Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
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: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 152 of 170
Found at i:45375279 original size:132 final size:132
Alignment explanation
Indices: 45375037--45375955 Score: 1382
Period size: 132 Copynumber: 7.0 Consensus size: 132
45375027 CTGCAACTGC
* * *
45375037 AGGGAGATAAGA-CTTACAATCTTCAACCTATTCCACTGCTGACCAGGG-AGATAGAATTACT-G
1 AGGGAGATAAGATCTGA-AATCTTCAATCTATTCCACTGCTGCCCAGGGAAG-TAGAATTACTAG
* * * *
45375099 ACTTCAATGTACTCCACTGTAACCACAGAGAGGTAAAATCCACCATCTTCGATCTACTCCACTAC
64 -CTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTAC
45375164 TGCTT
128 TGCTT
** * *
45375169 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTATTGCCTAGGGAAGTAGAATTACTAGTT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTAGCT
* * * *
45375234 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACAATCTTCAATCTGCTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
45375299 TT
131 TT
45375301 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTAGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTAGCT
* *
45375366 TCAATGTACTCCACTATAACCAAATGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
45375431 TT
131 TT
* *
45375433 AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTAGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTAGCT
*
45375498 TCAATGTACTCCACTAT-ACCACAGGGAGGTAAAATCCGCTATCTTCGATCTGCTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
45375562 TT
131 TT
* * *
45375564 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGAGAAGTAGAATTATTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTAGCT
* * ** *
45375629 TCAATGTACTCCTCTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGTTTCGCTGTCAA
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTG-CTC-CACT-AC
45375694 TGC--
128 TGCTT
* ** ** * *
45375697 AGGAAGGCAAGATCTGCTATCTTTAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTAGCT
*
45375762 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
45375827 TT
131 TT
*
45375829 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTAGCT
* * *
45375894 TCAATGTACTCCACTATAACCACATGGAGGTAAAATCCGCCATCTTCAATCTGCTCGACTAC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTAC
45375956 AAACGAGGAA
Statistics
Matches: 717, Mismatches: 61, Indels: 18
0.90 0.08 0.02
Matches are distributed among these distances:
130 4 0.01
131 124 0.17
132 467 0.65
133 116 0.16
134 2 0.00
135 4 0.01
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.28
Consensus pattern (132 bp):
AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTAGCT
TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
TT
Found at i:45375907 original size:43 final size:43
Alignment explanation
Indices: 45375721--45375908 Score: 107
Period size: 44 Copynumber: 4.3 Consensus size: 43
45375711 TGCTATCTTT
*
45375721 AATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTC
1 AATCTACTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTC
* * * * * ** ***
45375764 AATGTACTCCACT-ATAACCACAGGGAGGTAAAATCCGCCATCTTC
1 AATCTACTCCACTGCT-GCC-CAGGGAAGTAGAAT-TACTGGCTTC
* * ** *
45375809 GATCTACTCCACTACTGCTTAGGG-AGATA-AGA-T-CTGAAATCTTC
1 AATCTACTCCACTGCTGCCCAGGGAAG-TAGA-ATTACTG---GCTTC
*
45375853 AATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTC
1 AATCTACTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTC
*
45375896 AATGTACTCCACT
1 AATCTACTCCACT
45375909 ATAACCACAT
Statistics
Matches: 103, Mismatches: 29, Indels: 26
0.65 0.18 0.16
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 30 0.29
44 46 0.45
45 21 0.20
46 4 0.04
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (43 bp):
AATCTACTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTC
Found at i:45377218 original size:13 final size:12
Alignment explanation
Indices: 45377202--45377235 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 12
45377192 TTCACTTTCA
45377202 TTTTTTGTTTTTG
1 TTTTTT-TTTTTG
45377215 TTTTTATTTTTTG
1 TTTTT-TTTTTTG
45377228 TTTTTTTT
1 TTTTTTTT
45377236 AATCTGAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 3 0.15
13 16 0.80
14 1 0.05
ACGTcount: A:0.03, C:0.00, G:0.09, T:0.88
Consensus pattern (12 bp):
TTTTTTTTTTTG
Found at i:45380932 original size:98 final size:98
Alignment explanation
Indices: 45380763--45380957 Score: 345
Period size: 98 Copynumber: 2.0 Consensus size: 98
45380753 ATATAATAAA
*
45380763 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATC
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
*
45380828 CCTTTAGAATCCCATACTCGGAATATTTCCTTT
66 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
* *
45380861 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
*
45380926 CCTTTAGAATCTCAAACTCGGAATATTTCCTT
66 CCTTTAGAATCCCAAACTCGGAATATTTCCTT
45380958 CATGATTTTT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.36, C:0.25, G:0.11, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
Found at i:45382038 original size:19 final size:19
Alignment explanation
Indices: 45382014--45382105 Score: 157
Period size: 19 Copynumber: 4.8 Consensus size: 19
45382004 AATCATATAT
45382014 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
45382033 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
45382052 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
45382071 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
45382090 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
45382106 CTCAAAAATT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 67 1.00
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:45382061 original size:38 final size:38
Alignment explanation
Indices: 45381991--45382105 Score: 158
Period size: 38 Copynumber: 2.9 Consensus size: 38
45381981 AAATTAAATC
*
45381991 TCTAAGATTACAAAATCATATATTCTAAGATTGCATATCATA
1 TCTAAGATTAC-ATATC--ATA-TCTAAGATTGCATATCATA
*
45382033 TCTAAGATTATATATCATATCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATATCTAAGATTGCATATCATA
* *
45382071 TCTAGGATTGCATATCATATCTAAGATTGCATATC
1 TCTAAGATTACATATCATATCTAAGATTGCATATC
45382106 CTCAAAAATT
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
38 51 0.75
39 3 0.04
41 4 0.06
42 10 0.15
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (38 bp):
TCTAAGATTACATATCATATCTAAGATTGCATATCATA
Found at i:45384423 original size:23 final size:23
Alignment explanation
Indices: 45384397--45384472 Score: 134
Period size: 23 Copynumber: 3.3 Consensus size: 23
45384387 AATAGTGCCA
45384397 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
45384420 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
45384443 CACTGAGATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
45384466 CATTGAT
1 CACTGAT
45384473 CAATAACACT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.22
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:45384724 original size:18 final size:17
Alignment explanation
Indices: 45384698--45384736 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
45384688 ATTTTCCTTC
45384698 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
45384715 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
45384733 CACA
1 CACA
45384737 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:45385935 original size:21 final size:21
Alignment explanation
Indices: 45385910--45385949 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
45385900 CCACCATGAG
* *
45385910 TAGTTAATTGGCCATGTCAGC
1 TAGTTAATGGGCCACGTCAGC
45385931 TAGTTAATGGGCCACGTCA
1 TAGTTAATGGGCCACGTCA
45385950 CTTGTCTCGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (21 bp):
TAGTTAATGGGCCACGTCAGC
Found at i:45400508 original size:18 final size:18
Alignment explanation
Indices: 45400485--45400523 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
45400475 ACGTTCTTCG
45400485 TCGGCAGAGTACTGGTTT
1 TCGGCAGAGTACTGGTTT
45400503 TCGGCAGAGTACTGGTTT
1 TCGGCAGAGTACTGGTTT
45400521 TCG
1 TCG
45400524 AGGGAAGCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.15, C:0.18, G:0.33, T:0.33
Consensus pattern (18 bp):
TCGGCAGAGTACTGGTTT
Found at i:45400627 original size:26 final size:26
Alignment explanation
Indices: 45400591--45400645 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
45400581 GGATGGGGCG
45400591 GTTCCTAGGCAAAAGGTGAGATACTT
1 GTTCCTAGGCAAAAGGTGAGATACTT
45400617 GTTCCTAGGCAAAAGGTGAGATACTT
1 GTTCCTAGGCAAAAGGTGAGATACTT
45400643 GTT
1 GTT
45400646 TAAGGAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (26 bp):
GTTCCTAGGCAAAAGGTGAGATACTT
Found at i:45409609 original size:52 final size:48
Alignment explanation
Indices: 45409590--45409890 Score: 366
Period size: 46 Copynumber: 6.3 Consensus size: 48
45409580 TGACAAGTGG
* *
45409590 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
* **
45409636 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
* *
45409684 GTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 ----AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
45409734 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
45409786 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
45409832 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
45409878 AAAGTGATAAGTG
1 AAAGTGATAAGTG
45409891 GCTACACTTA
Statistics
Matches: 226, Mismatches: 17, Indels: 24
0.85 0.06 0.09
Matches are distributed among these distances:
46 141 0.62
52 85 0.38
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:45409644 original size:98 final size:98
Alignment explanation
Indices: 45409524--45409879 Score: 640
Period size: 98 Copynumber: 3.6 Consensus size: 98
45409514 TTTGAGTACT
*
45409524 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
45409589 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
*
45409622 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
45409687 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
45409720 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
* *
45409785 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
45409818 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAA
45409880 AGTGATAAGT
Statistics
Matches: 249, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 249 1.00
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.29
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:45409898 original size:37 final size:37
Alignment explanation
Indices: 45409854--45409999 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
45409844 GATAGCTTTA
*
45409854 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
45409891 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
* *
45409928 GCTACACTTATCTGATCAAAAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
45409965 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
45410000 ATCATACGTA
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
35 11 0.11
36 3 0.03
37 88 0.86
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:45415124 original size:16 final size:16
Alignment explanation
Indices: 45415103--45415170 Score: 102
Period size: 16 Copynumber: 4.2 Consensus size: 16
45415093 TTTGGTTCGC
45415103 TGTATTGGATTAGAGA
1 TGTATTGGATTAGAGA
45415119 TGTATTGGATTAGA-A
1 TGTATTGGATTAGAGA
*
45415134 GTGTATTGGATTAGAGG
1 -TGTATTGGATTAGAGA
*
45415151 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGA
45415167 TGTA
1 TGTA
45415171 ATAGCAAATC
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
15 1 0.02
16 48 0.98
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGA
Found at i:45415142 original size:32 final size:32
Alignment explanation
Indices: 45415103--45415170 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
45415093 TTTGGTTCGC
45415103 TGTATTGGATTAGAGATGTATTGGATTAGAAG
1 TGTATTGGATTAGAGATGTATTGGATTAGAAG
* *
45415135 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGATGTATTGGATTAGAAG
45415167 TGTA
1 TGTA
45415171 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGATGTATTGGATTAGAAG
Found at i:45424590 original size:16 final size:17
Alignment explanation
Indices: 45424569--45424618 Score: 57
Period size: 16 Copynumber: 2.9 Consensus size: 17
45424559 TTAAAATTGA
45424569 TATAAATTTATAAAA-T
1 TATAAATTTATAAAACT
* *
45424585 TATAAAATAATAATAACT
1 TATAAATTTATAA-AACT
45424603 TATAAATATTATAAAA
1 TATAAAT-TTATAAAA
45424619 ATAATAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
16 11 0.41
17 2 0.07
18 9 0.33
19 5 0.19
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (17 bp):
TATAAATTTATAAAACT
Found at i:45424636 original size:28 final size:26
Alignment explanation
Indices: 45424576--45424667 Score: 98
Period size: 28 Copynumber: 3.4 Consensus size: 26
45424566 TGATATAAAT
*
45424576 TTATAAAATTAT-AAAATAATAATAAC
1 TTATAAAATTATAAAAATAATAA-AAA
45424602 TTATAAATATTATAAAAATAATAAAAA
1 TTATAAA-ATTATAAAAATAATAAAAA
* *
45424629 TTAGT-AAATTTTAATAAATTATAAAAAA
1 TTA-TAAAATTATAA-AAATAAT-AAAAA
45424657 TTATAAAATTA
1 TTATAAAATTA
45424668 ATTTTATAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
26 13 0.23
27 19 0.34
28 24 0.43
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.37
Consensus pattern (26 bp):
TTATAAAATTATAAAAATAATAAAAA
Found at i:45424692 original size:22 final size:23
Alignment explanation
Indices: 45424647--45424732 Score: 67
Period size: 24 Copynumber: 3.8 Consensus size: 23
45424637 TTTTAATAAA
45424647 TTATAAAAAATTATAAAATTAATT
1 TTATAAAAAATTATAAAA-TAATT
45424671 TTATAAAAACA-TATAAAA-AATT
1 TTATAAAAA-ATTATAAAATAATT
*
45424693 TTA-AAAACGAATCATAAAA-AA--
1 TTATAAAA--AATTATAAAATAATT
**
45424714 TTATTGAAAATTATAAAAT
1 TTATAAAAAATTATAAAAT
45424733 GATTAAAAGT
Statistics
Matches: 52, Mismatches: 4, Indels: 15
0.73 0.06 0.21
Matches are distributed among these distances:
20 9 0.17
21 7 0.13
22 10 0.19
23 9 0.17
24 16 0.31
25 1 0.02
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.34
Consensus pattern (23 bp):
TTATAAAAAATTATAAAATAATT
Found at i:45424762 original size:11 final size:10
Alignment explanation
Indices: 45424634--45424793 Score: 87
Period size: 10 Copynumber: 15.4 Consensus size: 10
45424624 AAAAATTAGT
* *
45424634 AAATTTTAAT
1 AAATTATAAA
45424644 AAATTATAAA
1 AAATTATAAA
45424654 AAATTATAAA
1 AAATTATAAA
45424664 ATTAATTTTATAAA
1 A--AA--TTATAAA
45424678 AACA-TATAAA
1 AA-ATTATAAA
*
45424688 AAATTTTAAAA
1 AAATTAT-AAA
*
45424699 ACGAATCATAAA
1 A--AATTATAAA
**
45424711 AAATTATTGA
1 AAATTATAAA
45424721 AAATTAT--A
1 AAATTATAAA
* *
45424729 AAATGAT-TA
1 AAATTATAAA
* *
45424738 AAAGTATTAA
1 AAATTATAAA
45424748 AAATTAATAAA
1 AAATT-ATAAA
45424759 AAATTAT-AA
1 AAATTATAAA
45424768 AAATTATAAACA
1 AAATTAT-AA-A
*
45424780 AAATCATAAA
1 AAATTATAAA
45424790 AAAT
1 AAAT
45424794 GAATTGGACC
Statistics
Matches: 120, Mismatches: 15, Indels: 30
0.73 0.09 0.18
Matches are distributed among these distances:
8 7 0.06
9 16 0.13
10 54 0.45
11 16 0.13
12 14 0.12
13 5 0.04
14 8 0.07
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (10 bp):
AAATTATAAA
Found at i:45424775 original size:9 final size:9
Alignment explanation
Indices: 45424545--45424777 Score: 89
Period size: 9 Copynumber: 24.0 Consensus size: 9
45424535 ATAAAAAATT
*
45424545 AATTATTAA
1 AATTATAAA
* *
45424554 AATTGTTAA
1 AATTATAAA
*
45424563 AATTGATATA
1 AATT-ATAAA
45424573 AATT-TATAA
1 AATTATA-AA
45424582 AATTAT-AA
1 AATTATAAA
*
45424590 AATAATAATA
1 AATTATAA-A
*
45424600 ACTTATAAA
1 AATTATAAA
*
45424609 TATTATAAA
1 AATTATAAA
*
45424618 AATAATAAA
1 AATTATAAA
45424627 AATTAGT--A
1 AATTA-TAAA
*
45424635 AATTTTAATA
1 AATTATAA-A
45424645 AATTATAAAA
1 AATTAT-AAA
45424655 AATTATAAAA
1 AATTAT-AAA
45424665 TTAATTTTATAAA
1 --AA--TTATAAA
*
45424678 AACATATAAAA
1 AA-TTAT-AAA
*
45424689 AATTTTAAAAA
1 AA--TTATAAA
*
45424700 CGAATCATAAAA
1 --AATTAT-AAA
*
45424712 AATTATTGAA
1 AATTA-TAAA
45424722 AATTAT-AA
1 AATTATAAA
* *
45424730 AATGATTAA
1 AATTATAAA
*
45424739 AAGTATTAAA
1 AATTA-TAAA
45424749 AATTAATAAAA
1 AATT-AT-AAA
45424760 AATTATAAA
1 AATTATAAA
45424769 AATTATAAA
1 AATTATAAA
45424778 CAAAATCATA
Statistics
Matches: 171, Mismatches: 29, Indels: 48
0.69 0.12 0.19
Matches are distributed among these distances:
7 1 0.01
8 21 0.12
9 55 0.32
10 55 0.32
11 23 0.13
12 7 0.04
13 5 0.03
14 4 0.02
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (9 bp):
AATTATAAA
Found at i:45431417 original size:25 final size:23
Alignment explanation
Indices: 45431373--45431419 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
45431363 ATTATATATT
*
45431373 AAATATATATTTTATTTTTAATC
1 AAATATATATTTTATATTTAATC
45431396 AAATATATATTATATATATTTAAT
1 AAATATATATT-T-TATATTTAAT
45431420 TTGGGCCGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 11 0.52
24 1 0.05
25 9 0.43
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
AAATATATATTTTATATTTAATC
Found at i:45431935 original size:22 final size:22
Alignment explanation
Indices: 45431909--45431957 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
45431899 ATATCTAAAC
45431909 AATAACAGTAAAATAGTAGCAA
1 AATAACAGTAAAATAGTAGCAA
* * *
45431931 CATAATAGTGAAATAGTAGCAA
1 AATAACAGTAAAATAGTAGCAA
45431953 AATAA
1 AATAA
45431958 GAAGAAAACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.57, C:0.08, G:0.14, T:0.20
Consensus pattern (22 bp):
AATAACAGTAAAATAGTAGCAA
Found at i:45433375 original size:16 final size:16
Alignment explanation
Indices: 45433353--45433399 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
45433343 CACTGGAATA
45433353 GAATAGAGTTGTAATG
1 GAATAGAGTTGTAATG
* *
45433369 TAATAGAGATGTAATG
1 GAATAGAGTTGTAATG
45433385 GAATA-ACGTTGTAAT
1 GAATAGA-GTTGTAAT
45433400 CAGTAATCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
15 1 0.04
16 25 0.96
ACGTcount: A:0.40, C:0.02, G:0.26, T:0.32
Consensus pattern (16 bp):
GAATAGAGTTGTAATG
Found at i:45434039 original size:3 final size:3
Alignment explanation
Indices: 45434031--45434059 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
45434021 TCTGACTCCA
45434031 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
45434060 AAATTTTATG
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):
TAT
Found at i:45437786 original size:6 final size:6
Alignment explanation
Indices: 45437775--45437802 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
45437765 TGTCAAAGAT
45437775 ATATAC ATATAC ATATAC ATATAC ATAT
1 ATATAC ATATAC ATATAC ATATAC ATAT
45437803 TTGGTCATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (6 bp):
ATATAC
Found at i:45439783 original size:7 final size:7
Alignment explanation
Indices: 45439771--45439797 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
45439761 AACAAAATGC
45439771 ATTTTAT
1 ATTTTAT
45439778 ATTTTAT
1 ATTTTAT
45439785 ATTTTAT
1 ATTTTAT
45439792 ATTTTA
1 ATTTTA
45439798 AAAATATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (7 bp):
ATTTTAT
Found at i:45442094 original size:18 final size:18
Alignment explanation
Indices: 45442071--45442105 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
45442061 ACTCTGTAAT
45442071 TAGTTTAAATTTAATTTC
1 TAGTTTAAATTTAATTTC
45442089 TAGTTTAAATTTAATTT
1 TAGTTTAAATTTAATTT
45442106 TTAAATTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (18 bp):
TAGTTTAAATTTAATTTC
Found at i:45442136 original size:23 final size:23
Alignment explanation
Indices: 45442110--45442184 Score: 96
Period size: 23 Copynumber: 3.3 Consensus size: 23
45442100 TAATTTTTAA
*
45442110 ATTTTGAATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
* * *
45442133 ATTTAGGATTGTTTAGCGATAAT
1 ATTTAGAATTATTTAGTGATAAT
* *
45442156 ATTTAGTATTTTTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
45442179 ATTTAG
1 ATTTAG
45442185 GAAAAATCTA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.32, C:0.01, G:0.16, T:0.51
Consensus pattern (23 bp):
ATTTAGAATTATTTAGTGATAAT
Found at i:45442137 original size:13 final size:13
Alignment explanation
Indices: 45442119--45442184 Score: 63
Period size: 13 Copynumber: 5.5 Consensus size: 13
45442109 AATTTTGAAT
45442119 TATTTAGTGATAA
1 TATTTAGTGATAA
45442132 TATTTAG-GAT--
1 TATTTAGTGATAA
* *
45442142 TGTTTAGCGATAA
1 TATTTAGTGATAA
45442155 TATTTAGT-AT--
1 TATTTAGTGATAA
*
45442165 TTTTTAGTGATAA
1 TATTTAGTGATAA
45442178 TATTTAG
1 TATTTAG
45442185 GAAAAATCTA
Statistics
Matches: 42, Mismatches: 5, Indels: 12
0.71 0.08 0.20
Matches are distributed among these distances:
10 13 0.31
11 5 0.12
12 5 0.12
13 19 0.45
ACGTcount: A:0.32, C:0.02, G:0.17, T:0.50
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:45444202 original size:227 final size:225
Alignment explanation
Indices: 45443800--45444396 Score: 867
Period size: 227 Copynumber: 2.6 Consensus size: 225
45443790 CCTGAAGAAC
* *
45443800 TAGTGGCGTTTCTAAAAAAACACCGTAAAAGAACATAATTAGTGGCGTTTA-TTGTAAGCGCCGC
1 TAGTGGCGTTTTTAAAAAAACACCGTAAAAGAACATAATTAGTGGCGTTTATTTGTATGCGCCGC
* * * *
45443864 AAAATACCTTAACCAAAACGCAGCG-TTGGTTCAATTGTATATTAGAATAAGTGGCATTTTTTTA
66 AAAATACCTTAACCAAAACGCAGCGTTTGGTTCAGTTGTATATTAGAAT-TGTGGC-GTTTTCTA
45443928 TAAAAACGCCGCTAAAGAATAGTATTAGCGGCGTTTAACAAAAAGCGCCGCAAATATCTTAAGGA
129 T-AAAACGCCGC-AAAGAATAGTATTAGCGGCGTTTAACAAAAAGCGCCGCAAATATCTTAAGGA
*
45443993 AAACGCACTGTTTTATCTTGAGGTAGATTAATAT
192 AAACGCACTGTTTCATCTTGAGGTAGATTAATAT
* * *
45444027 TAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGGATGCGCCAC
1 TAGTGGCGTTTTTAAAAAAACACCGTAAAAGAACATAATTAGTGGCGTTTATTTGTATGCGCCGC
*
45444092 AAAATACCTTAACCAAAACGCAACGTTTGGTTCAGTTGTATATTAGACATTGTGGCGTTTTCTAT
66 AAAATACCTTAACCAAAACGCAGCGTTTGGTTCAGTTGTATATTAGA-ATTGTGGCGTTTTCTAT
* * ** *
45444157 AAAACGCCGCAGAAGAATAGTATTCGCGGCGTTT-TCGGTAAAGCGCCGCAAATATCTTAATGAA
130 AAAACGCCGCA-AAGAATAGTATTAGCGGCGTTTAAC-AAAAAGCGCCGCAAATATCTTAAGGAA
* *
45444221 AACGCACTGTTTCGTCTTGAGGTAGATTAGTAT
193 AACGCACTGTTTCATCTTGAGGTAGATTAATAT
* *
45444254 TAGTGGCGTTTTTAAAAAAACACCGTAAAAGAACATAATTAGTGGCGTTTATTTTTATTCGCCGC
1 TAGTGGCGTTTTTAAAAAAACACCGTAAAAGAACATAATTAGTGGCGTTTATTTGTATGCGCCGC
** ** * *
45444319 AAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATTAGAATTAGTGGCGTTTACGAT
66 AAAATACCTTAACCAAAACGCAGCGTTTGGTTCAGTTGTATATTAGAATT-GTGGCGTTTTCTAT
45444384 AAAACGCCGCAAA
130 AAAACGCCGCAAA
45444397 CATCTTAACG
Statistics
Matches: 334, Mismatches: 30, Indels: 13
0.89 0.08 0.03
Matches are distributed among these distances:
226 7 0.02
227 259 0.78
228 41 0.12
229 25 0.07
230 2 0.01
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.29
Consensus pattern (225 bp):
TAGTGGCGTTTTTAAAAAAACACCGTAAAAGAACATAATTAGTGGCGTTTATTTGTATGCGCCGC
AAAATACCTTAACCAAAACGCAGCGTTTGGTTCAGTTGTATATTAGAATTGTGGCGTTTTCTATA
AAACGCCGCAAAGAATAGTATTAGCGGCGTTTAACAAAAAGCGCCGCAAATATCTTAAGGAAAAC
GCACTGTTTCATCTTGAGGTAGATTAATAT
Found at i:45444370 original size:114 final size:113
Alignment explanation
Indices: 45443795--45444378 Score: 499
Period size: 114 Copynumber: 5.1 Consensus size: 113
45443785 TAAAACCTGA
* * * *
45443795 AGAACTAGTGGCGTTTCTAAAAAAACACCGTAAAAGAACATAATTAGTGGCGTTTA-TTGTAAGC
1 AGAATTAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGAAAGC
** *
45443859 GCCGCAAAATACCTTAACCAAAACGCAGCG-TTGG-TTCAATTGTATATT
66 GCCGCAAAATACCTTAACCAAAACGCA-CGTTTGGTTTTGA-GGTATATT
* * * * * ****
45443907 AGAATAAGTGGCATTTTTTTATAAAAACGCCGCT-AAAGAATAGT-ATTAGCGGCGTTTAACAAA
1 AGAATTAGTGGC--GTTTTTAAAAAAACGCCG-TAAAAGAACA-TAATTAGTGGCGTTTATTTGA
* ** ** * *
45443970 AAGCGCCGC-AAATATCTTAAGGAAAACGCACTGTTTTATCTTGAGGTAGATT
62 AAGCGCCGCAAAATACCTTAACCAAAACGCAC-GTTTGGTTTTGAGGTATATT
* *
45444022 A-ATATTAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGGATG
1 AGA-ATTAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGAAAG
* ** **
45444086 CGCCACAAAATACCTTAACCAAAACGCAACGTTTGGTTCAGTTGTATATT
65 CGCCGCAAAATACCTTAACCAAAACGC-ACGTTTGGTTTTGAGGTATATT
* * * * * * **
45444136 AGACATT-GTGGCGTTTTCT-ATAAAACGCCGCAGAAGAATAGT-ATTCGCGGCGTTT-TCGGTA
1 AGA-ATTAGTGGCGTTTT-TAAAAAAACGCCGTAAAAGAACA-TAATTAGTGGCGTTTATTTG-A
* ** * * *
45444197 AAGCGCCGC-AAATATCTTAATGAAAACGCACTGTTTCGTCTTGAGGTAGATT
62 AAGCGCCGCAAAATACCTTAACCAAAACGCAC-GTTTGGTTTTGAGGTATATT
* * ** **
45444249 AGTATTAGTGGCGTTTTTAAAAAAACACCGTAAAAGAACATAATTAGTGGCGTTTATTTTTATTC
1 AGAATTAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGAAAGC
45444314 GCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATT
66 GCCGCAAAATACCTTAACCAAAACGCA-CGTTTGGTTTTGAGGTATATT
45444363 AGAATTAGTGGCGTTT
1 AGAATTAGTGGCGTTT
45444379 ACGATAAAAC
Statistics
Matches: 360, Mismatches: 88, Indels: 46
0.73 0.18 0.09
Matches are distributed among these distances:
112 19 0.05
113 122 0.34
114 180 0.50
115 37 0.10
116 2 0.01
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (113 bp):
AGAATTAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGAAAGC
GCCGCAAAATACCTTAACCAAAACGCACGTTTGGTTTTGAGGTATATT
Found at i:45444428 original size:188 final size:188
Alignment explanation
Indices: 45444184--45444578 Score: 637
Period size: 188 Copynumber: 2.1 Consensus size: 188
45444174 TAGTATTCGC
* * * * *
45444184 GGCGTTTTCGGTAAAGCGCCGCAAATATCTTAATGAAAACGCACTGTTTCGTCTTGAGGTAGATT
1 GGCGTTTACGGTAAAACGCCGCAAACATCTTAACGAAAACGCACCGTTTCGTCTTGAGGTAGATT
* ** **
45444249 AGTATTAGTGGCGTTTTTAAAAAAACACCGTAAAAGAACATAATTAGTGGCGTTTATTTTTATTC
66 AATATTAGTGGCGTTTTTAAAAAAACACCGTAAAAGAACATAATTAGTGGCGTTTATTTGGAAGC
45444314 GCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATTAGAATTAGT
131 GCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATTAGAATTAGT
* *
45444372 GGCGTTTACGATAAAACGCCGCAAACATCTTAACGAAAACGCACCGTTTGGTCTTGAGGTAGATT
1 GGCGTTTACGGTAAAACGCCGCAAACATCTTAACGAAAACGCACCGTTTCGTCTTGAGGTAGATT
*
45444437 AATATTAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGGAAGC
66 AATATTAGTGGCGTTTTTAAAAAAACACCGTAAAAGAACATAATTAGTGGCGTTTATTTGGAAGC
* * *
45444502 GCCGCAAAATGCCTTAACCAAAACGCAGTGTTTGGTTTTGATGTATATTAGAATTAGT
131 GCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATTAGAATTAGT
*
45444560 GGCGTTTATGGTAAAACGC
1 GGCGTTTACGGTAAAACGC
45444579 TGCTAAAGAA
Statistics
Matches: 189, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
188 189 1.00
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.31
Consensus pattern (188 bp):
GGCGTTTACGGTAAAACGCCGCAAACATCTTAACGAAAACGCACCGTTTCGTCTTGAGGTAGATT
AATATTAGTGGCGTTTTTAAAAAAACACCGTAAAAGAACATAATTAGTGGCGTTTATTTGGAAGC
GCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATTAGAATTAGT
Found at i:45444429 original size:74 final size:74
Alignment explanation
Indices: 45444313--45444452 Score: 203
Period size: 74 Copynumber: 1.9 Consensus size: 74
45444303 TATTTTTATT
* * *
45444313 CGCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATTAGA-ATTAGTGGCGT
1 CGCCGCAAAATA-CTTAACCAAAACGCACCGTTTGGTCTTGAGGTAGATTA-ATATTAGTGGCGT
45444377 TTACGATAAAA
64 TTACGATAAAA
*
45444388 CGCCGCAAACAT-CTTAACGAAAACGCACCGTTTGGTCTTGAGGTAGATTAATATTAGTGGCGTT
1 CGCCGCAAA-ATACTTAACCAAAACGCACCGTTTGGTCTTGAGGTAGATTAATATTAGTGGCGTT
45444452 T
65 T
45444453 TTAAAAAAAC
Statistics
Matches: 59, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
73 1 0.02
74 47 0.80
75 9 0.15
76 2 0.03
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (74 bp):
CGCCGCAAAATACTTAACCAAAACGCACCGTTTGGTCTTGAGGTAGATTAATATTAGTGGCGTTT
ACGATAAAA
Found at i:45444462 original size:74 final size:74
Alignment explanation
Indices: 45444313--45444471 Score: 196
Period size: 74 Copynumber: 2.1 Consensus size: 74
45444303 TATTTTTATT
* * *
45444313 CGCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATTAGAATTAGTGGCGTT
1 CGCCGCAAAATA-CTTAACCAAAACGCACCGTTTGGTCTTGAGGTAGATTAGAATTAGTGGCGTT
* *
45444378 TACGATAAAA
65 TACAAAAAAA
*
45444388 CGCCGCAAACAT-CTTAACGAAAACGCACCGTTTGGTCTTGAGGTAGATTA-ATATTAGTGGCGT
1 CGCCGCAAA-ATACTTAACCAAAACGCACCGTTTGGTCTTGAGGTAGATTAGA-ATTAGTGGCGT
**
45444451 TTTTAAAAAAA
64 TTACAAAAAAA
*
45444462 CGCCGTAAAA
1 CGCCGCAAAA
45444472 GAACATAATT
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
73 2 0.03
74 60 0.82
75 9 0.12
76 2 0.03
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (74 bp):
CGCCGCAAAATACTTAACCAAAACGCACCGTTTGGTCTTGAGGTAGATTAGAATTAGTGGCGTTT
ACAAAAAAA
Found at i:45444587 original size:114 final size:113
Alignment explanation
Indices: 45444388--45444605 Score: 246
Period size: 114 Copynumber: 1.9 Consensus size: 113
45444378 TACGATAAAA
*
45444388 CGCCGCAAACATCTTAACGAAAACGCACCGTTTGGTCTTGAGGTAGATTAATATTAGTGGCGTTT
1 CGCCGCAAACATCTTAACCAAAACGCACCGTTTGGTCTTGAGGTAGATTAATATTAGTGGCGTTT
* *
45444453 TTAAAAAAACGCCGTAAAAGAACA-TAATTAGTGGCGTTTATTTGGAAG
66 ATAAAAAAACGCCGTAAAAGAACAGT-ATTAGCGGCGTTTATTTGGAAG
** * * *
45444501 CGCCGCAAA-ATGCCTTAACCAAAACGCAGTGTTTGGTTTTGATGTATATTAGA-ATTAGTGGCG
1 CGCCGCAAACAT--CTTAACCAAAACGCACCGTTTGGTCTTGAGGTAGATTA-ATATTAGTGGCG
*** * *
45444564 TTTATGGTAAAACGCTGCT-AAAGAATAGTATTAGCGGCGTTT
63 TTTATAAAAAAACGCCG-TAAAAGAACAGTATTAGCGGCGTTT
45444606 TCGGTAAAGC
Statistics
Matches: 87, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
112 2 0.02
113 9 0.10
114 73 0.84
115 3 0.03
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.30
Consensus pattern (113 bp):
CGCCGCAAACATCTTAACCAAAACGCACCGTTTGGTCTTGAGGTAGATTAATATTAGTGGCGTTT
ATAAAAAAACGCCGTAAAAGAACAGTATTAGCGGCGTTTATTTGGAAG
Found at i:45444980 original size:52 final size:52
Alignment explanation
Indices: 45444923--45445021 Score: 126
Period size: 52 Copynumber: 1.9 Consensus size: 52
45444913 GAGGTACAAT
* * * *
45444923 TTTAAGTTTTATAGATTATGGATTAGGGATTCTGGTTTAAGGGTTAATGTGA
1 TTTAAGGTTTATAGATTAGGGATTAGGGATTATGGGTTAAGGGTTAATGTGA
* * * *
45444975 TTTAAGGTTTATGGATTAGGGGTTAGGGGTTATGGGTTAGGGGTTAA
1 TTTAAGGTTTATAGATTAGGGATTAGGGATTATGGGTTAAGGGTTAA
45445022 GGGTTAGATG
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
52 39 1.00
ACGTcount: A:0.24, C:0.01, G:0.33, T:0.41
Consensus pattern (52 bp):
TTTAAGGTTTATAGATTAGGGATTAGGGATTATGGGTTAAGGGTTAATGTGA
Found at i:45445000 original size:7 final size:7
Alignment explanation
Indices: 45444990--45445028 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
45444980 GGTTTATGGA
45444990 TTAGGGG
1 TTAGGGG
45444997 TTAGGGG
1 TTAGGGG
*
45445004 TTATGGG
1 TTAGGGG
45445011 TTAGGGG
1 TTAGGGG
*
45445018 TTAAGGG
1 TTAGGGG
45445025 TTAG
1 TTAG
45445029 ATGTTAAGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.18, C:0.00, G:0.49, T:0.33
Consensus pattern (7 bp):
TTAGGGG
Found at i:45445034 original size:14 final size:14
Alignment explanation
Indices: 45444994--45445041 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
45444984 TATGGATTAG
* *
45444994 GGGTTAGGGGTTAT
1 GGGTTAGAGGTTAA
*
45445008 GGGTTAGGGGTTAA
1 GGGTTAGAGGTTAA
*
45445022 GGGTTAGATGTTAA
1 GGGTTAGAGGTTAA
*
45445036 GAGTTA
1 GGGTTA
45445042 TGGTTTAGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.23, C:0.00, G:0.44, T:0.33
Consensus pattern (14 bp):
GGGTTAGAGGTTAA
Found at i:45445034 original size:21 final size:21
Alignment explanation
Indices: 45444976--45445027 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
45444966 TTAATGTGAT
* *
45444976 TTAAGGTTTATGGATTAGGGG
1 TTAAGGGTTATGGGTTAGGGG
*
45444997 TTAGGGGTTATGGGTTAGGGG
1 TTAAGGGTTATGGGTTAGGGG
45445018 TTAAGGGTTA
1 TTAAGGGTTA
45445028 GATGTTAAGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.21, C:0.00, G:0.42, T:0.37
Consensus pattern (21 bp):
TTAAGGGTTATGGGTTAGGGG
Found at i:45445099 original size:7 final size:7
Alignment explanation
Indices: 45445087--45445183 Score: 88
Period size: 7 Copynumber: 13.9 Consensus size: 7
45445077 TAAATAAGTT
45445087 TTAGGGG
1 TTAGGGG
45445094 TTAGGGG
1 TTAGGGG
* *
45445101 TTAGAGA
1 TTAGGGG
* *
45445108 TCATGGG
1 TTAGGGG
*
45445115 TTAAGGGT
1 TT-AGGGG
45445123 TTA-GGG
1 TTAGGGG
*
45445129 TTAAGGG
1 TTAGGGG
*
45445136 TTAAGGG
1 TTAGGGG
*
45445143 TTAAGGG
1 TTAGGGG
*
45445150 TTAGGAG
1 TTAGGGG
*
45445157 TTAAGGG
1 TTAGGGG
45445164 TTAGGGG
1 TTAGGGG
45445171 TTAGGGG
1 TTAGGGG
45445178 TTAGGG
1 TTAGGG
45445184 ATTGGGTTAT
Statistics
Matches: 73, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
6 5 0.07
7 63 0.86
8 5 0.07
ACGTcount: A:0.23, C:0.01, G:0.46, T:0.30
Consensus pattern (7 bp):
TTAGGGG
Found at i:45445129 original size:14 final size:13
Alignment explanation
Indices: 45445112--45445183 Score: 99
Period size: 14 Copynumber: 5.2 Consensus size: 13
45445102 TAGAGATCAT
45445112 GGGTTAAGGGTTTA
1 GGGTTAAGGG-TTA
45445126 GGGTTAAGGGTTAA
1 GGGTTAAGGGTT-A
45445140 GGGTTAAGGGTTA
1 GGGTTAAGGGTTA
45445153 GGAGTTAAGGGTTA
1 GG-GTTAAGGGTTA
*
45445167 GGGGTTAGGGGTTA
1 -GGGTTAAGGGTTA
45445181 GGG
1 GGG
45445184 ATTGGGTTAT
Statistics
Matches: 54, Mismatches: 1, Indels: 7
0.87 0.02 0.11
Matches are distributed among these distances:
13 8 0.15
14 44 0.81
15 2 0.04
ACGTcount: A:0.22, C:0.00, G:0.49, T:0.29
Consensus pattern (13 bp):
GGGTTAAGGGTTA
Found at i:45445136 original size:21 final size:21
Alignment explanation
Indices: 45445112--45445207 Score: 94
Period size: 21 Copynumber: 4.7 Consensus size: 21
45445102 TAGAGATCAT
45445112 GGGTTAAGGGTTTAGGGTTAA
1 GGGTTAAGGGTTTAGGGTTAA
*
45445133 GGGTTAAGGGTTAAGGGTT-A
1 GGGTTAAGGGTTTAGGGTTAA
*
45445153 GGAGTTAAGGG-TTAGGGGTTAG
1 GG-GTTAAGGGTTTA-GGGTTAA
* *
45445175 GGGTT-AGGGATT-GGGTTAT
1 GGGTTAAGGGTTTAGGGTTAA
*
45445194 GGTTTAA-GGTTTAG
1 GGGTTAAGGGTTTAG
45445208 ATTAATTAGT
Statistics
Matches: 63, Mismatches: 6, Indels: 13
0.77 0.07 0.16
Matches are distributed among these distances:
19 14 0.22
20 11 0.17
21 36 0.57
22 2 0.03
ACGTcount: A:0.22, C:0.00, G:0.45, T:0.33
Consensus pattern (21 bp):
GGGTTAAGGGTTTAGGGTTAA
Found at i:45445341 original size:95 final size:96
Alignment explanation
Indices: 45445150--45445338 Score: 220
Period size: 95 Copynumber: 2.0 Consensus size: 96
45445140 GGGTTAAGGG
* * * *
45445150 TTAGGAGTTAAGGGTTAGGGGTTAGGGGTTAGGGATTGGGTTATGGTTTAAGGTTTAGATTAATT
1 TTAGGAGTTAAGGGTTAGGGGTTAGGGGTTAGGGATCGGGTTAGGGATTAAGATTTAGATTAATT
* * * * *
45445215 AGTGTTTTTTATTTTATATATTAAATAAAGT
66 AGTCTTATTTAATTAACATATTAAATAAAGT
* * * * *
45445246 TTAGGGGTTAGGGGTTA-GGGTTATGGGTT-TGGAGTCGGGTTAGGGATTAAGATTTGGATTAAT
1 TTAGGAGTTAAGGGTTAGGGGTTAGGGGTTAGGGA-TCGGGTTAGGGATTAAGATTTAGATTAAT
45445309 TAGTACTTATTTAATTAACATATTAAATAA
65 TAGT-CTTATTTAATTAACATATTAAATAA
45445339 GTTCTTTATA
Statistics
Matches: 77, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
94 3 0.04
95 39 0.51
96 35 0.45
ACGTcount: A:0.28, C:0.02, G:0.29, T:0.41
Consensus pattern (96 bp):
TTAGGAGTTAAGGGTTAGGGGTTAGGGGTTAGGGATCGGGTTAGGGATTAAGATTTAGATTAATT
AGTCTTATTTAATTAACATATTAAATAAAGT
Found at i:45445428 original size:14 final size:14
Alignment explanation
Indices: 45445409--45445435 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
45445399 GATATGCAAT
45445409 ATATAATAATTTGA
1 ATATAATAATTTGA
45445423 ATATAATAATTTG
1 ATATAATAATTTG
45445436 GAATTGTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.44
Consensus pattern (14 bp):
ATATAATAATTTGA
Found at i:45445475 original size:20 final size:20
Alignment explanation
Indices: 45445437--45445477 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
45445427 AATAATTTGG
**
45445437 AATTGTAAAAATTGTAAAAA
1 AATTGTAAAAATTACAAAAA
*
45445457 AATTGTCAAAATTACAAAAA
1 AATTGTAAAAATTACAAAAA
45445477 A
1 A
45445478 TAAAATGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.61, C:0.05, G:0.07, T:0.27
Consensus pattern (20 bp):
AATTGTAAAAATTACAAAAA
Found at i:45445519 original size:18 final size:18
Alignment explanation
Indices: 45445472--45445512 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
45445462 TCAAAATTAC
45445472 AAAAAATAAAATGAAAAT
1 AAAAAATAAAATGAAAAT
*
45445490 AAAAAATAAAAAG-AAAT
1 AAAAAATAAAATGAAAAT
45445507 AAAAAA
1 AAAAAA
45445513 ACTAAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 10 0.45
18 12 0.55
ACGTcount: A:0.83, C:0.00, G:0.05, T:0.12
Consensus pattern (18 bp):
AAAAAATAAAATGAAAAT
Found at i:45446314 original size:198 final size:198
Alignment explanation
Indices: 45445968--45446359 Score: 608
Period size: 198 Copynumber: 2.0 Consensus size: 198
45445958 ATTCATTTTA
*
45445968 AGAAATTGTTTACGAAAACGGCACCGTTTTCTTATTTATCTTTAGTGGCGCTTTTAGTACACGCC
1 AGAAATTGTTTACGAAAACGGCACCGTTTTCTTATTTATCTTTAGTGGCGCTTTTAGTAAACGCC
* * * * ** *
45446033 GCAAAATTATTTTAATTTTTATGGAGACGATGCCGTTTTGTCTAAAACGCCATGAGTTTTAGTTT
66 GCAAAAATATTTTAATTTTTATGGAGACGATGCCGTTTTCTCTAAAACGCAATGACTTAGAGTTA
45446098 ACTAATCGGGGAACGACAGCGTTTGATCATATTACTAGTGGCGCTAGTATATAAACGCCGCAAAG
131 ACTAATCGGGGAACGACAGCGTTTGATCATATTACTAGTGGCGCTAGTATATAAACGCCGCAAAG
45446163 TAC
196 TAC
* * **
45446166 AGAAATTGTTTAGGAAAATGGCTTCGTTTTCTTATTTA-CTTTTAGTGGCGCTTTTAGTAAACGC
1 AGAAATTGTTTACGAAAACGGCACCGTTTTCTTATTTATC-TTTAGTGGCGCTTTTAGTAAACGC
*
45446230 CGCAAAAATGTTTTAATTTTTATGGAGACGATGCCGTTTTCTCTAAAACGCAATGACTTAGAGTT
65 CGCAAAAATATTTTAATTTTTATGGAGACGATGCCGTTTTCTCTAAAACGCAATGACTTAGAGTT
* * *
45446295 AACTGATC-GGGAGACGACAGCGTTTGATCATATTACTAGTGGCGCTGGTATATAAACGTCGCAA
130 AACTAATCGGGGA-ACGACAGCGTTTGATCATATTACTAGTGGCGCTAGTATATAAACGCCGCAA
45446359 A
194 A
45446360 TAGGTTAATT
Statistics
Matches: 176, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
197 5 0.03
198 171 0.97
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.34
Consensus pattern (198 bp):
AGAAATTGTTTACGAAAACGGCACCGTTTTCTTATTTATCTTTAGTGGCGCTTTTAGTAAACGCC
GCAAAAATATTTTAATTTTTATGGAGACGATGCCGTTTTCTCTAAAACGCAATGACTTAGAGTTA
ACTAATCGGGGAACGACAGCGTTTGATCATATTACTAGTGGCGCTAGTATATAAACGCCGCAAAG
TAC
Found at i:45446874 original size:10 final size:10
Alignment explanation
Indices: 45446859--45446883 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
45446849 TCGAAAATTG
45446859 CAAAATTGTT
1 CAAAATTGTT
45446869 CAAAATTGTT
1 CAAAATTGTT
45446879 CAAAA
1 CAAAA
45446884 CCATGTCGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.12, G:0.08, T:0.32
Consensus pattern (10 bp):
CAAAATTGTT
Found at i:45447695 original size:7 final size:7
Alignment explanation
Indices: 45447683--45447762 Score: 88
Period size: 7 Copynumber: 11.3 Consensus size: 7
45447673 TGTTTCTTTA
45447683 TTTTCTG
1 TTTTCTG
45447690 TTTTCTG
1 TTTTCTG
45447697 TTTTCTG
1 TTTTCTG
*
45447704 TTTTTTG
1 TTTTCTG
** *
45447711 CATTATG
1 TTTTCTG
45447718 TTTTCTG
1 TTTTCTG
*
45447725 TTTTCTA
1 TTTTCTG
*
45447732 TTTTTTG
1 TTTTCTG
45447739 TTTTCTG
1 TTTTCTG
*
45447746 TTTTGCTA
1 TTTT-CTG
45447754 TTTTCTG
1 TTTTCTG
45447761 TT
1 TT
45447763 GAATGAAGTG
Statistics
Matches: 59, Mismatches: 13, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
7 53 0.90
8 6 0.10
ACGTcount: A:0.05, C:0.11, G:0.12, T:0.71
Consensus pattern (7 bp):
TTTTCTG
Found at i:45448239 original size:100 final size:100
Alignment explanation
Indices: 45448120--45449226 Score: 2004
Period size: 100 Copynumber: 11.1 Consensus size: 100
45448110 TTAATATTAA
*
45448120 AAATATATATATGTTAATATTTTTACAATATAATTTAACTTATTACTAATACATATATTGTTCGA
1 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
*
45448185 ATATAATTTTTTAAAATTTAAATATTACATGACTT
66 ATATAATTTTTTAAAATTTATATATTACATGACTT
45448220 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
1 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
* *
45448285 ATATAATTTTTCAAAATTTATATGTTACATGACTT
66 ATATAATTTTTTAAAATTTATATATTACATGACTT
45448320 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
1 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
45448385 ATATAATTTTTTAAAATTTATATATTACATGACTT
66 ATATAATTTTTTAAAATTTATATATTACATGACTT
45448420 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
1 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
* *
45448485 ATATAA-TTTTTAAAATTTATATCTTATATGACTT
66 ATATAATTTTTTAAAATTTATATATTACATGACTT
45448519 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
1 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
* * *
45448584 ATATAATTTTTCAAAATTTATATGTTACATTACTT
66 ATATAATTTTTTAAAATTTATATATTACATGACTT
*
45448619 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCTA
1 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
45448684 ATATAATTTTTTAAAATTTATATATTACATGACTT
66 ATATAATTTTTTAAAATTTATATATTACATGACTT
45448719 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
1 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
45448784 ATATAATTTTTTAAAATTTATATATTACATGACTT
66 ATATAATTTTTTAAAATTTATATATTACATGACTT
45448819 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
1 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
* * *
45448884 ATATAATTTTTCAAAATTTATATGTTACATTACTT
66 ATATAATTTTTTAAAATTTATATATTACATGACTT
45448919 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
1 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
*
45448984 ATATACTTTTTTAAAATTTATATATTACATGACTT
66 ATATAATTTTTTAAAATTTATATATTACATGACTT
45449019 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
1 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
* * *
45449084 ATATAATTTTTCAAAATTTATATGTTACATTACTT
66 ATATAATTTTTTAAAATTTATATATTACATGACTT
45449119 -AA-ATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
1 AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
** * *
45449182 ATATCGTTTTTCAAAATTTATATATTACATTACTT
66 ATATAATTTTTTAAAATTTATATATTACATGACTT
45449217 AAATATATAT
1 AAATATATAT
45449227 TTTTAAGTAT
Statistics
Matches: 973, Mismatches: 31, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
98 93 0.10
99 101 0.10
100 779 0.80
ACGTcount: A:0.40, C:0.08, G:0.04, T:0.49
Consensus pattern (100 bp):
AAATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGA
ATATAATTTTTTAAAATTTATATATTACATGACTT
Found at i:45448960 original size:41 final size:41
Alignment explanation
Indices: 45448915--45449060 Score: 112
Period size: 47 Copynumber: 3.1 Consensus size: 41
45448905 ATGTTACATT
45448915 ACTTAAATATATATATGTTAATATTTTTACAATTTAATTTA
1 ACTTAAATATATATATGTTAATATTTTTACAATTTAATTTA
* *
45448956 ACTTATTACTAATACATATATTGTTCGAATATACTTTTTTAAAATTTATATATTACA
1 AC---TTA--AATATATATA-TGTT---A-ATA--TTTTTACAATTTA-AT-TT--A
45449013 TGACTTAAATATATATATGTTAATATTTTTACAATTTAATTTA
1 --ACTTAAATATATATATGTTAATATTTTTACAATTTAATTTA
45449056 ACTTA
1 ACTTA
45449061 TTACTAATAC
Statistics
Matches: 83, Mismatches: 4, Indels: 36
0.67 0.03 0.29
Matches are distributed among these distances:
41 7 0.08
43 1 0.01
44 3 0.04
45 2 0.02
46 11 0.13
47 16 0.19
49 3 0.04
50 2 0.02
51 3 0.04
53 16 0.19
54 11 0.13
55 2 0.02
56 3 0.04
57 1 0.01
59 2 0.02
ACGTcount: A:0.40, C:0.08, G:0.03, T:0.49
Consensus pattern (41 bp):
ACTTAAATATATATATGTTAATATTTTTACAATTTAATTTA
Found at i:45449486 original size:9 final size:9
Alignment explanation
Indices: 45449462--45449712 Score: 157
Period size: 9 Copynumber: 28.8 Consensus size: 9
45449452 TATGTACAAG
45449462 AACTTACAT
1 AACTTACAT
* *
45449471 AATTTACAC
1 AACTTACAT
*
45449480 AACTTACTT
1 AACTTACAT
*
45449489 AACCTACAT
1 AACTTACAT
45449498 AACTTACAT
1 AACTTACAT
45449507 AA--TACA-
1 AACTTACAT
45449513 AAGCTTACAT
1 AA-CTTACAT
* *
45449523 AACTAAAAT
1 AACTTACAT
* *
45449532 AGCTTACAC
1 AACTTACAT
45449541 AACTTACAT
1 AACTTACAT
45449550 AACTTACAT
1 AACTTACAT
*
45449559 AACTTACAG
1 AACTTACAT
* *
45449568 AAGTTATAT
1 AACTTACAT
*
45449577 AATACATA-AT
1 -A-ACTTACAT
45449587 AACTTAC--
1 AACTTACAT
45449594 AACTTACAT
1 AACTTACAT
*
45449603 AACATACAT
1 AACTTACAT
* **
45449612 TACTTTGAT
1 AACTTACAT
45449621 AACTTACAT
1 AACTTACAT
*
45449630 AAGTTACAT
1 AACTTACAT
*
45449639 AA--TACAC
1 AACTTACAT
45449646 AACTTACAT
1 AACTTACAT
** *
45449655 AGTTTACTT
1 AACTTACAT
*
45449664 AA--TACAA
1 AACTTACAT
45449671 AACTTACAT
1 AACTTACAT
45449680 AACTT--AT
1 AACTTACAT
*
45449687 ACACGTACAT
1 A-ACTTACAT
*
45449697 AACCTACAT
1 AACTTACAT
*
45449706 AATTTAC
1 AACTTAC
45449713 TTAATACATA
Statistics
Matches: 181, Mismatches: 45, Indels: 32
0.70 0.17 0.12
Matches are distributed among these distances:
6 2 0.01
7 25 0.14
8 7 0.04
9 136 0.75
10 8 0.04
11 3 0.02
ACGTcount: A:0.45, C:0.20, G:0.03, T:0.31
Consensus pattern (9 bp):
AACTTACAT
Found at i:45449655 original size:25 final size:25
Alignment explanation
Indices: 45449493--45449685 Score: 131
Period size: 25 Copynumber: 7.4 Consensus size: 25
45449483 TTACTTAACC
45449493 TACATAACTTACATAATACA-AAGCT
1 TACATAACTTACATAATACACAA-CT
* * *
45449518 TACATAACTAAAATAGCTTACACAACT
1 TACATAACTTACATA--ATACACAACT
* *
45449545 TACATAACTTACATAACTTACAGAAGT
1 TACATAACTTACATAA--TACACAACT
*
45449572 TATATAA--TACATAATAACTTACAACT
1 TACATAACTTACATAAT-AC--ACAACT
* * ** *
45449598 TACATAACATACATTACTTTGATAACT
1 TACATAACTTACA-TA-ATACACAACT
*
45449625 TACATAAGTTACATAATACACAACT
1 TACATAACTTACATAATACACAACT
** * *
45449650 TACATAGTTTACTTAATACAAAACT
1 TACATAACTTACATAATACACAACT
45449675 TACATAACTTA
1 TACATAACTTA
45449686 TACACGTACA
Statistics
Matches: 128, Mismatches: 28, Indels: 24
0.71 0.16 0.13
Matches are distributed among these distances:
23 1 0.01
24 2 0.02
25 56 0.44
26 12 0.09
27 48 0.38
28 6 0.05
29 2 0.02
30 1 0.01
ACGTcount: A:0.46, C:0.19, G:0.04, T:0.32
Consensus pattern (25 bp):
TACATAACTTACATAATACACAACT
Found at i:45449723 original size:25 final size:25
Alignment explanation
Indices: 45449619--45449723 Score: 106
Period size: 25 Copynumber: 4.2 Consensus size: 25
45449609 CATTACTTTG
* *
45449619 ATAACTTACATAAGTTACATAATAC
1 ATAACTTACATAATTTACTTAATAC
* *
45449644 ACAACTTACATAGTTTACTTAATAC
1 ATAACTTACATAATTTACTTAATAC
* *
45449669 AAAACTTACATAACTTATAC--ACGTAC
1 ATAACTTACATAA-TT-TACTTA-ATAC
*
45449695 ATAACCTACATAATTTACTTAATAC
1 ATAACTTACATAATTTACTTAATAC
45449720 ATAA
1 ATAA
45449724 ATATATATAT
Statistics
Matches: 65, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
24 3 0.05
25 42 0.65
26 17 0.26
27 3 0.05
ACGTcount: A:0.46, C:0.19, G:0.03, T:0.32
Consensus pattern (25 bp):
ATAACTTACATAATTTACTTAATAC
Found at i:45455281 original size:66 final size:65
Alignment explanation
Indices: 45455174--45455338 Score: 206
Period size: 66 Copynumber: 2.5 Consensus size: 65
45455164 GAGCAAATTA
* * * * *
45455174 CACAACTTAAAGCGGAGGCAACATCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTTCA
1 CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAG-TATGAAGAACTCCA
45455238 G
65 G
* *
45455239 CTACAACTGAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCCA
1 C-ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCA
45455304 G
65 G
* * *
45455305 CACCAGCTTAAAGCAGATGCGGCAGCAAGAGAAG
1 CA-CAACTTAAAGCAGATGCAGCAGCGAGAGAAG
45455339 TAGAGGCGGC
Statistics
Matches: 86, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
65 2 0.02
66 80 0.93
67 4 0.05
ACGTcount: A:0.41, C:0.19, G:0.27, T:0.13
Consensus pattern (65 bp):
CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAG
Found at i:45455347 original size:21 final size:21
Alignment explanation
Indices: 45455315--45455448 Score: 151
Period size: 21 Copynumber: 6.4 Consensus size: 21
45455305 CACCAGCTTA
* * * *
45455315 AAGCAGATGCGGCAGCAAGAG
1 AAGCAGAGGCTGCAGCGAGGG
* * *
45455336 AAGTAGAGGCGGCAGCGAGAG
1 AAGCAGAGGCTGCAGCGAGGG
* * *
45455357 AAGTACAGGCTACAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
**
45455378 AAGCAGAGGCTAAAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
45455399 AAGCAGAGGCTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
45455420 AAGCAGAGGCTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
*
45455441 AAGTAGAG
1 AAGCAGAG
45455449 CAGCGTCAAA
Statistics
Matches: 100, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 100 1.00
ACGTcount: A:0.34, C:0.16, G:0.43, T:0.06
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:45455633 original size:10 final size:9
Alignment explanation
Indices: 45455611--45455664 Score: 51
Period size: 9 Copynumber: 6.2 Consensus size: 9
45455601 TAATACGATT
*
45455611 TTTATTTTA
1 TTTATTATA
45455620 TTTATTGATA
1 TTTATT-ATA
45455630 TTTATTATA
1 TTTATTATA
*
45455639 -TTATT-TG
1 TTTATTATA
*
45455646 TTTAATATA
1 TTTATTATA
45455655 TTTATT-TA
1 TTTATTATA
45455663 TT
1 TT
45455665 ACTTTTGGCT
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
7 1 0.03
8 13 0.35
9 15 0.41
10 8 0.22
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.69
Consensus pattern (9 bp):
TTTATTATA
Found at i:45456093 original size:22 final size:22
Alignment explanation
Indices: 45456067--45456108 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
45456057 CGGCGCTTTT
*
45456067 AAAAGCGCCGCTAAAGGCCTAA
1 AAAAGCGCCGCTAAAAGCCTAA
45456089 AAAAGCGCCGCTAAAAGCCT
1 AAAAGCGCCGCTAAAAGCCT
45456109 GTTTTGGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.29, G:0.21, T:0.10
Consensus pattern (22 bp):
AAAAGCGCCGCTAAAAGCCTAA
Found at i:45467445 original size:9 final size:9
Alignment explanation
Indices: 45467431--45467479 Score: 53
Period size: 9 Copynumber: 5.4 Consensus size: 9
45467421 AAAATATATA
45467431 TTATTATTG
1 TTATTATTG
* *
45467440 TTATTAGTA
1 TTATTATTG
**
45467449 TTATTATCA
1 TTATTATTG
*
45467458 ATATTATTG
1 TTATTATTG
45467467 TTATTATTG
1 TTATTATTG
45467476 TTAT
1 TTAT
45467480 ATTTCCATTT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.29, C:0.02, G:0.08, T:0.61
Consensus pattern (9 bp):
TTATTATTG
Found at i:45467711 original size:16 final size:17
Alignment explanation
Indices: 45467689--45467734 Score: 58
Period size: 16 Copynumber: 2.7 Consensus size: 17
45467679 CATATCTTTG
45467689 ATTTATATATATTTAT-
1 ATTTATATATATTTATA
* *
45467705 TTTTATATATACATTATA
1 ATTTATATATA-TTTATA
45467723 ATTTATATATAT
1 ATTTATATATAT
45467735 ACATATATTC
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
16 10 0.42
17 4 0.17
18 10 0.42
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTATATATATTTATA
Found at i:45467715 original size:18 final size:18
Alignment explanation
Indices: 45467689--45467735 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
45467679 CATATCTTTG
45467689 ATTTATATATAT-TTAT-
1 ATTTATATATATATTATA
* *
45467705 TTTTATATATACATTATA
1 ATTTATATATATATTATA
45467723 ATTTATATATATA
1 ATTTATATATATA
45467736 CATATATTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
16 10 0.40
17 4 0.16
18 11 0.44
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTTATATATATATTATA
Found at i:45467748 original size:18 final size:19
Alignment explanation
Indices: 45467708--45467760 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
45467698 TATTTATTTT
*
45467708 TATATATACATTATAATTTA
1 TATATATACA-TATAATTCA
45467728 TATATATACATAT-ATTCA
1 TATATATACATATAATTCA
45467746 TATCTATATACATAT
1 TA--TATATACATAT
45467761 TTTTTAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 6 0.20
19 3 0.10
20 21 0.70
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.47
Consensus pattern (19 bp):
TATATATACATATAATTCA
Found at i:45467795 original size:18 final size:18
Alignment explanation
Indices: 45467772--45467807 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
45467762 TTTTAAAATT
*
45467772 TTTATAAGTATATATATA
1 TTTATAAGTACATATATA
*
45467790 TTTATACGTACATATATA
1 TTTATAAGTACATATATA
45467808 CTTACATATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.47
Consensus pattern (18 bp):
TTTATAAGTACATATATA
Found at i:45471149 original size:21 final size:22
Alignment explanation
Indices: 45471106--45471149 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
45471096 AATTATAAAA
*
45471106 AAGTATAATTTTTTTTATGAAT
1 AAGTATAATTTTTTTAATGAAT
45471128 AAGTATAATTTTTTTAAT-AAT
1 AAGTATAATTTTTTTAATGAAT
45471149 A
1 A
45471150 TATAGCATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (22 bp):
AAGTATAATTTTTTTAATGAAT
Found at i:45472631 original size:30 final size:30
Alignment explanation
Indices: 45472563--45472644 Score: 78
Period size: 31 Copynumber: 2.7 Consensus size: 30
45472553 GGTTAAATCA
45472563 AAATTAAAGTTTCAAGTATATATATGAACT
1 AAATTAAAGTTTCAAGTATATATATGAACT
* * * *
45472593 ACAATTAAAGTTTTACGTGTATA-ATTGCACT
1 A-AATTAAAGTTTCAAGTATATATA-TGAACT
* *
45472624 AAATTAAA-ATTCATGTATATA
1 AAATTAAAGTTTCAAGTATATA
45472645 ATTACACATT
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
29 9 0.21
30 9 0.21
31 24 0.57
ACGTcount: A:0.44, C:0.09, G:0.10, T:0.38
Consensus pattern (30 bp):
AAATTAAAGTTTCAAGTATATATATGAACT
Found at i:45472647 original size:29 final size:30
Alignment explanation
Indices: 45472612--45472673 Score: 81
Period size: 31 Copynumber: 2.1 Consensus size: 30
45472602 GTTTTACGTG
*
45472612 TATAATTGCAC-TAAATTAAAATTCATGTA
1 TATAATTACACATAAATTAAAATTCATGTA
* *
45472641 TATAATTACACATTAAATTAAAGTTGATGTA
1 TATAATTACACA-TAAATTAAAATTCATGTA
45472672 TA
1 TA
45472674 ATTTTGAGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 10 0.36
31 18 0.64
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (30 bp):
TATAATTACACATAAATTAAAATTCATGTA
Found at i:45472674 original size:29 final size:27
Alignment explanation
Indices: 45472610--45472676 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 27
45472600 AAGTTTTACG
*
45472610 TGTATAATTGCACTAAATTAAAATTCA
1 TGTATAATTACACTAAATTAAAATTCA
* *
45472637 TGTATATAATTACACATTAAATTAAAGTTGA
1 TG--TATAATTACAC--TAAATTAAAATTCA
45472668 TGTATAATT
1 TGTATAATT
45472677 TTGAGATTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
27 2 0.06
29 17 0.52
31 14 0.42
ACGTcount: A:0.43, C:0.07, G:0.09, T:0.40
Consensus pattern (27 bp):
TGTATAATTACACTAAATTAAAATTCA
Found at i:45479317 original size:21 final size:21
Alignment explanation
Indices: 45479291--45479333 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
45479281 CTAAGGATAT
*
45479291 ATGGTCTCGGGTAATACCAGC
1 ATGGTCTCGGATAATACCAGC
*
45479312 ATGGTCTCGGATGATACCAGC
1 ATGGTCTCGGATAATACCAGC
45479333 A
1 A
45479334 GACTAGTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (21 bp):
ATGGTCTCGGATAATACCAGC
Found at i:45480549 original size:29 final size:27
Alignment explanation
Indices: 45480501--45480593 Score: 77
Period size: 28 Copynumber: 3.4 Consensus size: 27
45480491 TTCTTTAACA
*
45480501 TTTAAAAAATAT-AT-ATTTTTATACTT
1 TTTAAAAAATTTAATAATTTTTATA-TT
45480527 TTTAAATAAATTTAATAATTTTTA-ATT
1 TTTAAA-AAATTTAATAATTTTTATATT
** *
45480554 TTTAAAAATAATTTTTTAATTTTT-TAAAT
1 TTT-AAAA-AATTTAATAATTTTTAT-ATT
45480583 TTTAAAAAATT
1 TTTAAAAAATT
45480594 AATTAAATGT
Statistics
Matches: 56, Mismatches: 4, Indels: 13
0.77 0.05 0.18
Matches are distributed among these distances:
26 6 0.11
27 15 0.27
28 23 0.41
29 12 0.21
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (27 bp):
TTTAAAAAATTTAATAATTTTTATATT
Found at i:45480566 original size:28 final size:27
Alignment explanation
Indices: 45480481--45480591 Score: 84
Period size: 29 Copynumber: 4.0 Consensus size: 27
45480471 ACATGTCAAC
**
45480481 ATTTAATTAATTCTTTAACATTT-AAAAA
1 ATTTAA-TAATT-TTTAATTTTTAAAAAA
* *
45480509 ATAT-AT-ATTTTTATACTTTTTAAATAA
1 ATTTAATAATTTTTA-A-TTTTTAAAAAA
45480536 ATTTAATAATTTTTAATTTTTAAAAATA
1 ATTTAATAATTTTTAATTTTTAAAAA-A
** *
45480564 ATTTTTTAATTTTTTAAATTTTAAAAAA
1 ATTTAATAA-TTTTTAATTTTTAAAAAA
45480592 TTAATTAAAT
Statistics
Matches: 67, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
24 4 0.06
25 4 0.06
26 4 0.06
27 17 0.25
28 15 0.22
29 23 0.34
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (27 bp):
ATTTAATAATTTTTAATTTTTAAAAAA
Found at i:45483818 original size:18 final size:19
Alignment explanation
Indices: 45483781--45483820 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
45483771 AGTTAGTAAA
45483781 TTTTTCGATCGTAAATTTT
1 TTTTTCGATCGTAAATTTT
* *
45483800 TTTTTTGATTGTAAATTTT
1 TTTTTCGATCGTAAATTTT
45483819 TT
1 TT
45483821 CGATCCTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.20, C:0.05, G:0.10, T:0.65
Consensus pattern (19 bp):
TTTTTCGATCGTAAATTTT
Found at i:45484208 original size:73 final size:73
Alignment explanation
Indices: 45484068--45484208 Score: 164
Period size: 73 Copynumber: 1.9 Consensus size: 73
45484058 TTGCTTACAT
* * * *
45484068 CATCATTGGTTTGATGATGGCTTCCACGTTGCAAGACTTGTTTGTCTGCATATGGATTGTCTTCT
1 CATCATTGGTTTGATGATGACATCCACGTTGCAAGACTTGTTTGTCGGCATATGGATTGTCTCCT
45484133 TTTGTCTC
66 TTTGTCTC
* *
45484141 CATCA-TGGATTTGATGATGACATCCACGTTGCCAA-ACTT-TGTTGTCGGTATGTGGATT-TCC
1 CATCATTGG-TTTGATGATGACATCCACGTTG-CAAGACTTGT-TTGTCGGCATATGGATTGT-C
45484202 TCCTTTT
62 TCCTTTT
45484209 CAGGTTGCCA
Statistics
Matches: 58, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
72 5 0.09
73 50 0.86
74 3 0.05
ACGTcount: A:0.17, C:0.20, G:0.21, T:0.42
Consensus pattern (73 bp):
CATCATTGGTTTGATGATGACATCCACGTTGCAAGACTTGTTTGTCGGCATATGGATTGTCTCCT
TTTGTCTC
Found at i:45485551 original size:18 final size:19
Alignment explanation
Indices: 45485514--45485553 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
45485504 AGTTAGTAAA
45485514 TTTTTCGATCGTAAATTTT
1 TTTTTCGATCGTAAATTTT
* *
45485533 TTTTTTGATTGTAAATTTT
1 TTTTTCGATCGTAAATTTT
45485552 TT
1 TT
45485554 CGATGCTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.20, C:0.05, G:0.10, T:0.65
Consensus pattern (19 bp):
TTTTTCGATCGTAAATTTT
Found at i:45490603 original size:18 final size:19
Alignment explanation
Indices: 45490566--45490605 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
45490556 AGTTAGTAAA
45490566 TTTTTCGATCGTAAATTTT
1 TTTTTCGATCGTAAATTTT
* *
45490585 TTTTTTGATTGTAAATTTT
1 TTTTTCGATCGTAAATTTT
45490604 TT
1 TT
45490606 CGATGCTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.20, C:0.05, G:0.10, T:0.65
Consensus pattern (19 bp):
TTTTTCGATCGTAAATTTT
Found at i:45498929 original size:21 final size:21
Alignment explanation
Indices: 45498899--45498938 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
45498889 TACAATAAAA
45498899 AAAATATTTGTTAGAAAATTC
1 AAAATATTTGTTAGAAAATTC
*
45498920 AAAATCTTTGTTAGAAAAT
1 AAAATATTTGTTAGAAAAT
45498939 CTAAGATAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.38
Consensus pattern (21 bp):
AAAATATTTGTTAGAAAATTC
Found at i:45499120 original size:27 final size:27
Alignment explanation
Indices: 45499089--45499174 Score: 74
Period size: 25 Copynumber: 3.3 Consensus size: 27
45499079 GACTTTTATG
45499089 TCTTCATCCTGATCTGTTGAAGTTTTT
1 TCTTCATCCTGATCTGTTGAAGTTTTT
* * **
45499116 TCTTCAT-CAGATAAAT-TTCTA-TTTTT
1 TCTTCATCCTGAT--CTGTTGAAGTTTTT
*
45499142 TATT--TCCTGATCTGTTGAAGTTTTT
1 TCTTCATCCTGATCTGTTGAAGTTTTT
45499167 TCTTCATC
1 TCTTCATC
45499175 AAATTGTTTC
Statistics
Matches: 42, Mismatches: 10, Indels: 14
0.64 0.15 0.21
Matches are distributed among these distances:
23 1 0.02
24 4 0.10
25 12 0.29
26 12 0.29
27 12 0.29
28 1 0.02
ACGTcount: A:0.19, C:0.17, G:0.10, T:0.53
Consensus pattern (27 bp):
TCTTCATCCTGATCTGTTGAAGTTTTT
Found at i:45501333 original size:43 final size:43
Alignment explanation
Indices: 45501272--45501359 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
45501262 TCCAATCTAT
45501272 ATTTTATAGTTGGACAATTATTTCCAATAAAATTTATAAAAAC
1 ATTTTATAGTTGGACAATTATTTCCAATAAAATTTATAAAAAC
45501315 ATTTTATAGTTGGACAATTATTTCCAATAAAATTTATAAAAAC
1 ATTTTATAGTTGGACAATTATTTCCAATAAAATTTATAAAAAC
45501358 AT
1 AT
45501360 AAGATTGTAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.44, C:0.09, G:0.07, T:0.40
Consensus pattern (43 bp):
ATTTTATAGTTGGACAATTATTTCCAATAAAATTTATAAAAAC
Found at i:45504663 original size:27 final size:27
Alignment explanation
Indices: 45504632--45504717 Score: 72
Period size: 25 Copynumber: 3.3 Consensus size: 27
45504622 GACTTTTATG
45504632 TCTTCATCCTGATCTGTTGAAGTTTTT
1 TCTTCATCCTGATCTGTTGAAGTTTTT
* *** **
45504659 TCTTCAT-CAGATAAAATTCTA-TTTTT
1 TCTTCATCCTGAT-CTGTTGAAGTTTTT
*
45504685 TATT--TCCTGATCTGTTGAAGTTTTT
1 TCTTCATCCTGATCTGTTGAAGTTTTT
45504710 TCTTCATC
1 TCTTCATC
45504718 AGATTGTTTC
Statistics
Matches: 40, Mismatches: 14, Indels: 10
0.62 0.22 0.16
Matches are distributed among these distances:
24 4 0.10
25 12 0.30
26 12 0.30
27 12 0.30
ACGTcount: A:0.20, C:0.17, G:0.10, T:0.52
Consensus pattern (27 bp):
TCTTCATCCTGATCTGTTGAAGTTTTT
Found at i:45511709 original size:29 final size:29
Alignment explanation
Indices: 45511660--45511715 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
45511650 ATAGAGACTT
*
45511660 GATTAAATTAGTCCATCTACTATTAAATG
1 GATTAAATTAGTCCATCTACTACTAAATG
* * *
45511689 GATTAATTTAGTCCTTGTACTACTAAA
1 GATTAAATTAGTCCATCTACTACTAAA
45511716 AAAGAATCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (29 bp):
GATTAAATTAGTCCATCTACTACTAAATG
Found at i:45513290 original size:12 final size:13
Alignment explanation
Indices: 45513266--45513294 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
45513256 TTTTTGATGT
45513266 ATTATATTAAAAA
1 ATTATATTAAAAA
45513279 ATTATA-TAAAAA
1 ATTATATTAAAAA
45513291 ATTA
1 ATTA
45513295 ATCCGGTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
ATTATATTAAAAA
Found at i:45515157 original size:15 final size:15
Alignment explanation
Indices: 45515139--45515171 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
45515129 CAAATGCCAT
45515139 AATAATAAATACAAC
1 AATAATAAATACAAC
*
45515154 AATAATAAATACATC
1 AATAATAAATACAAC
45515169 AAT
1 AAT
45515172 GGCATAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (15 bp):
AATAATAAATACAAC
Found at i:45515768 original size:21 final size:21
Alignment explanation
Indices: 45515715--45515769 Score: 53
Period size: 19 Copynumber: 2.8 Consensus size: 21
45515705 TTTTAAAAAA
* *
45515715 ATATAAAT-AAATATGTACAT
1 ATATAAATAAAAAATATACAT
* *
45515735 A-A-AAACAACAAATATACAT
1 ATATAAATAAAAAATATACAT
45515754 ATATAAATAAAAAATA
1 ATATAAATAAAAAATA
45515770 ATTACAGAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 5
0.70 0.16 0.14
Matches are distributed among these distances:
18 3 0.12
19 11 0.42
20 2 0.08
21 10 0.38
ACGTcount: A:0.65, C:0.07, G:0.02, T:0.25
Consensus pattern (21 bp):
ATATAAATAAAAAATATACAT
Found at i:45517572 original size:45 final size:45
Alignment explanation
Indices: 45517522--45517617 Score: 122
Period size: 45 Copynumber: 2.1 Consensus size: 45
45517512 GTAACGATAG
* *
45517522 CAGTAACAATAACAGTATTCAACACACAAAGTG-CTGAATCTGTAA
1 CAGTAACAATAACAGTATTCAACACACAAAGTGTC-AAATCGGTAA
** * *
45517567 CAGTAACGGTAACAGTATTCGATACACAAAGTGTCAAATCGGTAA
1 CAGTAACAATAACAGTATTCAACACACAAAGTGTCAAATCGGTAA
45517612 CAGTAA
1 CAGTAA
45517618 TAGTAGTTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
45 43 0.98
46 1 0.02
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.22
Consensus pattern (45 bp):
CAGTAACAATAACAGTATTCAACACACAAAGTGTCAAATCGGTAA
Found at i:45518834 original size:30 final size:29
Alignment explanation
Indices: 45518800--45518856 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 29
45518790 TTATCAAGTA
45518800 AATAAA-ATCTTTTAATATAATAATTTAATT
1 AATAAATATCTTTTAAT-TAA-AATTTAATT
*
45518830 AATAAATATCTTTTACTTAAAATTTAA
1 AATAAATATCTTTTAATTAAAATTTAA
45518857 GAAAAATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 7 0.28
30 9 0.36
31 9 0.36
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (29 bp):
AATAAATATCTTTTAATTAAAATTTAATT
Found at i:45518981 original size:17 final size:16
Alignment explanation
Indices: 45518950--45518993 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
45518940 GATTTATTTA
45518950 ATAATATAATATCATT
1 ATAATATAATATCATT
*
45518966 ATAATTTAACTATCATT
1 ATAATATAA-TATCATT
*
45518983 AATTATATAAT
1 -ATAATATAAT
45518994 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
16 8 0.35
17 8 0.35
18 7 0.30
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (16 bp):
ATAATATAATATCATT
Found at i:45523591 original size:29 final size:29
Alignment explanation
Indices: 45523568--45523624 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
45523558 TATTATTGTT
*
45523568 ATTATTTTATTATATTAT-AAATTAAATTG
1 ATTATATTATTATATTATGAAATT-AATTG
*
45523597 ATTATATTATTATATTATGAAATAAATT
1 ATTATATTATTATATTATGAAATTAATT
45523625 AAGAAAAGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 21 0.84
30 4 0.16
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (29 bp):
ATTATATTATTATATTATGAAATTAATTG
Found at i:45523607 original size:37 final size:37
Alignment explanation
Indices: 45523543--45523614 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 37
45523533 ATGATTGTTT
* * *
45523543 TATTATAAAATATATTATTATTGTTATTATTTTATTA
1 TATTATAAAATAAATTATTATTATTATTATATTATTA
*
45523580 TATTATAAATTAAATTGATTA-TATTATTATATTAT
1 TATTATAAAATAAATT-ATTATTATTATTATATTAT
45523615 GAAATAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
37 26 0.87
38 4 0.13
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (37 bp):
TATTATAAAATAAATTATTATTATTATTATATTATTA
Found at i:45524089 original size:22 final size:22
Alignment explanation
Indices: 45524064--45524113 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
45524054 AAACTAAAGT
*
45524064 AAAATAAAATAAAAAATAAAAA
1 AAAACAAAATAAAAAATAAAAA
**
45524086 AAAACAAAATAAAGCATAAAAA
1 AAAACAAAATAAAAAATAAAAA
*
45524108 GAAACA
1 AAAACA
45524114 GAACCATTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.80, C:0.06, G:0.04, T:0.10
Consensus pattern (22 bp):
AAAACAAAATAAAAAATAAAAA
Found at i:45525128 original size:38 final size:38
Alignment explanation
Indices: 45525026--45525158 Score: 135
Period size: 38 Copynumber: 3.4 Consensus size: 38
45525016 GACGTCGAGT
* * *
45525026 CGATGAGACACTGGGTGTCACTATTTTACTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA--ACTTTACTTCGGCTAG-TC
* * *
45525067 CGATGAGATACTGGGTATC-ACTTTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAACTTTACTTCGGCTAGTC
* *
45525104 CGATGAGACACTGGGTGTCAACTTTGCTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAACTTTACTTCG-GCTAGTC
*
45525142 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
45525159 CCAATCTGGT
Statistics
Matches: 78, Mismatches: 12, Indels: 7
0.80 0.12 0.07
Matches are distributed among these distances:
37 17 0.22
38 41 0.53
39 3 0.04
41 17 0.22
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (38 bp):
CGATGAGACACTGGGTGTCAACTTTACTTCGGCTAGTC
Found at i:45528753 original size:20 final size:21
Alignment explanation
Indices: 45528728--45528777 Score: 77
Period size: 19 Copynumber: 2.4 Consensus size: 21
45528718 TTTAAAATAC
45528728 TTTAAAAATATTTTTT-TATT
1 TTTAAAAATATTTTTTATATT
45528748 TTT-AAAATATTTTTTATATT
1 TTTAAAAATATTTTTTATATT
45528768 TATTAAAAAT
1 T-TTAAAAAT
45528778 CGGGCCGGGC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 12 0.44
20 8 0.30
21 2 0.07
22 5 0.19
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTAAAAATATTTTTTATATT
Found at i:45528762 original size:18 final size:19
Alignment explanation
Indices: 45528732--45528769 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
45528722 AAATACTTTA
*
45528732 AAAATATTTTTTTATTTTT
1 AAAATATTTTTTTATATTT
45528751 AAAATA-TTTTTTATATTT
1 AAAATATTTTTTTATATTT
45528769 A
1 A
45528770 TTAAAAATCG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
AAAATATTTTTTTATATTT
Found at i:45529263 original size:31 final size:31
Alignment explanation
Indices: 45529194--45529268 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
45529184 TGTGTAATTA
* *
45529194 TACATATTAAAATTTGATTTTGATTCAAATG
1 TACACATTAAAATTTGATTTTGATACAAATG
* * * *
45529225 TATACATTAAACTTTGATTTTGATACGATTG
1 TACACATTAAAATTTGATTTTGATACAAATG
*
45529256 TACACATTTAAAT
1 TACACATTAAAAT
45529269 AAATGAATAA
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.44
Consensus pattern (31 bp):
TACACATTAAAATTTGATTTTGATACAAATG
Found at i:45529558 original size:41 final size:41
Alignment explanation
Indices: 45529507--45529594 Score: 169
Period size: 41 Copynumber: 2.2 Consensus size: 41
45529497 TAATCAAAAC
45529507 ATGA-ATATAACACATAATTAATCATATTAAATCTTGAAAT
1 ATGACATATAACACATAATTAATCATATTAAATCTTGAAAT
45529547 ATGACATATAACACATAATTAATCATATTAAATCTTGAAAT
1 ATGACATATAACACATAATTAATCATATTAAATCTTGAAAT
45529588 ATGACAT
1 ATGACAT
45529595 GTGACTTATC
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 4 0.09
41 43 0.91
ACGTcount: A:0.49, C:0.11, G:0.06, T:0.34
Consensus pattern (41 bp):
ATGACATATAACACATAATTAATCATATTAAATCTTGAAAT
Found at i:45536088 original size:25 final size:24
Alignment explanation
Indices: 45536051--45536146 Score: 77
Period size: 25 Copynumber: 3.8 Consensus size: 24
45536041 ATGCATATAT
* *
45536051 GAGCACATAAACGGGAAGCT-CATGT
1 GAGC-CATTAACGGGAAGCTCCA-GA
45536076 GAGCCATGTAACGGGAAGCTCCAGA
1 GAGCCAT-TAACGGGAAGCTCCAGA
* * *
45536101 GAGCCATTAACGAGAAGCTTACAAA
1 GAGCCATTAACGGGAAGC-TCCAGA
* *
45536126 GAGCCTTTAATCAGGAAGCTC
1 GAGCCATTAA-CGGGAAGCTC
45536147 ACGAAGAGCC
Statistics
Matches: 58, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
24 13 0.22
25 37 0.64
26 8 0.14
ACGTcount: A:0.35, C:0.22, G:0.26, T:0.17
Consensus pattern (24 bp):
GAGCCATTAACGGGAAGCTCCAGA
Found at i:45536253 original size:24 final size:24
Alignment explanation
Indices: 45536221--45536302 Score: 60
Period size: 24 Copynumber: 3.4 Consensus size: 24
45536211 AAACCAAATT
*
45536221 GGGATGCTCCGAAGAGCTATTAAC
1 GGGAAGCTCCGAAGAGCTATTAAC
* * *
45536245 GGGAAGCT-CGCAAGAACCATTTATC
1 GGGAAGCTCCG-AAGAGCTA-TTAAC
* *
45536270 GGGAAGCTCATG-AGAGCTAATAAC
1 GGGAAGCTC-CGAAGAGCTATTAAC
*
45536294 GGGACGCTC
1 GGGAAGCTC
45536303 TTTCGAGCTG
Statistics
Matches: 44, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
23 2 0.05
24 24 0.55
25 17 0.39
27 1 0.02
ACGTcount: A:0.30, C:0.22, G:0.29, T:0.18
Consensus pattern (24 bp):
GGGAAGCTCCGAAGAGCTATTAAC
Found at i:45538996 original size:15 final size:15
Alignment explanation
Indices: 45538976--45539027 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
45538966 ACTACAAAAC
45538976 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
45538991 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
45539010 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
45539025 ATT
1 ATT
45539028 AGTATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:45539136 original size:22 final size:22
Alignment explanation
Indices: 45539108--45539151 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
45539098 TGTTAAATAA
45539108 TTTATTAAAATAATAAATTATT
1 TTTATTAAAATAATAAATTATT
* * *
45539130 TTTATTATATTAATAATTTATT
1 TTTATTAAAATAATAAATTATT
45539152 ATATGACTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTATTAAAATAATAAATTATT
Found at i:45540579 original size:36 final size:36
Alignment explanation
Indices: 45540539--45540607 Score: 84
Period size: 36 Copynumber: 1.9 Consensus size: 36
45540529 TTTGCTACAA
* * * *
45540539 TTTCACTATTATATTATTATTATTTTGTTGTTATTG
1 TTTCAATATTATATAACTATTATTTTATTGTTATTG
* *
45540575 TTTCAATATTTTATAACTCTTATTTTATTGTTA
1 TTTCAATATTATATAACTATTATTTTATTGTTA
45540608 ATTTTGTTAC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 27 1.00
ACGTcount: A:0.25, C:0.07, G:0.06, T:0.62
Consensus pattern (36 bp):
TTTCAATATTATATAACTATTATTTTATTGTTATTG
Found at i:45546502 original size:2 final size:2
Alignment explanation
Indices: 45546495--45546534 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
45546485 ATTTTCAGAC
45546495 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
45546535 GGAAAAAGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:45548159 original size:31 final size:29
Alignment explanation
Indices: 45548121--45548197 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
45548111 TTAACGGCTC
* *
45548121 AGTGACTAAAATGTTACATCATGATAACATA
1 AGTGACTAAAATGTAACAT-ATCA-AACATA
* * *
45548152 AGTGACTACAACGTAACATTTCAAACATA
1 AGTGACTAAAATGTAACATATCAAACATA
45548181 AGTGACTAAAATGTAAC
1 AGTGACTAAAATGTAAC
45548198 CTGAACCAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
29 21 0.54
30 2 0.05
31 16 0.41
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.26
Consensus pattern (29 bp):
AGTGACTAAAATGTAACATATCAAACATA
Found at i:45550051 original size:55 final size:55
Alignment explanation
Indices: 45549967--45550078 Score: 224
Period size: 55 Copynumber: 2.0 Consensus size: 55
45549957 CCTATGCAAA
45549967 TTGAAGCTTTGGTTTAACTAGTGAAATTAAAATTTTAATTGTTATGGGTTAAAGT
1 TTGAAGCTTTGGTTTAACTAGTGAAATTAAAATTTTAATTGTTATGGGTTAAAGT
45550022 TTGAAGCTTTGGTTTAACTAGTGAAATTAAAATTTTAATTGTTATGGGTTAAAGT
1 TTGAAGCTTTGGTTTAACTAGTGAAATTAAAATTTTAATTGTTATGGGTTAAAGT
45550077 TT
1 TT
45550079 AAAATAAGTG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 57 1.00
ACGTcount: A:0.32, C:0.04, G:0.20, T:0.45
Consensus pattern (55 bp):
TTGAAGCTTTGGTTTAACTAGTGAAATTAAAATTTTAATTGTTATGGGTTAAAGT
Found at i:45561367 original size:16 final size:16
Alignment explanation
Indices: 45561334--45561383 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
45561324 AAAAACACGA
*
45561334 ATAAAAAATTAATT-AT
1 ATAAAAAA-TATTTAAT
*
45561350 ATTAAAAATATTTAAT
1 ATAAAAAATATTTAAT
45561366 ATAAAAAATATTTAAT
1 ATAAAAAATATTTAAT
45561382 AT
1 AT
45561384 GGATATAGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
15 4 0.13
16 26 0.87
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
ATAAAAAATATTTAAT
Found at i:45564594 original size:14 final size:14
Alignment explanation
Indices: 45564577--45564603 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
45564567 TATCATTTGA
45564577 AATTTAATTTTTAT
1 AATTTAATTTTTAT
45564591 AATTTAATTTTTA
1 AATTTAATTTTTA
45564604 AAATAATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
AATTTAATTTTTAT
Found at i:45565178 original size:29 final size:30
Alignment explanation
Indices: 45565123--45565180 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
45565113 ACTTGGATTT
* *
45565123 TTAAAATTGAAAAGTAGAGTGACTAAATTC
1 TTAAAAATGAAAAGTAGAGAGACTAAATTC
* *
45565153 TTAAAAAT-AAAAGTAGTGAGATTAAATT
1 TTAAAAATGAAAAGTAGAGAGACTAAATT
45565181 TCAAATTTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 17 0.71
30 7 0.29
ACGTcount: A:0.50, C:0.03, G:0.16, T:0.31
Consensus pattern (30 bp):
TTAAAAATGAAAAGTAGAGAGACTAAATTC
Found at i:45579460 original size:27 final size:27
Alignment explanation
Indices: 45579412--45579469 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
45579402 AAACCCGGTG
* * *
45579412 CAGCAGCAGCCACTCCAGGGTTAAACC
1 CAGCAGCAGCAACACAAGGGTTAAACC
* *
45579439 CAGCAGCAGCAACACAATGGTTGAACC
1 CAGCAGCAGCAACACAAGGGTTAAACC
45579466 CAGC
1 CAGC
45579470 TCCAGCAGGC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.33, C:0.34, G:0.22, T:0.10
Consensus pattern (27 bp):
CAGCAGCAGCAACACAAGGGTTAAACC
Found at i:45580407 original size:3 final size:3
Alignment explanation
Indices: 45580401--45580432 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
45580391 CTCGTCATCT
45580401 TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TC
1 TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TC
45580433 TTCAAATTCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.66, G:0.00, T:0.34
Consensus pattern (3 bp):
TCC
Found at i:45583528 original size:15 final size:15
Alignment explanation
Indices: 45583510--45583565 Score: 69
Period size: 15 Copynumber: 3.8 Consensus size: 15
45583500 TAACACATGA
*
45583510 AATAATATGTACGGT
1 AATAAAATGTACGGT
* *
45583525 AATAAAATGTA-TGA
1 AATAAAATGTACGGT
*
45583539 AATAAAATGTATGGT
1 AATAAAATGTACGGT
45583554 AATAAAATGTAC
1 AATAAAATGTAC
45583566 AAAAACATTA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
14 12 0.35
15 22 0.65
ACGTcount: A:0.50, C:0.04, G:0.16, T:0.30
Consensus pattern (15 bp):
AATAAAATGTACGGT
Found at i:45583540 original size:29 final size:29
Alignment explanation
Indices: 45583506--45583564 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
45583496 ATAATAACAC
*
45583506 ATGAAATAATATGTACGGTAATAAAATGT
1 ATGAAATAAAATGTACGGTAATAAAATGT
*
45583535 ATGAAATAAAATGTATGGTAATAAAATGT
1 ATGAAATAAAATGTACGGTAATAAAATGT
45583564 A
1 A
45583565 CAAAAACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.51, C:0.02, G:0.17, T:0.31
Consensus pattern (29 bp):
ATGAAATAAAATGTACGGTAATAAAATGT
Found at i:45592772 original size:5 final size:5
Alignment explanation
Indices: 45592758--45592786 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
45592748 ACATAAGTGC
45592758 TTTA- TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
45592787 ATTGTTTCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:45604990 original size:90 final size:90
Alignment explanation
Indices: 45604882--45605179 Score: 424
Period size: 90 Copynumber: 3.3 Consensus size: 90
45604872 TCACATCAGG
*
45604882 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAGGTTA
1 TCTTATCTCCCTGAGATTACAGCGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAGGTTA
45604947 CAGTGGAGCAGATTGAAGCCAGAGA
66 CAGTGGAGCAGATTGAAGCCAGAGA
*
45604972 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAGGTTA
1 TCTTATCTCCCTGAGATTACAGCGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAGGTTA
45605037 CAGTGGAGCAGATTGAAGCCAGAGA
66 CAGTGGAGCAGATTGAAGCCAGAGA
* * * * * * *
45605062 TCTTATCTCCCTGAGATTACAGCAGAGCAGATCGAAG-A---CACTATCCTATCTCCCTGAAGTT
1 TCTTATCTCCCTGAGATTACAGCGGAACAGACCAAAGAATTTCA-GATCTTATCTCCCTGAGGTT
* * ***
45605123 ACAGTGGAGCGGATTAAAATAAGAGA
65 ACAGTGGAGCAGATTGAAGCCAGAGA
*
45605149 TCTTATCTCCCTGAGATTACAGCGGAGCAGA
1 TCTTATCTCCCTGAGATTACAGCGGAACAGA
45605180 TCGAAGACAC
Statistics
Matches: 193, Mismatches: 14, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
86 2 0.01
87 68 0.35
89 1 0.01
90 122 0.63
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (90 bp):
TCTTATCTCCCTGAGATTACAGCGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAGGTTA
CAGTGGAGCAGATTGAAGCCAGAGA
Found at i:45604992 original size:44 final size:43
Alignment explanation
Indices: 45604712--45605185 Score: 304
Period size: 44 Copynumber: 10.9 Consensus size: 43
45604702 ATTATACAGG
* *** * *
45604712 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCA---GAGA
* * * *
45604758 TCTTATCTCCCTGAGATTACAGCGGAGCAGA-TCAAGGATAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCAGAG--A
* * * *
45604802 TCCTATCTCCTTGAGATTACAATGGAGCGGATT-AA--AG-GA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCAGAGA
* * * * *
45604841 TCTTATCTCTCTGA-AGTTACAGTAGAGAAGA-TCACATCAG-G-
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGA-AGCAGAGA
* *** * *
45604882 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCA---GAGA
*
45604928 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG-CAGAGA
* *** * *
45604972 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCA---GAGA
*
45605018 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG-CAGAGA
** * **
45605062 TCTTATCTCCCTGAGATTACAGCAGAGCAGATCGAAGACA-CTA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG-CAGAGA
* * * **
45605105 TCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAAAATAAGAGA
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATT-GAAGCAGAGA
* *
45605149 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAG
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG
45605186 ACACTATCTT
Statistics
Matches: 332, Mismatches: 72, Indels: 51
0.73 0.16 0.11
Matches are distributed among these distances:
38 2 0.01
39 24 0.07
40 1 0.00
41 28 0.08
42 9 0.03
43 31 0.09
44 132 0.40
45 7 0.02
46 96 0.29
47 2 0.01
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.26
Consensus pattern (43 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCAGAGA
Found at i:45605167 original size:87 final size:87
Alignment explanation
Indices: 45604840--45605216 Score: 397
Period size: 87 Copynumber: 4.3 Consensus size: 87
45604830 GGATTAAAGG
* * * * *
45604840 ATCTTATCTCTCTGAAGTTACAGTAGAGAAGA-TCACA-TCAG-G-TCTTATCTCCCTGAGATTA
1 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGA-AGCCAGAGATCTTATCTCCCTGAGATTA
* * * * *
45604901 CAGTGGAACAGACCAAAGA-ATTTCAG
65 CAGCGGAGCAGATCGAAGACA---C-T
*
45604927 ATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTAC
1 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTAC
* * * * *
45604992 AGTGGAACAGACCAAAGA-ATTTCAG
66 AGCGGAGCAGATCGAAGACA---C-T
*
45605017 ATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTAC
1 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTAC
*
45605082 AGCAGAGCAGATCGAAGACACT
66 AGCGGAGCAGATCGAAGACACT
* * * ***
45605104 ATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAGAGATCTTATCTCCCTGAGATTAC
1 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTAC
45605169 AGCGGAGCAGATCGAAGACACT
66 AGCGGAGCAGATCGAAGACACT
* *
45605191 ATCTTATCCCCCTGAAGTTGCAGTGG
1 ATCTTATCTCCCTGAAGTTACAGTGG
45605217 CCCAAGTTGA
Statistics
Matches: 262, Mismatches: 23, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
87 131 0.50
88 6 0.02
89 1 0.00
90 123 0.47
91 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (87 bp):
ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTAC
AGCGGAGCAGATCGAAGACACT
Found at i:45605244 original size:87 final size:87
Alignment explanation
Indices: 45605021--45605249 Score: 246
Period size: 87 Copynumber: 2.6 Consensus size: 87
45605011 TTTCAGATCT
* * * * *** **
45605021 TATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCA
1 TATCCCCCTGAAGTTACAGTGGACCAGATTAAAATAAGAGATCCGATCTCCCTGAGATTACAGCA
45605086 GAGCAGATCGAAGACACTATCC
66 GAGCAGATCGAAGACACTATCC
* * * ** *
45605108 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAGAGATCTTATCTCCCTGAGATTACAGCG
1 TATCCCCCTGAAGTTACAGTGGACCAGATTAAAATAAGAGATCCGATCTCCCTGAGATTACAGCA
*
45605173 GAGCAGATCGAAGACACTATCT
66 GAGCAGATCGAAGACACTATCC
* * * *
45605195 TATCCCCCTGAAGTTGCAGTGGCCCA-AGTTGAAGATATGAG-TCCGATCTCCCTGA
1 TATCCCCCTGAAGTTACAGTGGACCAGA-TT-AAAATAAGAGATCCGATCTCCCTGA
45605250 AGTCGCAGTG
Statistics
Matches: 123, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
86 1 0.01
87 114 0.93
88 8 0.07
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (87 bp):
TATCCCCCTGAAGTTACAGTGGACCAGATTAAAATAAGAGATCCGATCTCCCTGAGATTACAGCA
GAGCAGATCGAAGACACTATCC
Found at i:45606977 original size:27 final size:25
Alignment explanation
Indices: 45606945--45607008 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 25
45606935 TGTCCCTTTT
*
45606945 TTTTTATATAT-ATGTAAATCTCCATA
1 TTTTTATATATCATATAAAT-T-CATA
*
45606971 TATTTTACATATGCATATAAATTCATA
1 T-TTTTATATAT-CATATAAATTCATA
45606998 TTTTTATATAT
1 TTTTTATATAT
45607009 TTTATAATAC
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
26 10 0.31
27 14 0.44
28 1 0.03
29 7 0.22
ACGTcount: A:0.36, C:0.09, G:0.03, T:0.52
Consensus pattern (25 bp):
TTTTTATATATCATATAAATTCATA
Found at i:45607183 original size:5 final size:5
Alignment explanation
Indices: 45607169--45607197 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
45607159 ACATAAGTGC
45607169 TTTA- TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
45607198 ATTGTTTCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:45611097 original size:21 final size:21
Alignment explanation
Indices: 45611071--45611126 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
45611061 AACAGCGGTG
* *
45611071 GCGGTGAGATTAGGTACTGTA
1 GCGGTGAGATTAGATAATGTA
45611092 GCGGTGAGATTAGATAATGTA
1 GCGGTGAGATTAGATAATGTA
*
45611113 GCAGTGAGATTAGA
1 GCGGTGAGATTAGA
45611127 AACAGTGGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.30, C:0.07, G:0.36, T:0.27
Consensus pattern (21 bp):
GCGGTGAGATTAGATAATGTA
Found at i:45611335 original size:19 final size:18
Alignment explanation
Indices: 45611289--45611327 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
45611279 ATATTATTAA
45611289 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
45611307 ATATAATTTAAT-AAAAT
1 ATATAATTTAATAAAAAT
45611324 ATAT
1 ATAT
45611328 TGAATTTACA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:45611341 original size:19 final size:16
Alignment explanation
Indices: 45611289--45611342 Score: 54
Period size: 19 Copynumber: 3.0 Consensus size: 16
45611279 ATATTATTAA
45611289 ATATAATTTAATAAAAAT
1 ATATAATTT-A-AAAAAT
45611307 ATATAATTTAATAAAAT
1 ATATAATTTAA-AAAAT
45611324 ATATTGAATTTACAAAAAT
1 ATA-T-AATTTA-AAAAAT
45611343 TCAATCACAG
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
16 1 0.03
17 9 0.28
18 10 0.31
19 11 0.34
20 1 0.03
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (16 bp):
ATATAATTTAAAAAAT
Found at i:45611680 original size:17 final size:18
Alignment explanation
Indices: 45611658--45611692 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
45611648 AGAGCAAACC
45611658 AAGGGGAA-GGGAAAGGG
1 AAGGGGAAGGGGAAAGGG
45611675 AAGGGGAAGGGGAAAGGG
1 AAGGGGAAGGGGAAAGGG
45611693 GAGAAGAAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.40, C:0.00, G:0.60, T:0.00
Consensus pattern (18 bp):
AAGGGGAAGGGGAAAGGG
Done.