Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 ID=Chr12-JGI_221_v2.0
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: 35429946
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 509281 characters in sequence are not A, C, G, or T
File 37 of 120
Found at i:10075435 original size:8 final size:8
Alignment explanation
Indices: 10075419--10075452 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
10075409 AAATTATCAA
*
10075419 AAATCATT
1 AAATTATT
10075427 AAATTATT
1 AAATTATT
10075435 AAATTATT
1 AAATTATT
10075443 AAA-TATT
1 AAATTATT
10075450 AAA
1 AAA
10075453 ATTTATATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
7 7 0.28
8 18 0.72
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (8 bp):
AAATTATT
Found at i:10075454 original size:16 final size:17
Alignment explanation
Indices: 10075418--10075474 Score: 57
Period size: 16 Copynumber: 3.4 Consensus size: 17
10075408 AAAATTATCA
*
10075418 AAAATCATTAAATTATT
1 AAAATTATTAAATTATT
10075435 -AAATTATTAAA-TATT
1 AAAATTATTAAATTATT
10075450 AAAATTTATATAAACTTA-T
1 AAAA-TTAT-TAAA-TTATT
10075469 AAAATT
1 AAAATT
10075475 TATACAAGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
15 4 0.12
16 13 0.38
17 4 0.12
18 6 0.18
19 5 0.15
20 2 0.06
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (17 bp):
AAAATTATTAAATTATT
Found at i:10075589 original size:20 final size:19
Alignment explanation
Indices: 10075505--10075580 Score: 54
Period size: 19 Copynumber: 3.9 Consensus size: 19
10075495 CATTAAAACT
10075505 TATAAATATTATAAAA-ATA
1 TATAAA-ATTATAAAATATA
10075524 T-TAAAAATCTA-ATAAAT-TA
1 TAT-AAAAT-TATA-AAATATA
*
10075543 TCA-AAAATTATCAAATATA
1 T-ATAAAATTATAAAATATA
10075562 TATAAAATTAATAAAATAT
1 TATAAAATT-ATAAAATAT
10075581 GTTTAAAATA
Statistics
Matches: 45, Mismatches: 2, Indels: 19
0.68 0.03 0.29
Matches are distributed among these distances:
18 11 0.24
19 26 0.58
20 8 0.18
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.36
Consensus pattern (19 bp):
TATAAAATTATAAAATATA
Found at i:10075698 original size:27 final size:26
Alignment explanation
Indices: 10075614--10075699 Score: 84
Period size: 27 Copynumber: 3.1 Consensus size: 26
10075604 AAAAATTCAT
10075614 AAAAATTGTAAACAATGTAAAAAT-TATA
1 AAAAATT-TAAA-AAT-TAAAAATATATA
* * *
10075642 ATAAATTTTAAAAAATAAAAACATATTA
1 A-AAAATTTAAAAATTAAAAATATA-TA
10075670 AAAAATTTAAAAATTAAAAATGATATA
1 AAAAATTTAAAAATTAAAAAT-ATATA
10075697 AAA
1 AAA
10075700 GAGTCATTTA
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
26 6 0.12
27 26 0.54
28 11 0.23
29 5 0.10
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.29
Consensus pattern (26 bp):
AAAAATTTAAAAATTAAAAATATATA
Found at i:10076094 original size:16 final size:16
Alignment explanation
Indices: 10076073--10076103 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
10076063 AAATCAATCA
10076073 AAAAATATTAAAAAAT
1 AAAAATATTAAAAAAT
10076089 AAAAATATTAAAAAA
1 AAAAATATTAAAAAA
10076104 ATCGGTTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (16 bp):
AAAAATATTAAAAAAT
Found at i:10076317 original size:21 final size:22
Alignment explanation
Indices: 10076284--10076334 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
10076274 ATTTTTATAA
*
10076284 TTTTTTAAGAATTTT-AATTTG
1 TTTTTTAAGAATTTTAAATATG
10076305 TTTTTATAA-AATTTTAAATATG
1 TTTTT-TAAGAATTTTAAATATG
10076327 TTTTTTAA
1 TTTTTTAA
10076335 TTTTATAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 14 0.52
22 13 0.48
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (22 bp):
TTTTTTAAGAATTTTAAATATG
Found at i:10076391 original size:38 final size:39
Alignment explanation
Indices: 10076349--10076434 Score: 104
Period size: 38 Copynumber: 2.3 Consensus size: 39
10076339 ATAGAAAAAT
** * *
10076349 TATATTTTTATAATATTTA-AAGTTTATATTATTTTTTA
1 TATATTTTTATAATATTTATAAGTTTATACCAATTTTAA
* *
10076387 TATA-TTTTATAATTTTTATATGTTTATACCAATTTTAA
1 TATATTTTTATAATATTTATAAGTTTATACCAATTTTAA
10076425 TATATTTTTA
1 TATATTTTTA
10076435 ATATTTTTAT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
37 13 0.32
38 22 0.55
39 5 0.12
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (39 bp):
TATATTTTTATAATATTTATAAGTTTATACCAATTTTAA
Found at i:10076448 original size:28 final size:27
Alignment explanation
Indices: 10076350--10076450 Score: 82
Period size: 28 Copynumber: 3.6 Consensus size: 27
10076340 TAGAAAAATT
* *
10076350 ATATTTTTATAATATTTAA-AGTTTATA
1 ATATTTTTATAAT-TTTAATAATTTTTA
*
10076377 TTATTTTTTATATATTTT-ATAATTTTT-
1 ATA-TTTTTATA-ATTTTAATAATTTTTA
*
10076404 ATATGTTTATACCAATTTTAATATATTTTTA
1 ATAT-TTT-TA-TAATTTTAATA-ATTTTTA
10076435 ATATTTTTATAATTTT
1 ATATTTTTATAATTTT
10076451 CCTGATTTTT
Statistics
Matches: 59, Mismatches: 6, Indels: 17
0.72 0.07 0.21
Matches are distributed among these distances:
26 1 0.02
27 8 0.14
28 29 0.49
29 8 0.14
30 9 0.15
31 4 0.07
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (27 bp):
ATATTTTTATAATTTTAATAATTTTTA
Found at i:10077082 original size:2 final size:2
Alignment explanation
Indices: 10077077--10077127 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
10077067 TTTAAAAAAC
10077077 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10077119 TA TA TA TA T
1 TA TA TA TA T
10077128 TTGAAACCTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10081073 original size:31 final size:32
Alignment explanation
Indices: 10081035--10081098 Score: 112
Period size: 31 Copynumber: 2.0 Consensus size: 32
10081025 TTTACTTAAT
*
10081035 ATCTTGATCCGTAGAAA-TCCTAAATTATGCA
1 ATCTTGATCCATAGAAATTCCTAAATTATGCA
10081066 ATCTTGATCCATAGAAATTCCTAAATTATGCA
1 ATCTTGATCCATAGAAATTCCTAAATTATGCA
10081098 A
1 A
10081099 ATATCTCTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 16 0.52
32 15 0.48
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.33
Consensus pattern (32 bp):
ATCTTGATCCATAGAAATTCCTAAATTATGCA
Found at i:10082773 original size:18 final size:18
Alignment explanation
Indices: 10082750--10082792 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
10082740 CTTTCCCCCC
* *
10082750 TTCTTTCATTTGTTTGTT
1 TTCTTTCATTTATTTATT
10082768 TTCTTTCATTTATTTATT
1 TTCTTTCATTTATTTATT
*
10082786 TGCTTTC
1 TTCTTTC
10082793 TTTTTATGCC
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:0.09, C:0.14, G:0.07, T:0.70
Consensus pattern (18 bp):
TTCTTTCATTTATTTATT
Found at i:10083332 original size:27 final size:28
Alignment explanation
Indices: 10083284--10083340 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 28
10083274 TAATTATTTT
* *
10083284 TTTATAGTATAATAGCTTGAACTAATTA
1 TTTATAGTATAATAACTAGAACTAATTA
*
10083312 TTTATA-TTTAATAACTAGAACTAATTA
1 TTTATAGTATAATAACTAGAACTAATTA
10083339 TT
1 TT
10083341 CCATTCATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 20 0.77
28 6 0.23
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.46
Consensus pattern (28 bp):
TTTATAGTATAATAACTAGAACTAATTA
Found at i:10085060 original size:16 final size:15
Alignment explanation
Indices: 10085015--10085061 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
10085005 GAAGATAGAA
10085015 AAAATAAAATAA-AAC
1 AAAATAAAA-AATAAC
*
10085030 AAAATAAAGAGATAAC
1 AAAATAAA-AAATAAC
10085046 AAAATAGAAAAATAAC
1 AAAATA-AAAAATAAC
10085062 TCATAAAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 9 0.33
16 16 0.59
17 2 0.07
ACGTcount: A:0.74, C:0.06, G:0.06, T:0.13
Consensus pattern (15 bp):
AAAATAAAAAATAAC
Found at i:10085199 original size:17 final size:17
Alignment explanation
Indices: 10085159--10085199 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
10085149 AGTACAACTT
10085159 AAAAT-AAAACTAAAAA
1 AAAATAAAAACTAAAAA
*
10085175 TAAATAAAAAC-AAAAA
1 AAAATAAAAACTAAAAA
10085191 AAAACTAAA
1 AAAA-TAAA
10085200 TAAAGTCAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.80, C:0.07, G:0.00, T:0.12
Consensus pattern (17 bp):
AAAATAAAAACTAAAAA
Found at i:10091582 original size:47 final size:47
Alignment explanation
Indices: 10091529--10091673 Score: 140
Period size: 47 Copynumber: 3.1 Consensus size: 47
10091519 TCATATAAGA
* *
10091529 ATATTTATTATTAAGAATTTTATGAAAATATATATCATTATTAAATT
1 ATATTTATTATTAAGAATTTTATGAAATTATATATAATTATTAAATT
* ** *
10091576 ATATTTAATATTAATTA-TTT-T-AAATTATACA-AATTCATATAAGA--
1 ATATTTATTATTAAGAATTTTATGAAATTATATATAATT-AT-TAA-ATT
* * *
10091620 AAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATT
1 ATATTTATTATTAAGAATTTTATGAAATTATATATAATTATTAAATT
10091667 ATATTTA
1 ATATTTA
10091674 ATAATAATTA
Statistics
Matches: 75, Mismatches: 14, Indels: 18
0.70 0.13 0.17
Matches are distributed among these distances:
43 3 0.04
44 22 0.29
45 8 0.11
46 8 0.11
47 31 0.41
48 3 0.04
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (47 bp):
ATATTTATTATTAAGAATTTTATGAAATTATATATAATTATTAAATT
Found at i:10091640 original size:44 final size:43
Alignment explanation
Indices: 10091592--10091729 Score: 111
Period size: 44 Copynumber: 3.1 Consensus size: 43
10091582 AATATTAATT
10091592 ATTTTAAATTATACAAATTCATATAAGAAAATTTATTATCAAGA
1 ATTTTAAATTATACAAATTCATATAAGAAAATTTATTAT-AAGA
* * * * **
10091636 ATTTTATGAAATTATATATTATT-AT-TAA-ATTATATTTAATAATAATT
1 A-TTT-T-AAATTATACA-AATTCATATAAGA--AAATTT-ATTATAAGA
*
10091683 ATTTTAAATTATACAAATTCATATAAGAAAATTTATTAGTAATA
1 ATTTTAAATTATACAAATTCATATAAGAAAATTTATTA-TAAGA
10091727 ATT
1 ATT
10091730 ATTTTAAATT
Statistics
Matches: 72, Mismatches: 11, Indels: 22
0.69 0.10 0.21
Matches are distributed among these distances:
43 6 0.08
44 24 0.33
45 8 0.11
46 8 0.11
47 19 0.26
48 7 0.10
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.45
Consensus pattern (43 bp):
ATTTTAAATTATACAAATTCATATAAGAAAATTTATTATAAGA
Found at i:10091653 original size:91 final size:91
Alignment explanation
Indices: 10091515--10091720 Score: 367
Period size: 91 Copynumber: 2.3 Consensus size: 91
10091505 TGATTTTAGT
* *
10091515 AAATTCATATAAGAATATTTATTATTAAGAATTTTATGAAAATATATATCATTATTAAATTATAT
1 AAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAAATATATATCATTATTAAATTATAT
*
10091580 TTAATATTAATTATTTTAAATTATAC
66 TTAATAATAATTATTTTAAATTATAC
* *
10091606 AAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATAT
1 AAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAAATATATATCATTATTAAATTATAT
10091671 TTAATAATAATTATTTTAAATTATAC
66 TTAATAATAATTATTTTAAATTATAC
10091697 AAATTCATATAAGAAAATTTATTA
1 AAATTCATATAAGAAAATTTATTA
10091721 GTAATAATTA
Statistics
Matches: 110, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
91 110 1.00
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (91 bp):
AAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAAATATATATCATTATTAAATTATAT
TTAATAATAATTATTTTAAATTATAC
Found at i:10091687 original size:47 final size:47
Alignment explanation
Indices: 10091545--10091688 Score: 122
Period size: 47 Copynumber: 3.1 Consensus size: 47
10091535 ATTATTAAGA
* * *
10091545 ATTTTATGAAAATATATATCATTATTAAATTATATTTAATATTAATT
1 ATTTTATGAAATTATATATAATTATTAAATTATATTTAATAATAATT
* * * **
10091592 A-TTT-T-AAATTATACA-AATTCATATAAGA--AAATTT-ATTATCAAGA
1 ATTTTATGAAATTATATATAATT-AT-TAA-ATTATATTTAATAAT-AATT
*
10091636 ATTTTATGAAATTATATATTATTATTAAATTATATTTAATAATAATT
1 ATTTTATGAAATTATATATAATTATTAAATTATATTTAATAATAATT
10091683 ATTTTA
1 ATTTTA
10091689 AATTATACAA
Statistics
Matches: 72, Mismatches: 14, Indels: 22
0.67 0.13 0.20
Matches are distributed among these distances:
43 6 0.08
44 18 0.25
45 8 0.11
46 8 0.11
47 25 0.35
48 7 0.10
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (47 bp):
ATTTTATGAAATTATATATAATTATTAAATTATATTTAATAATAATT
Found at i:10091815 original size:59 final size:59
Alignment explanation
Indices: 10091747--10092175 Score: 311
Period size: 59 Copynumber: 7.2 Consensus size: 59
10091737 ATTTTATTAA
10091747 ATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTTATAGT
* * ** * * * * * * * *
10091806 ATCATATATTATGATTTTAGTAAATTCATATAAGAA-TA-TTGATTATTAAGAATTTTATTA-A
1 ATCATATATTTTAATTAAAATATATTTA-ATAATAATTATTTCA-AATT-A-TATTTTA-TAGT
10091867 ATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTTATAGT
* * ** * * * * * * * *
10091926 ATCATATATTATGATTTTAGTAAATTCATATAAGAA-TA-TTGATTATTAAGAATTTTATTA-A
1 ATCATATATTTTAATTAAAATATATTTA-ATAATAATTATTTCA-AATT-A-TATTTTA-TAGT
10091987 ATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTTATAGT
* * ** * * * * * * * *
10092046 ATCATATATTATGATTTTAGTAAATTCATATAAGAA-TA-TTGATTATTAAGAATTTTATTA-A
1 ATCATATATTTTAATTAAAATATATTTA-ATAATAATTATTTCA-AATT-A-TATTTTA-TAGT
*
10092107 ATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATAATAATTAT-TTCAAATTATATTTTATAGT
10092166 ATCATATATT
1 ATCATATATT
10092176 ATGATTTTAG
Statistics
Matches: 272, Mismatches: 73, Indels: 50
0.69 0.18 0.13
Matches are distributed among these distances:
58 15 0.06
59 105 0.39
60 42 0.15
61 95 0.35
62 13 0.05
63 2 0.01
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (59 bp):
ATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTTATAGT
Found at i:10092125 original size:18 final size:17
Alignment explanation
Indices: 10092097--10092131 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
10092087 ATTATTAAGA
*
10092097 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
10092114 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
10092132 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:10092245 original size:18 final size:17
Alignment explanation
Indices: 10092217--10092251 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
10092207 ATTATTAAGA
*
10092217 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
10092234 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
10092252 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:10092271 original size:120 final size:120
Alignment explanation
Indices: 10091736--10092265 Score: 1026
Period size: 120 Copynumber: 4.4 Consensus size: 120
10091726 AATTATTTTA
10091736 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
10091801 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
10091856 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
10091921 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
10091976 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
10092041 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
*
10092096 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTAT-TTCAAATTATATTT
10092160 TATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
65 TATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
*
10092216 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTAT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTAT
10092266 GTTAAAATAT
Statistics
Matches: 408, Mismatches: 1, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
120 406 1.00
121 2 0.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.49
Consensus pattern (120 bp):
AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
Found at i:10092496 original size:45 final size:44
Alignment explanation
Indices: 10092408--10092505 Score: 126
Period size: 45 Copynumber: 2.2 Consensus size: 44
10092398 CTATTACACC
*
10092408 TCCATTCCATTCAACCAAACACAATAATACTATTACGCATCTAT
1 TCCATTACATTCAACCAAACACAATAATACTATTACGCATCTAT
* * * *
10092452 TCTATTACATTCAACCAAACA-ATTGAATTGCTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACACAAT-AA-TACTATTACGCATCTAT
10092497 TCCATTACA
1 TCCATTACA
10092506 GCGAACCAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
43 2 0.04
44 21 0.46
45 23 0.50
ACGTcount: A:0.36, C:0.28, G:0.04, T:0.33
Consensus pattern (44 bp):
TCCATTACATTCAACCAAACACAATAATACTATTACGCATCTAT
Found at i:10095242 original size:46 final size:46
Alignment explanation
Indices: 10095171--10095588 Score: 656
Period size: 46 Copynumber: 9.3 Consensus size: 46
10095161 TGACAAGTGG
* * *
10095171 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATGAAGTGAC
1 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAC
* *
10095217 AAAGTGATAAGTGGTACCTTTAGCTACACTTATCTGATGAAGTGAC
1 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAC
*
10095263 AAAGTGATAAGTGGTAGCTTTAGCTGCACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAC
*
10095309 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTAAC
1 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAC
10095355 AAAGTGATAAGT-G--G---TAGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAC
*
10095395 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTAATCAAGTGAC
1 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAC
*
10095441 AAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAC
* *
10095487 AAAGTGATAAGTGGTAGTTTTAACTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAC
* *
10095533 AAAGTGATAAGTGGTAGC-CTAGCTACACTTATCTGATC-AGGGAC
1 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAC
10095577 -AAGTGATAAGTG
1 AAAGTGATAAGTG
10095589 ATCATACGTA
Statistics
Matches: 349, Mismatches: 17, Indels: 15
0.92 0.04 0.04
Matches are distributed among these distances:
40 37 0.11
41 1 0.00
43 14 0.04
44 5 0.01
45 19 0.05
46 273 0.78
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.30
Consensus pattern (46 bp):
AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAC
Found at i:10095491 original size:178 final size:181
Alignment explanation
Indices: 10095171--10095588 Score: 657
Period size: 178 Copynumber: 2.3 Consensus size: 181
10095161 TGACAAGTGG
* *
10095171 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATGAAGTGACAAAGTGATAAGTGGTACCT
1 AAAGTGATAAGTG-GAGC-T-AGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTACCT
* * *
10095236 TTAGCTACACTTATCTGATGAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTGCACTTATCTGAT
63 TTAGCTACACTTATCTAATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
*
10095301 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTAAC
128 CAAGTGACAAAGTGATAAGTGGTAGCTTTAACTACACTTATCTGATCAAGTAAC
*
10095355 AAAGTGATAAGT-G-G-TAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTA
1 AAAGTGATAAGTGGAGCTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTACCTTTA
*
10095417 GCTACACTTATCTAATCAAGTGACAAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAA
66 GCTACACTTATCTAATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAA
* *
10095482 GTGACAAAGTGATAAGTGGTAGTTTTAACTACACTTATCTGATCAAGTGAC
131 GTGACAAAGTGATAAGTGGTAGCTTTAACTACACTTATCTGATCAAGTAAC
*
10095533 AAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 AAAGTGATAAGTGG-AG-CTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
10095589 ATCATACGTA
Statistics
Matches: 218, Mismatches: 11, Indels: 13
0.90 0.05 0.05
Matches are distributed among these distances:
178 166 0.76
179 2 0.01
181 14 0.06
182 5 0.02
183 19 0.09
184 12 0.06
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.30
Consensus pattern (181 bp):
AAAGTGATAAGTGGAGCTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTACCTTTA
GCTACACTTATCTAATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAA
GTGACAAAGTGATAAGTGGTAGCTTTAACTACACTTATCTGATCAAGTAAC
Found at i:10096587 original size:13 final size:13
Alignment explanation
Indices: 10096569--10096598 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
10096559 AAACTAGATT
10096569 TTAACTAAGAAAA
1 TTAACTAAGAAAA
10096582 TTAACTAAGAAAA
1 TTAACTAAGAAAA
10096595 TTAA
1 TTAA
10096599 AAGGTAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.60, C:0.07, G:0.07, T:0.27
Consensus pattern (13 bp):
TTAACTAAGAAAA
Found at i:10097505 original size:16 final size:16
Alignment explanation
Indices: 10097484--10097517 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
10097474 GTAAAAGAGA
10097484 GAGAGATGTGTGGAAT
1 GAGAGATGTGTGGAAT
*
10097500 GAGAGATGTGTTGAAT
1 GAGAGATGTGTGGAAT
10097516 GA
1 GA
10097518 ATAGGTGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.41, T:0.26
Consensus pattern (16 bp):
GAGAGATGTGTGGAAT
Found at i:10098953 original size:3 final size:3
Alignment explanation
Indices: 10098899--10098934 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
10098889 AGTACTTAAG
10098899 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
10098935 AGGAAATATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:10098962 original size:9 final size:10
Alignment explanation
Indices: 10098899--10098963 Score: 61
Period size: 9 Copynumber: 6.9 Consensus size: 10
10098889 AGTACTTAAG
10098899 TAATAAT-AA
1 TAATAATAAA
10098908 TAATAAT-AA
1 TAATAATAAA
10098917 TAATAAT-AA
1 TAATAATAAA
10098926 TAATAATAAA
1 TAATAATAAA
*
10098936 GGAA-ATATAAA
1 -TAATA-ATAAA
10098947 -AATAATAAA
1 TAATAATAAA
10098956 TAA-AATAA
1 TAATAATAA
10098964 CTAAAAAGAA
Statistics
Matches: 50, Mismatches: 1, Indels: 10
0.82 0.02 0.16
Matches are distributed among these distances:
9 37 0.74
10 6 0.12
11 7 0.14
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (10 bp):
TAATAATAAA
Found at i:10112288 original size:20 final size:20
Alignment explanation
Indices: 10112260--10112297 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
10112250 TATTTTCCAA
*
10112260 TAAATCATTTTACAGAAAAG
1 TAAAACATTTTACAGAAAAG
*
10112280 TAAAACATTTTCCAGAAA
1 TAAAACATTTTACAGAAA
10112298 TCATTTTACG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.13, G:0.08, T:0.29
Consensus pattern (20 bp):
TAAAACATTTTACAGAAAAG
Found at i:10112302 original size:34 final size:35
Alignment explanation
Indices: 10112246--10112312 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
10112236 CAAACACTAG
* *
10112246 AAAATATTTTCCAATAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAAGAAATCATTTTACAGAAAAGT
*
10112281 AAAACATTTTCC-AGAAATCATTTTACGGAAAA
1 AAAACATTTTCCAAGAAATCATTTTACAGAAAA
10112313 TATTTTACTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 18 0.62
35 11 0.38
ACGTcount: A:0.48, C:0.13, G:0.07, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAAGAAATCATTTTACAGAAAAGT
Found at i:10114787 original size:11 final size:11
Alignment explanation
Indices: 10114764--10114793 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
10114754 ATATTTTTTT
10114764 ATATTTT-AAA
1 ATATTTTAAAA
10114774 ATATTTTAAAA
1 ATATTTTAAAA
10114785 ATATTTTAA
1 ATATTTTAA
10114794 TTTTTTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.37
11 12 0.63
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
ATATTTTAAAA
Found at i:10126967 original size:19 final size:20
Alignment explanation
Indices: 10126931--10126969 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
10126921 TTAATCAAAG
10126931 TTTAATTATTACAAAATATT
1 TTTAATTATTACAAAATATT
*
10126951 TTTAATT-TTATAAAATATT
1 TTTAATTATTACAAAATATT
10126970 AAACATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTAATTATTACAAAATATT
Found at i:10132635 original size:52 final size:53
Alignment explanation
Indices: 10132534--10132634 Score: 127
Period size: 52 Copynumber: 1.9 Consensus size: 53
10132524 CCTTTTGATG
** * * *
10132534 ATTTTAGTATAAAATTTGAGTAAATTTTTATTTGGTATATGTATTTTTTTATT
1 ATTTTAGTATAAAATACGAGTAAATTTATATATGGTATATATATTTTTTTATT
10132587 ATTTTA-TATAAAATACGATGT-AATTTATATATGGTAT-TATATTTTTTT
1 ATTTTAGTATAAAATACGA-GTAAATTTATATATGGTATATATATTTTTTT
10132635 TGAAAATATT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
51 10 0.24
52 24 0.57
53 8 0.19
ACGTcount: A:0.33, C:0.01, G:0.10, T:0.56
Consensus pattern (53 bp):
ATTTTAGTATAAAATACGAGTAAATTTATATATGGTATATATATTTTTTTATT
Found at i:10134255 original size:21 final size:21
Alignment explanation
Indices: 10134229--10134294 Score: 77
Period size: 21 Copynumber: 3.3 Consensus size: 21
10134219 AGAACATCTT
10134229 GTTGTTTTAGATTTAAAACTG
1 GTTGTTTTAGATTTAAAACTG
* * *
10134250 GTTG-TTT-G-CTT-GAACTT
1 GTTGTTTTAGATTTAAAACTG
10134267 GTTGTTTTAGATTTAAAACTG
1 GTTGTTTTAGATTTAAAACTG
10134288 GTTGTTT
1 GTTGTTT
10134295 GCTTGAAGTA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
17 8 0.23
18 5 0.14
19 2 0.06
20 5 0.14
21 15 0.43
ACGTcount: A:0.21, C:0.06, G:0.21, T:0.52
Consensus pattern (21 bp):
GTTGTTTTAGATTTAAAACTG
Found at i:10134277 original size:38 final size:38
Alignment explanation
Indices: 10134226--10134301 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
10134216 TACAGAACAT
10134226 CTTGTTGTTTTAGATTTAAAACTGGTTGTTTGCTTGAA
1 CTTGTTGTTTTAGATTTAAAACTGGTTGTTTGCTTGAA
10134264 CTTGTTGTTTTAGATTTAAAACTGGTTGTTTGCTTGAA
1 CTTGTTGTTTTAGATTTAAAACTGGTTGTTTGCTTGAA
10134302 GTAGTCAATG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.21, C:0.08, G:0.21, T:0.50
Consensus pattern (38 bp):
CTTGTTGTTTTAGATTTAAAACTGGTTGTTTGCTTGAA
Found at i:10137788 original size:29 final size:29
Alignment explanation
Indices: 10137746--10137804 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
10137736 CACACTTGTC
* *
10137746 TATACATAAATTTTGTTGTTAATAAATAA
1 TATACATAAATTTTGATGTGAATAAATAA
*
10137775 TATATATAAATTTTGATGTGAATAAATAA
1 TATACATAAATTTTGATGTGAATAAATAA
10137804 T
1 T
10137805 TGAAGCATAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.46, C:0.02, G:0.08, T:0.44
Consensus pattern (29 bp):
TATACATAAATTTTGATGTGAATAAATAA
Found at i:10138447 original size:29 final size:28
Alignment explanation
Indices: 10138386--10138468 Score: 100
Period size: 29 Copynumber: 3.0 Consensus size: 28
10138376 TTTAGGGAAA
*
10138386 AGAAAAGAAAAG-ATAGATTGGGATTAAG
1 AGAAAA-AAAAGAATCGATTGGGATTAAG
10138414 -GAAAAAAAAGAATCGATTGGGATTAAGG
1 AGAAAAAAAAGAATCGATTGGGATTAA-G
*
10138442 AGAAAAAAGAA-AATCGATTAGGATTAA
1 AGAAAAAA-AAGAATCGATTGGGATTAA
10138469 TATTTTAGGG
Statistics
Matches: 49, Mismatches: 2, Indels: 7
0.84 0.03 0.12
Matches are distributed among these distances:
26 5 0.10
27 19 0.39
28 1 0.02
29 22 0.45
30 2 0.04
ACGTcount: A:0.54, C:0.02, G:0.25, T:0.18
Consensus pattern (28 bp):
AGAAAAAAAAGAATCGATTGGGATTAAG
Found at i:10138452 original size:27 final size:27
Alignment explanation
Indices: 10138387--10138468 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
10138377 TTAGGGAAAA
*
10138387 GAAAAGAAAAG-ATAGATTGGGATTAAG
1 GAAAA-AAAAGAATCGATTGGGATTAAG
10138414 GAAAAAAAAGAATCGATTGGGATTAAG
1 GAAAAAAAAGAATCGATTGGGATTAAG
* *
10138441 GAGAAAAAAGAAAATCGATTAGGATTAA
1 GA-AAAAAA-AGAATCGATTGGGATTAA
10138469 TATTTTAGGG
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
26 5 0.10
27 22 0.45
28 6 0.12
29 16 0.33
ACGTcount: A:0.54, C:0.02, G:0.26, T:0.18
Consensus pattern (27 bp):
GAAAAAAAAGAATCGATTGGGATTAAG
Found at i:10139181 original size:198 final size:199
Alignment explanation
Indices: 10138839--10139212 Score: 468
Period size: 198 Copynumber: 1.9 Consensus size: 199
10138829 TTTGGTTATT
* * * * * *
10138839 AAAGTGTATGGCAGGTTTGGATTGTTCTAAAGTTATTATCTGCTATGTGCATACATATAGCTTTA
1 AAAGTGTATGACAGATTTGGATTGTTATAAAGATATTATCTGCCATGTGCATACATATAGCCTTA
* * * * *
10138904 GGAAATGGATAAATTAATTCATATTTTTATGACTACTTATATCAAGCTTCTTTAGGTTCAAATAT
66 GGAAATGGACAAATCAATTCATATTTTTATGACAACTAATATCAAGCTTATTTAGGTTCAAATAT
* *
10138969 GACAAATAAGTTCCTAATTTTCAAGAACA-TTTTTAAATGCTGATTCAAATATGATTATTGTTTG
131 GACAAATAAGTTCCTAATTGTCAAAAACATTTTTTAAATGCTGATTCAAATATGATTATTGTTTG
10139033 TATC
196 TATC
* * * * *
10139037 AAAGTGTATGACAGATTTGGATTTTTATAAAGATATTGTGTGCCATGTGCATATATATATCCTTA
1 AAAGTGTATGACAGATTTGGATTGTTATAAAGATATTATCTGCCATGTGCATACATATAGCCTTA
* * *
10139102 GGAAA-GAGACAAATCAATTCCTATTTTTATGACCAAC-AATATCAAGTTTATTT-GGATTTAAA
66 GGAAATG-GACAAATCAATTCATATTTTTATGA-CAACTAATATCAAGCTTATTTAGG-TTCAAA
* * * *
10139164 TATGACAAATCAGTTCCTAGTTGTCAAAAATATTTTTTAAATGTTGATT
128 TATGACAAATAAGTTCCTAATTGTCAAAAACATTTTTTAAATGCTGATT
10139213 ATGATTATTG
Statistics
Matches: 147, Mismatches: 25, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
197 3 0.02
198 126 0.86
199 18 0.12
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.40
Consensus pattern (199 bp):
AAAGTGTATGACAGATTTGGATTGTTATAAAGATATTATCTGCCATGTGCATACATATAGCCTTA
GGAAATGGACAAATCAATTCATATTTTTATGACAACTAATATCAAGCTTATTTAGGTTCAAATAT
GACAAATAAGTTCCTAATTGTCAAAAACATTTTTTAAATGCTGATTCAAATATGATTATTGTTTG
TATC
Found at i:10141856 original size:21 final size:21
Alignment explanation
Indices: 10141832--10141876 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
10141822 CAAGTGGTTG
*
10141832 CCCCAACTCATCAAGAAGCTA
1 CCCCAACTCACCAAGAAGCTA
*
10141853 CCCCAACTTACCAAGAAGCTA
1 CCCCAACTCACCAAGAAGCTA
10141874 CCC
1 CCC
10141877 TAAGAGAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.36, C:0.42, G:0.09, T:0.13
Consensus pattern (21 bp):
CCCCAACTCACCAAGAAGCTA
Found at i:10146455 original size:6 final size:6
Alignment explanation
Indices: 10146444--10146484 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
10146434 TATAGAGGCT
* * *
10146444 GAGCCA GAGCCA AAGCCA GAGCCA GAGCCC GAGCCC GAGCC
1 GAGCCA GAGCCA GAGCCA GAGCCA GAGCCA GAGCCA GAGCC
10146485 CGAGTGATCG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.29, C:0.39, G:0.32, T:0.00
Consensus pattern (6 bp):
GAGCCA
Found at i:10146980 original size:48 final size:48
Alignment explanation
Indices: 10146924--10147015 Score: 175
Period size: 48 Copynumber: 1.9 Consensus size: 48
10146914 CAACATTATA
*
10146924 ACATTACAACATTAAAACTTGGAACAAACTTTGTAATATAAATTAAAT
1 ACATTACAACATTAAAACTTGGAACAAACTTTGTAACATAAATTAAAT
10146972 ACATTACAACATTAAAACTTGGAACAAACTTTGTAACATAAATT
1 ACATTACAACATTAAAACTTGGAACAAACTTTGTAACATAAATT
10147016 TTGTAATATA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.49, C:0.14, G:0.07, T:0.30
Consensus pattern (48 bp):
ACATTACAACATTAAAACTTGGAACAAACTTTGTAACATAAATTAAAT
Found at i:10147183 original size:61 final size:62
Alignment explanation
Indices: 10146953--10147200 Score: 455
Period size: 62 Copynumber: 4.0 Consensus size: 62
10146943 TGGAACAAAC
10146953 TTTGTAATATAAATTAAATACATTACAACATTAAAACTTGGAACAAACTTTGTAACATAAAT
1 TTTGTAATATAAATTAAATACATTACAACATTAAAACTTGGAACAAACTTTGTAACATAAAT
10147015 TTTGTAATATAAATTAAATACATTACAACATTAAAACTTGGAACAAACTTTGTAACATAAAT
1 TTTGTAATATAAATTAAATACATTACAACATTAAAACTTGGAACAAACTTTGTAACATAAAT
*
10147077 TTTGTAATATAAATTAAATACATTACAACATTAAAACTTGGAACAAACTTTGTAATATAAAT
1 TTTGTAATATAAATTAAATACATTACAACATTAAAACTTGGAACAAACTTTGTAACATAAAT
*
10147139 TTTGTTAAT-T-AATTAAATACATTACAACATTAAAACTTGGAACAAACTTTGTAATATAAAT
1 TTTG-TAATATAAATTAAATACATTACAACATTAAAACTTGGAACAAACTTTGTAACATAAAT
10147200 T
1 T
10147201 AGGTACATTG
Statistics
Matches: 184, Mismatches: 1, Indels: 3
0.98 0.01 0.02
Matches are distributed among these distances:
61 52 0.28
62 128 0.70
63 4 0.02
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.35
Consensus pattern (62 bp):
TTTGTAATATAAATTAAATACATTACAACATTAAAACTTGGAACAAACTTTGTAACATAAAT
Found at i:10153829 original size:6 final size:6
Alignment explanation
Indices: 10153816--10153857 Score: 66
Period size: 6 Copynumber: 7.0 Consensus size: 6
10153806 ATTCTATTTG
* *
10153816 AAAATA ACAATA ACAATA AAAATA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
10153858 CATTTTCTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:10154007 original size:27 final size:27
Alignment explanation
Indices: 10153971--10154036 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
10153961 ACTGGTGCTG
* * *
10153971 CCTATTAGATTGGGGTCACCAATGCCA
1 CCTATCAGATAGGAGTCACCAATGCCA
* * *
10153998 CCTATCAGATAGGAGTCACTAGTGCCG
1 CCTATCAGATAGGAGTCACCAATGCCA
*
10154025 CCTATCAAATAG
1 CCTATCAGATAG
10154037 ACACCATACC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (27 bp):
CCTATCAGATAGGAGTCACCAATGCCA
Found at i:10159493 original size:34 final size:34
Alignment explanation
Indices: 10159450--10159591 Score: 151
Period size: 34 Copynumber: 4.2 Consensus size: 34
10159440 TCTAAGGACT
* * * *
10159450 AAATTGAATAATTCAGAATACACACCCAAAGACC
1 AAATTGAATAAATCAAAAAACACATCCAAAGACC
* ***
10159484 AAATTGAATAAATAAAAAAACACATTTGAAGACC
1 AAATTGAATAAATCAAAAAACACATCCAAAGACC
***
10159518 AAATTGAATAAAT-AAAAAACACATTTGAAGACC
1 AAATTGAATAAATCAAAAAACACATCCAAAGACC
* * *
10159551 AAATTGAATAAATCAAATAACAGATCCAAAGACT
1 AAATTGAATAAATCAAAAAACACATCCAAAGACC
10159585 AAATTGA
1 AAATTGA
10159592 TTAACTTCAG
Statistics
Matches: 93, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
33 33 0.35
34 60 0.65
ACGTcount: A:0.56, C:0.15, G:0.09, T:0.20
Consensus pattern (34 bp):
AAATTGAATAAATCAAAAAACACATCCAAAGACC
Found at i:10159540 original size:33 final size:34
Alignment explanation
Indices: 10159478--10159572 Score: 165
Period size: 33 Copynumber: 2.8 Consensus size: 34
10159468 TACACACCCA
10159478 AAGACCAAATTGAATAAATAAAAAAACACATTTG
1 AAGACCAAATTGAATAAATAAAAAAACACATTTG
10159512 AAGACCAAATTGAATAAAT-AAAAAACACATTTG
1 AAGACCAAATTGAATAAATAAAAAAACACATTTG
* *
10159545 AAGACCAAATTGAATAAATCAAATAACA
1 AAGACCAAATTGAATAAATAAAAAAACA
10159573 GATCCAAAGA
Statistics
Matches: 59, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
33 33 0.56
34 26 0.44
ACGTcount: A:0.59, C:0.13, G:0.08, T:0.20
Consensus pattern (34 bp):
AAGACCAAATTGAATAAATAAAAAAACACATTTG
Found at i:10159991 original size:144 final size:144
Alignment explanation
Indices: 10159749--10160013 Score: 372
Period size: 144 Copynumber: 1.8 Consensus size: 144
10159739 AAATCACGAC
* * * *
10159749 TGGCGGTGGCTATGTCTATCAAAGAGGTCCTCACCTGGCTGAAAGGTTTCTCCTCGTTAATGGAA
1 TGGCGGAGGCTATGTCTATCAAAGAGGTCCGCACCTAGCTGAAAGATTTCTCCTCGTTAATGGAA
* * *
10159814 CCACGACTGGTGATGGCTATGTCTATCAAAGAGGCCCTCACTTGGCTGAAAGGTTTCTCCCCGTT
66 CCACGACTGGAGATGGCTATGTCTATCAAAGAGGCCATCACTTGGCTGAAAAGTTTCTCCCCGTT
10159879 AACGAAACCATGGT
131 AACGAAACCATGGT
* *
10159893 TGGCGGAGGCTATGTCTATTAGAGAGGTCCGCACCTAGCTGAAAGATTTCTTCCT-GTTAATGGA
1 TGGCGGAGGCTATGTCTATCAAAGAGGTCCGCACCTAGCTGAAAGATTTC-TCCTCGTTAATGGA
* * * * *
10159957 ATCACGGCTGGCAGA-GGCTATGTCTATTAGAGAGGCCATCACTTGGTTGAAAAGTTT
65 ACCACGACTGG-AGATGGCTATGTCTATCAAAGAGGCCATCACTTGGCTGAAAAGTTT
10160014 GGGCTTGGAT
Statistics
Matches: 105, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
144 99 0.94
145 6 0.06
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.28
Consensus pattern (144 bp):
TGGCGGAGGCTATGTCTATCAAAGAGGTCCGCACCTAGCTGAAAGATTTCTCCTCGTTAATGGAA
CCACGACTGGAGATGGCTATGTCTATCAAAGAGGCCATCACTTGGCTGAAAAGTTTCTCCCCGTT
AACGAAACCATGGT
Found at i:10160008 original size:72 final size:73
Alignment explanation
Indices: 10159727--10159983 Score: 297
Period size: 72 Copynumber: 3.6 Consensus size: 73
10159717 ACATTGTTTA
* *
10159727 TCCTCGTTAATGAAATCACGACTGGCGGTGGCTATGTCTATCAAAGAGGTCCTCACCTGGCTGAA
1 TCCTCGTTAATGAAACCACGACTGGCGGAGGCTATGTCTATCAAAGAGGTCCTCACCTGGCTGAA
10159792 AGGTTTC-
66 AGGTTTCT
* * * *
10159799 TCCTCGTTAATGGAACCACGACTGG-TGATGGCTATGTCTATCAAAGAGGCCCTCACTTGGCTGA
1 TCCTCGTTAATGAAACCACGACTGGCGGA-GGCTATGTCTATCAAAGAGGTCCTCACCTGGCTGA
10159863 AAGGTTTC-
65 AAGGTTTCT
* * * ** * * * *
10159871 TCCCCGTTAACGAAACCATGGTTGGCGGAGGCTATGTCTATTAGAGAGGTCCGCACCTAGCTGAA
1 TCCTCGTTAATGAAACCACGACTGGCGGAGGCTATGTCTATCAAAGAGGTCCTCACCTGGCTGAA
*
10159936 AGATTTCT
66 AGGTTTCT
* * * *
10159944 TCCT-GTTAATGGAATCACGGCTGGCAGAGGCTATGTCTAT
1 TCCTCGTTAATGAAACCACGACTGGCGGAGGCTATGTCTAT
10159984 TAGAGAGGCC
Statistics
Matches: 155, Mismatches: 27, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
71 1 0.01
72 149 0.96
73 5 0.03
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.28
Consensus pattern (73 bp):
TCCTCGTTAATGAAACCACGACTGGCGGAGGCTATGTCTATCAAAGAGGTCCTCACCTGGCTGAA
AGGTTTCT
Found at i:10175603 original size:3 final size:3
Alignment explanation
Indices: 10175595--10175625 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
10175585 AATTACTATC
10175595 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
10175626 GGGTAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:10177530 original size:94 final size:95
Alignment explanation
Indices: 10177353--10177701 Score: 327
Period size: 94 Copynumber: 3.7 Consensus size: 95
10177343 TTAATCCGAT
** * * *
10177353 CCACTGTC-ACTTCAGGGACATAGGATTCATAGCTTC-ATCTAGCTT-CACTACAACTTCAGAAA
1 CCACTG-CAACTTCAGGGGTATAGGATTTATAGCTTCAATCTTG-TTCCACTACAACTTCAGAGA
* * *
10177415 GATAATATTCATCATCATAGTTTCATTCCAAC
64 GATAAGATTCACCATCGTAGTTTCATTCCAAC
* * * *
10177447 CCACTGCAACTTCAGGGGTATAGGATTTGTAACTTC-ATCTTGTTCCACTGCAACTTCAGGGAGA
1 CCACTGCAACTTCAGGGGTATAGGATTTATAGCTTCAATCTTGTTCCACTACAACTTCAGAGAGA
* *
10177511 TAAGAGTCACCATCGTAGTTGCATTCCAAC
66 TAAGATTCACCATCGTAGTTTCATTCCAAC
* * * * * *
10177541 CCACTGAAATTTCAAGGGTATAGGATTTATAGCTTCAAT-TT-TCTCCACCATAACTTTAGAGAG
1 CCACTGCAACTTCAGGGGTATAGGATTTATAGCTTCAATCTTGT-TCCACTACAACTTCAGAGAG
* * * * * *
10177604 ATAAGATTTACTATGGTAGATTCAATGCAAC
65 ATAAGATTCACCATCGTAGTTTCATTCCAAC
* * * * *
10177635 CCACTGCAATTTCAGGGGTATAGGATTTGTAGCTTCAATC-TGCTCTACTGCAACTTCA-AGGAG
1 CCACTGCAACTTCAGGGGTATAGGATTTATAGCTTCAATCTTGTTCCACTACAACTTCAGA-GAG
10177698 ATAA
65 ATAA
10177702 AATTTGCTAT
Statistics
Matches: 207, Mismatches: 41, Indels: 14
0.79 0.16 0.05
Matches are distributed among these distances:
93 5 0.02
94 200 0.97
95 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (95 bp):
CCACTGCAACTTCAGGGGTATAGGATTTATAGCTTCAATCTTGTTCCACTACAACTTCAGAGAGA
TAAGATTCACCATCGTAGTTTCATTCCAAC
Found at i:10177712 original size:94 final size:94
Alignment explanation
Indices: 10177436--10177755 Score: 310
Period size: 94 Copynumber: 3.4 Consensus size: 94
10177426 TCATCATAGT
* * * *
10177436 TTCATTCCAACCCACTGCAACTTCAGGGGTATAGGATTTGTAACTTC-ATCTTGTTCCACTGCAA
1 TTCAATCCAACCCACTGCAATTTCAGGGGTATAGGATTTGTAGCTTCAATC-TGCTCCACTGCAA
* * * * *
10177500 CTTCAGGGAGATAAGAGTCACCATCGTAG-
65 CTTCAAGGAGATAAGATTTACTATGGTAGA
* * * * * * ***
10177529 TTGCATTCCAACCCACTGAAATTTCAAGGGTATAGGATTTATAGCTTCAATTTTCTCCACCATAA
1 TT-CAATCCAACCCACTGCAATTTCAGGGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGCAA
*
10177594 CTT-TAGAGAGATAAGATTTACTATGGTAGA
65 CTTCAAG-GAGATAAGATTTACTATGGTAGA
* *
10177624 TTCAATGCAACCCACTGCAATTTCAGGGGTATAGGATTTGTAGCTTCAATCTGCTCTACTGCAAC
1 TTCAATCCAACCCACTGCAATTTCAGGGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGCAAC
* *
10177689 TTCAAGGAGATAAAATTTGCTATGGT-GA
66 TTCAAGGAGATAAGATTTACTATGGTAGA
* * * *
10177717 CTTCAACCCAATCCACTGTAACTTT-A-GGGTATATGATTT
1 -TTCAATCCAACCCACTGCAA-TTTCAGGGGTATAGGATTT
10177756 ATGGTTTCAC
Statistics
Matches: 184, Mismatches: 36, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
93 17 0.09
94 158 0.86
95 9 0.05
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (94 bp):
TTCAATCCAACCCACTGCAATTTCAGGGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGCAAC
TTCAAGGAGATAAGATTTACTATGGTAGA
Found at i:10182517 original size:158 final size:156
Alignment explanation
Indices: 10182109--10182553 Score: 419
Period size: 158 Copynumber: 2.8 Consensus size: 156
10182099 TTTATTGAAA
* * * * *
10182109 TAAAAACTCTTACTTCGGCCCTTTCTTCATATTTTTTTCTCCGTATTTTATTACTTTAAAAAATA
1 TAAAAACTCTTACTTTGGCCCTTTATTCGTATTTTTTTCTCCGAATTTTATTATTTTAAAAAATA
*
10182174 TCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTTG-AA-ATTTATTAATT
66 TCATAATTTTTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTTGAAATATTTATTAATT
* * *
10182237 TAGTGTGTTTTTTAAATTAATTTAGTG
131 TAGTCTGATTTTTAAATAAATTTAG-G
* * * *
10182264 TAAAAAAAAACCCTTA-TTCCT-GCCCTTTACTCGTATTATTTTC-CCGAATTTTATTACTTTCA
1 T----AAAAACTCTTACTT--TGGCCCTTTATTCGTATTTTTTTCTCCGAATTTTATTA-TTT-T
* * * * * * *
10182326 ATAAAAATAT-ATTATTTTCGT-ATTTTATTATTTTATATTGTTTCAGTACATTTTATTTGAAAT
58 A-AAAAATATCATAATTTT--TAATTTTATAATTTTACATTATTTCAGTGCATTATGTTTGAAAT
*
10182389 ATTTGTATTAA-TTATTTCTGAATTTTTAAA-AAATTTA-G
120 A-TT-TATTAATTTA-GTCTG-ATTTTTAAATAAATTTAGG
* * * * *
10182427 TAAAACACTCTTACTTTGGTCATTTGTTCGTATTTTTTTCTCTGCATTTTATTATTTTAAAAAAT
1 TAAAA-ACTCTTACTTTGGCCCTTTATTCGTATTTTTTTCTCCGAATTTTATTATTTTAAAAAAT
10182492 ATCATAATTTTTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTTG-AA-ATTTATTAA
65 ATCATAATTTTTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTTGAAATATTTATTAA
10182554 ATATACCATT
Statistics
Matches: 230, Mismatches: 37, Indels: 47
0.73 0.12 0.15
Matches are distributed among these distances:
154 6 0.03
155 3 0.01
156 1 0.00
157 3 0.01
158 54 0.23
159 43 0.19
160 33 0.14
161 53 0.23
162 3 0.01
163 3 0.01
164 5 0.02
165 15 0.07
166 8 0.03
ACGTcount: A:0.31, C:0.11, G:0.07, T:0.51
Consensus pattern (156 bp):
TAAAAACTCTTACTTTGGCCCTTTATTCGTATTTTTTTCTCCGAATTTTATTATTTTAAAAAATA
TCATAATTTTTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTTGAAATATTTATTAATT
TAGTCTGATTTTTAAATAAATTTAGG
Found at i:10182897 original size:10 final size:10
Alignment explanation
Indices: 10182882--10183064 Score: 83
Period size: 10 Copynumber: 17.9 Consensus size: 10
10182872 AAATTACATT
10182882 TTTTTCTTTC
1 TTTTTCTTTC
*
10182892 TTTTTCCTTC
1 TTTTTCTTTC
* **
10182902 CTTCCCTATTC
1 TTTTTCT-TTC
*
10182913 TTCTTCTTTC
1 TTTTTCTTTC
10182923 TTTCATT-TTTC
1 TTT--TTCTTTC
*
10182934 TCTTATCCTTTC
1 T-TT-TTCTTTC
*
10182946 CTTTTCTTTCC
1 TTTTTCTTT-C
*
10182957 TTCTT-TTTC
1 TTTTTCTTTC
10182966 TTTTT-TTT-
1 TTTTTCTTTC
*
10182974 TTCTTCTTCTC
1 TTTTTCTT-TC
* *
10182985 CTTTCCTTT-
1 TTTTTCTTTC
* *
10182994 TCTTTCCTTC
1 TTTTTCTTTC
10183004 TTTTTCTTTC
1 TTTTTCTTTC
10183014 TTTTCTCTCCTTTC
1 -TTT-T-T-CTTTC
*
10183028 CTTTTCTTTC
1 TTTTTCTTTC
10183038 TTTTTCTTTC
1 TTTTTCTTTC
10183048 --TTTCTTTC
1 TTTTTCTTTC
*
10183056 TTCTTCTTT
1 TTTTTCTTT
10183065 TCCTCTCCTT
Statistics
Matches: 128, Mismatches: 29, Indels: 32
0.68 0.15 0.17
Matches are distributed among these distances:
8 12 0.09
9 15 0.12
10 55 0.43
11 28 0.22
12 10 0.08
13 3 0.02
14 5 0.04
ACGTcount: A:0.02, C:0.28, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTTTCTTTC
Found at i:10182987 original size:44 final size:44
Alignment explanation
Indices: 10182910--10183079 Score: 194
Period size: 44 Copynumber: 4.0 Consensus size: 44
10182900 TCCTTCCCTA
* *
10182910 TTCTTCTTCTTTCTTTCATTTTTC-TCTTATCCTTTCCTTTTCT
1 TTCTTCTTCTTTCTTTCTTTTTTCTTCTTCTCCTTTCCTTTTCT
*
10182953 TTCCTTCTT-TTTCTTTTTTTTTTCTTCTTCTCCTTTCCTTTTCT
1 TT-CTTCTTCTTTCTTTCTTTTTTCTTCTTCTCCTTTCCTTTTCT
*
10182997 TTC--CTTC-TT-TTTCTTTCTT-TTC-TCTCCTTTCCTTTTCT
1 TTCTTCTTCTTTCTTTCTTTTTTCTTCTTCTCCTTTCCTTTTCT
* * * * *
10183035 TTCTTTTTCTTTCTTTCTTTCTTCTTCTTTTCCTCTCCTTCTCT
1 TTCTTCTTCTTTCTTTCTTTTTTCTTCTTCTCCTTTCCTTTTCT
10183079 T
1 T
10183080 CTCCCCACCC
Statistics
Matches: 109, Mismatches: 9, Indels: 17
0.81 0.07 0.13
Matches are distributed among these distances:
38 19 0.17
39 3 0.03
40 11 0.10
41 7 0.06
42 10 0.09
43 19 0.17
44 40 0.37
ACGTcount: A:0.01, C:0.29, G:0.00, T:0.69
Consensus pattern (44 bp):
TTCTTCTTCTTTCTTTCTTTTTTCTTCTTCTCCTTTCCTTTTCT
Found at i:10183005 original size:38 final size:39
Alignment explanation
Indices: 10182928--10183062 Score: 134
Period size: 38 Copynumber: 3.3 Consensus size: 39
10182918 CTTTCTTTCA
*
10182928 TTTTTC-TCTTATCCTTTCCTTTTCTTTCCTTCTTTTTCTTTTT
1 TTTTTCTTCTTCTCCTTTCCTTTTCTTT-C-TC---TTCTTTTT
10182971 TTTTTCTTCTTCTCCTTTCCTTTTCTTTC-CTTCTTTTT
1 TTTTTCTTCTTCTCCTTTCCTTTTCTTTCTCTTCTTTTT
*
10183009 CTTTCTT-TTC-TCTCCTTTCCTTTTCTTTCTTTTTCTTTCTT
1 -TTT-TTCTTCTTCTCCTTTCCTTTTCTTTC-TCTTCTTT-TT
*
10183050 TCTTTCTTCTTCT
1 TTTTTCTTCTTCT
10183063 TTTCCTCTCC
Statistics
Matches: 81, Mismatches: 3, Indels: 18
0.79 0.03 0.18
Matches are distributed among these distances:
38 27 0.33
39 8 0.10
40 13 0.16
41 6 0.07
43 7 0.09
44 20 0.25
ACGTcount: A:0.01, C:0.28, G:0.00, T:0.71
Consensus pattern (39 bp):
TTTTTCTTCTTCTCCTTTCCTTTTCTTTCTCTTCTTTTT
Found at i:10183043 original size:34 final size:35
Alignment explanation
Indices: 10182951--10183050 Score: 118
Period size: 34 Copynumber: 2.8 Consensus size: 35
10182941 CTTTCCTTTT
10182951 CTTTCCTTCTT-TTTCTTTTT-TTT-TTCTTCTTCTC
1 CTTTCCTT-TTCTTTCTTTTTCTTTCTT-TTCTTCTC
10182985 CTTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTTC-TCTC
1 CTTTCCTTTTC--T--TTCTTTTTCTTTCTTTTCTTCTC
10183023 CTTTCCTTTTCTTTCTTTTTCTTTCTTT
1 CTTTCCTTTTCTTTCTTTTTCTTTCTTT
10183051 CTTTCTTCTT
Statistics
Matches: 59, Mismatches: 0, Indels: 14
0.81 0.00 0.19
Matches are distributed among these distances:
33 2 0.03
34 24 0.41
36 2 0.03
38 23 0.39
39 6 0.10
40 2 0.03
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (35 bp):
CTTTCCTTTTCTTTCTTTTTCTTTCTTTTCTTCTC
Found at i:10183062 original size:24 final size:23
Alignment explanation
Indices: 10182947--10183076 Score: 115
Period size: 24 Copynumber: 5.6 Consensus size: 23
10182937 TATCCTTTCC
10182947 TTTTCTTTCCTTCTTTTTCTT-T
1 TTTTCTTTCCTTCTTTTTCTTCT
* * *
10182969 TTTT-TTT-CTTCTTCTCCTTTCC
1 TTTTCTTTCCTTCTTTTTC-TTCT
10182991 TTTTCTTTCCTTCTTTTTCTT-T
1 TTTTCTTTCCTTCTTTTTCTTCT
* *
10183013 CTTTTCTCTCCTTTCCTTTTCTTTCT
1 -TTTTCTTTCC-TTCTTTTTC-TTCT
*
10183039 TTTTCTTTCTTTCTTTCTTCTTCT
1 TTTTCTTTCCTTCTTT-TTCTTCT
* *
10183063 TTTCCTCTCCTTCT
1 TTTTCTTTCCTTCT
10183077 CTTCTCCCCA
Statistics
Matches: 85, Mismatches: 14, Indels: 16
0.74 0.12 0.14
Matches are distributed among these distances:
20 8 0.09
21 5 0.06
22 8 0.09
23 14 0.16
24 36 0.42
25 13 0.15
26 1 0.01
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (23 bp):
TTTTCTTTCCTTCTTTTTCTTCT
Found at i:10183151 original size:27 final size:27
Alignment explanation
Indices: 10183121--10183188 Score: 93
Period size: 27 Copynumber: 2.5 Consensus size: 27
10183111 ATATAGGCAA
10183121 TGCCGCCTATGGGAGGGGAACCA-TCGG
1 TGCCGCCTATGGGAGGGGAA-CATTCGG
* * *
10183148 TGCCGCTTATGGGAGGGGCACATTTGG
1 TGCCGCCTATGGGAGGGGAACATTCGG
10183175 TGCCGCCTATGGGA
1 TGCCGCCTATGGGA
10183189 TACCCTCCTT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
26 2 0.06
27 34 0.94
ACGTcount: A:0.16, C:0.24, G:0.40, T:0.21
Consensus pattern (27 bp):
TGCCGCCTATGGGAGGGGAACATTCGG
Found at i:10184683 original size:12 final size:12
Alignment explanation
Indices: 10184646--10184683 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
10184636 GCTACATTTC
10184646 TTATTATTTCTT
1 TTATTATTTCTT
*
10184658 TTAGTAGTTT-TT
1 TTATTA-TTTCTT
10184670 TTATTATTTCTT
1 TTATTATTTCTT
10184682 TT
1 TT
10184684 TTTTAAAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
11 3 0.14
12 16 0.73
13 3 0.14
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.74
Consensus pattern (12 bp):
TTATTATTTCTT
Found at i:10194081 original size:32 final size:30
Alignment explanation
Indices: 10194046--10194104 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
10194036 AACAAGAGAG
* *
10194046 AGAGAGAGAGATCCTTTGCTCTATGTGAGT
1 AGAGAGAGAGATCCTCTGCCCTATGTGAGT
10194076 AGAGAGAGAGATCCTCTGCCCTATGTGAG
1 AGAGAGAGAGATCCTCTGCCCTATGTGAG
10194105 CCCCAGACTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (30 bp):
AGAGAGAGAGATCCTCTGCCCTATGTGAGT
Found at i:10208520 original size:18 final size:17
Alignment explanation
Indices: 10208487--10208582 Score: 79
Period size: 18 Copynumber: 5.4 Consensus size: 17
10208477 TTAGAATTGA
* *
10208487 TATAAACTTATTAAATT
1 TATAAAATTATAAAATT
10208504 TATAAATATTATAAAATAT
1 TATAAA-ATTATAAAAT-T
*
10208523 TACAAAA-TATAAAAATT
1 TATAAAATTAT-AAAATT
*
10208540 GTA-ATAAATTATCAAATT
1 -TATA-AAATTATAAAATT
10208558 TATCAAAATTATAAAATT
1 TAT-AAAATTATAAAATT
*
10208576 AATAAAA
1 TATAAAA
10208583 CTCATTTTAT
Statistics
Matches: 65, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
17 17 0.26
18 38 0.58
19 10 0.15
ACGTcount: A:0.57, C:0.04, G:0.01, T:0.38
Consensus pattern (17 bp):
TATAAAATTATAAAATT
Found at i:10208565 original size:28 final size:27
Alignment explanation
Indices: 10208488--10208571 Score: 75
Period size: 28 Copynumber: 3.0 Consensus size: 27
10208478 TAGAATTGAT
*
10208488 ATAAACTTATTAAATTTATAAATATTATA
1 ATAAA-TTATCAAATTTATAAA-ATTATA
* *
10208517 A-AATATTA-CAAA-ATATAAAAATTGTA
1 ATAA-ATTATCAAATTTAT-AAAATTATA
10208543 ATAAATTATCAAATTTATCAAAATTATA
1 ATAAATTATCAAATTTAT-AAAATTATA
10208571 A
1 A
10208572 AATTAATAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
26 13 0.30
27 12 0.27
28 17 0.39
29 2 0.05
ACGTcount: A:0.56, C:0.05, G:0.01, T:0.38
Consensus pattern (27 bp):
ATAAATTATCAAATTTATAAAATTATA
Found at i:10208573 original size:54 final size:55
Alignment explanation
Indices: 10208471--10208574 Score: 142
Period size: 54 Copynumber: 1.9 Consensus size: 55
10208461 GTTAAAATAA
* * *
10208471 AAAATATTAGAATTGATATAAACTTATTAAATTTATAAATATTATAAAATATTAC
1 AAAATATAAAAATTGATATAAACTTATCAAATTTATAAATATTATAAAATATTAC
10208526 AAAATATAAAAATTG-TAATAAA-TTATCAAATTTATCAAA-ATTATAAAAT
1 AAAATATAAAAATTGAT-ATAAACTTATCAAATTTAT-AAATATTATAAAAT
10208575 TAATAAAACT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
54 23 0.52
55 21 0.48
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.38
Consensus pattern (55 bp):
AAAATATAAAAATTGATATAAACTTATCAAATTTATAAATATTATAAAATATTAC
Found at i:10208575 original size:26 final size:25
Alignment explanation
Indices: 10208487--10208576 Score: 67
Period size: 26 Copynumber: 3.4 Consensus size: 25
10208477 TTAGAATTGA
* *
10208487 TATAAACTTATTAAATTTATAAATAT
1 TATAAAATTATCAAATTTATAAA-AT
*
10208513 TATAAAA-TATTACAAA-ATATAAAAAT
1 TATAAAATTA-T-CAAATTTAT-AAAAT
*
10208539 TGTAATAAATTATCAAATTTATCAAAAT
1 TAT-A-AAATTATCAAATTTAT-AAAAT
10208567 TATAAAATTA
1 TATAAAATTA
10208577 ATAAAACTCA
Statistics
Matches: 50, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
25 2 0.04
26 20 0.40
27 12 0.24
28 14 0.28
29 2 0.04
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.39
Consensus pattern (25 bp):
TATAAAATTATCAAATTTATAAAAT
Found at i:10208580 original size:9 final size:8
Alignment explanation
Indices: 10208487--10208582 Score: 50
Period size: 9 Copynumber: 10.9 Consensus size: 8
10208477 TTAGAATTGA
*
10208487 TATAAACT
1 TATAAAAT
*
10208495 TATTAAATT
1 TA-TAAAAT
10208504 TATAAATAT
1 TATAAA-AT
10208513 TATAAAA-
1 TATAAAAT
*
10208520 TATTACAAAA
1 TA-TA-AAAT
10208530 TATAAAAAT
1 TAT-AAAAT
*
10208539 TGTAATAAAT
1 TAT-A-AAAT
*
10208549 TATCAAATT
1 TAT-AAAAT
10208558 TATCAAAAT
1 TAT-AAAAT
10208567 TATAAAAT
1 TATAAAAT
10208575 TAATAAAA
1 T-ATAAAA
10208583 CTCATTTTAT
Statistics
Matches: 72, Mismatches: 8, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
7 2 0.03
8 15 0.21
9 45 0.62
10 10 0.14
ACGTcount: A:0.57, C:0.04, G:0.01, T:0.38
Consensus pattern (8 bp):
TATAAAAT
Found at i:10209238 original size:11 final size:11
Alignment explanation
Indices: 10209222--10209254 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
10209212 ATTTTATTAC
10209222 TTTTATAATTT
1 TTTTATAATTT
10209233 TTTTATAA--T
1 TTTTATAATTT
10209242 TTTTATAATTT
1 TTTTATAATTT
10209253 TT
1 TT
10209255 ATAAGTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
9 9 0.45
11 11 0.55
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TTTTATAATTT
Found at i:10209238 original size:20 final size:20
Alignment explanation
Indices: 10209213--10209254 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
10209203 TTAAAATATA
*
10209213 TTTTATTACTTTTATAATTT
1 TTTTATAACTTTTATAATTT
*
10209233 TTTTATAATTTTTATAATTT
1 TTTTATAACTTTTATAATTT
10209253 TT
1 TT
10209255 ATAAGTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTTATAACTTTTATAATTT
Found at i:10209244 original size:8 final size:9
Alignment explanation
Indices: 10209222--10209324 Score: 73
Period size: 9 Copynumber: 10.8 Consensus size: 9
10209212 ATTTTATTAC
10209222 TTTTATAATTT
1 TTTTATAA--T
10209233 TTTTATAAT
1 TTTTATAAT
10209242 TTTTATAAT
1 TTTTATAAT
10209251 TTTTATAAGT
1 TTTTATAA-T
* *
10209261 TTATATCCAT
1 TTTTAT-AAT
*
10209271 TTTCATAAT
1 TTTTATAAT
10209280 TTTTAT-AT
1 TTTTATAAT
*
10209288 TTTTGATATTT
1 TTTT-ATA-AT
* *
10209299 TTTTCTGAT
1 TTTTATAAT
*
10209308 TTTTAATCAT
1 TTTT-ATAAT
10209318 TTTTATA
1 TTTTATA
10209325 GGAAAATATT
Statistics
Matches: 73, Mismatches: 13, Indels: 14
0.73 0.13 0.14
Matches are distributed among these distances:
8 6 0.08
9 34 0.47
10 19 0.26
11 14 0.19
ACGTcount: A:0.27, C:0.05, G:0.03, T:0.65
Consensus pattern (9 bp):
TTTTATAAT
Found at i:10209255 original size:29 final size:30
Alignment explanation
Indices: 10209213--10209296 Score: 84
Period size: 29 Copynumber: 2.9 Consensus size: 30
10209203 TTAAAATATA
* * *
10209213 TTTTATTACTTTTATAATTTTTTTAT-AAT
1 TTTTATAATTTTTATAATTTTTATATCAAT
* *
10209242 TTTTATAATTTTTATAA-GTTTATATCCAT
1 TTTTATAATTTTTATAATTTTTATATCAAT
*
10209271 TTTCATAATTTTTAT-ATTTTTGATAT
1 TTTTATAATTTTTATAATTTTT-ATAT
10209297 TTTTTTCTGA
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
28 7 0.16
29 34 0.76
30 4 0.09
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (30 bp):
TTTTATAATTTTTATAATTTTTATATCAAT
Found at i:10209272 original size:20 final size:18
Alignment explanation
Indices: 10209232--10209291 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
10209222 TTTTATAATT
*
10209232 TTTTTATAATTTTTATAA
1 TTTTTATAATTTATATAA
*
10209250 TTTTTATAAGTTTATATCCA
1 TTTTTATAA-TTTATAT-AA
* *
10209270 TTTTCATAATTTTTAT-A
1 TTTTTATAATTTATATAA
10209287 TTTTT
1 TTTTT
10209292 GATATTTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
17 5 0.14
18 9 0.26
19 12 0.34
20 9 0.26
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (18 bp):
TTTTTATAATTTATATAA
Found at i:10211497 original size:23 final size:22
Alignment explanation
Indices: 10211450--10211493 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
10211440 CTGTAAACTC
*
10211450 TTTTTCTTAATTTAGTATTTAA
1 TTTTTCTTAATTTAGCATTTAA
* *
10211472 TTTTTTTTAATTTGGCATTTAA
1 TTTTTCTTAATTTAGCATTTAA
10211494 ATTTGTCAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.25, C:0.05, G:0.07, T:0.64
Consensus pattern (22 bp):
TTTTTCTTAATTTAGCATTTAA
Found at i:10215537 original size:23 final size:23
Alignment explanation
Indices: 10215510--10215555 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
10215500 ACATCTTAAA
10215510 AATATTTTTATTTTTTTTAGCTT
1 AATATTTTTATTTTTTTTAGCTT
10215533 AATATTTTTATTTTTTTTAGCTT
1 AATATTTTTATTTTTTTTAGCTT
10215556 TCCCTCCAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.70
Consensus pattern (23 bp):
AATATTTTTATTTTTTTTAGCTT
Found at i:10220111 original size:24 final size:24
Alignment explanation
Indices: 10220074--10220119 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
10220064 GCAATTCATT
10220074 TCGATGGTGTTATTTTAGAAACAA
1 TCGATGGTGTTATTTTAGAAACAA
*
10220098 TCGATGGT-TGTATTTTTGAAAC
1 TCGATGGTGT-TATTTTAGAAAC
10220120 TCATTAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.41
Consensus pattern (24 bp):
TCGATGGTGTTATTTTAGAAACAA
Found at i:10222774 original size:12 final size:12
Alignment explanation
Indices: 10222741--10222774 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
10222731 CTTTATAATT
* *
10222741 TATATATATACA
1 TATATACATGCA
10222753 TATATACATGCA
1 TATATACATGCA
10222765 TATATACATG
1 TATATACATG
10222775 TTTTTATATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (12 bp):
TATATACATGCA
Found at i:10222913 original size:13 final size:13
Alignment explanation
Indices: 10222895--10222919 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10222885 AAATGTACCA
10222895 TTTTTATATATAT
1 TTTTTATATATAT
10222908 TTTTTATATATA
1 TTTTTATATATA
10222920 CATACATCAT
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTTTATATATAT
Found at i:10227148 original size:23 final size:24
Alignment explanation
Indices: 10227103--10227148 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
10227093 AGATTCATTC
* *
10227103 AAAAAAATCAATCAAAGTCAAAAT
1 AAAAAAATCAATAAAAATCAAAAT
*
10227127 AAAAAAAT-AATAAAAATGAAAA
1 AAAAAAATCAATAAAAATCAAAA
10227149 AAGAGAAAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.74, C:0.07, G:0.04, T:0.15
Consensus pattern (24 bp):
AAAAAAATCAATAAAAATCAAAAT
Found at i:10227748 original size:15 final size:15
Alignment explanation
Indices: 10227728--10227759 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
10227718 TCAAGGTCGG
10227728 ATGTACCAGAAACAA
1 ATGTACCAGAAACAA
10227743 ATGTACCAGAAACAA
1 ATGTACCAGAAACAA
10227758 AT
1 AT
10227760 AAATAGGGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.53, C:0.19, G:0.12, T:0.16
Consensus pattern (15 bp):
ATGTACCAGAAACAA
Found at i:10228023 original size:6 final size:6
Alignment explanation
Indices: 10228014--10228055 Score: 66
Period size: 6 Copynumber: 6.7 Consensus size: 6
10228004 AAAAAAATAA
10228014 AAAATG AAAATG AAAATG AAAATG AAAAATG AAAAATG AAAA
1 AAAATG AAAATG AAAATG AAAATG -AAAATG -AAAATG AAAA
10228056 AGTAAAAGTG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
6 22 0.63
7 13 0.37
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (6 bp):
AAAATG
Found at i:10228029 original size:13 final size:13
Alignment explanation
Indices: 10228007--10228056 Score: 75
Period size: 12 Copynumber: 3.8 Consensus size: 13
10227997 TGAGTCAAAA
*
10228007 AAAATAAAAAATG
1 AAAATGAAAAATG
10228020 AAAATG-AAAATG
1 AAAATGAAAAATG
10228032 AAAATGAAAAATG
1 AAAATGAAAAATG
10228045 AAAAATGAAAAA
1 -AAAATGAAAAA
10228057 GTAAAAGTGG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
12 12 0.35
13 11 0.32
14 11 0.32
ACGTcount: A:0.74, C:0.00, G:0.12, T:0.14
Consensus pattern (13 bp):
AAAATGAAAAATG
Found at i:10228062 original size:13 final size:13
Alignment explanation
Indices: 10228007--10228062 Score: 53
Period size: 14 Copynumber: 4.3 Consensus size: 13
10227997 TGAGTCAAAA
*
10228007 AAAAT-AAAAAAT
1 AAAATGAAAAAGT
*
10228019 GAAAATGAAAATG-
1 -AAAATGAAAAAGT
*
10228032 AAAATGAAAAATGA
1 AAAATGAAAAA-GT
10228046 AAAATGAAAAAGT
1 AAAATGAAAAAGT
10228059 AAAA
1 AAAA
10228063 GTGGAGAGGC
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
12 10 0.28
13 11 0.31
14 15 0.42
ACGTcount: A:0.73, C:0.00, G:0.12, T:0.14
Consensus pattern (13 bp):
AAAATGAAAAAGT
Found at i:10229371 original size:44 final size:44
Alignment explanation
Indices: 10229324--10230992 Score: 1128
Period size: 44 Copynumber: 38.6 Consensus size: 44
10229314 TATCAAGTCC
* * *
10229324 TATCTCCCTAAGCAGTAGCGGAGCAGGTCGAAGATGGTAGATCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGCAGATCT
* * *
10229368 TATCTCCCTAAGTAGTAGTGGAGCAGGTCAAAGATGGTAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGCAGATCT
* * * * *
10229412 TATCTCCCTAAGCAGTAGTGGAACAGATCGAGGACGGCAAATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGCAGATCT
* * * * ** **** *
10229456 TATCTTCCTAAGCAGTAGTGAATCAGATTTAAGCCACCAG-TCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGCAGATCT
* * * *
10229499 TATCTCCCTAAGCAGTAGGGGAGCAAGTCGAAGATGGTAGATCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGCAGATCT
* * * * *
10229543 TATCTCCCTAAGCAGTAGTAGAGTAGGTCAAAGATGGTAGATAT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGCAGATCT
* *
10229587 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGC-GAATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGCAG-ATCT
* * * * ** * ****
10229631 TATCTTCCTAAGCAGTAGTGAAGTAGATTTAGGCCACCAG-TCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGCAGATCT
** * *
10229674 TATCTCCCTAAGCAGTAGTGGAGCAGGTTAAAGATTGTAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGCAGATCT
* * *
10229718 TATCTACCTAAGCAGTAGTGGAGCAGATCG--CAT--CA-AGTCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGCAGA-TCT
* *** *
10229758 TATCTCCCTAAGCAGTAGTGGAGCA-GACAGAAGAAACCA-ATCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTC-GAAGATGGCAGATCT
* * * * *
10229801 TAACTCCCTGAGCAGTAGTGGAGTAGGTCGAAGATTGTAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGCAGATCT
* * *
10229845 TATCTCCCTAAGCAGTAGTGGAGCAGATTG--CAT--CA-AGTCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGCAGA-TCT
* *** *
10229885 TATCTCCCTAAGCAGTAGTGGAGCA-GACAGAAGAAACCA-ATCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTC-GAAGATGGCAGATCT
* * * * * * *
10229928 TATCTCCCTGAGCAGCAGTAGG-GTAGGTTGAATATTGTAGATCT
1 TATCTCCCTAAGCAGTAGT-GGAGCAGGTCGAAGATGGCAGATCT
* * *
10229972 TATTTCCCTAAGCAGTAGTGGAGCAGATCG--CAT--CA-AGTCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGCAGA-TCT
* ** * *
10230012 TATCTCCCTAAGCAGTAGTGGAGCA-GACAGAAGA-AACAAATCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTC-GAAGATGGCAGATCT
* * * * * * ***
10230055 TATCTCCCTGAGCAGCAGTAGAGTAGGTTGAATATTATAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGCAGATCT
* *
10230099 TATCTCCCTAAGCAGTAGTGGAGCAGATCG--CAT--CA-AGTCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGCAGA-TCT
* *** *
10230139 TATCTCCCTAAGCAGTAGTGGAGCA-GACAGAAGAAACCA-ATCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTC-GAAGATGGCAGATCT
* * * * ** * ***
10230182 TATCTCCCTGAGCAGCAGTAGAGTAGGTTTAATATTATAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGCAGATCT
* *
10230226 TATCTCCCTAAGCAGTAGTGGAGCAGATCG--CAT--CA-AGTCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGCAGA-TCT
* * * *** *
10230266 TATCTCCCTAAGCAATAGTGGAGCAGATAGAAGAAACCA-ATCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGCAGATCT
* * *
10230309 TATCTCCCTAAGCAGCAGTGGAGCAGGTCAAAGATGACAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGCAGATCT
* * *
10230353 TATCTCCTTAAGCAGTAGTGGAGCAGATCGAAGACGGC-GAATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGCAG-ATCT
* * * * * ** **** *
10230397 TATCTTCCTAAGCAATAGTGAATCAGATTTAAGCCACCAG-TCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGCAGATCT
* * *
10230440 TATCTCCCTAAGCAGTAGTAGAGCAGGTCGAAGATGGTAGATCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGCAGATCT
* * *
10230484 TATCTCCCTAAGCAGTAGTGGAGTAGGTCGAAGATGGTAGATCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGCAGATCT
*
10230528 TATCTCCCTAAGCAGTAGTGGAGCAGGTC-AACGATGACAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAA-GATGGCAGATCT
* ** * *
10230572 TATCTCCCTAAGCAGTAGTGGAGCAGATTAAAGACGAC-GAATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGCAG-ATCT
* * * * ** *** *
10230616 TATCTTCCTAAGCAATAGTGAAGCAGATTTAA-ACCACCAG-TCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGA-TGGCAGATCT
* ** *
10230659 TATCTCCTTAAGCAGTAGTGGAGCAGGTTAAAGATGACAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGCAGATCT
* * * * *
10230703 TATCTCCCAAAGTAGTAGTGGAGCAGATCGAAGACGAC-GAATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGCAG-ATCT
* * * ** ** * *
10230747 TATCTTCCTAAGCAGTAGTGAAGCAGATTTAA-ACCAGTAGATCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGA-TGGCAGATCT
* * *
10230791 TATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGACAGATCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGCAGATCT
* *
10230835 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGATCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGCAGATCT
* * *
10230879 TATCTCCCTAAGTAGTAGTGGAGCAGGTCAAAGATGACAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGCAGATCT
* ***
10230923 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAAC-GAATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGCAG-ATCT
* *
10230967 TATCTTCCTAAGCAGTAGTGAAGCAG
1 TATCTCCCTAAGCAGTAGTGGAGCAG
10230993 ATTTAAGCCA
Statistics
Matches: 1280, Mismatches: 285, Indels: 120
0.76 0.17 0.07
Matches are distributed among these distances:
39 8 0.01
40 150 0.12
42 15 0.01
43 277 0.22
44 823 0.64
45 7 0.01
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (44 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGCAGATCT
Found at i:10229616 original size:175 final size:175
Alignment explanation
Indices: 10229319--10229743 Score: 672
Period size: 175 Copynumber: 2.4 Consensus size: 175
10229309 CATCATATCA
*
10229319 AGTCCTATCTCCCTAAGCAGTAGCGGAGCAGGTCGAAGATGGTAGATCCTATCTCCCTAAGTAGT
1 AGTCCTATCTCCCTAAGCAGTAGCGGAGCAGGTCGAAGATGGTAGATCCTATCTCCCTAAGCAGT
* * *
10229384 AGTGGAGCAGGTCAAAGATGGTAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATCGAGGACGG
66 AGTAGAGCAGGTCAAAGATGGTAGATATTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGACGG
10229449 CAAATCTTATCTTCCTAAGCAGTAGTGAA-TCAGATTTAAGCCACC
131 CAAATCTTATCTTCCTAAGCAGTAGTGAAGT-AGATTTAAGCCACC
* *
10229494 AGTCCTATCTCCCTAAGCAGTAGGGGAGCAAGTCGAAGATGGTAGATCCTATCTCCCTAAGCAGT
1 AGTCCTATCTCCCTAAGCAGTAGCGGAGCAGGTCGAAGATGGTAGATCCTATCTCCCTAAGCAGT
* *
10229559 AGTAGAGTAGGTCAAAGATGGTAGATATTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGG
66 AGTAGAGCAGGTCAAAGATGGTAGATATTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGACGG
* *
10229624 CGAATCTTATCTTCCTAAGCAGTAGTGAAGTAGATTTAGGCCACC
131 CAAATCTTATCTTCCTAAGCAGTAGTGAAGTAGATTTAAGCCACC
* * ** * * *
10229669 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGGTTAAAGATTGTAGATCTTATCTACCTAAGCAGT
1 AGTCCTATCTCCCTAAGCAGTAGCGGAGCAGGTCGAAGATGGTAGATCCTATCTCCCTAAGCAGT
*
10229734 AGTGGAGCAG
66 AGTAGAGCAG
10229744 ATCGCATCAA
Statistics
Matches: 229, Mismatches: 20, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
175 228 1.00
176 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (175 bp):
AGTCCTATCTCCCTAAGCAGTAGCGGAGCAGGTCGAAGATGGTAGATCCTATCTCCCTAAGCAGT
AGTAGAGCAGGTCAAAGATGGTAGATATTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGACGG
CAAATCTTATCTTCCTAAGCAGTAGTGAAGTAGATTTAAGCCACC
Found at i:10229835 original size:127 final size:127
Alignment explanation
Indices: 10229368--10230992 Score: 1371
Period size: 127 Copynumber: 12.5 Consensus size: 127
10229358 TGGTAGATCC
* * **** *
10229368 TATCTCCCTAAGTAGTAGTGGAGCAGGTCA-AAGATGGTAGATCTTATCTCCCTAAGCAGTAGTG
1 TATCTCCCTAAGCAGTAGTGGAGCA-GACAGAAGAAACCA-ATCCTATCTCCCTAAGCAGTAGTG
* * * ** * * * * * * *
10229432 GAACAGATCGAGGACGGCAAATCTTATCTTCCTAAGCAGTAGTGAATCAGATTTAAGCCA-CCAG
64 GAGCAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA--T-CG-CATCAAG
*
10229496 TCC
125 TCT
* * **** *
10229499 TATCTCCCTAAGCAGTAGGGGAGCAAGTC-GAAGATGGTAGATCCTATCTCCCTAAGCAGTAGTA
1 TATCTCCCTAAGCAGTAGTGGAGC-AGACAGAAGAAACCA-ATCCTATCTCCCTAAGCAGTAGTG
* * * * **
10229563 GAGTAGGTCAAAGATGGTAGATATTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAA
64 GAGCAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC---G-CATC-AA
10229628 -TCT
124 GTCT
* * * *** * ** * *
10229631 TATCTTCCTAAGCAGTAGTGAAGTAGATTTAGGCCACCAGTCTTATCTCCCTAAGCAGTAGTGGA
1 TATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTAAGCAGTAGTGGA
** *
10229696 GCAGGTTAAAGATTGTAGATCTTATCTACCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCT
66 GCAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCT
* *
10229758 TATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAACCAATCCTAACTCCCTGAGCAGTAGTGGA
1 TATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTAAGCAGTAGTGGA
* *
10229823 GTAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGCATCAAGTCT
66 GCAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCT
* *
10229885 TATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAGCAGCAGTAGG
1 TATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTAAGCAGTAGT-GG
* * * *
10229950 -GTAGGTTGAATATTGTAGATCTTATTTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCT
65 AGCAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCT
* * * *
10230012 TATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAACAAATCCTATCTCCCTGAGCAGCAGTAGA
1 TATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTAAGCAGTAGTGGA
* * * *
10230077 GTAGGTTGAATATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCT
66 GCAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCT
* * *
10230139 TATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAGCAGCAGTAGA
1 TATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTAAGCAGTAGTGGA
* ** * *
10230204 GTAGGTTTAATATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCT
66 GCAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCT
* * *
10230266 TATCTCCCTAAGCAATAGTGGAGCAGATAGAAGAAACCAATCCTATCTCCCTAAGCAGCAGTGGA
1 TATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTAAGCAGTAGTGGA
* * * **
10230331 GCAGGTCAAAGA-TGACAGATCTTATCTCCTTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAA-
66 GCAGGTCGAAGATTG-TAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC---G-CATC-AAG
10230394 TCT
125 TCT
* * * * *** ** * *
10230397 TATCTTCCTAAGCAATAGTGAATCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTAGA
1 TATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTAAGCAGTAGTGGA
* * * * * **
10230462 GCAGGTCGAAGATGGTAGATCCTATCTCCCTAAGCAGTAGTGGAGTAGGTCGAAGATGGTAGATC
66 GCAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG--CAT-CAAG-TC
*
10230527 C
127 T
* * * *
10230528 TATCTCCCTAAGCAGTAGTGGAGCAGGTCA-ACGATGA-CAGATCTTATCTCCCTAAGCAGTAGT
1 TATCTCCCTAAGCAGTAGTGGAGCA-GACAGAAGA-AACCA-ATCCTATCTCCCTAAGCAGTAGT
* ** * * * * *** *
10230591 GGAGCAGATTAAAGA-CG-ACGAATCTTATCTTCCTAAGCAATAGTGAAGCAGATTTAAACCACC
63 GGAGCAGGTCGAAGATTGTA-G-ATCTTATCTCCCTAAGCAGTAGTGGAGCAGA-TCGCATCA--
*
10230654 AGTCC
123 AGTCT
* ** * * * *
10230659 TATCTCCTTAAGCAGTAGTGGAGCAGGTTA-AAGATGA-CAGATCTTATCTCCCAAAGTAGTAGT
1 TATCTCCCTAAGCAGTAGTGGAGCA-GACAGAAGA-AACCA-ATCCTATCTCCCTAAGCAGTAGT
* * * * *** *
10230722 GGAGCAGATCGAAGA-CG-ACGAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAACCAGT
63 GGAGCAGGTCGAAGATTGTA-G-ATCTTATCTCCCTAAGCAGTAGTGGAGCAGA-TCGCATCA--
*
10230785 AGATCC
123 AG-TCT
* *
10230791 TATCTCCCTAAGCAGTAGTGGAGCAGGTCA-AAGATGA-CAGATCCTATCTCCCTAAGCAGTAGT
1 TATCTCCCTAAGCAGTAGTGGAGCA-GACAGAAGA-AACCA-ATCCTATCTCCCTAAGCAGTAGT
* * * * *
10230854 GGAGCAGGTCGAAGATGGTAGATCCTATCTCCCTAAGTAGTAGTGGAGCAGGTCAAAG-ATGACA
63 GGAGCAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC---GCATCA-A
10230918 GATCT
124 G-TCT
* * *
10230923 TATCTCCCTAAGCAGTAGTGGAGCAGATC-GAAGACAACGAATCTTATCTTCCTAAGCAGTAGTG
1 TATCTCCCTAAGCAGTAGTGGAGCAGA-CAGAAGA-AACCAATCCTATCTCCCTAAGCAGTAGTG
*
10230987 AAGCAG
64 GAGCAG
10230993 ATTTAAGCCA
Statistics
Matches: 1281, Mismatches: 174, Indels: 77
0.84 0.11 0.05
Matches are distributed among these distances:
126 4 0.00
127 581 0.45
128 4 0.00
129 3 0.00
130 2 0.00
131 424 0.33
132 255 0.20
133 7 0.01
134 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.24
Consensus pattern (127 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTAAGCAGTAGTGGA
GCAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCT
Found at i:10231102 original size:351 final size:349
Alignment explanation
Indices: 10230099--10231040 Score: 1104
Period size: 351 Copynumber: 2.7 Consensus size: 349
10230089 TTATAGATCT
* * * *
10230099 TATCTCCCTAAGCAGTAGTGGAGCAGATC---GCATCA-AG-TCTTATCTCCCTAAGCAGTAGTG
1 TATCTCCCTAAGCAGTAGTAGAGCAGGTCAAAG-ATGACAGATCCTATCTCCCTAAGCAGTAGTG
* **** * * * * ** * * *
10230159 GAGCA-GACAGAAGAAACCA-ATCCTATCTCCCTGAGCAGCAGTAGAGTAGGTTTAATATTATAG
65 GAGCAGGTC-GAAGATGGTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGACAG
* *
10230222 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC---G-CATC-AAGTCTTATCTCCCTAAGCAAT
129 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACAACGAA-TCTTATCTTCCTAAGCAAT
* ** * * * * * *
10230282 AGTGGAGCAGATAGAAGA-AACCAATCCTATCTCCCTAAGCAGCAGTGGAGCAGGTCAAAGATGA
193 AGTGAAGCAGATTTAA-ACCACCAGTCCTATCTCCCTAAGCAGTAGTAGAGCAGATTAAAGATGA
* ** * * * * * * *
10230346 CAGATCTTATCTCCTTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCA
257 -AGATCTTACCTCCCAAAGTAGCAGAGGAGCAAATCGAAGACGACAAACCTTATCTTCCTAAGCA
* *
10230411 ATAGTGAATCAGATTTAAGCCACCAGTCC
321 ATAGTGAAGCAGATTTAAACCACCAGTCC
* **
10230440 TATCTCCCTAAGCAGTAGTAGAGCAGGTCGAAGATGGTAGATCCTATCTCCCTAAGCAGTAGTGG
1 TATCTCCCTAAGCAGTAGTAGAGCAGGTCAAAGATGACAGATCCTATCTCCCTAAGCAGTAGTGG
* *
10230505 AGTAGGTCGAAGATGGTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAACGATGACAGAT
66 AGCAGGTCGAAGATGGTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGACAGAT
* *
10230570 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTAAAGACGACGAATCTTATCTTCCTAAGCAATAGT
131 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACAACGAATCTTATCTTCCTAAGCAATAGT
* * *
10230635 GAAGCAGATTTAAACCACCAGTCCTATCTCCTTAAGCAGTAGTGGAGCAGGTTAAAGATGACAGA
196 GAAGCAGATTTAAACCACCAGTCCTATCTCCCTAAGCAGTAGTAGAGCAGATTAAAGATGA-AGA
* * * * * * *
10230700 TCTTATCTCCCAAAGTAGTAGTGGAGCAGATCGAAGACGACGAATCTTATCTTCCTAAGCAGTAG
260 TCTTACCTCCCAAAGTAGCAGAGGAGCAAATCGAAGACGACAAACCTTATCTTCCTAAGCAATAG
**
10230765 TGAAGCAGATTTAAACCAGTAGATCC
325 TGAAGCAGATTTAAACCACCAG-TCC
*
10230791 TATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGACAGATCCTATCTCCCTAAGCAGTAGTGG
1 TATCTCCCTAAGCAGTAGTAGAGCAGGTCAAAGATGACAGATCCTATCTCCCTAAGCAGTAGTGG
*
10230856 AGCAGGTCGAAGATGGTAGATCCTATCTCCCTAAGTAGTAGTGGAGCAGGTCAAAGATGACAGAT
66 AGCAGGTCGAAGATGGTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGACAGAT
* *
10230921 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAACGAATCTTATCTTCCTAAGCAGTAGT
131 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACAACGAATCTTATCTTCCTAAGCAATAGT
* **
10230986 GAAGCAGATTTAAGCCACC-GATCCTATCTCCCTAAG-TTTAGTAGAGCAGATTAAA
196 GAAGCAGATTTAAACCACCAG-TCCTATCTCCCTAAGCAGTAGTAGAGCAGATTAAA
10231041 ACGATGAATC
Statistics
Matches: 527, Mismatches: 59, Indels: 21
0.87 0.10 0.03
Matches are distributed among these distances:
341 27 0.05
343 2 0.00
344 3 0.01
345 32 0.06
346 68 0.13
349 2 0.00
350 172 0.33
351 221 0.42
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.24
Consensus pattern (349 bp):
TATCTCCCTAAGCAGTAGTAGAGCAGGTCAAAGATGACAGATCCTATCTCCCTAAGCAGTAGTGG
AGCAGGTCGAAGATGGTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGACAGAT
CTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACAACGAATCTTATCTTCCTAAGCAATAGT
GAAGCAGATTTAAACCACCAGTCCTATCTCCCTAAGCAGTAGTAGAGCAGATTAAAGATGAAGAT
CTTACCTCCCAAAGTAGCAGAGGAGCAAATCGAAGACGACAAACCTTATCTTCCTAAGCAATAGT
GAAGCAGATTTAAACCACCAGTCC
Found at i:10231759 original size:20 final size:20
Alignment explanation
Indices: 10231723--10231760 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
10231713 CAGCAAGGAC
10231723 AAACAGAACAAAAAAACAAA
1 AAACAGAACAAAAAAACAAA
*
10231743 AAACAAGAA-AAAGAAACA
1 AAAC-AGAACAAAAAAACA
10231761 GATAGGACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.79, C:0.13, G:0.08, T:0.00
Consensus pattern (20 bp):
AAACAGAACAAAAAAACAAA
Found at i:10232700 original size:2 final size:2
Alignment explanation
Indices: 10232693--10232726 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
10232683 AATCTTGTTT
10232693 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10232727 CACACACATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10232829 original size:12 final size:12
Alignment explanation
Indices: 10232796--10232829 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
10232786 CTTTATAATT
* *
10232796 TATATATATACA
1 TATATACATGCA
10232808 TATATACATGCA
1 TATATACATGCA
10232820 TATATACATG
1 TATATACATG
10232830 TTTTTATATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (12 bp):
TATATACATGCA
Found at i:10235319 original size:23 final size:24
Alignment explanation
Indices: 10235266--10235319 Score: 56
Period size: 27 Copynumber: 2.2 Consensus size: 24
10235256 AATTATTTAC
* *
10235266 ATATATTTGCATGAACTTGATTGTCAC
1 ATATATTTGCATGAAC-T--TTGTAAA
10235293 ATATATTTGCATGAAC-TTGTAAA
1 ATATATTTGCATGAACTTTGTAAA
10235316 ATAT
1 ATAT
10235320 CTAAATGAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
23 9 0.36
27 16 0.64
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.41
Consensus pattern (24 bp):
ATATATTTGCATGAACTTTGTAAA
Found at i:10238806 original size:21 final size:22
Alignment explanation
Indices: 10238778--10238818 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
10238768 AAATCGTACT
10238778 AAAAATAAAAA-ATA-CAAAAA
1 AAAAATAAAAATATATCAAAAA
10238798 AAAAGATAAAAATATATCAAA
1 AAAA-ATAAAAATATATCAAA
10238819 TGATTGAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 7 0.39
22 3 0.17
23 4 0.22
ACGTcount: A:0.78, C:0.05, G:0.02, T:0.15
Consensus pattern (22 bp):
AAAAATAAAAATATATCAAAAA
Found at i:10240287 original size:3 final size:3
Alignment explanation
Indices: 10240279--10240304 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
10240269 ATGTTATTAA
10240279 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
10240305 ATTGTGAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:10241343 original size:6 final size:6
Alignment explanation
Indices: 10241238--10241340 Score: 161
Period size: 6 Copynumber: 17.2 Consensus size: 6
10241228 ATGTGAGGTA
10241238 AGTATT AGTATT AGTATT AGTATT AGTATT AGTATT AGTATT AGTATT
1 AGTATT AGTATT AGTATT AGTATT AGTATT AGTATT AGTATT AGTATT
* * * *
10241286 AGTATT AGTATT AGTATT AGTATT ATTATT ATTATT ATTATT ATTATT
1 AGTATT AGTATT AGTATT AGTATT AGTATT AGTATT AGTATT AGTATT
*
10241334 ATTATT A
1 AGTATT A
10241341 TTAAGATGAG
Statistics
Matches: 96, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
6 96 1.00
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.54
Consensus pattern (6 bp):
AGTATT
Found at i:10244587 original size:35 final size:35
Alignment explanation
Indices: 10244521--10244616 Score: 90
Period size: 35 Copynumber: 2.7 Consensus size: 35
10244511 TCATGGTGTC
10244521 GCTCCGTAGAGCCAATAGATCATTTCTATAATACT
1 GCTCCGTAGAGCCAATAGATCATTTCTATAATACT
* * *
10244556 GCTCTGTAGAGCCAGTA-AGTCATTT-TCATAAT-GT
1 GCTCCGTAGAGCCAATAGA-TCATTTCT-ATAATACT
* * *
10244590 CGCTCCATAGAACCAGTAGATCATTTC
1 -GCTCCGTAGAGCCAATAGATCATTTC
10244617 CAATCAAACC
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
34 3 0.06
35 46 0.92
36 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (35 bp):
GCTCCGTAGAGCCAATAGATCATTTCTATAATACT
Found at i:10245624 original size:42 final size:42
Alignment explanation
Indices: 10245535--10245713 Score: 162
Period size: 42 Copynumber: 4.3 Consensus size: 42
10245525 ATGTTGACAC
* * *
10245535 GTGCATCATCAAATGAACCAAAGCAAATACACTAGCACGTAA
1 GTGCATCATCAAATGAACCAAAGTAAATATACTAGCATGTAA
* * * *
10245577 ATGCATCATCAAATTAACC-AAGATAAATATACTGGCATGTAT
1 GTGCATCATCAAATGAACCAAAG-TAAATATACTAGCATGTAA
*** *
10245619 GTGCATCATTGGATGAACCAAAGTAATTATACTAGCATGTAA
1 GTGCATCATCAAATGAACCAAAGTAAATATACTAGCATGTAA
* ** ** * * * *
10245661 GTGCATCGTCGGATGAACTGAAGTAATTATACTGGCACGCAA
1 GTGCATCATCAAATGAACCAAAGTAAATATACTAGCATGTAA
10245703 GTGCATCATCA
1 GTGCATCATCA
10245714 GATAAATTGA
Statistics
Matches: 111, Mismatches: 24, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
41 3 0.03
42 105 0.95
43 3 0.03
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.25
Consensus pattern (42 bp):
GTGCATCATCAAATGAACCAAAGTAAATATACTAGCATGTAA
Found at i:10245692 original size:84 final size:84
Alignment explanation
Indices: 10245535--10245767 Score: 216
Period size: 84 Copynumber: 2.8 Consensus size: 84
10245525 ATGTTGACAC
* * * * * * ** * *
10245535 GTGCATCATCAAATGAACCAAAGCAAATACACTAGCACGTAAATGCATCATCAAATTAAC-CAAG
1 GTGCATCATCAGATAAACCAAAGCAATTATACTAGCATGTAAGTGCATCATCGGATGAACTGAAG
* * * *
10245599 ATAAATATACTGGCATGTAT
66 -TAATTATACTGGCACGCAA
** * * *
10245619 GTGCATCATTGGATGAACCAAAGTAATTATACTAGCATGTAAGTGCATCGTCGGATGAACTGAAG
1 GTGCATCATCAGATAAACCAAAGCAATTATACTAGCATGTAAGTGCATCATCGGATGAACTGAAG
10245684 TAATTATACTGGCACGCAA
66 TAATTATACTGGCACGCAA
*** * * * *
10245703 GTGCATCATCAGATAAATTGAAGCAATTGTATTGGCATGTAAGTTCATCATCGGATGAACTGAAG
1 GTGCATCATCAGATAAACCAAAGCAATTATACTAGCATGTAAGTGCATCATCGGATGAACTGAAG
10245768 CAAGTACATC
Statistics
Matches: 119, Mismatches: 29, Indels: 2
0.79 0.19 0.01
Matches are distributed among these distances:
84 116 0.97
85 3 0.03
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (84 bp):
GTGCATCATCAGATAAACCAAAGCAATTATACTAGCATGTAAGTGCATCATCGGATGAACTGAAG
TAATTATACTGGCACGCAA
Found at i:10245725 original size:42 final size:42
Alignment explanation
Indices: 10245573--10245767 Score: 158
Period size: 42 Copynumber: 4.6 Consensus size: 42
10245563 ACACTAGCAC
* * * * *
10245573 GTAAATGCATCATCAAATTAAC-CAAGATAAATATACTGGCAT
1 GTAAGTGCATCATCAGATAAACTGAAG-TAATTATACTGGCAT
* ** * ** *
10245615 GTATGTGCATCATTGGATGAACCAAAGTAATTATACTAGCAT
1 GTAAGTGCATCATCAGATAAACTGAAGTAATTATACTGGCAT
* * * *
10245657 GTAAGTGCATCGTCGGATGAACTGAAGTAATTATACTGGCAC
1 GTAAGTGCATCATCAGATAAACTGAAGTAATTATACTGGCAT
* * * * *
10245699 GCAAGTGCATCATCAGATAAATTGAAGCAATTGTATTGGCAT
1 GTAAGTGCATCATCAGATAAACTGAAGTAATTATACTGGCAT
* * *
10245741 GTAAGTTCATCATCGGATGAACTGAAG
1 GTAAGTGCATCATCAGATAAACTGAAG
10245768 CAAGTACATC
Statistics
Matches: 122, Mismatches: 30, Indels: 2
0.79 0.19 0.01
Matches are distributed among these distances:
42 119 0.98
43 3 0.02
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (42 bp):
GTAAGTGCATCATCAGATAAACTGAAGTAATTATACTGGCAT
Found at i:10245768 original size:42 final size:42
Alignment explanation
Indices: 10245604--10245770 Score: 190
Period size: 42 Copynumber: 4.0 Consensus size: 42
10245594 CCAAGATAAA
* * ** *
10245604 TATACTGGCATGTATGTGCATCATTGGATGAACCAAAGTAAT
1 TATACTGGCATGTAAGTGCATCATCGGATGAACTGAAGCAAT
* * *
10245646 TATACTAGCATGTAAGTGCATCGTCGGATGAACTGAAGTAAT
1 TATACTGGCATGTAAGTGCATCATCGGATGAACTGAAGCAAT
* * * * *
10245688 TATACTGGCACGCAAGTGCATCATCAGATAAATTGAAGCAAT
1 TATACTGGCATGTAAGTGCATCATCGGATGAACTGAAGCAAT
* * *
10245730 TGTATTGGCATGTAAGTTCATCATCGGATGAACTGAAGCAA
1 TATACTGGCATGTAAGTGCATCATCGGATGAACTGAAGCAA
10245771 GTACATCATC
Statistics
Matches: 103, Mismatches: 22, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 103 1.00
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (42 bp):
TATACTGGCATGTAAGTGCATCATCGGATGAACTGAAGCAAT
Found at i:10245779 original size:26 final size:26
Alignment explanation
Indices: 10245743--10245793 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
10245733 ATTGGCATGT
* *
10245743 AAGTTCATCATCGGATGAACTGAAGC
1 AAGTACATCATCGGATGAACCGAAGC
10245769 AAGTACATCATCGGATGAACCGAAG
1 AAGTACATCATCGGATGAACCGAAG
10245794 TAATTATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.20
Consensus pattern (26 bp):
AAGTACATCATCGGATGAACCGAAGC
Found at i:10245807 original size:110 final size:110
Alignment explanation
Indices: 10245659--10245880 Score: 277
Period size: 110 Copynumber: 2.0 Consensus size: 110
10245649 ACTAGCATGT
* * * **
10245659 AAGTGCATCGTCGGATGAACTGAAGTAATTATACTGGCACGCAAGTGCATCATCAGATAAATTGA
1 AAGTACATCATCGGATGAACCGAAGTAATTATACTGGCACGCAAGTGCATCATCAGATAAACCGA
* * * * *
10245724 AGCAATTGTA-TTG-GCATGTAAGTTCATCATCGGATGAACTGAAGC
66 AGCAATTCTACTAGCACATCT-AGTGCATCATC-GATGAACTGAAGC
* * * * *
10245769 AAGTACATCATCGGATGAACCGAAGTAATTATATTGGCACGTAAGTGTATCATTAGATGAACCGA
1 AAGTACATCATCGGATGAACCGAAGTAATTATACTGGCACGCAAGTGCATCATCAGATAAACCGA
10245834 AGCAATTCTACTAGCACATCTAGTGCATCATCGATGAACTGAAGC
66 AGCAATTCTACTAGCACATCTAGTGCATCATCGATGAACTGAAGC
10245879 AA
1 AA
10245881 ATATATTGAA
Statistics
Matches: 95, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
110 79 0.83
111 12 0.13
112 4 0.04
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.26
Consensus pattern (110 bp):
AAGTACATCATCGGATGAACCGAAGTAATTATACTGGCACGCAAGTGCATCATCAGATAAACCGA
AGCAATTCTACTAGCACATCTAGTGCATCATCGATGAACTGAAGC
Found at i:10245813 original size:68 final size:68
Alignment explanation
Indices: 10245699--10245838 Score: 165
Period size: 68 Copynumber: 2.1 Consensus size: 68
10245689 ATACTGGCAC
* ** * * *
10245699 GCAAGTGCATCATCAGATAAATTGAAGCAATTGTATTGGCATGTAAGT-TCATCATCGGATGAAC
1 GCAAGTACATCATCAGATAAACCGAAGCAATTATATTGGCACGTAAGTGT-ATCATCAGATGAAC
*
10245763 TGAA
65 CGAA
* * * *
10245767 GCAAGTACATCATCGGATGAACCGAAGTAATTATATTGGCACGTAAGTGTATCATTAGATGAACC
1 GCAAGTACATCATCAGATAAACCGAAGCAATTATATTGGCACGTAAGTGTATCATCAGATGAACC
10245832 GAA
66 GAA
10245835 GCAA
1 GCAA
10245839 TTCTACTAGC
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
68 59 0.98
69 1 0.02
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (68 bp):
GCAAGTACATCATCAGATAAACCGAAGCAATTATATTGGCACGTAAGTGTATCATCAGATGAACC
GAA
Found at i:10245834 original size:42 final size:41
Alignment explanation
Indices: 10245782--10245947 Score: 125
Period size: 42 Copynumber: 4.0 Consensus size: 41
10245772 TACATCATCG
* * *
10245782 GATGAACCGAAGTAATTATATTGGCACGTAAGTGTATCATTA
1 GATGAACCGAAGCAAATATATTGGCACGTAAGTGCATCA-TA
* * * * * * *
10245824 GATGAACCGAAGCAATTCTACTAGCACATCTAGTGCATCATC
1 GATGAACCGAAGCAAATATATTGGCACGT-AAGTGCATCATA
* ** * **
10245866 GATGAACTGAAGCAAATATATTGAAAAGTAAGTGCATCACCG
1 GATGAACCGAAGCAAATATATTGGCACGTAAGTGCATCA-TA
* * **
10245908 GATGAACTGAAGTAAATATATTGGCACGTACTTGCATCAT
1 GATGAACCGAAGCAAATATATTGGCACGTAAGTGCATCAT
10245948 CAGCTAAATT
Statistics
Matches: 95, Mismatches: 27, Indels: 5
0.75 0.21 0.04
Matches are distributed among these distances:
41 9 0.09
42 78 0.82
43 8 0.08
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.27
Consensus pattern (41 bp):
GATGAACCGAAGCAAATATATTGGCACGTAAGTGCATCATA
Found at i:10245898 original size:152 final size:152
Alignment explanation
Indices: 10245622--10245919 Score: 364
Period size: 152 Copynumber: 2.0 Consensus size: 152
10245612 CATGTATGTG
* * * * * *
10245622 CATCATTGGATGAACCAAAGTAATTATACTAGCATGTAAGTGCATCGTCGGATGAACTGAAGTAA
1 CATCATCGGATGAACCAAAGTAATTATACTAGCACGTAAGTGCATCATCAGATGAACCGAAGCAA
* * * * ** * *
10245687 TTATACTGGCACGCAAGTGCATCATCAGATAAATTGAAGCAATTGTATTGGCATGTAAGTTCATC
66 TTATACTAGCACGCAAGTGCATCATCAGATAAACTGAAGCAAATATATTGAAAAGTAAGTGCATC
*
10245752 ATCGGATGAACTGAAGCAAGTA
131 ACCGGATGAACTGAAGCAAGTA
* * * * *
10245774 CATCATCGGATGAACCGAAGTAATTATATTGGCACGTAAGTGTATCATTAGATGAACCGAAGCAA
1 CATCATCGGATGAACCAAAGTAATTATACTAGCACGTAAGTGCATCATCAGATGAACCGAAGCAA
* * * *
10245839 TTCTACTAGCACATCTAGTGCATCATC-GATGAACTGAAGCAAATATATTGAAAAGTAAGTGCAT
66 TTATACTAGCAC-GCAAGTGCATCATCAGATAAACTGAAGCAAATATATTGAAAAGTAAGTGCAT
10245903 CACCGGATGAACTGAAG
130 CACCGGATGAACTGAAG
10245920 TAAATATATT
Statistics
Matches: 121, Mismatches: 24, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
152 109 0.90
153 12 0.10
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (152 bp):
CATCATCGGATGAACCAAAGTAATTATACTAGCACGTAAGTGCATCATCAGATGAACCGAAGCAA
TTATACTAGCACGCAAGTGCATCATCAGATAAACTGAAGCAAATATATTGAAAAGTAAGTGCATC
ACCGGATGAACTGAAGCAAGTA
Found at i:10252306 original size:91 final size:91
Alignment explanation
Indices: 10252150--10252366 Score: 238
Period size: 91 Copynumber: 2.4 Consensus size: 91
10252140 TTCAAGTACC
* * * * * * *
10252150 ACATTGGACATTTTACGAAAGTACAGGTATCAAATGATACACAAATTGATAATTCAAGTACCACA
1 ACATTGGATATTTTATGAAAGTACAAGTACCAAATAATAAACAAATTCATAATTCAAGTACCACA
* *
10252215 TTTAACATTTTTAAAGTATAAATACT
66 TTTAACATTTTCAAAGTACAAATACT
* * * **
10252241 ACATTGGATATTTTATGAAAGTACAAGTACCAAATAATAAACAAATTCATAGTTTATGTGTCACA
1 ACATTGGATATTTTATGAAAGTACAAGTACCAAATAATAAACAAATTCATAATTCAAGTACCACA
* * *
10252306 TTTAACATTTTCCAAGTACATATATT
66 TTTAACATTTTCAAAGTACAAATACT
** *
10252332 ACATTAAATATTTTAT-AACAGTACATGTACCAAAT
1 ACATTGGATATTTTATGAA-AGTACAAGTACCAAAT
10252367 GTTACATTAT
Statistics
Matches: 105, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
90 2 0.02
91 103 0.98
ACGTcount: A:0.42, C:0.14, G:0.10, T:0.34
Consensus pattern (91 bp):
ACATTGGATATTTTATGAAAGTACAAGTACCAAATAATAAACAAATTCATAATTCAAGTACCACA
TTTAACATTTTCAAAGTACAAATACT
Found at i:10262057 original size:4 final size:4
Alignment explanation
Indices: 10262050--10262093 Score: 79
Period size: 4 Copynumber: 11.0 Consensus size: 4
10262040 GGATTTAATT
*
10262050 TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTGG TTTG TTTG TTTG
1 TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTTG
10262094 ATTATTAGAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.00, C:0.00, G:0.27, T:0.73
Consensus pattern (4 bp):
TTTG
Found at i:10262189 original size:2 final size:2
Alignment explanation
Indices: 10262182--10262216 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
10262172 ATAAAAGGAA
10262182 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10262217 ATTCTTTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10266193 original size:12 final size:12
Alignment explanation
Indices: 10266176--10266203 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
10266166 TAGAACTTCC
10266176 GTAATATTTTGT
1 GTAATATTTTGT
10266188 GTAATATTTTGT
1 GTAATATTTTGT
10266200 GTAA
1 GTAA
10266204 CATTAGAGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.18, T:0.54
Consensus pattern (12 bp):
GTAATATTTTGT
Found at i:10278008 original size:12 final size:12
Alignment explanation
Indices: 10277991--10278016 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
10277981 GAATGCGTGT
10277991 GTCTGCGTGTGC
1 GTCTGCGTGTGC
10278003 GTCTGCGTGTGC
1 GTCTGCGTGTGC
10278015 GT
1 GT
10278017 GCGTGCGTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.23, G:0.42, T:0.35
Consensus pattern (12 bp):
GTCTGCGTGTGC
Found at i:10279804 original size:3 final size:3
Alignment explanation
Indices: 10279796--10279835 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
10279786 AATCTTATGG
10279796 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
10279836 GGGTTAAATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:10281852 original size:19 final size:21
Alignment explanation
Indices: 10281825--10281868 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 21
10281815 TTTTTCATTC
*
10281825 TAAAATTTTTC-AT-TTTTTT
1 TAAAATTTTTCTATATTATTT
*
10281844 TAAATTTTTTCTATATTATTT
1 TAAAATTTTTCTATATTATTT
10281865 TAAA
1 TAAA
10281869 GTATGTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 10 0.48
20 2 0.10
21 9 0.43
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.64
Consensus pattern (21 bp):
TAAAATTTTTCTATATTATTT
Found at i:10285191 original size:18 final size:19
Alignment explanation
Indices: 10285168--10285206 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
10285158 ATTTTAAGTT
10285168 AACAAATAATATA-AATTA
1 AACAAATAATATAGAATTA
**
10285186 AACAAATTTTATAGAATTA
1 AACAAATAATATAGAATTA
10285205 AA
1 AA
10285207 GGCCACCAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.31
Consensus pattern (19 bp):
AACAAATAATATAGAATTA
Found at i:10294763 original size:23 final size:24
Alignment explanation
Indices: 10294716--10294761 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
10294706 GAAAAATATT
10294716 AAATATATATATTTTTTATTTTTA
1 AAATATATATATTTTTTATTTTTA
10294740 AAATATA-ATAATTTTTTATTTT
1 AAATATATAT-ATTTTTTATTTT
10294762 AAGTTTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 2 0.10
24 19 0.90
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (24 bp):
AAATATATATATTTTTTATTTTTA
Found at i:10294872 original size:9 final size:9
Alignment explanation
Indices: 10294858--10294885 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
10294848 TTTTGTTACA
10294858 ACAATTAAT
1 ACAATTAAT
10294867 ACAATTAAT
1 ACAATTAAT
10294876 ACAATTAAT
1 ACAATTAAT
10294885 A
1 A
10294886 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:10294907 original size:68 final size:66
Alignment explanation
Indices: 10294828--10294969 Score: 248
Period size: 68 Copynumber: 2.1 Consensus size: 66
10294818 TCAAGTTTGT
*
10294828 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGAT
10294893 AAA
64 AAA
10294896 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
*
10294961 T
66 A
10294962 TTTACTAA
1 TTTACTAA
10294970 CAATTAATTT
Statistics
Matches: 72, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
66 27 0.38
67 1 0.01
68 44 0.61
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (66 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
A
Found at i:10294979 original size:16 final size:16
Alignment explanation
Indices: 10294958--10294999 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
10294948 AATAATTTGA
*
10294958 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
10294974 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
10294990 TAGTTTTAAT
1 TAATTTTAAT
10295000 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:10294983 original size:22 final size:23
Alignment explanation
Indices: 10294973--10295028 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
10294963 TTACTAACAA
* * *
10294973 TTAATTTTAAT-AACAATTAGTT
1 TTAATTTTAATAAAAAAATAATT
*
10294995 TTAATTTTATTAAAAAAATAATT
1 TTAATTTTAATAAAAAAATAATT
10295018 TTAATTTTAAT
1 TTAATTTTAAT
10295029 TTTAATTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 10 0.36
23 18 0.64
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (23 bp):
TTAATTTTAATAAAAAAATAATT
Found at i:10294988 original size:59 final size:66
Alignment explanation
Indices: 10294828--10294991 Score: 216
Period size: 68 Copynumber: 2.5 Consensus size: 66
10294818 TCAAGTTTGT
*
10294828 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAA-GTTAGATTTT-ATACAACAATTAATACAATTAATACAATTAATAATTTGAT
10294893 AAA
64 AAA
10294896 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGAT
1 TTTACTAATCAAA-GTTAGATTTTA-TACAACAATTAATACAATTAATACAATTAATAATTTGAT
*
10294959 AAT
64 AAA
*
10294962 TTTACTAA-C-AA-TTA-ATTTTA-ATAACAATTA
1 TTTACTAATCAAAGTTAGATTTTATACAACAATTA
10294992 GTTTTAATTT
Statistics
Matches: 92, Mismatches: 3, Indels: 11
0.87 0.03 0.10
Matches are distributed among these distances:
59 9 0.10
61 6 0.07
62 3 0.03
64 2 0.02
65 1 0.01
66 27 0.29
67 1 0.01
68 43 0.47
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.41
Consensus pattern (66 bp):
TTTACTAATCAAAGTTAGATTTTATACAACAATTAATACAATTAATACAATTAATAATTTGATAA
A
Found at i:10295191 original size:21 final size:21
Alignment explanation
Indices: 10295167--10295213 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
10295157 TATGGGCCTT
10295167 GCCCAAACTCGGCCCGGCCCC
1 GCCCAAACTCGGCCCGGCCCC
* *
10295188 GCCCGAACTCGGCCCGGCCCG
1 GCCCAAACTCGGCCCGGCCCC
10295209 GCCCA
1 GCCCA
10295214 TGGACAGGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.13, C:0.55, G:0.28, T:0.04
Consensus pattern (21 bp):
GCCCAAACTCGGCCCGGCCCC
Found at i:10296698 original size:19 final size:19
Alignment explanation
Indices: 10296642--10296698 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
10296632 TATTTTAAAC
10296642 TAAAAAATATTCAAAATTTTA
1 TAAAAAATA-T-AAAATTTTA
**
10296663 -AAACAAATATATGATTTTA
1 TAAA-AAATATAAAATTTTA
10296682 TAAAAAATATAAAATTT
1 TAAAAAATATAAAATTT
10296699 ATTTTATGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
19 18 0.60
20 7 0.23
21 5 0.17
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.37
Consensus pattern (19 bp):
TAAAAAATATAAAATTTTA
Found at i:10297997 original size:8 final size:7
Alignment explanation
Indices: 10297978--10298006 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
10297968 GTTGAGAAAG
10297978 TAAAAAA
1 TAAAAAA
10297985 TAAAAAA
1 TAAAAAA
10297992 TAAAAAA
1 TAAAAAA
10297999 TAAAAAA
1 TAAAAAA
10298006 T
1 T
10298007 TAAATTCTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (7 bp):
TAAAAAA
Done.