Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 218 of 311
Found at i:74546817 original size:21 final size:20
Alignment explanation
Indices: 74546759--74546817 Score: 57
Period size: 20 Copynumber: 2.8 Consensus size: 20
74546749 TTATATTATT
*
74546759 AAAAAATATATTTAATATTTTA
1 AAAAAATA-ATTTAA-AATTTA
*
74546781 AAACTAAT-ATTTAAAATTTA
1 AAA-AAATAATTTAAAATTTA
74546801 AAAAAATAATTTCAAAA
1 AAAAAATAATTT-AAAA
74546818 ATATATATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
19 3 0.10
20 12 0.39
21 10 0.32
22 3 0.10
23 3 0.10
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.37
Consensus pattern (20 bp):
AAAAAATAATTTAAAATTTA
Found at i:74548258 original size:65 final size:65
Alignment explanation
Indices: 74548154--74548282 Score: 240
Period size: 65 Copynumber: 2.0 Consensus size: 65
74548144 TTACTCCAAG
*
74548154 TTCAAGCCCTTTCCTTCTCTTTTAATTATGAGATTTCAACAAACATGAAATATATACTGTTGGGT
1 TTCAAGCCCCTTCCTTCTCTTTTAATTATGAGATTTCAACAAACATGAAATATATACTGTTGGGT
*
74548219 TTCAAGCCCCTTCTTTCTCTTTTAATTATGAGATTTCAACAAACATGAAATATATACTGTTGGG
1 TTCAAGCCCCTTCCTTCTCTTTTAATTATGAGATTTCAACAAACATGAAATATATACTGTTGGG
74548283 ATTAAAAACT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 62 1.00
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (65 bp):
TTCAAGCCCCTTCCTTCTCTTTTAATTATGAGATTTCAACAAACATGAAATATATACTGTTGGGT
Found at i:74552453 original size:9 final size:9
Alignment explanation
Indices: 74552431--74552467 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
74552421 TAGTTTCTCA
74552431 TTTC-TTTC
1 TTTCTTTTC
*
74552439 TCTCTTTTC
1 TTTCTTTTC
74552448 TTTCTTTTC
1 TTTCTTTTC
74552457 TTTCTTTTC
1 TTTCTTTTC
74552466 TT
1 TT
74552468 CGTGTTCCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
8 3 0.12
9 23 0.88
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTCTTTTC
Found at i:74552521 original size:13 final size:13
Alignment explanation
Indices: 74552503--74552557 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
74552493 TTCTATTCTT
74552503 TTTATTTTCTTTA
1 TTTATTTTCTTTA
74552516 TTTA-TTTCATTTA
1 TTTATTTTC-TTTA
*
74552529 CTTATTTGT-TTTA
1 TTTATTT-TCTTTA
*
74552542 TTATATTTACTTTA
1 TT-TATTTTCTTTA
74552556 TT
1 TT
74552558 ATTATATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
12 4 0.12
13 16 0.47
14 13 0.38
15 1 0.03
ACGTcount: A:0.20, C:0.07, G:0.02, T:0.71
Consensus pattern (13 bp):
TTTATTTTCTTTA
Found at i:74552559 original size:26 final size:24
Alignment explanation
Indices: 74552498--74552560 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 24
74552488 GTTCTTTCTA
74552498 TTCTTT-TTATTTTCTTTATTTAT
1 TTCTTTATTATTTTCTTTATTTAT
74552521 TTCATTTACTTATTTGT-TTTATTATAT
1 TTC-TTTA-TTATTT-TCTTTATT-TAT
74552548 TTACTTTATTATT
1 TT-CTTTATTATT
74552561 ATATTATATA
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
23 3 0.09
24 3 0.09
26 17 0.50
27 10 0.29
28 1 0.03
ACGTcount: A:0.19, C:0.08, G:0.02, T:0.71
Consensus pattern (24 bp):
TTCTTTATTATTTTCTTTATTTAT
Found at i:74553554 original size:34 final size:33
Alignment explanation
Indices: 74553516--74553627 Score: 118
Period size: 34 Copynumber: 3.3 Consensus size: 33
74553506 TGTAATGATA
*
74553516 TGTTATAAGCATGATAATTGTTA-CTATATCAATT
1 TGTTATAAGCATGAT-ATTGCTATC-ATATCAATT
* **
74553550 TGTTATAAGCATGCTATTGCTATCATATTGATT
1 TGTTATAAGCATGATATTGCTATCATATCAATT
* * **
74553583 TGTTATAAGCATGTCTATTGCTATCGTATTGATT
1 TGTTATAAGCATG-ATATTGCTATCATATCAATT
74553617 TGTTATAAGCA
1 TGTTATAAGCA
74553628 CGTAAACATG
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
33 26 0.37
34 45 0.63
ACGTcount: A:0.29, C:0.11, G:0.15, T:0.45
Consensus pattern (33 bp):
TGTTATAAGCATGATATTGCTATCATATCAATT
Found at i:74553695 original size:34 final size:35
Alignment explanation
Indices: 74553656--74553740 Score: 129
Period size: 34 Copynumber: 2.5 Consensus size: 35
74553646 ACTATACTGA
* *
74553656 CTTGTTATAAGCATGTCTATTGCTACCGTATTGAT
1 CTTGTTATAAGCATGTCTATTACTACCATATTGAT
74553691 -TTGTTATAAGCATGTCTATTACTACCATATTGAT
1 CTTGTTATAAGCATGTCTATTACTACCATATTGAT
*
74553725 CTT-CTATAAGCATGTC
1 CTTGTTATAAGCATGTC
74553741 ATGTCTAAAG
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
34 44 0.96
35 2 0.04
ACGTcount: A:0.26, C:0.18, G:0.14, T:0.42
Consensus pattern (35 bp):
CTTGTTATAAGCATGTCTATTACTACCATATTGAT
Found at i:74556303 original size:40 final size:40
Alignment explanation
Indices: 74556217--74556312 Score: 113
Period size: 40 Copynumber: 2.4 Consensus size: 40
74556207 ATCTCAATAT
* * *
74556217 CGCACACTTAGTGCCACATATAGCCGAAGTTATTCCAACT
1 CGCACACTAAGTGCCACATATAGCCGAAGCTATTCCAACA
* * * *
74556257 CACACACTAAGTGCTATATATAGCCGAAGCTATCTCGAA-A
1 CGCACACTAAGTGCCACATATAGCCGAAGCTAT-TCCAACA
74556297 CGCACACTAAGTGCCA
1 CGCACACTAAGTGCCA
74556313 AACATAGTTA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
40 42 0.91
41 4 0.09
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.22
Consensus pattern (40 bp):
CGCACACTAAGTGCCACATATAGCCGAAGCTATTCCAACA
Found at i:74557726 original size:44 final size:42
Alignment explanation
Indices: 74557676--74557819 Score: 149
Period size: 40 Copynumber: 3.5 Consensus size: 42
74557666 AGCTATAACG
* * *
74557676 ATATCGCACACTTAGTGCCATCACATTAAATCGAAGCTATCTTA
1 ATATCGCACACTAAGTGCCATCATA-T-AGTCGAAGCTATCTTA
*
74557720 ATATCGCACACCT-AGTGCCA-CATATAGTCGAAGCTAT-TCCA
1 ATATCGCACA-CTAAGTGCCATCATATAGTCGAAGCTATCT-TA
*
74557761 AT-TCGCACACTAAGTGCTAT-ATATAGTCGAAGCTATCTTGA
1 ATATCGCACACTAAGTGCCATCATATAGTCGAAGCTATCTT-A
74557802 A-A-CGCACACTAAGTGCCA
1 ATATCGCACACTAAGTGCCA
74557820 AACATAGTTA
Statistics
Matches: 87, Mismatches: 6, Indels: 18
0.78 0.05 0.16
Matches are distributed among these distances:
39 2 0.02
40 45 0.52
41 17 0.20
42 1 0.01
43 3 0.03
44 17 0.20
45 2 0.02
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (42 bp):
ATATCGCACACTAAGTGCCATCATATAGTCGAAGCTATCTTA
Found at i:74558557 original size:27 final size:27
Alignment explanation
Indices: 74558519--74558572 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
74558509 CCCTAGAATG
*
74558519 CCTTAAATCTCTCTTTTCTTATTTATT
1 CCTTAAATCTCTCTTTCCTTATTTATT
74558546 CCTTAAATCTCTCTTTCCTTATTTATT
1 CCTTAAATCTCTCTTTCCTTATTTATT
74558573 TTCGATTGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.19, C:0.24, G:0.00, T:0.57
Consensus pattern (27 bp):
CCTTAAATCTCTCTTTCCTTATTTATT
Found at i:74565112 original size:10 final size:10
Alignment explanation
Indices: 74565093--74565124 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
74565083 TTTTAGGATT
74565093 TTAT-TTTAA
1 TTATCTTTAA
74565102 TTATCTTTAA
1 TTATCTTTAA
74565112 TTATCTTTAA
1 TTATCTTTAA
74565122 TTA
1 TTA
74565125 AATGTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:74567530 original size:13 final size:14
Alignment explanation
Indices: 74567514--74567549 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
74567504 CAATCTCATA
74567514 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
74567527 TCTCAATTT-AATT
1 TCTCAATTTCAATT
74567540 TCTC-ATTTCA
1 TCTCAATTTCA
74567550 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.22, G:0.00, T:0.50
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:74567731 original size:39 final size:38
Alignment explanation
Indices: 74567664--74567798 Score: 101
Period size: 39 Copynumber: 3.4 Consensus size: 38
74567654 ACCAATATGG
* * *
74567664 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATATTTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAGAAATATTTGA
* * * *
74567703 CACCCAGTGTCTCATCGGCCTAGCCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAAATATTTGA
* * * * *
74567741 TACCCAGTACCTCATCGAATCTATCCGAAGAAATATAGTGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAGAAATAT-TTGA
*
74567782 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
74567799 ACTCGAGGTC
Statistics
Matches: 73, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAAATATTTGA
Found at i:74568065 original size:18 final size:19
Alignment explanation
Indices: 74568039--74568077 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
74568029 TTTCAATTCA
74568039 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
74568058 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
74568076 AT
1 AT
74568078 ATTTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:74569405 original size:5 final size:5
Alignment explanation
Indices: 74569395--74569452 Score: 71
Period size: 5 Copynumber: 11.0 Consensus size: 5
74569385 TTACTTATTT
*
74569395 ATATA ATATAA TATATA ATATA ATATA ATATA CTATA ATATA ATAATA
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA ATATA AT-ATA
*
74569443 ATTTA ATATA
1 ATATA ATATA
74569453 TATTTTAACA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
5 35 0.76
6 7 0.15
7 4 0.09
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:74571862 original size:41 final size:40
Alignment explanation
Indices: 74571814--74571923 Score: 136
Period size: 40 Copynumber: 2.7 Consensus size: 40
74571804 TCACATTAAA
74571814 TCGAAGCTATCTCAATATCGCACACCT-AGTGCCACATATAG
1 TCGAAGCTATCTCAAT-TCGCACA-CTAAGTGCCACATATAG
* *
74571855 TCGAAGCTAT-TCCAATTCGCACACTAAGTGCTATATATAG
1 TCGAAGCTATCT-CAATTCGCACACTAAGTGCCACATATAG
*
74571895 TCGAAGCTATCTCGAA-ACGCACACTAAGT
1 TCGAAGCTATCTC-AATTCGCACACTAAGT
74571924 ACCAAACATA
Statistics
Matches: 62, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
39 2 0.03
40 43 0.69
41 17 0.27
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.25
Consensus pattern (40 bp):
TCGAAGCTATCTCAATTCGCACACTAAGTGCCACATATAG
Found at i:74578697 original size:25 final size:26
Alignment explanation
Indices: 74578641--74578697 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 26
74578631 CAACAAATGA
*
74578641 GAATTCTTTAAATTAAATAATCTTAT
1 GAATTCTTTAAATTAAATAATCATAT
* * *
74578667 G-GTTCTTT-AATTGAATATTCATAT
1 GAATTCTTTAAATTAAATAATCATAT
74578691 GAATTCT
1 GAATTCT
74578698 CAATTAATTT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
24 14 0.56
25 10 0.40
26 1 0.04
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.47
Consensus pattern (26 bp):
GAATTCTTTAAATTAAATAATCATAT
Found at i:74580767 original size:21 final size:20
Alignment explanation
Indices: 74580729--74580769 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
74580719 GTTAATTTCA
* *
74580729 TTATTTTATTTTATTATTAT
1 TTATTATATTTTACTATTAT
74580749 TTATTATATTTTTACTATTAT
1 TTATTATA-TTTTACTATTAT
74580770 GTTTTTTACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (20 bp):
TTATTATATTTTACTATTAT
Found at i:74589544 original size:11 final size:10
Alignment explanation
Indices: 74589518--74589551 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
74589508 TCATGTCTTG
74589518 AAAATTTTAA
1 AAAATTTTAA
*
74589528 AAAATTTATAT
1 AAAATTT-TAA
74589539 AAAATTTTAA
1 AAAATTTTAA
74589549 AAA
1 AAA
74589552 TACGAAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
AAAATTTTAA
Found at i:74590424 original size:13 final size:13
Alignment explanation
Indices: 74590408--74590471 Score: 74
Period size: 13 Copynumber: 4.9 Consensus size: 13
74590398 TAAACCAAAT
74590408 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
*
74590421 TTTTCAAAAGCAT
1 TTTTCAAAAGCAC
* * *
74590434 TTTTCCACAGCAG
1 TTTTCAAAAGCAC
* *
74590447 TTCTCAAAAGTAC
1 TTTTCAAAAGCAC
74590460 TTTTCAAAAGCA
1 TTTTCAAAAGCA
74590472 TTGTCAAACT
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 40 1.00
ACGTcount: A:0.36, C:0.22, G:0.09, T:0.33
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:74590435 original size:26 final size:25
Alignment explanation
Indices: 74590406--74590479 Score: 76
Period size: 26 Copynumber: 2.9 Consensus size: 25
74590396 TTTAAACCAA
*
74590406 ATTTTTCAAAAGCACTTTTCAAAAGC
1 ATTTTTCAAAAGCA-TTCTCAAAAGC
* * *
74590432 ATTTTTCCACAGCAGTTCTCAAAAGT
1 ATTTTTCAAAAGCA-TTCTCAAAAGC
* *
74590458 ACTTTTCAAAAGCATTGTCAAA
1 ATTTTTCAAAAGCATTCTCAAA
74590480 CTAACCCTAA
Statistics
Matches: 39, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
25 7 0.18
26 32 0.82
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.34
Consensus pattern (25 bp):
ATTTTTCAAAAGCATTCTCAAAAGC
Found at i:74598309 original size:18 final size:20
Alignment explanation
Indices: 74598267--74598311 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 20
74598257 GTCTTATCTT
* *
74598267 ACATATTTATAATTTTATCA
1 ACATATTTATAAATATATCA
74598287 ACATATTT-TAAATATAT-A
1 ACATATTTATAAATATATCA
74598305 ACATATT
1 ACATATT
74598312 GTCAATTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 8 0.35
19 7 0.30
20 8 0.35
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (20 bp):
ACATATTTATAAATATATCA
Found at i:74598644 original size:35 final size:35
Alignment explanation
Indices: 74598605--74598674 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
74598595 GGTCAAACTG
74598605 GTTGTCACCTTAACATCATTGAAAGTTGATGTTTT
1 GTTGTCACCTTAACATCATTGAAAGTTGATGTTTT
74598640 GTTGTCACCTTAACATCATTGAAAGTTGATGTTTT
1 GTTGTCACCTTAACATCATTGAAAGTTGATGTTTT
74598675 AGTCAATATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.26, C:0.14, G:0.17, T:0.43
Consensus pattern (35 bp):
GTTGTCACCTTAACATCATTGAAAGTTGATGTTTT
Found at i:74600681 original size:31 final size:29
Alignment explanation
Indices: 74600645--74600736 Score: 89
Period size: 31 Copynumber: 3.0 Consensus size: 29
74600635 AGCATTTAAT
74600645 TAATTTTTAAAATTTTAAAATATTTAAAAAA
1 TAATTTTTAAAATTTT-AAAT-TTTAAAAAA
74600676 TAA-TTTTAATAATTCTT-AATTCTTAAAAAA
1 TAATTTTTAA-AATT-TTAAATT-TTAAAAAA
**
74600706 TAATTTTTATATGTTTTTAAATTTTAAAAAA
1 TAATTTTTA-A-AATTTTAAATTTTAAAAAA
74600737 AATAAATTAA
Statistics
Matches: 53, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
29 1 0.02
30 20 0.38
31 22 0.42
32 10 0.19
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.49
Consensus pattern (29 bp):
TAATTTTTAAAATTTTAAATTTTAAAAAA
Found at i:74600735 original size:30 final size:28
Alignment explanation
Indices: 74600666--74600735 Score: 68
Period size: 30 Copynumber: 2.4 Consensus size: 28
74600656 ATTTTAAAAT
*
74600666 ATTTAAAAAATAATTTTAATAATTCTTA
1 ATTTTAAAAATAATTTTAATAATTCTTA
* * *
74600694 ATTCTTAAAAAATAATTTTTATATGTTTTTAA
1 ATT-TT-AAAAATAATTTTAATA-ATTCTT-A
74600726 ATTTTAAAAA
1 ATTTTAAAAA
74600736 AAATAAATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
28 3 0.09
29 1 0.03
30 20 0.59
31 6 0.18
32 4 0.12
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (28 bp):
ATTTTAAAAATAATTTTAATAATTCTTA
Found at i:74601886 original size:20 final size:23
Alignment explanation
Indices: 74601851--74601902 Score: 67
Period size: 21 Copynumber: 2.4 Consensus size: 23
74601841 GATACCCCCG
74601851 TACAATTTTTTAATAATT-TTTT
1 TACAATTTTTTAATAATTCTTTT
74601873 TACAA-TTTTT-ATAATTCTTTT
1 TACAATTTTTTAATAATTCTTTT
74601894 T-CTAATTTT
1 TAC-AATTTT
74601903 CAATAAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
20 7 0.26
21 12 0.44
22 8 0.30
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (23 bp):
TACAATTTTTTAATAATTCTTTT
Found at i:74602321 original size:15 final size:17
Alignment explanation
Indices: 74602292--74602328 Score: 60
Period size: 15 Copynumber: 2.3 Consensus size: 17
74602282 TTAAGATAAT
74602292 ATTATATATATTAAAAA
1 ATTATATATATTAAAAA
74602309 ATTATAT-TA-TAAAAA
1 ATTATATATATTAAAAA
74602324 ATTAT
1 ATTAT
74602329 TAACAAAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 11 0.55
16 2 0.10
17 7 0.35
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
ATTATATATATTAAAAA
Found at i:74610950 original size:16 final size:16
Alignment explanation
Indices: 74610929--74610959 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
74610919 GAGAATATAG
74610929 AATAAATTTACTAAAA
1 AATAAATTTACTAAAA
74610945 AATAAATTTACTAAA
1 AATAAATTTACTAAA
74610960 TTTCTAGAAA
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:0.61, C:0.06, G:0.00, T:0.32
Consensus pattern (16 bp):
AATAAATTTACTAAAA
Found at i:74611866 original size:30 final size:30
Alignment explanation
Indices: 74611832--74611891 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
74611822 ACTTAGCAAG
* *
74611832 CAAATACCTCTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAAGAAAAAAATTAA
* *
74611862 CAAATGCCTTTAAAATAAGAAAAAAATTAA
1 CAAATACCTCTAAAATAAGAAAAAAATTAA
74611892 TAATAAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.60, C:0.13, G:0.03, T:0.23
Consensus pattern (30 bp):
CAAATACCTCTAAAATAAGAAAAAAATTAA
Found at i:74612740 original size:9 final size:9
Alignment explanation
Indices: 74612726--74612757 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
74612716 ATCGTGGCTC
74612726 ATCTCTCCT
1 ATCTCTCCT
74612735 ATCTCTCCT
1 ATCTCTCCT
74612744 ATCTCTCCT
1 ATCTCTCCT
74612753 -TCTCT
1 ATCTCT
74612758 GTTGCCCTCG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 5 0.22
9 18 0.78
ACGTcount: A:0.09, C:0.44, G:0.00, T:0.47
Consensus pattern (9 bp):
ATCTCTCCT
Found at i:74614540 original size:21 final size:21
Alignment explanation
Indices: 74614502--74614542 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
74614492 CGTCAGTTGT
*
74614502 TAAAATTGTTCTTGATAAATG
1 TAAAATTGTTCTTAATAAATG
74614523 TAAAATTGTT-TCTAATAAAT
1 TAAAATTGTTCT-TAATAAAT
74614543 TGTGCCTTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (21 bp):
TAAAATTGTTCTTAATAAATG
Found at i:74617538 original size:13 final size:13
Alignment explanation
Indices: 74617520--74617564 Score: 90
Period size: 13 Copynumber: 3.5 Consensus size: 13
74617510 GGTTTATAAG
74617520 GCTTAGAATTCGC
1 GCTTAGAATTCGC
74617533 GCTTAGAATTCGC
1 GCTTAGAATTCGC
74617546 GCTTAGAATTCGC
1 GCTTAGAATTCGC
74617559 GCTTAG
1 GCTTAG
74617565 CTTTCTCAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.31
Consensus pattern (13 bp):
GCTTAGAATTCGC
Found at i:74620069 original size:40 final size:39
Alignment explanation
Indices: 74619945--74620068 Score: 176
Period size: 39 Copynumber: 3.2 Consensus size: 39
74619935 GCATGATACT
*
74619945 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
1 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTATGTGC
74619984 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTATGTGC
1 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTATGTGC
* * * * *
74620023 TGGAAATATATCCGGGCTTAAAGTCCCGCAGGCTTTGTGC
1 TGGAAACATATCCGGACTTGAGGT-CCGCAGGCTATGTGC
*
74620063 TAGAAA
1 TGGAAA
74620069 TTGGACTCGG
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 58 0.75
40 19 0.25
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (39 bp):
TGGAAACATATCCGGACTTGAGGTCCGCAGGCTATGTGC
Found at i:74622950 original size:43 final size:42
Alignment explanation
Indices: 74622884--74623001 Score: 137
Period size: 43 Copynumber: 2.8 Consensus size: 42
74622874 AGCATATACA
**
74622884 ATGCCAACATCCCAGACATGGTCTTACATGTAATCAAACATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCAAACA-CG
* * * * * * *
74622927 ATGCCACTGTCCCAAACAGGGTCTTACACGAAATCAGATACG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCAAACACG
*
74622969 ATGTCAATGTCCCAGACATGGTCTTACATGTAA
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAA
74623002 AATAGAAGTC
Statistics
Matches: 60, Mismatches: 15, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
42 29 0.48
43 31 0.52
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAATCAAACACG
Found at i:74624604 original size:23 final size:25
Alignment explanation
Indices: 74624558--74624607 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 25
74624548 TCAGTTTGTT
74624558 TAGTTAATTTTATCATTTATTTTAAAA
1 TAGTTAATTTTATC--TTATTTTAAAA
74624585 TAGTTAATTTTATC-T-TTTTAAAA
1 TAGTTAATTTTATCTTATTTTAAAA
74624608 CTTTATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 8 0.35
24 1 0.04
27 14 0.61
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.56
Consensus pattern (25 bp):
TAGTTAATTTTATCTTATTTTAAAA
Found at i:74626647 original size:33 final size:32
Alignment explanation
Indices: 74626610--74626672 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 32
74626600 CAAAAAAAAT
*
74626610 TTGTTGTTTGT-TTGTTGTTTTACTACTATTTTA
1 TTGTTGTTT-TCTCGTTGTTTT-CTACTATTTTA
*
74626643 TTGTTGTTTTCTCGTTGTTTTCTATTATTT
1 TTGTTGTTTTCTCGTTGTTTTCTACTATTT
74626673 CACTATTATG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 9 0.33
33 18 0.67
ACGTcount: A:0.10, C:0.08, G:0.14, T:0.68
Consensus pattern (32 bp):
TTGTTGTTTTCTCGTTGTTTTCTACTATTTTA
Found at i:74629898 original size:29 final size:28
Alignment explanation
Indices: 74629844--74629903 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 28
74629834 TTTGTTTTAT
** *
74629844 TATACATTAATTAATTAATATTATAATA
1 TATACATTAATTAATTAATAAGATAACA
* *
74629872 TATACATTTACTTAATTATTAAGATAACA
1 TATACA-TTAATTAATTAATAAGATAACA
74629901 TAT
1 TAT
74629904 TTTAACATAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 6 0.23
29 20 0.77
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.45
Consensus pattern (28 bp):
TATACATTAATTAATTAATAAGATAACA
Found at i:74630320 original size:11 final size:11
Alignment explanation
Indices: 74630301--74630342 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
74630291 ACAAAAAAGC
74630301 TGTTATTTTAT
1 TGTTATTTTAT
* *
74630312 TGTTGTTTTAA
1 TGTTATTTTAT
74630323 TGTTATTTTAT
1 TGTTATTTTAT
*
74630334 TGTTGTTTT
1 TGTTATTTT
74630343 CTCCCTATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.14, C:0.00, G:0.14, T:0.71
Consensus pattern (11 bp):
TGTTATTTTAT
Found at i:74630329 original size:22 final size:22
Alignment explanation
Indices: 74630301--74630342 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
74630291 ACAAAAAAGC
74630301 TGTTATTTTATTGTTGTTTTAA
1 TGTTATTTTATTGTTGTTTTAA
74630323 TGTTATTTTATTGTTGTTTT
1 TGTTATTTTATTGTTGTTTT
74630343 CTCCCTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.14, C:0.00, G:0.14, T:0.71
Consensus pattern (22 bp):
TGTTATTTTATTGTTGTTTTAA
Found at i:74634362 original size:143 final size:139
Alignment explanation
Indices: 74634082--74634419 Score: 487
Period size: 142 Copynumber: 2.4 Consensus size: 139
74634072 TTTACAGTAT
* * * *
74634082 TTACATTATTTACATTTAATGATTGGGTCTATGAGTGGAGGCATGAATGTAACTTATAGTGTATG
1 TTACATTATTTACATTTAATGTTTGGGTCGATGAGTGGAGGCATG-ATGTAACTTATAATATATG
* *
74634147 CTGTTTATGTTTCTAGTCTATATTTGGTTTAAAATGTTGAGGCATGGATAAATGGTGATCACATG
65 CTGTTTATGTTTCTAGTCTATATTTGGTTTAAAATGTTGAGGCATGGATAAATGCTGATCACATA
74634212 AAGGACTACAA
130 AAGGACTA-AA
* *
74634223 GTTACATTATTTACATTTAATGTTTGGGTCGATGGGTGAAGGCATGTATGTAACTTATAATATAT
1 -TTACATTATTTACATTTAATGTTTGGGTCGATGAGTGGAGGCATG-ATGTAACTTATAATATAT
* * *
74634288 GCTGTTTATTTTTTCTATTCTATATTTGGTTTAAAATGTTGAGGCATGGATAAATGCTGATCACT
64 GCTGTTTA-TGTTTCTAGTCTATATTTGGTTTAAAATGTTGAGGCATGGATAAATGCTGATCACA
74634353 TAAAGGACTAAA
128 TAAAGGACTAAA
** * *
74634365 AAACATTATTTACATTTAATGTTTGGCTCGATGAGTGGAGGCTTGATTGTAACTT
1 TTACATTATTTACATTTAATGTTTGGGTCGATGAGTGGAGGCATGA-TGTAACTT
74634420 GTATCAAAAG
Statistics
Matches: 176, Mismatches: 18, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
140 1 0.01
141 47 0.27
142 67 0.38
143 61 0.35
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.40
Consensus pattern (139 bp):
TTACATTATTTACATTTAATGTTTGGGTCGATGAGTGGAGGCATGATGTAACTTATAATATATGC
TGTTTATGTTTCTAGTCTATATTTGGTTTAAAATGTTGAGGCATGGATAAATGCTGATCACATAA
AGGACTAAA
Found at i:74636221 original size:144 final size:144
Alignment explanation
Indices: 74635961--74636254 Score: 464
Period size: 144 Copynumber: 2.0 Consensus size: 144
74635951 TTCTGCACGG
**
74635961 TTTTGTCACTTATTGGGAACTTATCTGATTAAGAGAGTCACATGCTAAGAATTATTGAAATATTG
1 TTTTGTCACTTATTAAGAACTTATCTGATTAAGAGAGTCACATGCTAAGAATTATTGAAATATTG
** * *
74636026 AACTTAAATCAGTAGAAAGTAAGTTGAAGGGACTGTTATTGGCAGGCAGAAAGGTGAAATTAAAC
66 AACTTAAATCAGTAGAAAGTAAGTTGAAAAGACTGTTATCGGCAGGCAGAAAGGTGAAAGTAAAC
*
74636091 GTGTAGAATCTTTA
131 GTGTAGAATCATTA
74636105 TTTTGTCACTTATTAAGAACTTATCTGATTAAGAGAGTCACATGCTAAGAACTT-TTGAAATATT
1 TTTTGTCACTTATTAAGAACTTATCTGATTAAGAGAGTCACATGCTAAGAA-TTATTGAAATATT
* * *
74636169 GAACTTAAATCTGTAGAAAGTAAGTTGAAAAGACTGTTATCGGCGGGCAGAAAGGTGATAGTAAA
65 GAACTTAAATCAGTAGAAAGTAAGTTGAAAAGACTGTTATCGGCAGGCAGAAAGGTGAAAGTAAA
* *
74636234 TGTTTAGAATCATTA
130 CGTGTAGAATCATTA
74636249 TTTTGT
1 TTTTGT
74636255 TTACTTTTTC
Statistics
Matches: 137, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
144 135 0.99
145 2 0.01
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.33
Consensus pattern (144 bp):
TTTTGTCACTTATTAAGAACTTATCTGATTAAGAGAGTCACATGCTAAGAATTATTGAAATATTG
AACTTAAATCAGTAGAAAGTAAGTTGAAAAGACTGTTATCGGCAGGCAGAAAGGTGAAAGTAAAC
GTGTAGAATCATTA
Found at i:74641831 original size:21 final size:21
Alignment explanation
Indices: 74641807--74641852 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
74641797 TTTTGAACTT
* *
74641807 TTTTCC-CCCATTTTCCCTTTG
1 TTTTCCTCCC-TTTTCCATTTC
74641828 TTTTCCTCCCTTTTCCATTTC
1 TTTTCCTCCCTTTTCCATTTC
74641849 TTTT
1 TTTT
74641853 AGCGTAGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 19 0.86
22 3 0.14
ACGTcount: A:0.04, C:0.35, G:0.02, T:0.59
Consensus pattern (21 bp):
TTTTCCTCCCTTTTCCATTTC
Found at i:74645534 original size:39 final size:39
Alignment explanation
Indices: 74645491--74645566 Score: 152
Period size: 39 Copynumber: 1.9 Consensus size: 39
74645481 AACCAAGGCC
74645491 CAACCCAAACCTAAATAACACCTAAAAAGACTAAAACCT
1 CAACCCAAACCTAAATAACACCTAAAAAGACTAAAACCT
74645530 CAACCCAAACCTAAATAACACCTAAAAAGACTAAAAC
1 CAACCCAAACCTAAATAACACCTAAAAAGACTAAAAC
74645567 ATAATTTCTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.55, C:0.30, G:0.03, T:0.12
Consensus pattern (39 bp):
CAACCCAAACCTAAATAACACCTAAAAAGACTAAAACCT
Found at i:74647062 original size:39 final size:39
Alignment explanation
Indices: 74647014--74647106 Score: 109
Period size: 38 Copynumber: 2.4 Consensus size: 39
74647004 TTACATGTTA
* * *
74647014 TAACAAGATCTAGCATTTGTTTC-AGATTCTTGGGTTATT
1 TAACGAGATCTAGCATTTGTTGCAAG-TTCTCGGGTTATT
* *
74647053 TAATGAGATCTAGC-CTTGTTGCAAGTTCTCGGGTTATT
1 TAACGAGATCTAGCATTTGTTGCAAGTTCTCGGGTTATT
*
74647091 TAACGTGATCTAGCAT
1 TAACGAGATCTAGCAT
74647107 CGTTGTAGAT
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
38 30 0.68
39 14 0.32
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (39 bp):
TAACGAGATCTAGCATTTGTTGCAAGTTCTCGGGTTATT
Found at i:74649801 original size:91 final size:91
Alignment explanation
Indices: 74649646--74649826 Score: 335
Period size: 91 Copynumber: 2.0 Consensus size: 91
74649636 CTGACTTGTA
*
74649646 ACACACAGCCGGTCACACGCCCGTATGTAAGCCCGTGTAGAGCATACTGACTTCATTTTAATTTC
1 ACACACAGCCGGTCACACACCCGTATGTAAGCCCGTGTAGAGCATACTGACTTCATTTTAATTTC
74649711 AACACCAGAGGACACACGGCCATGTT
66 AACACCAGAGGACACACGGCCATGTT
* *
74649737 ACACACAGCCGGTCACACACCCGTATGTAAGCCTGTGTAGAGCATACTGACTTTATTTTAATTTC
1 ACACACAGCCGGTCACACACCCGTATGTAAGCCCGTGTAGAGCATACTGACTTCATTTTAATTTC
74649802 AACACCAGAGGACACACGGCCATGT
66 AACACCAGAGGACACACGGCCATGT
74649827 AACATGATCG
Statistics
Matches: 87, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
91 87 1.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (91 bp):
ACACACAGCCGGTCACACACCCGTATGTAAGCCCGTGTAGAGCATACTGACTTCATTTTAATTTC
AACACCAGAGGACACACGGCCATGTT
Found at i:74658005 original size:40 final size:40
Alignment explanation
Indices: 74657950--74658027 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 40
74657940 TGCAGTACCT
*
74657950 TATGGTGTGTAGGGATGGACGGGTCGATTTTATCCCCATA
1 TATGGTGTGCAGGGATGGACGGGTCGATTTTATCCCCATA
**
74657990 TATGGTGTGCAGGGATGGGTGGGTCGATTTTATCCCCA
1 TATGGTGTGCAGGGATGGACGGGTCGATTTTATCCCCA
74658028 CATGGTGTGT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.18, C:0.15, G:0.35, T:0.32
Consensus pattern (40 bp):
TATGGTGTGCAGGGATGGACGGGTCGATTTTATCCCCATA
Found at i:74661703 original size:11 final size:12
Alignment explanation
Indices: 74661687--74661721 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
74661677 TTTATGTTGG
74661687 TATACATACAT-
1 TATACATACATA
74661698 TATACATACATA
1 TATACATACATA
*
74661710 AATACATACATA
1 TATACATACATA
74661722 CGCCAATTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.31
Consensus pattern (12 bp):
TATACATACATA
Found at i:74668979 original size:12 final size:12
Alignment explanation
Indices: 74668962--74668995 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
74668952 CAGCCCACCC
74668962 ATATTAATTTTT
1 ATATTAATTTTT
*
74668974 ATATTATTTTTT
1 ATATTAATTTTT
74668986 ATA-TAATTTT
1 ATATTAATTTT
74668996 AAAATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:74675136 original size:14 final size:14
Alignment explanation
Indices: 74675117--74675145 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
74675107 GTAGTGTTTG
74675117 AGAATTTGGAATTT
1 AGAATTTGGAATTT
74675131 AGAATTTGGAATTT
1 AGAATTTGGAATTT
74675145 A
1 A
74675146 TAAGTAGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.41
Consensus pattern (14 bp):
AGAATTTGGAATTT
Found at i:74678762 original size:17 final size:17
Alignment explanation
Indices: 74678740--74678774 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
74678730 CATTATTTCA
74678740 GGAACCTAGCATGTTTT
1 GGAACCTAGCATGTTTT
74678757 GGAACCTAGCATGTTTT
1 GGAACCTAGCATGTTTT
74678774 G
1 G
74678775 TTACTTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (17 bp):
GGAACCTAGCATGTTTT
Found at i:74680995 original size:15 final size:17
Alignment explanation
Indices: 74680965--74680998 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
74680955 TAAATTATAA
74680965 TTTATATTATTTTTTAT
1 TTTATATTATTTTTTAT
74680982 TTTATA-TA-TTTTTAT
1 TTTATATTATTTTTTAT
74680997 TT
1 TT
74680999 ATTAAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
16 2 0.12
17 6 0.35
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTATATTATTTTTTAT
Found at i:74683927 original size:49 final size:49
Alignment explanation
Indices: 74683855--74683951 Score: 176
Period size: 49 Copynumber: 2.0 Consensus size: 49
74683845 TATCACTTTA
*
74683855 GAAAATGTTTTACGAAAAAAAATTTGATAAGACATTTTACGGGAATAAG
1 GAAAATGTTTTACAAAAAAAAATTTGATAAGACATTTTACGGGAATAAG
*
74683904 GAAAATGTTTTACAAAAAAAAATTTGATAAGATATTTTACGGGAATAA
1 GAAAATGTTTTACAAAAAAAAATTTGATAAGACATTTTACGGGAATAA
74683952 TGGGACAATT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.48, C:0.05, G:0.16, T:0.30
Consensus pattern (49 bp):
GAAAATGTTTTACAAAAAAAAATTTGATAAGACATTTTACGGGAATAAG
Found at i:74684893 original size:15 final size:15
Alignment explanation
Indices: 74684862--74684892 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
74684852 ATAATTTAAA
74684862 TTCAATACTTAAATT
1 TTCAATACTTAAATT
74684877 TTCAATACTT-AATT
1 TTCAATACTTAAATT
74684891 TT
1 TT
74684893 TTAATTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.35, C:0.13, G:0.00, T:0.52
Consensus pattern (15 bp):
TTCAATACTTAAATT
Found at i:74685192 original size:29 final size:30
Alignment explanation
Indices: 74685146--74685211 Score: 75
Period size: 29 Copynumber: 2.2 Consensus size: 30
74685136 TTTTTAAACT
* *
74685146 TAAAAAATAGAAGAACTAAATTCTTAAAAG
1 TAAAAAATAGAAGAACTAAACTCTAAAAAG
74685176 TAAAAATATA-AAG-ACTAAACTCTAAAAA-
1 TAAAAA-ATAGAAGAACTAAACTCTAAAAAG
74685204 TATAAAAA
1 TA-AAAAA
74685212 CAAAAACAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
28 3 0.09
29 17 0.53
30 9 0.28
31 3 0.09
ACGTcount: A:0.64, C:0.08, G:0.06, T:0.23
Consensus pattern (30 bp):
TAAAAAATAGAAGAACTAAACTCTAAAAAG
Found at i:74685210 original size:30 final size:30
Alignment explanation
Indices: 74685146--74685211 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 30
74685136 TTTTTAAACT
* * *
74685146 TAAAAAATAGAAGAACTAAATTCTTAAAAG
1 TAAAAAATAGAAGAACTAAACTCTAAAAAA
74685176 TAAAAATATA-AAG-ACTAAACTCTAAAAATA
1 TAAAAA-ATAGAAGAACTAAACTCTAAAAA-A
74685206 TAAAAA
1 TAAAAA
74685212 CAAAAACAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
29 13 0.42
30 15 0.48
31 3 0.10
ACGTcount: A:0.64, C:0.08, G:0.06, T:0.23
Consensus pattern (30 bp):
TAAAAAATAGAAGAACTAAACTCTAAAAAA
Found at i:74685864 original size:31 final size:31
Alignment explanation
Indices: 74685829--74685927 Score: 153
Period size: 31 Copynumber: 3.2 Consensus size: 31
74685819 AAAAAAACTT
*
74685829 AATAGTCTAGTGACTTAAATAAAAACTTTCG
1 AATAGTCTAATGACTTAAATAAAAACTTTCG
*
74685860 AATAGTCCAATGACTTAAATAAAAACTTTCG
1 AATAGTCTAATGACTTAAATAAAAACTTTCG
* * *
74685891 AATAGTCTAATGACTTAAATGAATACTTTCA
1 AATAGTCTAATGACTTAAATAAAAACTTTCG
74685922 AATAGT
1 AATAGT
74685928 TCAATGATTA
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 62 1.00
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.32
Consensus pattern (31 bp):
AATAGTCTAATGACTTAAATAAAAACTTTCG
Found at i:74686811 original size:20 final size:20
Alignment explanation
Indices: 74686782--74686822 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
74686772 TTTATATATT
74686782 TTTTAGAATTTGTTTAAAAA
1 TTTTAGAATTTGTTTAAAAA
* *
74686802 TTTTATAATTTTTTTAAAAA
1 TTTTAGAATTTGTTTAAAAA
74686822 T
1 T
74686823 ATAAATTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTTAGAATTTGTTTAAAAA
Found at i:74687003 original size:14 final size:14
Alignment explanation
Indices: 74686984--74687014 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
74686974 GTTACTCAAG
74686984 TAATTCGAATAACT
1 TAATTCGAATAACT
*
74686998 TAATTCGATTAACT
1 TAATTCGAATAACT
74687012 TAA
1 TAA
74687015 AATTCAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.39
Consensus pattern (14 bp):
TAATTCGAATAACT
Found at i:74690440 original size:33 final size:33
Alignment explanation
Indices: 74690395--74690465 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
74690385 TGGCTTTGAT
74690395 AAAAAAAATTAATTTAATTTCAGCTCCTTCAAC
1 AAAAAAAATTAATTTAATTTCAGCTCCTTCAAC
* * *
74690428 AAAAAAATTTAATTTAATTTCGGCTCCTTCAGC
1 AAAAAAAATTAATTTAATTTCAGCTCCTTCAAC
74690461 AAAAA
1 AAAAA
74690466 TTCTGCCTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.45, C:0.17, G:0.06, T:0.32
Consensus pattern (33 bp):
AAAAAAAATTAATTTAATTTCAGCTCCTTCAAC
Found at i:74694374 original size:12 final size:12
Alignment explanation
Indices: 74694357--74694381 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
74694347 ACTAATAGCA
74694357 AAATTTTAACTT
1 AAATTTTAACTT
74694369 AAATTTTAACTT
1 AAATTTTAACTT
74694381 A
1 A
74694382 TAACCATAAT
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:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (12 bp):
AAATTTTAACTT
Found at i:74698596 original size:28 final size:27
Alignment explanation
Indices: 74698565--74698646 Score: 119
Period size: 29 Copynumber: 2.9 Consensus size: 27
74698555 AAATAAACTC
74698565 CAAAAATAAAAACTCTAAAGTCAAACCT
1 CAAAAATAAAAA-TCTAAAGTCAAACCT
*
74698593 CAAAAAATAAAAATACTAAAGTCAAACTT
1 C-AAAAATAAAAAT-CTAAAGTCAAACCT
74698622 CAAAAATAAAAAATCTAAAGTCAAA
1 CAAAAAT-AAAAATCTAAAGTCAAA
74698647 TAACACTAGA
Statistics
Matches: 50, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
28 19 0.38
29 31 0.62
ACGTcount: A:0.62, C:0.16, G:0.04, T:0.18
Consensus pattern (27 bp):
CAAAAATAAAAATCTAAAGTCAAACCT
Found at i:74712798 original size:34 final size:34
Alignment explanation
Indices: 74712760--74712828 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
74712750 ACTAGACTAG
74712760 ATTTAGAAACCTTGCTTTCAACCTAATTTGATCT
1 ATTTAGAAACCTTGCTTTCAACCTAATTTGATCT
74712794 ATTTAGAAACCTTGCTTTCAACCTAATTTGATCT
1 ATTTAGAAACCTTGCTTTCAACCTAATTTGATCT
74712828 A
1 A
74712829 AATTTAACTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.30, C:0.20, G:0.09, T:0.41
Consensus pattern (34 bp):
ATTTAGAAACCTTGCTTTCAACCTAATTTGATCT
Found at i:74725568 original size:13 final size:13
Alignment explanation
Indices: 74725542--74725647 Score: 67
Period size: 12 Copynumber: 8.0 Consensus size: 13
74725532 TGAATTTCTA
74725542 TATTATTA-TTAT
1 TATTATTACTTAT
*
74725554 TATTGTTACTTAT
1 TATTATTACTTAT
74725567 TATTATTACTGTTAT
1 TATTATTAC--TTAT
* *
74725582 GTACATATTATTTA-
1 -TA-TTATTACTTAT
* *
74725596 TACTA-TACTTAA
1 TATTATTACTTAT
74725608 TATTATTACTT-T
1 TATTATTACTTAT
*
74725620 TATTATTACATTTAC
1 TATTATTAC--TTAT
*
74725635 TATTATTATTTAT
1 TATTATTACTTAT
74725648 AAATATTAGT
Statistics
Matches: 73, Mismatches: 11, Indels: 19
0.71 0.11 0.18
Matches are distributed among these distances:
11 5 0.07
12 22 0.30
13 22 0.30
14 2 0.03
15 15 0.21
16 2 0.03
17 5 0.07
ACGTcount: A:0.31, C:0.08, G:0.03, T:0.58
Consensus pattern (13 bp):
TATTATTACTTAT
Found at i:74725568 original size:19 final size:19
Alignment explanation
Indices: 74725544--74725580 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
74725534 AATTTCTATA
*
74725544 TTATTATTATTATTGTTAC
1 TTATTATTATTACTGTTAC
74725563 TTATTATTATTACTGTTA
1 TTATTATTATTACTGTTA
74725581 TGTACATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.62
Consensus pattern (19 bp):
TTATTATTATTACTGTTAC
Found at i:74725572 original size:179 final size:170
Alignment explanation
Indices: 74725311--74725666 Score: 547
Period size: 179 Copynumber: 2.0 Consensus size: 170
74725301 TTTTTTAAAT
* *
74725311 TATTTTATTTTAATATTATTATATTATGTTTAGTTTTTTTGAATTTCTATATTATTATTATTATT
1 TATTTTATTTTAATATCATTATATTATGTTTAGCTTTTTTGAATTTC-ATATTATTATTATTATT
74725376 ATTGTTACTTATTATTATTACTGTTATGTACATATTATTTATACTATACTTAATATTATTATTAT
65 ATTGTTACTTATTATTATTACTGTTATGTACATATTATTTATACTATAC-T--TA--A-TATTAT
*
74725441 TATCATTATTATTATTATTATATTTACTATTATTATTTATAAATATTAGTGTA
124 TA-C----TT-TTATTATTACATTTACTATTATTATTTATAAATATTAGTGTA
74725494 TATTTTATTTTAATATCATTATATTATGTTTA-CTTTTTTGAATTTC-TA-TATTATTATTATTA
1 TATTTTATTTTAATATCATTATATTATGTTTAGCTTTTTTGAATTTCATATTATTATTATTATTA
74725556 TTGTTACTTATTATTATTACTGTTATGTACATATTATTTATACTATACTTAATATTATTACTTTT
66 TTGTTACTTATTATTATTACTGTTATGTACATATTATTTATACTATACTTAATATTATTACTTTT
74725621 ATTATTACATTTACTATTATTATTTATAAATATTAGTGTA
131 ATTATTACATTTACTATTATTATTTATAAATATTAGTGTA
74725661 TATTTT
1 TATTTT
74725667 TATTATATAT
Statistics
Matches: 170, Mismatches: 3, Indels: 16
0.90 0.02 0.08
Matches are distributed among these distances:
167 47 0.28
168 2 0.01
172 1 0.01
173 8 0.05
174 1 0.01
176 2 0.01
178 1 0.01
179 62 0.36
180 2 0.01
182 13 0.08
183 31 0.18
ACGTcount: A:0.31, C:0.05, G:0.04, T:0.59
Consensus pattern (170 bp):
TATTTTATTTTAATATCATTATATTATGTTTAGCTTTTTTGAATTTCATATTATTATTATTATTA
TTGTTACTTATTATTATTACTGTTATGTACATATTATTTATACTATACTTAATATTATTACTTTT
ATTATTACATTTACTATTATTATTTATAAATATTAGTGTA
Found at i:74725593 original size:3 final size:3
Alignment explanation
Indices: 74725360--74725574 Score: 94
Period size: 3 Copynumber: 70.7 Consensus size: 3
74725350 TGAATTTCTA
* * * *
74725360 TAT TAT TAT TAT TAT TAT TGT TACT TAT TAT TAT TAC TGT TAT GTACA
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT -TA-T
* * *
74725408 TAT TAT T-T ATAC TA- TACT TAA TAT TAT TAT TAT TAT CAT TAT TAT
1 TAT TAT TAT -TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
74725453 TAT TAT TA- TATT TAC TAT TAT TATT TAT AAA TAT TAGT GTA- TAT T-T
1 TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TA-T -TAT TAT TAT
* *
74725499 TAT T-T TAA TAT CAT TA- TAT TAT GT-T TACT T-T T-T TGAAT T-T CTA-
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TA-T TAT TAT T--AT TAT -TAT
*
74725542 TAT TAT TAT TAT TAT TGT TACT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TA
74725575 CTGTTATGTA
Statistics
Matches: 161, Mismatches: 25, Indels: 52
0.68 0.11 0.22
Matches are distributed among these distances:
2 21 0.13
3 115 0.71
4 21 0.13
5 4 0.02
ACGTcount: A:0.32, C:0.05, G:0.04, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:74725823 original size:3 final size:3
Alignment explanation
Indices: 74725817--74725868 Score: 52
Period size: 3 Copynumber: 16.7 Consensus size: 3
74725807 CTATTATTGC
* *
74725817 TAT TAT TGT TAT TAT TAT TAT TAT TATT TAT TA- TATT TAT ATAA TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TA-T TAT -TAT TAT
74725864 TAT TA
1 TAT TA
74725869 ATAGGTACTT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
2 2 0.05
3 32 0.78
4 7 0.17
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:74728931 original size:34 final size:34
Alignment explanation
Indices: 74728893--74728965 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 34
74728883 TTGAAGTTGG
* *
74728893 TATAT-TTTGAA-TTTATTGATATTTTTAGATAT
1 TATATATTTGAAGGTTATTGATATTTTTAAATAT
*
74728925 TATATA-TTGAAGGGTTGTTGATATTTTTAAATAT
1 TATATATTTGAA-GGTTATTGATATTTTTAAATAT
74728959 TATATAT
1 TATATAT
74728966 ATATATATGT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
32 10 0.29
34 24 0.71
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (34 bp):
TATATATTTGAAGGTTATTGATATTTTTAAATAT
Found at i:74729185 original size:36 final size:36
Alignment explanation
Indices: 74729098--74729183 Score: 127
Period size: 36 Copynumber: 2.4 Consensus size: 36
74729088 TATCAAATGT
* *
74729098 AATTATATAAAAAATAATTAAGATGAAAATATTAAA
1 AATTATTTAAAAAATAATTAAGATAAAAATATTAAA
*
74729134 TATTATTTAAAAAATAATTAAGATAAAAATATTAAA
1 AATTATTTAAAAAATAATTAAGATAAAAATATTAAA
*
74729170 AATTAGTTTTAAAA
1 AATTA-TTTAAAAA
74729184 TACTTAAAAC
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 37 0.84
37 7 0.16
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (36 bp):
AATTATTTAAAAAATAATTAAGATAAAAATATTAAA
Found at i:74731243 original size:3 final size:3
Alignment explanation
Indices: 74731204--74731228 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
74731194 TTCGTTAAAA
74731204 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
74731229 TAGTGCAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:74731907 original size:10 final size:10
Alignment explanation
Indices: 74731892--74731921 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
74731882 AAATGCTTTA
74731892 TTGAAATTAG
1 TTGAAATTAG
74731902 TTGAAATTAG
1 TTGAAATTAG
74731912 TTGAAATTAG
1 TTGAAATTAG
74731922 CAATGATCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (10 bp):
TTGAAATTAG
Found at i:74755941 original size:16 final size:16
Alignment explanation
Indices: 74755920--74755950 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
74755910 TTGCAATTAT
74755920 ATGGTTGTTGCTGGTG
1 ATGGTTGTTGCTGGTG
*
74755936 ATGGTTGTTGTTGGT
1 ATGGTTGTTGCTGGT
74755951 AATCATCATT
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:0.06, C:0.03, G:0.42, T:0.48
Consensus pattern (16 bp):
ATGGTTGTTGCTGGTG
Found at i:74757342 original size:17 final size:17
Alignment explanation
Indices: 74757315--74757365 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
74757305 CGATTTTAAT
*
74757315 TAAATAAATTATTAAATA
1 TAAA-AAATTATAAAATA
74757333 TAAAAAATTA-AAAATTA
1 TAAAAAATTATAAAA-TA
*
74757350 TTAAAAATTATAAAAT
1 TAAAAAATTATAAAAT
74757366 CTGGTTCAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
16 3 0.10
17 18 0.62
18 8 0.28
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
TAAAAAATTATAAAATA
Found at i:74759960 original size:27 final size:27
Alignment explanation
Indices: 74759917--74759975 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
74759907 TTGATATGAA
74759917 AAATCTCTTTATGAATTATTTATATAT
1 AAATCTCTTTATGAATTATTTATATAT
* *
74759944 AAAT-TCTTCTATTAATTATTTATATGT
1 AAATCTCTT-TATGAATTATTTATATAT
74759971 AAATC
1 AAATC
74759976 CCCTAAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 4 0.14
27 24 0.86
ACGTcount: A:0.37, C:0.08, G:0.03, T:0.51
Consensus pattern (27 bp):
AAATCTCTTTATGAATTATTTATATAT
Found at i:74761132 original size:9 final size:10
Alignment explanation
Indices: 74761104--74761147 Score: 61
Period size: 11 Copynumber: 4.1 Consensus size: 10
74761094 GTCCTCGCAC
74761104 AATTCTCTCTA
1 AATTCTCTC-A
74761115 AATTCTCTCCA
1 AATTCTCT-CA
74761126 AATTCTCTCA
1 AATTCTCTCA
74761136 AATTTCTCTCA
1 AA-TTCTCTCA
74761147 A
1 A
74761148 TTTTTGTCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
10 4 0.13
11 26 0.84
12 1 0.03
ACGTcount: A:0.30, C:0.30, G:0.00, T:0.41
Consensus pattern (10 bp):
AATTCTCTCA
Found at i:74761132 original size:22 final size:22
Alignment explanation
Indices: 74761104--74761145 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
74761094 GTCCTCGCAC
74761104 AATTCTCTCTAAA-TTCTCTCCA
1 AATTCTCTC-AAATTTCTCTCCA
74761126 AATTCTCTCAAATTTCTCTC
1 AATTCTCTCAAATTTCTCTC
74761146 AATTTTTGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.26, C:0.31, G:0.00, T:0.43
Consensus pattern (22 bp):
AATTCTCTCAAATTTCTCTCCA
Found at i:74762337 original size:7 final size:7
Alignment explanation
Indices: 74762317--74762366 Score: 82
Period size: 7 Copynumber: 7.0 Consensus size: 7
74762307 CATAATAAAA
74762317 TAGTCATT
1 TAGT-ATT
*
74762325 TCGTATT
1 TAGTATT
74762332 TAGTATT
1 TAGTATT
74762339 TAGTATT
1 TAGTATT
74762346 TAGTATT
1 TAGTATT
74762353 TAGTATT
1 TAGTATT
74762360 TAGTATT
1 TAGTATT
74762367 ACGTATATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
7 37 0.93
8 3 0.08
ACGTcount: A:0.26, C:0.04, G:0.14, T:0.56
Consensus pattern (7 bp):
TAGTATT
Found at i:74762346 original size:21 final size:21
Alignment explanation
Indices: 74762317--74762372 Score: 85
Period size: 21 Copynumber: 2.6 Consensus size: 21
74762307 CATAATAAAA
74762317 TAGTCATTTCGTATTTAGTATT
1 TAGT-ATTTCGTATTTAGTATT
*
74762339 TAGTATTTAGTATTTAGTATT
1 TAGTATTTCGTATTTAGTATT
*
74762360 TAGTATTACGTAT
1 TAGTATTTCGTAT
74762373 ATAACTAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
21 27 0.87
22 4 0.13
ACGTcount: A:0.27, C:0.05, G:0.14, T:0.54
Consensus pattern (21 bp):
TAGTATTTCGTATTTAGTATT
Found at i:74762916 original size:30 final size:30
Alignment explanation
Indices: 74762880--74762944 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 30
74762870 TCAGCGGCGT
** *
74762880 CCACACAATCAGTGGGCCCATCAATAGCAC
1 CCACACAATCACCGGGCCCATCAACAGCAC
* *
74762910 CCACACAATTACCGGGCCCATCAACAGCGC
1 CCACACAATCACCGGGCCCATCAACAGCAC
74762940 CCACA
1 CCACA
74762945 TAGCCACCTG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.32, C:0.42, G:0.15, T:0.11
Consensus pattern (30 bp):
CCACACAATCACCGGGCCCATCAACAGCAC
Found at i:74763597 original size:131 final size:131
Alignment explanation
Indices: 74763462--74763726 Score: 471
Period size: 131 Copynumber: 2.0 Consensus size: 131
74763452 TGTAGAAACT
*
74763462 TTTTTTATATAGTTT-TATATAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTT
1 TTTTTTATATAGTTTCAAT-TAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTT
*
74763526 TTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTTATTATTTTTATA-TT
65 TTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATA-TTTTTATTATTTATATAGTT
74763590 TAA
129 TAA
74763593 TTTTTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
1 TTTTTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
74763658 TTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTATTATTTATATAGTTTT
66 TTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTATTATTTATATAG-TTT
74763723 AA
130 AA
74763725 TT
1 TT
74763727 AATAAAATAA
Statistics
Matches: 129, Mismatches: 2, Indels: 5
0.95 0.01 0.04
Matches are distributed among these distances:
130 16 0.12
131 104 0.81
132 9 0.07
ACGTcount: A:0.34, C:0.04, G:0.05, T:0.57
Consensus pattern (131 bp):
TTTTTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
TTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTATTATTTATATAGTTTA
A
Found at i:74763727 original size:114 final size:117
Alignment explanation
Indices: 74763596--74763826 Score: 414
Period size: 116 Copynumber: 2.0 Consensus size: 117
74763586 TATTTAATTT
74763596 TTTATATAGTTTCAATTAATAAAATAAAAGTTG-TTTTTAATATTTTAATTGTAC-TTTACTTTT
1 TTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTTAATATTTTAATTGTACTTTTACTTTT
*
74763659 TTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAAT-ATTTTTATTA
66 TTTAATTTTAATAAAATAAATGTTCTTTTAAATTAGCCAATAATTTTTATTA
*
74763710 TTTATATAGTTTTAATTAATAAAATAAAAGTTGTTTTTTAATATTTTAATTGTACTTTTACTTTT
1 TTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTTAATATTTTAATTGTACTTTTACTTTT
*
74763775 TTTAATTTTAATACAATAAATGTTCTTTTAAATTAGCCAATAATTTTTATTA
66 TTTAATTTTAATAAAATAAATGTTCTTTTAAATTAGCCAATAATTTTTATTA
74763827 AAATAAATGT
Statistics
Matches: 111, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
114 32 0.29
115 21 0.19
116 48 0.43
117 10 0.09
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.54
Consensus pattern (117 bp):
TTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTTAATATTTTAATTGTACTTTTACTTTT
TTTAATTTTAATAAAATAAATGTTCTTTTAAATTAGCCAATAATTTTTATTA
Found at i:74769312 original size:30 final size:28
Alignment explanation
Indices: 74769258--74769392 Score: 81
Period size: 30 Copynumber: 4.5 Consensus size: 28
74769248 AATTTTTTAG
* *
74769258 AATTTTACTTAAACCTACAAAAGTTTTAAA
1 AATTTTAATTAAA-CT-CTAAAGTTTTAAA
*
74769288 AATTTTAATTAAAGCTCTATAAGTTTTAGA
1 AATTTTAATTAAA-CTCTA-AAGTTTTAAA
* * * **
74769318 GATTTTCATTAATTCTCTCAATTTTTTAAAAA
1 AATTTTAATTAA-ACTCT-AAAGTTTT--AAA
* *
74769350 AATTTTAATTAAACCCTAAAAATTTTAAA
1 AATTTTAATTAAACTCT-AAAGTTTTAAA
* *
74769379 AATTCTCATTAAAC
1 AATTTTAATTAAAC
74769393 CCCTCAAAAA
Statistics
Matches: 81, Mismatches: 19, Indels: 11
0.73 0.17 0.10
Matches are distributed among these distances:
29 17 0.21
30 42 0.52
31 10 0.12
32 12 0.15
ACGTcount: A:0.43, C:0.12, G:0.04, T:0.41
Consensus pattern (28 bp):
AATTTTAATTAAACTCTAAAGTTTTAAA
Found at i:74769389 original size:29 final size:31
Alignment explanation
Indices: 74769347--74769420 Score: 89
Period size: 31 Copynumber: 2.5 Consensus size: 31
74769337 AATTTTTTAA
* *
74769347 AAAAATTTTAATTAAA-CCCT-AAAAATTTT
1 AAAAATTCTAATTAAACCCCTCAAAAATTCT
*
74769376 AAAAATTCTCATTAAACCCCTCAAAAATTCT
1 AAAAATTCTAATTAAACCCCTCAAAAATTCT
* *
74769407 GAAAATTTTAATTA
1 AAAAATTCTAATTA
74769421 GATGCTTACA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
29 14 0.38
30 4 0.11
31 19 0.51
ACGTcount: A:0.49, C:0.15, G:0.01, T:0.35
Consensus pattern (31 bp):
AAAAATTCTAATTAAACCCCTCAAAAATTCT
Found at i:74773342 original size:13 final size:13
Alignment explanation
Indices: 74773324--74773348 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
74773314 TAATCCACAA
74773324 GTTTCGCATGGTG
1 GTTTCGCATGGTG
74773337 GTTTCGCATGGT
1 GTTTCGCATGGT
74773349 AGAGGTGTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.16, G:0.36, T:0.40
Consensus pattern (13 bp):
GTTTCGCATGGTG
Found at i:74775545 original size:29 final size:29
Alignment explanation
Indices: 74775502--74775575 Score: 78
Period size: 31 Copynumber: 2.5 Consensus size: 29
74775492 CAATTCAAGT
* *
74775502 TTCATATGTATAATTGCAC-CAAATTAAAA
1 TTCATATATA-AATTGCACACAAATCAAAA
* *
74775531 TTCATGTATCAAATTGCACATCAGATCAAAA
1 TTCATATAT-AAATTGCACA-CAAATCAAAA
74775562 TTCATATATAAATT
1 TTCATATATAAATT
74775576 TAATATTTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
29 15 0.41
30 6 0.16
31 16 0.43
ACGTcount: A:0.43, C:0.15, G:0.07, T:0.35
Consensus pattern (29 bp):
TTCATATATAAATTGCACACAAATCAAAA
Found at i:74781673 original size:20 final size:19
Alignment explanation
Indices: 74781650--74781694 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
74781640 AGGGACTAAA
74781650 ATGAAAATTTGTAAAATTTG
1 ATGAAAATTT-TAAAATTTG
*
74781670 ATGAAAAATTTTAAAATTTT
1 ATG-AAAATTTTAAAATTTG
74781690 ATGAA
1 ATGAA
74781695 TACATGTGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 2 0.09
20 14 0.61
21 7 0.30
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.40
Consensus pattern (19 bp):
ATGAAAATTTTAAAATTTG
Found at i:74782561 original size:19 final size:20
Alignment explanation
Indices: 74782532--74782571 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
74782522 CAATAGACAT
74782532 AAAACTCTTGACATGGCATG
1 AAAACTCTTGACATGGCATG
* *
74782552 AAAA-TCTTGAGATGGTATG
1 AAAACTCTTGACATGGCATG
74782571 A
1 A
74782572 TAATGACTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.28
Consensus pattern (20 bp):
AAAACTCTTGACATGGCATG
Found at i:74792996 original size:19 final size:19
Alignment explanation
Indices: 74792972--74793009 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
74792962 CGGATACCTA
74792972 TAAAATAAATCCATATGTT
1 TAAAATAAATCCATATGTT
*
74792991 TAAAATAAATCTATATGTT
1 TAAAATAAATCCATATGTT
74793010 ATCCCCACAT
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:0.47, C:0.08, G:0.05, T:0.39
Consensus pattern (19 bp):
TAAAATAAATCCATATGTT
Found at i:74796065 original size:46 final size:46
Alignment explanation
Indices: 74796014--74796286 Score: 343
Period size: 46 Copynumber: 5.9 Consensus size: 46
74796004 GTGTGCTCTC
** * *
74796014 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACAATGGCAACC
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
** * *
74796060 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCTACT
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
74796106 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
* * *
74796152 TGACGA-GAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCG
1 TGA-TATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
* * *
74796198 TGACATGAAATGAATAAGACCATGGCTGAAAGATACCATGACAACA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
* * * * *
74796244 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGATATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCA
74796287 TCATATCAAA
Statistics
Matches: 203, Mismatches: 21, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
45 2 0.01
46 200 0.99
47 1 0.00
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.21
Consensus pattern (46 bp):
TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:74805375 original size:14 final size:15
Alignment explanation
Indices: 74805351--74805381 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
74805341 ATATATATTT
74805351 ATAATTATTAAATAA
1 ATAATTATTAAATAA
74805366 ATAA-TATTAAATAA
1 ATAATTATTAAATAA
74805380 AT
1 AT
74805382 TTTAAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
ATAATTATTAAATAA
Found at i:74806899 original size:37 final size:38
Alignment explanation
Indices: 74806824--74806905 Score: 148
Period size: 38 Copynumber: 2.2 Consensus size: 38
74806814 TAAATCAAAA
*
74806824 TTTC-TCATTTTGGAGAAACTAATTGTGATGTCATTTT
1 TTTCTTCATTTTGAAGAAACTAATTGTGATGTCATTTT
74806861 TTTCTTCATTTTGAAGAAACTAATTGTGATGTCATTTT
1 TTTCTTCATTTTGAAGAAACTAATTGTGATGTCATTTT
74806899 TTTCTTC
1 TTTCTTC
74806906 TAGATAAGAG
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 4 0.09
38 39 0.91
ACGTcount: A:0.23, C:0.12, G:0.13, T:0.51
Consensus pattern (38 bp):
TTTCTTCATTTTGAAGAAACTAATTGTGATGTCATTTT
Found at i:74809423 original size:3 final size:3
Alignment explanation
Indices: 74809415--74809501 Score: 51
Period size: 3 Copynumber: 30.7 Consensus size: 3
74809405 TAATTTAATG
* * * ** *
74809415 TTA TTA TTA CTA TAA TTA -TA TT- TTA TTT TTA TGC TTA TTA TTA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
74809461 -TA TTA TTA -TA TTA TTAA TT- TTA -TA TTA CTA TTA CTA TTA TT
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TT
74809502 TTTGTGTTTC
Statistics
Matches: 62, Mismatches: 15, Indels: 14
0.68 0.16 0.15
Matches are distributed among these distances:
2 12 0.19
3 47 0.76
4 3 0.05
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:74809440 original size:22 final size:21
Alignment explanation
Indices: 74809415--74809491 Score: 54
Period size: 22 Copynumber: 3.6 Consensus size: 21
74809405 TAATTTAATG
74809415 TTATTATTACTATAATTATATT
1 TTATTATTACTAT-ATTATATT
* *
74809437 TTATTTTTATGCT-TATTATTAAT
1 TTATTATTA--CTATATTA-TATT
*
74809460 ATATTATTA-TATTATTA-ATT
1 TTATTATTACTA-TATTATATT
74809480 TTA-TATTACTAT
1 TTATTATTACTAT
74809492 TACTATTATT
Statistics
Matches: 43, Mismatches: 6, Indels: 15
0.67 0.09 0.23
Matches are distributed among these distances:
19 6 0.14
20 7 0.16
22 17 0.40
23 11 0.26
24 2 0.05
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (21 bp):
TTATTATTACTATATTATATT
Found at i:74818796 original size:26 final size:26
Alignment explanation
Indices: 74818767--74818819 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
74818757 TCAAACATGC
74818767 ATTTAAGTCAATTTAAC-CCTAGGGGT
1 ATTTAAGT-AATTTAACTCCTAGGGGT
** *
74818793 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAAGTAATTTAACTCCTAGGGGT
74818819 A
1 A
74818820 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAAGTAATTTAACTCCTAGGGGT
Found at i:74820335 original size:26 final size:26
Alignment explanation
Indices: 74820304--74820411 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
74820294 TGAAATGCCC
*
74820304 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
74820330 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
74820356 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
74820382 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
74820408 ATCA
1 ATCA
74820412 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:74825435 original size:32 final size:34
Alignment explanation
Indices: 74825399--74825463 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 34
74825389 TAACAGTGGT
*
74825399 ACTAGACCAGAGCCC-TT-TTCAGATTACAATAA
1 ACTAGACCAGAGCCCTTTATTCAGATAACAATAA
* **
74825431 ACTAGGCCTTAGCCCTTTATTCAGATAACAATA
1 ACTAGACCAGAGCCCTTTATTCAGATAACAATA
74825464 TGGCCCATAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 12 0.44
33 2 0.07
34 13 0.48
ACGTcount: A:0.35, C:0.25, G:0.12, T:0.28
Consensus pattern (34 bp):
ACTAGACCAGAGCCCTTTATTCAGATAACAATAA
Found at i:74825800 original size:26 final size:26
Alignment explanation
Indices: 74825771--74825823 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
74825761 TCAAACATGC
74825771 ATTTAAGTCAATTTAAC-CCTAGGGGT
1 ATTTAAGT-AATTTAACTCCTAGGGGT
** *
74825797 ATTTTGGTAATTTATCTCCTAGGGGT
1 ATTTAAGTAATTTAACTCCTAGGGGT
74825823 A
1 A
74825824 AAATTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.40
Consensus pattern (26 bp):
ATTTAAGTAATTTAACTCCTAGGGGT
Found at i:74827346 original size:26 final size:26
Alignment explanation
Indices: 74827309--74827417 Score: 182
Period size: 26 Copynumber: 4.2 Consensus size: 26
74827299 ATGAAATGTC
*
74827309 TATCATGGAACATTTACCTAAACCAT
1 TATCATGGAACATTTACCTAACCCAT
*
74827335 TATCATGAAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
* *
74827361 TATCATGGAATATTTACCTAATCCAT
1 TATCATGGAACATTTACCTAACCCAT
74827387 TATCATGGAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
74827413 TATCA
1 TATCA
74827418 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.33
Consensus pattern (26 bp):
TATCATGGAACATTTACCTAACCCAT
Found at i:74831331 original size:16 final size:16
Alignment explanation
Indices: 74831289--74831338 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
74831279 TTCGGAACAG
74831289 GCAAATAATAATAAAAA
1 GCAAATAAT-ATAAAAA
* * *
74831306 GTAAAGAATATACAAA
1 GCAAATAATATAAAAA
74831322 GCAAATAATATATAAAA
1 GCAAATAATATA-AAAA
74831339 CATTAACGAT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
16 16 0.62
17 10 0.38
ACGTcount: A:0.66, C:0.06, G:0.08, T:0.20
Consensus pattern (16 bp):
GCAAATAATATAAAAA
Found at i:74831637 original size:25 final size:25
Alignment explanation
Indices: 74831545--74831678 Score: 88
Period size: 25 Copynumber: 5.5 Consensus size: 25
74831535 ACGATATATG
*
74831545 AATATATACAT-ATAT-GTATT-AA
1 AATATATACATAATATAGTCTTAAA
* ***
74831567 AATATATACGTAATAATAGGAATAAA
1 AATATATACATAAT-ATAGTCTTAAA
*
74831593 AGGTATATACAT-A-ATA---TTAAA
1 A-ATATATACATAATATAGTCTTAAA
*
74831614 AATATGTACATAATATAG-CGTTAAA
1 AATATATACATAATATAGTC-TTAAA
*
74831639 AATACATACATAATATAGTTCTTAAAA
1 AATATATACATAATATAG-TCTT-AAA
74831666 AATATATACATAA
1 AATATATACATAA
74831679 GATAATATGT
Statistics
Matches: 88, Mismatches: 11, Indels: 21
0.73 0.09 0.17
Matches are distributed among these distances:
20 8 0.09
21 6 0.07
22 13 0.15
23 2 0.02
24 5 0.06
25 24 0.27
26 6 0.07
27 24 0.27
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (25 bp):
AATATATACATAATATAGTCTTAAA
Found at i:74831882 original size:23 final size:23
Alignment explanation
Indices: 74831841--74831919 Score: 81
Period size: 23 Copynumber: 3.4 Consensus size: 23
74831831 AAACGACTAT
*
74831841 TAATAATACTACATAAATATATACA
1 TAATAATATTA-A-AAATATATACA
*
74831866 T-ATATATATTAAAAATAAATACA
1 TAATA-ATATTAAAAATATATACA
* *
74831889 TAATAATATTAAAAGTATGTACA
1 TAATAATATTAAAAATATATACA
74831912 TAA-AATAT
1 TAATAATAT
74831920 ATACATATGA
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
22 5 0.11
23 29 0.62
24 7 0.15
25 6 0.13
ACGTcount: A:0.57, C:0.06, G:0.03, T:0.34
Consensus pattern (23 bp):
TAATAATATTAAAAATATATACA
Found at i:74831992 original size:24 final size:24
Alignment explanation
Indices: 74831912--74831992 Score: 58
Period size: 26 Copynumber: 3.2 Consensus size: 24
74831902 AGTATGTACA
*
74831912 TAAAATATATACATATGATATAGTTAT
1 TAAAAAATATACATA--ATATAG-TAT
* *
74831939 T-GAAAATATGCACATAATACATGTA-
1 TAAAAAATAT--ACATAATATA-GTAT
*
74831964 AAAAAAATATACATAATATAGTAT
1 TAAAAAATATACATAATATAGTAT
74831988 TAAAA
1 TAAAA
74831993 GTATAGTATT
Statistics
Matches: 42, Mismatches: 7, Indels: 13
0.68 0.11 0.21
Matches are distributed among these distances:
23 3 0.07
24 13 0.31
26 19 0.45
27 2 0.05
28 5 0.12
ACGTcount: A:0.54, C:0.06, G:0.07, T:0.32
Consensus pattern (24 bp):
TAAAAAATATACATAATATAGTAT
Found at i:74831999 original size:14 final size:14
Alignment explanation
Indices: 74831980--74832006 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
74831970 ATATACATAA
74831980 TATAGTATTAAAAG
1 TATAGTATTAAAAG
74831994 TATAGTATTAAAA
1 TATAGTATTAAAA
74832007 AAACATGATG
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:0.52, C:0.00, G:0.11, T:0.37
Consensus pattern (14 bp):
TATAGTATTAAAAG
Found at i:74832112 original size:27 final size:27
Alignment explanation
Indices: 74832051--74832154 Score: 70
Period size: 27 Copynumber: 3.8 Consensus size: 27
74832041 TGTTAAAAAC
* * *
74832051 AAATATTAATAAT-ATATACATAAATAT
1 AAATAATAATAATCATAAAAAT-AATAT
* *
74832078 ATACAATAATAATCATAAAAATAATAT
1 AAATAATAATAATCATAAAAATAATAT
*
74832105 AAATAAT-AT-GTACATGAAAAATAATAAT
1 AAATAATAATAAT-CAT-AAAAATAAT-AT
* *
74832133 AATATAATAATGATAATAAAAA
1 AA-ATAATAATAATCATAAAAA
74832155 ACAAAAAAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
25 1 0.02
26 5 0.08
27 29 0.48
28 10 0.17
29 10 0.17
30 4 0.07
31 1 0.02
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.31
Consensus pattern (27 bp):
AAATAATAATAATCATAAAAATAATAT
Found at i:74832127 original size:24 final size:24
Alignment explanation
Indices: 74832058--74832138 Score: 78
Period size: 24 Copynumber: 3.4 Consensus size: 24
74832048 AACAAATATT
*
74832058 AATAATATATACATAAATATATAC
1 AATAATATATACATAAAAATATAC
*
74832082 AATAATA-AT-CATAAAAATAATATA
1 AATAATATATACATAAAAAT-ATA-C
* *
74832106 AATAATATGTACATGAAAAATA-AT
1 AATAATATATACAT-AAAAATATAC
74832130 AATAATATA
1 AATAATATA
74832139 ATAATGATAA
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
22 8 0.17
23 5 0.11
24 22 0.47
25 2 0.04
26 4 0.09
27 6 0.13
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.31
Consensus pattern (24 bp):
AATAATATATACATAAAAATATAC
Found at i:74833994 original size:71 final size:71
Alignment explanation
Indices: 74833877--74834031 Score: 240
Period size: 71 Copynumber: 2.2 Consensus size: 71
74833867 TTGAAAAACG
*
74833877 GAAATTGAAAAAACCTCAGCGTGTCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 GAAATTGAAAAAACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT
74833942 GA-AACA
65 GACAACA
* * * *
74833948 TAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACTTCTCGTAATATGAGTTGATTTTG
1 GAAATTGAAAAAACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTG
74834013 ACGAACA
66 AC-AACA
74834020 GAAATTGAAAAA
1 GAAATTGAAAAA
74834032 TAGAAATTGA
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
70 6 0.08
71 55 0.73
72 14 0.19
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (71 bp):
GAAATTGAAAAAACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTG
ACAACA
Found at i:74834089 original size:88 final size:86
Alignment explanation
Indices: 74833949--74834119 Score: 245
Period size: 88 Copynumber: 2.0 Consensus size: 86
74833939 TTTGAAACAT
* *
74833949 AAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACTTCTCGTAATATGAGTTGA-TTTTG
1 AAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTG
74834013 ACGAACAGAAATTGAAAAATAG
66 ACGAACAGAAATT-AAAAATAG
* * *
74834035 AAATTGAAAATACCTCAGCATGTGAGCCGGGGCTTAACTCACCTCTCGTAATATGAGTTGATTTT
1 AAATTGAAAATACCTCAGC--GTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGA-TTT
*
74834100 TTGATGAACAGAAATTAAAA
63 TTGACGAACAGAAATTAAAA
74834120 TTACCTCAGC
Statistics
Matches: 75, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
86 19 0.25
88 35 0.47
89 4 0.05
90 17 0.23
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.28
Consensus pattern (86 bp):
AAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTG
ACGAACAGAAATTAAAAATAG
Found at i:74834164 original size:162 final size:156
Alignment explanation
Indices: 74833816--74834258 Score: 495
Period size: 162 Copynumber: 2.9 Consensus size: 156
74833806 CGGCATGTGA
* * * * *
74833816 CCCGAGGCTCAACTCACCTCTAGCAATATGAGCTGATTTTTTAAACATAAATTGAAAAACGGAAA
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACAGAAATTGAAAAACAGAAA
*
74833881 TTGAAAAAACCTCAGCGTGTCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
66 TTGAAAAAACCTCAGCGTGGCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
*
74833946 CATAAATTGAAAATACCTCAGCGTGT
131 CAGAAATTGAAAATACCTCAGCGTGT
* * *
74833972 CCCGAGGCTCAACTCACTTCTCGTAATATGAGTTGA-TTTTGACGAACAGAAATTGAAAAATAGA
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA--AACAGAAATTGAAAAACAGA
* * * *
74834036 AATTGAAAATACCTCAGCATGTGAGC-CGGGGCTTAACTCACCTCTCGTAATATGAGTTGATTTT
64 AATTGAAAAAACCTCAGC--GTG-GCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT
74834100 TTGATGAACAGAAATT-AAAATTACCTCAGCGTGT
125 TTGA--AACAGAAATTGAAAA-TACCTCAGCGTGT
* *
74834134 CCTGAGGCTCAACTCACCTCTCCCAATATGAGTTGATTTTT------GAAA--G----ACAGAAA
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACAGAAATTGAAAAACAGAAA
** * * *
74834187 TTGAAAGTACCTCAACGT-GTTCTGAGGCTCAACTCACCTCTCGGAATATGAGTTGATTTTTGAA
66 TTGAAAAAACCTCAGCGTGGCTC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAA
74834251 ACAGAAAT
130 ACAGAAAT
74834259 AAAAATATCA
Statistics
Matches: 250, Mismatches: 25, Indels: 36
0.80 0.08 0.12
Matches are distributed among these distances:
144 9 0.04
145 1 0.00
146 8 0.03
147 32 0.13
149 20 0.08
153 1 0.00
155 9 0.04
156 32 0.13
157 34 0.14
159 34 0.14
160 8 0.03
161 4 0.02
162 54 0.22
163 4 0.02
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (156 bp):
CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACAGAAATTGAAAAACAGAAA
TTGAAAAAACCTCAGCGTGGCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
CAGAAATTGAAAATACCTCAGCGTGT
Found at i:74834212 original size:73 final size:72
Alignment explanation
Indices: 74834065--74834263 Score: 274
Period size: 73 Copynumber: 2.7 Consensus size: 72
74834055 TGTGAGCCGG
* * * * *
74834065 GGCTTAACTCACCTCTCGTAATATGAGTTGATTTTTTGATGAACAGAAATTAAAATTACCTCAGC
1 GGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAG-ACAGAAATTAAAAGTACCTCAAC
74834130 GTGTCCTGA
64 GTGTCCTGA
* *
74834139 GGCTCAACTCACCTCTCCCAATATGAGTTGATTTTTGAAAGACAGAAATTGAAAGTACCTCAACG
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAGACAGAAATTAAAAGTACCTCAACG
*
74834204 TGTTCTGA
65 TGTCCTGA
* *
74834212 GGCTCAACTCACCTCTCGGAATATGAGTTGATTTTTGAA-ACAGAAATAAAAA
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAGACAGAAATTAAAA
74834264 TATCAGAATA
Statistics
Matches: 112, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
71 11 0.10
72 2 0.02
73 69 0.62
74 30 0.27
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.30
Consensus pattern (72 bp):
GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAGACAGAAATTAAAAGTACCTCAACGT
GTCCTGA
Found at i:74854277 original size:27 final size:25
Alignment explanation
Indices: 74854210--74854324 Score: 85
Period size: 25 Copynumber: 4.6 Consensus size: 25
74854200 ATATACATAA
*
74854210 TATTAAAAATATGTACATAATATAG
1 TATTAAAAATATATACATAATATAG
** * *
74854235 CGTTAAAAGTACATACATAATATAG
1 TATTAAAAATATATACATAATATAG
* *
74854260 TTATTAAAAAATATATACATAAGATAA
1 -TATT-AAAAATATATACATAATATAG
*
74854287 TATGTAAAAA-A-AT--GTAATATAG
1 TAT-TAAAAATATATACATAATATAG
* *
74854309 TATTAGAAACATATAC
1 TATTAAAAATATATAC
74854325 GTGACATATA
Statistics
Matches: 68, Mismatches: 15, Indels: 14
0.70 0.15 0.14
Matches are distributed among these distances:
21 5 0.07
22 10 0.15
23 2 0.03
24 2 0.03
25 21 0.31
26 10 0.15
27 18 0.26
ACGTcount: A:0.53, C:0.06, G:0.09, T:0.32
Consensus pattern (25 bp):
TATTAAAAATATATACATAATATAG
Found at i:74854404 original size:24 final size:22
Alignment explanation
Indices: 74854358--74854528 Score: 72
Period size: 23 Copynumber: 7.8 Consensus size: 22
74854348 TTAAAAAGAT
*
74854358 ATATATACGTAATATATAAAAA
1 ATATATACATAATATATAAAAA
* *
74854380 ATGTATACATAATATAGTATTAAA
1 ATATATACATAATATA-TA-AAAA
* * *
74854404 ATATTTACATAGTATAT---AC
1 ATATATACATAATATATAAAAA
*
74854423 ATAT-TAGA-AATA-A-AAAAA
1 ATATATACATAATATATAAAAA
* *
74854441 ATGACTATTA-ATAATACTA-CATAA
1 AT-A-TA-TACATAATA-TATAAAAA
*
74854465 ATATATACATATATATATTAAAA
1 ATATATACATA-ATATATAAAAA
* *
74854488 ATAAATACATAATAATATTAAAA
1 ATATATACATAAT-ATATAAAAA
* * *
74854511 GTATGTACATAAAATATA
1 ATATATACATAATATATA
74854529 TACATATGAT
Statistics
Matches: 113, Mismatches: 20, Indels: 32
0.68 0.12 0.19
Matches are distributed among these distances:
16 1 0.01
17 3 0.03
18 6 0.05
19 6 0.05
20 1 0.01
21 3 0.03
22 33 0.29
23 38 0.34
24 22 0.19
ACGTcount: A:0.56, C:0.06, G:0.05, T:0.34
Consensus pattern (22 bp):
ATATATACATAATATATAAAAA
Found at i:74854490 original size:23 final size:23
Alignment explanation
Indices: 74854449--74854527 Score: 81
Period size: 23 Copynumber: 3.4 Consensus size: 23
74854439 AAATGACTAT
*
74854449 TAATAATACTACATAAATATATACA
1 TAATAATATTA-A-AAATATATACA
*
74854474 T-ATATATATTAAAAATAAATACA
1 TAATA-ATATTAAAAATATATACA
* *
74854497 TAATAATATTAAAAGTATGTACA
1 TAATAATATTAAAAATATATACA
74854520 TAA-AATAT
1 TAATAATAT
74854528 ATACATATGA
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
22 5 0.11
23 29 0.62
24 7 0.15
25 6 0.13
ACGTcount: A:0.57, C:0.06, G:0.03, T:0.34
Consensus pattern (23 bp):
TAATAATATTAAAAATATATACA
Found at i:74854821 original size:3 final size:3
Alignment explanation
Indices: 74854786--74854919 Score: 69
Period size: 3 Copynumber: 44.0 Consensus size: 3
74854776 CATATAAGTG
* * * * *
74854786 TAA TAA TAG TAA TTA TAA TAC TAA TAC TAA TAA TAA -ATA TAA TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA
* * * * *
74854831 TAG TAA AAA TAA -ATA CAA TAA TAA TAA TCA TAA AAA TAA T-A TAAA
1 TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA
* * *
74854876 TAA TATG TACA TGAA AAA TAA TAA TAA T-A TAA TAA TGA TAA TAA
1 TAA TA-A TA-A T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
74854920 AAAACAAAAA
Statistics
Matches: 98, Mismatches: 24, Indels: 18
0.70 0.17 0.13
Matches are distributed among these distances:
2 6 0.06
3 83 0.85
4 8 0.08
5 1 0.01
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:74855686 original size:21 final size:22
Alignment explanation
Indices: 74855653--74855696 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
74855643 AAAAATCACC
74855653 TTTGTTTCCGATT-T-TGATTT
1 TTTGTTTCCGATTCTCTGATTT
*
74855673 TTTGTTTTCTGATTCTCTGATTT
1 TTTG-TTTCCGATTCTCTGATTT
74855696 T
1 T
74855697 GGGTTCGTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 4 0.20
21 8 0.40
22 1 0.05
23 7 0.35
ACGTcount: A:0.09, C:0.11, G:0.14, T:0.66
Consensus pattern (22 bp):
TTTGTTTCCGATTCTCTGATTT
Found at i:74856836 original size:100 final size:100
Alignment explanation
Indices: 74856648--74856952 Score: 513
Period size: 100 Copynumber: 3.0 Consensus size: 100
74856638 GACAGATCAG
* * * * * * *
74856648 ACAACTCACAAATCCTATACCCCTGAAGTTGCAGTGGGA-TGGATTGAAGTTATCATGGCGAATC
1 ACAAGTCATAAATCTTATACCTCTAAAGTTACAGTAGGACT-GATTGAAGTTATCATGGCGAATC
74856712 TAGTTCCCTGAAGTTGCAGTGGAATAGATTTAAGCT
65 TAGTTCCCTGAAGTTGCAGTGGAATAGATTTAAGCT
* *
74856748 ACAAGTCATAAATTTTATACCTCTAAAGTTACAGTAGGACTGATTGAAGTTATCATGGCAAATCT
1 ACAAGTCATAAATCTTATACCTCTAAAGTTACAGTAGGACTGATTGAAGTTATCATGGCGAATCT
74856813 AGTTCCCTGAAGTTGCAGTGGAATAGATTTAAGCT
66 AGTTCCCTGAAGTTGCAGTGGAATAGATTTAAGCT
74856848 ACAAGTCATAAATCTTATACCTCTAAAGTTACAGTAGGACTGATTGAAGTTATCATGGCGAATCT
1 ACAAGTCATAAATCTTATACCTCTAAAGTTACAGTAGGACTGATTGAAGTTATCATGGCGAATCT
74856913 AGTTCCCTGAAGTTGCAGTGGAATAGATTTAAGCT
66 AGTTCCCTGAAGTTGCAGTGGAATAGATTTAAGCT
74856948 ACAAG
1 ACAAG
74856953 CCTTATCTCC
Statistics
Matches: 193, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
100 192 0.99
101 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.30
Consensus pattern (100 bp):
ACAAGTCATAAATCTTATACCTCTAAAGTTACAGTAGGACTGATTGAAGTTATCATGGCGAATCT
AGTTCCCTGAAGTTGCAGTGGAATAGATTTAAGCT
Found at i:74856926 original size:49 final size:49
Alignment explanation
Indices: 74856668--74856941 Score: 227
Period size: 49 Copynumber: 5.5 Consensus size: 49
74856658 AATCCTATAC
* * *
74856668 CCCTGAAGTTGCAGTGGGATGGATTGAAGTTATCATGGCGAATCTAGTT
1 CCCTGAAGTTGCAGTGGAATAGATTGAAGTTATCATGGCAAATCTAGTT
* * * * * *
74856717 CCCTGAAGTTGCAGTGGAATAGATTTAAGCTA-CAAGTCATAAATTTTA-TA
1 CCCTGAAGTTGCAGTGGAATAGATTGAAGTTATCATGGC--AAA-TCTAGTT
* * *
74856767 CCTCTAAAGTTACAGTAGGACT-GATTGAAGTTATCATGGCAAATCTAGTT
1 CC-CTGAAGTTGCAGT-GGAATAGATTGAAGTTATCATGGCAAATCTAGTT
* * * * *
74856817 CCCTGAAGTTGCAGTGGAATAGATTTAAGCTA-CAAGTCATAAATCTTA-TA
1 CCCTGAAGTTGCAGTGGAATAGATTGAAGTTATCATGGC--AAATC-TAGTT
* * * *
74856867 CCTCTAAAGTTACAGTAGGACT-GATTGAAGTTATCATGGCGAATCTAGTT
1 CC-CTGAAGTTGCAGT-GGAATAGATTGAAGTTATCATGGCAAATCTAGTT
74856917 CCCTGAAGTTGCAGTGGAATAGATT
1 CCCTGAAGTTGCAGTGGAATAGATT
74856942 TAAGCTACAA
Statistics
Matches: 171, Mismatches: 38, Indels: 32
0.71 0.16 0.13
Matches are distributed among these distances:
48 16 0.09
49 68 0.40
50 26 0.15
51 45 0.26
52 16 0.09
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.31
Consensus pattern (49 bp):
CCCTGAAGTTGCAGTGGAATAGATTGAAGTTATCATGGCAAATCTAGTT
Found at i:74857009 original size:45 final size:44
Alignment explanation
Indices: 74856916--74857254 Score: 259
Period size: 44 Copynumber: 7.5 Consensus size: 44
74856906 CGAATCTAGT
* ** * * * **
74856916 TCCCTGAAGTTGCAGTGGAATAGATTTAAGCTACAAGCCTTATC
1 TCCCTAAAGTTGCAGTGGAGCAGACTGAAGATACAAATCTTATC
* * *
74856960 TCCCTAAAGTTGCAGTAGAGCAGACTGAAGATAACGAATCTTATT
1 TCCCTAAAGTTGCAGTGGAGCAGACTGAAGAT-ACAAATCTTATC
* * *
74857005 TCCCTAAAGTTGCAATGGAATAGATTAAAGCTGCAA-ATTACAAATCTTATC
1 TCCCTAAAGTTGCAGTGG---AG--CAGA-CTG-AAGA-TACAAATCTTATC
* * * *
74857056 TCCTTAAAGTTGCAGTGGAGCAAATTGAAGATAGCAAACCTTATC
1 TCCCTAAAGTTGCAGTGGAGCAGACTGAAGATA-CAAATCTTATC
* * * * ** * *
74857101 TCTCTGAAGTTGCAATAGAGCAGGTTGAA-ATTACAATTCTTCTC
1 TCCCTAAAGTTGCAGTGGAGCAGACTGAAGA-TACAAATCTTATC
** *
74857145 TCCCTGGAGTTGCAGTGGAGCAGACTGAAGATACCAATCTTATC
1 TCCCTAAAGTTGCAGTGGAGCAGACTGAAGATACAAATCTTATC
* * * * *
74857189 TCCCTAAAGTTGCAGCGGAGCAGATTGAAGCTACCAATCCTATC
1 TCCCTAAAGTTGCAGTGGAGCAGACTGAAGATACAAATCTTATC
74857233 TCCCTAAAGTTGCAGTGGAGCA
1 TCCCTAAAGTTGCAGTGGAGCA
74857255 AATTAAAGCA
Statistics
Matches: 234, Mismatches: 48, Indels: 26
0.76 0.16 0.08
Matches are distributed among these distances:
44 130 0.56
45 62 0.26
46 3 0.01
48 4 0.02
50 2 0.01
51 30 0.13
52 3 0.01
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.27
Consensus pattern (44 bp):
TCCCTAAAGTTGCAGTGGAGCAGACTGAAGATACAAATCTTATC
Found at i:74857029 original size:89 final size:89
Alignment explanation
Indices: 74856916--74857254 Score: 313
Period size: 89 Copynumber: 3.7 Consensus size: 89
74856906 CGAATCTAGT
* * * * * *
74856916 TCCCTGAAGTTGCAGTGGAATAGATTTAAGCTACAAGCCTTATCTCCCTAAAGTTGCAGTAGAGC
1 TCCCTAAAGTTGCAATGGAACAGATTGAAGCTACAATCCTTATCTCCCTAAAGTTGCAGTGGAGC
*
74856981 AGACTGAAGATAACGAATCTTATT
66 AGACTGAAGATAACGAATCTTATC
* * * *
74857005 TCCCTAAAGTTGCAATGGAATAGATTAAAGCTGCAAATTACAAATCTTATCTCCTTAAAGTTGCA
1 TCCCTAAAGTTGCAATGGAACAGATTGAAGCTAC-AA-T-C----CTTATCTCCCTAAAGTTGCA
* * * * *
74857070 GTGGAGCAAATTGAAGATAGCAAACCTTATC
59 GTGGAGCAGACTGAAGATAACGAATCTTATC
* * * * * ** * * **
74857101 TCTCTGAAGTTGCAATAGAGCAGGTTGAAATTACAATTCTTCTCTCCCTGGAGTTGCAGTGGAGC
1 TCCCTAAAGTTGCAATGGAACAGATTGAAGCTACAATCCTTATCTCCCTAAAGTTGCAGTGGAGC
*
74857166 AGACTGAAGAT-ACCAATCTTATC
66 AGACTGAAGATAACGAATCTTATC
** *
74857189 TCCCTAAAGTTGCAGCGGAGCAGATTGAAGCTACCAATCC-TATCTCCCTAAAGTTGCAGTGGAG
1 TCCCTAAAGTTGCAATGGAACAGATTGAAGCTA-CAATCCTTATCTCCCTAAAGTTGCAGTGGAG
74857253 CA
65 CA
74857255 AATTAAAGCA
Statistics
Matches: 197, Mismatches: 45, Indels: 17
0.76 0.17 0.07
Matches are distributed among these distances:
88 57 0.29
89 67 0.34
90 2 0.01
92 1 0.01
94 1 0.01
95 2 0.01
96 67 0.34
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.27
Consensus pattern (89 bp):
TCCCTAAAGTTGCAATGGAACAGATTGAAGCTACAATCCTTATCTCCCTAAAGTTGCAGTGGAGC
AGACTGAAGATAACGAATCTTATC
Found at i:74857434 original size:141 final size:141
Alignment explanation
Indices: 74857180--74857461 Score: 431
Period size: 141 Copynumber: 2.0 Consensus size: 141
74857170 TGAAGATACC
* * * *
74857180 AATCTTATCTCCCTAAAGTTGCAGCGGAGCAGATTGAAGCTACCAATCCTATCTCCCTAAAGTTG
1 AATCTTATCACCCTAAAGTTGCAACGGAACAGATTGAAGCTACCAATCCTATCTCCCTAAAGTTA
*
74857245 CAGTGGAGCAAATTAAAGCAACAAATCCTATACCTTTGAAGTTACAGTAGGTCGAATTAAATCTA
66 CAGTGGAGCAAATTAAAGCAACAAATCCTATACCTCTGAAGTTACAGTAGGTCGAATTAAATCTA
74857310 CTATAACTACA
131 CTATAACTACA
* *
74857321 AATCTTATCACCCTGAAA-TTGCAACGGAACAGATTGAAGCTACTAATCCTATCTCCCTGAAGTT
1 AATCTTATCACCCT-AAAGTTGCAACGGAACAGATTGAAGCTACCAATCCTATCTCCCTAAAGTT
** ** * *
74857385 ACAGTGGAGCGGATTAAAGTGACAAATCCTATACCTCTGAAGTTGCAGTAGGTCGGATTAAATCT
65 ACAGTGGAGCAAATTAAAGCAACAAATCCTATACCTCTGAAGTTACAGTAGGTCGAATTAAATCT
74857450 ACTATAACTACA
130 ACTATAACTACA
74857462 GGTTGCATGG
Statistics
Matches: 127, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
141 124 0.98
142 3 0.02
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.27
Consensus pattern (141 bp):
AATCTTATCACCCTAAAGTTGCAACGGAACAGATTGAAGCTACCAATCCTATCTCCCTAAAGTTA
CAGTGGAGCAAATTAAAGCAACAAATCCTATACCTCTGAAGTTACAGTAGGTCGAATTAAATCTA
CTATAACTACA
Found at i:74866386 original size:104 final size:104
Alignment explanation
Indices: 74866197--74866505 Score: 361
Period size: 104 Copynumber: 3.0 Consensus size: 104
74866187 TAATATGAAA
* * * ** *
74866197 AATCGGAGGCTGCGAAT-TTAAATTAGCTAGACC-TAGCAAAACCAGCTGTGAATATAGGTCATC
1 AATCAGAGGCTGC-AATCTTAAATTAGCTAG-CCTTAGTAAAATCAGCTGTGAACGTAGGTCAAC
*
74866260 GAGCTGTTAGGAGTTGCAATATTAAATCAACTAACTCAAAT
64 GAGCTGTTAGGAGTTGCGATATTAAATCAACTAACTCAAAT
* * * *
74866301 TATCAGAGGCTGCAATCTTAATTTAGCTAGCCTTAGTAAAATCAGCTGTGAACGTAGTTCAGCGA
1 AATCAGAGGCTGCAATCTTAAATTAGCTAGCCTTAGTAAAATCAGCTGTGAACGTAGGTCAACGA
* *
74866366 GCTGTTAGGAGTTGCGATATTAAACCAACTAACTCTAAT
66 GCTGTTAGGAGTTGCGATATTAAATCAACTAACTCAAAT
* * * * * * * **
74866405 AATCGGAGGTTGCGATCTTAAATCAGCTAGCCTTAGTAAAATTAGTTGTGAACGTAGGCCAATAA
1 AATCAGAGGCTGCAATCTTAAATTAGCTAGCCTTAGTAAAATCAGCTGTGAACGTAGGTCAACGA
* * *
74866470 GCTGTTAGGAGTTGCGATCTTAAATCATCTAGCTCA
66 GCTGTTAGGAGTTGCGATATTAAATCAACTAACTCA
74866506 TAAAATTGGA
Statistics
Matches: 173, Mismatches: 30, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
103 5 0.03
104 168 0.97
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.28
Consensus pattern (104 bp):
AATCAGAGGCTGCAATCTTAAATTAGCTAGCCTTAGTAAAATCAGCTGTGAACGTAGGTCAACGA
GCTGTTAGGAGTTGCGATATTAAATCAACTAACTCAAAT
Done.