18 final size:16
Alignment explanation
Indices: 913738--913783 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
913728 ACAAAATTTG
*
913738 AAATGTCTCAAACATAA
1 AAATGACTCAAAC-TAA
*
913755 AAATGACCTCAAACTTA
1 AAATGA-CTCAAACTAA
913772 AAATGACTCAAA
1 AAATGACTCAAA
913784 TGATCCGAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
16 6 0.23
17 13 0.50
18 7 0.27
ACGTcount: A:0.52, C:0.20, G:0.07, T:0.22
Consensus pattern (16 bp):
AAATGACTCAAACTAA
Found at i:917056 original size:27 final size:27
Alignment explanation
Indices: 917018--917070 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
917008 AAAGTTCGGG
* *
917018 TTTGAAGTTCGAGTTTAAAATTTAGGA
1 TTTGAAATTCGAGATTAAAATTTAGGA
*
917045 TTTGAAATTCGAGATTCAAATTTAGG
1 TTTGAAATTCGAGATTAAAATTTAGG
917071 GTAAAAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.34, C:0.06, G:0.21, T:0.40
Consensus pattern (27 bp):
TTTGAAATTCGAGATTAAAATTTAGGA
Found at i:927067 original size:19 final size:19
Alignment explanation
Indices: 927045--927082 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
927035 TATATGTATA
*
927045 GGTAAAAGTACTATGGATG
1 GGTAAAAATACTATGGATG
927064 GGTAAAAATACTATGGATG
1 GGTAAAAATACTATGGATG
927083 TTATTGTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.39, C:0.05, G:0.29, T:0.26
Consensus pattern (19 bp):
GGTAAAAATACTATGGATG
Found at i:932216 original size:11 final size:11
Alignment explanation
Indices: 932200--932233 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
932190 ATAAATATTT
*
932200 AAAATTTTATA
1 AAAATTTTAAA
932211 AAAATTTTAAA
1 AAAATTTTAAA
932222 AAAATTATTAAA
1 AAAATT-TTAAA
932234 CCGATTCAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 16 0.76
12 5 0.24
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AAAATTTTAAA
Found at i:938192 original size:98 final size:99
Alignment explanation
Indices: 938023--938219 Score: 387
Period size: 98 Copynumber: 2.0 Consensus size: 99
938013 AAAAGACTAA
938023 CTTAAGCTCATTTTAAGTCCGCCCATATTATTTTTTAAAAATATTTATTTTATTTTATCTTAATA
1 CTTAAGCTCATTTTAAGTCCGCCCATATTATTTTTTAAAAATATTTATTTTATTTTATCTTAATA
938088 TTTAATTATTTTATATATTTTTT-TTGAAATTTT
66 TTTAATTATTTTATATATTTTTTATTGAAATTTT
938121 CTTAAGCTCATTTTAAGTCCGCCCATATTATTTTTTAAAAATATTTATTTTATTTTATCTTAATA
1 CTTAAGCTCATTTTAAGTCCGCCCATATTATTTTTTAAAAATATTTATTTTATTTTATCTTAATA
938186 TTTAATTATTTTATATATTTTTTATTGAAATTTT
66 TTTAATTATTTTATATATTTTTTATTGAAATTTT
938220 TTATATAATC
Statistics
Matches: 98, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
98 88 0.90
99 10 0.10
ACGTcount: A:0.30, C:0.09, G:0.04, T:0.57
Consensus pattern (99 bp):
CTTAAGCTCATTTTAAGTCCGCCCATATTATTTTTTAAAAATATTTATTTTATTTTATCTTAATA
TTTAATTATTTTATATATTTTTTATTGAAATTTT
Found at i:939541 original size:22 final size:22
Alignment explanation
Indices: 939515--939556 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
939505 AGATGATTTT
*
939515 ATATAAAATTTTAATAAATAAA
1 ATATAAAATATTAATAAATAAA
* *
939537 ATATATAATATTATTAAATA
1 ATATAAAATATTAATAAATA
939557 TTAAATTAAA
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
ATATAAAATATTAATAAATAAA
Found at i:939576 original size:32 final size:32
Alignment explanation
Indices: 939536--939602 Score: 82
Period size: 32 Copynumber: 2.0 Consensus size: 32
939526 TAATAAATAA
939536 AATATATAATAT-TATTAAATATTAAATTAAAAAT
1 AATATA-AATATATATT--ATATTAAATTAAAAAT
* *
939570 AATATAAATATATATTTTTTTAAATTAAAAAT
1 AATATAAATATATATTATATTAAATTAAAAAT
939602 A
1 A
939603 TAGGTTGACC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 15 0.50
33 5 0.17
34 10 0.33
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (32 bp):
AATATAAATATATATTATATTAAATTAAAAAT
Done.