Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr3
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: 26558743
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1281270 characters in sequence are not A, C, G, or T
File 77 of 79
Found at i:25765678 original size:3 final size:3
Alignment explanation
Indices: 25765672--25765739 Score: 136
Period size: 3 Copynumber: 22.7 Consensus size: 3
25765662 ATTGTCTGGT
25765672 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
25765720 TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TT
25765740 TAGGTTGAGT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:25771685 original size:4 final size:4
Alignment explanation
Indices: 25771676--25771732 Score: 105
Period size: 4 Copynumber: 14.2 Consensus size: 4
25771666 TTAAAACTTC
*
25771676 ATGT ATGT ATGT ATGT ATGT GTGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
25771724 ATGT ATGT A
1 ATGT ATGT A
25771733 CCTGCAAGAA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 51 1.00
ACGTcount: A:0.25, C:0.00, G:0.26, T:0.49
Consensus pattern (4 bp):
ATGT
Found at i:25773534 original size:37 final size:37
Alignment explanation
Indices: 25773447--25773534 Score: 87
Period size: 33 Copynumber: 2.5 Consensus size: 37
25773437 TTTTTTATGT
* * *
25773447 AAAACAAATTTAAAAAATATAATATATCAAATACATTA
1 AAAATAAA-TTAAAAAATATAATATATCAAACAAATTA
*
25773485 AAAAT--ATT--AAAATA-AATATTTCCAAACAAATTA
1 AAAATAAATTAAAAAATATAATATAT-CAAACAAATTA
25773518 AAAATAAATTAAAAAAT
1 AAAATAAATTAAAAAAT
25773535 TATTTATACT
Statistics
Matches: 41, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
32 6 0.15
33 20 0.49
35 5 0.12
36 1 0.02
37 5 0.12
38 4 0.10
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (37 bp):
AAAATAAATTAAAAAATATAATATATCAAACAAATTA
Found at i:25775273 original size:13 final size:13
Alignment explanation
Indices: 25775255--25775288 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
25775245 TTTAAATTAA
*
25775255 ACTTTTCAAAAGT
1 ACTTTTCAAAAAT
25775268 ACTTTTCAAAAAT
1 ACTTTTCAAAAAT
25775281 ACTTTTCA
1 ACTTTTCA
25775289 CAATTTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.38, C:0.18, G:0.03, T:0.41
Consensus pattern (13 bp):
ACTTTTCAAAAAT
Found at i:25779492 original size:280 final size:282
Alignment explanation
Indices: 25778674--25779534 Score: 732
Period size: 280 Copynumber: 3.0 Consensus size: 282
25778664 GGAATGTTGC
* * *
25778674 TTGAAAATGAAACCTAGCTTGTACTAAAGCTGCATGTAAATTTGA-ACTGGAGACTGGAACAAA-
1 TTGAAAATGAAACCTAACTTGTACCAAAGCTGCATGTAAATTT-ACACTGGAGAATGGAACAAAG
* * * ** * *
25778737 AGATCATGCAAGTTATATAGTGGG-A-ATCATTTAACAGATTATGAAGCTTATATCTTCAATGAG
65 A-ATCATGCAAGTTATATAATGGGAATATCATCTAA-TGATCGTGAAGCTTACATCTTC--TGAC
* * * ****** * * *
25778800 T-TTTTTATTCATTAGTTACAGTGAAAGAGTCCCTGTTTCACTTCGATTTGTTCTTGCTGCACAT
126 TGTCTTT-TT-ATTAGTAACAGTGAAGGAGGGAAACTCTAACTTCAATTTGTTCTTGCTGCACAT
* * * * ** ** **
25778864 TGGTTCTAGGCCTGCTTGTGTTCTTTCACTACAGTTTAGCTTCTTTCT-TTGTATT-AGCTAGAA
189 TGGTTCTAGGCCTGCTTGTGTTCTTTCACTACTGGTTAGCTTATTTGTATTGGCTTCCCCT-GTG
** * * *
25778927 T-CT-AGTGAAA-TTGCATTTTGCCCATGGTGAAATGTT
253 TGCTCA-T-AAACTAACA-CTTGCTC-T--TGCAA---T
* *
25778963 GCTTGAACATGAAACCTAACTTGTACCAAAGCTGCATGTAAATTTACTCTGGAGAATGGAACAAA
1 --TTGAAAATGAAACCTAACTTGTACCAAAGCTGCATGTAAATTTACACTGGAGAATGGAACAAA
25779028 GAATCATGCAAGTTATATAATGGGAAATATCATCTAATGGATCGTGAAGCTTACATCTTCTGACT
64 GAATCATGCAAGTTATATAATGGG-AATATCATCTAAT-GATCGTGAAGCTTACATCTTCTGACT
* * * * *
25779093 TTCTTTTTAATTAGTAACATTGGAGGAGGGACACTTTAACTTCAATTTGTTCTTGCTGCACATTG
127 GTCTTTTT-ATTAGTAACAGTGAAGGAGGGAAACTCTAACTTCAATTTGTTCTTGCTGCACATTG
* * *
25779158 GTTCTAGGTCTGCTTGTGTTCTTTCACTAGTGGTTAGCTTCTTTGTATTGGCTTCCCCTGTGTGC
191 GTTCTAGGCCTGCTTGTGTTCTTTCACTACTGGTTAGCTTATTTGTATTGGCTTCCCCTGTGTGC
25779223 TCATAAACTAACACTTGCTCTTGCAAT
256 TCATAAACTAACACTTGCTCTTGCAAT
* * * *
25779250 TTGAAAATGAAACCTAGCTTGTACTAAAGCTGCATGTTAATTTGCACTGGAGAATGGAACAAAGA
1 TTGAAAATGAAACCTAACTTGTACCAAAGCTGCATGTAAATTTACACTGGAGAATGGAACAAAGA
*
25779315 ATCATGCAAGTTATATAAT-GG-A-ATCATTTAAT-ATACTGTGAAGCTTACATCTT-TGA-TGA
66 ATCATGCAAGTTATATAATGGGAATATCATCTAATGAT-C-GTGAAGCTTACATCTTCTGACT--
* * * ** *
25779374 GTGTATTTT-TTAGTATCAGTGAAGGAGGGATAAC-CTCACTTGTATTTGTTCTTGTTGCACATT
127 GTCT-TTTTATTAGTAACAGTGAAGGAGGGA-AACTCTAACTTCAATTTGTTCTTGCTGCACATT
** ** * *
25779437 GGTTCTCTGCCTGCTTGTGTTCTTTTGCTACTGTTTAGCTTATTTGTATTGGCTTCCCCTTTGTG
190 GGTTCTAGGCCTGCTTGTGTTCTTTCACTACTGGTTAGCTTATTTGTATTGGCTTCCCCTGTGTG
* * * *
25779502 TTCATAAACTGACACTTTCTCTTGTAAT
255 CTCATAAACTAACACTTGCTCTTGCAAT
25779530 TTGAA
1 TTGAA
25779535 GATTAAGAGA
Statistics
Matches: 480, Mismatches: 72, Indels: 47
0.80 0.12 0.08
Matches are distributed among these distances:
279 3 0.01
280 131 0.27
281 29 0.06
282 5 0.01
284 2 0.00
285 78 0.16
287 1 0.00
290 5 0.01
291 77 0.16
292 94 0.20
293 20 0.04
294 34 0.07
295 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (282 bp):
TTGAAAATGAAACCTAACTTGTACCAAAGCTGCATGTAAATTTACACTGGAGAATGGAACAAAGA
ATCATGCAAGTTATATAATGGGAATATCATCTAATGATCGTGAAGCTTACATCTTCTGACTGTCT
TTTTATTAGTAACAGTGAAGGAGGGAAACTCTAACTTCAATTTGTTCTTGCTGCACATTGGTTCT
AGGCCTGCTTGTGTTCTTTCACTACTGGTTAGCTTATTTGTATTGGCTTCCCCTGTGTGCTCATA
AACTAACACTTGCTCTTGCAAT
Found at i:25779603 original size:21 final size:22
Alignment explanation
Indices: 25779560--25779622 Score: 71
Period size: 21 Copynumber: 3.0 Consensus size: 22
25779550 AGAGAAGGCC
*
25779560 AAGAAGGA-AAGGAAGAAAGAA
1 AAGAAGGAGAAGAAAGAAAGAA
25779581 AAGAAGGAGAAGAAAG--AGAA
1 AAGAAGGAGAAGAAAGAAAGAA
25779601 AA-AACGGGAGAAGAAAGAAAGA
1 AAGAA--GGAGAAGAAAGAAAGA
25779623 GATAAGTCTC
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
19 2 0.06
20 6 0.17
21 19 0.53
22 6 0.17
23 3 0.08
ACGTcount: A:0.65, C:0.02, G:0.33, T:0.00
Consensus pattern (22 bp):
AAGAAGGAGAAGAAAGAAAGAA
Found at i:25781663 original size:125 final size:125
Alignment explanation
Indices: 25781359--25781710 Score: 451
Period size: 126 Copynumber: 2.8 Consensus size: 125
25781349 TAATTTCGAG
** * * * *
25781359 TTGACGTTTCTGATAAAATAATATAAAATCGCCTCTAGCAAGATGGTCTTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
* * * * * *
25781424 AAATTGCGCCCTAGTGAACGCGCTTTTGTTATAGTAGGTTACAGAAGAAATAATTATTTTT
66 AAATTGCGCCCTCGT-AGCGCACTTTTGCTACAGTAGGTTACAGAAGAAATAAATATTTTT
*
25781485 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
*
25781550 AAATTGCGGCCTCGTCAGCGCACTTTTGCTACAGTAGG-T-CATGTAAGAAATAAAT-TTTTT
66 AAATTGCGCCCTCGT-AGCGCACTTTTGCTACAGTAGGTTACA-G-AAGAAATAAATATTTTT
* * *
25781610 TTGACGTTTCTGAGCAAATAATATAAAATCACTTATAGCAGGATGCTATTTGAGAAGAATTTTTG
1 TTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
* *
25781675 AAATCGCGCCCTCGTGGACGCGA-TTTTGCTACAGTA
66 AAATTGCGCCCTCGTAG-CGC-ACTTTTGCTACAGTA
25781711 ACATGTTTGG
Statistics
Matches: 200, Mismatches: 22, Indels: 9
0.87 0.10 0.04
Matches are distributed among these distances:
124 3 0.01
125 97 0.49
126 100 0.50
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.34
Consensus pattern (125 bp):
TTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
AAATTGCGCCCTCGTAGCGCACTTTTGCTACAGTAGGTTACAGAAGAAATAAATATTTTT
Found at i:25783242 original size:26 final size:26
Alignment explanation
Indices: 25783204--25783253 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
25783194 GATAGCTAAG
*
25783204 CAAAAGGCGTTGGAGAAAATGCATGA
1 CAAAAGGCATTGGAGAAAATGCATGA
*
25783230 CAAAAGGCATTGGAGAAGATGCAT
1 CAAAAGGCATTGGAGAAAATGCAT
25783254 AGTGGGTGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.42, C:0.12, G:0.30, T:0.16
Consensus pattern (26 bp):
CAAAAGGCATTGGAGAAAATGCATGA
Found at i:25785254 original size:23 final size:23
Alignment explanation
Indices: 25785224--25785268 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
25785214 NNNNNNNNNN
25785224 TTAATTAGGTTAGGGTTTTCAAC
1 TTAATTAGGTTAGGGTTTTCAAC
25785247 TTAATTAGGTTAGGGTTTTCAA
1 TTAATTAGGTTAGGGTTTTCAA
25785269 TTTTTATCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.27, C:0.07, G:0.22, T:0.44
Consensus pattern (23 bp):
TTAATTAGGTTAGGGTTTTCAAC
Found at i:25785305 original size:25 final size:25
Alignment explanation
Indices: 25785270--25785430 Score: 174
Period size: 25 Copynumber: 6.6 Consensus size: 25
25785260 GGTTTTCAAT
*
25785270 TTTTATCACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
*
25785295 TTTTATTACATCATATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
25785320 TTTTATTACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
25785345 TTTTATTACATCAAAT-AA-TATC-A
1 TTTTATTACATCAAATAAACT-TCTA
** * * * *
25785368 --AAATAAC-TCAAAAAAATTTCAA
1 TTTTATTACATCAAATAAACTTCTA
25785390 TTTTTATTACATC-AATAAAACTTCTA
1 -TTTTATTACATCAAAT-AAACTTCTA
25785416 TTTTATTACATCAAA
1 TTTTATTACATCAAA
25785431 CAAAGTTTAA
Statistics
Matches: 113, Mismatches: 13, Indels: 19
0.78 0.09 0.13
Matches are distributed among these distances:
20 5 0.04
21 8 0.07
22 2 0.02
23 2 0.02
24 4 0.04
25 81 0.72
26 11 0.10
ACGTcount: A:0.43, C:0.16, G:0.00, T:0.42
Consensus pattern (25 bp):
TTTTATTACATCAAATAAACTTCTA
Found at i:25787739 original size:51 final size:51
Alignment explanation
Indices: 25787683--25787805 Score: 203
Period size: 51 Copynumber: 2.4 Consensus size: 51
25787673 TATTTTAAAA
* *
25787683 AAGGAAATTGAGAAGAAATTGAAATTAAATATGGATTTGAGAGAATTTTTG
1 AAGGAAATTGAGAAGAAATTGAAATTAAATATAGATTTGAGAGAATTTTGG
*
25787734 AAGGAAATTGAGAGGAAATTGAAATTAAATATAGATTTGAGAGAATTTTGG
1 AAGGAAATTGAGAAGAAATTGAAATTAAATATAGATTTGAGAGAATTTTGG
*
25787785 AAGGAAATTGAG-AGGAATTGA
1 AAGGAAATTGAGAAGAAATTGA
25787806 GAGGAAATAT
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
50 7 0.10
51 60 0.90
ACGTcount: A:0.46, C:0.00, G:0.26, T:0.28
Consensus pattern (51 bp):
AAGGAAATTGAGAAGAAATTGAAATTAAATATAGATTTGAGAGAATTTTGG
Found at i:25790884 original size:102 final size:101
Alignment explanation
Indices: 25790701--25790901 Score: 312
Period size: 102 Copynumber: 2.0 Consensus size: 101
25790691 ACATTACCTT
*
25790701 TCAAGACCCCCCTATCCGGTAGCTACATTGGACTTAAATAAACCCGAAGTTTAGCCAAATTAGAC
1 TCAAGACCCCCCTATCCGGTAGCTACATTGAACTTAAATAAACCCGAAGTTTAGCCAAATTAGAC
* **
25790766 CCTTACGAAAGCAAGCTCTCCTAGTGGTATTTTCAA
66 CCTTAAGAAAGCAAGCTCTCCTACCGGTATTTTCAA
* * * * *
25790802 TCAAGACTCCCCCTATCTGGTAGCTACGTTGAACTTAACTAAACCCGGAGTTTAGCCGAATTAGA
1 TCAAGAC-CCCCCTATCCGGTAGCTACATTGAACTTAAATAAACCCGAAGTTTAGCCAAATTAGA
25790867 CCCTTAAGAAAGCAAGCTCTCCTACCGGTATTTTC
65 CCCTTAAGAAAGCAAGCTCTCCTACCGGTATTTTC
25790902 TCCACTCCTA
Statistics
Matches: 90, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
101 7 0.08
102 83 0.92
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.26
Consensus pattern (101 bp):
TCAAGACCCCCCTATCCGGTAGCTACATTGAACTTAAATAAACCCGAAGTTTAGCCAAATTAGAC
CCTTAAGAAAGCAAGCTCTCCTACCGGTATTTTCAA
Found at i:25791398 original size:2 final size:2
Alignment explanation
Indices: 25791391--25791430 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
25791381 ACAAGGCTTG
25791391 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
25791431 AACTTCAATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:25796679 original size:30 final size:31
Alignment explanation
Indices: 25796643--25796709 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
25796633 ATTAAATCGT
*
25796643 AATTTTTATAATTTTTAAAAGA-TTAAATTA-
1 AATTTTTA-AATTTTTAAAAGAGTTAAACTAC
* *
25796673 AATTTTTAATTTTTTAAATGAGTTAAACTAC
1 AATTTTTAAATTTTTAAAAGAGTTAAACTAC
25796704 AATTTT
1 AATTTT
25796710 ACTTTTATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 11 0.34
30 15 0.47
31 6 0.19
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (31 bp):
AATTTTTAAATTTTTAAAAGAGTTAAACTAC
Found at i:25797719 original size:34 final size:35
Alignment explanation
Indices: 25797661--25797727 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
25797651 CAAACACCAG
25797661 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
25797696 AAAATATTTTCCCG-AAATCATTTTACGGAAAA
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAA
25797728 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.45, C:0.13, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:25800461 original size:31 final size:32
Alignment explanation
Indices: 25800425--25800495 Score: 101
Period size: 31 Copynumber: 2.2 Consensus size: 32
25800415 TTATAAAATG
25800425 GTCACTAAACTATTTGAAAGT-TTTCA-TTTAA
1 GTCACTAAACTATTTGAAAGTCTTT-ATTTTAA
*
25800456 GTCACTGAACTATTTGAAAGTCTTTATTTTTAA
1 GTCACTAAACTATTTGAAAGTCTTTA-TTTTAA
25800489 GTCACTA
1 GTCACTA
25800496 GGTTGTTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
31 21 0.60
32 3 0.09
33 11 0.31
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.42
Consensus pattern (32 bp):
GTCACTAAACTATTTGAAAGTCTTTATTTTAA
Found at i:25802144 original size:1 final size:1
Alignment explanation
Indices: 25802140--25802170 Score: 53
Period size: 1 Copynumber: 31.0 Consensus size: 1
25802130 AATTTCCTAC
*
25802140 TTTTTTGTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
25802171 ATATAATTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.03, T:0.97
Consensus pattern (1 bp):
T
Found at i:25802174 original size:45 final size:44
Alignment explanation
Indices: 25802114--25802209 Score: 156
Period size: 44 Copynumber: 2.2 Consensus size: 44
25802104 TTGTGGTCGG
* * *
25802114 TTTTTTTTTTTTATATAATTTCCTACTTTTTTGTTTTTTTTTTTT
1 TTTTTTTTTTTTATATAATTT-CAACTTCTTTGGTTTTTTTTTTT
25802159 TTTTTTTTTTTTATATAATTTCAACTTCTTTGGTTTTTTTTTTT
1 TTTTTTTTTTTTATATAATTTCAACTTCTTTGGTTTTTTTTTTT
25802203 TTTTTTT
1 TTTTTTT
25802210 GATCTTTCTT
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
44 27 0.56
45 21 0.44
ACGTcount: A:0.11, C:0.06, G:0.03, T:0.79
Consensus pattern (44 bp):
TTTTTTTTTTTTATATAATTTCAACTTCTTTGGTTTTTTTTTTT
Found at i:25802476 original size:4 final size:4
Alignment explanation
Indices: 25802464--25802509 Score: 85
Period size: 4 Copynumber: 11.8 Consensus size: 4
25802454 AGGCAGGAAG
25802464 GTAT G-AT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTA
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTA
25802510 GGTGGTCATG
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 3 0.07
4 38 0.93
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (4 bp):
GTAT
Found at i:25814281 original size:146 final size:145
Alignment explanation
Indices: 25814055--25814409 Score: 570
Period size: 146 Copynumber: 2.4 Consensus size: 145
25814045 ACTAATTCCA
* * * * * * *
25814055 AAATTAGAGCATAATAGAAGGG-CCAAAATCAGAACTTGA-CCCTGGTTTTAACCATGGATGAGC
1 AAATTTGAGCATAACAG-AGGGACCAAAACCAGAATTTGACCCCTAGTTTCAGCCATGGATGAGC
* *
25814118 AAACTACTATTTGATTGGAATTCTAACGATATTTTGATTAACTAAAGGAAAAGAATCATGCCAAA
65 AAAATACTATTTGATTGGAATTCTAACGATATTTTGATCAACTAAAGGAAAAGAATCATGCCAAA
25814183 TTATAAACACAACCCC
130 TTATAAACACAACCCC
25814199 AAATTTGAGCATAACAGAGGGACCAAAACCAGAATTTGACCCGCTAGTTTCAGCCATGGATGAGC
1 AAATTTGAGCATAACAGAGGGACCAAAACCAGAATTTGACCC-CTAGTTTCAGCCATGGATGAGC
25814264 AAAATACTATTTGATTGGAATTCTAACGATATTTTGATCAACTAAAGGAAAAGAATCATGCCAAA
65 AAAATACTATTTGATTGGAATTCTAACGATATTTTGATCAACTAAAGGAAAAGAATCATGCCAAA
*
25814329 TTATAAGCACAACCCC
130 TTATAAACACAACCCC
*
25814345 AAATTTGAGCATAACAGAGGGACCAAAACCAGAATTTGACCCTCTAGTTTCGGCCATGGATGAGC
1 AAATTTGAGCATAACAGAGGGACCAAAACCAGAATTTGACCC-CTAGTTTCAGCCATGGATGAGC
25814410 TGAGAAAAAG
Statistics
Matches: 196, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
143 4 0.02
144 30 0.15
145 2 0.01
146 160 0.82
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.24
Consensus pattern (145 bp):
AAATTTGAGCATAACAGAGGGACCAAAACCAGAATTTGACCCCTAGTTTCAGCCATGGATGAGCA
AAATACTATTTGATTGGAATTCTAACGATATTTTGATCAACTAAAGGAAAAGAATCATGCCAAAT
TATAAACACAACCCC
Found at i:25821182 original size:20 final size:20
Alignment explanation
Indices: 25821157--25821197 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
25821147 TTCGTGTTAC
25821157 TTGTTCAAGTCATTTCAAGT
1 TTGTTCAAGTCATTTCAAGT
25821177 TTGTTCAAGTCATTTCAAGT
1 TTGTTCAAGTCATTTCAAGT
25821197 T
1 T
25821198 CAAGTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.46
Consensus pattern (20 bp):
TTGTTCAAGTCATTTCAAGT
Found at i:25821200 original size:16 final size:17
Alignment explanation
Indices: 25821158--25821202 Score: 56
Period size: 20 Copynumber: 2.5 Consensus size: 17
25821148 TCGTGTTACT
25821158 TGTTCAAGTCATTTCAA
1 TGTTCAAGTCATTTCAA
25821175 GTTTGTTCAAGTCATTTCAA
1 ---TGTTCAAGTCATTTCAA
25821195 -GTTCAAGT
1 TGTTCAAGT
25821203 TTTTTTCTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.32
20 17 0.68
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.42
Consensus pattern (17 bp):
TGTTCAAGTCATTTCAA
Found at i:25821407 original size:29 final size:29
Alignment explanation
Indices: 25821365--25821423 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
25821355 GGGTTAAAAT
25821365 TGAAAACTATACATATATGGTCTCCATGG
1 TGAAAACTATACATATATGGTCTCCATGG
25821394 TGAAAACTATACATATATGGTCTCCATGG
1 TGAAAACTATACATATATGGTCTCCATGG
25821423 T
1 T
25821424 ACATGTAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (29 bp):
TGAAAACTATACATATATGGTCTCCATGG
Found at i:25824618 original size:13 final size:14
Alignment explanation
Indices: 25824592--25824639 Score: 55
Period size: 13 Copynumber: 3.4 Consensus size: 14
25824582 CCCATTATCC
25824592 AAAACAAAAGGAAAA-
1 AAAAC-AAA-GAAAAG
25824607 AAAACAAAGAAAAG
1 AAAACAAAGAAAAG
*
25824621 AAAA-AAAGAAATG
1 AAAACAAAGAAAAG
25824634 AAAACA
1 AAAACA
25824640 TAAAAAAGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
13 17 0.57
14 8 0.27
15 5 0.17
ACGTcount: A:0.79, C:0.06, G:0.12, T:0.02
Consensus pattern (14 bp):
AAAACAAAGAAAAG
Found at i:25824636 original size:18 final size:17
Alignment explanation
Indices: 25824604--25824647 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
25824594 AACAAAAGGA
* *
25824604 AAAAAAACAAAGAAAAG
1 AAAAAAAGAAAGAAAAC
25824621 AAAAAAAGAAATGAAAAC
1 AAAAAAAGAAA-GAAAAC
25824639 ATAAAAAAG
1 A-AAAAAAG
25824648 TAACATCATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 10 0.43
18 6 0.26
19 7 0.30
ACGTcount: A:0.80, C:0.05, G:0.11, T:0.05
Consensus pattern (17 bp):
AAAAAAAGAAAGAAAAC
Found at i:25825555 original size:66 final size:65
Alignment explanation
Indices: 25825447--25825617 Score: 207
Period size: 66 Copynumber: 2.6 Consensus size: 65
25825437 AGGAGGAGAA
* * **
25825447 GGATCTGAGTAACCGTTATGGCCGCTAACGGAATATTCAAAAGACGGTGCCGTTGGCGCAAAAGA
1 GGATCTGAGTAACCGTTATGG-TGCTAACGGAATATTGAAAAGACGCAGCCGTTGGCGCAAAAGA
25825512 C
65 C
* * *
25825513 GGATCTGAGTAACCGTTATGGTGACTGACGGAATATTGAAAAGACTCAGCCGTTGGTGCAAAAGA
1 GGATCTGAGTAACCGTTATGGTG-CTAACGGAATATTGAAAAGACGCAGCCGTTGGCGCAAAAGA
25825578 C
65 C
* *** *
25825579 GGAGCTGAGTGGTCGTTACGGTGTCTAACGGAATATTGA
1 GGATCTGAGTAACCGTTATGGTG-CTAACGGAATATTGA
25825618 GGATAGTCCG
Statistics
Matches: 90, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
65 1 0.01
66 89 0.99
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.23
Consensus pattern (65 bp):
GGATCTGAGTAACCGTTATGGTGCTAACGGAATATTGAAAAGACGCAGCCGTTGGCGCAAAAGAC
Found at i:25828758 original size:29 final size:29
Alignment explanation
Indices: 25828715--25828770 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
25828705 GTTGAGATTT
*
25828715 TGTCAATTTAGTCCTTATACTAATAAATG
1 TGTCAATTTAATCCTTATACTAATAAATG
*
25828744 TGTCAATTTAATCCTTATACTATTAAA
1 TGTCAATTTAATCCTTATACTAATAAA
25828771 AGAAATTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (29 bp):
TGTCAATTTAATCCTTATACTAATAAATG
Found at i:25830638 original size:77 final size:76
Alignment explanation
Indices: 25830555--25830700 Score: 204
Period size: 76 Copynumber: 1.9 Consensus size: 76
25830545 CTCATAGAAA
*
25830555 GGCTTCTCAAATATCGTACATC-AGATTTCAAATTATGTTTTTATTACTTTATTTTCTTTTCAAG
1 GGCTTCTCAAATAT-GTACATCAAG-TTTCAAATTATGTTTTTATTACTTTATTTTATTTTCAAG
25830619 CAATATATATAAG
64 CAATATATATAAG
* * * * * *
25830632 GGCTTCTTAAATGTTTATATCAAGTTTCAAATTATGTTTTTATTATTTTCTTTTATTTTCAAGCA
1 GGCTTCTCAAATATGTACATCAAGTTTCAAATTATGTTTTTATTACTTTATTTTATTTTCAAGCA
25830697 ATAT
66 ATAT
25830701 TTGATTCAAC
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
76 47 0.77
77 14 0.23
ACGTcount: A:0.29, C:0.12, G:0.09, T:0.49
Consensus pattern (76 bp):
GGCTTCTCAAATATGTACATCAAGTTTCAAATTATGTTTTTATTACTTTATTTTATTTTCAAGCA
ATATATATAAG
Found at i:25831757 original size:24 final size:24
Alignment explanation
Indices: 25831729--25831779 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
25831719 AAAACAAAGA
*
25831729 TTAAAACATACGCAAAACCGGGAC
1 TTAAAACATACCCAAAACCGGGAC
25831753 TTAAAACATACCCAAAACCGGGAC
1 TTAAAACATACCCAAAACCGGGAC
25831777 TTA
1 TTA
25831780 CATGATCATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.45, C:0.25, G:0.14, T:0.16
Consensus pattern (24 bp):
TTAAAACATACCCAAAACCGGGAC
Found at i:25837086 original size:95 final size:95
Alignment explanation
Indices: 25836923--25837098 Score: 316
Period size: 95 Copynumber: 1.9 Consensus size: 95
25836913 AAAGTGTGAG
* *
25836923 ATTTGGATAAGGAATCACTGCATAATCGTGAGACTGTTTGGGTTAAGCAGTCAACGCATGTATCA
1 ATTTGGATAAGGAATCACTGCATAATCGTGAGACTGTTTGGGTCAAGCAGTCAACACATGTATCA
*
25836988 CTCGCTTTCTTAATAAGCTTGGTTTGCTTC
66 CTCGATTTCTTAATAAGCTTGGTTTGCTTC
*
25837018 ATTTGGATAAGGAATCACTGCATAATCGTGAGATTGTTTGGGTCAAGCAGTCAACACATGTATCA
1 ATTTGGATAAGGAATCACTGCATAATCGTGAGACTGTTTGGGTCAAGCAGTCAACACATGTATCA
25837083 CTCGATTTCTTAATAA
66 CTCGATTTCTTAATAA
25837099 TCGAGGGATT
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
95 77 1.00
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (95 bp):
ATTTGGATAAGGAATCACTGCATAATCGTGAGACTGTTTGGGTCAAGCAGTCAACACATGTATCA
CTCGATTTCTTAATAAGCTTGGTTTGCTTC
Found at i:25842500 original size:174 final size:170
Alignment explanation
Indices: 25842193--25842585 Score: 533
Period size: 174 Copynumber: 2.3 Consensus size: 170
25842183 AGACAAAATG
*
25842193 GCCATTCGAGTCATGTTTTCCATCACCAAATGCCATCATGTCACAATAAGGACTAGTTCTAGCAA
1 GCCATTCGAGT-ATGTTTTCCACCACCAAATGCCATCATGTCACAATAAGGACTAGTTCTAGCAA
*
25842258 AGTAAAACAATAAGGTAAGTCAGGTCAAGATCCTTATCTTTGCAATAAAGGAGAGAAATGCTGAC
65 AGTAAAACAATAAGGTAAGTCAGGTCAAGATCCTTATCTTTGCAAGAAAGGAGAGAAATGCTGAC
*
25842323 AAAATATGTCTTCATTAGATGCTAC-AAGGATAATAAGACCA
130 AAAATATGTCTTCATGAGATGCTACAAAGG-TAATAAGACCA
* * * *
25842364 GCCATTCGAGTGATGTTTTTCACCACCAAATGCCATCACGTCACAAT-AGGCCTAGTTCTAGCTA
1 GCCATTCGAGT-ATGTTTTCCACCACCAAATGCCATCATGTCACAATAAGGACTAGTTCTAGCAA
25842428 AGT-AAACAATAAGGTACGGTATGTCAGGTCAAGATCCTTATCTTTGCAAGAAAGGAGAGAAATG
65 AGTAAAACAATAAGGTA----A-GTCAGGTCAAGATCCTTATCTTTGCAAGAAAGGAGAGAAATG
* * **
25842492 -TAGACAAAATATGTCTTCATGATATGGTACAAAGGTAATAAGACTG
125 CT-GACAAAATATGTCTTCATGAGATGCTACAAAGGTAATAAGACCA
* * *
25842538 GCCATTCTAGTATCGTTTGCCACCACCAAAATGCCATCATGCCACAAT
1 GCCATTCGAGTAT-GTTTTCCACCACC-AAATGCCATCATGTCACAAT
25842586 TGCCCACGTA
Statistics
Matches: 196, Mismatches: 17, Indels: 14
0.86 0.07 0.06
Matches are distributed among these distances:
169 13 0.07
170 18 0.09
171 43 0.22
173 4 0.02
174 96 0.49
175 22 0.11
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (170 bp):
GCCATTCGAGTATGTTTTCCACCACCAAATGCCATCATGTCACAATAAGGACTAGTTCTAGCAAA
GTAAAACAATAAGGTAAGTCAGGTCAAGATCCTTATCTTTGCAAGAAAGGAGAGAAATGCTGACA
AAATATGTCTTCATGAGATGCTACAAAGGTAATAAGACCA
Found at i:25848862 original size:164 final size:164
Alignment explanation
Indices: 25848398--25849013 Score: 844
Period size: 164 Copynumber: 3.7 Consensus size: 164
25848388 ATGCAATTCT
* * * * *
25848398 TTACATTTATTCG-TGAGGACTCGAAACTTGCCCATCACATGAGTATGACAGAGACTTTAGCTCC
1 TTACATTTATT-GATGAGTACTCGAAACTTGTCCGTTACATGAGCATGACAGAGACTTTAGCTCC
* *
25848462 AGTATCATGTGGCCTTAGGCTCAAAACTTCCGTCCTTACGTCAACTTATGTCTAAGTTTTATGTA
65 GGTATCATGTGGCCTTAGGCTCAAAACTTCCGTCCTTACGTCAACGTATGTCTAAGTTTTATGTA
*
25848527 TATGCAACTTTTTCTAATGTGTAACGTTGATTTTC
130 TATGCAACTTTTTCTAATGTGTAACGCTGATTTTC
* * *
25848562 TTACATTTATTGATGAATACTCGAAACATGTCGGTTACATGAGCATGACAGAG-CTTTAGCTCCG
1 TTACATTTATTGATGAGTACTCGAAACTTGTCCGTTACATGAGCATGACAGAGACTTTAGCTCCG
25848626 GTATCATGTGGCCTTAGGCTCAAAACTTCCGTCCTTACGTCAACGTATGTCTAAGTTTTATGTAT
66 GTATCATGTGGCCTTAGGCTCAAAACTTCCGTCCTTACGTCAACGTATGTCTAAGTTTTATGTAT
* *
25848691 ATGCAACTTGTTCTAATGTGTAACACTGATTTTC
131 ATGCAACTTTTTCTAATGTGTAACGCTGATTTTC
* *
25848725 TTACATTTATTGACGAGTACTCGAAACTTGTCCGTTACATGAGCATGACAGAGACTTTAGTTCCG
1 TTACATTTATTGATGAGTACTCGAAACTTGTCCGTTACATGAGCATGACAGAGACTTTAGCTCCG
* * *
25848790 GTATCATGTGGCCTTAGGCTCAAAACTTCCGTCCTTACGTTAAGGTATGTCTAAGTTATATGTAT
66 GTATCATGTGGCCTTAGGCTCAAAACTTCCGTCCTTACGTCAACGTATGTCTAAGTTTTATGTAT
25848855 ATGCAACTTTTTCTAATGTGTAACGCTGATTTTC
131 ATGCAACTTTTTCTAATGTGTAACGCTGATTTTC
* * * * * *
25848889 CTACCTTTATTAAAGAGTACTCGAAACTTGTCCGTCCGTTGCATGAGAATGGA-AGAGACTTTAG
1 TTACATTTATTGATGAGTACTCGAAAC-T-T--GTCCGTTACATGAGCAT-GACAGAGACTTTAG
* * * * * * * * *
25848953 CTCCGGCATCTTGCCGTCC-TAGACTCAAAACTTACGTCCTTACATCAACATACGTCTAAGT
61 CTCCGGTATCATG-TGGCCTTAGGCTCAAAACTTCCGTCCTTACGTCAACGTATGTCTAAGT
25849014 CGTCAACGTT
Statistics
Matches: 403, Mismatches: 41, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
163 155 0.38
164 170 0.42
165 1 0.00
166 1 0.00
168 71 0.18
169 5 0.01
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (164 bp):
TTACATTTATTGATGAGTACTCGAAACTTGTCCGTTACATGAGCATGACAGAGACTTTAGCTCCG
GTATCATGTGGCCTTAGGCTCAAAACTTCCGTCCTTACGTCAACGTATGTCTAAGTTTTATGTAT
ATGCAACTTTTTCTAATGTGTAACGCTGATTTTC
Found at i:25854268 original size:11 final size:11
Alignment explanation
Indices: 25854249--25854292 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
25854239 AACACCGAAC
*
25854249 TTTTTGGGTAA
1 TTTTCGGGTAA
25854260 TTTTCGGGTAA
1 TTTTCGGGTAA
25854271 --TTCGGGTAA
1 TTTTCGGGTAA
*
25854280 TTTTTGGGTAA
1 TTTTCGGGTAA
25854291 TT
1 TT
25854293 CAGTTAATTC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 9 0.31
11 20 0.69
ACGTcount: A:0.18, C:0.05, G:0.27, T:0.50
Consensus pattern (11 bp):
TTTTCGGGTAA
Found at i:25854276 original size:9 final size:9
Alignment explanation
Indices: 25854262--25854336 Score: 71
Period size: 9 Copynumber: 8.2 Consensus size: 9
25854252 TTGGGTAATT
25854262 TTCGGGTAA
1 TTCGGGTAA
25854271 TTCGGGTAA
1 TTCGGGTAA
*
25854280 TTTTTGGGTAA
1 --TTCGGGTAA
* *
25854291 TTCAGTTAA
1 TTCGGGTAA
**
25854300 TTCGATTAA
1 TTCGGGTAA
*
25854309 TTCGGTTAA
1 TTCGGGTAA
25854318 -TCGGGTAA
1 TTCGGGTAA
25854326 TTCGGGTAA
1 TTCGGGTAA
25854335 TT
1 TT
25854337 TTTAACCAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
8 7 0.13
9 40 0.73
11 8 0.15
ACGTcount: A:0.24, C:0.09, G:0.25, T:0.41
Consensus pattern (9 bp):
TTCGGGTAA
Found at i:25854279 original size:20 final size:20
Alignment explanation
Indices: 25854254--25854338 Score: 81
Period size: 20 Copynumber: 4.5 Consensus size: 20
25854244 CGAACTTTTT
25854254 GGGTAATTTTCGGGTAATTC
1 GGGTAATTTTCGGGTAATTC
*
25854274 GGGTAATTTTTGGGTAATTC
1 GGGTAATTTTCGGGTAATTC
* * **
25854294 AGTTAA--TTCGATTAATTC
1 GGGTAATTTTCGGGTAATTC
*
25854312 GGTTAA---TCGGGTAATTC
1 GGGTAATTTTCGGGTAATTC
25854329 GGGTAATTTT
1 GGGTAATTTT
25854339 TAACCAAAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
17 14 0.27
18 14 0.27
20 24 0.46
ACGTcount: A:0.24, C:0.08, G:0.26, T:0.42
Consensus pattern (20 bp):
GGGTAATTTTCGGGTAATTC
Found at i:25859653 original size:47 final size:46
Alignment explanation
Indices: 25859590--25859683 Score: 134
Period size: 47 Copynumber: 2.0 Consensus size: 46
25859580 GTCACCAAAC
* * ** *
25859590 TATGAAAAGTTACAAAATAGTCATTCAACTATTTAATTTTGTCTTT
1 TATGAAAAATTACAAAATAATCACCCAACTATTCAATTTTGTCTTT
25859636 TATGAAAAAATTACAAAATAATCACCCAACTATTCAATTTTGTCTTT
1 TATG-AAAAATTACAAAATAATCACCCAACTATTCAATTTTGTCTTT
25859683 T
1 T
25859684 CTAGTCACCA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
46 4 0.10
47 38 0.90
ACGTcount: A:0.39, C:0.14, G:0.06, T:0.40
Consensus pattern (46 bp):
TATGAAAAATTACAAAATAATCACCCAACTATTCAATTTTGTCTTT
Found at i:25863110 original size:2 final size:2
Alignment explanation
Indices: 25863103--25863140 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
25863093 AGCTGACATC
25863103 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
25863141 AAATAGTAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:25866702 original size:30 final size:31
Alignment explanation
Indices: 25866640--25866713 Score: 80
Period size: 30 Copynumber: 2.4 Consensus size: 31
25866630 AATATATATA
* *
25866640 ATGACAATAAAATATACTTATATTTAATAAAT
1 ATGA-AATAAAATATAATGATATTTAATAAAT
25866672 ATGAAATAAAA-ATAATGATATTTTAA-AAAT
1 ATGAAATAAAATATAATGATA-TTTAATAAAT
**
25866702 AAAAAATAAAAT
1 ATGAAATAAAAT
25866714 GTACGGATCT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
30 20 0.56
31 12 0.33
32 4 0.11
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.32
Consensus pattern (31 bp):
ATGAAATAAAATATAATGATATTTAATAAAT
Found at i:25870964 original size:17 final size:17
Alignment explanation
Indices: 25870942--25870985 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
25870932 TCCGAACATA
*
25870942 TATTTGTAATTATATTG
1 TATTTGTAATTATATTC
25870959 TATTTGTGAA-TATATTC
1 TATTTGT-AATTATATTC
25870976 TATTTGTAAT
1 TATTTGTAAT
25870986 AATAAAACTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 2 0.08
17 20 0.83
18 2 0.08
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (17 bp):
TATTTGTAATTATATTC
Found at i:25874164 original size:16 final size:16
Alignment explanation
Indices: 25874124--25874164 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
25874114 TTTTTCCTTA
25874124 AAATTTAAAAATAAAT
1 AAATTTAAAAATAAAT
25874140 -AA-TTATAAAATAAAAT
1 AAATTTA-AAAAT-AAAT
25874156 AAATTTAAA
1 AAATTTAAA
25874165 TTTAAAACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 7
0.75 0.00 0.25
Matches are distributed among these distances:
14 3 0.14
15 7 0.33
16 4 0.19
17 4 0.19
18 3 0.14
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATTTAAAAATAAAT
Found at i:25874962 original size:13 final size:13
Alignment explanation
Indices: 25874944--25874972 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
25874934 ACATAAAAAA
25874944 ATTATTTTATTTT
1 ATTATTTTATTTT
25874957 ATTATTTTATTTT
1 ATTATTTTATTTT
25874970 ATT
1 ATT
25874973 TTTCTACCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
ATTATTTTATTTT
Found at i:25875871 original size:11 final size:11
Alignment explanation
Indices: 25875851--25875880 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
25875841 ACAACAGCAA
25875851 CAAAATAATAG
1 CAAAATAATAG
*
25875862 CAATATAATAG
1 CAAAATAATAG
25875873 CAAAATAA
1 CAAAATAA
25875881 CAATAAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.63, C:0.10, G:0.07, T:0.20
Consensus pattern (11 bp):
CAAAATAATAG
Found at i:25880886 original size:8 final size:8
Alignment explanation
Indices: 25880873--25881004 Score: 192
Period size: 8 Copynumber: 16.5 Consensus size: 8
25880863 TGCCATGTCA
25880873 TATGTATG
1 TATGTATG
25880881 TATGTATG
1 TATGTATG
25880889 TATGTATG
1 TATGTATG
*
25880897 TATGTGTG
1 TATGTATG
*
25880905 TATGTGTG
1 TATGTATG
*
25880913 TATGTGTG
1 TATGTATG
*
25880921 TATGTGTG
1 TATGTATG
*
25880929 TATGTGTG
1 TATGTATG
*
25880937 TATGTGTG
1 TATGTATG
*
25880945 TATGTGTG
1 TATGTATG
*
25880953 TATGTGTG
1 TATGTATG
25880961 TATGTATG
1 TATGTATG
25880969 TATGTATG
1 TATGTATG
25880977 TATGTATG
1 TATGTATG
25880985 TATGTATG
1 TATGTATG
25880993 TATGTATG
1 TATGTATG
25881001 TATG
1 TATG
25881005 ATGCATTAGA
Statistics
Matches: 122, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
8 122 1.00
ACGTcount: A:0.19, C:0.00, G:0.31, T:0.50
Consensus pattern (8 bp):
TATGTATG
Found at i:25881204 original size:4 final size:4
Alignment explanation
Indices: 25881197--25881236 Score: 53
Period size: 4 Copynumber: 10.0 Consensus size: 4
25881187 GCAGTCATTC
* * *
25881197 ATGT ATGT ATGT ATGT ATGT ATGT GTGT TTGT ATGC ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
25881237 TTATTGATGC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.20, C:0.03, G:0.28, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:25888090 original size:21 final size:21
Alignment explanation
Indices: 25888064--25888105 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
25888054 CTTTTTAAGT
25888064 TAAGGGGGTAAAATACAATAC
1 TAAGGGGGTAAAATACAATAC
25888085 TAAGGGGGTAAAATACAATAC
1 TAAGGGGGTAAAATACAATAC
25888106 AACTTTTAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.10, G:0.24, T:0.19
Consensus pattern (21 bp):
TAAGGGGGTAAAATACAATAC
Found at i:25891078 original size:2 final size:2
Alignment explanation
Indices: 25891073--25891108 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
25891063 ACACACAAAA
25891073 AT AT AT AT 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 AT AT AT AT
25891109 TTCGAANNNN
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25891645 original size:2 final size:2
Alignment explanation
Indices: 25891640--25891671 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
25891630 ACCCACAACA
25891640 AT AT 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 AT AT
25891672 TTCGAAAGCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25896375 original size:21 final size:19
Alignment explanation
Indices: 25896333--25896389 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 19
25896323 TTATTATCCT
25896333 GAACCCTAA-CCTAGAACTC
1 GAACCCTAACCCT-GAACTC
25896352 GAACCCTAGACCCTGAACCTC
1 GAACCCTA-ACCCTGAA-CTC
*
25896373 GAACCCCAAACCCTGAA
1 GAA-CCCTAACCCTGAA
25896390 TCCCAAACCT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 8 0.24
20 4 0.12
21 17 0.52
22 4 0.12
ACGTcount: A:0.35, C:0.40, G:0.12, T:0.12
Consensus pattern (19 bp):
GAACCCTAACCCTGAACTC
Found at i:25896582 original size:21 final size:19
Alignment explanation
Indices: 25896540--25896596 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 19
25896530 GTATTATCCT
25896540 GAACCCTAA-CCTAGAACTC
1 GAACCCTAACCCT-GAACTC
25896559 GAACCCTAGACCCTGAACCTC
1 GAACCCTA-ACCCTGAA-CTC
*
25896580 GAACCCCAAACCCTGAA
1 GAA-CCCTAACCCTGAA
25896597 TCCCAAACCT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 8 0.24
20 4 0.12
21 17 0.52
22 4 0.12
ACGTcount: A:0.35, C:0.40, G:0.12, T:0.12
Consensus pattern (19 bp):
GAACCCTAACCCTGAACTC
Found at i:25896679 original size:207 final size:206
Alignment explanation
Indices: 25896324--25896740 Score: 762
Period size: 207 Copynumber: 2.0 Consensus size: 206
25896314 TTGGTAATTT
25896324 TATTATCCTGAACCCTAACCTAGAACTCGAACCCTAGACCCTGAACCTCGAACCCCAAACCCTGA
1 TATTATCCTGAACCCTAACCTAGAACTCGAACCCTAGACCCTGAACCTCGAACCCCAAACCCTGA
25896389 ATCCCAAACCTTGAACTCGAACCACGCTTAAGGCCCAAGGTTAAGGATAATTTTTTTTACCAAAA
66 ATCCCAAACCTTGAACTCGAACCACGCTTAAGGCCCAAGGTTAAGGATAATTTTTTTTACCAAAA
* *
25896454 TTATTGAAATGTCATTAAATAATTGGAAAAAGACCATAAATAATGTGATGGGAATGATCCATCAA
131 TGATTGAAATGTCATTAAATAATTGAAAAAAGACCATAAATAATGTGATGGGAATGATCCATCAA
25896519 ACAATTTCTCGG
196 ACAATTTCTC-G
25896531 TATTATCCTGAACCCTAACCTAGAACTCGAACCCTAGACCCTGAACCTCGAACCCCAAACCCTGA
1 TATTATCCTGAACCCTAACCTAGAACTCGAACCCTAGACCCTGAACCTCGAACCCCAAACCCTGA
*
25896596 ATCCCAAACCTTGAACTCGAACCACGCTTAAGGCCCAAGGTTCAGGATAATTTTTTTTACCAAAA
66 ATCCCAAACCTTGAACTCGAACCACGCTTAAGGCCCAAGGTTAAGGATAATTTTTTTTACCAAAA
* * * *
25896661 TGATTGAAATGTCATTAAATAATTGAAAAAAGACCATAGATAATGTGGTGGGAATGGTCCATCAG
131 TGATTGAAATGTCATTAAATAATTGAAAAAAGACCATAAATAATGTGATGGGAATGATCCATCAA
25896726 ACAATTTCTCG
196 ACAATTTCTCG
25896737 TATT
1 TATT
25896741 GAAGGGATTG
Statistics
Matches: 203, Mismatches: 7, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
206 5 0.02
207 198 0.98
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.25
Consensus pattern (206 bp):
TATTATCCTGAACCCTAACCTAGAACTCGAACCCTAGACCCTGAACCTCGAACCCCAAACCCTGA
ATCCCAAACCTTGAACTCGAACCACGCTTAAGGCCCAAGGTTAAGGATAATTTTTTTTACCAAAA
TGATTGAAATGTCATTAAATAATTGAAAAAAGACCATAAATAATGTGATGGGAATGATCCATCAA
ACAATTTCTCG
Found at i:25903083 original size:3 final size:3
Alignment explanation
Indices: 25903075--25903106 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
25903065 AAGAGAAGGT
25903075 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
25903107 GCATTGATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:25922649 original size:22 final size:21
Alignment explanation
Indices: 25922614--25922655 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
25922604 TTATTTTCTA
*
25922614 TTTTAAATATAAAACATTTAT
1 TTTTAAATATAAAAAATTTAT
*
25922635 TTTTACATCATAAAAAATTTA
1 TTTTAAAT-ATAAAAAATTTA
25922656 AATTAATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (21 bp):
TTTTAAATATAAAAAATTTAT
Found at i:25935521 original size:6 final size:6
Alignment explanation
Indices: 25935512--25935542 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
25935502 AACTCATTCT
*
25935512 CACCGC CACCGC CACCGC CATCGC CACCGC C
1 CACCGC CACCGC CACCGC CACCGC CACCGC C
25935543 TCTAGGGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.16, C:0.65, G:0.16, T:0.03
Consensus pattern (6 bp):
CACCGC
Found at i:25940342 original size:3 final size:3
Alignment explanation
Indices: 25940336--25940361 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
25940326 GGCAACGACA
25940336 CAC CAC CAC CAC CAC CAC CAC CAC CA
1 CAC CAC CAC CAC CAC CAC CAC CAC CA
25940362 GGAGAACCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.65, G:0.00, T:0.00
Consensus pattern (3 bp):
CAC
Found at i:25941978 original size:139 final size:141
Alignment explanation
Indices: 25941721--25942178 Score: 604
Period size: 139 Copynumber: 3.2 Consensus size: 141
25941711 CTCTAGCAGA
* * * * *
25941721 AAGGGCGCAAAGCCAAGCTAAAACCCTTAAATTGTCTTGCATTCGAAAGAGGTTTTTT-TGTATG
1 AAGGGAGCAAAGCCAAGCTAGAACCCTTATATTGTCTTGCATTCG-AAGAGTTTTTTTGTGTGTG
* ** * *
25941785 -TCTCTCATTCGAAAGGGTTTAAGACATTTTTGTAGTAGAGCTAAATTCACTAGGCAATGGCACA
65 TTCTCTCATTTGAAAGGGTTCGAGACATTTTTGTACTAGAGCTAAATTCACTAGGCAATGTCACA
25941849 ACTAGTGTTGTT
130 ACTAGTGTTGTT
* *
25941861 AAAGGTGCAAAGCCAAGCTAGAACCCTTATATTGTCTTGCATTCG-A-A-TTTTTTTGTGTGTGT
1 AAGGGAGCAAAGCCAAGCTAGAACCCTTATATTGTCTTGCATTCGAAGAGTTTTTTTGTGTGTGT
*
25941923 CTCTCTCATTTGAAAGGGTTCGAGATATTTTTGTACTAGAGCTAAATTCACTAGGCAATGTCACA
66 -TCTCTCATTTGAAAGGGTTCGAGACATTTTTGTACTAGAGCTAAATTCACTAGGCAATGTCACA
*
25941988 ACTGGTGTTGTT
130 ACTAGTGTTGTT
* * * *
25942000 AAGGGAGCAAAGCCGAGCTAGAATCCTAATATTGTCTTGCATTCGAAAGGATTTCTTTCTTGTGT
1 AAGGGAGCAAAGCCAAGCTAGAACCCTTATATTGTCTTGCATTCG-AA-GAGTT-TTT-TTGTGT
* * * *
25942065 GTGTT-TCTCACTTGAAAGGGTTCGGGACATTTTTGTACTAAAGCTAAATTCATTAGGCAATGTC
62 GTGTTCTCTCATTTGAAAGGGTTCGAGACATTTTTGTACTAGAGCTAAATTCACTAGGCAATGTC
25942129 ACAACTAGTGTTGTT
127 ACAACTAGTGTTGTT
* *
25942144 AAGGGCGCAAAGCCGAGCTAGAACCCTTATATTGT
1 AAGGGAGCAAAGCCAAGCTAGAACCCTTATATTGT
25942179 TTTGGATTTG
Statistics
Matches: 281, Mismatches: 27, Indels: 16
0.87 0.08 0.05
Matches are distributed among these distances:
136 6 0.02
137 6 0.02
138 1 0.00
139 109 0.39
140 41 0.15
141 1 0.00
143 1 0.00
144 102 0.36
145 4 0.01
146 10 0.04
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (141 bp):
AAGGGAGCAAAGCCAAGCTAGAACCCTTATATTGTCTTGCATTCGAAGAGTTTTTTTGTGTGTGT
TCTCTCATTTGAAAGGGTTCGAGACATTTTTGTACTAGAGCTAAATTCACTAGGCAATGTCACAA
CTAGTGTTGTT
Found at i:25942212 original size:144 final size:142
Alignment explanation
Indices: 25941721--25942212 Score: 613
Period size: 144 Copynumber: 3.5 Consensus size: 142
25941711 CTCTAGCAGA
* *
25941721 AAGGGCGCAAAGCCAAGCTAAAACCCTTAAATTGTCTTGCATTCGAAAGAGG--TTTTTTTGTA-
1 AAGGGCGCAAAGCCAAGCTAGAACCCTTATATTGTCTTGCATTCGAAAG-GGTTTTTTTTTGTAT
** * *
25941783 -TGTCTCTCATTCGAAAGGGTTTAAGACATTTTTGTAGTAGAGCTAAATTCACTAGGCAATGGCA
65 GTGTCTCTCATT-GAAAGGGTTCGAGACATTTTTGTACTAGAGCTAAATTCACTAGGCAATGTCA
25941847 CAACTAGTGTTGTT
129 CAACTAGTGTTGTT
* * * *
25941861 AAAGGTGCAAAGCCAAGCTAGAACCCTTATATTGTCTTGCATTCG-AA---TTTTTTTGTGTGTG
1 AAGGGCGCAAAGCCAAGCTAGAACCCTTATATTGTCTTGCATTCGAAAGGGTTTTTTTTTGTATG
* *
25941922 TCTCTCTCATTTGAAAGGGTTCGAGATATTTTTGTACTAGAGCTAAATTCACTAGGCAATGTCAC
66 TGTCTCTCA-TTGAAAGGGTTCGAGACATTTTTGTACTAGAGCTAAATTCACTAGGCAATGTCAC
*
25941987 AACTGGTGTTGTT
130 AACTAGTGTTGTT
* * * * * * *
25942000 AAGGGAGCAAAGCCGAGCTAGAATCCTAATATTGTCTTGCATTCGAAAGGATTTCTTTCTTGTGT
1 AAGGGCGCAAAGCCAAGCTAGAACCCTTATATTGTCTTGCATTCGAAAGGGTTT-TTTTTTGTAT
* * * *
25942065 GTGTTTCTCACTTGAAAGGGTTCGGGACATTTTTGTACTAAAGCTAAATTCATTAGGCAATGTCA
65 GTGTCTCTCA-TTGAAAGGGTTCGAGACATTTTTGTACTAGAGCTAAATTCACTAGGCAATGTCA
25942130 CAACTAGTGTTGTT
129 CAACTAGTGTTGTT
* * * * *
25942144 AAGGGCGCAAAGCCGAGCTAGAACCCTTATATTGTTTTGGATTTGAAAGGGTTTTTTCTTTTTAT
1 AAGGGCGCAAAGCCAAGCTAGAACCCTTATATTGTCTTGCATTCGAAAGGGTTTTTT-TTTGTAT
25942209 GTGT
65 GTGT
25942213 GTTTCTCATT
Statistics
Matches: 303, Mismatches: 38, Indels: 18
0.84 0.11 0.05
Matches are distributed among these distances:
137 8 0.03
139 110 0.36
140 45 0.15
143 6 0.02
144 134 0.44
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (142 bp):
AAGGGCGCAAAGCCAAGCTAGAACCCTTATATTGTCTTGCATTCGAAAGGGTTTTTTTTTGTATG
TGTCTCTCATTGAAAGGGTTCGAGACATTTTTGTACTAGAGCTAAATTCACTAGGCAATGTCACA
ACTAGTGTTGTT
Found at i:25944005 original size:4 final size:4
Alignment explanation
Indices: 25943996--25944076 Score: 76
Period size: 4 Copynumber: 20.8 Consensus size: 4
25943986 GAAAAGGTAA
* * * *
25943996 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT GTGT GTGT GTTT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * *
25944044 ATGC ATGC ATGC ATGT ATG- -TGT GTGT ATGT ATG
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG
25944077 CATGCGTGTG
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
2 2 0.03
4 66 0.97
ACGTcount: A:0.20, C:0.04, G:0.30, T:0.47
Consensus pattern (4 bp):
ATGT
Found at i:25946740 original size:22 final size:21
Alignment explanation
Indices: 25946691--25946741 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
25946681 ATAAGCATAG
25946691 AATTATTTAAAATTTAAAATAT
1 AATT-TTTAAAATTTAAAATAT
* *
25946713 ATATTTTTAAATTTTAAAATTT
1 A-ATTTTTAAAATTTAAAATAT
25946735 CAATTTT
1 -AATTTT
25946742 GATTAACATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
22 21 0.84
23 4 0.16
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (21 bp):
AATTTTTAAAATTTAAAATAT
Found at i:25952680 original size:138 final size:136
Alignment explanation
Indices: 25952425--25952672 Score: 297
Period size: 138 Copynumber: 1.8 Consensus size: 136
25952415 AACGGTTAAC
* *
25952425 GATAGTTTAGGGATGTATTTAGAATGATTTAAAGTTTATGGAATAATTTAGAATGAGAGCCATAG
1 GATAGTTTAGGGATGTAATTAGAATGATTTAAAGTTTATGGAACAATTTAGAAT-AGAGCCATAG
* * * ** * *
25952490 TTTGAGGATGTTTTGTGCAATTAACTCTTAAATTAATGATTTAGTAATGAAATAACCTTATTAAT
65 TTTGAGGACGTTTAGTGCAATTAACACTTAAATTAACCA-TAAGAAATGAAATAACCTTATTAAT
25952555 ATAACATT
129 ATAACATT
* * *
25952563 GATAGTTTCA-GGATGTAATTAGAATGTTTTAAAAGTTTA-GGACCAATTTAGAAT-GAGTCATA
1 GATAGTTT-AGGGATGTAATTAGAATGATTT-AAAGTTTATGGAACAATTTAGAATAGAGCCATA
*
25952625 GTTTGGGGACGTTTAGTGCAATTAACACATTAAATTAACCCA-AAGAAA
64 GTTTGAGGACGTTTAGTGCAATTAACAC-TTAAATTAA-CCATAAGAAA
25952673 ATTGAAATTT
Statistics
Matches: 93, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
136 35 0.38
137 9 0.10
138 40 0.43
139 9 0.10
ACGTcount: A:0.38, C:0.08, G:0.19, T:0.36
Consensus pattern (136 bp):
GATAGTTTAGGGATGTAATTAGAATGATTTAAAGTTTATGGAACAATTTAGAATAGAGCCATAGT
TTGAGGACGTTTAGTGCAATTAACACTTAAATTAACCATAAGAAATGAAATAACCTTATTAATAT
AACATT
Found at i:25959036 original size:21 final size:22
Alignment explanation
Indices: 25959003--25959044 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
25958993 TTTTTTAAAA
* *
25959003 TTAAATACCAAATTTAATTAAT
1 TTAAATACAAAATTAAATTAAT
25959025 TTAAATA-AAAATTAAATTAA
1 TTAAATACAAAATTAAATTAA
25959045 CAAAAGATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (22 bp):
TTAAATACAAAATTAAATTAAT
Found at i:25961677 original size:10 final size:11
Alignment explanation
Indices: 25961657--25961682 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
25961647 ACATTTAAGC
25961657 AAAAACAAAAA
1 AAAAACAAAAA
25961668 AAAAACAAAAA
1 AAAAACAAAAA
25961679 AAAA
1 AAAA
25961683 GTTGCTTCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAACAAAAA
Found at i:25962061 original size:2 final size:2
Alignment explanation
Indices: 25962056--25962088 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
25962046 ATGTTACGTC
25962056 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
25962089 ATGTAAATGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:25975844 original size:137 final size:137
Alignment explanation
Indices: 25975598--25976009 Score: 770
Period size: 137 Copynumber: 3.0 Consensus size: 137
25975588 GTTCATGGAT
25975598 TGCCATTGATGAATTTATTTGATTCTTTCGTTGATTTAAAGCTTGTGAAAATTAGTGTACTTGTA
1 TGCCATTGATGAATTTATTTGATTCTTTCGTTGATTTAAAGCTTGTGAAAATTAGTGTACTTGTA
25975663 AGAATGTGAAAGCATCTTCGGCTTGAATGAATGTTTTTGGATACTTTTCTCATATCTAGTGAGTT
66 AGAATGTGAAAGCATCTTCGGCTTGAATGAATGTTTTTGGATACTTTTCTCATATCTAGTGAGTT
25975728 GATGAAC
131 GATGAAC
25975735 TGCCATTGATGAATTTATTTGATTCTTTCGTTGATTTAAAGCTTGTGAAAATTAGTGTACTTGTA
1 TGCCATTGATGAATTTATTTGATTCTTTCGTTGATTTAAAGCTTGTGAAAATTAGTGTACTTGTA
25975800 AGAATGTGAAAGCATCTTCGGCTTGAATGAATGTTTTTGGATACTTTTCTCATATCTAGTGAGTT
66 AGAATGTGAAAGCATCTTCGGCTTGAATGAATGTTTTTGGATACTTTTCTCATATCTAGTGAGTT
25975865 GATGAAC
131 GATGAAC
*
25975872 TGCCATTGATGAATTTATTTGATTCTTTTGTTGATTTAAAGCTTGTGAAAATTAGTGTACTTGTA
1 TGCCATTGATGAATTTATTTGATTCTTTCGTTGATTTAAAGCTTGTGAAAATTAGTGTACTTGTA
* * * *
25975937 AGGATGTGAAAGCATCTTCGGCTTGAATGAAGGTTTTTGGATACTTCTCTCCATATCTAGTGGGT
66 AGAATGTGAAAGCATCTTCGGCTTGAATGAATGTTTTTGGATACTTTTCT-CATATCTAGTGAGT
25976002 TGATGAAC
130 TGATGAAC
25976010 ACGATTTGAT
Statistics
Matches: 269, Mismatches: 5, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
137 248 0.92
138 21 0.08
ACGTcount: A:0.26, C:0.11, G:0.21, T:0.41
Consensus pattern (137 bp):
TGCCATTGATGAATTTATTTGATTCTTTCGTTGATTTAAAGCTTGTGAAAATTAGTGTACTTGTA
AGAATGTGAAAGCATCTTCGGCTTGAATGAATGTTTTTGGATACTTTTCTCATATCTAGTGAGTT
GATGAAC
Found at i:25976136 original size:160 final size:160
Alignment explanation
Indices: 25975872--25976377 Score: 879
Period size: 160 Copynumber: 3.2 Consensus size: 160
25975862 GTTGATGAAC
*
25975872 TGCCATTGATGAATTTATTTGATTCTTTTGTTGATTTAAAGCTTGTGAAAATTAGTGTACTTGTA
1 TGCCATTGATGAATTTATTTGATTCTTTCGTTGATTTAAAGCTTGTGAAAATTAGTGTACTTGTA
* * ** *
25975937 AGGATGTGAAAGCATCTTCGGCTTGAATGAAGGTTTTTGGATACTTCTCTCCATATCTAGTGGGT
66 AGAATGTGAAAGCGTCTTCGGCTCAAATGAATGTTTTTGGATACTTCTCTCCATATCTAGTGGGT
25976002 TGATGAACACGATTTGATATGTTTGTGGAT
131 TGATGAACACGATTTGATATGTTTGTGGAT
25976032 TGCCATTGATGAATTTATTTGATTCTTTCGTTGATTTAAAGCTTGTGAAAATTAGTGTACTTGTA
1 TGCCATTGATGAATTTATTTGATTCTTTCGTTGATTTAAAGCTTGTGAAAATTAGTGTACTTGTA
25976097 AGAATGTGAAAGCGTCTTCGGCTCAAATGAATGTTTTTGGATACTTCTCTCCATATCTAGTGGGT
66 AGAATGTGAAAGCGTCTTCGGCTCAAATGAATGTTTTTGGATACTTCTCTCCATATCTAGTGGGT
25976162 TGATGAACACGATTTGATATGTTTGTGGAT
131 TGATGAACACGATTTGATATGTTTGTGGAT
25976192 TGCCATTGATGAATTTATTTGATTCTTTCGTTGATTTAAAGCTTGTGAAAATTAGTGTACTTGTA
1 TGCCATTGATGAATTTATTTGATTCTTTCGTTGATTTAAAGCTTGTGAAAATTAGTGTACTTGTA
*
25976257 AGAATGTGAAAGCGTCTTCGGCTCAAATGAATGTTTTTGGATACTTCTCT-CATATCTAGTGAGT
66 AGAATGTGAAAGCGTCTTCGGCTCAAATGAATGTTTTTGGATACTTCTCTCCATATCTAGTGGGT
* * *
25976321 TGATGAACACAATTTGATATGTTTATGAAT
131 TGATGAACACGATTTGATATGTTTGTGGAT
* * *
25976351 TGACATTTGATGAATTGATTTGGTTCT
1 TGCCA-TTGATGAATTTATTTGATTCT
25976378 GATTGTATTG
Statistics
Matches: 332, Mismatches: 13, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
159 44 0.13
160 288 0.87
ACGTcount: A:0.26, C:0.11, G:0.22, T:0.41
Consensus pattern (160 bp):
TGCCATTGATGAATTTATTTGATTCTTTCGTTGATTTAAAGCTTGTGAAAATTAGTGTACTTGTA
AGAATGTGAAAGCGTCTTCGGCTCAAATGAATGTTTTTGGATACTTCTCTCCATATCTAGTGGGT
TGATGAACACGATTTGATATGTTTGTGGAT
Found at i:25977405 original size:17 final size:18
Alignment explanation
Indices: 25977374--25977408 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
25977364 GTTCGGAAAA
25977374 TGTTTTACGAAAAAAATT
1 TGTTTTACGAAAAAAATT
25977392 TGTTTTAC-AAAAAAATT
1 TGTTTTACGAAAAAAATT
25977409 ACTTTGTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.46, C:0.06, G:0.09, T:0.40
Consensus pattern (18 bp):
TGTTTTACGAAAAAAATT
Found at i:25978452 original size:31 final size:31
Alignment explanation
Indices: 25978407--25978538 Score: 99
Period size: 31 Copynumber: 4.4 Consensus size: 31
25978397 GTCATATACC
*
25978407 ATTTGATACCTGAGTTTAGCTTCAATGTTCA
1 ATTTGGTACCTGAGTTTAGCTTCAATGTTCA
* * * *
25978438 ATTTGGTACTTGAGTTTGGCTTCCATGTTTA
1 ATTTGGTACCTGAGTTTAGCTTCAATGTTCA
* * ** ****
25978469 ATTTGGCAGCTGAGTTT-TTTTC--CCCCCA
1 ATTTGGTACCTGAGTTTAGCTTCAATGTTCA
* * *
25978497 ATTTGGTACCTGAGATTGGCATCAATGTTCA
1 ATTTGGTACCTGAGTTTAGCTTCAATGTTCA
25978528 ATTTGGTACCT
1 ATTTGGTACCT
25978539 AGATCAAACG
Statistics
Matches: 73, Mismatches: 25, Indels: 6
0.70 0.24 0.06
Matches are distributed among these distances:
28 15 0.21
29 2 0.03
30 3 0.04
31 53 0.73
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (31 bp):
ATTTGGTACCTGAGTTTAGCTTCAATGTTCA
Found at i:25978769 original size:31 final size:31
Alignment explanation
Indices: 25978734--25978831 Score: 126
Period size: 31 Copynumber: 3.2 Consensus size: 31
25978724 CAAATTGAAG
*
25978734 CCAAATTGAACATTAAAGCTAAATTCAGGTA
1 CCAAATTGAACATTAAAGCCAAATTCAGGTA
**
25978765 CCAAATTGAACATGGAAGCCAAATTCAGGTA
1 CCAAATTGAACATTAAAGCCAAATTCAGGTA
* * * *
25978796 CCAAATTGAACATTGAA-CCAAACTCAAGTG
1 CCAAATTGAACATTAAAGCCAAATTCAGGTA
25978826 CCAAAT
1 CCAAAT
25978832 AGTATGTAAC
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
30 16 0.27
31 44 0.73
ACGTcount: A:0.44, C:0.20, G:0.14, T:0.21
Consensus pattern (31 bp):
CCAAATTGAACATTAAAGCCAAATTCAGGTA
Found at i:25992535 original size:166 final size:165
Alignment explanation
Indices: 25992228--25992662 Score: 597
Period size: 166 Copynumber: 2.6 Consensus size: 165
25992218 GGTTAAATTT
* * * *
25992228 TAAAATATATTTCATGATCAACGAGTTACTTTTTTGAAGGCC-ACCCGCGAGGATTTAAGGTTTA
1 TAAAACATATTTCATGATCAACGAATTACTTCTTTGAAGACCAACCCG-G-GGATTTAAGGTTTA
* * * *
25992292 GCAACCATGTGATTCCATCATGCATGCATTAAGGAGAGAGAGATAATTACTCACTTCATCCTTTA
64 GCAATCATGTGATTCCATCATGCATGCATTACGTAGAGACAGATAATTACTCACTTCATCCTTTA
* * * *
25992357 TTTACATGGTTGAGGGTTAAATCTTCACCTATGAGAC
129 TTCACATGGTTGAGGGTTAAATCTCCACCTATAAAAC
* * *
25992394 TAAAACATATTTTATGATTAACGAATTACTTCTTTGAAGACCATCCACGGGGATTTAAGGTTTAG
1 TAAAACATATTTCATGATCAACGAATTACTTCTTTGAAGACCAACC-CGGGGATTTAAGGTTTAG
*
25992459 CAATCATGTGATTCCATCATGCATGCATTACGTAGAGACAGATAATTACTCACTTTATCCTTTAT
65 CAATCATGTGATTCCATCATGCATGCATTACGTAGAGACAGATAATTACTCACTTCATCCTTTAT
* *
25992524 TCACGTGGTTGAGGGTTCAATCTCCACCTATAAAAC
130 TCACATGGTTGAGGGTTAAATCTCCACCTATAAAAC
* * *
25992560 TGAAACATATTTCATGATCAACGAATTACTTCTTTGAATA-CAACCCGCGGAAGTTTAAGGTTTA
1 TAAAACATATTTCATGATCAACGAATTACTTCTTTGAAGACCAACCCG-GGGA-TTTAAGGTTTA
*
25992624 GTC-ATCATGTGATTCCATCATGTATGCATTACGTAGAGA
64 G-CAATCATGTGATTCCATCATGCATGCATTACGTAGAGA
25992663 GATGCTTGAA
Statistics
Matches: 239, Mismatches: 25, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
164 2 0.01
165 7 0.03
166 224 0.94
167 4 0.02
168 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.33
Consensus pattern (165 bp):
TAAAACATATTTCATGATCAACGAATTACTTCTTTGAAGACCAACCCGGGGATTTAAGGTTTAGC
AATCATGTGATTCCATCATGCATGCATTACGTAGAGACAGATAATTACTCACTTCATCCTTTATT
CACATGGTTGAGGGTTAAATCTCCACCTATAAAAC
Found at i:25994555 original size:2 final size:2
Alignment explanation
Indices: 25994548--25994586 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
25994538 CTAATGTAAC
* *
25994548 AT AT AT AT AT AT AT AT GT AT AT AC AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
25994587 GATGGGGCTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:25998625 original size:3 final size:3
Alignment explanation
Indices: 25998617--25998645 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
25998607 CAGTCCTTGC
25998617 CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
25998646 CTCCCCACCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.31
Consensus pattern (3 bp):
CAT
Found at i:25999351 original size:283 final size:278
Alignment explanation
Indices: 25998861--25999382 Score: 704
Period size: 283 Copynumber: 1.9 Consensus size: 278
25998851 CTTTTATTAC
* *
25998861 AATACACACTTTGGGTTGTGTTTTTTTTAGCTGTTTAATTGGTCTCCCATGTTTGATTTTCTACT
1 AATACACACTTTGGGTTGTGTTTTTTTTAGCTGTTTAATCGGTCTCCCATGTTTGACTTTCTACT
* *
25998926 GGTTTATTGTATTCTTCTTTGTCGCAAGCACAATTCTTTTTTTCTCCATGATTGATGCTTTATGC
66 GGTTTATTGTATTCTTCTTTGTAGCAAGCACAATTCTTTTTTTCTCCAAGATTGATGCTTTATGC
* * *
25998991 TGTCTTTTTTTGTTTTAAAAAATATGGGTATTTTTTATTTTTAAGTATTGTAATCTTGTTTAGAA
131 TG-CTTTTTTTGTTTTAAAAAATATGGGTATTTTTGATTTTTAAGCATTGTAACCTTGTTTAGAA
* * *
25999056 TTTTGGTTTCTTACATTGTTCTAGATTGTCCTGG-AAAATGGTACCTGTGATGAAAAGGTTGGTT
195 TTTAGATTTCTTACATTGTTCTAGATTGTCCAGGAAAAATGGTACCTGTGATGAAAAGGTTGGTT
25999120 CTTTTGATTTCTTTATGTT
260 CTTTTGATTTCTTTATGTT
25999139 AATACACACTTTGGGTTGTGTTTTTCTTTAGCTGTTTAATCGGTC-CCTCATGTTTG-CTTT-T-
1 AATACACACTTTGGGTTGTGTTTTT-TTTAGCTGTTTAATCGGTCTCC-CATGTTTGACTTTCTA
* *
25999200 CTGGTTTATTGTGTTCTTCTTTGTAGCAAAGCACAATAAATACCCTTCTTTTCTTCTTCAAGATT
64 CTGGTTTATTGTATTCTTCTTTGTAGC-AAGCACAAT---T---C-T-TTTT-TTCTCCAAGATT
* *
25999265 GAT-CTTTTATGCTG-TTTTTTT-TTTTAAAAAA-AGTGGGT-TTATTTGATTTTTATGCGTTGT
119 GATGC-TTTATGCTGCTTTTTTTGTTTTAAAAAATA-TGGGTATT-TTTGATTTTTAAGCATTGT
25999325 AACCTTGTTTAGAATTTAGATTTCTTACATTGTTCTAGATTGTCCAGGAAAAATGGTA
181 AACCTTGTTTAGAATTTAGATTTCTTACATTGTTCTAGATTGTCCAGGAAAAATGGTA
25999383 GTACCTCCTG
Statistics
Matches: 214, Mismatches: 14, Indels: 26
0.84 0.06 0.10
Matches are distributed among these distances:
276 25 0.12
277 10 0.05
278 30 0.14
279 26 0.12
280 1 0.00
282 3 0.01
283 75 0.35
284 17 0.08
285 5 0.02
286 22 0.10
ACGTcount: A:0.21, C:0.13, G:0.17, T:0.49
Consensus pattern (278 bp):
AATACACACTTTGGGTTGTGTTTTTTTTAGCTGTTTAATCGGTCTCCCATGTTTGACTTTCTACT
GGTTTATTGTATTCTTCTTTGTAGCAAGCACAATTCTTTTTTTCTCCAAGATTGATGCTTTATGC
TGCTTTTTTTGTTTTAAAAAATATGGGTATTTTTGATTTTTAAGCATTGTAACCTTGTTTAGAAT
TTAGATTTCTTACATTGTTCTAGATTGTCCAGGAAAAATGGTACCTGTGATGAAAAGGTTGGTTC
TTTTGATTTCTTTATGTT
Found at i:26000764 original size:51 final size:52
Alignment explanation
Indices: 26000705--26000807 Score: 154
Period size: 51 Copynumber: 2.0 Consensus size: 52
26000695 CATTTAGCAC
*
26000705 GTGCAATATCACGCCTTTGTCTCGATGCATGAAAAAGACATAA-ACCTTATA
1 GTGCAATATCACGCCTTTGTCTCGATGCATAAAAAAGACATAATACCTTATA
* * * *
26000756 GTGCAATATCATGCCTTTGTTTCGATGTATAAAAAAGATATAATACCTTATA
1 GTGCAATATCACGCCTTTGTCTCGATGCATAAAAAAGACATAATACCTTATA
26000808 TGATGATTTC
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
51 38 0.83
52 8 0.17
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (52 bp):
GTGCAATATCACGCCTTTGTCTCGATGCATAAAAAAGACATAATACCTTATA
Found at i:26000890 original size:153 final size:151
Alignment explanation
Indices: 26000609--26000908 Score: 442
Period size: 153 Copynumber: 2.0 Consensus size: 151
26000599 AGCATGCAAA
* * *
26000609 AATATCATGCTTTTGTCTCAATGTATGAAAAAGACATAAACCTTGTATGATGATTTCAGTGCTAA
1 AATATCATGCCTTTGTCTCAATGTATAAAAAAGACATAAACCTTATATGATGATTTCAGTGCTAA
*
26000674 TGCATTTGCTTTGATTAAGTTCATTTAGCACGTGCAATATCACGCCTTTGTCTCGATGCATGAAA
66 TGCATTTGCTTTGATTAAGTTCATTTAGCACGTGCAATATCACACCTTTGTCTCGATGCATGAAA
26000739 AAGACATAAACCTTATAGTGC
131 AAGACATAAACCTTATAGTGC
* * *
26000760 AATATCATGCCTTTGTTTCGATGTATAAAAAAGATATAATACCTTATATGATGATTTCAGTGCTA
1 AATATCATGCCTTTGTCTCAATGTATAAAAAAGACATAA-ACCTTATATGATGATTTCAGTGCTA
* * * *
26000825 ATGCA-TTGGTTGTGATTTAAGTTCATTTAGCGCGTGCGATATCACACCTTTGT-TCCGATGTAT
65 ATGCATTTGCTT-TGA-TTAAGTTCATTTAGCACGTGCAATATCACACCTTTGTCT-CGATGCAT
*
26000888 GAAATAGACATAAACCTTATA
127 GAAAAAGACATAAACCTTATA
26000909 TGATGATTTC
Statistics
Matches: 133, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
151 39 0.29
152 33 0.25
153 61 0.46
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.36
Consensus pattern (151 bp):
AATATCATGCCTTTGTCTCAATGTATAAAAAAGACATAAACCTTATATGATGATTTCAGTGCTAA
TGCATTTGCTTTGATTAAGTTCATTTAGCACGTGCAATATCACACCTTTGTCTCGATGCATGAAA
AAGACATAAACCTTATAGTGC
Found at i:26000942 original size:101 final size:103
Alignment explanation
Indices: 26000769--26000954 Score: 295
Period size: 101 Copynumber: 1.8 Consensus size: 103
26000759 CAATATCATG
* * *
26000769 CCTTTGTTTCGATGTATAAAAAAGATATAATACCTTATATGATGATTTCAGTGCTAATGCATTGG
1 CCTTTGTTCCGATGTATAAAAAAGACATAATACCTTATATGATGATTTCAATGCTAATGCATTGG
26000834 TTGTGATTT-AAGTTCATTTAGCGCGTGCGATATCACA
66 TTGTGATTTAAAGTTCATTTAGCGCGTGCGATATCACA
* * *
26000871 CCTTTGTTCCGATGTATGAAATAGACATAA-ACCTTATATGATGATTTCAATGCTAATGCATTTG
1 CCTTTGTTCCGATGTATAAAAAAGACATAATACCTTATATGATGATTTCAATGCTAATGCATTGG
*
26000935 TTTTGATTTAAAGTTCATTT
66 TTGTGATTTAAAGTTCATTT
26000955 TGTTGACATA
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
101 40 0.53
102 36 0.47
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (103 bp):
CCTTTGTTCCGATGTATAAAAAAGACATAATACCTTATATGATGATTTCAATGCTAATGCATTGG
TTGTGATTTAAAGTTCATTTAGCGCGTGCGATATCACA
Found at i:26007144 original size:30 final size:30
Alignment explanation
Indices: 26007096--26007152 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
26007086 AACTGAAAAA
*
26007096 TTAAATGTTGACATATTAAATGTTAAAATG
1 TTAAATATTGACATATTAAATGTTAAAATG
*
26007126 TTAAATATTGAACA-ATTAAGTGTTAAA
1 TTAAATATTG-ACATATTAAATGTTAAA
26007153 TTTAAACTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 21 0.88
31 3 0.12
ACGTcount: A:0.46, C:0.04, G:0.12, T:0.39
Consensus pattern (30 bp):
TTAAATATTGACATATTAAATGTTAAAATG
Found at i:26012651 original size:148 final size:148
Alignment explanation
Indices: 26012477--26012772 Score: 567
Period size: 148 Copynumber: 2.0 Consensus size: 148
26012467 TCGAGTTGGA
*
26012477 ATTGTCGGTTTTATTATTTAAATAATAAAAAATTATAGTAAAATTTATATATTTTATAATTAAAT
1 ATTGTCGGATTTATTATTTAAATAATAAAAAATTATAGTAAAATTTATATATTTTATAATTAAAT
26012542 TTAAATAAGAATAAAATTTCATTTTTTTTAAATAATTT-AATGAATATTTTTAAAGTTGAGGTTT
66 TTAAATAAGAATAAAATTTCATTTTTTTTAAATAATTTAAATGAATA-TTTTAAAGTTGAGGTTT
26012606 CATGAATTTTGAAATCTCG
130 CATGAATTTTGAAATCTCG
26012625 ATTGTCGGATTTATTATTTAAATAATAAAAAATTATAGTAAAATTTATATATTTTATAATTAAAT
1 ATTGTCGGATTTATTATTTAAATAATAAAAAATTATAGTAAAATTTATATATTTTATAATTAAAT
26012690 TTAAATAAGAATAAAATTTCATTTTTTTTAAATAATTTAAATGAATATTTTAAAGTTGAGGTTTC
66 TTAAATAAGAATAAAATTTCATTTTTTTTAAATAATTTAAATGAATATTTTAAAGTTGAGGTTTC
26012755 ATGAATTTTGAAATCTCG
131 ATGAATTTTGAAATCTCG
26012773 TGTTTGAATT
Statistics
Matches: 146, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
148 138 0.95
149 8 0.05
ACGTcount: A:0.42, C:0.03, G:0.09, T:0.46
Consensus pattern (148 bp):
ATTGTCGGATTTATTATTTAAATAATAAAAAATTATAGTAAAATTTATATATTTTATAATTAAAT
TTAAATAAGAATAAAATTTCATTTTTTTTAAATAATTTAAATGAATATTTTAAAGTTGAGGTTTC
ATGAATTTTGAAATCTCG
Found at i:26014124 original size:4 final size:4
Alignment explanation
Indices: 26014115--26014149 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
26014105 AGCCAAGGTT
26014115 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
26014150 GGTTGCCTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:26017076 original size:8 final size:9
Alignment explanation
Indices: 26017055--26017079 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
26017045 ATTGACTTGA
26017055 AAAAATATT
1 AAAAATATT
26017064 AAAAATATT
1 AAAAATATT
26017073 AAAAATA
1 AAAAATA
26017080 AGTAGTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (9 bp):
AAAAATATT
Found at i:26018007 original size:22 final size:22
Alignment explanation
Indices: 26017945--26018008 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 22
26017935 CAATGTTATT
**
26017945 ATTTTAGAATTTTT-TTTATAA
1 ATTTTAGAATTTTTATAAATAA
* * * *
26017966 TTTTTATAATTTTAAAAAATAA
1 ATTTTAGAATTTTTATAAATAA
26017988 ATTTTAGAATTTTTATAAATA
1 ATTTTAGAATTTTTATAAATA
26018009 TTTAAAATTT
Statistics
Matches: 32, Mismatches: 10, Indels: 1
0.74 0.23 0.02
Matches are distributed among these distances:
21 11 0.34
22 21 0.66
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (22 bp):
ATTTTAGAATTTTTATAAATAA
Found at i:26018026 original size:19 final size:19
Alignment explanation
Indices: 26017984--26018020 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
26017974 ATTTTAAAAA
*
26017984 ATAAAT-TTTAGAATTTTT
1 ATAAATATTTAAAATTTTT
26018002 ATAAATATTTAAAATTTTT
1 ATAAATATTTAAAATTTTT
26018021 GAAAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (19 bp):
ATAAATATTTAAAATTTTT
Found at i:26023826 original size:13 final size:13
Alignment explanation
Indices: 26023808--26023833 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
26023798 TGCACTTTTA
26023808 AACATAAAACATT
1 AACATAAAACATT
26023821 AACATAAAACATT
1 AACATAAAACATT
26023834 TTTTGTATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (13 bp):
AACATAAAACATT
Found at i:26025919 original size:27 final size:27
Alignment explanation
Indices: 26025875--26025985 Score: 132
Period size: 27 Copynumber: 4.1 Consensus size: 27
26025865 TATTTCGGAA
*
26025875 ACCAACAGAGGTACGTCGATACAAGGG
1 ACCAACAAAGGTACGTCGATACAAGGG
* * * *
26025902 ATCAACAAAGGTATGTCGATCCAAGAG
1 ACCAACAAAGGTACGTCGATACAAGGG
* * *
26025929 ACCAACAGAGGTACGTCGATCCGAGGG
1 ACCAACAAAGGTACGTCGATACAAGGG
* *
26025956 ACCAACAAAGGTATGTTGATACAAGGG
1 ACCAACAAAGGTACGTCGATACAAGGG
26025983 ACC
1 ACC
26025986 GTGATTTTCA
Statistics
Matches: 69, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.37, C:0.22, G:0.27, T:0.14
Consensus pattern (27 bp):
ACCAACAAAGGTACGTCGATACAAGGG
Found at i:26025937 original size:54 final size:54
Alignment explanation
Indices: 26025875--26025985 Score: 168
Period size: 54 Copynumber: 2.1 Consensus size: 54
26025865 TATTTCGGAA
* *
26025875 ACCAACAGAGGTACGTCGATACAAGGGATCAACAAAGGTATGTCGATCCAAGAG
1 ACCAACAGAGGTACGTCGATACAAGGGACCAACAAAGGTATGTCGATACAAGAG
* * * *
26025929 ACCAACAGAGGTACGTCGATCCGAGGGACCAACAAAGGTATGTTGATACAAGGG
1 ACCAACAGAGGTACGTCGATACAAGGGACCAACAAAGGTATGTCGATACAAGAG
26025983 ACC
1 ACC
26025986 GTGATTTTCA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.37, C:0.22, G:0.27, T:0.14
Consensus pattern (54 bp):
ACCAACAGAGGTACGTCGATACAAGGGACCAACAAAGGTATGTCGATACAAGAG
Found at i:26028459 original size:19 final size:19
Alignment explanation
Indices: 26028401--26028459 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 19
26028391 ACATTGACAG
26028401 GAGTTAGCAGTATAGTAAT
1 GAGTTAGCAGTATAGTAAT
* *
26028420 GAAGAGATAG-AGAAT-GT-AT
1 ---GAGTTAGCAGTATAGTAAT
26028439 GAGTTAGCAGTATAGTAAT
1 GAGTTAGCAGTATAGTAAT
26028458 GA
1 GA
26028460 AGAGATAGAG
Statistics
Matches: 30, Mismatches: 4, Indels: 9
0.70 0.09 0.21
Matches are distributed among these distances:
16 6 0.20
17 4 0.13
18 2 0.07
19 6 0.20
20 2 0.07
21 4 0.13
22 6 0.20
ACGTcount: A:0.41, C:0.03, G:0.29, T:0.27
Consensus pattern (19 bp):
GAGTTAGCAGTATAGTAAT
Found at i:26035763 original size:4 final size:4
Alignment explanation
Indices: 26035746--26035779 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
26035736 AGGTAACTTT
* *
26035746 CATA CCTA CCTA CATA CATA CATA CATA CATA CA
1 CATA CATA CATA CATA CATA CATA CATA CATA CA
26035780 GAAGCCGGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.44, C:0.32, G:0.00, T:0.24
Consensus pattern (4 bp):
CATA
Found at i:26040888 original size:24 final size:24
Alignment explanation
Indices: 26040856--26040908 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
26040846 AAAACGATAT
**
26040856 ATATATAAATTTATTAAATTAAAA
1 ATATATAAAAATATTAAATTAAAA
26040880 ATATATAAAAATATTAAATTAAAA
1 ATATATAAAAATATTAAATTAAAA
26040904 ATATA
1 ATATA
26040909 AATATAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (24 bp):
ATATATAAAAATATTAAATTAAAA
Found at i:26040904 original size:14 final size:14
Alignment explanation
Indices: 26040867--26040939 Score: 66
Period size: 14 Copynumber: 5.5 Consensus size: 14
26040857 TATATAAATT
26040867 TATTAAATTAAAAA
1 TATTAAATTAAAAA
26040881 TA-T--A-TAAAAA
1 TATTAAATTAAAAA
26040891 TATTAAATTAAAAA
1 TATTAAATTAAAAA
*
26040905 TA-TAAATATAAATA
1 TATTAAAT-TAAAAA
**
26040919 TATTATTTTAAAAA
1 TATTAAATTAAAAA
*
26040933 TTTTAAA
1 TATTAAA
26040940 ACAATGTGAG
Statistics
Matches: 46, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
10 8 0.17
11 2 0.04
13 7 0.15
14 26 0.57
15 3 0.07
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
TATTAAATTAAAAA
Found at i:26040913 original size:28 final size:27
Alignment explanation
Indices: 26040852--26040933 Score: 98
Period size: 28 Copynumber: 3.1 Consensus size: 27
26040842 CTTAAAAACG
*
26040852 ATATATATATAAATTTATTAAATTAAAA
1 ATATA-ATATAAATATATTAAATTAAAA
26040880 ATAT-ATA-AAA-ATATTAAATTAAAA
1 ATATAATATAAATATATTAAATTAAAA
**
26040904 ATATAAATATAAATATATTATTTTAAAA
1 ATAT-AATATAAATATATTAAATTAAAA
26040932 AT
1 AT
26040934 TTTAAAACAA
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
24 17 0.36
25 3 0.06
26 6 0.13
27 3 0.06
28 18 0.38
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (27 bp):
ATATAATATAAATATATTAAATTAAAA
Found at i:26041471 original size:26 final size:26
Alignment explanation
Indices: 26041434--26041494 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 26
26041424 TATATTTATA
26041434 TTATAT-TATTTTAATATTTAAT-AATT
1 TTATATATATTTT--TATTTAATAAATT
26041460 TTATATAT-TTTTTATTTAATGAAATT
1 TTATATATATTTTTATTTAAT-AAATT
*
26041486 TTTTATATA
1 TTATATATA
26041495 ATCATCTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
24 8 0.27
26 21 0.70
27 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (26 bp):
TTATATATATTTTTATTTAATAAATT
Found at i:26048610 original size:3 final size:3
Alignment explanation
Indices: 26048602--26048639 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
26048592 CATGTAAATA
*
26048602 TGT TGT TGT TGT TGT TGT TCT TGT TGT TGT TGT TGT TG
1 TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TG
26048640 CCATAGTTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.00, C:0.03, G:0.32, T:0.66
Consensus pattern (3 bp):
TGT
Found at i:26049775 original size:24 final size:25
Alignment explanation
Indices: 26049738--26049784 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
26049728 TACTTCAATT
26049738 CTAAAATCTGAAAA-AATAAAAGCG
1 CTAAAATCTGAAAATAATAAAAGCG
*
26049762 CTAAAATTCT-AAAATGATAAAAG
1 CTAAAA-TCTGAAAATAATAAAAG
26049785 TATAGGGATC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.57, C:0.11, G:0.11, T:0.21
Consensus pattern (25 bp):
CTAAAATCTGAAAATAATAAAAGCG
Found at i:26051862 original size:20 final size:22
Alignment explanation
Indices: 26051837--26051880 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
26051827 TGTCCCTTTT
26051837 TTATTTT-TTC-TTAATTATTA
1 TTATTTTCTTCATTAATTATTA
26051857 TTATTTTCTTCAATTAATTATTA
1 TTATTTTCTTC-ATTAATTATTA
26051880 T
1 T
26051881 AATCATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.33
21 3 0.14
23 11 0.52
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.66
Consensus pattern (22 bp):
TTATTTTCTTCATTAATTATTA
Found at i:26051876 original size:17 final size:17
Alignment explanation
Indices: 26051838--26051878 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
26051828 GTCCCTTTTT
26051838 TATT-TTTTCTTAATTA
1 TATTATTTTCTTAATTA
26051854 TTATTATTTTCTTCAATTA
1 -TATTATTTTCTT-AATTA
26051873 -ATTATT
1 TATTATT
26051879 ATAATCATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 10 0.45
18 7 0.32
19 5 0.23
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.66
Consensus pattern (17 bp):
TATTATTTTCTTAATTA
Found at i:26054788 original size:155 final size:156
Alignment explanation
Indices: 26054506--26054817 Score: 617
Period size: 155 Copynumber: 2.0 Consensus size: 156
26054496 AATTCTATCT
26054506 ATGATCGATAAATCAAATGTGGATGTATCAACAAAGTCTTTGGTGCAATGATAGTGTACATTGCA
1 ATGATCGATAAATCAAATGTGGATGTATCAACAAAGTCTTTGGTGCAATGATAGTGTACATTGCA
26054571 TTTCCAAAAGGACATTACAGATTCAAACCTTAAAAACGACACTATTAGGGGACAGTCACGACTCT
66 TTTCCAAAAGGACATTACAGATTCAAACCTTAAAAACGACACTATTAGGGGACAGTCACGACTCT
26054636 CCAACATGAATTAT-AAACAAACCTG
131 CCAACATGAATTATAAAACAAACCTG
26054661 ATGATCGATAAATCAAATGTGGATGTATCAACAAAGTCTTTGGTGCAATGATAGTGTACATTGCA
1 ATGATCGATAAATCAAATGTGGATGTATCAACAAAGTCTTTGGTGCAATGATAGTGTACATTGCA
26054726 TTTCCAAAAGGACATTACAGATTCAAACCTTAAAAACGACACTATTAGGGGACAGTCACGACTCT
66 TTTCCAAAAGGACATTACAGATTCAAACCTTAAAAACGACACTATTAGGGGACAGTCACGACTCT
26054791 CCAACATGAATTATAAAACAAACCTG
131 CCAACATGAATTATAAAACAAACCTG
26054817 A
1 A
26054818 AATATATATA
Statistics
Matches: 156, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
155 144 0.92
156 12 0.08
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.26
Consensus pattern (156 bp):
ATGATCGATAAATCAAATGTGGATGTATCAACAAAGTCTTTGGTGCAATGATAGTGTACATTGCA
TTTCCAAAAGGACATTACAGATTCAAACCTTAAAAACGACACTATTAGGGGACAGTCACGACTCT
CCAACATGAATTATAAAACAAACCTG
Found at i:26059068 original size:4 final size:4
Alignment explanation
Indices: 26059059--26059087 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
26059049 ATATGTATAA
26059059 TATT TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT TATT T
26059088 TGTCAAATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:26061297 original size:16 final size:16
Alignment explanation
Indices: 26061273--26061306 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
26061263 CCCAAAAACG
* *
26061273 ATCTGAACCCGAATTA
1 ATCTAAACCCAAATTA
26061289 ATCTAAACCCAAATTA
1 ATCTAAACCCAAATTA
26061305 AT
1 AT
26061307 TCGATCTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.24, G:0.06, T:0.26
Consensus pattern (16 bp):
ATCTAAACCCAAATTA
Found at i:26063578 original size:23 final size:23
Alignment explanation
Indices: 26063551--26063606 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
26063541 TGTTGGTAGG
*
26063551 TTTATATTTATATTA-TTTATTAT
1 TTTATATTTATATAATTTTA-TAT
26063574 TTTATATTTA-ATAATTTTATAT
1 TTTATATTTATATAATTTTATAT
*
26063596 TTTTTATTTAT
1 TTTATATTTAT
26063607 TAAAATATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 15 0.52
23 14 0.48
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (23 bp):
TTTATATTTATATAATTTTATAT
Found at i:26068705 original size:4 final size:4
Alignment explanation
Indices: 26068696--26068753 Score: 98
Period size: 4 Copynumber: 14.5 Consensus size: 4
26068686 AATCTTTAGG
*
26068696 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT GCAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
26068744 ACAT TCAT AC
1 ACAT ACAT AC
26068754 GATAAAAAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 50 1.00
ACGTcount: A:0.47, C:0.26, G:0.02, T:0.26
Consensus pattern (4 bp):
ACAT
Found at i:26071556 original size:28 final size:28
Alignment explanation
Indices: 26071516--26071575 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
26071506 AAAAAGCCCT
* *
26071516 TTTTTTCAATATTTACCGAAATGGGCCG
1 TTTTTTCAATATTTACCGAAATGAGCCA
*
26071544 TTTTTT-AATTATTTACCGGAATGAGCCA
1 TTTTTTCAA-TATTTACCGAAATGAGCCA
26071572 TTTT
1 TTTT
26071576 CTGCGAAATC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 2 0.07
28 26 0.93
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.45
Consensus pattern (28 bp):
TTTTTTCAATATTTACCGAAATGAGCCA
Found at i:26071905 original size:16 final size:15
Alignment explanation
Indices: 26071879--26071909 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
26071869 TTGCCCCTAA
26071879 ATTTTATTTTTTCGG
1 ATTTTATTTTTTCGG
26071894 ATTTTGATTTTTTCGG
1 ATTTT-ATTTTTTCGG
26071910 TTTAAAATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.13, C:0.06, G:0.16, T:0.65
Consensus pattern (15 bp):
ATTTTATTTTTTCGG
Found at i:26072578 original size:28 final size:28
Alignment explanation
Indices: 26072520--26072580 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 28
26072510 GATTTTGCGG
*
26072520 AAAATGGCCCATTCCGGTAAATAATTAA
1 AAAATGGCCCATTCCGATAAATAATTAA
*
26072548 AAAATCGGCCCATTTCGATAAAT-ATTGAA
1 AAAAT-GGCCCATTCCGATAAATAATT-AA
26072577 AAAA
1 AAAA
26072581 AAGGGCTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 8 0.28
29 21 0.72
ACGTcount: A:0.46, C:0.16, G:0.13, T:0.25
Consensus pattern (28 bp):
AAAATGGCCCATTCCGATAAATAATTAA
Found at i:26074377 original size:32 final size:32
Alignment explanation
Indices: 26074317--26074377 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
26074307 GAATTTGAAC
*
26074317 CATTTCAAGTTCAAATTATTATACATTCAAGT
1 CATTTCAAGTTCAAATTATTATAAATTCAAGT
* * *
26074349 CATTTCAAGTTTAAATTGTTTTAAATTCA
1 CATTTCAAGTTCAAATTATTATAAATTCA
26074378 GATCAATCGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.44
Consensus pattern (32 bp):
CATTTCAAGTTCAAATTATTATAAATTCAAGT
Found at i:26078735 original size:19 final size:19
Alignment explanation
Indices: 26078711--26078750 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
26078701 TAAAATTTAT
*
26078711 ATTAATATTAT-ATTTAAAA
1 ATTAATAGTATCA-TTAAAA
26078730 ATTAATAGTATCATTAAAA
1 ATTAATAGTATCATTAAAA
26078749 AT
1 AT
26078751 AAAAAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 18 0.95
20 1 0.05
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (19 bp):
ATTAATAGTATCATTAAAA
Found at i:26088495 original size:3 final size:3
Alignment explanation
Indices: 26088487--26088512 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
26088477 AATGTCAAAA
26088487 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
26088513 AATTTTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:26088879 original size:133 final size:133
Alignment explanation
Indices: 26088640--26088912 Score: 300
Period size: 133 Copynumber: 2.1 Consensus size: 133
26088630 TTTTATAGGT
* ** *
26088640 TCATTAAGGGAGTAAATGATGGTCACGAGCTTTAAAGTTGCTCCATACCCAAGATAAGAATTAAA
1 TCATTAAGGCAGTAAATGATGACCACGAGCTTTAAAGCTGCTCCATACCCAAGATAAGAATTAAA
* * * ** * * * ** *
26088705 CTCTCGACCACTGGTTAAGGTAGGGGGAATTTTTGCTATCTCACTTAACTTCCGTGATTAAAGAA
66 CCCTCAAACACTGGTTAAGGTAGGAAGAATATTTGCCATCTCACCTAACCCCCATGATTAAAGAA
26088770 AAA
131 AAA
* * * *
26088773 TCATTAAGGCAGTAAATGCTGACCATGAGCTTTAAAGCTGCTCCAT-TCCTAGAGTGAA-AATTA
1 TCATTAAGGCAGTAAATGATGACCACGAGCTTTAAAGCTGCTCCATACCCAAGA-T-AAGAATTA
* * *
26088836 AACCCTCAAACATTGGTTAAGGTAGGAATAATCATTT-CCATCTCACCTAACCCCCATGATTAGA
64 AACCCTCAAACACTGGTTAAGGTAGGAAGAAT-ATTTGCCATCTCACCTAACCCCCATGATTAAA
26088900 GAAAAA
128 GAAAAA
26088906 TCATTAA
1 TCATTAA
26088913 TGGAGCAGAT
Statistics
Matches: 115, Mismatches: 22, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
132 5 0.04
133 105 0.91
134 5 0.04
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (133 bp):
TCATTAAGGCAGTAAATGATGACCACGAGCTTTAAAGCTGCTCCATACCCAAGATAAGAATTAAA
CCCTCAAACACTGGTTAAGGTAGGAAGAATATTTGCCATCTCACCTAACCCCCATGATTAAAGAA
AAA
Found at i:26091611 original size:125 final size:125
Alignment explanation
Indices: 26091450--26091675 Score: 382
Period size: 125 Copynumber: 1.8 Consensus size: 125
26091440 TCCCGGGAAA
* *
26091450 AGAAATTGTGAAATCGTGGCCTCGTGGACGCAATTTCGCTACAG-TGGTCATGTAAGAAATAATT
1 AGAAATTGTGAAATCATGCCCTCGTGGACGCAATTTCGCTACAGTTGGTCATGTAAGAAATAATT
26091514 TTTTTTGACGTTTTCTGAGCAAATAGTATAAAATCGCTGATACAAGGATGCTATATTGGGC
66 TTTTTTGACG-TTTCTGAGCAAATAGTATAAAATCGCTGATACAAGGATGCTATATTGGGC
* *
26091575 AGAAATTGTGAAATCATGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAGGAAATAATT
1 AGAAATTGTGAAATCATGCCCTCGTGGACGCAATTTCGCTACAGTTGGTCATGTAAGAAATAATT
* *
26091640 TTTTTTGACGTTTCTGAGCAAATAGTGTCAAATCGC
66 TTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGC
26091676 GCCCTCGTGG
Statistics
Matches: 94, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
125 65 0.69
126 29 0.31
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.32
Consensus pattern (125 bp):
AGAAATTGTGAAATCATGCCCTCGTGGACGCAATTTCGCTACAGTTGGTCATGTAAGAAATAATT
TTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTGATACAAGGATGCTATATTGGGC
Found at i:26092348 original size:14 final size:15
Alignment explanation
Indices: 26092331--26092364 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
26092321 AATAAATATC
26092331 TAAAAATA-CATAAA
1 TAAAAATATCATAAA
*
26092345 TAAAAATATCTTAAA
1 TAAAAATATCATAAA
26092360 TAAAA
1 TAAAA
26092365 TATAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAATATCATAAA
Found at i:26092511 original size:22 final size:22
Alignment explanation
Indices: 26092483--26092552 Score: 131
Period size: 22 Copynumber: 3.2 Consensus size: 22
26092473 AAATTATTTT
26092483 ATTTTTGAAGGAAATTGAGAGA
1 ATTTTTGAAGGAAATTGAGAGA
*
26092505 ATTTTTGAAGGGAATTGAGAGA
1 ATTTTTGAAGGAAATTGAGAGA
26092527 ATTTTTGAAGGAAATTGAGAGA
1 ATTTTTGAAGGAAATTGAGAGA
26092549 ATTT
1 ATTT
26092553 GTTTGTGAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.39, C:0.00, G:0.27, T:0.34
Consensus pattern (22 bp):
ATTTTTGAAGGAAATTGAGAGA
Found at i:26093439 original size:22 final size:22
Alignment explanation
Indices: 26093405--26093467 Score: 63
Period size: 23 Copynumber: 2.8 Consensus size: 22
26093395 GTAGAAAACG
* * *
26093405 GAATTTAATTATATTTTTTTAT
1 GAATTAAAATATAATTTTTTAT
*
26093427 GAATTAAAATATAAGTTTATTAT
1 GAATTAAAATATAA-TTTTTTAT
* *
26093450 GTATTAATATATAATTTT
1 GAATTAAAATATAATTTT
26093468 ATCTTTCTTG
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
22 14 0.42
23 19 0.58
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (22 bp):
GAATTAAAATATAATTTTTTAT
Found at i:26093455 original size:23 final size:23
Alignment explanation
Indices: 26093423--26093469 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
26093413 TTATATTTTT
26093423 TTATGAATTAAAATATAAGTTTA
1 TTATGAATTAAAATATAAGTTTA
* * *
26093446 TTATGTATTAATATATAATTTTA
1 TTATGAATTAAAATATAAGTTTA
26093469 T
1 T
26093470 CTTTCTTGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (23 bp):
TTATGAATTAAAATATAAGTTTA
Found at i:26098601 original size:3 final size:3
Alignment explanation
Indices: 26098593--26098646 Score: 90
Period size: 3 Copynumber: 17.7 Consensus size: 3
26098583 TTTGAAACCT
*
26098593 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTT TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
26098641 TATA TT
1 T-TA TT
26098647 TTAAATTCCT
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
3 45 0.94
4 3 0.06
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:26108168 original size:30 final size:30
Alignment explanation
Indices: 26108128--26108185 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
26108118 ACAAACGAAC
* *
26108128 GCCCTTATCTCTGCTCTCTGCTGCTTCTTT
1 GCCCTCATCTCTGCCCTCTGCTGCTTCTTT
*
26108158 GCCCTCATCTCTGCCCTCTGCTGGTTCT
1 GCCCTCATCTCTGCCCTCTGCTGCTTCT
26108186 GTGTTCTGCC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.03, C:0.40, G:0.16, T:0.41
Consensus pattern (30 bp):
GCCCTCATCTCTGCCCTCTGCTGCTTCTTT
Found at i:26108193 original size:23 final size:23
Alignment explanation
Indices: 26108167--26108213 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
26108157 TGCCCTCATC
26108167 TCTGCCCTCTGCTGGTTCTGTGT
1 TCTGCCCTCTGCTGGTTCTGTGT
* *
26108190 TCTGCCCTTTGCTGGTTCTTTGT
1 TCTGCCCTCTGCTGGTTCTGTGT
26108213 T
1 T
26108214 TCTCTGCCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.00, C:0.28, G:0.23, T:0.49
Consensus pattern (23 bp):
TCTGCCCTCTGCTGGTTCTGTGT
Found at i:26108346 original size:41 final size:41
Alignment explanation
Indices: 26108289--26108373 Score: 152
Period size: 41 Copynumber: 2.1 Consensus size: 41
26108279 TTGTCTGGGA
*
26108289 TTGATTTTCAAATTCCCTGCCCTCTGCCCTTTGCTGGTTCT
1 TTGATTTTCAAATTCCCTACCCTCTGCCCTTTGCTGGTTCT
*
26108330 TTGATTTTCAATTTCCCTACCCTCTGCCCTTTGCTGGTTCT
1 TTGATTTTCAAATTCCCTACCCTCTGCCCTTTGCTGGTTCT
26108371 TTG
1 TTG
26108374 GCCTTGAAGC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.09, C:0.31, G:0.14, T:0.46
Consensus pattern (41 bp):
TTGATTTTCAAATTCCCTACCCTCTGCCCTTTGCTGGTTCT
Found at i:26111353 original size:13 final size:13
Alignment explanation
Indices: 26111335--26111411 Score: 127
Period size: 13 Copynumber: 5.9 Consensus size: 13
26111325 ACACTTAAAT
*
26111335 TTCTCAAAATCAC
1 TTCTCAAAAGCAC
26111348 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
*
26111361 TTCTCAAAATCAC
1 TTCTCAAAAGCAC
*
26111374 TTCTGAAAAGCAC
1 TTCTCAAAAGCAC
26111387 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
26111400 TTCTCAAAAGCA
1 TTCTCAAAAGCA
26111412 ATGAAGAACT
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 59 1.00
ACGTcount: A:0.39, C:0.29, G:0.06, T:0.26
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:26112328 original size:13 final size:13
Alignment explanation
Indices: 26112310--26112334 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26112300 TATGAATATA
26112310 ACCGTCGTCCACC
1 ACCGTCGTCCACC
26112323 ACCGTCGTCCAC
1 ACCGTCGTCCAC
26112335 GTATACTCGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.52, G:0.16, T:0.16
Consensus pattern (13 bp):
ACCGTCGTCCACC
Found at i:26127423 original size:20 final size:21
Alignment explanation
Indices: 26127384--26127423 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
26127374 CAAGGTGCGA
*
26127384 TACAGATACATTTGATTCTTT
1 TACAGATACATTTGAATCTTT
*
26127405 TACAGATATA-TTGAATCTT
1 TACAGATACATTTGAATCTT
26127424 ATCTATCGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (21 bp):
TACAGATACATTTGAATCTTT
Found at i:26130195 original size:21 final size:21
Alignment explanation
Indices: 26130171--26130215 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
26130161 GTCAATGTAT
26130171 ATTCATTGAGCATGTTGCTCC
1 ATTCATTGAGCATGTTGCTCC
26130192 ATTCATTGAGCATGTTGCTCC
1 ATTCATTGAGCATGTTGCTCC
26130213 ATT
1 ATT
26130216 GTTGTCATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.20, C:0.22, G:0.18, T:0.40
Consensus pattern (21 bp):
ATTCATTGAGCATGTTGCTCC
Found at i:26130811 original size:113 final size:113
Alignment explanation
Indices: 26130612--26130824 Score: 311
Period size: 113 Copynumber: 1.9 Consensus size: 113
26130602 GGCCCCCCCA
* * * * *
26130612 AAAATGGAAAATTTCCTTATAGTCCCTTTAAAATTTTGTAATATTCTAAACAAGGACAATAGTAA
1 AAAATGGAAAATTTCCTTACAGTCCCTTTAAAA-TTTATAAGATTCTAAACAAGAACAACAGTAA
*
26130677 AATTACATTGAACCACACATTTACACATAGTAAGACTTAGACCCTAAAC
65 AATTACAATGAACCACACATTTACACATAGTAAGACTTAGACCCTAAAC
* * * *
26130726 AAAATGGGAACTTTCCTTACAGTCCCTCTTGAAA-TTATAAGATTTTAAACAAGAACAACAGTAA
1 AAAATGGAAAATTTCCTTACAGTCCCT-TTAAAATTTATAAGATTCTAAACAAGAACAACAGTAA
26130790 AATTACAATGAACCACACATTTACACATAGTAAGA
65 AATTACAATGAACCACACATTTACACATAGTAAGA
26130825 TTTCCTTGTA
Statistics
Matches: 88, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
113 59 0.67
114 24 0.27
115 5 0.06
ACGTcount: A:0.44, C:0.18, G:0.10, T:0.28
Consensus pattern (113 bp):
AAAATGGAAAATTTCCTTACAGTCCCTTTAAAATTTATAAGATTCTAAACAAGAACAACAGTAAA
ATTACAATGAACCACACATTTACACATAGTAAGACTTAGACCCTAAAC
Found at i:26134869 original size:2 final size:2
Alignment explanation
Indices: 26134856--26134885 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
26134846 TCGGAAGGGC
*
26134856 AT AT AC 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 AT
26134886 TAAAAATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Done.