Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 196 of 214
Found at i:57272292 original size:17 final size:18
Alignment explanation
Indices: 57272270--57272310 Score: 59
Period size: 16 Copynumber: 2.4 Consensus size: 18
57272260 GATTCATTCA
*
57272270 ATTTTTTATTT-TTTTTT
1 ATTTTTTATTTATTTATT
57272287 A-TTTTTATTTATTTATT
1 ATTTTTTATTTATTTATT
57272304 ATTTTTT
1 ATTTTTT
57272311 CTTCTCTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 9 0.43
17 7 0.33
18 5 0.24
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (18 bp):
ATTTTTTATTTATTTATT
Found at i:57272293 original size:16 final size:17
Alignment explanation
Indices: 57272272--57272309 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
57272262 TTCATTCAAT
*
57272272 TTTTTATTT-TTTTTTA
1 TTTTTATTTATTTATTA
57272288 TTTTTATTTATTTATTA
1 TTTTTATTTATTTATTA
57272305 TTTTT
1 TTTTT
57272310 TCTTCTCTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (17 bp):
TTTTTATTTATTTATTA
Found at i:57272497 original size:3 final size:3
Alignment explanation
Indices: 57272491--57272525 Score: 61
Period size: 3 Copynumber: 11.3 Consensus size: 3
57272481 CTACTACGCG
57272491 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT GTAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT T
57272526 TCTTATATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:57290414 original size:20 final size:20
Alignment explanation
Indices: 57290360--57290411 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
57290350 GTTAATAAAT
** *
57290360 AATTCAAAAATAAAAAATAA
1 AATTCAAAAATAATTATTAA
57290380 AATTCAAAAATAATTATTAA
1 AATTCAAAAATAATTATTAA
57290400 AAGTTCATAAAA
1 AA-TTCA-AAAA
57290412 ATTCAAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 19 0.70
21 4 0.15
22 4 0.15
ACGTcount: A:0.65, C:0.06, G:0.02, T:0.27
Consensus pattern (20 bp):
AATTCAAAAATAATTATTAA
Found at i:57290978 original size:17 final size:17
Alignment explanation
Indices: 57290956--57290998 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
57290946 AGTATATTGA
*
57290956 ATATTAACTT-TTATATT
1 ATATTAAATTATT-TATT
57290973 ATATTAAATTATTTATT
1 ATATTAAATTATTTATT
*
57290990 ATAATAAAT
1 ATATTAAAT
57290999 AATATTAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 21 0.91
18 2 0.09
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (17 bp):
ATATTAAATTATTTATT
Found at i:57291651 original size:15 final size:15
Alignment explanation
Indices: 57291627--57291656 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
57291617 TTAACTCGAT
57291627 ATTAAATTTTTTATA
1 ATTAAATTTTTTATA
*
57291642 ATTAATTTTTTTATA
1 ATTAAATTTTTTATA
57291657 TTGAAATATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTAAATTTTTTATA
Found at i:57294761 original size:19 final size:19
Alignment explanation
Indices: 57294737--57294774 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
57294727 GAGATTTTGT
57294737 ATCTCTGTTCCTACGCTCA
1 ATCTCTGTTCCTACGCTCA
57294756 ATCTCTGTTCCTACGCTCA
1 ATCTCTGTTCCTACGCTCA
57294775 CATGCATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.16, C:0.37, G:0.11, T:0.37
Consensus pattern (19 bp):
ATCTCTGTTCCTACGCTCA
Found at i:57300415 original size:25 final size:25
Alignment explanation
Indices: 57300387--57300434 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
57300377 TTATAAAAGT
57300387 TAAAAA-TATATAAAAAAATAGTTTA
1 TAAAAAGT-TATAAAAAAATAGTTTA
* *
57300412 TAAAAAGTTTTAAAAAACTAGTT
1 TAAAAAGTTATAAAAAAATAGTT
57300435 AAAATGTTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 19 0.95
26 1 0.05
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.33
Consensus pattern (25 bp):
TAAAAAGTTATAAAAAAATAGTTTA
Found at i:57303309 original size:22 final size:22
Alignment explanation
Indices: 57303281--57303360 Score: 133
Period size: 22 Copynumber: 3.6 Consensus size: 22
57303271 ATTTAGCACA
57303281 TCAGTGTTCTCTGTATAACACT
1 TCAGTGTTCTCTGTATAACACT
57303303 TCAGTGTTCTCTGTATAACACT
1 TCAGTGTTCTCTGTATAACACT
*
57303325 TCAGTGTTCTCTGTATAGCACT
1 TCAGTGTTCTCTGTATAACACT
* *
57303347 TCTGTGCTCTCTGT
1 TCAGTGTTCTCTGT
57303361 TCATTAGTGC
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 55 1.00
ACGTcount: A:0.17, C:0.24, G:0.16, T:0.42
Consensus pattern (22 bp):
TCAGTGTTCTCTGTATAACACT
Found at i:57303997 original size:30 final size:31
Alignment explanation
Indices: 57303943--57304002 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
57303933 AAACTTTTTA
* *
57303943 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTCTACTCCCTTCCCAC
* *
57303973 TTTTCCCCTAAAACTTCTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTCTACTCCCTTCCCA
57304003 TTCCACCTCT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.20, C:0.42, G:0.00, T:0.38
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTCTACTCCCTTCCCAC
Found at i:57309695 original size:23 final size:25
Alignment explanation
Indices: 57309669--57309719 Score: 63
Period size: 23 Copynumber: 2.1 Consensus size: 25
57309659 AATTTTAATT
57309669 AATTTA-ATTTATGATA-TAT-TATA
1 AATTTAGATTTAT-ATATTATATATA
*
57309692 AATTTAGATTTGTATATTATATATA
1 AATTTAGATTTATATATTATATATA
57309717 AAT
1 AAT
57309720 AATTATATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 9 0.38
24 8 0.33
25 7 0.29
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (25 bp):
AATTTAGATTTATATATTATATATA
Found at i:57309828 original size:31 final size:32
Alignment explanation
Indices: 57309759--57309838 Score: 101
Period size: 33 Copynumber: 2.5 Consensus size: 32
57309749 TTGATATATT
*
57309759 TTTTA-ATGTATAATTGAATTAAAATAAAATTA
1 TTTTATATGTATAATTGAATCAAAATAAAA-TA
* *
57309791 TTTTATATGTATATTTGAATCAAAATTAAA-A
1 TTTTATATGTATAATTGAATCAAAATAAAATA
*
57309822 TTTTATATATATAATTG
1 TTTTATATGTATAATTG
57309839 TGTCAAATCA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
31 16 0.38
32 5 0.12
33 21 0.50
ACGTcount: A:0.45, C:0.01, G:0.06, T:0.47
Consensus pattern (32 bp):
TTTTATATGTATAATTGAATCAAAATAAAATA
Found at i:57310049 original size:17 final size:18
Alignment explanation
Indices: 57310029--57310063 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
57310019 ATTAAGTTAA
57310029 ATAT-TAAATTAAAATTT
1 ATATATAAATTAAAATTT
*
57310046 ATATATAATTTAAAATTT
1 ATATATAAATTAAAATTT
57310064 TACTACTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
ATATATAAATTAAAATTT
Found at i:57326422 original size:31 final size:30
Alignment explanation
Indices: 57326350--57326430 Score: 76
Period size: 31 Copynumber: 2.7 Consensus size: 30
57326340 TTTAATACTT
* * *
57326350 TATATCTTTATAATTTTTAAAAGATTAAAT
1 TATATTTTTATTATTTTTAAAAGATTAAAA
* *
57326380 TAAATTATTATTATTTTTAGGAAA-ATTAAAA
1 TATATTTTTATTATTTTTA--AAAGATTAAAA
57326411 TATATTTTTATT-TTTATTAA
1 TATATTTTTATTATTT-TTAA
57326431 TTTAAATTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
29 1 0.02
30 18 0.44
31 19 0.46
32 3 0.07
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (30 bp):
TATATTTTTATTATTTTTAAAAGATTAAAA
Found at i:57333547 original size:17 final size:16
Alignment explanation
Indices: 57333526--57333610 Score: 52
Period size: 17 Copynumber: 5.1 Consensus size: 16
57333516 TGTAATATTT
57333526 TTAATTTTATTTTTAA
1 TTAATTTTATTTTTAA
*
57333542 TGTAATTTCA-TTTTAA
1 T-TAATTTTATTTTTAA
* *
57333558 TT-A-TTT-TTATGAA
1 TTAATTTTATTTTTAA
57333571 GTTAGATTTTATAATTATTAA
1 -TTA-ATTTTAT--TT-TTAA
57333592 TTAATTTTATATTTTAA
1 TTAATTTTAT-TTTTAA
57333609 TT
1 TT
57333611 TAGATATTGG
Statistics
Matches: 53, Mismatches: 6, Indels: 19
0.68 0.08 0.24
Matches are distributed among these distances:
13 6 0.11
14 3 0.06
15 1 0.02
16 9 0.17
17 16 0.30
18 4 0.08
19 7 0.13
20 4 0.08
21 3 0.06
ACGTcount: A:0.33, C:0.01, G:0.05, T:0.61
Consensus pattern (16 bp):
TTAATTTTATTTTTAA
Found at i:57333600 original size:19 final size:17
Alignment explanation
Indices: 57333526--57333610 Score: 58
Period size: 16 Copynumber: 5.1 Consensus size: 17
57333516 TGTAATATTT
57333526 TTAATTTTAT-TTTTAA
1 TTAATTTTATATTTTAA
*
57333542 TGTAA-TTT-CATTTTAA
1 T-TAATTTTATATTTTAA
*
57333558 TT-ATTTT-TA--TGAA
1 TTAATTTTATATTTTAA
57333571 GTTAGATTTTATAATTATTAA
1 -TTA-ATTTTAT-ATT-TTAA
57333592 TTAATTTTATATTTTAA
1 TTAATTTTATATTTTAA
57333609 TT
1 TT
57333611 TAGATATTGG
Statistics
Matches: 54, Mismatches: 4, Indels: 21
0.68 0.05 0.27
Matches are distributed among these distances:
13 3 0.06
14 3 0.06
15 5 0.09
16 16 0.30
17 10 0.19
18 4 0.07
19 7 0.13
20 3 0.06
21 3 0.06
ACGTcount: A:0.33, C:0.01, G:0.05, T:0.61
Consensus pattern (17 bp):
TTAATTTTATATTTTAA
Found at i:57340333 original size:55 final size:56
Alignment explanation
Indices: 57340243--57340348 Score: 135
Period size: 55 Copynumber: 1.9 Consensus size: 56
57340233 TTGTTTTGTC
* ** * *
57340243 AAAAACTCCACTATGAAAAATCATTATTCGGTTTTTAAATATTTTATTTTACCAAT
1 AAAAACTCCACTATGAAAAACCATTATTCCATTTTTAAACACTTTATTTTACCAAT
*
57340299 AAAAACTCC-CTCTGAAAAACCATT-TTCCCATTTTTAAACACTTTATTTTA
1 AAAAACTCCACTATGAAAAACCATTATT-CCATTTTTAAACACTTTATTTTA
57340349 TTAATTTTGT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
54 2 0.05
55 32 0.74
56 9 0.21
ACGTcount: A:0.38, C:0.19, G:0.04, T:0.40
Consensus pattern (56 bp):
AAAAACTCCACTATGAAAAACCATTATTCCATTTTTAAACACTTTATTTTACCAAT
Found at i:57345708 original size:3 final size:3
Alignment explanation
Indices: 57345700--57345743 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
57345690 TCATCTCCCT
*
57345700 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC CTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
57345744 GTTTTAAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:57355751 original size:33 final size:33
Alignment explanation
Indices: 57355709--57355776 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
57355699 CGTGGTTGTA
57355709 AGATTGAAAATTGTATGGTATTGTATGTGTAGG
1 AGATTGAAAATTGTATGGTATTGTATGTGTAGG
57355742 AGATTGAAAATTGTATGGTATTGTATGTGTAGG
1 AGATTGAAAATTGTATGGTATTGTATGTGTAGG
57355775 AG
1 AG
57355777 CCGCCCAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.31, C:0.00, G:0.31, T:0.38
Consensus pattern (33 bp):
AGATTGAAAATTGTATGGTATTGTATGTGTAGG
Found at i:57359171 original size:9 final size:9
Alignment explanation
Indices: 57359154--57359187 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
57359144 AACGGTTTGG
57359154 GCTGCTGTT
1 GCTGCTGTT
*
57359163 GCTGTTGTT
1 GCTGCTGTT
*
57359172 GCTGCTGCT
1 GCTGCTGTT
57359181 GCTGCTG
1 GCTGCTG
57359188 ATGACGCTGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.00, C:0.24, G:0.35, T:0.41
Consensus pattern (9 bp):
GCTGCTGTT
Found at i:57363099 original size:33 final size:33
Alignment explanation
Indices: 57363061--57363127 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
57363051 TTCTGACTTC
*
57363061 GCCCCTAAATGTGACAAAAAGGGTAAATATTAA
1 GCCCCTAAATGTGACAAAAAGGATAAATATTAA
*
57363094 GCCCCTAAATGTGATAAAAAGGATAAATATTAA
1 GCCCCTAAATGTGACAAAAAGGATAAATATTAA
57363127 G
1 G
57363128 GGTTAGATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.46, C:0.13, G:0.18, T:0.22
Consensus pattern (33 bp):
GCCCCTAAATGTGACAAAAAGGATAAATATTAA
Found at i:57364780 original size:19 final size:17
Alignment explanation
Indices: 57364754--57364799 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 17
57364744 TAAACAAGAT
*
57364754 ATTTTTTAAAATTATATA
1 ATTTTTTAAAATGA-ATA
57364772 ATATTTTTACAAATGAATA
1 AT-TTTTTA-AAATGAATA
57364791 ATTTTTTAA
1 ATTTTTTAA
57364800 GGTGACCATC
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 1 0.04
18 8 0.32
19 11 0.44
20 5 0.20
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (17 bp):
ATTTTTTAAAATGAATA
Found at i:57364928 original size:20 final size:19
Alignment explanation
Indices: 57364879--57364931 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
57364869 GTATTTTGTT
57364879 TATTATATAATTTTTATGAA
1 TATT-TATAATTTTTATGAA
* *
57364899 TTTTTTTAATTTTT-TGTACA
1 TATTTATAATTTTTATG-A-A
57364919 TATTTATAATTTT
1 TATTTATAATTTT
57364932 AAAAATATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
18 2 0.07
19 10 0.37
20 15 0.56
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (19 bp):
TATTTATAATTTTTATGAA
Found at i:57365932 original size:18 final size:18
Alignment explanation
Indices: 57365909--57365946 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
57365899 AGGGTGTCAC
*
57365909 TTTTTC-TGATGATTCAAG
1 TTTTTCGTGATCATT-AAG
57365927 TTTTTCGTGATCATTAAG
1 TTTTTCGTGATCATTAAG
57365945 TT
1 TT
57365947 ACTGTAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.21, C:0.11, G:0.16, T:0.53
Consensus pattern (18 bp):
TTTTTCGTGATCATTAAG
Found at i:57372994 original size:6 final size:6
Alignment explanation
Indices: 57372971--57373015 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
57372961 AAAAAGGAGA
* * * *
57372971 AAAAGA AAAAGG AAAAGG AAAAGG AAACGG AAACGG AAACGG AAA
1 AAAAGG AAAAGG AAAAGG AAAAGG AAAAGG AAAAGG AAAAGG AAA
57373016 CTTCAGGACA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.64, C:0.07, G:0.29, T:0.00
Consensus pattern (6 bp):
AAAAGG
Found at i:57388394 original size:14 final size:15
Alignment explanation
Indices: 57388375--57388405 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
57388365 GTTTAGTTCA
57388375 TTTATAT-TAATTTT
1 TTTATATATAATTTT
57388389 TTTATATATAATTTT
1 TTTATATATAATTTT
57388404 TT
1 TT
57388406 AAAATTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTATATATAATTTT
Found at i:57388429 original size:20 final size:20
Alignment explanation
Indices: 57388390--57388429 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
57388380 ATTAATTTTT
** *
57388390 TTATATATAATTTTTTAAAA
1 TTATATATAATTAATAAAAA
57388410 TTATATATAATTAATAAAAA
1 TTATATATAATTAATAAAAA
57388430 AATACTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TTATATATAATTAATAAAAA
Found at i:57388653 original size:22 final size:21
Alignment explanation
Indices: 57388628--57388668 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
57388618 TAGCAAAATG
57388628 ACAACAAAACAATGAGAAAACA
1 ACAACAAAACAATG-GAAAACA
* *
57388650 ACAAGAAAACAGTGGAAAA
1 ACAACAAAACAATGGAAAA
57388669 ATAGTAAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.66, C:0.15, G:0.15, T:0.05
Consensus pattern (21 bp):
ACAACAAAACAATGGAAAACA
Found at i:57390670 original size:11 final size:12
Alignment explanation
Indices: 57390642--57390673 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
57390632 GCCCGCCCAC
57390642 ATTAATTTTTAT
1 ATTAATTTTTAT
57390654 ATTAATTTTTAT
1 ATTAATTTTTAT
57390666 A-TAATTTT
1 ATTAATTTT
57390674 AAATTATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.35
12 13 0.65
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
ATTAATTTTTAT
Found at i:57399344 original size:16 final size:17
Alignment explanation
Indices: 57399323--57399355 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
57399313 CTACAAATAT
57399323 AATAAAATAT-TAAAAA
1 AATAAAATATATAAAAA
*
57399339 AATAAATTATATAAAAA
1 AATAAAATATATAAAAA
57399356 TTACGCCGTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
AATAAAATATATAAAAA
Found at i:57412753 original size:174 final size:172
Alignment explanation
Indices: 57412300--57412932 Score: 820
Period size: 174 Copynumber: 3.7 Consensus size: 172
57412290 CTGTAAATTA
* * * * * * * *
57412300 TTGTCGTGTTTTAAATGAATGTACGAAACGTTCCAAGAAAGAAATAAGTTAGTTTTAAACTTTGA
1 TTGTCGTATTTTAAAT-AAAGCACGGAACGTTTCAA-AAAGAAATGAGTTAATTTTAAATTTTGA
* * ** * * *
57412365 ACATATTTTTAAGTTTGATATATAAATTAAACGTTCACTGAAATTTTAAATAAATTTTTCATTTT
64 ACATCTTTTTAAGTTTGATGTATATGTTAAACGTTCACTGAAAATTTAAATAAACTCTTCATTTT
*
57412430 ATTTATGACTATTTAATGCACACAAATATCGTTTTTATTATATT
129 ATTTATGACTATTTAATGCACACAGATATCGTTTTTATTATATT
* *
57412474 TTGTCGTATTTTAAATTAA--A--G--CGTTTCAAAAACGAAATGAGTTGATTTTAAATTTTGAA
1 TTGTCGTATTTTAAATAAAGCACGGAACGTTTCAAAAA-GAAATGAGTTAATTTTAAATTTTGAA
* *
57412533 CATCTTTTAAAGTTTGATGTATATGTTAAACGTTCACGGAAAATTTAAATAAACTCTTCATTTTA
65 CATCTTTTTAAGTTTGATGTATATGTTAAACGTTCACTGAAAATTTAAATAAACTCTTCATTTTA
*
57412598 TTTATGACTATTTAATGCGCACAGATATCGTTTTTATTATATT
130 TTTATGACTATTTAATGCACACAGATATCGTTTTTATTATATT
*
57412641 TTGTCGTATTTTAAACTAAAGCACGGAACGTTTCAAAAACGAAATGAGTTAATTTTCAATTTTGA
1 TTGTCGTATTTTAAA-TAAAGCACGGAACGTTTCAAAAA-GAAATGAGTTAATTTTAAATTTTGA
* *
57412706 ACATCTTTTTAAGTTTGATGTATATGTTAAATGTTCACT-AGAAATTTAAATAAATTCTTCATTT
64 ACATCTTTTTAAGTTTGATGTATATGTTAAACGTTCACTGA-AAATTTAAATAAACTCTTCATTT
*
57412770 TATTTATGACTATTTAATGCACACAGATATCATTTTTATTATATT
128 TATTTATGACTATTTAATGCACACAGATATCGTTTTTATTATATT
* * * * *
57412815 TTGTCGTATTTTAAACTAAAGCACAGAATGTTTC-AAAA-AAATGAATTGATTTTGAATTTTGAA
1 TTGTCGTATTTTAAA-TAAAGCACGGAACGTTTCAAAAAGAAATGAGTTAATTTTAAATTTTGAA
* *
57412878 CATCTTTTTGAGTTTTGATGTATTTGTTAATA--TTCACTGAAAATTTAAATAAACT
65 CATCTTTTTAAG-TTTGATGTATATGTTAA-ACGTTCACTGAAAATTTAAATAAACT
57412933 TGACAGCAAA
Statistics
Matches: 410, Mismatches: 37, Indels: 27
0.86 0.08 0.06
Matches are distributed among these distances:
166 3 0.01
167 141 0.34
168 3 0.01
170 1 0.00
171 54 0.13
172 18 0.04
173 7 0.02
174 183 0.45
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.43
Consensus pattern (172 bp):
TTGTCGTATTTTAAATAAAGCACGGAACGTTTCAAAAAGAAATGAGTTAATTTTAAATTTTGAAC
ATCTTTTTAAGTTTGATGTATATGTTAAACGTTCACTGAAAATTTAAATAAACTCTTCATTTTAT
TTATGACTATTTAATGCACACAGATATCGTTTTTATTATATT
Found at i:57413263 original size:201 final size:201
Alignment explanation
Indices: 57412896--57414752 Score: 1711
Period size: 201 Copynumber: 9.4 Consensus size: 201
57412886 TGAGTTTTGA
* * * *
57412896 TGTATTTGTTAATATTCACT-GAAAATTTAAATAAACTTGACAGCAAACAAATTATTCTTTTTAT
1 TGTATATGTTAACATTCACTAG-AAATTTAAATAAATTTGACAACAAACAAATTATTCTTTTTAT
* * * * *
57412960 TTATAACTATTAAAT--ACACATATATTATTTTTGTTATATTTTGTCATGTATTAAATGAAAGCA
65 TTATAACTATTAAATACACACATATATCATTTTTATTGTATTTTGTCGTGTTTTAAATGAAAGCA
* * * * * * * *
57413023 CGAGATATTTCAAAAAATATATGAGTTAATATGAAATTTTGAATATCTTTCTAAGTTTTGATAAA
130 CGAAATGTTTCAAGAAAGATATGAGTTAATTTTAAATTTTGAACATCTTTCTAAGTTTTGATGAA
57413088 CAAGGCTTT
195 -AA-GCTTT
* * * *
57413097 TATATATGTTAACATTCACTAGAATTTTAAATAAATTTGGCAACAAACAAATTATTC-TTTT-CT
1 TGTATATGTTAACATTCACTAGAAATTTAAATAAATTTGACAACAAACAAATTATTCTTTTTATT
* * *
57413160 TATAACTATTAAATACATACATATATCATTTTTATTGTATTTTGTCATGTCTTAAATGAAAGCAC
66 TATAACTATTAAATACACACATATATCATTTTTATTGTATTTTGTCGTGTTTTAAATGAAAGCAC
** **
57413225 GAAGCGTTTCAAGAAAGATATGAGTTAATTTTAAATTTTGAACATCTTTCTAAGCATTGATGAAC
131 GAAATGTTTCAAGAAAGATATGAGTTAATTTTAAATTTTGAACATCTTTCTAAGTTTTGATGAA-
57413290 AAGGCTTT
195 AA-GCTTT
* ** * * * * *
57413298 TGTATATGTTAACGTTCACCGGAAATTTAAATAAAATTGGCAACAATCAGATTATTCTTATTATT
1 TGTATATGTTAACATTCACTAGAAATTTAAATAAATTTGACAACAAACAAATTATTCTTTTTATT
* * * * * *
57413363 TATAACTATTAAATACACACGTGTGTCATTTTTATTGTATCTTGTCGTGTTTCAAATGAAAACAC
66 TATAACTATTAAATACACACATATATCATTTTTATTGTATTTTGTCGTGTTTTAAATGAAAGCAC
* *
57413428 -AAATGTTTCAAGAAATATATGAGTTAATTTTAAATTTTGAACATCTTCCTAAGTTTT--T----
131 GAAATGTTTCAAGAAAGATATGAGTTAATTTTAAATTTTGAACATCTTTCTAAGTTTTGATGAAA
57413486 A-----
196 AGCTTT
* * * *
57413487 TGTATATGTTAACATTCA-TTGAAAATTTAAATGAATTTGACAACAAA-TAATTTTTC-TTTTAT
1 TGTATATGTTAACATTCACTAG-AAATTTAAATAAATTTGACAACAAACAAATTATTCTTTTTAT
* * * *
57413549 TTATAATTATTAAAT--ACACATATATCATTTTTATTGCATTTTGCCGTGTTTTAAATGAAAGAA
65 TTATAACTATTAAATACACACATATATCATTTTTATTGTATTTTGTCGTGTTTTAAATGAAAGCA
* * **
57413612 CAAAATGTTTCAAGAAAGATATTG-GTT--TTTT--TTTTTGAACATCTTTCTAAACTTTGATGA
130 CGAAATGTTTCAAGAAAGATA-TGAGTTAATTTTAAATTTTGAACATCTTTCTAAGTTTTGATG-
*
57413672 ATAAAACTTT
193 A-AAAGCTTT
* * * * *
57413682 TGTATATGTTAACCTTCACTA-AAAGTTTAAATAAATTTGGCAACAAATATATTCTTCTTTTTTA
1 TGTATATGTTAACATTCACTAGAAA-TTTAAATAAATTTGACAACAAACAAATTATTC-TTTTTA
* * * * * *
57413746 TTTATAGCTATTAAATACACATAAATGTAATTTTTATTATATTTTGTCGTGTTTTAAATG-AAGA
64 TTTATAACTATTAAATACACACATATATCATTTTTATTGTATTTTGTCGTGTTTTAAATGAAAG-
* * *
57413810 CACAAAATGTTTTAAGAAAGATATGAGTTAATTTTAAATTTTGAACATCTTTTTAAGTTTTGATG
128 CACGAAATGTTTCAAGAAAGATATGAGTTAATTTTAAATTTTGAACATCTTTCTAAGTTTTGATG
*
57413875 AACGAGGCTTT
193 AA--AAGCTTT
* ** * * **
57413886 TGCATATGTTAATGTTCACT-GAAAATTTAAATAAAATTGGCAACAAACAGGTTATTCTTTTTAT
1 TGTATATGTTAACATTCACTAG-AAATTTAAATAAATTTGACAACAAACAAATTATTCTTTTTAT
* * *
57413950 TTATAACTATTAAATACACACATATATCATTTTTATTATATTTTGTCGTGTTTTAAGTGAAAACA
65 TTATAACTATTAAATACACACATATATCATTTTTATTGTATTTTGTCGTGTTTTAAATGAAAGCA
*
57414015 -G-AATGTTTCAAGAAAGATATGAGTTAATTTTAAATTTTGAACATCTTCCTAAGTTTT--T---
130 CGAAATGTTTCAAGAAAGATATGAGTTAATTTTAAATTTTGAACATCTTTCTAAGTTTTGATGAA
57414073 -A-----
195 AAGCTTT
* * * * *
57414074 TGTATGTGTTAACTTTAACTA-AAATTTTAAATAGATTTGACAACAAACAAATTCTTCTTTTTAT
1 TGTATATGTTAACATTCACTAGAAA-TTTAAATAAATTTGACAACAAACAAATTATTCTTTTTAT
* * * *
57414138 TTATAACTATTAAATACACATAGATATCATTTTTATTGTATTTTGTCATGTTTTAAATGAGAA-A
65 TTATAACTATTAAATACACACATATATCATTTTTATTGTATTTTGTCGTGTTTTAAATGA-AAGC
* * * * *
57414202 ACGAAAGGTTTCAATAAAGATATGAGTTGATATTTTAAAATTTGAACATCTTTTTAAGCTTTGAT
129 ACGAAATGTTTCAAGAAAGATATGAGTT-A-ATTTTAAATTTTGAACATCTTTCTAAGTTTTGAT
57414267 GAATAAGACTTT
192 GAA-AAG-CTTT
* * * * * * *
57414279 TATATATGCTAACGTTCACT-GAAAATTTAAATAAAATTGACAACAAATAGATTCTTCTTTTTTA
1 TGTATATGTTAACATTCACTAG-AAATTTAAATAAATTTGACAACAAACAAATTATTC-TTTTTA
* * *** *
57414343 TTTATAACTATTGAATACACTCGGGTATCATTTTTATTGTATTCTGTCGTGTTTTAAATGAAAGC
64 TTTATAACTATTAAATACACACATATATCATTTTTATTGTATTTTGTCGTGTTTTAAATGAAAGC
* *
57414408 AC-AGAATGTTTCAAGAAAGATATGAGTTAATTTTAAATTTTGAACGTCTTCCTAAGTTTT--T-
129 ACGA-AATGTTTCAAGAAAGATATGAGTTAATTTTAAATTTTGAACATCTTTCTAAGTTTTGATG
57414469 ---A-----
193 AAAAGCTTT
* * *
57414470 TGTATATTTTAAC-TGTCATTA-AAATTTTAAATAAATTTGACAACAAACAAATTCTTCTTTTTA
1 TGTATATGTTAACAT-TCACTAGAAA-TTTAAATAAATTTGACAACAAACAAATTATTCTTTTTA
* * * *
57414533 TTTATAACTCTTAAAT--ACACATATATCATTTTTATTGTATGGTAGTTGTGTTTTAAATGAAAG
64 TTTATAACTATTAAATACACACATATATCATTTTTATTGTAT-TTTGTCGTGTTTTAAATGAAAG
* * * * * * * * * * *
57414596 TACCAAATG-ATCTAAGAATGAAATAAATTAGTTATAAATTTTGTACAAAT-TTTTTAAGATTTT
128 CACGAAATGTTTC-AAGAAAGATATGAGTTAATTTTAAATTTTG-A-ACATCTTTCTAAG-TTTT
*
57414659 GAAGAATAAGACTTT
189 GATGAA-AAG-CTTT
* * * * * * *
57414674 TGTATATGTTAACATCCATTATAAATTTAAATAAATTCGACAA-AATCAAAATATTCATTTTATT
1 TGTATATGTTAACATTCACTAGAAATTTAAATAAATTTGACAACAAACAAATTATTCTTTTTATT
*
57414738 AATAACTATTAAATA
66 TATAACTATTAAATA
57414753 TATACAAATT
Statistics
Matches: 1361, Mismatches: 206, Indels: 175
0.78 0.12 0.10
Matches are distributed among these distances:
182 20 0.01
184 5 0.00
185 40 0.03
186 21 0.02
187 24 0.02
188 133 0.10
189 89 0.07
190 55 0.04
191 50 0.04
192 27 0.02
194 4 0.00
195 38 0.03
196 7 0.01
197 1 0.00
198 20 0.01
199 22 0.02
200 64 0.05
201 255 0.19
202 61 0.04
203 149 0.11
204 135 0.10
205 54 0.04
206 87 0.06
ACGTcount: A:0.37, C:0.10, G:0.11, T:0.42
Consensus pattern (201 bp):
TGTATATGTTAACATTCACTAGAAATTTAAATAAATTTGACAACAAACAAATTATTCTTTTTATT
TATAACTATTAAATACACACATATATCATTTTTATTGTATTTTGTCGTGTTTTAAATGAAAGCAC
GAAATGTTTCAAGAAAGATATGAGTTAATTTTAAATTTTGAACATCTTTCTAAGTTTTGATGAAA
AGCTTT
Found at i:57413886 original size:588 final size:588
Alignment explanation
Indices: 57412769--57414467 Score: 2113
Period size: 588 Copynumber: 2.9 Consensus size: 588
57412759 ATTCTTCATT
* * * * *
57412769 TTATTTATGACTATTTAATGCACACAGATATCATTTTTATTATATTTTGTCGTATTTTAAACT-A
1 TTATTTATAACTATTAAATACACACATATATCATTTTTATTATATTTTGTCGTGTTTTAAA-TGA
* * * * ** * *
57412833 AAGCACAGAATGTTTCAA-AAAA-ATGAATTGATTTTGAATTTTGAACATCTTTTTGAGTTTTGA
65 AAACACA-AATGTTTCAAGAAAATATGAGTTAATTTTAAATTTTGAACATCTTCCTAAGTTTTTA
* * * *
57412896 TGTATTTGTTAATATTCACTGAAAATTTAAATAAACTTGACAGCAAACAAATTATTCTTTTTATT
129 TGTATATGTTAACATTCACTGAAAATTTAAAT-AATTTGACAACAAACAAATTATTCTTTTTATT
* * * * *
57412961 TATAACTATTAAATACACATATATTATTTTTGTTATATTTTGTCATGTATTAAATGAAAGCACGA
193 TATAACTATTAAATACACATATATCATTTTTATTGTATTTTGTCATGTTTTAAATGAAAGAACGA
* * *** * * * *
57413026 GATATTTCAAAAA-ATATATGAGTTAATATGAAATTTTGAATATCTTTCTAAGTTTTGATAAACA
258 AATGTTTCAAAAAGATAT-TGAGTT-ATAT-TTTTTTTGAACATCTTTCTAAGCTTTGATGAATA
* * * *
57413090 AGGCTTTTATATATGTTAACATTCACTAGAATTTTAAATAAATTTGGCAACAAACAAATTATTCT
320 AGACTTTTATATATGTTAACATTCACTA-AAATTTAAATAAATTTGGCAACAAATAAATTCTTCT
* * * * * * *
57413155 TTTCTTA--TA-ACTATTAAATACATACATATATCATTTTTATTGTATTTTGTCATGTCTTAAAT
384 TTT-TTATTTATACTATTAAATACACATAAATGTAATTTTTATTGTATTTTGTCGTGTTTTAAAT
* ** **
57413217 GAAAGCACGAAGCGTTTCAAGAAAGATATGAGTTAATTTTAAATTTTGAACATCTTTCTAAGCAT
448 GAAAGCACAAAATGTTTCAAGAAAGATATGAGTTAATTTTAAATTTTGAACATCTTTCTAAGTTT
* * *
57413282 TGATGAACAAGGCTTTTGTATATGTTAACGTTCACCGGAAATTTAAATAAAATTGGCAACAATCA
513 TGATGAACAAGGCTTTTGCATATGTTAACGTTCACCGAAAATTTAAATAAAATTGGCAACAAACA
57413347 GATTATTCTTA
578 GATTATTCTTA
* * * * * *
57413358 TTATTTATAACTATTAAATACACACGTGTGTCATTTTTATTGTATCTTGTCGTGTTTCAAATGAA
1 TTATTTATAACTATTAAATACACACATATATCATTTTTATTATATTTTGTCGTGTTTTAAATGAA
57413423 AACACAAATGTTTCAAGAAATATATGAGTTAATTTTAAATTTTGAACATCTTCCTAAGTTTTTAT
66 AACACAAATGTTTCAAGAAA-ATATGAGTTAATTTTAAATTTTGAACATCTTCCTAAGTTTTTAT
* * *
57413488 GTATATGTTAACATTCATTGAAAATTTAAATGAATTTGACAACAAA-TAATTTTTC-TTTTATTT
130 GTATATGTTAACATTCACTGAAAATTTAAAT-AATTTGACAACAAACAAATTATTCTTTTTATTT
* * * * *
57413551 ATAATTATTAAATACACATATATCATTTTTATTGCATTTTGCCGTGTTTTAAATGAAAGAACAAA
194 ATAACTATTAAATACACATATATCATTTTTATTGTATTTTGTCATGTTTTAAATGAAAGAACGAA
* *
57413616 ATGTTTCAAGAAAGATATTG-GTT-T-TTTTTTTTGAACATCTTTCTAAACTTTGATGAATAAAA
259 ATGTTTCAA-AAAGATATTGAGTTATATTTTTTTTGAACATCTTTCTAAGCTTTGATGAATAAGA
* * *
57413678 CTTTTGTATATGTTAACCTTCACTAAAAGTTTAAATAAATTTGGCAACAAATATATTCTTCTTTT
323 CTTTTATATATGTTAACATTCACTAAAA-TTTAAATAAATTTGGCAACAAATAAATTCTTCTTTT
*
57413743 TTATTTATAGCTATTAAATACACATAAATGTAATTTTTATTATATTTTGTCGTGTTTTAAATG-A
387 TTATTTATA-CTATTAAATACACATAAATGTAATTTTTATTGTATTTTGTCGTGTTTTAAATGAA
* *
57413807 AGACACAAAATGTTTTAAGAAAGATATGAGTTAATTTTAAATTTTGAACATCTTTTTAAGTTTTG
451 AG-CACAAAATGTTTCAAGAAAGATATGAGTTAATTTTAAATTTTGAACATCTTTCTAAGTTTTG
* * * *
57413872 ATGAACGAGGCTTTTGCATATGTTAATGTTCACTGAAAATTTAAATAAAATTGGCAACAAACAGG
515 ATGAACAAGGCTTTTGCATATGTTAACGTTCACCGAAAATTTAAATAAAATTGGCAACAAACAGA
*
57413937 TTATTCTTT
580 TTATTCTTA
*
57413946 TTATTTATAACTATTAAATACACACATATATCATTTTTATTATATTTTGTCGTGTTTTAAGTGAA
1 TTATTTATAACTATTAAATACACACATATATCATTTTTATTATATTTTGTCGTGTTTTAAATGAA
*
57414011 AACA-GAATGTTTCAAGAAAGATATGAGTTAATTTTAAATTTTGAACATCTTCCTAAGTTTTTAT
66 AACACAAATGTTTCAAGAAA-ATATGAGTTAATTTTAAATTTTGAACATCTTCCTAAGTTTTTAT
* * * *
57414075 GTATGTGTTAACTTTAACT-AAAATTTTAAATAGATTTGACAACAAACAAATTCTTCTTTTTATT
130 GTATATGTTAACATTCACTGAAAA-TTTAAATA-ATTTGACAACAAACAAATTATTCTTTTTATT
57414139 TATAACTATTAAATACACATAGATATCATTTTTATTGTATTTTGTCATGTTTTAAATGAGAA-AA
193 TATAACTATTAAATACACAT--ATATCATTTTTATTGTATTTTGTCATGTTTTAAATGA-AAGAA
* * *
57414203 CGAAAGGTTTCAATAAAGATA-TGAGTTGATATTTTAAAATTTGAACATCTTTTTAAGCTTTGAT
255 CGAAATGTTTCAA-AAAGATATTGAGTT-ATATTTT---TTTTGAACATCTTTCTAAGCTTTGAT
* * * * *
57414267 GAATAAGACTTTTATATATGCTAACGTTCACTGAAAATTTAAATAAAATTGACAACAAATAGATT
315 GAATAAGACTTTTATATATGTTAACATTCACT-AAAATTTAAATAAATTTGGCAACAAATAAATT
* *** *
57414332 CTTCTTTTTTATTTATAACTATTGAATACAC-T-CGGGTATCATTTTTATTGTATTCTGTCGTGT
379 CTTCTTTTTTATTTAT-ACTATTAAATACACATAAATGTA--ATTTTTATTGTATTTTGTCGTGT
* * *
57414395 TTTAAATGAAAGCACAGAATGTTTCAAGAAAGATATGAGTTAATTTTAAATTTTGAACGTCTTCC
441 TTTAAATGAAAGCACAAAATGTTTCAAGAAAGATATGAGTTAATTTTAAATTTTGAACATCTTTC
57414460 TAAGTTTT
506 TAAGTTTT
57414468 TATGTATATT
Statistics
Matches: 958, Mismatches: 121, Indels: 54
0.85 0.11 0.05
Matches are distributed among these distances:
584 5 0.01
585 83 0.09
586 8 0.01
587 98 0.10
588 246 0.26
589 159 0.17
590 15 0.02
591 136 0.14
592 2 0.00
593 1 0.00
594 4 0.00
595 3 0.00
596 1 0.00
597 189 0.20
598 8 0.01
ACGTcount: A:0.36, C:0.10, G:0.11, T:0.42
Consensus pattern (588 bp):
TTATTTATAACTATTAAATACACACATATATCATTTTTATTATATTTTGTCGTGTTTTAAATGAA
AACACAAATGTTTCAAGAAAATATGAGTTAATTTTAAATTTTGAACATCTTCCTAAGTTTTTATG
TATATGTTAACATTCACTGAAAATTTAAATAATTTGACAACAAACAAATTATTCTTTTTATTTAT
AACTATTAAATACACATATATCATTTTTATTGTATTTTGTCATGTTTTAAATGAAAGAACGAAAT
GTTTCAAAAAGATATTGAGTTATATTTTTTTTGAACATCTTTCTAAGCTTTGATGAATAAGACTT
TTATATATGTTAACATTCACTAAAATTTAAATAAATTTGGCAACAAATAAATTCTTCTTTTTTAT
TTATACTATTAAATACACATAAATGTAATTTTTATTGTATTTTGTCGTGTTTTAAATGAAAGCAC
AAAATGTTTCAAGAAAGATATGAGTTAATTTTAAATTTTGAACATCTTTCTAAGTTTTGATGAAC
AAGGCTTTTGCATATGTTAACGTTCACCGAAAATTTAAATAAAATTGGCAACAAACAGATTATTC
TTA
Found at i:57413928 original size:204 final size:202
Alignment explanation
Indices: 57413487--57414716 Score: 1161
Period size: 204 Copynumber: 6.2 Consensus size: 202
57413477 TAAGTTTTTA
* * * *
57413487 TGTATATGTTAACATTCATTGAAAATTTAAATGAATTTGACAACAAATA-ATT-TT-TCTTTTAT
1 TGTATATGTTAACGTTCACTGAAAATTTAAATAAATTTGACAACAAATAGATTCTTCTTTTTTAT
* * *
57413549 TTATAATTATTAAATACACAT-ATATCATTTTTATTGCATTTTGCCGTGTTTTAAATGAAAGAAC
66 TTATAACTATTAAATACACATAATATCATTTTTATTGTATTTTGTCGTGTTTTAAATG-AAGAAC
* **
57413613 AAAATGTTTCAAGAAAGATATTG-GTT--TTTT--TTTTTGAACATCTTTCTAAACTTTGATGAA
130 AAAATGTTTCAAGAAAGATA-TGAGTTAATTTTAAATTTTGAACATCTTTCTAAGTTTTGATGAA
*
57413673 TAAAACTTT
194 TAAGACTTT
* * *
57413682 TGTATATGTTAACCTTCACT-AAAAGTTTAAATAAATTTGGCAACAAATATATTCTTCTTTTTTA
1 TGTATATGTTAACGTTCACTGAAAA-TTTAAATAAATTTGACAACAAATAGATTCTTCTTTTTTA
* * * *
57413746 TTTATAGCTATTAAATACACATAAATGTAATTTTTATTATATTTTGTCGTGTTTTAAATGAAGAC
65 TTTATAACTATTAAATACACAT-AATATCATTTTTATTGTATTTTGTCGTGTTTTAAATGAAGA-
* *
57413811 ACAAAATGTTTTAAGAAAGATATGAGTTAATTTTAAATTTTGAACATCTTTTTAAGTTTTGATGA
128 ACAAAATGTTTCAAGAAAGATATGAGTTAATTTTAAATTTTGAACATCTTTCTAAGTTTTGATGA
** *
57413876 ACGAGGCTTT
193 ATAAGACTTT
* * * * * * *
57413886 TGCATATGTTAATGTTCACTGAAAATTTAAATAAAATTGGCAACAAACAGGTTATTC-TTTTTAT
1 TGTATATGTTAACGTTCACTGAAAATTTAAATAAATTTGACAACAAATAGATTCTTCTTTTTTAT
* * *
57413950 TTATAACTATTAAATACACACATATATCATTTTTATTATATTTTGTCGTGTTTTAAGTGAA-AAC
66 TTATAACTATTAAATACACATA-ATATCATTTTTATTGTATTTTGTCGTGTTTTAAATGAAGAAC
* *
57414014 AGAATGTTTCAAGAAAGATATGAGTTAATTTTAAATTTTGAACATCTTCCTAAG-TTT--T---T
130 AAAATGTTTCAAGAAAGATATGAGTTAATTTTAAATTTTGAACATCTTTCTAAGTTTTGATGAAT
57414073 ---A----
195 AAGACTTT
* * * * * *
57414074 TGTATGTGTTAACTTTAACT-AAAATTTTAAATAGATTTGACAACAAACAAATTCTTC-TTTTTA
1 TGTATATGTTAACGTTCACTGAAAA-TTTAAATAAATTTGACAACAAATAGATTCTTCTTTTTTA
* *
57414137 TTTATAACTATTAAATACACATAGATATCATTTTTATTGTATTTTGTCATGTTTTAAATGAGAAA
65 TTTATAACTATTAAATACACATA-ATATCATTTTTATTGTATTTTGTCGTGTTTTAAATGA-AGA
* * * * * *
57414202 ACGAAAGGTTTCAATAAAGATATGAGTTGATATTTTAAAATTTGAACATCTTTTTAAGCTTTGAT
128 ACAAAATGTTTCAAGAAAGATATGAGTT-A-ATTTTAAATTTTGAACATCTTTCTAAGTTTTGAT
57414267 GAATAAGACTTT
191 GAATAAGACTTT
* * *
57414279 TATATATGCTAACGTTCACTGAAAATTTAAATAAAATTGACAACAAATAGATTCTTCTTTTTTAT
1 TGTATATGTTAACGTTCACTGAAAATTTAAATAAATTTGACAACAAATAGATTCTTCTTTTTTAT
* ** * *
57414344 TTATAACTATTGAATACAC-TCGGGTATCATTTTTATTGTATTCTGTCGTGTTTTAAATGAAAGC
66 TTATAACTATTAAATACACAT--AATATCATTTTTATTGTATTTTGTCGTGTTTTAAATG-AAGA
* * *
57414408 ACAGAATGTTTCAAGAAAGATATGAGTTAATTTTAAATTTTGAACGTCTTCCTAAG-TTT--T--
128 ACAAAATGTTTCAAGAAAGATATGAGTTAATTTTAAATTTTGAACATCTTTCTAAGTTTTGATGA
57414468 -T---A----
193 ATAAGACTTT
* * * *
57414470 TGTATATTTTAAC-TGTCA-TTAAAATTTTAAATAAATTTGACAACAAACAAATTCTTC-TTTTT
1 TGTATATGTTAACGT-TCACTGAAAA-TTTAAATAAATTTGACAACAAATAGATTCTTCTTTTTT
* * * *
57414532 ATTTATAACTCTTAAATACACAT-ATATCATTTTTATTGTATGGTAGTTGTGTTTTAAATGAAAG
64 ATTTATAACTATTAAATACACATAATATCATTTTTATTGTAT-TTTGTCGTGTTTTAAATG-AAG
* * * * * * * * * * *
57414596 TACCAAATG-ATCTAAGAATGAAATAAATTAGTTATAAATTTTGTACAAAT-TTTTTAAGATTTT
127 AACAAAATGTTTC-AAGAAAGATATGAGTTAATTTTAAATTTTG-A-ACATCTTTCTAAG-TTTT
*
57414659 GAAGAATAAGACTTT
188 GATGAATAAGACTTT
* * * *
57414674 TGTATATGTTAACATCCA-TTATAAATTTAAATAAATTCGACAA
1 TGTATATGTTAACGTTCACTGA-AAATTTAAATAAATTTGACAA
57414717 AATCAAAATA
Statistics
Matches: 856, Mismatches: 119, Indels: 111
0.79 0.11 0.10
Matches are distributed among these distances:
187 4 0.00
188 122 0.14
189 49 0.06
190 62 0.07
191 46 0.05
192 27 0.03
193 3 0.00
194 4 0.00
195 42 0.05
196 3 0.00
197 3 0.00
198 29 0.03
199 6 0.01
200 59 0.07
201 54 0.06
202 6 0.01
203 64 0.07
204 132 0.15
205 53 0.06
206 87 0.10
207 1 0.00
ACGTcount: A:0.37, C:0.10, G:0.11, T:0.43
Consensus pattern (202 bp):
TGTATATGTTAACGTTCACTGAAAATTTAAATAAATTTGACAACAAATAGATTCTTCTTTTTTAT
TTATAACTATTAAATACACATAATATCATTTTTATTGTATTTTGTCGTGTTTTAAATGAAGAACA
AAATGTTTCAAGAAAGATATGAGTTAATTTTAAATTTTGAACATCTTTCTAAGTTTTGATGAATA
AGACTTT
Found at i:57414495 original size:396 final size:388
Alignment explanation
Indices: 57413489--57414572 Score: 1337
Period size: 396 Copynumber: 2.7 Consensus size: 388
57413479 AGTTTTTATG
* * * * *
57413489 TATATGTTAACATTCATTGAAAATTTAAATGAATTTGACAACAAATA-ATTTT-TCTTTTATTTA
1 TATATGTTAACGTTCACTGAAAATTTAAATAAAATTGACAACAAATAGATTTTCTTTTTTATTTA
* * * *
57413552 TAATTATTAAATACACAT-ATATCATTTTTATTGCATTTTGCCGTGTTTTAAATGAAAGAACAAA
66 TAACTATTAAATACAC-TCATATCATTTTTATTGTATTTTGTCGTGTTTTAAATGAAAG-ACAGA
* * *
57413616 ATGTTTCAAGAAAGATATTG-GTT--TTTT--TTTTTGAACATCTTTCTAAACTTTGATGAATAA
129 ATGTTTCAAGAAAGATA-TGAGTTAATTTTAAATTTTGAACATCTTCCT-AAGTTT--T---T--
* * * *
57413676 AACTTTTGTATATGTTAACCTTCACTAAAAGTTTAAATAAATTTGGCAACAAATATATTCTTCTT
185 -A----TGTATATGTTAA-CTTCACTAAAATTTTAAATAAATTTGACAACAAACAAATTCTTC-T
* * * * *
57413741 TTTTATTTATAGCTATTAAATACACATAAATGTAATTTTTATTATATTTTGTCGTGTTTTAAATG
243 TTTTATTTATAACTATTAAATACACAT-AATATCATTTTTATTGTATTTTGTCATGTTTTAAATG
* * * * *
57413806 AAGACACAAAATGTTTTAAGAAAGATATGAGTTAATTTTAAATTTTGAACATCTTTTTAAGTTTT
307 AAGAAACAAAAGGTTTCAAGAAAGATATGAGTTAATTTTAAAATTTGAACATCTTTTTAAGCTTT
* * *
57413871 GATGAACGAGGCTTTTG
372 GATGAACAAGACTTTTA
* * * * *
57413888 CATATGTTAATGTTCACTGAAAATTTAAATAAAATTGGCAACAAACAGGTTATTC-TTTTTATTT
1 TATATGTTAACGTTCACTGAAAATTTAAATAAAATTGACAACAAATAGATT-TTCTTTTTTATTT
* * *
57413952 ATAACTATTAAATACACACATATATCATTTTTATTATATTTTGTCGTGTTTTAAGTGAAA-ACAG
65 ATAACTATTAAATACACTC--ATATCATTTTTATTGTATTTTGTCGTGTTTTAAATGAAAGACAG
*
57414016 AATGTTTCAAGAAAGATATGAGTTAATTTTAAATTTTGAACATCTTCCTAAGTTTTTATGTATGT
128 AATGTTTCAAGAAAGATATGAGTTAATTTTAAATTTTGAACATCTTCCTAAGTTTTTATGTATAT
* *
57414081 GTTAACTTTAACTAAAATTTTAAATAGATTTGACAACAAACAAATTCTTCTTTTTATTTATAACT
193 GTTAAC-TTCACTAAAATTTTAAATAAATTTGACAACAAACAAATTCTTCTTTTTATTTATAACT
*
57414146 ATTAAATACACATAGATATCATTTTTATTGTATTTTGTCATGTTTTAAATG-AGAAAACGAAAGG
257 ATTAAATACACATA-ATATCATTTTTATTGTATTTTGTCATGTTTTAAATGAAG-AAACAAAAGG
* *
57414210 TTTCAATAAAGATATGAGTTGATATTTTAAAATTTGAACATCTTTTTAAGCTTTGATGAATAAGA
320 TTTCAAGAAAGATATGAGTT-A-ATTTTAAAATTTGAACATCTTTTTAAGCTTTGATGAACAAGA
57414275 CTTTTA
383 CTTTTA
*
57414281 TATATGCTAACGTTCACTGAAAATTTAAATAAAATTGACAACAAATAGATTCTTCTTTTTTATTT
1 TATATGTTAACGTTCACTGAAAATTTAAATAAAATTGACAACAAATAGATT-TTCTTTTTTATTT
* * *
57414346 ATAACTATTGAATACACTCGGGTATCATTTTTATTGTATTCTGTCGTGTTTTAAATGAAAGCACA
65 ATAACTATTAAATACACTC--ATATCATTTTTATTGTATTTTGTCGTGTTTTAAATGAAAG-ACA
*
57414411 GAATGTTTCAAGAAAGATATGAGTTAATTTTAAATTTTGAACGTCTTCCTAAGTTTTTATGTATA
127 GAATGTTTCAAGAAAGATATGAGTTAATTTTAAATTTTGAACATCTTCCTAAGTTTTTATGTATA
* *
57414476 TTTTAACTGTCATTAAAATTTTAAATAAATTTGACAACAAACAAATTCTTCTTTTTATTTATAAC
192 TGTTAACT-TCACTAAAATTTTAAATAAATTTGACAACAAACAAATTCTTCTTTTTATTTATAAC
*
57414541 TCTTAAATACACAT-ATATCATTTTTATTGTAT
256 TATTAAATACACATAATATCATTTTTATTGTAT
57414573 GGTAGTTGTG
Statistics
Matches: 600, Mismatches: 65, Indels: 45
0.85 0.09 0.06
Matches are distributed among these distances:
390 3 0.00
391 85 0.14
392 49 0.08
393 90 0.15
394 79 0.13
395 1 0.00
396 139 0.23
399 40 0.07
400 4 0.01
401 50 0.08
402 1 0.00
403 39 0.06
404 5 0.01
405 15 0.03
ACGTcount: A:0.36, C:0.10, G:0.11, T:0.43
Consensus pattern (388 bp):
TATATGTTAACGTTCACTGAAAATTTAAATAAAATTGACAACAAATAGATTTTCTTTTTTATTTA
TAACTATTAAATACACTCATATCATTTTTATTGTATTTTGTCGTGTTTTAAATGAAAGACAGAAT
GTTTCAAGAAAGATATGAGTTAATTTTAAATTTTGAACATCTTCCTAAGTTTTTATGTATATGTT
AACTTCACTAAAATTTTAAATAAATTTGACAACAAACAAATTCTTCTTTTTATTTATAACTATTA
AATACACATAATATCATTTTTATTGTATTTTGTCATGTTTTAAATGAAGAAACAAAAGGTTTCAA
GAAAGATATGAGTTAATTTTAAAATTTGAACATCTTTTTAAGCTTTGATGAACAAGACTTTTA
Found at i:57417455 original size:18 final size:19
Alignment explanation
Indices: 57417434--57417471 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
57417424 CTTGTTTAGA
*
57417434 ATTTTTTATCGT-ATTAAT
1 ATTTTTTATAGTAATTAAT
57417452 A-TTTTTATAGTAATTAAT
1 ATTTTTTATAGTAATTAAT
57417470 AT
1 AT
57417472 ATTTAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 3
0.81 0.05 0.14
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.58
Consensus pattern (19 bp):
ATTTTTTATAGTAATTAAT
Found at i:57417458 original size:17 final size:18
Alignment explanation
Indices: 57417436--57417476 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
57417426 TGTTTAGAAT
*
57417436 TTTTTATCGT-ATTAATA
1 TTTTTATAGTAATTAATA
57417453 TTTTTATAGTAATTAATA
1 TTTTTATAGTAATTAATA
*
57417471 TATTTA
1 TTTTTA
57417477 AAAAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (18 bp):
TTTTTATAGTAATTAATA
Found at i:57417963 original size:30 final size:30
Alignment explanation
Indices: 57417919--57417981 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
57417909 ACTTAACAAG
*
57417919 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATGAA
* *
57417949 CAAATGTCTTTAAAATAATAACAAAATGAA
1 CAAATGCCTCTAAAATAATAACAAAATGAA
57417979 CAA
1 CAA
57417982 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.57, C:0.14, G:0.05, T:0.24
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATGAA
Found at i:57419391 original size:46 final size:46
Alignment explanation
Indices: 57419323--57419412 Score: 135
Period size: 46 Copynumber: 2.0 Consensus size: 46
57419313 ATTGTTGGTG
* * * *
57419323 TGTGGGGATAAAATGAATTTATGAGAAATTAATGAAAGCTTCAAAA
1 TGTGGAGATAAAATAAAATTATGAGAAATTAACGAAAGCTTCAAAA
*
57419369 TGTGGAGATAAAATAAAATTATGATAAATTAACGAAAGCTTCAA
1 TGTGGAGATAAAATAAAATTATGAGAAATTAACGAAAGCTTCAA
57419413 GACGTGTATC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.48, C:0.06, G:0.19, T:0.28
Consensus pattern (46 bp):
TGTGGAGATAAAATAAAATTATGAGAAATTAACGAAAGCTTCAAAA
Found at i:57423557 original size:64 final size:64
Alignment explanation
Indices: 57423478--57423607 Score: 251
Period size: 64 Copynumber: 2.0 Consensus size: 64
57423468 TGAAAGAAGT
57423478 CTTTACAATTTTGTTTCAATCATTTTGATAATACCACATGGTGGGATAGTGGCTCAAAACTGAC
1 CTTTACAATTTTGTTTCAATCATTTTGATAATACCACATGGTGGGATAGTGGCTCAAAACTGAC
*
57423542 CTTTACAATTTTGTTTCAATCATTTTGATAATCCCACATGGTGGGATAGTGGCTCAAAACTGAC
1 CTTTACAATTTTGTTTCAATCATTTTGATAATACCACATGGTGGGATAGTGGCTCAAAACTGAC
57423606 CT
1 CT
57423608 GTCCTTATAT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.36
Consensus pattern (64 bp):
CTTTACAATTTTGTTTCAATCATTTTGATAATACCACATGGTGGGATAGTGGCTCAAAACTGAC
Found at i:57428262 original size:133 final size:134
Alignment explanation
Indices: 57428009--57428305 Score: 372
Period size: 133 Copynumber: 2.2 Consensus size: 134
57427999 ATCCATTCAT
* * * *
57428009 TCAAAGTTTTTCCTCAAATTAGATATTTTTACTAGCGTTTCTCCAATAACGCCACTATATCCCAA
1 TCAAATTTTTTCCTCAAATTAGTTATCTTTACCAGCGTTTCTCCAATAACGCCACTATATCCCAA
* * * *
57428074 TATTTGCGGCGTCTTTTACAATGCGCCACTAAAGAAATAAAATGAAGCAATAAAACGGTAGC-GT
66 TATTTCCGGCGTCTTTTACAATGCGCCACTAAAGAAATAAAATGAAACAACAAAACGGCA-CTGT
57428138 TTTG-
130 TTTGC
* * *
57428142 TCCAAATTTTTTCCTCAAATTAGTTATCTTTACCGGCGTTTC-CCTGAA-AACGCCGCTA-AT-T
1 T-CAAATTTTTTCCTCAAATTAGTTATCTTTACCAGCGTTTCTCC--AATAACGCCACTATATCC
* *
57428203 CAATCTTTTCCGGCGTTTTTTACAATGCGCCACTAAAGAAATAAAATGAAACAACAAAACGGCAC
63 CAAT-ATTTCCGGCGTCTTTTACAATGCGCCACTAAAGAAATAAAATGAAACAACAAAACGGCAC
57428268 TGTTTTGC
127 TGTTTTGC
* *
57428276 TCAGATTTTTTCCTCAAATTCGTTATCTTT
1 TCAAATTTTTTCCTCAAATTAGTTATCTTT
57428306 GTTGCGGAAG
Statistics
Matches: 143, Mismatches: 15, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
132 5 0.03
133 91 0.64
134 45 0.31
135 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.34
Consensus pattern (134 bp):
TCAAATTTTTTCCTCAAATTAGTTATCTTTACCAGCGTTTCTCCAATAACGCCACTATATCCCAA
TATTTCCGGCGTCTTTTACAATGCGCCACTAAAGAAATAAAATGAAACAACAAAACGGCACTGTT
TTGC
Found at i:57430983 original size:21 final size:22
Alignment explanation
Indices: 57430957--57431003 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
57430947 CTCTGCTCAA
*
57430957 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
57430978 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
57431000 ACTC
1 ACTC
57431004 ACTCCTTCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:57434435 original size:3 final size:3
Alignment explanation
Indices: 57434427--57434455 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
57434417 CTTTCGAAGA
57434427 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
57434456 ATGTATGCCC
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:57434733 original size:30 final size:29
Alignment explanation
Indices: 57434697--57434791 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 29
57434687 AACTAAATTC
57434697 CATATTTATGAATAATACAGGGACTTATGT
1 CATATTTATGAATAATA-AGGGACTTATGT
* * *
57434727 CATATTT-TGACATTATAA--AACTAAAT-T
1 CATATTTATGA-ATAATAAGGGACT-TATGT
*
57434754 CCATATTTATGATTAATATAGGGACTTATGT
1 -CATATTTATGAATAATA-AGGGACTTATGT
57434785 CATATTT
1 CATATTT
57434792 TAACATTATA
Statistics
Matches: 50, Mismatches: 7, Indels: 16
0.68 0.10 0.22
Matches are distributed among these distances:
27 4 0.08
28 13 0.26
29 8 0.16
30 21 0.42
31 4 0.08
ACGTcount: A:0.37, C:0.11, G:0.12, T:0.41
Consensus pattern (29 bp):
CATATTTATGAATAATAAGGGACTTATGT
Found at i:57434748 original size:58 final size:58
Alignment explanation
Indices: 57434686--57434803 Score: 209
Period size: 58 Copynumber: 2.0 Consensus size: 58
57434676 AATAGAACAT
*
57434686 AAACTAAATTCCATATTTATGAATAATACAGGGACTTATGTCATATTTTGACATTATA
1 AAACTAAATTCCATATTTATGAATAATACAGGGACTTATGTCATATTTTAACATTATA
* *
57434744 AAACTAAATTCCATATTTATGATTAATATAGGGACTTATGTCATATTTTAACATTATA
1 AAACTAAATTCCATATTTATGAATAATACAGGGACTTATGTCATATTTTAACATTATA
57434802 AA
1 AA
57434804 TATATTAGTT
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.41, C:0.11, G:0.09, T:0.39
Consensus pattern (58 bp):
AAACTAAATTCCATATTTATGAATAATACAGGGACTTATGTCATATTTTAACATTATA
Found at i:57434943 original size:23 final size:24
Alignment explanation
Indices: 57434917--57434961 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
57434907 GATTAAGAAA
57434917 TTAAAACTAAAT-AATATATGTGT
1 TTAAAACTAAATAAATATATGTGT
***
57434940 TTAATTTTAAATAAATATATGT
1 TTAAAACTAAATAAATATATGT
57434962 ATCAAGTGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 9 0.50
24 9 0.50
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.44
Consensus pattern (24 bp):
TTAAAACTAAATAAATATATGTGT
Found at i:57438526 original size:13 final size:14
Alignment explanation
Indices: 57438500--57438533 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
57438490 TCAAAATTTA
57438500 AAAATAATATTATT
1 AAAATAATATTATT
57438514 AAAATAA-ATTATT
1 AAAATAATATTATT
57438527 ATAAATA
1 A-AAATA
57438534 TTAAACACGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
AAAATAATATTATT
Found at i:57439453 original size:25 final size:23
Alignment explanation
Indices: 57439416--57439461 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 23
57439406 TCACTTGAAA
57439416 AAAAAATATAAAATC-TAAAAATT
1 AAAAAATATAAAA-CATAAAAATT
57439439 AAAAAATATTCAAAACATAAAAA
1 AAAAAATA-T-AAAACATAAAAA
57439462 AAATTATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.72, C:0.07, G:0.00, T:0.22
Consensus pattern (23 bp):
AAAAAATATAAAACATAAAAATT
Found at i:57444311 original size:2 final size:2
Alignment explanation
Indices: 57444306--57444331 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
57444296 AGAGTTTTTT
57444306 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
57444332 ATAGTGTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:57445782 original size:18 final size:18
Alignment explanation
Indices: 57445759--57445803 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
57445749 TTATAAAAAA
* *
57445759 TATAAAATTAATTTTAAT
1 TATAAAATTAAATATAAT
*
57445777 TATAAAAATAAATATAAT
1 TATAAAATTAAATATAAT
*
57445795 TTTAAAATT
1 TATAAAATT
57445804 CAAACAATTC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TATAAAATTAAATATAAT
Found at i:57445794 original size:24 final size:27
Alignment explanation
Indices: 57445746--57445799 Score: 78
Period size: 24 Copynumber: 2.1 Consensus size: 27
57445736 AATTGGGTCC
57445746 TAATTATAAAAAATATAAAATTAATTT
1 TAATTATAAAAAATATAAAATTAATTT
*
57445773 TAATTAT-AAAAATA-AATA-TAATTT
1 TAATTATAAAAAATATAAAATTAATTT
57445797 TAA
1 TAA
57445800 AATTCAAACA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 9 0.35
25 3 0.12
26 7 0.27
27 7 0.27
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (27 bp):
TAATTATAAAAAATATAAAATTAATTT
Found at i:57457396 original size:11 final size:11
Alignment explanation
Indices: 57457380--57457406 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
57457370 AATTGTGCAT
57457380 ATTAAATTTAA
1 ATTAAATTTAA
57457391 ATTAAATTTAA
1 ATTAAATTTAA
57457402 ATTAA
1 ATTAA
57457407 CTACTTTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
ATTAAATTTAA
Found at i:57459304 original size:42 final size:41
Alignment explanation
Indices: 57459258--57459354 Score: 95
Period size: 42 Copynumber: 2.3 Consensus size: 41
57459248 AAGCTCATGG
* * *
57459258 GAGCTAAACAGAAACCCAAAATGGTTGAACGGAAGCTCGTAA
1 GAGCTAAAC-GAAACCCAAAAGGGTTAAACAGAAGCTCGTAA
** * * * *
57459300 GAGCTGAATGGAAACTCATAAGGGTTAAATAGAAGCTCGTGA
1 GAGCT-AAACGAAACCCAAAAGGGTTAAACAGAAGCTCGTAA
57459342 GAGCTAAACGAAA
1 GAGCTAAACGAAA
57459355 AGTAAACACG
Statistics
Matches: 43, Mismatches: 11, Indels: 3
0.75 0.19 0.05
Matches are distributed among these distances:
41 6 0.14
42 35 0.81
43 2 0.05
ACGTcount: A:0.42, C:0.15, G:0.26, T:0.16
Consensus pattern (41 bp):
GAGCTAAACGAAACCCAAAAGGGTTAAACAGAAGCTCGTAA
Found at i:57459312 original size:21 final size:21
Alignment explanation
Indices: 57459283--57459346 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 21
57459273 CCAAAATGGT
*
57459283 TGAACGGAAGCTCGTAAGAGC
1 TGAATGGAAGCTCGTAAGAGC
* * * *
57459304 TGAATGGAAACTCATAAGGGT
1 TGAATGGAAGCTCGTAAGAGC
* * *
57459325 TAAATAGAAGCTCGTGAGAGC
1 TGAATGGAAGCTCGTAAGAGC
57459346 T
1 T
57459347 AAACGAAAAG
Statistics
Matches: 31, Mismatches: 12, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.36, C:0.14, G:0.30, T:0.20
Consensus pattern (21 bp):
TGAATGGAAGCTCGTAAGAGC
Found at i:57462376 original size:4 final size:4
Alignment explanation
Indices: 57462367--57462422 Score: 112
Period size: 4 Copynumber: 14.0 Consensus size: 4
57462357 AATTTAGCTT
57462367 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
57462415 TACA TACA
1 TACA TACA
57462423 AGATTGAGAC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 52 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
TACA
Found at i:57470885 original size:19 final size:18
Alignment explanation
Indices: 57470863--57470909 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
57470853 ATAAAAGTCA
57470863 AAATATTAAAAAAAAGGTT
1 AAATATTAAAAAAAAGG-T
* *
57470882 AAAT-TCATAAAAAAATGT
1 AAATATTA-AAAAAAAGGT
57470900 AAATATTAAA
1 AAATATTAAA
57470910 GCTAACTCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
18 9 0.39
19 14 0.61
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.28
Consensus pattern (18 bp):
AAATATTAAAAAAAAGGT
Found at i:57471593 original size:17 final size:18
Alignment explanation
Indices: 57471573--57471612 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
57471563 ATTAATGTGC
57471573 AAAAATTATAAATGAT-A
1 AAAAATTATAAATGATGA
*
57471590 AAAAA-TATAAATTATGA
1 AAAAATTATAAATGATGA
57471607 AAAAAT
1 AAAAAT
57471613 GTTTAAGATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.28
Consensus pattern (18 bp):
AAAAATTATAAATGATGA
Found at i:57472019 original size:19 final size:19
Alignment explanation
Indices: 57471995--57472065 Score: 58
Period size: 18 Copynumber: 3.7 Consensus size: 19
57471985 AAATTAGTTT
57471995 TTTTTATATTTTTCATATA
1 TTTTTATATTTTTCATATA
*
57472014 TTTTTAT-TTTATT-TTATA
1 TTTTTATATTT-TTCATATA
* *
57472032 GTTTT-TATTCTTCATATAA
1 TTTTTATATTTTTCATAT-A
57472051 TTTTTTATAATTTTT
1 -TTTTTAT-ATTTTT
57472066 AATGTTTAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 11
0.70 0.11 0.20
Matches are distributed among these distances:
17 3 0.08
18 16 0.41
19 10 0.26
20 4 0.10
21 1 0.03
22 5 0.13
ACGTcount: A:0.24, C:0.04, G:0.01, T:0.70
Consensus pattern (19 bp):
TTTTTATATTTTTCATATA
Found at i:57475072 original size:20 final size:19
Alignment explanation
Indices: 57475026--57475074 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 19
57475016 AATACAAAAT
*
57475026 AATTCAAAATAATTTTCAA
1 AATTCAAAATAATTTTAAA
57475045 AATTCAAAAT-ATTTATAAA
1 AATTCAAAATAATTT-TAAA
57475064 AATTTCAAAAT
1 AA-TTCAAAAT
57475075 TTATATTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 4 0.15
19 15 0.56
20 8 0.30
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (19 bp):
AATTCAAAATAATTTTAAA
Found at i:57498738 original size:42 final size:41
Alignment explanation
Indices: 57498683--57498821 Score: 152
Period size: 42 Copynumber: 3.3 Consensus size: 41
57498673 CAAAGGCTGC
* * * *
57498683 ACAGAAGCACATAAGTGCTAAACAGAAACCCGTAAGGGTTGA
1 ACAGAAGCTCATAAGAGCTGAAC-GAAACCCATAAGGGTTGA
* * *
57498725 ACGGAAGCTCATAAGAGCTGAACGAAAACCTATAAGGGTTAA
1 ACAGAAGCTCATAAGAGCTGAACG-AAACCCATAAGGGTTGA
* * *
57498767 ACTGAAGCTCAAAAGAGCTGAACGGAAACCCATTAGGGTTGA
1 ACAGAAGCTCATAAGAGCTGAAC-GAAACCCATAAGGGTTGA
*
57498809 ACAGAAACTCATA
1 ACAGAAGCTCATA
57498822 TGAGTTAATA
Statistics
Matches: 80, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
41 1 0.01
42 78 0.98
43 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.23, T:0.16
Consensus pattern (41 bp):
ACAGAAGCTCATAAGAGCTGAACGAAACCCATAAGGGTTGA
Found at i:57498746 original size:21 final size:21
Alignment explanation
Indices: 57498722--57498793 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 21
57498712 CCGTAAGGGT
57498722 TGAACGGAAGCTCATAAGAGC
1 TGAACGGAAGCTCATAAGAGC
* * * *
57498743 TGAACGAAAAC-CTATAAGGGT
1 TGAACGGAAGCTC-ATAAGAGC
* * *
57498764 TAAACTGAAGCTCAAAAGAGC
1 TGAACGGAAGCTCATAAGAGC
57498785 TGAACGGAA
1 TGAACGGAA
57498794 ACCCATTAGG
Statistics
Matches: 36, Mismatches: 13, Indels: 4
0.68 0.25 0.08
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.43, C:0.17, G:0.25, T:0.15
Consensus pattern (21 bp):
TGAACGGAAGCTCATAAGAGC
Found at i:57500027 original size:21 final size:21
Alignment explanation
Indices: 57500003--57500042 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
57499993 TTAACTATCA
*
57500003 AAACATTAAAATTTTCTTACG
1 AAACATTAAAATTATCTTACG
* *
57500024 AAACTTTAATATTATCTTA
1 AAACATTAAAATTATCTTA
57500043 ATGACACTCC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.42, C:0.12, G:0.03, T:0.42
Consensus pattern (21 bp):
AAACATTAAAATTATCTTACG
Found at i:57500629 original size:51 final size:51
Alignment explanation
Indices: 57500553--57500655 Score: 179
Period size: 51 Copynumber: 2.0 Consensus size: 51
57500543 CAAGGAAATT
* *
57500553 CAAATCAAAATAATATTTGTTTGCGATTCTAAACAATTTTTCAAAGTACTC
1 CAAATCAAAATAATATTTGTTTGCGATTCCAAACAATTTGTCAAAGTACTC
*
57500604 CAAATCAAAATAATCTTTGTTTGCGATTCCAAACAATTTGTCAAAGTACTC
1 CAAATCAAAATAATATTTGTTTGCGATTCCAAACAATTTGTCAAAGTACTC
57500655 C
1 C
57500656 TTCACCATCT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.35
Consensus pattern (51 bp):
CAAATCAAAATAATATTTGTTTGCGATTCCAAACAATTTGTCAAAGTACTC
Found at i:57500830 original size:22 final size:22
Alignment explanation
Indices: 57500805--57500853 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
57500795 CTCTTGCCTT
57500805 TAATTTTCTTTATTTCTTCTCC
1 TAATTTTCTTTATTTCTTCTCC
*
57500827 TAATTTTCTTTATTTCTTCTCG
1 TAATTTTCTTTATTTCTTCTCC
57500849 TAATT
1 TAATT
57500854 CTTGATCTGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.16, C:0.18, G:0.02, T:0.63
Consensus pattern (22 bp):
TAATTTTCTTTATTTCTTCTCC
Found at i:57500952 original size:27 final size:27
Alignment explanation
Indices: 57500914--57500968 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
57500904 CTTCCTCCAC
57500914 AACTTCCTAGAGATCATTTGCTTCTAA
1 AACTTCCTAGAGATCATTTGCTTCTAA
57500941 AACTTCCTAGAGATCATTTGCTTCTAA
1 AACTTCCTAGAGATCATTTGCTTCTAA
57500968 A
1 A
57500969 TGAGCCTCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (27 bp):
AACTTCCTAGAGATCATTTGCTTCTAA
Found at i:57502884 original size:17 final size:17
Alignment explanation
Indices: 57502859--57502892 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
57502849 ATAACCCATC
57502859 CAACCTTTTCCTTGTTT
1 CAACCTTTTCCTTGTTT
*
57502876 CAACTTTTTCCTTGTTT
1 CAACCTTTTCCTTGTTT
57502893 ACAAGAAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.12, C:0.26, G:0.06, T:0.56
Consensus pattern (17 bp):
CAACCTTTTCCTTGTTT
Found at i:57507456 original size:19 final size:19
Alignment explanation
Indices: 57507434--57507537 Score: 70
Period size: 19 Copynumber: 5.2 Consensus size: 19
57507424 AAAATTACAA
57507434 AAAAAATCAAAATAATTTT
1 AAAAAATCAAAATAATTTT
*
57507453 AAAAAATTCAAAGTAAATTTT
1 AAAAAA-TCAAAAT-AATTTT
*
57507474 -AAAATTCAAAAT-ATTTAT
1 AAAAAATCAAAATAATTT-T
*
57507492 AAAAATTCCAAAATTTATATTTT
1 AAAAAAT-CAAAA--TA-ATTTT
* *
57507515 TAAAAATTATAAA-AATTTT
1 AAAAAATCA-AAATAATTTT
57507534 AAAA
1 AAAA
57507538 TTTTCTAAAA
Statistics
Matches: 68, Mismatches: 7, Indels: 20
0.72 0.07 0.21
Matches are distributed among these distances:
17 4 0.06
18 1 0.01
19 26 0.38
20 16 0.24
21 6 0.09
22 2 0.03
23 9 0.13
24 4 0.06
ACGTcount: A:0.58, C:0.05, G:0.01, T:0.37
Consensus pattern (19 bp):
AAAAAATCAAAATAATTTT
Found at i:57507458 original size:20 final size:21
Alignment explanation
Indices: 57507433--57507477 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
57507423 AAAAATTACA
57507433 AAAAAAATCAAAAT-AATTTT
1 AAAAAAATCAAAATAAATTTT
* *
57507453 AAAAAATTCAAAGTAAATTTT
1 AAAAAAATCAAAATAAATTTT
57507474 AAAA
1 AAAA
57507478 TTCAAAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.29
Consensus pattern (21 bp):
AAAAAAATCAAAATAAATTTT
Found at i:57530069 original size:6 final size:6
Alignment explanation
Indices: 57530033--57530067 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
57530023 TAAAAGTGAA
* *
57530033 GAACCC GAACCC GAACCC GAACCT GAACCT GAACC
1 GAACCC GAACCC GAACCC GAACCC GAACCC GAACC
57530068 TGGTGCTCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.34, C:0.43, G:0.17, T:0.06
Consensus pattern (6 bp):
GAACCC
Found at i:57543969 original size:13 final size:13
Alignment explanation
Indices: 57543953--57543977 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
57543943 ATGTATATAA
57543953 TATATATATAAAC
1 TATATATATAAAC
57543966 TATATATATAAA
1 TATATATATAAA
57543978 AAAATATGGT
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:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (13 bp):
TATATATATAAAC
Found at i:57544099 original size:3 final size:3
Alignment explanation
Indices: 57544084--57544144 Score: 67
Period size: 3 Copynumber: 21.3 Consensus size: 3
57544074 GTATGCAAGT
*
57544084 ATA ATA A-A A-A ATA ATA ATA ATA GTA ATA ATA ATA ATA ATA ATA ACT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA
*
57544130 ATA TTA ATA A-A ATA A
1 ATA ATA ATA ATA ATA A
57544145 ACTAAAAAAC
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
2 7 0.14
3 42 0.84
4 1 0.02
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:57545638 original size:132 final size:132
Alignment explanation
Indices: 57545401--57546568 Score: 2003
Period size: 132 Copynumber: 8.8 Consensus size: 132
57545391 CGCCATCGTC
* * * * *
57545401 GATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGTATCTTGGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
*
57545466 TTCCTATCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
57545531 AA
131 AA
* * * *
57545533 GATCTGCTTTTTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCGTCGTGGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
57545598 TTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
*
57545663 CA
131 AA
*
57545665 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTGGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
* *
57545730 TTCCAATCATTATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
57545795 AA
131 AA
* *
57545797 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCGTCGTCGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
* *
57545862 TTCCAATCATTATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
57545927 AA
131 AA
*
57545929 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTGGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
*
57545994 TTCCTATCAATATAGAAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
57546059 AA
131 AA
* *
57546061 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCGTCGTCGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
* *
57546126 TTCCAATCATTATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
57546191 AA
131 AA
57546193 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
* * *
57546258 TTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
57546323 AA
131 AA
*
57546325 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAT
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
* * *
57546390 TTCCTACCAATATAGGAAGATAGGATCAGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
57546455 AA
131 AA
* *
57546457 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAT
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
* * * *
57546522 TTCCTACCAATATAAGAAGATAGGATCAGCTATCTTCGATCTACTTC
66 TTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTC
57546569 TTGCCCCGAG
Statistics
Matches: 994, Mismatches: 42, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
132 994 1.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (132 bp):
GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
TTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
AA
Found at i:57546703 original size:46 final size:46
Alignment explanation
Indices: 57546652--57547187 Score: 191
Period size: 46 Copynumber: 11.8 Consensus size: 46
57546642 ACCTGCTTTG
* *
57546652 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
1 CTGCCAAATACAGGGAGGTAAGATCTGCAATCTTCAATCTATTCCA
* * * ** * *
57546698 CTGCCAAATACAGGGAGATAGAGTTAT-C-GGCTTCAATGTACTCCA
1 CTGCCAAATACAGGGAGGTA-AGATCTGCAATCTTCAATCTATTCCA
*** * * ** * *
57546743 CTG--TGGT-CAGGGAGGTAAAATCTGCCATCTTTGATCTGCTT-CG
1 CTGCCAAATACAGGGAGGTAAGATCTGCAATCTTCAATCT-ATTCCA
* *
57546786 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
1 CTGCCAAATACAGGGAGGTAAGATCTGCAATCTTCAATCTATTCCA
* * * ** * *
57546832 CTGCCAAATACAGGGAGATAGAGTTAT-C-GGCTTCAATGTACTCCA
1 CTGCCAAATACAGGGAGGTA-AGATCTGCAATCTTCAATCTATTCCA
*** * * * ** * *
57546877 CTG--TGGT-CAGGGAGGTAAAATCTACCATCTTTGATCTGCTT-CG
1 CTGCCAAATACAGGGAGGTAAGATCTGCAATCTTCAATCT-ATTCCA
* *
57546920 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
1 CTGCCAAATACAGGGAGGTAAGATCTGCAATCTTCAATCTATTCCA
* * * ** * *
57546966 CTGCCAAATACAGGGAGATAGAGTTAT-C-GGCTTCAATGTACTCCA
1 CTGCCAAATACAGGGAGGTA-AGATCTGCAATCTTCAATCTATTCCA
*** *
57547011 CTG--TGGT-CAGGGAGGTAAAATCTGCCATCTTTGATCTTCAATCTATTCCA
1 CTGCCAAATACAGGGAGGTAAGATCTG-CA------ATCTTCAATCTATTCCA
* * * * * *
57547061 CTGCCAAATACAGGGAGATAGAGTTAT-C-AGCTTCAATGTACTCCA
1 CTGCCAAATACAGGGAGGTA-AGATCTGCAATCTTCAATCTATTCCA
* * * * * * *
57547106 CTG--TAGTCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTT-CG
1 CTGCCAAAT-ACAGGGAGGTAAGATCTGCAATCTTCAATCT-ATTCCA
*
57547151 CTGCCAAATACAGGAAGGTAAGATCTG-ATATCTTCAA
1 CTGCCAAATACAGGGAGGTAAGATCTGCA-ATCTTCAA
57547188 CCAGCTCTGC
Statistics
Matches: 334, Mismatches: 119, Indels: 74
0.63 0.23 0.14
Matches are distributed among these distances:
41 9 0.03
42 29 0.09
43 29 0.09
44 13 0.04
45 83 0.25
46 127 0.38
47 14 0.04
50 16 0.05
52 2 0.01
53 9 0.03
54 3 0.01
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (46 bp):
CTGCCAAATACAGGGAGGTAAGATCTGCAATCTTCAATCTATTCCA
Found at i:57546818 original size:134 final size:134
Alignment explanation
Indices: 57546578--57547047 Score: 832
Period size: 134 Copynumber: 3.5 Consensus size: 134
57546568 CTTGCCCCGA
** * ** * * **
57546578 GAGATAGAACTATCAGCTTCAATGTACTCCACTGTAATCAGGGAGGTAAAATCCGCCGTCTTCAA
1 GAGATAGAGTTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTTGA
* *
57546643 CCTGCTTTGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATA
66 TCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATA
57546708 CAGG
131 CAGG
57546712 GAGATAGAGTTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTTGA
1 GAGATAGAGTTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTTGA
57546777 TCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATA
66 TCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATA
57546842 CAGG
131 CAGG
*
57546846 GAGATAGAGTTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTACCATCTTTGA
1 GAGATAGAGTTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTTGA
57546911 TCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATA
66 TCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATA
57546976 CAGG
131 CAGG
57546980 GAGATAGAGTTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTTGA
1 GAGATAGAGTTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTTGA
57547045 TCT
66 TCT
57547048 TCAATCTATT
Statistics
Matches: 323, Mismatches: 13, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
134 323 1.00
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (134 bp):
GAGATAGAGTTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTTGA
TCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATA
CAGG
Found at i:57547013 original size:45 final size:45
Alignment explanation
Indices: 57546817--57547108 Score: 121
Period size: 45 Copynumber: 6.4 Consensus size: 45
57546807 GATCTGCAAT
*
57546817 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
* *** * * * * **
57546862 CTTCAATGTACTCCACTG--TGGT-CAGGGAGGTAAAATCTACCAT
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGT-TATCGG
** * * * * ** * * **
57546905 CTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCA-AGATCTGCAAT
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTAT-C-GG
*
57546951 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
* *** * * * *
57546996 CTTCAATGTACTCCACTG--TGGT-CAGGGAGGTAAAATCTGCCATCTTTGAT
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGT-T---ATC---G-G
* *
57547046 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCAG
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
*
57547091 CTTCAATGTACTCCACTG
1 CTTCAATCTACTCCACTG
57547109 TAGTCACAGG
Statistics
Matches: 169, Mismatches: 60, Indels: 36
0.64 0.23 0.14
Matches are distributed among these distances:
42 22 0.13
43 18 0.11
44 1 0.01
45 51 0.30
46 40 0.24
47 4 0.02
49 4 0.02
50 16 0.09
52 2 0.01
53 11 0.07
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (45 bp):
CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
Found at i:57547054 original size:95 final size:96
Alignment explanation
Indices: 57546949--57547144 Score: 349
Period size: 95 Copynumber: 2.0 Consensus size: 96
57546939 AAGATCTGCA
*
57546949 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCAGCTTCAATGTACTCCACTG
* *
57547014 TGGT-CAGGGAGGTAAAATCTGCCATCTTTG
66 TAGTACAGGGAGGTAAAATCTGCCATCTTCG
57547044 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCAGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCAGCTTCAATGTACTCCACTG
57547109 TAGTCACAGGGAGGTAAAATCTGCCATCTTCG
66 TAGT-ACAGGGAGGTAAAATCTGCCATCTTCG
57547141 ATCT
1 ATCT
57547145 GCTTCGCTGC
Statistics
Matches: 96, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
95 67 0.70
97 29 0.30
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (96 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCAGCTTCAATGTACTCCACTG
TAGTACAGGGAGGTAAAATCTGCCATCTTCG
Found at i:57547281 original size:86 final size:86
Alignment explanation
Indices: 57547135--57547398 Score: 402
Period size: 86 Copynumber: 3.1 Consensus size: 86
57547125 AAATCTGCCA
* * *
57547135 TCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGTAAGATCTGATATCTTCAACCAGCTCTGCTA
1 TCTTCGATCTGCTTCGCTGTC-AATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTGCTA
*
57547200 CAAACTAGAGTGGCAAGGTTTG
65 CAAACGAGAGTGGCAAGGTTTG
* * *
57547222 TCTTCGATATGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTACTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTGCTAC
57547287 AAACGAGAGTGGCAAGGTTTG
66 AAACGAGAGTGGCAAGGTTTG
* *
57547308 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATTTGATAACTTCAACCAGCTCTGCTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTGCTAC
* * * *
57547373 GACCGAGAGAGGCAAGGTTTA
66 AAACGAGAGTGGCAAGGTTTG
57547394 TCTTC
1 TCTTC
57547399 AATTTTTACT
Statistics
Matches: 161, Mismatches: 16, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
86 142 0.88
87 19 0.12
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (86 bp):
TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTGCTAC
AAACGAGAGTGGCAAGGTTTG
Found at i:57547344 original size:42 final size:42
Alignment explanation
Indices: 57547211--57547349 Score: 97
Period size: 42 Copynumber: 3.3 Consensus size: 42
57547201 AAACTAGAGT
* *
57547211 GGCAAGGTTTGTCTTCGATATGCTTCGCTGTCAATGCAGGAA
1 GGCAAGATTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAA
* * * * * * * *
57547253 GGCAAGATCTGCTATCTTCAACCAGC-TCTACT-ACAA-AC-GAGAGT
1 GGCAAGAT-T--TGTCTTCGATCTGCTTC-GCTGTCAATGCAG-GA-A
*
57547297 GGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAA
1 GGCAAGATTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAA
57547339 GGCAAGATTTG
1 GGCAAGATTTG
57547350 ATAACTTCAA
Statistics
Matches: 67, Mismatches: 20, Indels: 20
0.63 0.19 0.19
Matches are distributed among these distances:
41 12 0.18
42 23 0.34
43 8 0.12
44 13 0.19
45 11 0.16
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (42 bp):
GGCAAGATTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAA
Found at i:57553911 original size:13 final size:13
Alignment explanation
Indices: 57553895--57553919 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
57553885 ATGTATATAA
57553895 TATATATATAAAC
1 TATATATATAAAC
57553908 TATATATATAAA
1 TATATATATAAA
57553920 AAAAATATGG
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:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (13 bp):
TATATATATAAAC
Found at i:57554040 original size:3 final size:3
Alignment explanation
Indices: 57554025--57554082 Score: 52
Period size: 3 Copynumber: 20.3 Consensus size: 3
57554015 GTATGCAAGT
* *
57554025 ATA ATA A-A A-A ATA ATA ATA GTA GTA ATA ATA ATA ATA ATA ACT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA
*
57554068 ATA TTA ATA A-A ATA A
1 ATA ATA ATA ATA ATA A
57554083 ACTAAAAAAC
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
2 7 0.15
3 39 0.83
4 1 0.02
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:57556492 original size:21 final size:21
Alignment explanation
Indices: 57556466--57556505 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
57556456 TATATTTTTA
57556466 TTTTTTTAATTTTAAAATACT
1 TTTTTTTAATTTTAAAATACT
*
57556487 TTTTTTTATTTTTAAAATA
1 TTTTTTTAATTTTAAAATA
57556506 AATTTTTGGT
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:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTTTTTAATTTTAAAATACT
Found at i:57556511 original size:21 final size:21
Alignment explanation
Indices: 57556465--57556512 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
57556455 ATATATTTTT
*
57556465 ATTTTTTTAATTTTAAAATAC
1 ATTTTTTTAATTTTAAAATAA
* *
57556486 TTTTTTTTATTTTTAAAATAA
1 ATTTTTTTAATTTTAAAATAA
57556507 ATTTTT
1 ATTTTT
57556513 GGTGTTTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (21 bp):
ATTTTTTTAATTTTAAAATAA
Found at i:57558133 original size:34 final size:36
Alignment explanation
Indices: 57558090--57558167 Score: 133
Period size: 34 Copynumber: 2.2 Consensus size: 36
57558080 ACGGAATGTC
57558090 ATTAAGGTAGTATTAAAGTTTCGT-TAA-AAAATTT
1 ATTAAGGTAGTATTAAAGTTTCGTGTAAGAAAATTT
*
57558124 ATTAAGGTAGTATTAAAGTTTCGTGTAAGTAAATTT
1 ATTAAGGTAGTATTAAAGTTTCGTGTAAGAAAATTT
57558160 ATTAAGGT
1 ATTAAGGT
57558168 GCAAAACGTG
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
34 24 0.59
35 3 0.07
36 14 0.34
ACGTcount: A:0.38, C:0.03, G:0.18, T:0.41
Consensus pattern (36 bp):
ATTAAGGTAGTATTAAAGTTTCGTGTAAGAAAATTT
Found at i:57559267 original size:21 final size:21
Alignment explanation
Indices: 57559241--57559330 Score: 110
Period size: 21 Copynumber: 4.3 Consensus size: 21
57559231 ATTTACTTTT
57559241 TGTTCAGCTCTTTCGAGCTTC
1 TGTTCAGCTCTTTCGAGCTTC
57559262 TGTTCAGCTCTTTCGAGCTTC
1 TGTTCAGCTCTTTCGAGCTTC
* *** *
57559283 TGTTCAACTCTTAAAAGTTTC
1 TGTTCAGCTCTTTCGAGCTTC
57559304 TGTTCAGCT-TTTACGAGCTTC
1 TGTTCAGCTCTTT-CGAGCTTC
*
57559325 TATTCA
1 TGTTCA
57559331 ACCCTTAAGA
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
20 2 0.04
21 55 0.96
ACGTcount: A:0.17, C:0.24, G:0.16, T:0.43
Consensus pattern (21 bp):
TGTTCAGCTCTTTCGAGCTTC
Found at i:57559305 original size:42 final size:43
Alignment explanation
Indices: 57559259--57559356 Score: 146
Period size: 42 Copynumber: 2.3 Consensus size: 43
57559249 TCTTTCGAGC
* *
57559259 TTCTGTTCAGCTCTTT-CGAGCTTCTGTTCAACTCTTAAAAGT
1 TTCTGTTCAGCTCTTTACGAGCTTCTATTCAACCCTTAAAAGT
*
57559301 TTCTGTTCAGCT-TTTACGAGCTTCTATTCAACCCTTAAGAGT
1 TTCTGTTCAGCTCTTTACGAGCTTCTATTCAACCCTTAAAAGT
*
57559343 TTCTGTTTAGCTCT
1 TTCTGTTCAGCTCT
57559357 CATGAGCTTC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
41 3 0.06
42 46 0.92
43 1 0.02
ACGTcount: A:0.18, C:0.23, G:0.14, T:0.44
Consensus pattern (43 bp):
TTCTGTTCAGCTCTTTACGAGCTTCTATTCAACCCTTAAAAGT
Found at i:57559346 original size:21 final size:21
Alignment explanation
Indices: 57559241--57559349 Score: 83
Period size: 21 Copynumber: 5.2 Consensus size: 21
57559231 ATTTACTTTT
* ** *
57559241 TGTTCAGCTCTTTCGAGCTTC
1 TGTTCAACTCTTAAGAGTTTC
* ** *
57559262 TGTTCAGCTCTTTCGAGCTTC
1 TGTTCAACTCTTAAGAGTTTC
*
57559283 TGTTCAACTCTTAAAAGTTTC
1 TGTTCAACTCTTAAGAGTTTC
* * * *
57559304 TGTTCAGCTTTTACGAGCTTC
1 TGTTCAACTCTTAAGAGTTTC
* *
57559325 TATTCAACCCTTAAGAGTTTC
1 TGTTCAACTCTTAAGAGTTTC
57559346 TGTT
1 TGTT
57559350 TAGCTCTCAT
Statistics
Matches: 71, Mismatches: 17, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 71 1.00
ACGTcount: A:0.17, C:0.24, G:0.16, T:0.43
Consensus pattern (21 bp):
TGTTCAACTCTTAAGAGTTTC
Found at i:57559364 original size:42 final size:41
Alignment explanation
Indices: 57559259--57559368 Score: 130
Period size: 42 Copynumber: 2.6 Consensus size: 41
57559249 TCTTTCGAGC
* * *
57559259 TTCTGTTCAGCTCTTTCGAGCTTCTGTTCAACTCTTAAAAGT
1 TTCTGTTCAGCTCTAT-GAGCTTCTATTCAACCCTTAAAAGT
* * *
57559301 TTCTGTTCAGCTTTTACGAGCTTCTATTCAACCCTTAAGAGT
1 TTCTGTTCAGC-TCTATGAGCTTCTATTCAACCCTTAAAAGT
*
57559343 TTCTGTTTAGCTCTCATGAGCTTCTA
1 TTCTGTTCAGCTCT-ATGAGCTTCTA
57559369 CAAAACGATG
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
41 2 0.04
42 53 0.93
43 2 0.04
ACGTcount: A:0.19, C:0.24, G:0.15, T:0.43
Consensus pattern (41 bp):
TTCTGTTCAGCTCTATGAGCTTCTATTCAACCCTTAAAAGT
Found at i:57559922 original size:18 final size:18
Alignment explanation
Indices: 57559899--57559936 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
57559889 AAAAGCCAAT
57559899 TTTTTATCATCTTCTTCA
1 TTTTTATCATCTTCTTCA
57559917 TTTTTATCATCTTCTTCA
1 TTTTTATCATCTTCTTCA
57559935 TT
1 TT
57559937 AGGCCGAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.16, C:0.21, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTTTATCATCTTCTTCA
Found at i:57560822 original size:50 final size:51
Alignment explanation
Indices: 57560741--57560952 Score: 259
Period size: 50 Copynumber: 4.1 Consensus size: 51
57560731 ATTTGGGTAA
* *
57560741 AGAGGTCC-CATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGTTG
1 AGAGGTCCTCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * * *
57560791 AGAGG-CCTCATATAAGACCATGTTTGAGACATGGCGTTGACACCGAGATG
1 AGAGGTCCTCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
57560841 AGAGGTCCCATGTAAGACATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGT-CC---T----CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
57560900 AGAGGTCC-CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCTCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
57560950 AGA
1 AGA
57560953 ATGCCATCGA
Statistics
Matches: 140, Mismatches: 12, Indels: 20
0.81 0.07 0.12
Matches are distributed among these distances:
49 2 0.01
50 89 0.64
52 2 0.01
55 1 0.01
58 2 0.01
59 44 0.31
ACGTcount: A:0.28, C:0.21, G:0.31, T:0.21
Consensus pattern (51 bp):
AGAGGTCCTCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:57560944 original size:109 final size:108
Alignment explanation
Indices: 57560749--57561090 Score: 382
Period size: 117 Copynumber: 3.0 Consensus size: 108
57560739 AAAGAGGTCC
* * * *
57560749 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGTTGAGAGG-CCTCATATAAGACCATG
1 CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCC-CATGTAAGACCATG
* * * * *
57560813 TTTGAGACATGGCGTTGACACCGAGATGAGAGGTCCCATGTAAGA
65 TCTGGGACATGGCATTGGCACCGAGATGAGA-ATCCCATGTAAGA
57560858 CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGT
1 CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGT
*
57560923 CTGGGACATGGCATTGGCACCGAGATGAGAATGCCATCG-AGATGA
66 CTGGGACATGGCATTGGCACCGAGATGAGAATCCCAT-GTA-A-GA
* * **
57560968 GAGGTCCCCCGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATGAGAGGTCCCCCGTAAG
1 CA--T-----GTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAG
* * *
57561033 ACCATGTCTAGGACATGGCATGGGCACCGATATGAGAACATCCCATGTAAGA
59 ACCATGTCTGGGACATGGCATTGGCACCGAGATGAG-A-ATCCCATGTAAGA
57561085 CCATGT
1 -CATGT
57561091 CTGAGACATG
Statistics
Matches: 199, Mismatches: 19, Indels: 28
0.81 0.08 0.11
Matches are distributed among these distances:
108 6 0.03
109 86 0.43
110 5 0.03
111 2 0.01
112 1 0.01
116 1 0.01
117 87 0.44
118 4 0.02
119 7 0.04
ACGTcount: A:0.27, C:0.22, G:0.30, T:0.20
Consensus pattern (108 bp):
CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGT
CTGGGACATGGCATTGGCACCGAGATGAGAATCCCATGTAAGA
Found at i:57560970 original size:67 final size:67
Alignment explanation
Indices: 57560893--57561019 Score: 218
Period size: 67 Copynumber: 1.9 Consensus size: 67
57560883 GCGTTGGCAC
*
57560893 CGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAATGCC
1 CGAGATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAATGCC
57560958 AT
66 AT
* * *
57560960 CGAGATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATGAGA
1 CGAGATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGA
57561020 GGTCCCCCGT
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
67 56 1.00
ACGTcount: A:0.27, C:0.21, G:0.33, T:0.19
Consensus pattern (67 bp):
CGAGATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAATGCC
AT
Found at i:57561035 original size:50 final size:50
Alignment explanation
Indices: 57560960--57561109 Score: 192
Period size: 50 Copynumber: 3.0 Consensus size: 50
57560950 AGAATGCCAT
*
57560960 CGAGATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCGTTGGCAC
1 CGAGATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATTGGCAC
* * *
57561010 TGAGATGAGAGGTCCCCCGTAAGACCATGTCTAGGACATGGCATGGGCAC
1 CGAGATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATTGGCAC
* ** ** * *
57561060 CGATATGAGAACATCCCATGTAAGACCATGTCTGAGACATGGCTTTGGCA
1 CGAGATGAG-AGGTCCCCCGTAAGACCATGTCTGGGACATGGCATTGGCA
57561110 TGTTATTATC
Statistics
Matches: 85, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
50 53 0.62
51 32 0.38
ACGTcount: A:0.26, C:0.24, G:0.30, T:0.20
Consensus pattern (50 bp):
CGAGATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATTGGCAC
Found at i:57564144 original size:24 final size:22
Alignment explanation
Indices: 57564115--57564159 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
57564105 AATTTAAAGG
57564115 ATAATACATAATATAAAAAAAATA
1 ATAATA-A-AATATAAAAAAAATA
*
57564139 ATAATAAAGTATAAAAAAAAT
1 ATAATAAAATATAAAAAAAAT
57564160 TATCAAATGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 13 0.65
23 1 0.05
24 6 0.30
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (22 bp):
ATAATAAAATATAAAAAAAATA
Found at i:57576775 original size:6 final size:6
Alignment explanation
Indices: 57576764--57576819 Score: 112
Period size: 6 Copynumber: 9.3 Consensus size: 6
57576754 CTTCCTTGGC
57576764 TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT
1 TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT
57576812 TTATAT TT
1 TTATAT TT
57576820 GAAGGACTCT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 50 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTATAT
Found at i:57580316 original size:12 final size:12
Alignment explanation
Indices: 57580299--57580331 Score: 59
Period size: 11 Copynumber: 2.8 Consensus size: 12
57580289 AACTAATCCT
57580299 CTCTCAAATTTG
1 CTCTCAAATTTG
57580311 CTCTC-AATTTG
1 CTCTCAAATTTG
57580322 CTCTCAAATT
1 CTCTCAAATT
57580332 CCTTCCAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.24, C:0.27, G:0.06, T:0.42
Consensus pattern (12 bp):
CTCTCAAATTTG
Found at i:57580403 original size:50 final size:51
Alignment explanation
Indices: 57580312--57580409 Score: 128
Period size: 50 Copynumber: 1.9 Consensus size: 51
57580302 TCAAATTTGC
* *
57580312 TCTCAATTTGCTCTCAAATTCCTTCCAAATTTCTCTGAAATCCATATTAAA
1 TCTCAATTGGCTCCCAAATTCCTTCCAAATTTCTCTGAAATCCATATTAAA
* * *
57580363 TCTCAATTGGCTCCCAATTTCC-TCTC-AATTTCTCTTAAATCCCTATT
1 TCTCAATTGGCTCCCAAATTCCTTC-CAAATTTCTCTGAAATCCATATT
57580410 TTTAAATAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
50 21 0.51
51 20 0.49
ACGTcount: A:0.27, C:0.29, G:0.04, T:0.41
Consensus pattern (51 bp):
TCTCAATTGGCTCCCAAATTCCTTCCAAATTTCTCTGAAATCCATATTAAA
Found at i:57582167 original size:21 final size:21
Alignment explanation
Indices: 57582143--57582185 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
57582133 GATGCCCTAT
*
57582143 CGGAGGAACCAGAATCCCCGC
1 CGGAGGAACCACAATCCCCGC
*
57582164 CGGAGGAACCACAATCGCCGC
1 CGGAGGAACCACAATCCCCGC
57582185 C
1 C
57582186 AGAAGCTGGA
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:0.28, C:0.40, G:0.28, T:0.05
Consensus pattern (21 bp):
CGGAGGAACCACAATCCCCGC
Found at i:57582484 original size:22 final size:22
Alignment explanation
Indices: 57582432--57582485 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
57582422 CCTAAACCTT
*
57582432 AAACCCT-AATTCTTAACTTAA
1 AAACCCTAAACTCTTAACTTAA
*
57582453 AAATCCTAAACTCTTAACTT-A
1 AAACCCTAAACTCTTAACTTAA
57582474 AAACCCATAAAC
1 AAACCC-TAAAC
57582486 CCTAAACCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 12 0.43
22 16 0.57
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (22 bp):
AAACCCTAAACTCTTAACTTAA
Found at i:57582492 original size:57 final size:53
Alignment explanation
Indices: 57582418--57582581 Score: 185
Period size: 57 Copynumber: 3.0 Consensus size: 53
57582408 TTTAATTGAC
* *
57582418 AAACCCTAAACCTTAAACCCTAATTCTTAACTTAAAAATCCTAAACTCTTAACTTA
1 AAACCCTAAACCCTAAACCCTAA--CTTAACTTAAAAA-CCTAAACCCTTAACTTA
*
57582474 AAACCCATAAACCCTAAACCATAACCATTAACTTAAAAACACTAAACCCTTAACTTAA
1 AAACCC-TAAACCCTAAACCCTAA-C-TTAACTTAAAAAC-CTAAACCCTTAACTT-A
57582532 AAACCCTAAACCCT-AA-CC---CTTAACTTAAAAACCCTAAACCCTTAACTTA
1 AAACCCTAAACCCTAAACCCTAACTTAACTTAAAAA-CCTAAACCCTTAACTTA
57582581 A
1 A
57582582 CTTAAAAACC
Statistics
Matches: 98, Mismatches: 5, Indels: 17
0.82 0.04 0.14
Matches are distributed among these distances:
49 2 0.02
50 27 0.28
51 2 0.02
55 1 0.01
56 10 0.10
57 49 0.50
58 7 0.07
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.24
Consensus pattern (53 bp):
AAACCCTAAACCCTAAACCCTAACTTAACTTAAAAACCTAAACCCTTAACTTA
Found at i:57582521 original size:22 final size:22
Alignment explanation
Indices: 57582496--57582691 Score: 85
Period size: 22 Copynumber: 8.0 Consensus size: 22
57582486 CCTAAACCAT
57582496 AACCATTAACTTAAAAACACTA
1 AACCATTAACTTAAAAACACTA
* *
57582518 AACCCTTAACTTAAAAACCCTA
1 AACCATTAACTTAAAAACACTA
*
57582540 AACCCTAACCCTTAACTTAAAAACCCTA
1 AA-CC--A---TTAACTTAAAAACACTA
57582568 AACCCTTAACTTAACTTAAAAACCACCT-
1 AA-CC---A-TTAACTTAAAAA-CA-CTA
57582596 AACC-TTAAACTTTTAACCCTAAACA-TA
1 AACCATT-AAC--TTAA----AAACACTA
* *
57582623 TAACCCTTAACTTAAAAACCCTA
1 -AACCATTAACTTAAAAACACTA
*
57582646 AACAATTAACTTAAAAA-ATCCTA
1 AACCATTAACTTAAAAACA--CTA
* *
57582669 AACCGTTAACTTAAAAACCCTA
1 AACCATTAACTTAAAAACACTA
57582691 A
1 A
57582692 TCCTTGACTA
Statistics
Matches: 140, Mismatches: 11, Indels: 46
0.71 0.06 0.23
Matches are distributed among these distances:
22 47 0.34
23 25 0.18
25 4 0.03
26 5 0.04
27 15 0.11
28 34 0.24
29 10 0.07
ACGTcount: A:0.47, C:0.28, G:0.01, T:0.24
Consensus pattern (22 bp):
AACCATTAACTTAAAAACACTA
Found at i:57582537 original size:15 final size:15
Alignment explanation
Indices: 57582517--57582566 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
57582507 TAAAAACACT
57582517 AAACCCTTAACTTAA
1 AAACCCTTAACTTAA
* *
57582532 AAACCCTAAACCCT--
1 AAACCCTTAA-CTTAA
57582546 -AACCCTTAACTTAA
1 AAACCCTTAACTTAA
57582560 AAACCCT
1 AAACCCT
57582567 AAACCCTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 8
0.69 0.10 0.21
Matches are distributed among these distances:
12 2 0.07
13 8 0.30
15 15 0.56
16 2 0.07
ACGTcount: A:0.44, C:0.34, G:0.00, T:0.22
Consensus pattern (15 bp):
AAACCCTTAACTTAA
Found at i:57582597 original size:50 final size:50
Alignment explanation
Indices: 57582495--57582682 Score: 142
Period size: 50 Copynumber: 3.7 Consensus size: 50
57582485 CCCTAAACCA
* *
57582495 TAACCATTAACTTAAAAACACTAAACCCTTAACTT-A---AAAACCCTAAACCC
1 TAACCATTAACTTAAAAACCCTAAACCCTTAACTTAACTTAAAAACC---A-CC
*
57582545 TAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAACTTAAAAACCACC
1 TAACCATTAACTTAAAAACCCTAAACCCTTAACTTAACTTAAAAACCACC
** *
57582595 TAACC-TTAAACTT-TTAACCCTAAA-CATATAACCCTTAACTTAAAAA-C-CC
1 TAACCATT-AACTTAAAAACCCTAAACCCT-TAA--CTTAACTTAAAAACCACC
* * *
57582644 TAAACAATTAACTTAAAAAATCCTAAACCGTTAACTTAA
1 T-AACCATTAACTT-AAAAACCCTAAACCCTTAACTTAA
57582683 AAACCCTAAT
Statistics
Matches: 114, Mismatches: 11, Indels: 26
0.75 0.07 0.17
Matches are distributed among these distances:
48 2 0.02
49 17 0.15
50 59 0.52
51 17 0.15
52 11 0.10
53 2 0.02
54 6 0.05
ACGTcount: A:0.46, C:0.28, G:0.01, T:0.26
Consensus pattern (50 bp):
TAACCATTAACTTAAAAACCCTAAACCCTTAACTTAACTTAAAAACCACC
Found at i:57582597 original size:57 final size:55
Alignment explanation
Indices: 57582425--57582591 Score: 182
Period size: 50 Copynumber: 3.1 Consensus size: 55
57582415 GACAAACCCT
* ** * * ** *
57582425 AAACCTTAAACCCTAATTCTTAACTTAAAAATCCTAAACTCTTAACTTAAAACCCAT
1 AAACCCTAAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTT--AACTTAA
* * *
57582482 AAACCCTAAACCATAACCATTAACTTAAAAACACTAAA-CC----CTTAACTTAA
1 AAACCCTAAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAACTTAA
57582532 AAACCCTAAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAACTTAA
1 AAACCCTAAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAACTTAA
57582587 AAACC
1 AAACC
57582592 ACCTAACCTT
Statistics
Matches: 91, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
50 39 0.43
51 2 0.02
52 3 0.03
55 15 0.16
56 1 0.01
57 31 0.34
ACGTcount: A:0.46, C:0.29, G:0.00, T:0.25
Consensus pattern (55 bp):
AAACCCTAAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAACTTAA
Found at i:57582599 original size:28 final size:28
Alignment explanation
Indices: 57582425--57582648 Score: 135
Period size: 28 Copynumber: 8.4 Consensus size: 28
57582415 GACAAACCCT
* *
57582425 AAACCTTAAACCC-TAATTCTTAACTTAA
1 AAACCCTAAACCCTTAA-CCTTAACTTAA
* * ** *
57582453 AAATCCTAAACTCTTAA-CTTAAAACCCAT
1 AAACCCTAAACCCTTAACCTT--AACTTAA
*
57582482 AAACCCTAAA-CCATAACCATTAACTTAA
1 AAACCCTAAACCCTTAACC-TTAACTTAA
*
57582510 AAACACTAAA--C----CCTTAACTTAA
1 AAACCCTAAACCCTTAACCTTAACTTAA
57582532 AAACCCTAAACCC-TAACCCTTAACTTAA
1 AAACCCTAAACCCTTAA-CCTTAACTTAA
57582560 AAACCCTAAACCCTTAA-CTTAACTTAA
1 AAACCCTAAACCCTTAACCTTAACTTAA
*
57582587 AAA-CC---A-CC-TAACCTTAAACTT-T
1 AAACCCTAAACCCTTAACCTT-AACTTAA
* *
57582609 TAACCCTAAA-CATATAACCCTTAACTTAA
1 AAACCCTAAACCCT-TAA-CCTTAACTTAA
57582638 AAACCCTAAAC
1 AAACCCTAAAC
57582649 AATTAACTTA
Statistics
Matches: 154, Mismatches: 19, Indels: 44
0.71 0.09 0.20
Matches are distributed among these distances:
21 3 0.02
22 25 0.16
23 10 0.06
24 1 0.01
26 4 0.03
27 17 0.11
28 59 0.38
29 33 0.21
30 2 0.01
ACGTcount: A:0.46, C:0.29, G:0.00, T:0.25
Consensus pattern (28 bp):
AAACCCTAAACCCTTAACCTTAACTTAA
Found at i:57582618 original size:14 final size:14
Alignment explanation
Indices: 57582595--57582648 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
57582585 AAAAACCACC
* *
57582595 TAACCTTAAACTTT
1 TAACCCTAAACTTA
*
57582609 TAACCCTAAACATA
1 TAACCCTAAACTTA
*
57582623 TAACCCTTAACTTAA
1 TAACCCTAAACTT-A
*
57582638 AAACCCTAAAC
1 TAACCCTAAAC
57582649 AATTAACTTA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
14 22 0.69
15 10 0.31
ACGTcount: A:0.44, C:0.28, G:0.00, T:0.28
Consensus pattern (14 bp):
TAACCCTAAACTTA
Found at i:57582633 original size:78 final size:77
Alignment explanation
Indices: 57582482--57582691 Score: 229
Period size: 78 Copynumber: 2.8 Consensus size: 77
57582472 TAAAACCCAT
* *
57582482 AAACCCTAAA-CCATAACCATTAACTTAAAAACACTAAACCCTTAACTTAAAAACCCTAAACCCT
1 AAACCCTAAACCCTTAA-C-TTAACTTAAAAACACTAAACCCTTAACTTAAAAACCCTAAACCAT
57582546 AACCCTTAACTTAA
64 AACCCTTAACTTAA
** *
57582560 AAACCCTAAACCCTTAACTTAACTTAAAAACCACCT-AA-CCTTAAACTT-TTAACCCTAAACAT
1 AAACCCTAAACCCTTAACTTAACTTAAAAA-CA-CTAAACCCTT-AACTTAAAAACCCTAAAC-C
57582622 ATAACCCTTAACTTAA
62 ATAACCCTTAACTTAA
** * *
57582638 AAACCCTAAACAATTAACTTAA---AAAATC-CTAAACCGTTAACTTAAAAACCCTAA
1 AAACCCTAAACCCTTAACTTAACTTAAAAACACTAAACCCTTAACTTAAAAACCCTAA
57582692 TCCTTGACTA
Statistics
Matches: 113, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
72 2 0.02
73 7 0.06
74 12 0.11
75 4 0.04
77 26 0.23
78 55 0.49
79 7 0.06
ACGTcount: A:0.47, C:0.29, G:0.00, T:0.24
Consensus pattern (77 bp):
AAACCCTAAACCCTTAACTTAACTTAAAAACACTAAACCCTTAACTTAAAAACCCTAAACCATAA
CCCTTAACTTAA
Found at i:57582668 original size:23 final size:23
Alignment explanation
Indices: 57582629--57582691 Score: 85
Period size: 23 Copynumber: 2.8 Consensus size: 23
57582619 CATATAACCC
57582629 TTAACTT-AAAAACCCTAAACAA
1 TTAACTTAAAAAACCCTAAACAA
* **
57582651 TTAACTTAAAAAATCCTAAACCG
1 TTAACTTAAAAAACCCTAAACAA
57582674 TTAACTT-AAAAACCCTAA
1 TTAACTTAAAAAACCCTAA
57582692 TCCTTGACTA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
22 17 0.47
23 19 0.53
ACGTcount: A:0.51, C:0.22, G:0.02, T:0.25
Consensus pattern (23 bp):
TTAACTTAAAAAACCCTAAACAA
Found at i:57586025 original size:128 final size:124
Alignment explanation
Indices: 57585760--57586199 Score: 592
Period size: 128 Copynumber: 3.5 Consensus size: 124
57585750 AACATGATAT
* * *
57585760 TGTAGCAAAAGCGCGTCCACGTGTGCGCGATTTCACAAATTCTTCTGATAAAGCATCCTGCTTGA
1 TGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGA
*
57585825 AGCGTTTTTATACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTTTTCCAGGACTTAC
66 AGCGTTTTTATACTATTTGCTCAGAAACGTCAAGTCGAAATTA-TTTTTCCAGGACCTAC
* * *
57585885 TGTAGCAAAAGCGCGTTCACGAGAGTGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGA
1 TGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGA
* * *
57585950 AGCGTTTTTTTTTAACTATATGCTCAGAAACGTTAAGTCGAAATTATTTCTTCCAGGACCTAC
66 AGCG--TTTTTAT-ACTATTTGCTCAGAAACGTCAAGTCGAAATTATTT-TTCCAGGACCTAC
* * * * * *
57586013 TGTAACAAAAGCGCATCCACGAGGGCTCGATTTCACAAATTTTTCTCATAAAGCATCCTTCCTGA
1 TGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGA
* * * * *
57586078 AGCATTTTTATACTATTTGCTCAAAAACCTCAACTCGAAATTATTTTTGCAGGACCTAC
66 AGCGTTTTTATACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTTTCCAGGACCTAC
* * * * * *
57586137 TGTAGCAAAAGCGTGTACACGTGGGCGCGACTTCAGAAATTCTTCTGATAAAGCATCCTGCTT
1 TGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTT
57586200 TGATTTTATC
Statistics
Matches: 273, Mismatches: 38, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
124 63 0.23
125 94 0.34
126 6 0.02
127 9 0.03
128 101 0.37
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (124 bp):
TGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGA
AGCGTTTTTATACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTTTCCAGGACCTAC
Found at i:57589013 original size:30 final size:30
Alignment explanation
Indices: 57588979--57589039 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
57588969 ATAGGCGGTC
57588979 ATCTCTGGTGAAGTTAAAAATAACGGTGAT
1 ATCTCTGGTGAAGTTAAAAATAACGGTGAT
*
57589009 ATCTCTGGTGAAGTTAAAAATAATGGTGAT
1 ATCTCTGGTGAAGTTAAAAATAACGGTGAT
57589039 A
1 A
57589040 GTGAAATTAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (30 bp):
ATCTCTGGTGAAGTTAAAAATAACGGTGAT
Found at i:57601155 original size:126 final size:125
Alignment explanation
Indices: 57600840--57601252 Score: 691
Period size: 125 Copynumber: 3.3 Consensus size: 125
57600830 ATTTATTAAG
* * *
57600840 GAAATTGCTCCTACGTGGACGCGCTTTTGCTACAGTAGGTCTTGAAAAAATAATTTTGAGTTGAC
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTTGAGTTGAC
* *
57600905 GTTTCTAAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTTCT
66 GTTTCTGAGCAAATAGTATAAAAAATGCTTCAAGCAGGATGCTTTATCAGAAGAATTTCT
* ***
57600965 GAAATCGCTCCCATGTGGACATACTTTTGCTACAGTAGGTCCTGAAAAAATAATTTTGAGTTGAC
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTTGAGTTGAC
*
57601030 ATTTCTGAGCAAATAGTATAAAAAATGCTTCAAGCAGGATGCTTTATCAGAAGAATTTCT
66 GTTTCTGAGCAAATAGTATAAAAAATGCTTCAAGCAGGATGCTTTATCAGAAGAATTTCT
* *
57601090 GAAATCGCTCCCACCGTGGACGTGCTTTTGCTACTGTAGGTCCTGAAAAAATAATTTTGAGTTGA
1 GAAATCGCTCCCA-CGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTTGAGTTGA
*
57601155 CGTTTCTGAGCAAATAGTATAAAAAATGCTTCAAGCAGGATACTTTATCAGAAGAATTTCT
65 CGTTTCTGAGCAAATAGTATAAAAAATGCTTCAAGCAGGATGCTTTATCAGAAGAATTTCT
*
57601216 GAAATCGCTCCCACGTGGACGCGTTTTTGCTACAGTA
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTA
57601253 TCATATTTGG
Statistics
Matches: 268, Mismatches: 19, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
125 149 0.56
126 119 0.44
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (125 bp):
GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTTGAGTTGAC
GTTTCTGAGCAAATAGTATAAAAAATGCTTCAAGCAGGATGCTTTATCAGAAGAATTTCT
Found at i:57604488 original size:44 final size:44
Alignment explanation
Indices: 57604440--57604544 Score: 120
Period size: 49 Copynumber: 2.3 Consensus size: 44
57604430 TATTATTAAG
*
57604440 ATATTTAAAATATTCAGTATTTTATTAAATGAAATAATATCAAA
1 ATATTTAAAATATTCAGTATTTTATTAAATGAAATAACATCAAA
* **
57604484 ATATTCAAAATAAACTATTTTGTATTTTATTAAATGAAATAACATCAAA
1 ATATT-----TAAAATATTCAGTATTTTATTAAATGAAATAACATCAAA
*
57604533 ATATTCAAAATA
1 ATATTTAAAATA
57604545 AATTATTTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
44 10 0.20
49 40 0.80
ACGTcount: A:0.50, C:0.07, G:0.04, T:0.39
Consensus pattern (44 bp):
ATATTTAAAATATTCAGTATTTTATTAAATGAAATAACATCAAA
Found at i:57604515 original size:49 final size:49
Alignment explanation
Indices: 57604456--57604564 Score: 191
Period size: 49 Copynumber: 2.2 Consensus size: 49
57604446 AAAATATTCA
*
57604456 GTATTTTATTAAATGAAATAATATCAAAATATTCAAAATAAACTATTTT
1 GTATTTTATTAAATGAAATAACATCAAAATATTCAAAATAAACTATTTT
*
57604505 GTATTTTATTAAATGAAATAACATCAAAATATTCAAAATAAATTATTTT
1 GTATTTTATTAAATGAAATAACATCAAAATATTCAAAATAAACTATTTT
*
57604554 TTATTTTATTA
1 GTATTTTATTA
57604565 CATTAATATA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 57 1.00
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.44
Consensus pattern (49 bp):
GTATTTTATTAAATGAAATAACATCAAAATATTCAAAATAAACTATTTT
Found at i:57605014 original size:18 final size:18
Alignment explanation
Indices: 57604988--57605030 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
57604978 GACTAGAACA
* * *
57604988 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
57605006 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
57605024 AGGATAC
1 AGGATAC
57605031 GCACCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:57606640 original size:33 final size:34
Alignment explanation
Indices: 57606603--57606667 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 34
57606593 ACAAAATTTT
*
57606603 ATAAATAATAAA-TT-AATAATTATTTAAAAATGC
1 ATAAATAAAAAACTTAAATAA-TATTTAAAAATGC
57606636 ATAAATAAAAAATCTTAAATAATATTTAAAAA
1 ATAAATAAAAAA-CTTAAATAATATTTAAAAA
57606668 ATAAATTTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 11 0.39
35 12 0.43
36 5 0.18
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.34
Consensus pattern (34 bp):
ATAAATAAAAAACTTAAATAATATTTAAAAATGC
Found at i:57606844 original size:22 final size:22
Alignment explanation
Indices: 57606819--57606863 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
57606809 TAGGGATGTA
57606819 AGAGAAATTTAAGAGAAAATTG
1 AGAGAAATTTAAGAGAAAATTG
* * *
57606841 AGAGCAATTTGAGAGGAAATTG
1 AGAGAAATTTAAGAGAAAATTG
57606863 A
1 A
57606864 TAATATAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.49, C:0.02, G:0.27, T:0.22
Consensus pattern (22 bp):
AGAGAAATTTAAGAGAAAATTG
Found at i:57612961 original size:6 final size:6
Alignment explanation
Indices: 57612950--57612977 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
57612940 CCATATCAAA
57612950 CAAAGG CAAAGG CAAAGG CAAAGG CAAA
1 CAAAGG CAAAGG CAAAGG CAAAGG CAAA
57612978 ATGTTGTTGG
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:0.54, C:0.18, G:0.29, T:0.00
Consensus pattern (6 bp):
CAAAGG
Found at i:57613595 original size:6 final size:6
Alignment explanation
Indices: 57613550--57613579 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
57613540 CAACACTTGC
57613550 ACCAAA ACCAAA ACCAAA ACCAAA ACCAAA
1 ACCAAA ACCAAA ACCAAA ACCAAA ACCAAA
57613580 GTTATGAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.67, C:0.33, G:0.00, T:0.00
Consensus pattern (6 bp):
ACCAAA
Found at i:57619948 original size:37 final size:37
Alignment explanation
Indices: 57619902--57619989 Score: 113
Period size: 37 Copynumber: 2.4 Consensus size: 37
57619892 TAAGGTTATT
* * * *
57619902 AGTCCAGGCTAAACCTATAACATAACATCAGGTTACC
1 AGTCTAGGCTAAACCTATAAAATAACATCAAGTTACA
* * *
57619939 AGTCTAGGCTAAATCTATAAAATGACATTAAGTTACA
1 AGTCTAGGCTAAACCTATAAAATAACATCAAGTTACA
57619976 AGTCTAGGCTAAAC
1 AGTCTAGGCTAAAC
57619990 ATGTGTCACA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.25
Consensus pattern (37 bp):
AGTCTAGGCTAAACCTATAAAATAACATCAAGTTACA
Found at i:57624320 original size:34 final size:34
Alignment explanation
Indices: 57624276--57624365 Score: 110
Period size: 34 Copynumber: 2.6 Consensus size: 34
57624266 AAGTTTTTTT
*
57624276 AAAATGAACTAAATTAGGTTTTTGGGGTTTTAA-
1 AAAATTAACTAAATTAGGTTTTTGGGGTTTTAAG
* * *
57624309 ATAAATTAACTAAATTTGGGTTTTGGGTTTTTAAG
1 A-AAATTAACTAAATTAGGTTTTTGGGGTTTTAAG
*
57624344 AAAATTAATTAAATTATGGTTT
1 AAAATTAACTAAATTA-GGTTT
57624366 ACTTTTTTTA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
33 1 0.02
34 41 0.87
35 5 0.11
ACGTcount: A:0.37, C:0.02, G:0.18, T:0.43
Consensus pattern (34 bp):
AAAATTAACTAAATTAGGTTTTTGGGGTTTTAAG
Found at i:57624546 original size:127 final size:126
Alignment explanation
Indices: 57624410--57624749 Score: 450
Period size: 125 Copynumber: 2.7 Consensus size: 126
57624400 GAATAGACAA
* * *
57624410 TGTAAAAAATGTTTCAAGCAGGATGCCCTGTCAGCAAAATTACTAAAAAAAAGTTCCCACGTGGA
1 TGTAAAAAATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACT-AAAAAAAGCTCCCACGTGGA
* * * *
57624475 TGCTTTTTTTCTACAGTTA-TTCCTAAAAAAATAATTTTAAGAAGAATGTTCAGAACAAATAG
65 CGCTCTTTTTCTACA-ATAGTTCCTAAAAAAATAATTTTAAGAAGAAGGTTCAGAACAAATAG
* *
57624537 TGTAAAAAATGCTTCAAGCATGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGAC
1 TGTAAAAAATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCCCACGTGGAC
* * * *
57624602 GCTCTTTTTCTACAATAGTTCTTGAAAAAATAATTTTAAGAAGACGGTTCTGAACAAATAG
66 GCTCTTTTTCTACAATAGTTCCTAAAAAAATAATTTTAAGAAGAAGGTTCAGAACAAATAG
* * ** * * *
57624663 TGT-AAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTATTGCAAAAATCTCTCACGTGTAC
1 TGTAAAAAATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCCCACGTGGAC
* *
57624727 GCTCTTTTTCTACAGTAGCTCCT
66 GCTCTTTTTCTACAATAGTTCCT
57624750 GTTTGGCCTT
Statistics
Matches: 189, Mismatches: 23, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
125 76 0.40
126 72 0.38
127 41 0.22
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (126 bp):
TGTAAAAAATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCCCACGTGGAC
GCTCTTTTTCTACAATAGTTCCTAAAAAAATAATTTTAAGAAGAAGGTTCAGAACAAATAG
Done.