Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167860.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_13, whole genome shotgun sequence
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: 22724830
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 82000 characters in sequence are not A, C, G, or T
File 67 of 109
Found at i:13343507 original size:19 final size:19
Alignment explanation
Indices: 13343480--13343597 Score: 73
Period size: 21 Copynumber: 5.6 Consensus size: 19
13343470 TTTTTTTTTG
13343480 TTTTCATTTTCATTTTATTTA
1 TTTT-ATTTT-ATTTTATTTA
13343501 -TTTATTTTATTTTATTTTA
1 TTTTATTTTATTTTA-TTTA
13343520 TTTTATATATATATCTTTA-TTA
1 TTTTAT-T-T-TAT-TTTATTTA
13343542 TTATTATTATTATTATTA-TTA
1 TT-TTATT-TTATT-TTATTTA
13343563 TTATTATTATTATTATTA-TTA
1 TT-TTATT-TTATT-TTATTTA
13343584 TTATTATTATTATT
1 TT-TTATT-TTATT
13343598 ATCCTAAACA
Statistics
Matches: 89, Mismatches: 0, Indels: 16
0.85 0.00 0.15
Matches are distributed among these distances:
18 6 0.07
19 9 0.10
20 9 0.10
21 45 0.51
22 9 0.10
23 7 0.08
24 4 0.04
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTATTTTATTTTATTTA
Found at i:13343509 original size:9 final size:10
Alignment explanation
Indices: 13343498--13343599 Score: 94
Period size: 9 Copynumber: 10.4 Consensus size: 10
13343488 TTCATTTTAT
13343498 TTATTTATT-
1 TTATTTATTA
13343507 TTATTTTATT-
1 TTA-TTTATTA
13343517 TTATTTTATATA
1 TTA-TTTAT-TA
13343529 TATATCTTTATTA
1 T-TA--TTTATTA
13343542 TTA-TTATTA
1 TTATTTATTA
13343551 TTA-TTATTA
1 TTATTTATTA
13343560 TTA-TTATTA
1 TTATTTATTA
13343569 TTA-TTATTA
1 TTATTTATTA
13343578 TTA-TTATTA
1 TTATTTATTA
13343587 TTA-TTATTA
1 TTATTTATTA
13343596 TTAT
1 TTAT
13343600 CCTAAACAAT
Statistics
Matches: 86, Mismatches: 1, Indels: 11
0.88 0.01 0.11
Matches are distributed among these distances:
9 57 0.66
10 15 0.17
11 1 0.01
12 3 0.03
13 5 0.06
14 5 0.06
ACGTcount: A:0.30, C:0.01, G:0.00, T:0.69
Consensus pattern (10 bp):
TTATTTATTA
Found at i:13343545 original size:6 final size:6
Alignment explanation
Indices: 13343502--13343599 Score: 134
Period size: 6 Copynumber: 16.7 Consensus size: 6
13343492 TTTTATTTAT
13343502 TTATT- TTATT- TTATT- TTATT- TTATATA TATATCT- TTATTA TTATTA
1 TTATTA TTATTA TTATTA TTATTA TTAT-TA T-TAT-TA TTATTA TTATTA
13343548 TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA
1 TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA
13343596 TTAT
1 TTAT
13343600 CCTAAACAAT
Statistics
Matches: 88, Mismatches: 1, Indels: 7
0.92 0.01 0.07
Matches are distributed among these distances:
5 20 0.23
6 62 0.70
7 2 0.02
8 4 0.05
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.68
Consensus pattern (6 bp):
TTATTA
Found at i:13346386 original size:7 final size:7
Alignment explanation
Indices: 13346374--13346428 Score: 76
Period size: 7 Copynumber: 7.9 Consensus size: 7
13346364 GTTTTTAAAA
13346374 CATTTTC
1 CATTTTC
13346381 CATTTTC
1 CATTTTC
13346388 CATTTTC
1 CATTTTC
13346395 CATTTTC
1 CATTTTC
13346402 CAATTTT-
1 C-ATTTTC
13346409 CATTTTC
1 CATTTTC
*
13346416 CATGTTC
1 CATTTTC
*
13346423 TATTTT
1 CATTTT
13346429 TTATTTTTAT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
6 5 0.12
7 33 0.77
8 5 0.12
ACGTcount: A:0.16, C:0.24, G:0.02, T:0.58
Consensus pattern (7 bp):
CATTTTC
Found at i:13346429 original size:21 final size:21
Alignment explanation
Indices: 13346378--13346435 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
13346368 TTAAAACATT
* *
13346378 TTCCATTTTCCATTTTCCATT
1 TTCCATTTTTCATTTTCCATG
*
13346399 TTCCAATTTTCATTTTCCATG
1 TTCCATTTTTCATTTTCCATG
* *
13346420 TTCTATTTTTTATTTT
1 TTCCATTTTTCATTTT
13346436 TATTTTTATT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.16, C:0.21, G:0.02, T:0.62
Consensus pattern (21 bp):
TTCCATTTTTCATTTTCCATG
Found at i:13346454 original size:6 final size:6
Alignment explanation
Indices: 13346426--13346457 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
13346416 CATGTTCTAT
13346426 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TT
13346458 CTCTAAAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTA
Found at i:13347548 original size:2 final size:2
Alignment explanation
Indices: 13347541--13347575 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
13347531 TCCCTCTTCT
13347541 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13347576 GTCAATAACC
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:13352769 original size:9 final size:9
Alignment explanation
Indices: 13352755--13352815 Score: 50
Period size: 9 Copynumber: 6.8 Consensus size: 9
13352745 TCATTAGATT
13352755 TATTTTAAA
1 TATTTTAAA
**
13352764 TATTTTATG
1 TATTTTAAA
* *
13352773 GAATTTAAA
1 TATTTTAAA
**
13352782 TATTTTATG
1 TATTTTAAA
* *
13352791 GAATTTAAA
1 TATTTTAAA
13352800 TATTTTAAA
1 TATTTTAAA
13352809 TATTTTA
1 TATTTTA
13352816 TGGAATTTAA
Statistics
Matches: 36, Mismatches: 16, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (9 bp):
TATTTTAAA
Found at i:13352797 original size:27 final size:27
Alignment explanation
Indices: 13352773--13352834 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
13352763 ATATTTTATG
13352773 GAATTTAAATATTTTATGGAATTTAAA
1 GAATTTAAATATTTTATGGAATTTAAA
* *
13352800 TATTTTAAATATTTTATGGAATTTAAA
1 GAATTTAAATATTTTATGGAATTTAAA
*
13352827 -TATTTAAA
1 GAATTTAAA
13352835 GGCTTTGAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 6 0.19
27 25 0.81
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (27 bp):
GAATTTAAATATTTTATGGAATTTAAA
Found at i:13352826 original size:18 final size:18
Alignment explanation
Indices: 13352758--13352806 Score: 98
Period size: 18 Copynumber: 2.7 Consensus size: 18
13352748 TTAGATTTAT
13352758 TTTAAATATTTTATGGAA
1 TTTAAATATTTTATGGAA
13352776 TTTAAATATTTTATGGAA
1 TTTAAATATTTTATGGAA
13352794 TTTAAATATTTTA
1 TTTAAATATTTTA
13352807 AATATTTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (18 bp):
TTTAAATATTTTATGGAA
Found at i:13359398 original size:98 final size:98
Alignment explanation
Indices: 13359286--13359476 Score: 346
Period size: 98 Copynumber: 1.9 Consensus size: 98
13359276 ACTAAATGTG
* * *
13359286 GGTGTCTGCACATATTAGAATTAATTTGTTATAATTAACTTCATATCAAAATCAATCGTAATTTC
1 GGTGTCTACACATATTAGAATCAATTTGTTATAATTAACTTCATATCAAAATCAATCATAATTTC
13359351 ACTAAAAAATAAAAATTTTATTTTGCTATAGTA
66 ACTAAAAAATAAAAATTTTATTTTGCTATAGTA
*
13359384 GGTGTCTACTCATATTAGAATCAATTTGTTATAATTAACTTCATATCAAAATCAATCATAATTTC
1 GGTGTCTACACATATTAGAATCAATTTGTTATAATTAACTTCATATCAAAATCAATCATAATTTC
13359449 ACTAAAAAATAAAAATTTTATTTTGCTA
66 ACTAAAAAATAAAAATTTTATTTTGCTA
13359477 CAGATGTGGA
Statistics
Matches: 89, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 89 1.00
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (98 bp):
GGTGTCTACACATATTAGAATCAATTTGTTATAATTAACTTCATATCAAAATCAATCATAATTTC
ACTAAAAAATAAAAATTTTATTTTGCTATAGTA
Found at i:13359937 original size:36 final size:36
Alignment explanation
Indices: 13359890--13359975 Score: 111
Period size: 36 Copynumber: 2.4 Consensus size: 36
13359880 ATAATACTAT
* * * *
13359890 AGAAAATAATGGTGTAAATGATATTGCTAATTTGGCA
1 AGAAAACAATGGTGGAAATGATACTACTAATTTGG-A
13359927 AG-AAACAATGGTGGAAATGATACTACTAATTTGGA
1 AGAAAACAATGGTGGAAATGATACTACTAATTTGGA
*
13359962 AGAAAACATTGGTG
1 AGAAAACAATGGTG
13359976 CTAATGAGGT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
35 3 0.07
36 38 0.88
37 2 0.05
ACGTcount: A:0.42, C:0.07, G:0.23, T:0.28
Consensus pattern (36 bp):
AGAAAACAATGGTGGAAATGATACTACTAATTTGGA
Found at i:13360030 original size:48 final size:48
Alignment explanation
Indices: 13359978--13360080 Score: 145
Period size: 48 Copynumber: 2.1 Consensus size: 48
13359968 CATTGGTGCT
13359978 AATGAGGTTGATGATGGTACTTG-TAATTAGGTAAAAAATAATGATGCA
1 AATGAGGTTGATGATGGTAC-TGCTAATTAGGTAAAAAATAATGATGCA
* * * * *
13360026 AATGAGGTTTATGATGGTACTGCTAATTTGGTAAAAGATAGTGGTGCA
1 AATGAGGTTGATGATGGTACTGCTAATTAGGTAAAAAATAATGATGCA
13360074 AATGAGG
1 AATGAGG
13360081 CTGAAAATGA
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
47 2 0.04
48 47 0.96
ACGTcount: A:0.36, C:0.05, G:0.28, T:0.31
Consensus pattern (48 bp):
AATGAGGTTGATGATGGTACTGCTAATTAGGTAAAAAATAATGATGCA
Found at i:13360821 original size:23 final size:23
Alignment explanation
Indices: 13360795--13360852 Score: 98
Period size: 23 Copynumber: 2.5 Consensus size: 23
13360785 TTAGAGAATT
13360795 AAAGAAAAGCTAAAAAAAAGCTA
1 AAAGAAAAGCTAAAAAAAAGCTA
**
13360818 AAAGAAAAGAAAAAAAAAAGCTA
1 AAAGAAAAGCTAAAAAAAAGCTA
13360841 AAAGAAAAGCTA
1 AAAGAAAAGCTA
13360853 GAGAGTTGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.72, C:0.07, G:0.14, T:0.07
Consensus pattern (23 bp):
AAAGAAAAGCTAAAAAAAAGCTA
Found at i:13360850 original size:12 final size:12
Alignment explanation
Indices: 13360795--13360852 Score: 84
Period size: 11 Copynumber: 5.0 Consensus size: 12
13360785 TTAGAGAATT
13360795 AAAGAAAAGCTA
1 AAAGAAAAGCTA
13360807 AAA-AAAAGCTA
1 AAAGAAAAGCTA
*
13360818 AAAGAAAAG-AA
1 AAAGAAAAGCTA
*
13360829 AAAAAAAAGCTA
1 AAAGAAAAGCTA
13360841 AAAGAAAAGCTA
1 AAAGAAAAGCTA
13360853 GAGAGTTGAT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
11 20 0.50
12 20 0.50
ACGTcount: A:0.72, C:0.07, G:0.14, T:0.07
Consensus pattern (12 bp):
AAAGAAAAGCTA
Found at i:13362661 original size:30 final size:30
Alignment explanation
Indices: 13362625--13362695 Score: 88
Period size: 30 Copynumber: 2.4 Consensus size: 30
13362615 TGTCAAACTA
*
13362625 TTGGAAATGTTAGTAGAGAAAGAGATGATG
1 TTGGAAATGTTAGTAGAGAAAAAGATGATG
* * *
13362655 TTGGAAATATTGGTAGAGAAAAAGGTGATG
1 TTGGAAATGTTAGTAGAGAAAAAGATGATG
* *
13362685 CTAGAAATGTT
1 TTGGAAATGTT
13362696 GGCTCATGAA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.39, C:0.01, G:0.31, T:0.28
Consensus pattern (30 bp):
TTGGAAATGTTAGTAGAGAAAAAGATGATG
Found at i:13363035 original size:15 final size:16
Alignment explanation
Indices: 13363009--13363038 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
13362999 GGCTTGTGTG
13363009 ATGTATAAAGGTGATT
1 ATGTATAAAGGTGATT
13363025 ATGTA-AAAGGTGAT
1 ATGTATAAAGGTGAT
13363039 AATTATGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.40, C:0.00, G:0.27, T:0.33
Consensus pattern (16 bp):
ATGTATAAAGGTGATT
Found at i:13365829 original size:50 final size:50
Alignment explanation
Indices: 13365754--13365854 Score: 193
Period size: 50 Copynumber: 2.0 Consensus size: 50
13365744 TGTGACTATC
*
13365754 AACTGCGTAAGCAGGAATATTGTCTTTCTTTATTATTATACTTTATTCTT
1 AACTGCATAAGCAGGAATATTGTCTTTCTTTATTATTATACTTTATTCTT
13365804 AACTGCATAAGCAGGAATATTGTCTTTCTTTATTATTATACTTTATTCTT
1 AACTGCATAAGCAGGAATATTGTCTTTCTTTATTATTATACTTTATTCTT
13365854 A
1 A
13365855 TAGTAATTCT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.28, C:0.14, G:0.11, T:0.48
Consensus pattern (50 bp):
AACTGCATAAGCAGGAATATTGTCTTTCTTTATTATTATACTTTATTCTT
Found at i:13368442 original size:16 final size:16
Alignment explanation
Indices: 13368417--13368447 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13368407 TAAGTTATCT
*
13368417 AAAAAGAAAAAAAGAG
1 AAAAAAAAAAAAAGAG
13368433 AAAAAAAAAAAAAGA
1 AAAAAAAAAAAAAGA
13368448 TAATCTACAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAAAGAG
Found at i:13376617 original size:23 final size:22
Alignment explanation
Indices: 13376570--13376620 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 22
13376560 TACAAGGCAG
*
13376570 TAAAATTTTAAAAATGGAGGTA
1 TAAAATTTTAAAAATGGAGGAA
13376592 TAAAACTTTCTAAAAATGGA-GAA
1 TAAAA-TTT-TAAAAATGGAGGAA
13376615 TAAAAT
1 TAAAAT
13376621 GATACCATAC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 6 0.23
23 10 0.38
24 10 0.38
ACGTcount: A:0.53, C:0.04, G:0.14, T:0.29
Consensus pattern (22 bp):
TAAAATTTTAAAAATGGAGGAA
Found at i:13379147 original size:5 final size:5
Alignment explanation
Indices: 13379137--13379162 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
13379127 TATATATAGA
13379137 TTCTT TTCTT TTCTT TTCTT TTCTT T
1 TTCTT TTCTT TTCTT TTCTT TTCTT T
13379163 GTGGTTTGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTCTT
Found at i:13380287 original size:42 final size:42
Alignment explanation
Indices: 13380240--13380325 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
13380230 TATTAAGGAA
13380240 ACACTTTTTTTTTCCTTCATATATCTAAATCTTGTATATTTT
1 ACACTTTTTTTTTCCTTCATATATCTAAATCTTGTATATTTT
13380282 ACACTTTTTTTTTCCTTCATATATCTAAATCTTGTATATTTT
1 ACACTTTTTTTTTCCTTCATATATCTAAATCTTGTATATTTT
13380324 AC
1 AC
13380326 TTTACACATG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.24, C:0.17, G:0.02, T:0.56
Consensus pattern (42 bp):
ACACTTTTTTTTTCCTTCATATATCTAAATCTTGTATATTTT
Found at i:13380804 original size:7 final size:7
Alignment explanation
Indices: 13380792--13380834 Score: 50
Period size: 7 Copynumber: 5.9 Consensus size: 7
13380782 ACAATCCAAT
13380792 TTTTTTC
1 TTTTTTC
13380799 TTTTTTC
1 TTTTTTC
*
13380806 TTTTTGC
1 TTTTTTC
*
13380813 TTTTCGTC
1 TTTT-TTC
13380821 TTTTTTC
1 TTTTTTC
13380828 TATTTTT
1 T-TTTTT
13380835 TTTAGGTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
7 20 0.67
8 10 0.33
ACGTcount: A:0.02, C:0.14, G:0.05, T:0.79
Consensus pattern (7 bp):
TTTTTTC
Found at i:13386267 original size:800 final size:798
Alignment explanation
Indices: 13384152--13386526 Score: 2798
Period size: 800 Copynumber: 3.0 Consensus size: 798
13384142 CATATACTGC
* * * * * * **
13384152 TATTTAAAAAACCTAAATCGATGC-CAGATAATTCAACAAATAATAGATAAAAATAGTTCAAAAG
1 TATTTAAAAAACCTGAACCGATACTGA-ATAATTCAACAAATAATAGATAGAAATGGTTCAAGGG
* * * * * *
13384216 TTGTTTAG-GTACTTTCGATAAGACATACATCAAGGTCAATGTAAACGCAATTAATAGGCTTAGA
65 TTGTTTAGTGT-CTTTAGATAGGACATACATCAAGGTCAATATAAATGTAATTGATAGGCTTAGA
* * * *
13384280 TACAAGACTAGGAAAAATGAAATTACG-ATCAATGTCCTTGATGTTTGCACCCCAGATATGCAAT
129 TACAAGACTA-GAAAAATGAAATTA-GAACCAATGTCCTTGATGTTTGCATCCTAGATATACAAT
* * * * * * * *
13384344 TCATATATGTTATATCGAGATGGAAAGATTTTAC-GACAAATGATAGAATTCTAAGTGATGTCAT
192 TCATATATGTTCTATCG-GATGAAAAGATTTTACAG-TAAATGACAGAGTGCTAAGCGATGCCAT
*** * *
13384408 TACA-CGCAGAAATGGGTTGAGGATCCCATAAGATATTATCTTTAAAATGTTCATTTTAGGTTTA
255 TACATATAAG-AATGGGTTAAGGATCCCATAAGATATTATCTTTATAATGTTCATTTTAGGTTTA
*
13384472 TAACG-AA-ACA------CC---TTATTAATGTTGTTCCATTATAACAAGTAATTACTATTTGTA
319 TAACGAAACACATTTTTTCCATATTATTAATGTTGTTCTATTATAACAAGTAATTACTATTTGTA
* * * *
13384526 TGATGCCAGATACACAAATGGGAAAAGTTTTTTGACAATTTATAAAGGTCAAAAATATCATCTTA
384 TGATGCTAGATACACAAATGGGAAAAGTTTTTTGGCAATTTATAAAGATCAAAGATA-CATCTTA
* * ** *
13384591 ATGATTGGAAGATAGGACTCCAATCGACAATCTCATAGGAATACTTCAATATAAAACACTCTCAA
448 ATGATT-GAGGACAGGACTCCAATCGATGATCTCATAGGAATACTTCAATATGAAACACTCTCAA
* * * * * * *
13384656 GCAAGAAATTATATCGGGATATGTTTTGGTATGTTGAATGCTAGATGGACAATTTTAAGGGAGAA
512 GTAAAAAATTATATTGAGAGATGTTTTGGTATGTTGAAAGCTAGATGGGCAATTTTAAGGGAGAA
* * **
13384721 GCATTTTATTCAATAAAGACACAATGTAAAATTATTTTTGCTTATTATCTTATCCATAATTTTAT
577 GCATTTTATTCAATAAAGACATAATGTAGAATTATTTTTGCTTATTATCTT-TTTATAATTTTAT
* *
13384786 TAAATCTGAGATGCTAATTAACCCTATTAAATATGATGTTACT-AAAAGAAGTATTAGCCAACCA
641 TAGATCTGAGATGATAATTAACCCTATTAAATATGATGTTACTGAAAA-AAGTATTAG-CAACCA
* * * * * *
13384850 GATGGATTTGAACATCAAGATTTGATAACTCATGTTGAGTCATCTAATTCTTGGACTCGTTTTAG
704 GATAGATTTGAACATCAAGATTTGATAACTCATGTTAAGCCATATAATTCTTAGACTCATTTTAG
* * * *
13384915 AAATAGTTTGGTTAATGCATAGCCATCTGT
769 AGATAATTTGGTCAATGCAAAGCCATCTGT
* * * *
13384945 TGTTTAAAAAACCTGAACCGATACTGGATAATTCAACAGATAATAAATAGAAATGGTTCAAGGGT
1 TATTTAAAAAACCTGAACCGATACTGAATAATTCAACAAATAATAGATAGAAATGGTTCAAGGGT
* * * *
13385010 TGTTT-GGGTGCTTTAGATGGGATATACATCAAGGTCAATATAAATGTAGTTGATAGGCTTAGAT
66 TGTTTAGTGT-CTTTAGATAGGACATACATCAAGGTCAATATAAATGTAATTGATAGGCTTAGAT
* * *
13385074 ACAAGACTAGAAAAATGAAATTACAACCAATGTCCTTGCTGTTTGCATCCTAGATATGA-AATTT
130 ACAAGACTAGAAAAATGAAATTAGAACCAATGTCCTTGATGTTTGCATCCTAGATAT-ACAATTC
* * * * *
13385138 ATATATGTTCTATTGGGATAAAAAGATTTTATAGTATATGACAGAGTGCTAAGCAATGCCATTAC
194 ATATATGTTCTA-TCGGATGAAAAGATTTTACAGTAAATGACAGAGTGCTAAGCGATGCCATTAC
* *
13385203 ATATAGGAATGGGTTGAA-GATCCCATAAGATATTATTTTTATAATGTTCATTTTAGGTTTATAA
258 ATATAAGAATGGGTT-AAGGATCCCATAAGATATTATCTTTATAATGTTCATTTTAGGTTTATAA
* *
13385267 CGAAACACCTTTTTT-CATATTATTAATGTTGTTCTACTATAAC-AGATAATTACTATTTGTATG
322 CGAAACACATTTTTTCCATATTATTAATGTTGTTCTATTATAACAAG-TAATTACTATTTGTATG
* * * * *
13385330 ATGTTAGATACACAAAT-GTAGAAACTTTTTTAGCAATTTATAAAAATCAAAGATACTATCTTAA
386 ATGCTAGATACACAAATGGGA-AAAGTTTTTTGGCAATTTATAAAGATCAAAGATAC-ATCTTAA
* * * * * ** *
13385394 TAATTGAAGGGCATGACTCCATTCGATGACCTTGTAGGAATACTTTAATATGAAACACTCTCAAG
449 TGATTG-AGGACAGGACTCCAATCGATGATCTCATAGGAATACTTCAATATGAAACACTCTCAAG
13385459 CT-AAAAATTATATTGAGAGATGTTTTGGTATGTTGAAAGCTAGATGGGCAATTTTAAGGGAGAA
513 -TAAAAAATTATATTGAGAGATGTTTTGGTATGTTGAAAGCTAGATGGGCAATTTTAAGGGAGAA
* * *
13385523 GCATTTTATTCAATAAAGACATAGTGTAGAATCATTTATGCTTATTATCTTCTTTATAATTTTAT
577 GCATTTTATTCAATAAAGACATAATGTAGAATTATTTTTGCTTATTATCTT-TTTATAATTTTAT
* ** * * * *
13385588 TAGATCTGAGATGGTAATTAACTTTATTGAATATGATGTTGCTGAAAAAAGTACTAGTCAA-CTG
641 TAGATCTGAGATGATAATTAACCCTATTAAATATGATGTTACTGAAAAAAGTATTAG-CAACCAG
* * *
13385652 AT-GATTTAAACATCAAGATTTGATACCACATGTTAAGCCATATAA-TCTTTAGACTCATTTTAG
705 ATAGATTTGAACATCAAGATTTGATAACTCATGTTAAGCCATATAATTC-TTAGACTCATTTTAG
* *
13385715 AGATAATTTGG-CAATGTAAAGCCATTTGT
769 AGATAATTTGGTCAATGCAAAGCCATCTGT
*
13385744 TATTTAAAAAACTTGAACCGATACTGAATAATTCAACAAATAATAGATAGAAATGGTTCAAGGGT
1 TATTTAAAAAACCTGAACCGATACTGAATAATTCAACAAATAATAGATAGAAATGGTTCAAGGGT
* * * * * *
13385809 TATTTAAGTGTC-TTAGATAGGACACACATCAAAGTCAATATAAATGTACTTGACAAGCTTAGAT
66 TGTTT-AGTGTCTTTAGATAGGACATACATCAAGGTCAATATAAATGTAATTGATAGGCTTAGAT
* * * *
13385873 ACAAGACCAGAAAAAATAAAATTAGAACCAATGTCCTT-AGTGCTTGCATCCTAAATATACAATT
130 ACAAGACTAG-AAAAATGAAATTAGAACCAATGTCCTTGA-TGTTTGCATCCTAGATATACAATT
* * *
13385937 CATATATGTTCTATCAGGATGAAAAGATTCTACAGTAGATGACATAGTGCTAAGCGATGCCATTA
193 CATATATGTTCTATC-GGATGAAAAGATTTTACAGTAAATGACAGAGTGCTAAGCGATGCCATTA
* * *
13386002 CATATAAGAATGGGTTAAGGATCTCATAAGATATTATCTTTATAATATTCGTTTTAGGTTTATAA
257 CATATAAGAATGGGTTAAGGATCCCATAAGATATTATCTTTATAATGTTCATTTTAGGTTTATAA
*
13386067 CGAAACACATTTTTTCCATATTATTAATGTTGTTCTATTATAACAAGTAATTACTATTTATATGA
322 CGAAACACATTTTTTCCATATTATTAATGTTGTTCTATTATAACAAGTAATTACTATTTGTATGA
* * * * *
13386132 TGCTGGTTGCACAAATGGGAAAAGTTTCTTGGCAATTTATAGAGATCAAAGATACAATCTTAATG
387 TGCTAGATACACAAATGGGAAAAGTTTTTTGGCAATTTATAAAGATCAAAGATAC-ATCTTAATG
*
13386197 ATTAGAGGACAGGACTCCAA-CTGATGATCTCATAAGAATACTTCAATATGAAACACT-TCAAGT
451 ATT-GAGGACAGGACTCCAATC-GATGATCTCATAGGAATACTTCAATATGAAACACTCTCAAGT
* * * * *
13386260 AAAAAATTATATTGAGAGATGTTTTGGTATATTGAAAGCTAAATGAGCAATTTTAAGGGAAAACC
514 AAAAAATTATATTGAGAGATGTTTTGGTATGTTGAAAGCTAGATGGGCAATTTTAAGGGAGAAGC
* * * * **
13386325 ATTTTATTCAATAAAAATATAATGTAGAATTATTTTTACTTGTTGCCTTTTCTATAATTTTATTA
579 ATTTTATTCAATAAAGACATAATGTAGAATTATTTTTGCTTATTATCTTTT-TATAATTTTATTA
* * * * * *
13386390 GGTCTGAGATGATAACTGACCCTATTAAATATGATGTTATTGAAAGACGTATTAGCTAACCAGAT
643 GATCTGAGATGATAATTAACCCTATTAAATATGATGTTACTGAAAAAAGTATTAGC-AACCAGAT
* * * * * *
13386455 AGATCTGAACATTAAGATTTGATAACTCATGTTAAGCTATTTGATTCTTAGACTCATTTTAAAGA
707 AGATTTGAACATCAAGATTTGATAACTCATGTTAAGCCATATAATTCTTAGACTCATTTTAGAGA
13386520 TAATTTG
772 TAATTTG
13386527 ACTAATGAGA
Statistics
Matches: 1334, Mismatches: 204, Indels: 79
0.82 0.13 0.05
Matches are distributed among these distances:
792 149 0.11
793 120 0.09
794 2 0.00
799 143 0.11
800 394 0.30
801 156 0.12
802 364 0.27
803 6 0.00
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.34
Consensus pattern (798 bp):
TATTTAAAAAACCTGAACCGATACTGAATAATTCAACAAATAATAGATAGAAATGGTTCAAGGGT
TGTTTAGTGTCTTTAGATAGGACATACATCAAGGTCAATATAAATGTAATTGATAGGCTTAGATA
CAAGACTAGAAAAATGAAATTAGAACCAATGTCCTTGATGTTTGCATCCTAGATATACAATTCAT
ATATGTTCTATCGGATGAAAAGATTTTACAGTAAATGACAGAGTGCTAAGCGATGCCATTACATA
TAAGAATGGGTTAAGGATCCCATAAGATATTATCTTTATAATGTTCATTTTAGGTTTATAACGAA
ACACATTTTTTCCATATTATTAATGTTGTTCTATTATAACAAGTAATTACTATTTGTATGATGCT
AGATACACAAATGGGAAAAGTTTTTTGGCAATTTATAAAGATCAAAGATACATCTTAATGATTGA
GGACAGGACTCCAATCGATGATCTCATAGGAATACTTCAATATGAAACACTCTCAAGTAAAAAAT
TATATTGAGAGATGTTTTGGTATGTTGAAAGCTAGATGGGCAATTTTAAGGGAGAAGCATTTTAT
TCAATAAAGACATAATGTAGAATTATTTTTGCTTATTATCTTTTTATAATTTTATTAGATCTGAG
ATGATAATTAACCCTATTAAATATGATGTTACTGAAAAAAGTATTAGCAACCAGATAGATTTGAA
CATCAAGATTTGATAACTCATGTTAAGCCATATAATTCTTAGACTCATTTTAGAGATAATTTGGT
CAATGCAAAGCCATCTGT
Found at i:13388174 original size:68 final size:68
Alignment explanation
Indices: 13388066--13388219 Score: 251
Period size: 68 Copynumber: 2.3 Consensus size: 68
13388056 ATGTATATAG
13388066 GACTAA-TTCATATTTGTATTGTTAGAACAAAAATCATACTTGTGTGAAT-GAA-ATAAATATTT
1 GACTAATTTCATATTTGTATTGTTAGAACAAAAATCATACTTGTGTGAATAGAACA-AAA-ATTT
13388128 GGTTT
64 GGTTT
* *
13388133 GACTAATTTCATATTTGTATTTTTAGAACAAAAATCATACTTGTGTGAATAGAACAACAATTTGG
1 GACTAATTTCATATTTGTATTGTTAGAACAAAAATCATACTTGTGTGAATAGAACAAAAATTTGG
13388198 TTT
66 TTT
13388201 GACTAATTTCATATTTGTA
1 GACTAATTTCATATTTGTA
13388220 CTAATATAAA
Statistics
Matches: 82, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
67 6 0.07
68 70 0.85
69 5 0.06
70 1 0.01
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (68 bp):
GACTAATTTCATATTTGTATTGTTAGAACAAAAATCATACTTGTGTGAATAGAACAAAAATTTGG
TTT
Found at i:13389382 original size:42 final size:42
Alignment explanation
Indices: 13389296--13389424 Score: 129
Period size: 42 Copynumber: 3.1 Consensus size: 42
13389286 CATTTTTGGG
* * * *
13389296 TTCTATTGTTCTTCATAGTTAGCCATTTTGTGGTTT-AGGATT
1 TTCTATTGTTCTTCATAATTAGCCATATTCTGATTTAAGG-TT
* *
13389338 TTCTGTTGTTCTTCATAATTAGGCATATTCTGATTTAAGGTT
1 TTCTATTGTTCTTCATAATTAGCCATATTCTGATTTAAGGTT
** * * *
13389380 TTCTATAATT-TTCACACTTAGCCATATTCT-ATTTAGGGTT
1 TTCTATTGTTCTTCATAATTAGCCATATTCTGATTTAAGGTT
13389420 TTCTA
1 TTCTA
13389425 CTATTATTCT
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
40 14 0.19
41 17 0.23
42 39 0.53
43 3 0.04
ACGTcount: A:0.21, C:0.14, G:0.15, T:0.50
Consensus pattern (42 bp):
TTCTATTGTTCTTCATAATTAGCCATATTCTGATTTAAGGTT
Found at i:13390261 original size:18 final size:17
Alignment explanation
Indices: 13390238--13390314 Score: 60
Period size: 18 Copynumber: 4.8 Consensus size: 17
13390228 AGACCATTGA
13390238 TTATAACAATGTAAAAGC
1 TTATAACAATGTAAAA-C
*
13390256 TTATAAC-A-G--AAAT
1 TTATAACAATGTAAAAC
13390269 TTATAACAATGTAAAAAC
1 TTATAACAATGT-AAAAC
**
13390287 TTATAAC-A--TAAATT
1 TTATAACAATGTAAAAC
13390301 TTATAACAATGTAA
1 TTATAACAATGTAA
13390315 GGGACATGCA
Statistics
Matches: 47, Mismatches: 4, Indels: 17
0.69 0.06 0.25
Matches are distributed among these distances:
13 7 0.15
14 14 0.30
15 3 0.06
16 1 0.02
17 5 0.11
18 17 0.36
ACGTcount: A:0.52, C:0.09, G:0.06, T:0.32
Consensus pattern (17 bp):
TTATAACAATGTAAAAC
Found at i:13390276 original size:31 final size:32
Alignment explanation
Indices: 13390238--13390314 Score: 129
Period size: 31 Copynumber: 2.4 Consensus size: 32
13390228 AGACCATTGA
*
13390238 TTATAACAATGTAAAAGCTTATAACAGAAA-T
1 TTATAACAATGTAAAAACTTATAACAGAAATT
*
13390269 TTATAACAATGTAAAAACTTATAACATAAATT
1 TTATAACAATGTAAAAACTTATAACAGAAATT
13390301 TTATAACAATGTAA
1 TTATAACAATGTAA
13390315 GGGACATGCA
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
31 28 0.65
32 15 0.35
ACGTcount: A:0.52, C:0.09, G:0.06, T:0.32
Consensus pattern (32 bp):
TTATAACAATGTAAAAACTTATAACAGAAATT
Found at i:13399054 original size:31 final size:31
Alignment explanation
Indices: 13399019--13399083 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 31
13399009 AAAATGTTTT
*
13399019 AAAATGATCAATTACGGTGTTTATGTATAAC
1 AAAATGATCAATTAAGGTGTTTATGTATAAC
*
13399050 AAAATGATCAATTAAGGTGTTTGTGTATAAC
1 AAAATGATCAATTAAGGTGTTTATGTATAAC
13399081 AAA
1 AAA
13399084 TGCCTTAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.42, C:0.08, G:0.17, T:0.34
Consensus pattern (31 bp):
AAAATGATCAATTAAGGTGTTTATGTATAAC
Found at i:13399354 original size:65 final size:61
Alignment explanation
Indices: 13399270--13399422 Score: 182
Period size: 61 Copynumber: 2.4 Consensus size: 61
13399260 AATTAAGGAG
* * * ** * * *
13399270 TTCATATACACAAAGGCCTTAATTGATCATGTTTTACATATGAATTGAATAGATCAATTAAGGCA
1 TTCACATAAACAAATGCCTTAATTGATCATGTTTT--ATA--AATAAAAAAAATCAATTAAGACA
13399335 TTCACAATAAA-AAATGCCTTAATTGATCATGTTTTATAAATAAAAAAAATCAATTAAGACA
1 TTCAC-ATAAACAAATGCCTTAATTGATCATGTTTTATAAATAAAAAAAATCAATTAAGACA
13399396 TTCACATAAACAAATGCCTTAATTGAT
1 TTCACATAAACAAATGCCTTAATTGAT
13399423 GGTGTATTCA
Statistics
Matches: 78, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
60 5 0.06
61 39 0.50
63 3 0.04
65 27 0.35
66 4 0.05
ACGTcount: A:0.44, C:0.14, G:0.10, T:0.33
Consensus pattern (61 bp):
TTCACATAAACAAATGCCTTAATTGATCATGTTTTATAAATAAAAAAAATCAATTAAGACA
Found at i:13399411 original size:61 final size:63
Alignment explanation
Indices: 13399202--13399422 Score: 186
Period size: 65 Copynumber: 3.5 Consensus size: 63
13399192 TGAAAAACGT
* ** * *
13399202 ACATTCA-ACTAAA-AAAGTGCCTTAATTGATTATGCATTAA-AAAATAAAAAACATGATGAATT
1 ACATTCACA-TAAACAAA-TGCCTTAATTGATCATGTTTTAATAGAATAAAAAA-A--ATCAATT
13399264 AAGG
61 AA-G
* * * * ** * *
13399268 A-GTTCATATACACAAAGGCCTTAATTGATCATGTTTTACATATGAATTGAATAGATCAATTAAG
1 ACATTCACATAAACAAATGCCTTAATTGATCATGTTTTA-ATA-GAATAAAAAAAATCAATTAAG
*
13399332 GCATTCACAATAAA-AAATGCCTTAATTGATCATGTTTT-ATA-AATAAAAAAAATCAATTAAG
1 ACATTCAC-ATAAACAAATGCCTTAATTGATCATGTTTTAATAGAATAAAAAAAATCAATTAAG
13399393 ACATTCACATAAACAAATGCCTTAATTGAT
1 ACATTCACATAAACAAATGCCTTAATTGAT
13399423 GGTGTATTCA
Statistics
Matches: 125, Mismatches: 22, Indels: 21
0.74 0.13 0.12
Matches are distributed among these distances:
60 5 0.04
61 39 0.31
63 3 0.02
64 1 0.01
65 60 0.48
66 10 0.08
67 1 0.01
68 6 0.05
ACGTcount: A:0.46, C:0.13, G:0.11, T:0.31
Consensus pattern (63 bp):
ACATTCACATAAACAAATGCCTTAATTGATCATGTTTTAATAGAATAAAAAAAATCAATTAAG
Found at i:13400337 original size:16 final size:17
Alignment explanation
Indices: 13400316--13400364 Score: 64
Period size: 16 Copynumber: 2.9 Consensus size: 17
13400306 TAACTCACTT
13400316 TTTTTTCTTTTTTTA-A
1 TTTTTTCTTTTTTTATA
*
13400332 TTTTTTCTCTTTTTATA
1 TTTTTTCTTTTTTTATA
*
13400349 TTCTTTTCCTTTTTTA
1 TT-TTTTCTTTTTTTA
13400365 CTCTCCATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 14 0.50
17 3 0.11
18 11 0.39
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTTTCTTTTTTTATA
Found at i:13400337 original size:18 final size:17
Alignment explanation
Indices: 13400314--13400363 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 17
13400304 TTTAACTCAC
13400314 TTTTTTTTCTTTTTTTAA
1 TTTTTTTTCTTTTTTT-A
* *
13400332 TTTTTTCTCTTTTTATA
1 TTTTTTTTCTTTTTTTA
* *
13400349 TTCTTTTCCTTTTTT
1 TTTTTTTTCTTTTTT
13400364 ACTCTCCATA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
17 12 0.46
18 14 0.54
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.80
Consensus pattern (17 bp):
TTTTTTTTCTTTTTTTA
Found at i:13401138 original size:24 final size:24
Alignment explanation
Indices: 13401109--13401154 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
13401099 AAACTGTAAA
*
13401109 TTATTTTAAATAATTTAAAATTTT
1 TTATTTTAAATAATTAAAAATTTT
*
13401133 TTATTTTAATTAATTAAAAATT
1 TTATTTTAAATAATTAAAAATT
13401155 GAACCAAGCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
TTATTTTAAATAATTAAAAATTTT
Found at i:13401531 original size:23 final size:24
Alignment explanation
Indices: 13401487--13401532 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
13401477 TATTTATTTT
**
13401487 AATTATATATATGTTATATTAATA
1 AATTATATATATAATATATTAATA
*
13401511 AATTAT-TATATAATATCTTAAT
1 AATTATATATATAATATATTAAT
13401533 TTAATAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (24 bp):
AATTATATATATAATATATTAATA
Found at i:13401536 original size:28 final size:27
Alignment explanation
Indices: 13401488--13401540 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 27
13401478 ATTTATTTTA
*
13401488 ATTATATATATGTTATATTAATAAATT
1 ATTATATATATCTTATATTAATAAATT
13401515 ATTATATAATATCTTA-ATTTAATAAA
1 ATTATAT-ATATCTTATA-TTAATAAA
13401541 AATACTGTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 8 0.35
28 15 0.65
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (27 bp):
ATTATATATATCTTATATTAATAAATT
Found at i:13406161 original size:21 final size:21
Alignment explanation
Indices: 13406135--13406176 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
13406125 TTTCTTGGGC
13406135 CATTTCTATTATAATAATAAA
1 CATTTCTATTATAATAATAAA
*
13406156 CATTTCTATTATAGTAATAAA
1 CATTTCTATTATAATAATAAA
13406177 AGTCAAAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (21 bp):
CATTTCTATTATAATAATAAA
Found at i:13407720 original size:14 final size:15
Alignment explanation
Indices: 13407703--13407733 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
13407693 GATTAGGTGT
13407703 GGTGGGGCG-TTGGG
1 GGTGGGGCGTTTGGG
13407717 GGTGGGGCGTTTGGG
1 GGTGGGGCGTTTGGG
13407732 GG
1 GG
13407734 AAGGTGGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.56
15 7 0.44
ACGTcount: A:0.00, C:0.06, G:0.71, T:0.23
Consensus pattern (15 bp):
GGTGGGGCGTTTGGG
Found at i:13408063 original size:20 final size:20
Alignment explanation
Indices: 13408026--13408062 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
13408016 ATTGTGTTAT
*
13408026 ATATTAATTTATAATTTTGA
1 ATATGAATTTATAATTTTGA
13408046 ATATGAATTT-TAATTTT
1 ATATGAATTTATAATTTT
13408063 TTTGTTGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (20 bp):
ATATGAATTTATAATTTTGA
Found at i:13408315 original size:26 final size:26
Alignment explanation
Indices: 13408287--13408335 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
13408277 TAAAAAATAA
*
13408287 AAAATATAGGTTTGAAAA-TTTTATT
1 AAAATATAAGTTTGAAAACTTTTATT
13408312 AAAATATAAGTTTGAAAACTTTTA
1 AAAATATAAGTTTGAAAACTTTTA
13408336 ATTTTTGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.47, C:0.02, G:0.10, T:0.41
Consensus pattern (26 bp):
AAAATATAAGTTTGAAAACTTTTATT
Found at i:13412155 original size:18 final size:18
Alignment explanation
Indices: 13412132--13412256 Score: 80
Period size: 18 Copynumber: 6.9 Consensus size: 18
13412122 ATGGTTATTA
*
13412132 TCCACCCCAAATGTATCC
1 TCCACCTCAAATGTATCC
*
13412150 TCCACCTCTTCAAATATATCC
1 TCCA-C-C-TCAAATGTATCC
* * *
13412171 CCCACTTCAAATGTATCAG
1 TCCACCTCAAATGTATC-C
* * *
13412190 T-TACCACAAATGTACCC
1 TCCACCTCAAATGTATCC
*
13412207 TCCACCAT-AAATGTATCA
1 TCCACC-TCAAATGTATCC
*
13412225 T---CCTCAAATATATCC
1 TCCACCTCAAATGTATCC
13412240 TCCACCTCAAATGTATC
1 TCCACCTCAAATGTATC
13412257 AAGAACAAAG
Statistics
Matches: 78, Mismatches: 19, Indels: 20
0.67 0.16 0.17
Matches are distributed among these distances:
14 1 0.01
15 11 0.14
17 1 0.01
18 49 0.63
19 1 0.01
20 2 0.03
21 13 0.17
ACGTcount: A:0.32, C:0.35, G:0.05, T:0.28
Consensus pattern (18 bp):
TCCACCTCAAATGTATCC
Found at i:13412242 original size:33 final size:35
Alignment explanation
Indices: 13412159--13412257 Score: 114
Period size: 33 Copynumber: 2.9 Consensus size: 35
13412149 CTCCACCTCT
* *
13412159 TCAAATATATCCCCCACTTCAAATGTATCAGTTACC
1 TCAAATATATCCTCCACCTCAAATGTATCAG-TACC
* * *
13412195 ACAAATGTACCCTCCACCAT-AAATGTATCA-T-CC
1 TCAAATATATCCTCCACC-TCAAATGTATCAGTACC
13412228 TCAAATATATCCTCCACCTCAAATGTATCA
1 TCAAATATATCCTCCACCTCAAATGTATCA
13412258 AGAACAAAGG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
32 1 0.02
33 27 0.51
34 1 0.02
36 23 0.43
37 1 0.02
ACGTcount: A:0.35, C:0.31, G:0.05, T:0.28
Consensus pattern (35 bp):
TCAAATATATCCTCCACCTCAAATGTATCAGTACC
Found at i:13413932 original size:20 final size:21
Alignment explanation
Indices: 13413907--13413947 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
13413897 TCAAACACAA
13413907 AAAAATCT-ACTT-TCCTACAT
1 AAAAATCTGA-TTCTCCTACAT
13413927 AAAAATCTGATTCTCCTACAT
1 AAAAATCTGATTCTCCTACAT
13413948 TAACGCAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.39, C:0.24, G:0.02, T:0.34
Consensus pattern (21 bp):
AAAAATCTGATTCTCCTACAT
Found at i:13415791 original size:27 final size:27
Alignment explanation
Indices: 13415761--13415852 Score: 123
Period size: 27 Copynumber: 3.4 Consensus size: 27
13415751 TTGTCAATTT
*
13415761 TCAACCAATCCCTTCAAAATTAGATTC
1 TCAACCAATCCCTTCAAAACTAGATTC
* *
13415788 TCAACCAACCCCTTCAAAACTAGAATC
1 TCAACCAATCCCTTCAAAACTAGATTC
*
13415815 TCAACCAA-CCCATTCAAAACCAGATTC
1 TCAACCAATCCC-TTCAAAACTAGATTC
*
13415842 TCAACCTATCC
1 TCAACCAATCC
13415853 AACCTATCAA
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
26 3 0.05
27 52 0.91
28 2 0.04
ACGTcount: A:0.38, C:0.36, G:0.03, T:0.23
Consensus pattern (27 bp):
TCAACCAATCCCTTCAAAACTAGATTC
Found at i:13417156 original size:25 final size:26
Alignment explanation
Indices: 13417114--13417169 Score: 87
Period size: 25 Copynumber: 2.2 Consensus size: 26
13417104 ACTTGAGGGG
13417114 AGTGTAGAAATCTGATTCTCCTACATT
1 AGTGTAG-AATCTGATTCTCCTACATT
*
13417141 AGTGTAG-ATCTTATTCTCCTACATT
1 AGTGTAGAATCTGATTCTCCTACATT
13417166 AGTG
1 AGTG
13417170 CAACTTGATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
25 21 0.75
27 7 0.25
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.39
Consensus pattern (26 bp):
AGTGTAGAATCTGATTCTCCTACATT
Found at i:13425868 original size:7 final size:7
Alignment explanation
Indices: 13425858--13425952 Score: 72
Period size: 7 Copynumber: 14.0 Consensus size: 7
13425848 ATAATGGATA
13425858 AAAAAAT
1 AAAAAAT
13425865 -AAAAAT
1 AAAAAAT
* *
13425871 TAAAGA-
1 AAAAAAT
13425877 AAAAAAT
1 AAAAAAT
13425884 AAAAAA-
1 AAAAAAT
*
13425890 ATGAAAA-
1 A-AAAAAT
13425897 AAAAAAT
1 AAAAAAT
*
13425904 ATAAAAT
1 AAAAAAT
*
13425911 ATAAAAT
1 AAAAAAT
*
13425918 ATAAAAT
1 AAAAAAT
** *
13425925 ATGAAAG
1 AAAAAAT
13425932 AAAAAAT
1 AAAAAAT
13425939 AAAAAAT
1 AAAAAAT
13425946 AAAAAAT
1 AAAAAAT
13425953 GGAAAAATTA
Statistics
Matches: 73, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
6 15 0.21
7 58 0.79
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17
Consensus pattern (7 bp):
AAAAAAT
Found at i:13425923 original size:21 final size:21
Alignment explanation
Indices: 13425859--13425952 Score: 81
Period size: 21 Copynumber: 4.6 Consensus size: 21
13425849 TAATGGATAA
13425859 AAAAAT-AAAAAT-TAAAGA-A
1 AAAAATAAAAAATATAAA-ATA
13425878 AAAAATAAAAAA-ATGAAAA-A
1 AAAAATAAAAAATAT-AAAATA
*
13425898 AAAAATATAAAATATAAAATA
1 AAAAATAAAAAATATAAAATA
* ** * *
13425919 TAAAATATGAAAGAAAAAATA
1 AAAAATAAAAAATATAAAATA
13425940 AAAAATAAAAAAT
1 AAAAATAAAAAAT
13425953 GGAAAAATTA
Statistics
Matches: 61, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
19 6 0.10
20 23 0.38
21 32 0.52
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17
Consensus pattern (21 bp):
AAAAATAAAAAATATAAAATA
Found at i:13425929 original size:35 final size:34
Alignment explanation
Indices: 13425859--13425952 Score: 109
Period size: 35 Copynumber: 2.7 Consensus size: 34
13425849 TAATGGATAA
* *
13425859 AAAAATAAAAATTAAAGA-AAAAAATAAAAAAATG
1 AAAAA-AAAAATAAAAAATAAAAAATAAAAAAATG
* * *
13425893 AAAAAAAAAATATAAAATATAAAATATAAAATATG
1 AAAAAAAAAATAAAAAATAAAAAATA-AAAAAATG
*
13425928 AAAGAAAAAATAAAAAATAAAAAAT
1 AAAAAAAAAATAAAAAATAAAAAAT
13425953 GGAAAAATTA
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
33 9 0.18
34 12 0.24
35 29 0.58
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17
Consensus pattern (34 bp):
AAAAAAAAAATAAAAAATAAAAAATAAAAAAATG
Found at i:13425935 original size:26 final size:25
Alignment explanation
Indices: 13425912--13425968 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 25
13425902 ATATAAAATA
* *
13425912 TAAAATATAAAATATGAAAGAAAAAA
1 TAAAATATAAAAAATGAAA-AAAATA
* * *
13425938 TAAAAAATAAAAAATGGAAAAATTA
1 TAAAATATAAAAAATGAAAAAAATA
13425963 TAAAAT
1 TAAAAT
13425969 GAGAGAAAAG
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
25 9 0.36
26 16 0.64
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (25 bp):
TAAAATATAAAAAATGAAAAAAATA
Found at i:13427512 original size:43 final size:43
Alignment explanation
Indices: 13427406--13427834 Score: 316
Period size: 43 Copynumber: 10.0 Consensus size: 43
13427396 TGTCGATGAA
* * * *
13427406 CTTTATTTATTTTTCAAAATTATTGAGCCTCTATTTGAAGTG-T
1 CTTTATTTAGTTTTCAAAATTGTTGAGCCTCTATTTAAAG-GAG
* *
13427449 CTTT-TTT--TTTTCAAAGTTGTTGAGCCTCTGTTTAAAGGAG
1 CTTTATTTAGTTTTCAAAATTGTTGAGCCTCTATTTAAAGGAG
* *
13427489 CTTTATTTAGTTTTCAAAATTGTTAAGCCTCTATTTAGAA-TAG
1 CTTTATTTAGTTTTCAAAATTGTTGAGCCTCTATTTA-AAGGAG
* * * ** * * *
13427532 CCTTATTTATTTTTCAAAGTCATTGAGCCTTTGTTTAGAGGAG
1 CTTTATTTAGTTTTCAAAATTGTTGAGCCTCTATTTAAAGGAG
* * * * * * *
13427575 CTTTATTTTGTTTTCAAAGTCGTTGAACGTCTATTTAGAGAAG
1 CTTTATTTAGTTTTCAAAATTGTTGAGCCTCTATTTAAAGGAG
* * * * * * * * *
13427618 CCTCATTTATTTTTCAAAAGTTATTGAGCCTTTGTTTAGAGAAA
1 CTTTATTTAGTTTTCAAAA-TTGTTGAGCCTCTATTTAAAGGAG
* * *
13427662 CCTTATTTAGTTTTCAAAAATTGTTGAGCCTCTGTTTAAAAGAG
1 CTTTATTTAGTTTTC-AAAATTGTTGAGCCTCTATTTAAAGGAG
* * * * *
13427706 CCTTATTTAGTTTTCAAAGTTGTTGAGTCT-TACTTGAAGGAG
1 CTTTATTTAGTTTTCAAAATTGTTGAGCCTCTATTTAAAGGAG
* * *
13427748 CTTTATTTA-TTCTTCAAAGTTGTTGAGCCTCTACTTAAAAGAG
1 CTTTATTTAGTT-TTCAAAATTGTTGAGCCTCTATTTAAAGGAG
* * * *
13427791 CTTTATTTA-TTTCTCAAAATTTGTGGAACCTCTGTTTAGAGGAG
1 CTTTATTTAGTTT-TCAAAA-TTGTTGAGCCTCTATTTAAAGGAG
13427835 TTTTTATATT
Statistics
Matches: 309, Mismatches: 65, Indels: 23
0.78 0.16 0.06
Matches are distributed among these distances:
39 1 0.00
40 30 0.10
41 5 0.02
42 38 0.12
43 148 0.48
44 83 0.27
45 4 0.01
ACGTcount: A:0.26, C:0.13, G:0.16, T:0.45
Consensus pattern (43 bp):
CTTTATTTAGTTTTCAAAATTGTTGAGCCTCTATTTAAAGGAG
Found at i:13427575 original size:86 final size:86
Alignment explanation
Indices: 13427406--13427834 Score: 440
Period size: 86 Copynumber: 5.0 Consensus size: 86
13427396 TGTCGATGAA
* * * * *
13427406 CTTTATTTATTTTTCAAAATTATTGAGCCTCTATTT-GAAGTGTCTT-TTT-TTTTTCAAAGTTG
1 CTTTATTTAGTTTTCAAAATTGTTGAGCCTCTATTTAGAAGAGCCTTATTTATTTTTCAAAGTTA
* *
13427468 TTGAGCCTCTGTTTAAAGGAG
66 TTGAGCCTTTGTTTAGAGGAG
* * *
13427489 CTTTATTTAGTTTTCAAAATTGTTAAGCCTCTATTTAGAATAGCCTTATTTATTTTTCAAAGTCA
1 CTTTATTTAGTTTTCAAAATTGTTGAGCCTCTATTTAGAAGAGCCTTATTTATTTTTCAAAGTTA
13427554 TTGAGCCTTTGTTTAGAGGAG
66 TTGAGCCTTTGTTTAGAGGAG
* * * * * *
13427575 CTTTATTTTGTTTTCAAAGTCGTTGAACGTCTATTTAG-AGAAGCCTCATTTATTTTTCAAAAGT
1 CTTTATTTAGTTTTCAAAATTGTTGAGCCTCTATTTAGAAG-AGCCTTATTTATTTTTC-AAAGT
* *
13427639 TATTGAGCCTTTGTTTAGAGAAA
64 TATTGAGCCTTTGTTTAGAGGAG
* * * *
13427662 CCTTATTTAGTTTTCAAAAATTGTTGAGCCTCTGTTTAAAAGAGCCTTATTTAGTTTTCAAAGTT
1 CTTTATTTAGTTTTC-AAAATTGTTGAGCCTCTATTTAGAAGAGCCTTATTTATTTTTCAAAGTT
* * ** *
13427727 GTTGAGTCTTACTTGA-AGGAG
65 ATTGAGCCTTTGTTTAGAGGAG
* * * * * *
13427748 CTTTATTTA-TTCTTCAAAGTTGTTGAGCCTCTACTTAAAAGAGCTTTATTTATTTCTCAAAATT
1 CTTTATTTAGTT-TTCAAAATTGTTGAGCCTCTATTTAGAAGAGCCTTATTTATTTTTCAAAGTT
* *
13427812 -TGTGGAACCTCTGTTTAGAGGAG
65 AT-T-GAGCCTTTGTTTAGAGGAG
13427835 TTTTTATATT
Statistics
Matches: 283, Mismatches: 52, Indels: 18
0.80 0.15 0.05
Matches are distributed among these distances:
83 33 0.12
84 8 0.03
85 49 0.17
86 99 0.35
87 60 0.21
88 32 0.11
89 2 0.01
ACGTcount: A:0.26, C:0.13, G:0.16, T:0.45
Consensus pattern (86 bp):
CTTTATTTAGTTTTCAAAATTGTTGAGCCTCTATTTAGAAGAGCCTTATTTATTTTTCAAAGTTA
TTGAGCCTTTGTTTAGAGGAG
Found at i:13427829 original size:173 final size:171
Alignment explanation
Indices: 13427406--13427831 Score: 466
Period size: 173 Copynumber: 2.5 Consensus size: 171
13427396 TGTCGATGAA
* * * *
13427406 CTTTATTTATTTTTCAAAATTATTGAGCCTCTATTTGAAGTGTCTTT-TTT-TTTTC-AAAGTTG
1 CTTTATTTATTTTTCAAAGTTGTTGAGCCTCTATTTAAAGAG-CTTTATTTATTTTCAAAAGTTG
* * * * * *
13427468 TTGAGCCTCTGTTTAAAGGAGCTTTATTTAGTTTTCAAAATTGTTAAGCCTCTATTTAGAATAGC
65 TTGAGCCTCTGTTTAGAGAAACCTTATTTAGTTTTCAAAATTGTTAAGCCTCTATTTAAAAGAGC
* ** *
13427533 CTTATTTATTTTTCAAAGTCATTGAGCCTTTGTTTAGAGGAG
130 CTTATTTAGTTTTCAAAGTCATTGAGCCTTACTTGAGAGGAG
* * * * * *
13427575 CTTTATTT-TGTTTTCAAAGTCGTTGAACGTCTATTTAGAGAAGCCTCATTTATTTTTCAAAAGT
1 CTTTATTTAT-TTTTCAAAGTTGTTGAGCCTCTATTTAAAG-AGCTTTATTTA-TTTTCAAAAGT
* * * *
13427639 TATTGAGCCTTTGTTTAGAGAAACCTTATTTAGTTTTCAAAAATTGTTGAGCCTCTGTTTAAAAG
63 TGTTGAGCCTCTGTTTAGAGAAACCTTATTTAGTTTTC-AAAATTGTTAAGCCTCTATTTAAAAG
** *
13427704 AGCCTTATTTAGTTTTCAAAGTTGTTGAGTCTTACTTGA-AGGAG
127 AGCCTTATTTAGTTTTCAAAGTCATTGAGCCTTACTTGAGAGGAG
* * *
13427748 CTTTATTTATTCTTCAAAGTTGTTGAGCCTCTACTTAAAAGAGCTTTATTTATTTCTCAAAATTT
1 CTTTATTTATTTTTCAAAGTTGTTGAGCCTCTA-TTTAAAGAGCTTTATTTATTT-TCAAAAGTT
* *
13427813 GTGGAACCTCTGTTTAGAG
64 GTTGAGCCTCTGTTTAGAG
13427832 GAGTTTTTAT
Statistics
Matches: 207, Mismatches: 40, Indels: 16
0.79 0.15 0.06
Matches are distributed among these distances:
168 1 0.00
169 33 0.16
170 4 0.02
172 8 0.04
173 101 0.49
174 60 0.29
ACGTcount: A:0.26, C:0.13, G:0.16, T:0.45
Consensus pattern (171 bp):
CTTTATTTATTTTTCAAAGTTGTTGAGCCTCTATTTAAAGAGCTTTATTTATTTTCAAAAGTTGT
TGAGCCTCTGTTTAGAGAAACCTTATTTAGTTTTCAAAATTGTTAAGCCTCTATTTAAAAGAGCC
TTATTTAGTTTTCAAAGTCATTGAGCCTTACTTGAGAGGAG
Found at i:13428191 original size:12 final size:12
Alignment explanation
Indices: 13428174--13428206 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
13428164 CTCACATCAA
*
13428174 ACATAGAAATAC
1 ACATAGAAAAAC
13428186 ACATAGAAAAAC
1 ACATAGAAAAAC
13428198 ACATAGAAA
1 ACATAGAAA
13428207 GAGGAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.64, C:0.15, G:0.09, T:0.12
Consensus pattern (12 bp):
ACATAGAAAAAC
Found at i:13431845 original size:2 final size:2
Alignment explanation
Indices: 13431838--13431865 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
13431828 TTTCTCCTAC
13431838 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13431866 CAGCCGTGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13442411 original size:34 final size:33
Alignment explanation
Indices: 13442355--13442428 Score: 87
Period size: 34 Copynumber: 2.2 Consensus size: 33
13442345 TTTTTTGTAC
*
13442355 AAAAATATATTAAAATATAAATAAAGAGATGAAA
1 AAAAATATATTAAAATATAAATAAAAAGAT-AAA
* *
13442389 AAAAATCATTTTAAGATA-AAATAAAAAGATAAA
1 AAAAAT-ATATTAAAATATAAATAAAAAGATAAA
13442422 AACAAAT
1 AA-AAAT
13442429 GAGCTTGGGT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
33 5 0.14
34 21 0.60
35 9 0.26
ACGTcount: A:0.68, C:0.03, G:0.07, T:0.23
Consensus pattern (33 bp):
AAAAATATATTAAAATATAAATAAAAAGATAAA
Found at i:13444254 original size:2 final size:2
Alignment explanation
Indices: 13444247--13444274 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
13444237 TTTTTAACAT
13444247 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
13444275 CAAAAGTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13444643 original size:15 final size:15
Alignment explanation
Indices: 13444623--13444652 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13444613 TGGTTCTCTT
*
13444623 TTTATTTTATTTTTA
1 TTTATTTCATTTTTA
13444638 TTTATTTCATTTTTA
1 TTTATTTCATTTTTA
13444653 AAAAAAAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTATTTCATTTTTA
Found at i:13445333 original size:23 final size:23
Alignment explanation
Indices: 13445289--13445333 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
13445279 TAAGGGAAGA
* *
13445289 GAGAGAAAAACAAAATGCAAAAT
1 GAGAGAAAAAAAAAAAGCAAAAT
*
13445312 GAGAGAAAAAAAAAAAGGAAAA
1 GAGAGAAAAAAAAAAAGCAAAA
13445334 AAGAAAAAGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.71, C:0.04, G:0.20, T:0.04
Consensus pattern (23 bp):
GAGAGAAAAAAAAAAAGCAAAAT
Found at i:13449705 original size:40 final size:38
Alignment explanation
Indices: 13449617--13449745 Score: 102
Period size: 38 Copynumber: 3.4 Consensus size: 38
13449607 GAAAATATTC
*
13449617 CAAGATAAGA-TTTGAATTCTCGAATAAGGAAACTTTT
1 CAAGATAAGATTTTGAATCCTCGAATAAGGAAACTTTT
* * * * *
13449654 CAAAATGAGATTTTTACTCCTCGAATGAGGAAACCTTTTT
1 CAAGATAAGATTTTGAATCCTCGAATAAGGAAA-C-TTTT
* ** *
13449694 CAAGATAAGA-TTTGAATGCTTAAATGAGGAAAACTTTT
1 CAAGATAAGATTTTGAATCCTCGAATAAGG-AAACTTTT
*
13449732 -AAGATTAGACTTTT
1 CAAGATAAGA-TTTT
13449746 ACTCCTTAAA
Statistics
Matches: 72, Mismatches: 14, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
37 16 0.22
38 22 0.31
39 19 0.26
40 15 0.21
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (38 bp):
CAAGATAAGATTTTGAATCCTCGAATAAGGAAACTTTT
Found at i:13450014 original size:22 final size:22
Alignment explanation
Indices: 13449986--13450038 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
13449976 AATTATTTGT
13449986 AAGACTTTCAAGCAAAATCTAA
1 AAGACTTTCAAGCAAAATCTAA
13450008 AAGACTTTCAAGCAAAATCTAA
1 AAGACTTTCAAGCAAAATCTAA
13450030 AAGACTTTC
1 AAGACTTTC
13450039 GAGTACCTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.47, C:0.19, G:0.09, T:0.25
Consensus pattern (22 bp):
AAGACTTTCAAGCAAAATCTAA
Found at i:13450569 original size:23 final size:23
Alignment explanation
Indices: 13450543--13450653 Score: 97
Period size: 21 Copynumber: 5.0 Consensus size: 23
13450533 GTTTTGGATG
13450543 TGAATCTTTAAAATTTTCAAATA
1 TGAATCTTTAAAATTTTCAAATA
*
13450566 TGAATCTTT-GAATTTT-AAATA
1 TGAATCTTTAAAATTTTCAAATA
* ** *
13450587 TGCAT-TTATACAGTTTTTCAAATG
1 TGAATCTT-TA-AAATTTTCAAATA
**
13450611 TGAA-CTTT-TGATTTTCAAATA
1 TGAATCTTTAAAATTTTCAAATA
*
13450632 TGAATCTTTAAAATTTTTAAAT
1 TGAATCTTTAAAATTTTCAAAT
13450654 GCAAATCTTT
Statistics
Matches: 68, Mismatches: 13, Indels: 14
0.72 0.14 0.15
Matches are distributed among these distances:
20 2 0.03
21 24 0.35
22 10 0.15
23 23 0.34
24 9 0.13
ACGTcount: A:0.37, C:0.08, G:0.08, T:0.47
Consensus pattern (23 bp):
TGAATCTTTAAAATTTTCAAATA
Found at i:13450587 original size:21 final size:21
Alignment explanation
Indices: 13450543--13450742 Score: 70
Period size: 21 Copynumber: 8.8 Consensus size: 21
13450533 GTTTTGGATG
*
13450543 TGAATCTTTAAAATTTTCAAATA
1 TGAATCTTT-GAATTTT-AAATA
13450566 TGAATCTTTGAATTTTAAATA
1 TGAATCTTTGAATTTTAAATA
* *
13450587 TGCAT-TTAT-ACAGTTTTTCAAATG
1 TGAATCTT-TGA-A--TTTT-AAATA
13450611 TGAA-CTTTTG-ATTTTCAAATA
1 TGAATC-TTTGAATTTT-AAATA
* *
13450632 TGAATCTTTAAAATTTTTAA-A
1 TGAATCTTT-GAATTTTAAATA
13450653 TGCAAATCTTTGAATTTTGGAGGTAA-A
1 TG--AATCTTTGAATTTT--A---AATA
* *
13450680 TTGAATATTTGAATTTTAGATA
1 -TGAATCTTTGAATTTTAAATA
* * *
13450702 TGAATCTTTAAAATTTCTTCAATG
1 TGAATCTTT-GAA-TT-TTAAATA
*
13450726 TGAATCTTGGAATTTTA
1 TGAATCTTTGAATTTTA
13450743 GTTGCAAATT
Statistics
Matches: 135, Mismatches: 19, Indels: 48
0.67 0.09 0.24
Matches are distributed among these distances:
20 3 0.02
21 41 0.30
22 20 0.15
23 30 0.22
24 21 0.16
25 2 0.01
26 13 0.10
27 3 0.02
28 2 0.01
ACGTcount: A:0.35, C:0.07, G:0.12, T:0.46
Consensus pattern (21 bp):
TGAATCTTTGAATTTTAAATA
Found at i:13450649 original size:45 final size:45
Alignment explanation
Indices: 13450543--13450670 Score: 140
Period size: 45 Copynumber: 2.9 Consensus size: 45
13450533 GTTTTGGATG
*
13450543 TGAATCTTTAAAA-TTTTCAAATATGAATCTTTGAATTTTAAATA
1 TGAATCTTTAAAATTTTTCAAATGTGAATCTTTGAATTTTAAATA
* * *
13450587 TGCAT-TTATACAGTTTTTCAAATGTGAA-CTTTTG-ATTTTCAAATA
1 TGAATCTT-TAAAATTTTTCAAATGTGAATC-TTTGAATTTT-AAATA
**
13450632 TGAATCTTTAAAATTTTT-AAATGCAAATCTTTGAATTTT
1 TGAATCTTTAAAATTTTTCAAATGTGAATCTTTGAATTTT
13450671 GGAGGTAAAT
Statistics
Matches: 68, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
43 2 0.03
44 24 0.35
45 40 0.59
46 2 0.03
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.47
Consensus pattern (45 bp):
TGAATCTTTAAAATTTTTCAAATGTGAATCTTTGAATTTTAAATA
Found at i:13451044 original size:21 final size:22
Alignment explanation
Indices: 13451005--13451045 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
13450995 TCTTGTGCAC
13451005 CTTTAAACTCTTATGAATCTGT
1 CTTTAAACTCTTATGAATCTGT
*
13451027 CTTTAAACT-TTGTGAATCT
1 CTTTAAACTCTTATGAATCT
13451046 TTGAAGTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.27, C:0.17, G:0.10, T:0.46
Consensus pattern (22 bp):
CTTTAAACTCTTATGAATCTGT
Found at i:13451152 original size:22 final size:22
Alignment explanation
Indices: 13451127--13451211 Score: 52
Period size: 22 Copynumber: 4.0 Consensus size: 22
13451117 GAATTTTAAA
13451127 TTGAAAATCTTTGAATTTCATG
1 TTGAAAATCTTTGAATTTCATG
* *
13451149 TTGAGAAT-TTTTAGA-TTC--G
1 TTGAAAATCTTTGA-ATTTCATG
* ** **
13451168 ATTGCAAATCTTTGAGCTTCAAA
1 -TTGAAAATCTTTGAATTTCATG
*
13451191 TTGAGAATCTTTGAATTTCAT
1 TTGAAAATCTTTGAATTTCAT
13451212 ATCGAGAAAT
Statistics
Matches: 45, Mismatches: 12, Indels: 12
0.65 0.17 0.17
Matches are distributed among these distances:
19 1 0.02
20 6 0.13
21 14 0.31
22 24 0.53
ACGTcount: A:0.31, C:0.11, G:0.15, T:0.44
Consensus pattern (22 bp):
TTGAAAATCTTTGAATTTCATG
Found at i:13451192 original size:64 final size:64
Alignment explanation
Indices: 13451124--13451244 Score: 170
Period size: 64 Copynumber: 1.9 Consensus size: 64
13451114 TTTGAATTTT
* * * * * * *
13451124 AAATTGAAAATCTTTGAATTTCATGTTGAGAATTTTTAGATTCGATTGCAAATCTTTGAGCTTC
1 AAATTGAAAATCTTTGAATTTCATATCGAGAAATTTTAAAGTCAATTACAAATCTTTGAGCTTC
*
13451188 AAATTGAGAATCTTTGAATTTCATATCGAGAAATTTTAAAGTCAATTACAAATCTTT
1 AAATTGAAAATCTTTGAATTTCATATCGAGAAATTTTAAAGTCAATTACAAATCTTT
13451245 AAATTTCAAT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
64 49 1.00
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (64 bp):
AAATTGAAAATCTTTGAATTTCATATCGAGAAATTTTAAAGTCAATTACAAATCTTTGAGCTTC
Found at i:13451218 original size:22 final size:22
Alignment explanation
Indices: 13451174--13451219 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
13451164 TTCGATTGCA
* *
13451174 AATCTTTGAGCTTCAAATTGAG
1 AATCTTTGAACTTCAAATCGAG
* *
13451196 AATCTTTGAATTTCATATCGAG
1 AATCTTTGAACTTCAAATCGAG
13451218 AA
1 AA
13451220 ATTTTAAAGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (22 bp):
AATCTTTGAACTTCAAATCGAG
Found at i:13451253 original size:64 final size:64
Alignment explanation
Indices: 13451118--13451253 Score: 164
Period size: 64 Copynumber: 2.1 Consensus size: 64
13451108 TGTGTTTTTG
* * * * * * * * *
13451118 AATTTTAAATTGAAAATCTTTGAATTTCATGTTGAGAATTTTTAGATTCGATTGCAAATCTTTG
1 AATTTCAAATTGAAAATCTTTGAATTTCATATCGAGAAATTTTAAAGTCAATTACAAATCTTTA
** *
13451182 AGCTTCAAATTGAGAATCTTTGAATTTCATATCGAGAAATTTTAAAGTCAATTACAAATCTTTA
1 AATTTCAAATTGAAAATCTTTGAATTTCATATCGAGAAATTTTAAAGTCAATTACAAATCTTTA
13451246 AATTTCAA
1 AATTTCAA
13451254 TTACGAAATT
Statistics
Matches: 58, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
64 58 1.00
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.41
Consensus pattern (64 bp):
AATTTCAAATTGAAAATCTTTGAATTTCATATCGAGAAATTTTAAAGTCAATTACAAATCTTTA
Found at i:13451270 original size:21 final size:21
Alignment explanation
Indices: 13451229--13451273 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
13451219 AATTTTAAAG
*
13451229 TCAATTACAAATCTTTAAATT
1 TCAATTACAAATCTTCAAATT
*
13451250 TCAATTACGAAAT-TTCGAATT
1 TCAATTAC-AAATCTTCAAATT
13451271 TCA
1 TCA
13451274 GTTGCGACCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.40, C:0.16, G:0.04, T:0.40
Consensus pattern (21 bp):
TCAATTACAAATCTTCAAATT
Found at i:13457596 original size:2 final size:2
Alignment explanation
Indices: 13457589--13457613 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13457579 TGTCTCCCTT
13457589 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
13457614 TGCTCACACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:13463853 original size:9 final size:9
Alignment explanation
Indices: 13463841--13463879 Score: 51
Period size: 9 Copynumber: 4.0 Consensus size: 9
13463831 AAAAACAAAG
13463841 AAGAAAAAT
1 AAGAAAAAT
13463850 AAGAAAAATT
1 AAGAAAAA-T
13463860 ATGAGAAAAAT
1 A--AGAAAAAT
13463871 AAGAAAAAT
1 AAGAAAAAT
13463880 TATTTTTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 16 0.59
10 2 0.07
11 2 0.07
12 7 0.26
ACGTcount: A:0.72, C:0.00, G:0.13, T:0.15
Consensus pattern (9 bp):
AAGAAAAAT
Found at i:13463866 original size:21 final size:21
Alignment explanation
Indices: 13463842--13463882 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
13463832 AAAACAAAGA
13463842 AGAAAAATAAGAAAAATTATG
1 AGAAAAATAAGAAAAATTATG
13463863 AGAAAAATAAGAAAAATTAT
1 AGAAAAATAAGAAAAATTAT
13463883 TTTTTATTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.12, T:0.20
Consensus pattern (21 bp):
AGAAAAATAAGAAAAATTATG
Found at i:13464616 original size:20 final size:22
Alignment explanation
Indices: 13464582--13464628 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
13464572 TGATAAAATA
13464582 TGGTT-ATTTTATAAAATT-TT
1 TGGTTGATTTTATAAAATTGTT
*
13464602 TGGTTGATTTT-TAAAGTTGTT
1 TGGTTGATTTTATAAAATTGTT
13464623 TGGTTG
1 TGGTTG
13464629 GGTTTAATGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.57
Consensus pattern (22 bp):
TGGTTGATTTTATAAAATTGTT
Found at i:13464900 original size:20 final size:20
Alignment explanation
Indices: 13464877--13464926 Score: 82
Period size: 21 Copynumber: 2.5 Consensus size: 20
13464867 AACCCCAAAA
13464877 CCCAAAATCAAACCCTAATC
1 CCCAAAATCAAACCCTAATC
*
13464897 CCCAAATTTCAAACCCTAATC
1 CCCAAA-ATCAAACCCTAATC
13464918 CCCAAAATC
1 CCCAAAATC
13464927 TTAAATCCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 8 0.30
21 19 0.70
ACGTcount: A:0.42, C:0.40, G:0.00, T:0.18
Consensus pattern (20 bp):
CCCAAAATCAAACCCTAATC
Found at i:13464940 original size:14 final size:14
Alignment explanation
Indices: 13464941--13464987 Score: 76
Period size: 14 Copynumber: 3.4 Consensus size: 14
13464931 ATCCTAAATC
13464941 AAACCCTAAACCTT
1 AAACCCTAAACCTT
13464955 AAACCCTAAACCTT
1 AAACCCTAAACCTT
* *
13464969 ATATCCTAAACCTT
1 AAACCCTAAACCTT
13464983 AAACC
1 AAACC
13464988 ACTTTCTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.43, C:0.34, G:0.00, T:0.23
Consensus pattern (14 bp):
AAACCCTAAACCTT
Found at i:13464985 original size:7 final size:7
Alignment explanation
Indices: 13464941--13464987 Score: 51
Period size: 7 Copynumber: 6.7 Consensus size: 7
13464931 ATCCTAAATC
*
13464941 AAACCCT
1 AAACCTT
13464948 AAACCTT
1 AAACCTT
*
13464955 AAACCCT
1 AAACCTT
13464962 AAACCTT
1 AAACCTT
*
13464969 ATATCC-T
1 A-AACCTT
13464976 AAACCTT
1 AAACCTT
13464983 AAACC
1 AAACC
13464988 ACTTTCTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
6 3 0.09
7 27 0.82
8 3 0.09
ACGTcount: A:0.43, C:0.34, G:0.00, T:0.23
Consensus pattern (7 bp):
AAACCTT
Found at i:13465866 original size:37 final size:36
Alignment explanation
Indices: 13465799--13465871 Score: 85
Period size: 37 Copynumber: 2.0 Consensus size: 36
13465789 ACCCAAACTG
*
13465799 AATAATATAAATATAATTATATTATTATATTATATA
1 AATAATATAAATAAAATTATATTATTATATTATATA
* * *
13465835 AATACATATATATAAAATTTTATT-TTAATATTTTATA
1 AATA-ATATAAATAAAATTATATTATT-ATATTATATA
13465872 TTTAAAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
36 6 0.19
37 25 0.81
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (36 bp):
AATAATATAAATAAAATTATATTATTATATTATATA
Found at i:13468556 original size:18 final size:17
Alignment explanation
Indices: 13468520--13468551 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
13468510 TATTTATGTA
13468520 ATTTTTTATAAATATAT
1 ATTTTTTATAAATATAT
13468537 ATTTTTT-TAAATATA
1 ATTTTTTATAAATATA
13468552 AATATATTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTTTATAAATATAT
Found at i:13470301 original size:8 final size:8
Alignment explanation
Indices: 13470277--13470313 Score: 56
Period size: 8 Copynumber: 4.5 Consensus size: 8
13470267 ACAAGTAATG
*
13470277 ATATTTAA
1 ATATATAA
13470285 ATATAATAA
1 ATAT-ATAA
13470294 ATATATAA
1 ATATATAA
13470302 ATATATAA
1 ATATATAA
13470310 ATAT
1 ATAT
13470314 CAATTTAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
8 20 0.74
9 7 0.26
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
ATATATAA
Found at i:13470302 original size:17 final size:16
Alignment explanation
Indices: 13470277--13470313 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
13470267 ACAAGTAATG
*
13470277 ATATTTAAATATAATAA
1 ATATATAAATAT-ATAA
13470294 ATATATAAATATATAA
1 ATATATAAATATATAA
13470310 ATAT
1 ATAT
13470314 CAATTTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
ATATATAAATATATAA
Found at i:13475903 original size:12 final size:12
Alignment explanation
Indices: 13475886--13475912 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
13475876 CATCACCTTC
13475886 TATTATCTAATA
1 TATTATCTAATA
13475898 TATTATCTAATA
1 TATTATCTAATA
13475910 TAT
1 TAT
13475913 AACGTAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (12 bp):
TATTATCTAATA
Found at i:13478135 original size:87 final size:87
Alignment explanation
Indices: 13477989--13478159 Score: 279
Period size: 87 Copynumber: 2.0 Consensus size: 87
13477979 TTTCACCAAA
* *
13477989 CTCAATCTCCTATATAAAAAGCACTATTATTGTTAAACACACATCAACCATAACTTATTTATGCG
1 CTCAATCTCCTATATAAAAAACACTATTATTGTTAAACACACATCAACCATAACTTATTTATGCA
**
13478054 TATCAAGTGTGGCAATAATTAT
66 TATCAAGCATGGCAATAATTAT
* * *
13478076 CTCAATTTCTTATATAAAAAATACTATTATTGTTAAACACACATCAACCATAACTTATTTATGCA
1 CTCAATCTCCTATATAAAAAACACTATTATTGTTAAACACACATCAACCATAACTTATTTATGCA
13478141 TATCAAGCATGGCAATAAT
66 TATCAAGCATGGCAATAAT
13478160 GTTTGGACAC
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 77 1.00
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.34
Consensus pattern (87 bp):
CTCAATCTCCTATATAAAAAACACTATTATTGTTAAACACACATCAACCATAACTTATTTATGCA
TATCAAGCATGGCAATAATTAT
Found at i:13478403 original size:162 final size:159
Alignment explanation
Indices: 13478173--13480121 Score: 949
Period size: 162 Copynumber: 12.0 Consensus size: 159
13478163 TGGACACACG
* * * *
13478173 TAATATCATGTAATAAGAGCTATCTAAACTGTTAAAACAGAACA-ATAA-TTGT-AAATTTATAT
1 TAATATCATGTATTGA-AGCTATCTAAACTGTTAAAACATAA-ATATAACTT-TAAAATTAATA-
* * * * *
13478235 TTTTACCTTTTAACGTTACAACAAGTCATAAACAA-ACATAAATATTAATTTATTCATACATATC
62 TTTTGCCTTTTAACGTAACAAAAAGTCATAAA-AAGACATAAATAGTAATTT-TTCACACATATC
13478299 AAATCATGAAAATCAAGTTCAATCATTCTGACAAGTT
125 -AATCATGAAAATCAAGTTCAATCATT-TGACAAGTT
* * * * * *
13478336 TAATGTCATGTATTTAAGTTACCTAAACTGTTAAAATATAAATATAACTTTAAAATTAAAATTTT
1 TAATATCATGTATTGAAGCTATCTAAACTGTTAAAACATAAATATAACTTTAAAATTAATATTTT
* ** * * **
13478401 ACC-TTTAGTGGTATA-ATAAAGTC-TGAAAAAGATATAAACGGTACATTTTTCACACATATCAA
66 GCCTTTTA-ACGTA-ACAAAAAGTCAT-AAAAAGACATAAATAGTA-ATTTTTCACACATATCAA
** * * **
13478463 TTGTGAAAATTAAGTTCAATAATTTAGATGAGTT
127 TCATGAAAATCAAGTTCAATCATTT-GACAAGTT
* * * * * * *
13478497 TAATATTATGTGTTGAAGCTATCTAAATTG-TAAAAGCATAAAAATAACTATAAAATTACTTTTT
1 TAATATCATGTATTGAAGCTATCTAAACTGTTAAAA-CATAAATATAACTTTAAAATTAATATTT
* ** * *
13478561 TGCCCTTTAACAGCATAAC-AAAA-TCCCAAAAACACATAAAT-GATAATATTTTTACACATATC
65 TGCCTTTTAAC-G--TAACAAAAAGTCATAAAAAGACATAAATAG-TAAT-TTTTCACACATATC
*
13478623 AATCATGAAAATCAAGTTCAATTATTTGGACAAGTT
125 AATCATGAAAATCAAGTTCAATCATTT-GACAAGTT
*
13478659 TAATATCATGTATTGAAGCTATCTAAAACTGTTAAAACAT-AATAATAA--ATACAAATCT-ATA
1 TAATATCATGTATTGAAGCTATCT-AAACTGTTAAAACATAAAT-ATAACTTTA-AAAT-TAATA
13478720 TTTTGGCCTTTTAACGACATAA-AAAGAAGT-ACTAAACAA-ACATAAATAGTAACTTTTTCACA
62 TTTT-GCCTTTTAACG---TAACAAA-AAGTCA-TAAA-AAGACATAAATAGTAA-TTTTTCACA
* * * *
13478782 CCTATCAATCATGAAAATCAAGTACAATCATTTGAAAAAATT
119 CATATCAATCATGAAAATCAAGTTCAATCATTTG-ACAAGTT
* * * * * *
13478824 TAATAAT-ATGTATTTAAGCTATCTAAACTATT--AA-ATATATATAA-ATAAAAATTTATATTT
1 TAAT-ATCATGTATTGAAGCTATCTAAACTGTTAAAACATAAATATAACTTTAAAATTAATATTT
* * * * * * *
13478884 ATGCCCTTTAACG--ACGTAACAAAGTCCTAAAAAGAC-TATATGGTAACATTTTCATATATATC
65 -TGCCTTTTAACGTAAC--AA-AAAGTCATAAAAAGACATAAATAGTAA-TTTTTCACACATATC
**
13478946 AA-CTATGAAAATCAAGTTCAATCATTCAAACAAGTT
125 AATC-ATGAAAATCAAGTTCAATCATT-TGACAAGTT
* * * * *
13478982 TAATATCATTTATTGAAGCTATCTAAATTGTTAAAACA-GAATAATAAAC---AGAAATTTACAT
1 TAATATCATGTATTGAAGCTATCTAAACTGTTAAAACATAAAT-AT-AACTTTA-AAATTAATAT
* ** ** * * *
13479043 TTTGGCCTTTTAATGGCACAAAAAAGTGTTAAACAA-ATATAAACAATAATATTTTCACACATAT
63 TTT-GCCTTTTAACGTAAC-AAAAAGTCATAAA-AAGACATAAATAGTAAT-TTTTCACACATAT
** *
13479107 CAATCATGAAAATCAAGTTCAATCATTCAAAAAAGTT
124 CAATCATGAAAATCAAGTTCAATCATT-TGACAAGTT
* * * ** *
13479144 TAATATCATGTATTTAAGCTATCTAAATTATTAAAACATAAATATAAC-TGCAAATTTATATTTT
1 TAATATCATGTATTGAAGCTATCTAAACTGTTAAAACATAAATATAACTTTAAAATTAATA-TTT
* * * * *
13479208 TGCCCTTTAAC--AACGTGACAAAGTCCTAAAAAGACATACA-AGATAACATTTTCACACATATC
65 TGCCTTTTAACGTAAC---AAAAAGTCATAAAAAGACATAAATAG-TAA-TTTTTCACACATATC
*
13479270 AA-CTGTGAAAA-CTAAGTTCAATCATTTGAACAAGTT
125 AATC-ATGAAAATC-AAGTTCAATCATTTG-ACAAGTT
* * * * * * * *
13479306 TAATATCATGTATTGAAGTTATCAAAATTGTTAAAACA-GAATAATAAAC-ATAAATTTGCA-CT
1 TAATATCATGTATTGAAGCTATCTAAACTGTTAAAACATAAAT-AT-AACTTTAAAATT-AATAT
** * * * * * *
13479368 TAGGCCTTTTAATGGCATA-AAAAAGTGC-TAAATAGACAGAAATTGTAACTTTTTTACACATAT
63 TTTGCCTTTTAA-CGTA-ACAAAAAGT-CATAAAAAGACATAAATAGTAA-TTTTTCACACATAT
* * * ** * *
13479431 CAATTATAAAAATCATGTTCAATCATTCAAAAAAATT
124 CAATCATGAAAATCAAGTTCAATCATT-TGACAAGTT
* * * * * *
13479468 TAATATCATATATTTAAGCTATCTAAATTGTTAAAACATAAATATAACTGTAACATGACAT-TTT
1 TAATATCATGTATTGAAGCTATCTAAACTGTTAAAACATAAATATAACTTTAAAATTA-ATATTT
* * * * **
13479532 TGCCCTTTAACGGCATAAC-AAAA-CCCTAAAAAGACATAAATGGTAATTTTTTTGCACATATCA
65 TGCCTTTTAAC-G--TAACAAAAAGTCATAAAAAGACATAAATAGTAA-TTTTTCACACATATCA
* * * * *
13479595 ATCATGACAATTAAATTCAATTATTCGGACAAGTT
126 ATCATGAAAATCAAGTTCAATCATT-TGACAAGTT
* * ** * * * * ***
13479630 TAATATTATGTATTAAAATTATCTAAATTATT-AAA-ATAGAATAATAAATGT-AAATTTGCATT
1 TAATATCATGTATTGAAGCTATCTAAACTGTTAAAACATA-AAT-ATAACTTTAAAATTAATATT
* * * *
13479692 TTGACCCTTTAACAGTATA-AAAAA-TCCTAAATAGATATAAA-ATGATAACTTTTTTCACACAT
64 TTG-CCTTTTAAC-GTA-ACAAAAAGTCATAAAAAGACATAAATA-G-TAA--TTTTTCACACAT
* * * **
13479754 ATCAA-CTGTGCAAATTAAGTTCAATCATTCAAACAAGTT
122 ATCAATC-ATGAAAATCAAGTTCAATCATT-TGACAAGTT
* * * *** * **** *
13479793 TAATATTATTTATTGAAGCTATCTAAACTATTAAAATGGAAAAATAAAAGCAAAATT-ACATTTT
1 TAATATCATGTATTGAAGCTATCTAAACTGTTAAAACATAAATATAACTTTAAAATTAATATTTT
* * * * ** * *
13479857 GACGTTTTAATG-ACATAAAAAGTGC-TAAATAGATGTAAACAATAACTTTTTCACAC--ATCAA
66 G-CCTTTTAACGTA-ACAAAAAGT-CATAAAAAGACATAAATAGTAA-TTTTTCACACATATCAA
*
13479918 TCATGAAAAACCAAGTTCAATCATTTAGACAAGTT
127 TCATG-AAAATCAAGTTCAATCATTT-GACAAGTT
** * * * **
13479953 TAATATCATGCGTTTAAGCTATCTAAATTGTTAAAATATAAATATAACTACAAAATTAA-ATTTT
1 TAATATCATGTATTGAAGCTATCTAAACTGTTAAAACATAAATATAACTTTAAAATTAATA-TTT
* * * * * *
13480017 TGCCCTTTAACAGCATAA-ATAAATTCTTAAAAAGATATAAATAGTAACTTTTTCATACATATCA
65 TGCCTTTTAAC-G--TAACAAAAAGTCATAAAAAGACATAAATAGTAA-TTTTTCACACATATCA
* * *
13480081 ACCATGAAAACCAAGTTCAATCATTCGAGCAAGTT
126 ATCATGAAAATCAAGTTCAATCATTTGA-CAAGTT
13480116 TAATAT
1 TAATAT
13480122 AATATATTCA
Statistics
Matches: 1396, Mismatches: 266, Indels: 248
0.73 0.14 0.13
Matches are distributed among these distances:
156 1 0.00
157 3 0.00
158 75 0.05
159 19 0.01
160 96 0.07
161 218 0.16
162 635 0.45
163 222 0.16
164 41 0.03
165 79 0.06
166 7 0.01
ACGTcount: A:0.44, C:0.13, G:0.09, T:0.34
Consensus pattern (159 bp):
TAATATCATGTATTGAAGCTATCTAAACTGTTAAAACATAAATATAACTTTAAAATTAATATTTT
GCCTTTTAACGTAACAAAAAGTCATAAAAAGACATAAATAGTAATTTTTCACACATATCAATCAT
GAAAATCAAGTTCAATCATTTGACAAGTT
Found at i:13479351 original size:324 final size:324
Alignment explanation
Indices: 13478446--13480121 Score: 1459
Period size: 324 Copynumber: 5.2 Consensus size: 324
13478436 AAACGGTACA
** * * * * ** * *
13478446 TTTTTCACACATATCAATTGTGAAAATTAAGTTCAATAATTTAGATGAGTTTAATATTATGTGTT
1 TTTTTCACACATATCAATCATGAAAATCAAGTTCAATCATTCAAAAAAGTTTAATATCATGTATT
* * * * *
13478511 GAAGCTATCTAAATT-GTAAAAGCATAAAAATAACTATAAAATTACT-TTTTTGCCCTTTAACAG
66 TAAGCTATCTAAATTATTAAAA-CATAAATATAACTATAAATTTA-TATTTTTGCCCTTTAACAA
* * * *
13478574 CATAACAAAATCCCAAAAACACATAAATGATAATATTTTTACACATATCAATCATGAAAATCAAG
129 CATAACAAAATCCTAAAAAGACATAAATGATAACATTTTCACACATATCAATCATGAAAATCAAG
* * * * *
13478639 TTCAATTATTTGGACAAGTTTAATATCATGTATTGAAGCTATCTAAAACTGTTAAAACATAATAA
194 TTCAATCATTCGAACAAGTTTAATATCATGTATTGAAGCTATC-AAAATTGTTAAAACAGAATAA
* * * * * * *
13478704 TAAATACAAATCTATATTTTGGCCTTTTAACGACATAAAAAGAAGTACTAAACAAACATAAATAG
258 TAAACAGAAATTTACATTTTGGCCTTTTAACGGCAT-AAAA-AAGTGCTAAACAAACATAAATAA
13478769 TAAC
321 TAAC
* * *
13478773 TTTTTCACACCTATCAATCATGAAAATCAAGTACAATCATTTGAAAAAA-TTTAATAAT-ATGTA
1 TTTTTCACACATATCAATCATGAAAATCAAGTTCAATCA-TTCAAAAAAGTTTAAT-ATCATGTA
* * * * * *
13478836 TTTAAGCTATCTAAACTATT--AA-ATATATATAAATAAAAATTTATATTTATGCCCTTTAACGA
64 TTTAAGCTATCTAAATTATTAAAACATAAATATAACTATAAATTTATATTTTTGCCCTTTAACAA
* * * * * *
13478898 CGTAACAAAGTCCTAAAAAGAC-TATATGGTAACATTTTCATATATATCAA-CTATGAAAATCAA
129 CATAACAAAATCCTAAAAAGACATAAATGATAACATTTTCACACATATCAATC-ATGAAAATCAA
* * *
13478961 GTTCAATCATTCAAACAAGTTTAATATCATTTATTGAAGCTATCTAAATTGTTAAAACAGAATAA
193 GTTCAATCATTCGAACAAGTTTAATATCATGTATTGAAGCTATCAAAATTGTTAAAACAGAATAA
* * * * *
13479026 TAAACAGAAATTTACATTTTGGCCTTTTAATGGCACAAAAAAGTGTTAAACAAATATAAACAATA
258 TAAACAGAAATTTACATTTTGGCCTTTTAACGGCATAAAAAAGTGCTAAACAAACATAAATAATA
13479091 A-
323 AC
13479092 TATTTTCACACATATCAATCATGAAAATCAAGTTCAATCATTCAAAAAAGTTTAATATCATGTAT
1 T-TTTTCACACATATCAATCATGAAAATCAAGTTCAATCATTCAAAAAAGTTTAATATCATGTAT
**
13479157 TTAAGCTATCTAAATTATTAAAACATAAATATAACTGCAAATTTATATTTTTGCCCTTTAACAAC
65 TTAAGCTATCTAAATTATTAAAACATAAATATAACTATAAATTTATATTTTTGCCCTTTAACAAC
* * * *
13479222 GTGACAAAGTCCTAAAAAGACATACAA-GATAACATTTTCACACATATCAA-CTGTGAAAA-CTA
130 ATAACAAAATCCTAAAAAGACATA-AATGATAACATTTTCACACATATCAATC-ATGAAAATC-A
* *
13479284 AGTTCAATCATTTGAACAAGTTTAATATCATGTATTGAAGTTATCAAAATTGTTAAAACAGAATA
192 AGTTCAATCATTCGAACAAGTTTAATATCATGTATTGAAGCTATCAAAATTGTTAAAACAGAATA
* * * * * * * * **
13479349 ATAAACATAAATTTGCACTTAGGCCTTTTAATGGCATAAAAAAGTGCTAAATAGACAGAAATTGT
257 ATAAACAGAAATTTACATTTTGGCCTTTTAACGGCATAAAAAAGTGCTAAACAAACATAAATAAT
13479414 AAC
322 AAC
* * * * * *
13479417 TTTTTTACACATATCAATTATAAAAATCATGTTCAATCATTCAAAAAAATTTAATATCATATATT
1 TTTTTCACACATATCAATCATGAAAATCAAGTTCAATCATTCAAAAAAGTTTAATATCATGTATT
* * * * **
13479482 TAAGCTATCTAAATTGTTAAAACATAAATATAACTGTAACA-TGACATTTTTGCCCTTTAACGGC
66 TAAGCTATCTAAATTATTAAAACATAAATATAACTATAA-ATTTATATTTTTGCCCTTTAACAAC
* * ** ** * * *
13479546 ATAACAAAACCCTAAAAAGACATAAATGGTAATTTTTTTGCACATATCAATCATGACAATTAAAT
130 ATAACAAAATCCTAAAAAGACATAAATGATAACATTTTCACACATATCAATCATGAAAATCAAGT
* * * * ** * * *
13479611 TCAATTATTCGGACAAGTTTAATATTATGTATTAAAATTATCTAAATTATTAAAATAGAATAATA
195 TCAATCATTCGAACAAGTTTAATATCATGTATTGAAGCTATCAAAATTGTTAAAACAGAATAATA
* * * * * * * * * * *
13479676 AA-TGTAAATTTGCATTTTGACCCTTTAACAGTATAAAAAA-TCCTAAATAGATATAAAATGATA
260 AACAG-AAATTTACATTTTGGCCTTTTAACGGCATAAAAAAGTGCTAAACAAACAT-AAATAATA
13479739 AC
323 AC
* * * * * *
13479741 TTTTTTCACACATATCAA-CTGTGCAAATTAAGTTCAATCATTCAAACAAGTTTAATATTATTTA
1 -TTTTTCACACATATCAATC-ATGAAAATCAAGTTCAATCATTCAAAAAAGTTTAATATCATGTA
* * * * * * **
13479805 TTGAAGCTATCTAAACTATTAAAATGGAAAAATAAAAGC-A-AAA-TTACA-TTTTGACGTTTTA
64 TTTAAGCTATCTAAATTATTAAAA--CATAAATATAA-CTATAAATTTATATTTTTG-CCCTTTA
** * * * ** ** *
13479866 ATGACATAA-AAAGTGCTAAATAGATGTAAACAATAACTTTTTCACAC--ATCAATCATGAAAAA
125 ACAACATAACAAAATCCTAAAAAGACATAAATGATAACATTTTCACACATATCAATCATG-AAAA
* * ** * * * *
13479928 CCAAGTTCAATCATT-TAGACAAGTTTAATATCATGCGTTTAAGCTATCTAAATTGTTAAAATAT
189 TCAAGTTCAATCATTCGA-ACAAGTTTAATATCATGTATTGAAGCTATCAAAATTGTTAAAACAG
* * * * *
13479992 AA-ATATAACTACA-AAA-TTAAATTTTTGCCCTTTAACAGCATAAATAAA-TTCTTAAA-AAGA
253 AATA-ATAA--ACAGAAATTTACATTTTGGCCTTTTAACGGCATAAA-AAAGTGC-TAAACAA-A
* *
13480052 TATAAATAGTAAC
312 CATAAATAATAAC
* * * * **
13480065 TTTTTCATACATATCAACCATGAAAACCAAGTTCAATCATTCGAGCAAGTTTAATAT
1 TTTTTCACACATATCAATCATGAAAATCAAGTTCAATCATTCAAAAAAGTTTAATAT
13480122 AATATATTCA
Statistics
Matches: 1111, Mismatches: 201, Indels: 78
0.80 0.14 0.06
Matches are distributed among these distances:
319 11 0.01
320 87 0.08
321 4 0.00
322 61 0.05
323 271 0.24
324 496 0.45
325 102 0.09
326 4 0.00
327 66 0.06
328 9 0.01
ACGTcount: A:0.44, C:0.14, G:0.09, T:0.34
Consensus pattern (324 bp):
TTTTTCACACATATCAATCATGAAAATCAAGTTCAATCATTCAAAAAAGTTTAATATCATGTATT
TAAGCTATCTAAATTATTAAAACATAAATATAACTATAAATTTATATTTTTGCCCTTTAACAACA
TAACAAAATCCTAAAAAGACATAAATGATAACATTTTCACACATATCAATCATGAAAATCAAGTT
CAATCATTCGAACAAGTTTAATATCATGTATTGAAGCTATCAAAATTGTTAAAACAGAATAATAA
ACAGAAATTTACATTTTGGCCTTTTAACGGCATAAAAAAGTGCTAAACAAACATAAATAATAAC
Found at i:13479538 original size:647 final size:646
Alignment explanation
Indices: 13478287--13479988 Score: 1682
Period size: 647 Copynumber: 2.6 Consensus size: 646
13478277 TATTAATTTA
* * *
13478287 TTCATACATATCAAATCATGAAAATCAAGTTCAATCATTCTGACAAGTTTAATGTCATGTATTTA
1 TTCATACATATC-AATCATGAAAATCAAGTTCAATCATTCAGACAAGTTTAATATCATGTATTAA
* * * * * *
13478352 AGTTACCTAAACTGTTAAAATA-TA-AATATAACTTTA-AAATTAAAATTTT-ACCTTTAGTGGT
65 AGTTATCTAAATTGTTAAAATAGAATAATA-AAC---AGAAATTTACATTTTGACCTTTAATGGT
* * ** *
13478413 ATAATAAAGTCTGAAAAAGATATAAACGGTACATTTTTCACACATATCAATTGTGAAAATTAAGT
126 ATAAAAAAGTCTTAAAAA-ATATAAACAATA-ATTTTTCACACATATCAATCGTGAAAATTAAGT
* * * ** * *
13478478 TCAATAATTTAGATGAGTTTAATATTATGTGTTGAAGCTATCTAAATT-GTAAAAGCATAAAAAT
189 TCAATCATTCAAAAAAGTTTAATATTATGTATTGAAGCTATCTAAATTATTAAAAGCATAAAAAT
* *
13478542 AACTATAAAATTACTTTTTTGCCCTTTAACAGCATAACAAAATCCCAAAAACACATAAATGATAA
254 AACTACAAAATTACTTTTTTGCCCTTTAACAACATAACAAAATCCCAAAAACACATAAATGATAA
* * * *
13478607 TATTTTTACACATATCAATCATGAAAATCAAGTTCAATTATTTGGACAAGTTTAATATCATGTAT
319 CATTTTCACACATATCAATCATGAAAATCAAGTTCAATCATTTGAACAAGTTTAATATCATGTAT
* * * * *
13478672 TGAAGCTATCTAAAACTGTTAAAACATAATAATAAATACAAATCTATATTTTGGCCTTTTAACGA
384 TGAAGCTATCTAAAACTGTTAAAACAGAATAATAAACACAAATCTACACTTAGGCCTTTTAACGA
* * *
13478737 CATAAAAAGAAGTACTAAACAAACATAAATAGTAACTTTTTCACACCTATCAATCATGAAAATCA
449 CATAAAAAGAAGTACTAAACAAACAGAAATAGTAACTTTTTCACACATATCAATCATAAAAATCA
** * *
13478802 AGTACAATCATTTGAAAAAATTTAATAATATGTATTTAAGCTATCTAAACTATTAAATATATATA
514 AGTACAATCATTCAAAAAAATTTAATAATATATATTTAAGCTATCTAAACTATTAAATAAATATA
* * * ** *
13478867 AATAAAAATTTATATTTATGCCCTTTAACGACGTAACAAAGTCCTAAAAAGAC-TATATGGTAAC
579 AATAAAAATTGACATTTATGCCCTTTAACGACATAACAAAACCCTAAAAAGACATAAATGGTAAC
13478931 ATT
644 ATT
* * * *
13478934 TTCATATATATCAA-CTATGAAAATCAAGTTCAATCATTCAAACAAGTTTAATATCATTTATTGA
1 TTCATACATATCAATC-ATGAAAATCAAGTTCAATCATTCAGACAAGTTTAATATCATGTATTAA
* * * * *
13478998 AGCTATCTAAATTGTTAAAACAGAATAATAAACAGAAATTTACATTTTGGCCTTTTAATGGCACA
65 AGTTATCTAAATTGTTAAAATAGAATAATAAACAGAAATTTACATTTTGACC-TTTAATGGTATA
* * *
13479063 AAAAAGTGTTAAACAAATATAAACAATAATATTTTCACACATATCAATCATGAAAATCAAGTTCA
129 AAAAAGTCTTAAA-AAATATAAACAATAAT-TTTTCACACATATCAATCGTGAAAATTAAGTTCA
* * *
13479128 ATCATTCAAAAAAGTTTAATATCATGTATTTAAGCTATCTAAATTATTAAAA-CATAAATATAAC
192 ATCATTCAAAAAAGTTTAATATTATGTATTGAAGCTATCTAAATTATTAAAAGCATAAAAATAAC
* * * * * * *
13479192 TGCAAATTTA-TATTTTTGCCCTTTAACAACGTGACAAAGTCCTAAAAAGACATACAA-GATAAC
257 TACAAAATTACT-TTTTTGCCCTTTAACAACATAACAAAATCCCAAAAACACATA-AATGATAAC
*
13479255 ATTTTCACACATATCAA-CTGTGAAAA-CTAAGTTCAATCATTTGAACAAGTTTAATATCATGTA
320 ATTTTCACACATATCAATC-ATGAAAATC-AAGTTCAATCATTTGAACAAGTTTAATATCATGTA
* * * * * *
13479318 TTGAAGTTATC-AAAATTGTTAAAACAGAATAATAAACATAAATTTGCACTTAGGCCTTTTAATG
383 TTGAAGCTATCTAAAACTGTTAAAACAGAATAATAAACACAAATCTACACTTAGGCCTTTTAACG
* * * * * * *
13479382 GCAT-AAAA-AAGTGCTAAATAGACAGAAATTGTAACTTTTTTACACATATCAATTATAAAAATC
448 ACATAAAAAGAAGTACTAAACAAACAGAAATAGTAACTTTTTCACACATATCAATCATAAAAATC
* * * *
13479445 ATGTTCAATCATTCAAAAAAATTTAAT-ATCATATATTTAAGCTATCTAAATTGTTAAAACATAA
513 AAGTACAATCATTCAAAAAAATTTAATAAT-ATATATTTAAGCTATCTAAACTATT--AA-ATAA
* * * * *
13479509 ATATAACTGTAACA-TGACATTTTTGCCCTTTAACGGCATAACAAAACCCTAAAAAGACATAAAT
574 ATATAAAT-AAAAATTGACATTTATGCCCTTTAACGACATAACAAAACCCTAAAAAGACATAAAT
**
13479573 GGTAATTTT
638 GGTAACATT
*** * * * * * *
13479582 TTTGCACATATCAATCATGACAATTAAATTCAATTATTCGGACAAGTTTAATATTATGTATTAAA
1 TTCATACATATCAATCATGAAAATCAAGTTCAATCATTCAGACAAGTTTAATATCATGTATTAAA
* * * * **
13479647 ATTATCTAAATTATTAAAATAGAATAATAAA-TGTAAATTTGCATTTTGACCCTTTAACAGTATA
66 GTTATCTAAATTGTTAAAATAGAATAATAAACAG-AAATTTACATTTTGA-CCTTTAATGGTATA
* * *
13479711 AAAAA-TCCTAAATAGATATAAA-ATGATAACTTTTTTCACACATATCAA-CTGTGCAAATTAAG
129 AAAAAGTCTTAAA-AAATATAAACA--ATAA--TTTTTCACACATATCAATC-GTGAAAATTAAG
* * * *
13479773 TTCAATCATTCAAACAAGTTTAATATTATTTATTGAAGCTATCTAAACTATTAAAATG--GAAAA
188 TTCAATCATTCAAAAAAGTTTAATATTATGTATTGAAGCTATCTAAATTATTAAAA-GCATAAAA
* * ** ** * * * * * ** **
13479836 ATAA-AAGCAAAATTAC-ATTTTGACGTTTTAATGACATAA-AAAGTGCTAAATAGATGTAAACA
252 ATAACTA-CAAAATTACTTTTTTG-CCCTTTAACAACATAACAAAATCCCAAAAACACATAAATG
* *
13479898 ATAACTTTTTCACAC--ATCAATCATGAAAAACCAAGTTCAATCATTT-AGACAAGTTTAATATC
315 ATAACATTTTCACACATATCAATCATG-AAAATCAAGTTCAATCATTTGA-ACAAGTTTAATATC
** * *
13479960 ATGCGTTTAAGCTATCT-AAATTGTTAAAA
378 ATGTATTGAAGCTATCTAAAACTGTTAAAA
13479989 TATAAATATA
Statistics
Matches: 867, Mismatches: 150, Indels: 76
0.79 0.14 0.07
Matches are distributed among these distances:
643 2 0.00
644 92 0.11
645 16 0.02
646 127 0.15
647 356 0.41
648 170 0.20
649 103 0.12
650 1 0.00
ACGTcount: A:0.44, C:0.13, G:0.09, T:0.34
Consensus pattern (646 bp):
TTCATACATATCAATCATGAAAATCAAGTTCAATCATTCAGACAAGTTTAATATCATGTATTAAA
GTTATCTAAATTGTTAAAATAGAATAATAAACAGAAATTTACATTTTGACCTTTAATGGTATAAA
AAAGTCTTAAAAAATATAAACAATAATTTTTCACACATATCAATCGTGAAAATTAAGTTCAATCA
TTCAAAAAAGTTTAATATTATGTATTGAAGCTATCTAAATTATTAAAAGCATAAAAATAACTACA
AAATTACTTTTTTGCCCTTTAACAACATAACAAAATCCCAAAAACACATAAATGATAACATTTTC
ACACATATCAATCATGAAAATCAAGTTCAATCATTTGAACAAGTTTAATATCATGTATTGAAGCT
ATCTAAAACTGTTAAAACAGAATAATAAACACAAATCTACACTTAGGCCTTTTAACGACATAAAA
AGAAGTACTAAACAAACAGAAATAGTAACTTTTTCACACATATCAATCATAAAAATCAAGTACAA
TCATTCAAAAAAATTTAATAATATATATTTAAGCTATCTAAACTATTAAATAAATATAAATAAAA
ATTGACATTTATGCCCTTTAACGACATAACAAAACCCTAAAAAGACATAAATGGTAACATT
Found at i:13479592 original size:486 final size:481
Alignment explanation
Indices: 13478173--13480151 Score: 1579
Period size: 486 Copynumber: 4.1 Consensus size: 481
13478163 TGGACACACG
* * * * * * *
13478173 TAATATCATGTAATAAGAGCTATCTAAACTGTTAAAACA-GAACAATAATTGTAAATTTATATTT
1 TAATATCATGTATTAA-AGCTATCTAAATTATTAAAACATAAATAATAAATGCAAATTTATATTT
* * * * * * *
13478237 TT-ACCTTTTA-ACGTTACAACAAGTCATAAACAA-ACATAAATATTAA-TTTATTCATACATAT
65 TTGCCCTTTAACACG-TAAAAAAAGTCCTAAA-AAGACATAAAGA-TAACTTT-TTCACACATAT
* * * * * *
13478298 CAAATCATGAAAATCAAGTTCAATCATTCTG-ACAAGTTTAATGTCATGTATTTAAGTTACCTAA
126 CAACT-GTGAAAAT-AAGTTCAATCATT-TGAACAAGTTTAATAT-ATGTATTGAAGCTATCTAA
* * * * * ** *
13478362 ACTGTTAAAATA-TA-AATATAACTTTAAAATTAAAATTTTA--CC-TTTAGTGGTATAATAAAG
187 ACTATTAAAATAGAATAATA-AAC---AAAATTTACA-TTTAGGCCTTTTAATGACATAAAAAAG
* ** ** * * * *
13478422 T-CTGAAAAAGATATAAACGGT-ACATTTTTCACACATATCAATTGTGAAAATTAAGTTCAATAA
247 TGCT-AAATAGA-CGAAATAGTAAC-TTTTT-ACACATATCAATTATAAAAATCAAGTTCAATCA
* * ** * * * * *
13478485 TTTAGATGAGTTTAATATTATGTGTTGAAGCTATCTAAATTG-TAAAAGCATAAAAATAACTATA
308 TTCAAACAAGTTTAATATCATATATTTAAGCTATCTAAATTGTTAAAA-CATAAATATAACTATA
* * *
13478549 AAATTACTTTTTTGCCCTTTAACAGCATAACAAAATCCC-AAAAACACATAAATGATAATATTTT
372 AAATTACATTTTTGCCCTTTAACAGCATAA-AAAATCCCTAAAAAGACATAAATAATAATATTTT
* * * *
13478613 TACACATATCAATCATGAAAATCAAGTTCAATTATTTGGACAAGTT
436 CACACATATCAATCATGAAAATCAAGTTCAATCATTCGAACAAGTT
* * * * *
13478659 TAATATCATGTATTGAAGCTATCTAAAACTGTTAAAACAT-AATAATAAATACAAATCTATATTT
1 TAATATCATGTATTAAAGCTATCT-AAATTATTAAAACATAAATAATAAATGCAAATTTATATTT
* * * * * *
13478723 TGGCCTTTTAACGACATAAAAAGAAGTACTAAACAA-ACATAAATAGTAACTTTTTCACACCTAT
65 TTGCCCTTTAAC-ACGTAAAAA-AAGTCCTAAA-AAGACATAAAGA-TAACTTTTTCACACATAT
* * * * *
13478787 CAA-TCATGAAAATCAAGTACAATCATTTGAAAAAATTTAATAATATGTATTTAAGCTATCTAAA
126 CAACT-GTGAAAAT-AAGTTCAATCATTTGAACAAGTTTAAT-ATATGTATTGAAGCTATCTAAA
* * * * * * * * *
13478851 CTATT-AAATA-TAT-ATAAATAAAAATTTATATTTATGCCCTTTAACGACGTAACAAAGTCCTA
188 CTATTAAAATAGAATAATAAA-CAAAATTTACATTTAGGCCTTTTAATGACATAAAAAAGTGCTA
* * * * * * * * *
13478913 AAAAGACTATATGGTAACATTTTCATATATATCAACTATGAAAATCAAGTTCAATCATTCAAACA
252 AATAGACGAAATAGTAAC-TTTTTACACATATCAATTATAAAAATCAAGTTCAATCATTCAAACA
* * * * *
13478978 AGTTTAATATCATTTATTGAAGCTATCTAAATTGTTAAAACA-GAATAATAAAC-AGAAATTTAC
316 AGTTTAATATCATATATTTAAGCTATCTAAATTGTTAAAACATAAAT-AT-AACTATAAAATTAC
* * ** * ** * *
13479041 ATTTTGGCCTTTTAATGGCACAAAAAAGT-GTTAAACAA-ATATAAACAATAATATTTTCACACA
379 ATTTTTGCCCTTTAACAGCATAAAAAA-TCCCTAAA-AAGACATAAATAATAATATTTTCACACA
* *
13479104 TATCAATCATGAAAATCAAGTTCAATCATTCAAAAAAGTT
442 TATCAATCATGAAAATCAAGTTCAATCATTCGAACAAGTT
* *
13479144 TAATATCATGTATTTAAGCTATCTAAATTATTAAAACATAAAT-ATAACTGCAAATTTATATTTT
1 TAATATCATGTATTAAAGCTATCTAAATTATTAAAACATAAATAATAAATGCAAATTTATATTTT
* * *
13479208 TGCCCTTTAACAACGT-GACAAAGTCCTAAAAAGACATACAAGATAACATTTTCACACATATCAA
66 TGCCCTTTAAC-ACGTAAAAAAAGTCCTAAAAAGACATA-AAGATAACTTTTTCACACATATCAA
* * * *
13479272 CTGTGAAAACTAAGTTCAATCATTTGAACAAGTTTAATATCATGTATTGAAGTTATCAAAATTGT
129 CTGTGAAAA-TAAGTTCAATCATTTGAACAAGTTTAATAT-ATGTATTGAAGCTATCTAAACTAT
* * * *
13479337 TAAAACAGAATAATAAACATAAATTTGCACTTAGGCCTTTTAATGGCATAAAAAAGTGCTAAATA
192 TAAAATAGAATAATAAACA-AAATTTACATTTAGGCCTTTTAATGACATAAAAAAGTGCTAAATA
* * * *
13479402 GACAGAAATTGTAACTTTTTTACACATATCAATTATAAAAATCATGTTCAATCATTCAAAAAAAT
256 GAC-GAAATAGTAAC-TTTTTACACATATCAATTATAAAAATCAAGTTCAATCATTCAAACAAGT
* * *
13479467 TTAATATCATATATTTAAGCTATCTAAATTGTTAAAACATAAATATAACTGTAACATGACATTTT
319 TTAATATCATATATTTAAGCTATCTAAATTGTTAAAACATAAATATAACTATAAAATTACATTTT
* ** * **
13479532 TGCCCTTTAACGGCATAACAAAA-CCCTAAAAAGACATAAATGGTAATTTTTTTGCACATATCAA
384 TGCCCTTTAACAGCATAA-AAAATCCCTAAAAAGACATAAATAATAATATTTTCACACATATCAA
* * * * *
13479596 TCATGACAATTAAATTCAATTATTCGGACAAGTT
448 TCATGAAAATCAAGTTCAATCATTCGAACAAGTT
* ** * **
13479630 TAATATTATGTATTAAAATTATCTAAATTATT-AAA-ATAGAATAATAAATGTAAATTTGCA-TT
1 TAATATCATGTATTAAAGCTATCTAAATTATTAAAACATA-AATAATAAATGCAAATTTATATTT
* *
13479692 TTGACCCTTTAACA-GTATAAAAAA-TCCTAAATAGATATAAAATGATAACTTTTTTCACACATA
65 TTG-CCCTTTAACACGTA-AAAAAAGTCCTAAAAAGACAT-AAA-GATAAC-TTTTTCACACATA
* ** *
13479755 TCAACTGTGCAAATTAAGTTCAATCATTCAAACAAGTTTAATATTATTTATTGAAGCTATCTAAA
125 TCAACTGTG-AAAATAAGTTCAATCATTTGAACAAGTTTAATA-TATGTATTGAAGCTATCTAAA
* * * * *
13479820 CTATTAAAATGGAAAAATAAAAGCAAAA-TTACATTTTGACGTTTTAATGACAT-AAAAAGTGCT
188 CTATTAAAATAGAATAAT-AAA-CAAAATTTACATTTAGGCCTTTTAATGACATAAAAAAGTGCT
* * * * * * * *
13479883 AAATAGATGTAAACAATAACTTTTT-CACACATCAATCATGAAAAACCAAGTTCAATCATTTAGA
251 AAATAGACG-AAATAGTAACTTTTTACACATATCAATTAT-AAAAATCAAGTTCAATCATTCAAA
*** * * *
13479947 CAAGTTTAATATCATGCGTTTAAGCTATCTAAATTGTTAAAATATAAATATAACTACAAAATTAA
314 CAAGTTTAATATCATATATTTAAGCTATCTAAATTGTTAAAACATAAATATAACTATAAAATTAC
* * * * *
13480012 ATTTTTGCCCTTTAACAGCATAAATAAATTCTTAAAAAGATATAAATAGTAACT-TTTTCATACA
379 ATTTTTGCCCTTTAACAGCATAAA-AAATCCCTAAAAAGACATAAATAATAA-TATTTTCACACA
* * *
13480076 TATCAACCATGAAAACCAAGTTCAATCATTCGAGCAAGTT
442 TATCAATCATGAAAATCAAGTTCAATCATTCGAACAAGTT
* * *
13480116 TAATATAATATATTCAAA-CTAT-TCAAACTATTAAAA
1 TAATATCATGTATT-AAAGCTATCT-AAATTATTAAAA
13480152 TAAAAAAAAA
Statistics
Matches: 1212, Mismatches: 223, Indels: 115
0.78 0.14 0.07
Matches are distributed among these distances:
481 4 0.00
482 83 0.07
483 15 0.01
484 78 0.06
485 372 0.31
486 419 0.35
487 130 0.11
488 68 0.06
489 40 0.03
490 3 0.00
ACGTcount: A:0.44, C:0.13, G:0.09, T:0.34
Consensus pattern (481 bp):
TAATATCATGTATTAAAGCTATCTAAATTATTAAAACATAAATAATAAATGCAAATTTATATTTT
TGCCCTTTAACACGTAAAAAAAGTCCTAAAAAGACATAAAGATAACTTTTTCACACATATCAACT
GTGAAAATAAGTTCAATCATTTGAACAAGTTTAATATATGTATTGAAGCTATCTAAACTATTAAA
ATAGAATAATAAACAAAATTTACATTTAGGCCTTTTAATGACATAAAAAAGTGCTAAATAGACGA
AATAGTAACTTTTTACACATATCAATTATAAAAATCAAGTTCAATCATTCAAACAAGTTTAATAT
CATATATTTAAGCTATCTAAATTGTTAAAACATAAATATAACTATAAAATTACATTTTTGCCCTT
TAACAGCATAAAAAATCCCTAAAAAGACATAAATAATAATATTTTCACACATATCAATCATGAAA
ATCAAGTTCAATCATTCGAACAAGTT
Found at i:13480106 original size:323 final size:318
Alignment explanation
Indices: 13478292--13480227 Score: 1415
Period size: 324 Copynumber: 6.0 Consensus size: 318
13478282 ATTTATTCAT
* * *
13478292 ACATATCAAATCATGAAAATCAAGTTCAATCATTCTGACAAGTTTAATGTCATGTATTTAAGTTA
1 ACATATC-AATCATGAAAATCAAGTTCAATCATT-TGACAAGTTTAATATCATGTATTGAAGCTA
* * * * ** * * ** * *
13478357 CCTAAACTGTTAAAATATAA-ATATAACTTTAAAATTAAAATTTT--ACCTTTAGTGGTATAATA
64 TCTAAATTGTTAAAACAGAATA-ATAA-TACAAAATT-ACATTTTGGCCCTTTAACGGCATAAAA
* * ** ** *
13478419 AAGTCTGAAAAAGATATAAACGGT-ACATTTTTCACACATATCAATTGTGAAAATTAAGTTCAAT
126 AATTCTTAAAAAGATATAAATAGTAAC-TTTTTCACACATATCAATCATGAAAATCAAGTTCAAT
* * * ** * * * *
13478483 AATTTAGATGAGTTTAATATTATGTGTTGAAGCTATCTAAA-T-TGTAAAAGCATAAAAATAACT
190 CATTCAAAAAAGTTTAATATTATGTATTTAAGCTATCTAAACTAT-TAAAA--TTAAAAATAA-A
* * * * * *
13478546 A-TAAAATTACTTTTTTGCCCTTTAAC-AGCATAACAAAATCCCAAAAACACATAAATGATAATA
251 AGCAAAATTAC-ATTTTGCCCTTTAACGA-CATAACAAAGTCCTAAAAAGACATAAATGATAA-C
13478609 TTTTTAC
313 TTTTT-C
*
13478616 ACATATCAATCATGAAAATCAAGTTCAATTATTTGGACAAGTTTAATATCATGTATTGAAGCTAT
1 ACATATCAATCATGAAAATCAAGTTCAATCATTT-GACAAGTTTAATATCATGTATTGAAGCTAT
* * * * *
13478681 CTAAAACTGTTAAAACATAATAATAAATAC-AAATCTATATTTTGGCCTTTTAACGACATAAAAA
65 CT-AAATTGTTAAAACAGAATAAT-AATACAAAAT-TACATTTTGGCCCTTTAACGGCAT-AAAA
* * * *
13478745 GAAGTAC-TAAACAA-ACATAAATAGTAACTTTTTCACACCTATCAATCATGAAAATCAAGTACA
126 -AA-TTCTTAAA-AAGATATAAATAGTAACTTTTTCACACATATCAATCATGAAAATCAAGTTCA
* * *
13478808 ATCATTTGAAAAAA-TTTAATAATATGTATTTAAGCTATCTAAACTATTAAATATATATAAAT--
188 ATCA-TTCAAAAAAGTTTAATATTATGTATTTAAGCTATCTAAACTATTAAA-AT-TAAAAATAA
* * * * * *
13478870 AA--AAATTTATATTTATGCCCTTTAACGACGTAACAAAGTCCTAAAAAGAC-TATATGGTAACA
250 AAGCAAAATTACATTT-TGCCCTTTAACGACATAACAAAGTCCTAAAAAGACATAAATGATAACT
13478932 TTTTC
314 TTTTC
* ** *
13478937 ATATATATCAA-CTATGAAAATCAAGTTCAATCATTCAAACAAGTTTAATATCATTTATTGAAGC
1 --ACATATCAATC-ATGAAAATCAAGTTCAATCATT-TGACAAGTTTAATATCATGTATTGAAGC
* * *
13479001 TATCTAAATTGTTAAAACAGAATAATAA-ACAGAAATTTACATTTTGGCCTTTTAATGGCACAAA
62 TATCTAAATTGTTAAAACAGAATAATAATACA-AAA-TTACATTTTGGCCCTTTAACGGCATAAA
* * * *
13479065 AAAGTGTTAAACAA-ATATAAACAATAA-TATTTTCACACATATCAATCATGAAAATCAAGTTCA
125 AAATTCTTAAA-AAGATATAAATAGTAACT-TTTTCACACATATCAATCATGAAAATCAAGTTCA
* * * * **
13479128 ATCATTCAAAAAAGTTTAATATCATGTATTTAAGCTATCTAAATTATTAAAACATAAATATAACT
188 ATCATTCAAAAAAGTTTAATATTATGTATTTAAGCTATCTAAACTATTAAAA-TTAAAAATAAAA
* * * * *
13479193 GCAAATTTATATTTTTGCCCTTTAACAACGTGACAAAGTCCTAAAAAGACATACAA-GATAACAT
252 GCAAAATTACA-TTTTGCCCTTTAACGACATAACAAAGTCCTAAAAAGACATA-AATGATAAC-T
*
13479257 TTTCAC
314 TTT-TC
* *
13479263 ACATATCAA-CTGTGAAAA-CTAAGTTCAATCATTTGAACAAGTTTAATATCATGTATTGAAGTT
1 ACATATCAATC-ATGAAAATC-AAGTTCAATCATTTG-ACAAGTTTAATATCATGTATTGAAGCT
* * * * * *
13479326 ATCAAAATTGTTAAAACAGAATAATAA-ACATAAATTTGCACTTAGGCCTTTTAATGGCATAAAA
63 ATCTAAATTGTTAAAACAGAATAATAATACA-AAA-TTACATTTTGGCCCTTTAACGGCATAAAA
* * * * * * * * *
13479390 AAGTGC-TAAATAGACAGAAATTGTAACTTTTTTACACATATCAATTATAAAAATCATGTTCAAT
126 AA-TTCTTAAAAAGATATAAATAGTAACTTTTTCACACATATCAATCATGAAAATCAAGTTCAAT
* * * * * * * ** *
13479454 CATTCAAAAAAATTTAATATCATATATTTAAGCTATCTAAATTGTTAAAACATAAATATAACTGT
190 CATTCAAAAAAGTTTAATATTATGTATTTAAGCTATCTAAACTATTAAAA-TTAAAAATAAAAGC
* * * ** * *
13479519 AACATGACATTTTTGCCCTTTAACGGCATAACAAAACCCTAAAAAGACATAAATGGTAATTTTTT
254 AAAATTACA-TTTTGCCCTTTAACGACATAACAAAGTCCTAAAAAGACATAAATGATAA-CTTTT
13479584 TGC
317 T-C
* * * * * * * **
13479587 ACATATCAATCATGACAATTAAATTCAATTATTCGGACAAGTTTAATATTATGTATTAAAATTAT
1 ACATATCAATCATGAAAATCAAGTTCAATCATT-TGACAAGTTTAATATCATGTATTGAAGCTAT
* * ** * * * * *
13479652 CTAAATTATTAAAATAGAATAATAAATGTAAATTTGCATTTTGACCCTTTAACAGTATAAAAAA-
65 CTAAATTGTTAAAACAGAATAAT-AATACAAAATTACATTTTGGCCCTTTAACGGCATAAAAAAT
* * * * *
13479716 TCCTAAATAGATATAAA-ATGATAACTTTTTTCACACATATCAA-CTGTGCAAATTAAGTTCAAT
129 TCTTAAAAAGATATAAATA-G-TAAC-TTTTTCACACATATCAATC-ATGAAAATCAAGTTCAAT
* * * *
13479779 CATTCAAACAAGTTTAATATTATTTATTGAAGCTATCTAAACTATTAAAATGGAAAAATAAAAGC
190 CATTCAAAAAAGTTTAATATTATGTATTTAAGCTATCTAAACTATTAAAAT-TAAAAATAAAAGC
** * * * ** **
13479844 AAAATTACATTTTGACGTTTTAATGACATAA-AAAGTGCTAAATAGATGTAAACAATAACTTTTT
254 AAAATTACATTTTG-CCCTTTAACGACATAACAAAGTCCTAAAAAGACATAAATGATAACTTTTT
13479908 C
318 C
* * ** *
13479909 ACACATCAATCATGAAAAACCAAGTTCAATCATTTAGACAAGTTTAATATCATGCGTTTAAGCTA
1 ACATATCAATCATG-AAAATCAAGTTCAATCATTT-GACAAGTTTAATATCATGTATTGAAGCTA
* * * * *
13479974 TCTAAATTGTTAAAATATAA-ATATAACTACAAAATTAAATTTTTGCCCTTTAACAGCATAAATA
64 TCTAAATTGTTAAAACAGAATA-ATAA-TACAAAATTACATTTTGGCCCTTTAACGGCATAAA-A
* * *
13480038 AATTCTTAAAAAGATATAAATAGTAACTTTTTCATACATATCAACCATGAAAACCAAGTTCAATC
126 AATTCTTAAAAAGATATAAATAGTAACTTTTTCACACATATCAATCATGAAAATCAAGTTCAATC
* ** * * * *
13480103 ATTCGAGCAAGTTTAATATAATATATTCAAACTAT-TCAAACTATTAAAA-TAAAAA-AAAATTG
191 ATTCAAAAAAGTTTAATATTATGTATTTAAGCTATCT-AAACTATTAAAATTAAAAATAAAA--G
* * * * * * * * *
13480165 CATATTTACATTTTTACCATTTAATGACACAA-AAAGTGCTAAATAA-ATATAAACGATAACTTT
253 CAAAATTACA-TTTTGCCCTTTAACGACATAACAAAGTCCTAAA-AAGACATAAATGATAACTTT
13480228 CTTATTTGAT
Statistics
Matches: 1307, Mismatches: 233, Indels: 146
0.78 0.14 0.09
Matches are distributed among these distances:
319 15 0.01
320 95 0.07
321 12 0.01
322 115 0.09
323 359 0.27
324 471 0.36
325 139 0.11
326 6 0.00
327 72 0.06
328 21 0.02
329 2 0.00
ACGTcount: A:0.45, C:0.13, G:0.09, T:0.34
Consensus pattern (318 bp):
ACATATCAATCATGAAAATCAAGTTCAATCATTTGACAAGTTTAATATCATGTATTGAAGCTATC
TAAATTGTTAAAACAGAATAATAATACAAAATTACATTTTGGCCCTTTAACGGCATAAAAAATTC
TTAAAAAGATATAAATAGTAACTTTTTCACACATATCAATCATGAAAATCAAGTTCAATCATTCA
AAAAAGTTTAATATTATGTATTTAAGCTATCTAAACTATTAAAATTAAAAATAAAAGCAAAATTA
CATTTTGCCCTTTAACGACATAACAAAGTCCTAAAAAGACATAAATGATAACTTTTTC
Found at i:13488480 original size:26 final size:24
Alignment explanation
Indices: 13488430--13488484 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 24
13488420 AATTCAATTA
** *
13488430 TAAAAATTTTATTAATATTTTTAT
1 TAAAAATTTTATTAATAAATATAT
13488454 TAAAAATATTTATATAATAAATATAT
1 TAAAAAT-TTTAT-TAATAAATATAT
13488480 TAAAA
1 TAAAA
13488485 TTTAATAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 7 0.27
25 5 0.19
26 14 0.54
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
TAAAAATTTTATTAATAAATATAT
Found at i:13488580 original size:21 final size:21
Alignment explanation
Indices: 13488535--13488580 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
13488525 GAAACTTTGT
****
13488535 AATTTATTTATTTTTAATTTT
1 AATTTATTTATTTTTAAAAAA
13488556 AATTTATTTATTTTTAAAAAA
1 AATTTATTTATTTTTAAAAAA
13488577 AATT
1 AATT
13488581 ATAAATTTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
AATTTATTTATTTTTAAAAAA
Found at i:13489441 original size:32 final size:31
Alignment explanation
Indices: 13489384--13489448 Score: 85
Period size: 32 Copynumber: 2.1 Consensus size: 31
13489374 GAGATCTTGG
*
13489384 ATTTATATTATATAAAATATTAAAATTTATAT
1 ATTTATATTATATAAAATA-TAAAAATTATAT
***
13489416 ATTTATATTATATTTTATATAAAAATTATAT
1 ATTTATATTATATAAAATATAAAAATTATAT
13489447 AT
1 AT
13489449 CATAATTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 13 0.45
32 16 0.55
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (31 bp):
ATTTATATTATATAAAATATAAAAATTATAT
Found at i:13489500 original size:16 final size:16
Alignment explanation
Indices: 13489479--13489511 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
13489469 ATATAAAATA
13489479 AAATTT-TTATTTTATT
1 AAATTTATT-TTTTATT
13489495 AAATTTATTTTTTATT
1 AAATTTATTTTTTATT
13489511 A
1 A
13489512 TTATTAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.88
17 2 0.12
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
AAATTTATTTTTTATT
Found at i:13489557 original size:13 final size:13
Alignment explanation
Indices: 13489539--13489573 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
13489529 TATATCATTT
13489539 TTATATTTTTATA
1 TTATATTTTTATA
*
13489552 TTATATTATTATA
1 TTATATTTTTATA
*
13489565 TTGTATTTT
1 TTATATTTT
13489574 AAGTTATTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (13 bp):
TTATATTTTTATA
Found at i:13492145 original size:17 final size:17
Alignment explanation
Indices: 13492125--13492157 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13492115 AAGCTATGGG
13492125 TATATAAAAAATATTTA
1 TATATAAAAAATATTTA
*
13492142 TATATAAAAATTATTT
1 TATATAAAAAATATTT
13492158 GTCTTTTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TATATAAAAAATATTTA
Found at i:13492468 original size:21 final size:21
Alignment explanation
Indices: 13492429--13492468 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
13492419 AATAATTATA
** *
13492429 ATTTTTTATTTTAAGATTACG
1 ATTTTTTATTAAAAAATTACG
13492450 ATTTTTTATTAAAAAATTA
1 ATTTTTTATTAAAAAATTA
13492469 GTATATATAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.55
Consensus pattern (21 bp):
ATTTTTTATTAAAAAATTACG
Found at i:13495619 original size:2 final size:2
Alignment explanation
Indices: 13495612--13495642 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
13495602 AAATCCTTTC
13495612 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 A
13495643 ACAGAAATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13497320 original size:2 final size:2
Alignment explanation
Indices: 13497313--13497337 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13497303 AGTCTCAAAG
13497313 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
13497338 ATAGCAATAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13499678 original size:19 final size:20
Alignment explanation
Indices: 13499654--13499695 Score: 77
Period size: 19 Copynumber: 2.1 Consensus size: 20
13499644 TAATGTTAAG
13499654 TACATGCTTTGATATGTG-T
1 TACATGCTTTGATATGTGCT
13499673 TACATGCTTTGATATGTGCT
1 TACATGCTTTGATATGTGCT
13499693 TAC
1 TAC
13499696 TTTGATATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.21, C:0.14, G:0.19, T:0.45
Consensus pattern (20 bp):
TACATGCTTTGATATGTGCT
Found at i:13502244 original size:32 final size:32
Alignment explanation
Indices: 13502166--13502244 Score: 97
Period size: 32 Copynumber: 2.5 Consensus size: 32
13502156 CAAATGAAAT
* *
13502166 CAAATGAAATCCAA-GTGCATTAATATTTTAT
1 CAAATGAAATCAAATGTGCATTAATATTTTAC
* * *
13502197 GAAATGAAACCAAATGTGTATTAATATTTTAC
1 CAAATGAAATCAAATGTGCATTAATATTTTAC
*
13502229 CAAATGAAATTAAATG
1 CAAATGAAATCAAATG
13502245 AAATCATATT
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
31 11 0.28
32 28 0.72
ACGTcount: A:0.46, C:0.10, G:0.11, T:0.33
Consensus pattern (32 bp):
CAAATGAAATCAAATGTGCATTAATATTTTAC
Found at i:13502902 original size:20 final size:21
Alignment explanation
Indices: 13502877--13502916 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
13502867 ACGTGCATTA
* *
13502877 ATATTTTATCAAATA-AAATT
1 ATATTTAATAAAATACAAATT
13502897 ATATTTAATAAAATACAAAT
1 ATATTTAATAAAATACAAAT
13502917 GTATCAATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (21 bp):
ATATTTAATAAAATACAAATT
Found at i:13503384 original size:22 final size:24
Alignment explanation
Indices: 13503359--13503409 Score: 72
Period size: 22 Copynumber: 2.2 Consensus size: 24
13503349 TAGAGAATCA
*
13503359 AGTATTTTATAA-TTA-TAATTAT
1 AGTATTTAATAATTTATTAATTAT
13503381 AGTATTTAATAATTTATTAATTAT
1 AGTATTTAATAATTTATTAATTAT
13503405 A-TATT
1 AGTATT
13503410 GATTGATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 11 0.42
23 7 0.27
24 8 0.31
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (24 bp):
AGTATTTAATAATTTATTAATTAT
Found at i:13503514 original size:262 final size:258
Alignment explanation
Indices: 13503043--13503527 Score: 692
Period size: 262 Copynumber: 1.8 Consensus size: 258
13503033 ATTACTAAAA
* *
13503043 TGGATACTATATTTAATCAAATATAAATGTATCAAAGAATTAATTAGAGAATCAACTATTTTGTA
1 TGGATACTATACTTAATCAAATATAAATGTATCAAAGAATTAATTAGAGAATCAACTATTTTATA
* *
13503108 ATTGTAATTGTTGTATTTATTAATTATATATTGATTGATTTAATTGGTCAAATTAAGAAATTTTT
66 ATTATAATTGTTATATTTATTAATTATATATTGATTGATTTAATTGGTCAAATTAAGAAATTTTT
* *
13503173 AAAATTTTAATACTTTTAATATGGATTGAACTGAGAATGATTTAAAATCAATAATAAAAATATAA
131 AAAATTTTAATA--TTGAATATGGATTGAAC-GAG-ATGATTTAAAATCAATAATAAAAACATAA
13503238 ATATAATCAATTTAGTTTTTTGAATTATATTTGCTTTATATATTTACACATAAAATACATCAATT
192 ATATAATCAATTTAGTTTTTTGAATTATATTTGCTTTATATATTTACACATAAAATACATCAATT
13503303 AT
257 AT
* * *
13503305 TGGATACTATACTTAATCAAATATAAATGTATCAAATAATTGATTAGAGAATCAAGTATTTTATA
1 TGGATACTATACTTAATCAAATATAAATGTATCAAAGAATTAATTAGAGAATCAACTATTTTATA
*
13503370 ATTATAATTATAGTATTTAATAATTTATTAATTATATATTGATTGATTTAATTTGTCAAATTAAG
66 ATTATAA-T-T-G---TT-AT-ATTTATTAATTATATATTGATTGATTTAATTGGTCAAATTAAG
* * *
13503435 AAATTTTTAAATTTTTAATA-TGAAT-TGGATTG-A-GAG-TGATTTAAAGTTAATAATAAAAAC
123 AAATTTTTAAAATTTTAATATTGAATATGGATTGAACGAGATGATTTAAAATCAATAATAAAAAC
*
13503495 ATAAATATAAATTAATTTAGTTTTTTGAATTAT
188 ATAAATAT-AATCAATTTAGTTTTTTGAATTAT
13503528 TTTTAAATTA
Statistics
Matches: 200, Mismatches: 14, Indels: 18
0.86 0.06 0.08
Matches are distributed among these distances:
261 29 0.14
262 89 0.44
263 4 0.02
264 1 0.00
265 2 0.01
266 7 0.04
267 4 0.02
268 2 0.01
269 1 0.00
270 61 0.31
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.44
Consensus pattern (258 bp):
TGGATACTATACTTAATCAAATATAAATGTATCAAAGAATTAATTAGAGAATCAACTATTTTATA
ATTATAATTGTTATATTTATTAATTATATATTGATTGATTTAATTGGTCAAATTAAGAAATTTTT
AAAATTTTAATATTGAATATGGATTGAACGAGATGATTTAAAATCAATAATAAAAACATAAATAT
AATCAATTTAGTTTTTTGAATTATATTTGCTTTATATATTTACACATAAAATACATCAATTAT
Found at i:13504660 original size:27 final size:25
Alignment explanation
Indices: 13504606--13504660 Score: 58
Period size: 27 Copynumber: 2.1 Consensus size: 25
13504596 AACTAAATTT
13504606 AAAAAAAAAAACCAAAAAAAGTTGAA
1 AAAAAAAAAAACCAAAAAAAGTT-AA
* *
13504632 AAAGAAAAGAAACTAAAAAAA-TATAA
1 AAA-AAAAAAAACCAAAAAAAGT-TAA
13504658 AAA
1 AAA
13504661 GATACACGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
26 9 0.36
27 16 0.64
ACGTcount: A:0.78, C:0.05, G:0.07, T:0.09
Consensus pattern (25 bp):
AAAAAAAAAAACCAAAAAAAGTTAA
Found at i:13505202 original size:19 final size:19
Alignment explanation
Indices: 13505162--13505204 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
13505152 AATATCTAAT
13505162 AAAAATTTGGAAGGAAGCAA
1 AAAAATTTGGAA-GAAGCAA
*
13505182 AAAAATTTAGGAA-AAGTAA
1 AAAAATTT-GGAAGAAGCAA
13505201 AAAA
1 AAAA
13505205 GAAAAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 9 0.43
20 8 0.38
21 4 0.19
ACGTcount: A:0.63, C:0.02, G:0.19, T:0.16
Consensus pattern (19 bp):
AAAAATTTGGAAGAAGCAA
Found at i:13505240 original size:18 final size:17
Alignment explanation
Indices: 13505193--13505234 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
13505183 AAAATTTAGG
*
13505193 AAAAGTAAAAAAGAAAAA
1 AAAAG-AAAAAATAAAAA
*
13505211 AAATGAAAAAATAAAAA
1 AAAAGAAAAAATAAAAA
13505228 AAAAGAA
1 AAAAGAA
13505235 CGAAATTCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (17 bp):
AAAAGAAAAAATAAAAA
Found at i:13506002 original size:17 final size:16
Alignment explanation
Indices: 13505982--13506015 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
13505972 TTGAAATAAT
13505982 AAATATATAAAAGTAAA
1 AAATATA-AAAAGTAAA
*
13505999 AAATATAAAATGTAAA
1 AAATATAAAAAGTAAA
13506015 A
1 A
13506016 TAACCAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.24
Consensus pattern (16 bp):
AAATATAAAAAGTAAA
Found at i:13506004 original size:15 final size:16
Alignment explanation
Indices: 13505986--13506015 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
13505976 AATAATAAAT
13505986 ATATAAAA-GTAAAAA
1 ATATAAAATGTAAAAA
13506001 ATATAAAATGTAAAA
1 ATATAAAATGTAAAA
13506016 TAACCAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (16 bp):
ATATAAAATGTAAAAA
Found at i:13506133 original size:24 final size:24
Alignment explanation
Indices: 13506106--13506151 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
13506096 TATTATATAG
13506106 TTAAAAATTAAAAAAGCAAAAATA
1 TTAAAAATTAAAAAAGCAAAAATA
* *
13506130 TTAAATATTAAAAATGCAAAAA
1 TTAAAAATTAAAAAAGCAAAAA
13506152 AGAAAAGATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.24
Consensus pattern (24 bp):
TTAAAAATTAAAAAAGCAAAAATA
Found at i:13506151 original size:32 final size:31
Alignment explanation
Indices: 13506095--13506157 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 31
13506085 TAAATTTATG
* *
13506095 ATATTATATAGTTAAAAATTAAAAAAGCAAAA
1 ATATTAAATAGTTAAAAATCAAAAAAG-AAAA
13506127 ATATTAAATA-TTAAAAATGCAAAAAAGAAAA
1 ATATTAAATAGTTAAAAAT-CAAAAAAGAAAA
13506158 GATTAAACCG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 12 0.43
32 16 0.57
ACGTcount: A:0.65, C:0.03, G:0.06, T:0.25
Consensus pattern (31 bp):
ATATTAAATAGTTAAAAATCAAAAAAGAAAA
Found at i:13506385 original size:25 final size:23
Alignment explanation
Indices: 13506351--13506414 Score: 78
Period size: 22 Copynumber: 2.8 Consensus size: 23
13506341 AAATTAATTT
*
13506351 AATAATTAAAAATAACAACAACAAA
1 AATAAATAAAAATAA-AA-AACAAA
*
13506376 AATAAATAAAAAT-AAAAATAAA
1 AATAAATAAAAATAAAAAACAAA
13506398 AATAAA-AAAAATAAAAA
1 AATAAATAAAAATAAAAA
13506415 TTGAGAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
21 6 0.17
22 15 0.42
23 2 0.06
24 1 0.03
25 12 0.33
ACGTcount: A:0.80, C:0.05, G:0.00, T:0.16
Consensus pattern (23 bp):
AATAAATAAAAATAAAAAACAAA
Found at i:13506415 original size:6 final size:6
Alignment explanation
Indices: 13506357--13506405 Score: 55
Period size: 6 Copynumber: 8.0 Consensus size: 6
13506347 ATTTAATAAT
* *
13506357 TAAAAA TAACAA CAACAAA -AATAAA TAAAAA TAAAAA TAAAAA TAAAAA
1 TAAAAA TAAAAA TAA-AAA TAA-AAA TAAAAA TAAAAA TAAAAA TAAAAA
13506406 AAATAAAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
6 33 0.89
7 4 0.11
ACGTcount: A:0.80, C:0.06, G:0.00, T:0.14
Consensus pattern (6 bp):
TAAAAA
Found at i:13506425 original size:21 final size:21
Alignment explanation
Indices: 13506373--13506415 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
13506363 TAACAACAAC
13506373 AAAAATAAATAAAAATAAAAAT
1 AAAAATAAA-AAAAATAAAAAT
13506395 AAAAATAAAAAAAATAAAAAT
1 AAAAATAAAAAAAATAAAAAT
13506416 TGAGAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (21 bp):
AAAAATAAAAAAAATAAAAAT
Found at i:13510145 original size:19 final size:20
Alignment explanation
Indices: 13510121--13510165 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
13510111 AACCCCAAAA
*
13510121 TGAAACCTTAAATC-CTAGG
1 TGAAACCTTAAAACTCTAGG
*
13510140 TGAAA-CTTAAAACTTTAGG
1 TGAAACCTTAAAACTCTAGG
13510159 TGAAACC
1 TGAAACC
13510166 CTACACTACA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 7 0.32
19 14 0.64
20 1 0.05
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.27
Consensus pattern (20 bp):
TGAAACCTTAAAACTCTAGG
Found at i:13510269 original size:13 final size:13
Alignment explanation
Indices: 13510259--13510286 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
13510249 TGTAAAACTC
13510259 TAAAATGAAACCT
1 TAAAATGAAACCT
13510272 TAAAATGAAACCT
1 TAAAATGAAACCT
13510285 TA
1 TA
13510287 GACAAAACCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.14, G:0.07, T:0.25
Consensus pattern (13 bp):
TAAAATGAAACCT
Found at i:13510734 original size:46 final size:46
Alignment explanation
Indices: 13510634--13510832 Score: 138
Period size: 46 Copynumber: 4.3 Consensus size: 46
13510624 CTTTAGGCAT
* * * * * *
13510634 AATCTCTAAAATTTCTCGAATAAAAATTTTTGAAATTTTGGATATG
1 AATCCCTAAAATTTTTCAAATAAGAATATTTGAAATTTTGGATATA
* *
13510680 AATCCCTAAAATTTTTCAAATAAGAATATTTG-TATTTTAGGATTTA
1 AATCCCTAAAATTTTTCAAATAAGAATATTTGAAATTTT-GGATATA
* * * * *
13510726 AATTCCTAAAATTTTTAAAATAAGAATCA-TTAAAATTTTAGATGTA
1 AATCCCTAAAATTTTTCAAATAAGAAT-ATTTGAAATTTTGGATATA
* * ** * * *
13510772 AA-CCTCAAAAATTTTTTAAAATTTGAATCTTTG-AATTTTGGATGTG
1 AATCC-CTAAAA-TTTTTCAAATAAGAATATTTGAAATTTTGGATATA
13510818 AA-CCTCTAAAATTTT
1 AATCC-CTAAAATTTT
13510833 CGAGTGTGAA
Statistics
Matches: 124, Mismatches: 23, Indels: 13
0.77 0.14 0.08
Matches are distributed among these distances:
45 10 0.08
46 92 0.74
47 22 0.18
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.42
Consensus pattern (46 bp):
AATCCCTAAAATTTTTCAAATAAGAATATTTGAAATTTTGGATATA
Found at i:13510870 original size:44 final size:44
Alignment explanation
Indices: 13510795--13510887 Score: 114
Period size: 44 Copynumber: 2.1 Consensus size: 44
13510785 TTTTAAAATT
* * * * *
13510795 TGAATCTTTGAATTTTGGATGTGAACCTCTAAAATTTTCGAGTG
1 TGAATATTTGAATTTTGAATATGAACCTCTAAAATGTTCGAATG
* **
13510839 TGAATATTTGGATTTTGAATATGAATTTCTAAAATGTTCGAATG
1 TGAATATTTGAATTTTGAATATGAACCTCTAAAATGTTCGAATG
13510883 TGAAT
1 TGAAT
13510888 CTTTAAAGGT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (44 bp):
TGAATATTTGAATTTTGAATATGAACCTCTAAAATGTTCGAATG
Found at i:13511048 original size:19 final size:19
Alignment explanation
Indices: 13511024--13511088 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
13511014 TCGTGCAAAC
13511024 CTTTGAATCTTTTGTGAAT
1 CTTTGAATCTTTTGTGAAT
* * *
13511043 CTTTGAATTTTTTCTAAAT
1 CTTTGAATCTTTTGTGAAT
* ** * *
13511062 TTTTGAATGATTTGAGAGT
1 CTTTGAATCTTTTGTGAAT
13511081 CTTTGAAT
1 CTTTGAAT
13511089 TTATTTGCAA
Statistics
Matches: 35, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.25, C:0.08, G:0.15, T:0.52
Consensus pattern (19 bp):
CTTTGAATCTTTTGTGAAT
Found at i:13511149 original size:22 final size:22
Alignment explanation
Indices: 13511124--13511180 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
13511114 TGAAAAGCTA
*
13511124 TGAATTTCAAATTGTGAACCTT
1 TGAATTTCAAATTGGGAACCTT
* * *
13511146 TGAATGTCAAGTTGGGAATCTT
1 TGAATTTCAAATTGGGAACCTT
13511168 TGAATTTCAAATT
1 TGAATTTCAAATT
13511181 ACAAATTTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.40
Consensus pattern (22 bp):
TGAATTTCAAATTGGGAACCTT
Found at i:13513517 original size:30 final size:31
Alignment explanation
Indices: 13513467--13513526 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
13513457 TGCATTTTCT
13513467 TATTTATCTTTTTAATTTTATCATTTTTTTA
1 TATTTATCTTTTTAATTTTATCATTTTTTTA
*
13513498 TATTTAAT-TTTTTAA-TTTATCTTTTTTTT
1 TATTT-ATCTTTTTAATTTTATCATTTTTTT
13513527 GTAAATGATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 13 0.48
31 12 0.44
32 2 0.07
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (31 bp):
TATTTATCTTTTTAATTTTATCATTTTTTTA
Found at i:13513524 original size:14 final size:14
Alignment explanation
Indices: 13513468--13513524 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
13513458 GCATTTTCTT
13513468 ATTTATC-TTTTTA
1 ATTTATCTTTTTTA
13513481 ATTTTATCATTTTTTTA
1 A-TTTATC--TTTTTTA
*
13513498 TATTTA-ATTTTTTA
1 -ATTTATCTTTTTTA
13513512 ATTTATCTTTTTT
1 ATTTATCTTTTTT
13513525 TTGTAAATGA
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
13 6 0.17
14 19 0.53
17 10 0.28
18 1 0.03
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (14 bp):
ATTTATCTTTTTTA
Found at i:13514855 original size:12 final size:13
Alignment explanation
Indices: 13514828--13514858 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
13514818 TATAATTAAA
*
13514828 TTTTAATATTATT
1 TTTTAAAATTATT
13514841 TTTTAAAATTATT
1 TTTTAAAATTATT
13514854 TTTTA
1 TTTTA
13514859 TTAAAGGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTTAAAATTATT
Done.