Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 208 of 325
Found at i:64711256 original size:17 final size:18
Alignment explanation
Indices: 64711234--64711574 Score: 106
Period size: 19 Copynumber: 18.6 Consensus size: 18
64711224 TAATAAAATC
*
64711234 TAAAAATATTATATT-AA
1 TAAAAATATAATATTAAA
64711251 TAAAAA-ATAATATTAAA
1 TAAAAATATAATATTAAA
* *
64711268 TAAAAATAAAAAATTTAAA
1 TAAAAATATAATA-TTAAA
64711287 T-AAAATATAATATCATTAAA
1 TAAAAATAT-A-AT-ATTAAA
64711307 TAATAAA-ATAATATTATAA
1 TAA-AAATATAATATTA-AA
** *
64711326 CCAAAATATAATAATATAA
1 TAAAAATATAATATTA-AA
64711345 -AAAAATATAA-ATT-AA
1 TAAAAATATAATATTAAA
* * *
64711360 T-AATAT-TAATAATAAT
1 TAAAAATATAATATTAAA
64711376 TAAAAA-ATAATA-TAAA
1 TAAAAATATAATATTAAA
* **
64711392 T-AAAAT-TTATATATAGTC
1 TAAAAATATAATAT-TA-AA
* * * *
64711410 TAAAGATAAAAGAGTAAA
1 TAAAAATATAATATTAAA
64711428 TAAGAAATAATAA-ATTAAA
1 TAA-AAAT-ATAATATTAAA
*
64711447 TTAAAATACCATTAATA-TAATA
1 -TAAAA-A-TA-TAATATTAA-A
*
64711469 TAAAAAATAAAATAATTAAAA
1 T-AAAAATATAAT-ATT-AAA
* *
64711490 TGAATAAA-ATAAAAATAAAA
1 T-AA-AAATAT-AATATTAAA
*
64711510 TAAAAGATATAATAATAAA
1 TAAAA-ATATAATATTAAA
* * *
64711529 TAGAAAAAATAAAATATAAT
1 TA-AAAATATAATAT-TAAA
*
64711549 TAAAAATTTAATA--AAA
1 TAAAAATATAATATTAAA
64711565 TAAAAATATA
1 TAAAAATATA
64711575 TAAGTATAAA
Statistics
Matches: 238, Mismatches: 47, Indels: 79
0.65 0.13 0.22
Matches are distributed among these distances:
14 3 0.01
15 16 0.07
16 24 0.10
17 26 0.11
18 32 0.13
19 67 0.28
20 34 0.14
21 20 0.08
22 16 0.07
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (18 bp):
TAAAAATATAATATTAAA
Found at i:64711258 original size:18 final size:17
Alignment explanation
Indices: 64711234--64711396 Score: 86
Period size: 17 Copynumber: 9.3 Consensus size: 17
64711224 TAATAAAATC
*
64711234 TAAAAATATTATATT-AA
1 TAAAAA-ATAATATTAAA
64711251 TAAAAAATAATATTAAA
1 TAAAAAATAATATTAAA
* *
64711268 TAAAAATAAAAAATTTAAA
1 TAAAAA-ATAATA-TTAAA
*
64711287 TAAAATATAATATCATTAAA
1 TAAAAAAT-A-AT-ATTAAA
64711307 TAATAAAATAATATTATAA
1 TAA-AAAATAATATTA-AA
* *
64711326 CCAAAATATAATAATATAAA
1 -TAAAAAATAAT-AT-TAAA
*
64711346 -AAAATATAA-ATT-AA
1 TAAAAAATAATATTAAA
* * * *
64711360 T-AATATTAATAATAAT
1 TAAAAAATAATATTAAA
64711376 TAAAAAATAATA-TAAA
1 TAAAAAATAATATTAAA
64711392 TAAAA
1 TAAAA
64711397 TTTATATATA
Statistics
Matches: 114, Mismatches: 17, Indels: 31
0.70 0.10 0.19
Matches are distributed among these distances:
14 7 0.06
15 3 0.03
16 19 0.17
17 22 0.19
18 18 0.16
19 22 0.19
20 16 0.14
21 7 0.06
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (17 bp):
TAAAAAATAATATTAAA
Found at i:64711364 original size:23 final size:22
Alignment explanation
Indices: 64711329--64711398 Score: 70
Period size: 23 Copynumber: 3.0 Consensus size: 22
64711319 ATTATAACCA
64711329 AAATATAATAATATAAAAAAATAT
1 AAAT-TAATAATATAAAAAAAT-T
*
64711353 AAATTAATAATATTAATAATAATT
1 AAATTAATAATA-TAA-AAAAATT
*
64711377 AAA-AAATAATATAAATAAAATT
1 AAATTAATAATATAAA-AAAATT
64711399 TATATATAGT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
21 1 0.03
22 8 0.20
23 15 0.38
24 11 0.28
25 5 0.12
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (22 bp):
AAATTAATAATATAAAAAAATT
Found at i:64711480 original size:5 final size:5
Alignment explanation
Indices: 64711472--64711569 Score: 53
Period size: 5 Copynumber: 19.8 Consensus size: 5
64711462 TATAATATAA
* * * *
64711472 AAAAT AAAAT -AATT AAAAT -GAAT AAAAT AAAAAT AAAAT AAAA- GATAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT AAAAT AAAAT
* * **
64711520 AATAAT -AAAT AGAA- AAAAT AAAAT ATAATT AAAAAT TTAAT AAAAT
1 AA-AAT AAAAT AAAAT AAAAT AAAAT A-AAAT -AAAAT AAAAT AAAAT
64711566 AAAA
1 AAAA
64711570 ATATATAAGT
Statistics
Matches: 68, Mismatches: 16, Indels: 18
0.67 0.16 0.18
Matches are distributed among these distances:
4 14 0.21
5 40 0.59
6 13 0.19
7 1 0.01
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.24
Consensus pattern (5 bp):
AAAAT
Found at i:64711510 original size:20 final size:19
Alignment explanation
Indices: 64711470--64711547 Score: 61
Period size: 20 Copynumber: 3.8 Consensus size: 19
64711460 AATATAATAT
64711470 AAAAAATAAAATAATTAAAATG
1 AAAAAAT-AAA-AA-TAAAATG
64711492 AATAAAATAAAAATAAAAT-
1 AA-AAAATAAAAATAAAATG
*
64711511 AAAAGATATAATAAT-AAATAG
1 AAAA-A-ATAAAAATAAAAT-G
64711532 AAAAAATAAAATATAA
1 AAAAAATAAAA-ATAA
64711548 TTAAAAATTT
Statistics
Matches: 47, Mismatches: 2, Indels: 15
0.73 0.03 0.23
Matches are distributed among these distances:
18 2 0.04
19 12 0.26
20 16 0.34
21 7 0.15
22 5 0.11
23 5 0.11
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (19 bp):
AAAAAATAAAAATAAAATG
Found at i:64711537 original size:28 final size:28
Alignment explanation
Indices: 64711503--64711574 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
64711493 ATAAAATAAA
64711503 AATAAAATAAAAGATATAA-TAATAAATAG
1 AATAAAATAAAA-ATATAATTAA-AAATAG
**
64711532 AA-AAAAT-AAAATATAATTAAAAATTT
1 AATAAAATAAAAATATAATTAAAAATAG
64711558 AATAAAATAAAAATATA
1 AATAAAATAAAAATATA
64711575 TAAGTATAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
26 12 0.32
27 11 0.29
28 13 0.34
29 2 0.05
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (28 bp):
AATAAAATAAAAATATAATTAAAAATAG
Found at i:64711590 original size:28 final size:26
Alignment explanation
Indices: 64711460--64711592 Score: 83
Period size: 26 Copynumber: 4.8 Consensus size: 26
64711450 AAATACCATT
**
64711460 AATATAATATAAAAAATAAAATAATTAA
1 AATATAATATAAATTATAAAATAA--AA
* *
64711488 AATGAATAAAATAAA-AATAAAATAAAA
1 AAT--ATAATATAAATTATAAAATAAAA
* *
64711515 GATATAATAATAAA-TAGAAAA-AATAA
1 AATATAAT-ATAAATTATAAAATAA-AA
*
64711541 AATATAATTAAAAATTTAATAAAATAAAA
1 AATATAA-TATAAA-TT-ATAAAATAAAA
64711570 ATATATAAGTATAAATTATAAAA
1 A-ATATAA-TATAAATTATAAAA
64711593 ATTATAATTA
Statistics
Matches: 85, Mismatches: 10, Indels: 20
0.74 0.09 0.17
Matches are distributed among these distances:
25 6 0.07
26 22 0.26
27 5 0.06
28 10 0.12
29 20 0.24
30 22 0.26
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (26 bp):
AATATAATATAAATTATAAAATAAAA
Found at i:64711642 original size:17 final size:17
Alignment explanation
Indices: 64711622--64711654 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
64711612 AGTAAAATTT
64711622 AATATAAGAT-TAAATAA
1 AATATAA-ATATAAATAA
64711639 AATATAAATATAAATA
1 AATATAAATATAAATA
64711655 TAGAANNNNN
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (17 bp):
AATATAAATATAAATAA
Found at i:64712266 original size:38 final size:38
Alignment explanation
Indices: 64712202--64712276 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
64712192 AATCCGAGTT
*
64712202 TAAAGACCCGCTGACTATATGAAGAGATTATGTCCGGG
1 TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
* *
64712240 TAAAGACCCGATGGCTATGT-ACAGAGATTATGTCCGG
1 TAAAGACCCGATGACTATATGA-AGAGATTATGTCCGG
64712277 ATTAAAATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.24
Consensus pattern (38 bp):
TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
Found at i:64712392 original size:40 final size:40
Alignment explanation
Indices: 64712337--64712728 Score: 572
Period size: 40 Copynumber: 9.8 Consensus size: 40
64712327 GACGATGATT
64712337 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATC
1 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATC
*
64712377 CGGGCTAAGTCCCGAAGACCATTCATGCTAGTGATGTATC
1 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATC
**
64712417 CGGGCTAAGTTTCGAAGAGCATTCATGCTAGTGATGTATC
1 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATC
64712457 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATC
1 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATC
* * *
64712497 CGGGCTAAGTTCCGAAAAGCATTCGTGCTAGTGATGTATC
1 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATC
64712537 CGGGCTAAGTCCCGAAG-GCATTCATGCTAGTGATGTATC
1 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATC
*
64712576 C-GGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATC
1 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATC
* * * *
64712615 CGGGCTAAGTTCCAAAGAGCATTCGTGCTAGTGATATATC
1 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATC
* ** * * * *
64712655 CGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATATC
1 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATC
* * * *
64712695 CGGGCGAGGTCCCGAAGAGCAATCATGCTGGTGA
1 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
64712729 CGTGTATTCA
Statistics
Matches: 319, Mismatches: 31, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
38 15 0.05
39 44 0.14
40 260 0.82
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATC
Found at i:64712697 original size:198 final size:200
Alignment explanation
Indices: 64712337--64712699 Score: 595
Period size: 198 Copynumber: 1.8 Consensus size: 200
64712327 GACGATGATT
64712337 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGACCATTCA
1 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGACCATTCA
* * * * **
64712402 TGCTAGTGATGTATCCGGGCTAAGTTTCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGT
66 TGCTAGTGATATATCCGGGCTAAGTTCCAAAGAGCATTCATGCTAGTGATATATCCGGGCTAAAC
*
64712467 CCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTTCCGAAAAGCATTCGTGCTAGTGAT
131 CCCGAAGAGCATTCATGCTAGTGATATATCCGGGCTAAGTTCCGAAAAGCATTCGTGCTAGTGAT
64712532 GTATC
196 GTATC
*
64712537 CGGGCTAAGTCCCGAAG-GCATTCATGCTAGTGATGTATCC-GGCTAAGTCCCGAAGAGCATTCA
1 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGACCATTCA
* *
64712600 TGCTAGTGATATATCCGGGCTAAGTTCCAAAGAGCATTCGTGCTAGTGATATATCCGTGCTAAAC
66 TGCTAGTGATATATCCGGGCTAAGTTCCAAAGAGCATTCATGCTAGTGATATATCCGGGCTAAAC
* * *
64712665 CCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGC
131 CCCGAAGAGCATTCATGCTAGTGATATATCCGGGC
64712700 GAGGTCCCGA
Statistics
Matches: 150, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
198 110 0.73
199 23 0.15
200 17 0.11
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (200 bp):
CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGACCATTCA
TGCTAGTGATATATCCGGGCTAAGTTCCAAAGAGCATTCATGCTAGTGATATATCCGGGCTAAAC
CCCGAAGAGCATTCATGCTAGTGATATATCCGGGCTAAGTTCCGAAAAGCATTCGTGCTAGTGAT
GTATC
Found at i:64715596 original size:73 final size:73
Alignment explanation
Indices: 64715471--64715636 Score: 251
Period size: 73 Copynumber: 2.3 Consensus size: 73
64715461 TTTTCGTTTC
*
64715471 TTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
1 TTCAATTTATGCTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCAGGACACGC
*
64715536 TGAGGTAAT
65 CGAGGTAAT
* *
64715545 TTCAATTTATGCTTTTCAAAAATTAACTCATATTGCGAGAGGTGAGCTGAGCCTCAGGGCACGCC
1 TTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCAGGACACGCC
*
64715610 GAGGTATT
66 GAGGTAAT
* * *
64715618 TTTAATTTCTGTTTTTCAA
1 TTCAATTTATGCTTTTCAA
64715637 TTTCTGCTTT
Statistics
Matches: 84, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
73 67 0.80
74 17 0.20
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.34
Consensus pattern (73 bp):
TTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCAGGACACGCC
GAGGTAAT
Found at i:64715651 original size:13 final size:13
Alignment explanation
Indices: 64715617--64715660 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
64715607 GCCGAGGTAT
*
64715617 TTTTAATTTCTGT
1 TTTTAATTTCTGC
64715630 TTTTCAATTTCTGC
1 TTTT-AATTTCTGC
*
64715644 TTTTAATTTCTAC
1 TTTTAATTTCTGC
64715657 TTTT
1 TTTT
64715661 CAAAAATCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 16 0.57
14 12 0.43
ACGTcount: A:0.16, C:0.14, G:0.05, T:0.66
Consensus pattern (13 bp):
TTTTAATTTCTGC
Found at i:64715683 original size:100 final size:101
Alignment explanation
Indices: 64715556--64715832 Score: 427
Period size: 100 Copynumber: 2.8 Consensus size: 101
64715546 TCAATTTATG
* * * *
64715556 CTTTTCAAAAATTAACTCATATTGCGAGAGGTGAGCTGAGCCTCAGGGCACGCCGAGGTATTTTT
1 CTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTC
** *
64715621 AATTTCTGTTTTTCAATTTCTG-CTTTTAATTTCTA
66 AATTTCTGTTTTTCAATTTCTGCCTTACAAATTCTA
64715656 CTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTC
1 CTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTC
* *
64715721 AATTTCTGTTTTTCAATTTTTGCCTTACAAATTCTG
66 AATTTCTGTTTTTCAATTTCTGCCTTACAAATTCTA
*
64715757 CTTTTC--AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTC
1 CTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTC
64715820 AATTT-TCGTTTTT
66 AATTTCT-GTTTTT
64715833 TTAATTTATG
Statistics
Matches: 165, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
98 1 0.01
99 67 0.41
100 82 0.50
101 15 0.09
ACGTcount: A:0.24, C:0.18, G:0.19, T:0.38
Consensus pattern (101 bp):
CTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTC
AATTTCTGTTTTTCAATTTCTGCCTTACAAATTCTA
Found at i:64716183 original size:75 final size:73
Alignment explanation
Indices: 64715830--64716583 Score: 947
Period size: 73 Copynumber: 10.3 Consensus size: 73
64715820 AATTTTCGTT
* * * * *
64715830 TTTTTAATTTATGTTTCTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGA-CTCTCAGGACA
1 TTTTCAATTTCTGTTT-TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC-CTCAAGACA
*
64715894 CGCTGAGGTA
64 CGTTGAGGTA
* * * *
64715904 ATTTCAATTTTTGTTTGTC-AAAACTCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACAC
1 TTTTCAATTTCTGTTT-TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
64715968 GTTGAGGTA
65 GTTGAGGTA
* *
64715977 TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGACAC
1 TTTTCAATTTCTG-TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
*
64716042 GCTGAGGTA
65 GTTGAGGTA
* *
64716051 ATTTCAATTTTTGTTTGTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
1 TTTTCAATTTCTGTTT-TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
64716115 GTTGAGGTA
65 GTTGAGGTA
* *
64716124 TTTTCAATTTCTGTCTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACA
1 TTTTCAATTTCTGT-TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
*
64716189 CGCTGAGGTA
64 CGTTGAGGTA
* *
64716199 ATTTCAATTTTTGTTTGTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
1 TTTTCAATTTCTGTTT-TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
64716263 GTTGAGGTA
65 GTTGAGGTA
* * * *
64716272 TTTTCAATTTCTATCTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACTTCAA-A-A
1 TTTTCAATTTCTGT-TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
*
64716335 C-TCTGAGATAA
64 CGT-TGAGGT-A
* * * * *
64716346 TTTT-TATTTCTG-TTTC-AAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACG
1 TTTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACG
64716408 TTGAGGTA
66 TTGAGGTA
* * *
64716416 TTTTCAATTTCTGTCTTTCAAAAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGT-TTTCAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
64716481 CGTTGAGGTA
64 CGTTGAGGTA
*
64716491 TTTTCAATTTCTGTCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAG--AC
1 TTTTCAATTTCTGT-TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
*
64716554 GTTGAGGTG
65 GTTGAGGTA
* *
64716563 TTTTCCATTTTTGTTCTTCAA
1 TTTTCAATTTCTGTT-TTCAA
64716584 TTTCTGTGTT
Statistics
Matches: 600, Mismatches: 58, Indels: 46
0.85 0.08 0.07
Matches are distributed among these distances:
69 33 0.05
70 6 0.01
71 19 0.03
72 29 0.05
73 209 0.35
74 128 0.21
75 176 0.29
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (73 bp):
TTTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACG
TTGAGGTA
Found at i:64716220 original size:148 final size:148
Alignment explanation
Indices: 64715843--64716572 Score: 1073
Period size: 148 Copynumber: 5.0 Consensus size: 148
64715833 TTAATTTATG
* *
64715843 TTTCTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTG-ACTCTCAGGACACGCTGAGGTAATT
1 TTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAAC-CTCAAGACACGCTGAGGTAATT
* *
64715907 TCAATTTTTGTTTGTCAAAACTCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGTTG
64 TCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTG
*
64715972 AGGTATTTTCAATTTCTGTT
129 AGGTATTTTCAATTTCTGTC
* * *
64715992 TTTC-AAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGCTGAGGTAATTTC
64716056 AATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAG
66 AATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAG
64716121 GTATTTTCAATTTCTGTC
131 GTATTTTCAATTTCTGTC
*
64716139 TTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGCTGAGGTAATTTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGCTGAGGTAATTTC
64716204 AATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAG
66 AATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAG
*
64716269 GTATTTTCAATTTCTATC
131 GTATTTTCAATTTCTGTC
* * * * *
64716287 TTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACTTCAA-A-ACTCTGAGATAATTTT
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGCTGAGGTAATTTC
* * * * * *
64716350 TATTTCTG-TT-TCAAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAG
66 AATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAG
64716413 GTATTTTCAATTTCTGTC
131 GTATTTTCAATTTCTGTC
* * * * * * *
64716431 TTTCAAAAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGCTGAGGTAATTTC
* *
64716496 AATTTCTGTCTT-TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAG--ACGTTG
66 AATTTTTGT-TTGTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTG
* *
64716558 AGGTGTTTTCCATTT
129 AGGTATTTTCAATTT
64716573 TTGTTCTTCA
Statistics
Matches: 532, Mismatches: 42, Indels: 16
0.90 0.07 0.03
Matches are distributed among these distances:
144 105 0.20
145 3 0.01
146 37 0.07
147 159 0.30
148 188 0.35
149 40 0.08
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (148 bp):
TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGCTGAGGTAATTTC
AATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAG
GTATTTTCAATTTCTGTC
Found at i:64716690 original size:15 final size:14
Alignment explanation
Indices: 64716654--64716686 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
64716644 CGCTGAGGTA
64716654 TTTTCAAATTCTGT
1 TTTTCAAATTCTGT
*
64716668 TTTTCAAATTTTGT
1 TTTTCAAATTCTGT
64716682 TTTTC
1 TTTTC
64716687 CAAAAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.64
Consensus pattern (14 bp):
TTTTCAAATTCTGT
Found at i:64716815 original size:183 final size:180
Alignment explanation
Indices: 64716510--64716843 Score: 483
Period size: 183 Copynumber: 1.8 Consensus size: 180
64716500 TCTGTCTTTC
* * * * *
64716510 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACGTTGAGGTGTTTTCCATTTTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTCAACCTCAACACGCTGAGGTATTTTCAATTTTT
* * * *
64716575 GTTCTTCAATTTCTGTGTTTCAAAAAAATCAGCTCATATTGCGAGTGGTGAGTTGAGCCT-TGAC
66 GTTCTTCAATTTATGTGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-C
*
64716639 TCACACGCTGAGGTATTTTCAAATTCTGTTTTTCAAATTTTGTTTTTCCAA
130 TCACACGCCGAGGTATTTTCAAATTCTGTTTTTCAAATTTTGTTTTTCCAA
*
64716690 AAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGGACACGCTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTCAACCTCA--ACACGCTGAGGTATTTTCAATTT
* *
64716755 ATTTTTTTTCAATTTATGT-TTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
64 -TTGTTCTTCAATTTATGTGTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
*
64716819 AGGTCACACGCCGAGGTATTTTCAA
127 AGCTCACACGCCGAGGTATTTTCAA
64716844 TTGATGTTTT
Statistics
Matches: 135, Mismatches: 14, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
180 38 0.28
182 21 0.16
183 75 0.56
184 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.35
Consensus pattern (180 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTCAACCTCAACACGCTGAGGTATTTTCAATTTTT
GTTCTTCAATTTATGTGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCT
CACACGCCGAGGTATTTTCAAATTCTGTTTTTCAAATTTTGTTTTTCCAA
Found at i:64716856 original size:92 final size:89
Alignment explanation
Indices: 64716491--64716854 Score: 423
Period size: 91 Copynumber: 4.0 Consensus size: 89
64716481 CGTTGAGGTA
* *
64716491 TTTTCAATTTCTGTCTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCA--AGA
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
* * * *
64716553 CGTTGAGGTGTTTTCCATTTTTGT
66 CGCTGAGGTATTTTCAATTTATGT
* * * * * **
64716577 TCTTCAATTTCTGTGTTTCAAAAAAATCAGCTCATATTGCGAGTGGTGAGTTGAGCCTTGACTCA
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCA-GGA
* *
64716642 CACGCTGAGGTATTTTCAAATTCTGT
64 CACGCTGAGGTATTTTCAATTTATGT
* *
64716668 TTTTCAAATTT-TGTTTTTCCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGG
1 TTTTC-AATTTCTGTCTTT-C-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
*
64716732 ACACGCTGAGGTATTTTCAATTTATTTT
63 ACACGCTGAGGTATTTTCAATTTA-TGT
*
64716760 TTTTCAATTTATGT-TTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTC
1 TTTTCAATTTCTGTCTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--
* *
64716824 ACACGCCGAGGTATTTTCAATTGATGT
63 ACACGCTGAGGTATTTTCAATTTATGT
64716851 TTTT
1 TTTT
64716855 TCTTTTTTTT
Statistics
Matches: 238, Mismatches: 27, Indels: 21
0.83 0.09 0.07
Matches are distributed among these distances:
86 17 0.07
87 34 0.14
88 2 0.01
90 42 0.18
91 67 0.28
92 41 0.17
93 35 0.15
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.38
Consensus pattern (89 bp):
TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
CGCTGAGGTATTTTCAATTTATGT
Found at i:64716926 original size:102 final size:103
Alignment explanation
Indices: 64716756--64716942 Score: 288
Period size: 102 Copynumber: 1.8 Consensus size: 103
64716746 TTTCAATTTA
*
64716756 TTTTTTTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
1 TTTTTTTTCAATTTATGTTTGTC-AAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAG
*
64716821 GTCACACGCCGAGGTATTTTCAATTGATGTTTTTTCTTT
65 GTCACACACCGAGGTATTTTCAATTGATGTTTTTTCTTT
* * *
64716860 TTTTTTTTCAATTTATGCTTTG-C-AAAAATCAACTCATATTATGAGAGGTGAGTTGAGTCTCGG
1 TTTTTTTTCAATTTATG-TTTGTCAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAG
*
64716923 GTCACATACCGAGGTATTTT
65 GTCACACACCGAGGTATTTT
64716943 AAAAATCTAT
Statistics
Matches: 76, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
102 54 0.71
104 18 0.24
105 4 0.05
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.41
Consensus pattern (103 bp):
TTTTTTTTCAATTTATGTTTGTCAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGG
TCACACACCGAGGTATTTTCAATTGATGTTTTTTCTTT
Found at i:64716955 original size:13 final size:13
Alignment explanation
Indices: 64716937--64716976 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
64716927 CATACCGAGG
64716937 TATTTTAAAAATC
1 TATTTTAAAAATC
* *
64716950 TATTTTACAAATTT
1 TATTTTA-AAAATC
64716964 TATTTTAAAAATC
1 TATTTTAAAAATC
64716977 AACTCATATT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.50
Consensus pattern (13 bp):
TATTTTAAAAATC
Found at i:64716975 original size:14 final size:14
Alignment explanation
Indices: 64716937--64716975 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
64716927 CATACCGAGG
64716937 TATTTTAAAAA-TC
1 TATTTTAAAAATTC
* *
64716950 TATTTTACAAATTT
1 TATTTTAAAAATTC
64716964 TATTTTAAAAAT
1 TATTTTAAAAAT
64716976 CAACTCATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (14 bp):
TATTTTAAAAATTC
Found at i:64717029 original size:87 final size:87
Alignment explanation
Indices: 64716883--64717108 Score: 217
Period size: 87 Copynumber: 2.6 Consensus size: 87
64716873 TATGCTTTGC
* * * *
64716883 AAAAATCAACTCATATTATGAGAGGTGAGTTGAGTCTCGGGTCACATACCGAGGTATTTTAAAAA
1 AAAAATCAACTCATATTACGAGAAGTGAGTTGAGTCTCGGCTCACATACCGAGCTATTTTAAAAA
64716948 TCTATTTTACAAATTTTATTTT
66 TCTATTTTACAAATTTTATTTT
* * * * * *
64716970 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAG-CTTTGGCTCACGTGCCGAGCTATTTTCAAT
1 AAAAATCAACTCATATTACGAGAAGTGAGTTGAGTC-TCGGCTCACATACCGAGCTATTTTAAAA
* ** *
64717034 TTCTATTTTA-ATGTCTGT-TTTT
65 ATCTATTTTACAAAT-TTTATTTT
* * * * *
64717056 AAAGAGTCAATTCATATTACGAGAAATGAGTTGA-TCTCAGGATCACATGCCGA
1 AAA-AATCAACTCATATTACGAGAAGTGAGTTGAGTCTC-GGCTCACATACCGA
64717109 ATAAAGAATA
Statistics
Matches: 113, Mismatches: 21, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
86 11 0.10
87 102 0.90
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (87 bp):
AAAAATCAACTCATATTACGAGAAGTGAGTTGAGTCTCGGCTCACATACCGAGCTATTTTAAAAA
TCTATTTTACAAATTTTATTTT
Found at i:64717715 original size:18 final size:18
Alignment explanation
Indices: 64717692--64717748 Score: 54
Period size: 18 Copynumber: 3.5 Consensus size: 18
64717682 GCCACCACCA
64717692 ACTCCACTAGCCACACTT
1 ACTCCACTAGCCACACTT
*
64717710 ACT-C-C-A-CCAC-C-A
1 ACTCCACTAGCCACACTT
64717722 ACTCCACTAGCCACACTT
1 ACTCCACTAGCCACACTT
*
64717740 GCTCCACTA
1 ACTCCACTA
64717749 CCTACTCCAC
Statistics
Matches: 30, Mismatches: 3, Indels: 12
0.67 0.07 0.27
Matches are distributed among these distances:
12 3 0.10
13 2 0.07
14 5 0.17
15 2 0.07
16 5 0.17
17 2 0.07
18 11 0.37
ACGTcount: A:0.28, C:0.47, G:0.05, T:0.19
Consensus pattern (18 bp):
ACTCCACTAGCCACACTT
Found at i:64717719 original size:30 final size:30
Alignment explanation
Indices: 64717683--64717768 Score: 145
Period size: 30 Copynumber: 2.9 Consensus size: 30
64717673 CTAACCTTTG
64717683 CCACCACCAACTCCACTAGCCACACTTACT
1 CCACCACCAACTCCACTAGCCACACTTACT
*
64717713 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTACT
* *
64717743 CCACTACCTACTCCACTAGCCACACT
1 CCACCACCAACTCCACTAGCCACACT
64717769 CCACCACCCC
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.28, C:0.50, G:0.05, T:0.17
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTACT
Found at i:64718274 original size:24 final size:23
Alignment explanation
Indices: 64718226--64718277 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
64718216 TTTTTTTTGT
*
64718226 TATTATTATATTTCTTAATATTA
1 TATTATTATATTTCTTAATAATA
*
64718249 TATTATATATATATTCTT-TTAATA
1 TATTAT-TATAT-TTCTTAATAATA
64718273 TATTA
1 TATTA
64718278 GGTATATTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 6 0.24
24 14 0.56
25 5 0.20
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (23 bp):
TATTATTATATTTCTTAATAATA
Found at i:64718331 original size:25 final size:26
Alignment explanation
Indices: 64718303--64718444 Score: 82
Period size: 25 Copynumber: 5.5 Consensus size: 26
64718293 CTATATTACG
*
64718303 TATATATATT-ATACTATTTTATGTA
1 TATATATATTAATACTATATTATGTA
* *
64718328 TATATCT-TTAATACTATATTATTTA
1 TATATATATTAATACTATATTATGTA
** *
64718353 TATATATATTTTTTACATGTTATCTTATGTA
1 TATATATA----TTA-ATACTATATTATGTA
64718384 TATATAT-TTAAT--TATATTATGTA
1 TATATATATTAATACTATATTATGTA
* * * *
64718407 TGTAT-TTTTTACACTATATTATGTA
1 TATATATATTAATACTATATTATGTA
* *
64718432 CATAT-TTTTAATA
1 TATATATATTAATA
64718445 TTATCACGTA
Statistics
Matches: 91, Mismatches: 16, Indels: 20
0.72 0.13 0.16
Matches are distributed among these distances:
22 1 0.01
23 17 0.19
24 2 0.02
25 47 0.52
26 3 0.03
30 3 0.03
31 18 0.20
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.56
Consensus pattern (26 bp):
TATATATATTAATACTATATTATGTA
Found at i:64718403 original size:23 final size:23
Alignment explanation
Indices: 64718345--64718443 Score: 83
Period size: 23 Copynumber: 4.1 Consensus size: 23
64718335 TTAATACTAT
*
64718345 ATTAT-TTATATATATATTTTTTA
1 ATTATATTATGTATATA-TTTTTA
* *
64718368 CATGTTATCTTATGTATATATATTTA
1 -A--TTATATTATGTATATATTTTTA
*
64718394 ATTATATTATGTATGTATTTTTTA
1 ATTATATTATGTATATA-TTTTTA
* *
64718418 CACTATATTATGTACATATTTTTA
1 -ATTATATTATGTATATATTTTTA
64718442 AT
1 AT
64718444 ATTATCACGT
Statistics
Matches: 61, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
23 15 0.25
24 12 0.20
25 15 0.25
26 9 0.15
27 10 0.16
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (23 bp):
ATTATATTATGTATATATTTTTA
Found at i:64718408 original size:27 final size:26
Alignment explanation
Indices: 64718322--64718431 Score: 75
Period size: 27 Copynumber: 4.1 Consensus size: 26
64718312 TATACTATTT
*
64718322 TATGTATATATCTTTAATACTATATTATT
1 TATGTATATAT-TTTAAT--TATATTATG
* * *
64718351 TATATATATATTTT--TTACATGTTATCT
1 TATGTATATATTTTAATT--ATATTAT-G
64718378 TATGTATATATATTTAATTATATTATG
1 TATGTATATAT-TTTAATTATATTATG
*
64718405 TATGTAT-T-TTTTACACTATATTATG
1 TATGTATATATTTTA-ATTATATTATG
64718430 TA
1 TA
64718432 CATATTTTTA
Statistics
Matches: 68, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
24 5 0.07
25 13 0.19
26 8 0.12
27 18 0.26
28 12 0.18
29 10 0.15
30 2 0.03
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.56
Consensus pattern (26 bp):
TATGTATATATTTTAATTATATTATG
Found at i:64718442 original size:48 final size:49
Alignment explanation
Indices: 64718345--64718465 Score: 122
Period size: 48 Copynumber: 2.5 Consensus size: 49
64718335 TTAATACTAT
* * * *
64718345 ATTAT-TTATATATATATTTTTTACATGTTATCTTATGTATATATATTTA
1 ATTATATTATGTATATATTTTTTACA-GCTATATTATGTACATATATTTA
* *
64718394 ATTATATTATGTATGTATTTTTTACA-CTATATTATGTACATATTTTTA
1 ATTATATTATGTATATATTTTTTACAGCTATATTATGTACATATATTTA
* * *
64718442 A-TATTATCACGTATTTATTTTTTA
1 ATTA-TATTATGTATATATTTTTTA
64718466 TATATGTACA
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
47 2 0.03
48 36 0.59
49 5 0.08
50 18 0.30
ACGTcount: A:0.31, C:0.06, G:0.05, T:0.58
Consensus pattern (49 bp):
ATTATATTATGTATATATTTTTTACAGCTATATTATGTACATATATTTA
Found at i:64718447 original size:20 final size:20
Alignment explanation
Indices: 64718422--64718480 Score: 57
Period size: 23 Copynumber: 2.9 Consensus size: 20
64718412 TTTTTACACT
64718422 ATATTATGTACATATTTTTA
1 ATATTATGTACATATTTTTA
** *
64718442 ATATTATCACGTATTTATTTTTT
1 ATATTAT---GTACATATTTTTA
64718465 ATA-TATGTACATATTT
1 ATATTATGTACATATTT
64718481 ATGTAGTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 3 0.10
23 13 0.42
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (20 bp):
ATATTATGTACATATTTTTA
Found at i:64718619 original size:16 final size:15
Alignment explanation
Indices: 64718595--64718629 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
64718585 TAATTATTAT
64718595 TATTCTAATATTTTGA
1 TATTCTAATATTTT-A
*
64718611 TATTTTAATATTTTA
1 TATTCTAATATTTTA
64718626 TATT
1 TATT
64718630 ATTCACATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (15 bp):
TATTCTAATATTTTA
Found at i:64724704 original size:46 final size:47
Alignment explanation
Indices: 64724559--64724820 Score: 247
Period size: 46 Copynumber: 5.6 Consensus size: 47
64724549 GCGTGTGTGG
* * *
64724559 TAGTGTAAGACATGCCT-GGACATGCATCGGCCAC-ATTATG-AGAGC
1 TAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGTAGAGC
** * *
64724604 TAGTGTAAGACCATGTCTGGGACATGGCATCGGTATTGAGACG-AGAGC
1 TAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGTAGAGC
64724652 TAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTA-AGC
1 TAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAGAGC
* ** * *
64724698 CAGTGTAAGACATGTCAAGGACATGCATC-GACTACGAGATGT---GT
1 TAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGTAGAGC
* *
64724742 TAGTGTAAGACATGTCTGGGACATGCATCGGCAC-GGATATGTGAGAGC
1 TAGTGTAAGACATGTCTGGGACATGCATCGGC-CTCGAGATGT-AGAGC
*
64724790 CAGTGTAAGACCATGTCTGGGACATGGCATC
1 TAGTGTAAGA-CATGTCTGGGACAT-GCATC
64724821 AGCATTATAC
Statistics
Matches: 179, Mismatches: 24, Indels: 23
0.79 0.11 0.10
Matches are distributed among these distances:
44 33 0.18
45 14 0.08
46 57 0.32
47 21 0.12
48 34 0.19
49 15 0.08
50 5 0.03
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (47 bp):
TAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAGAGC
Found at i:64724766 original size:90 final size:94
Alignment explanation
Indices: 64724554--64724820 Score: 277
Period size: 90 Copynumber: 2.9 Consensus size: 94
64724544 GTGATGCGTG
* * * * *
64724554 TGTGGTAGTGTAAGACATGCCT-GGACATGCATCGGC-CAC-A-TTATGAGAGCTAGTGTAAGAC
1 TGTGTTAGTGTAAGACATGTCTGGGACATGCATCGGCAC-CGAGATGTGAGAGCCAGTGTAAGAC
** *
64724615 CATGTCTGGGACATGGCATCGGTATTGA-GACGA
65 CATGTCAAGGACATGGCATC-G-ACT-ACGA-GA
* *
64724648 -GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGC-CTCGAGATGT-A-AGCCAGTGTAAGA-
1 TGTGTTAGTGTAAGACATGTCTGGGACATGCATCGGCAC-CGAGATGTGAGAGCCAGTGTAAGAC
64724708 CATGTCAAGGACAT-GCATCGACTACGAGA
65 CATGTCAAGGACATGGCATCGACTACGAGA
* *
64724737 TGTGTTAGTGTAAGACATGTCTGGGACATGCATCGGCACGGATATGTGAGAGCCAGTGTAAGACC
1 TGTGTTAGTGTAAGACATGTCTGGGACATGCATCGGCACCGAGATGTGAGAGCCAGTGTAAGACC
**
64724802 ATGTCTGGGACATGGCATC
66 ATGTCAAGGACATGGCATC
64724821 AGCATTATAC
Statistics
Matches: 147, Mismatches: 16, Indels: 20
0.80 0.09 0.11
Matches are distributed among these distances:
89 3 0.02
90 44 0.30
91 3 0.02
92 18 0.12
93 42 0.29
94 33 0.22
95 2 0.01
96 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (94 bp):
TGTGTTAGTGTAAGACATGTCTGGGACATGCATCGGCACCGAGATGTGAGAGCCAGTGTAAGACC
ATGTCAAGGACATGGCATCGACTACGAGA
Found at i:64727901 original size:10 final size:10
Alignment explanation
Indices: 64727882--64727911 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
64727872 TAGTTAAATA
64727882 ATTTTT-GTG
1 ATTTTTAGTG
64727891 ATTTTTAGTG
1 ATTTTTAGTG
64727901 ATTTTTAGTG
1 ATTTTTAGTG
64727911 A
1 A
64727912 AAATGCAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 6 0.30
10 14 0.70
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.60
Consensus pattern (10 bp):
ATTTTTAGTG
Found at i:64727980 original size:19 final size:20
Alignment explanation
Indices: 64727942--64727981 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
64727932 TTTGTGAAAA
*
64727942 TGTGAAAATGTGGTTAAATG
1 TGTGAAAATGTGGATAAATG
*
64727962 TGTGAAAA-GTTGATAAATG
1 TGTGAAAATGTGGATAAATG
64727981 T
1 T
64727982 AGGCTGCTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.38, C:0.00, G:0.28, T:0.35
Consensus pattern (20 bp):
TGTGAAAATGTGGATAAATG
Found at i:64731250 original size:14 final size:14
Alignment explanation
Indices: 64731215--64731243 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
64731205 GTGTAAATAG
64731215 TGTGGGAGGAAACA
1 TGTGGGAGGAAACA
64731229 TGTGGGAGGAAACA
1 TGTGGGAGGAAACA
64731243 T
1 T
64731244 TTTGGAGAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.07, G:0.41, T:0.17
Consensus pattern (14 bp):
TGTGGGAGGAAACA
Found at i:64737474 original size:21 final size:20
Alignment explanation
Indices: 64737449--64737497 Score: 82
Period size: 21 Copynumber: 2.5 Consensus size: 20
64737439 CAATATCATG
64737449 TTTCTATCTAGTCATTACTA
1 TTTCTATCTAGTCATTACTA
64737469 TATTCTATCTAGTCATTACTA
1 T-TTCTATCTAGTCATTACTA
64737490 TTTC-ATCT
1 TTTCTATCT
64737498 TAAGGTTTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.14
20 4 0.14
21 20 0.71
ACGTcount: A:0.24, C:0.20, G:0.04, T:0.51
Consensus pattern (20 bp):
TTTCTATCTAGTCATTACTA
Found at i:64750977 original size:18 final size:17
Alignment explanation
Indices: 64750954--64750987 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
64750944 GCTGGGTCGA
64750954 AATAGGCCGTGTGGGCTC
1 AATAGG-CGTGTGGGCTC
*
64750972 AATAGGCTTGTGGGCT
1 AATAGGCGTGTGGGCT
64750988 TCACACGGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.18, C:0.18, G:0.38, T:0.26
Consensus pattern (17 bp):
AATAGGCGTGTGGGCTC
Found at i:64751264 original size:27 final size:27
Alignment explanation
Indices: 64751234--64751287 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
64751224 AAGAATAAAA
*
64751234 TACCCCTATAGGGTAAAATGACT-ATTT
1 TACCCCTAGAGGGTAAAA-GACTGATTT
*
64751261 TACCCCTCGAGGGTAAAAGACTGATTT
1 TACCCCTAGAGGGTAAAAGACTGATTT
64751288 GTGCTATGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 4 0.17
27 20 0.83
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (27 bp):
TACCCCTAGAGGGTAAAAGACTGATTT
Found at i:64753442 original size:15 final size:15
Alignment explanation
Indices: 64753419--64753449 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
64753409 TCAAAAATTC
64753419 CAATACAAAACATAT
1 CAATACAAAACATAT
*
64753434 CAATCCAAAACATAT
1 CAATACAAAACATAT
64753449 C
1 C
64753450 TTTCATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.26, G:0.00, T:0.19
Consensus pattern (15 bp):
CAATACAAAACATAT
Found at i:64756540 original size:56 final size:56
Alignment explanation
Indices: 64756465--64756587 Score: 165
Period size: 56 Copynumber: 2.2 Consensus size: 56
64756455 TATAAGTGTG
** *
64756465 CGAGTAAGACCACGTTTAATACGTTAGCATTGATATGTGATTCCGATATATGTGTA
1 CGAGTAAGACCACGTTTAATACGTTAGCATCAATATGTGATTCCGATATATATGTA
* * * * * *
64756521 TGAGTAAGACCACGTTTAATATGTTGGCATCAATATGTGATTCTGATTTATATGTG
1 CGAGTAAGACCACGTTTAATACGTTAGCATCAATATGTGATTCCGATATATATGTA
64756577 CGAGTAAGACC
1 CGAGTAAGACC
64756588 CTGTCTGGGA
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (56 bp):
CGAGTAAGACCACGTTTAATACGTTAGCATCAATATGTGATTCCGATATATATGTA
Found at i:64761436 original size:25 final size:25
Alignment explanation
Indices: 64761349--64761440 Score: 87
Period size: 25 Copynumber: 3.7 Consensus size: 25
64761339 TTATGTACAT
* * *
64761349 GTATGCTCATACGAGCTATGAATCG
1 GTATGCTTACACGAGCTATAAATCG
** * * *
64761374 GTATGCTTACTTGAGCTGTAGATCA
1 GTATGCTTACACGAGCTATAAATCG
64761399 GTATGCTCT-CACGAGCTATAAATCG
1 GTATGCT-TACACGAGCTATAAATCG
*
64761424 GTACGCTTACACGAGCT
1 GTATGCTTACACGAGCT
64761441 GTGGGTCGAA
Statistics
Matches: 51, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
24 1 0.02
25 49 0.96
26 1 0.02
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (25 bp):
GTATGCTTACACGAGCTATAAATCG
Found at i:64761483 original size:41 final size:41
Alignment explanation
Indices: 64761434--64761526 Score: 125
Period size: 41 Copynumber: 2.3 Consensus size: 41
64761424 GTACGCTTAC
*
64761434 ACGAGCTGTGGGTC-GAAACATAGCTATACAATGCTGCTCAA
1 ACGAGCTGTGGGTCAG-AACATAGCTACACAATGCTGCTCAA
* * * *
64761475 ATGAGCTGTGGGTCAGAACGTAGCTACACGATGCTGCTCAC
1 ACGAGCTGTGGGTCAGAACATAGCTACACAATGCTGCTCAA
64761516 ACGAGCTGTGG
1 ACGAGCTGTGG
64761527 AGTATCCGCA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
41 44 0.98
42 1 0.02
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.22
Consensus pattern (41 bp):
ACGAGCTGTGGGTCAGAACATAGCTACACAATGCTGCTCAA
Found at i:64770164 original size:28 final size:28
Alignment explanation
Indices: 64770122--64770197 Score: 107
Period size: 28 Copynumber: 2.7 Consensus size: 28
64770112 TACTGAATGC
* *
64770122 CTCACACACTAAGTGTCATAGTCGATAT
1 CTCACACACTAAGTGCCATACTCGATAT
* *
64770150 CTCTCACACTAAGTGCCACACTCGATAT
1 CTCACACACTAAGTGCCATACTCGATAT
*
64770178 CTGACACACTAAGTGCCATA
1 CTCACACACTAAGTGCCATA
64770198 TAACCGAAGC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.32, C:0.30, G:0.13, T:0.25
Consensus pattern (28 bp):
CTCACACACTAAGTGCCATACTCGATAT
Found at i:64770248 original size:40 final size:38
Alignment explanation
Indices: 64770182--64770275 Score: 134
Period size: 40 Copynumber: 2.4 Consensus size: 38
64770172 CGATATCTGA
*
64770182 CACACTAAGTGCCATATAACCGAAGCTATCTCAAATTG
1 CACAATAAGTGCCATATAACCGAAGCTATCTCAAATTG
* *
64770220 CTCAATAAGTGCCATATATAGCCGAAGCTATGTCAAATTG
1 CACAATAAGTGCCATATA-A-CCGAAGCTATCTCAAATTG
*
64770260 CACACTAAGTGCCATA
1 CACAATAAGTGCCATA
64770276 AATACCTGAT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
38 16 0.33
39 1 0.02
40 32 0.65
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.24
Consensus pattern (38 bp):
CACAATAAGTGCCATATAACCGAAGCTATCTCAAATTG
Found at i:64771033 original size:39 final size:39
Alignment explanation
Indices: 64770975--64771054 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
64770965 GCCAAATGAA
64770975 AACCTAAAACTTTGGCTTCTCTTCTTGCATAATTTGGTT
1 AACCTAAAACTTTGGCTTCTCTTCTTGCATAATTTGGTT
*
64771014 AACCTAAAACTTTGTCTTCTCTTCTTGCATAATTTGGTT
1 AACCTAAAACTTTGGCTTCTCTTCTTGCATAATTTGGTT
64771053 AA
1 AA
64771055 AATGATGAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.25, C:0.20, G:0.11, T:0.44
Consensus pattern (39 bp):
AACCTAAAACTTTGGCTTCTCTTCTTGCATAATTTGGTT
Found at i:64780170 original size:48 final size:48
Alignment explanation
Indices: 64780118--64780296 Score: 164
Period size: 48 Copynumber: 3.7 Consensus size: 48
64780108 TCGTCTCAAT
* * *
64780118 GCCGATGCCATGTTCCATATATGGTCTTACACTGGTTCTCATAATGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGTTCTCATAATGTG
* * ** * ***
64780166 GCCGACGCCATGTCCCAGACATGGTCTTACACTAGCACACAT-ATCAAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGTTCTCATAAT-GTG
* * * * **
64780214 GCCAATGCCATGTTCCAAACATGGTTTTATTCT-GTCTCTCATAATGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGT-TCTCATAATGTG
*
64780262 GCTGATGCCATGTCCCAGACATGGTCTTACACTGG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGG
64780297 CACACACATC
Statistics
Matches: 96, Mismatches: 31, Indels: 7
0.72 0.23 0.05
Matches are distributed among these distances:
47 3 0.03
48 90 0.94
49 3 0.03
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGTTCTCATAATGTG
Found at i:64780238 original size:96 final size:96
Alignment explanation
Indices: 64780070--64780307 Score: 298
Period size: 96 Copynumber: 2.5 Consensus size: 96
64780060 AGGGTAAATT
* * * * * * * * *
64780070 GCCGATGCCATATCCAAGACATAGTCTTACACTAGCTCTCGTCTCAATGCCGATGCCATGTTCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGCCAATGCCATGTTCCA
* *
64780135 TATATGGTCTTACACTGGT-TCTCATAATGTG
66 AACATGGTCTTACACT-GTCTCTCATAATGTG
*
64780166 GCCGACGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGCCAATGCCATGTTCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGCCAATGCCATGTTCCA
* **
64780231 AACATGGTTTTATTCTGTCTCTCATAATGTG
66 AACATGGTCTTACACTGTCTCTCATAATGTG
* * *
64780262 GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCACACACATCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCA
64780308 TCCAAATGTC
Statistics
Matches: 122, Mismatches: 19, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
95 2 0.02
96 120 0.98
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (96 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGCCAATGCCATGTTCCA
AACATGGTCTTACACTGTCTCTCATAATGTG
Found at i:64785277 original size:50 final size:50
Alignment explanation
Indices: 64785202--64785377 Score: 194
Period size: 50 Copynumber: 3.5 Consensus size: 50
64785192 CTGATACGCA
* * *
64785202 TAGTAGCCTGCACTTAGAACTACACATGCAACTTAACAGTATGGTACACG
1 TAGTAGCCTACACTTAGTACTACACATGCGACTTAACAGTATGGTACACG
* * ** * *
64785252 TAGTAGCCTACACTTAGTACTACACACGTGA-TCGA-AGTCATTGAGTACGCA
1 TAGTAGCCTACACTTAGTACTACACATGCGACTTAACAGT-A-TG-GTACACG
* *
64785303 TAGTAGCCTACACTTAGTACTACACATTCGACTTAACAATATGGTACACG
1 TAGTAGCCTACACTTAGTACTACACATGCGACTTAACAGTATGGTACACG
* *
64785353 TAGTAGCCTGCACTTTGTACTACAC
1 TAGTAGCCTACACTTAGTACTACAC
64785378 TCGCGTATTC
Statistics
Matches: 102, Mismatches: 19, Indels: 10
0.78 0.15 0.08
Matches are distributed among these distances:
48 3 0.03
49 3 0.03
50 56 0.55
51 35 0.34
52 3 0.03
53 2 0.02
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (50 bp):
TAGTAGCCTACACTTAGTACTACACATGCGACTTAACAGTATGGTACACG
Found at i:64785358 original size:101 final size:101
Alignment explanation
Indices: 64785196--64785377 Score: 301
Period size: 101 Copynumber: 1.8 Consensus size: 101
64785186 AGCTATCTGA
* *
64785196 TACGCATAGTAGCCTGCACTTAGAACTACACATGCAACTTAACAGTATGGTACACGTAGTAGCCT
1 TACGCATAGTAGCCTACACTTAGAACTACACATGCAACTTAACAATATGGTACACGTAGTAGCCT
64785261 ACACTTAGTACTACACACGTGATCGAAGTCATTGAG
66 ACACTTAGTACTACACACGTGATCGAAGTCATTGAG
* * *
64785297 TACGCATAGTAGCCTACACTTAGTACTACACATTCGACTTAACAATATGGTACACGTAGTAGCCT
1 TACGCATAGTAGCCTACACTTAGAACTACACATGCAACTTAACAATATGGTACACGTAGTAGCCT
* *
64785362 GCACTTTGTACTACAC
66 ACACTTAGTACTACAC
64785378 TCGCGTATTC
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
101 74 1.00
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (101 bp):
TACGCATAGTAGCCTACACTTAGAACTACACATGCAACTTAACAATATGGTACACGTAGTAGCCT
ACACTTAGTACTACACACGTGATCGAAGTCATTGAG
Found at i:64791873 original size:48 final size:48
Alignment explanation
Indices: 64791822--64791990 Score: 169
Period size: 48 Copynumber: 3.5 Consensus size: 48
64791812 ATGTCGATTT
* * *
64791822 CATGTTCCAAACATGGTCTTACACTGGCTCTCATAATGTGGCCGACGT
1 CATGTTCCAAACATGGTCTTACACTGGCTCTCATAATATGGCCGATGC
* * * * * * ** *
64791870 CATGTGCTAGACATGGTCTTACACTAGCACACAT-ATCAACGCTGATGC
1 CATGTTCCAAACATGGTCTTACACTGGCTCTCATAAT-ATGGCCGATGC
* *
64791918 CATGTTCCAAATATGGTCTTACACTGGCTCTCATAATATGGTCGATGC
1 CATGTTCCAAACATGGTCTTACACTGGCTCTCATAATATGGCCGATGC
* * *
64791966 CATGTCCCAAACATGATATTACACT
1 CATGTTCCAAACATGGTCTTACACT
64791991 AGCACACACA
Statistics
Matches: 92, Mismatches: 27, Indels: 4
0.75 0.22 0.03
Matches are distributed among these distances:
47 2 0.02
48 88 0.96
49 2 0.02
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (48 bp):
CATGTTCCAAACATGGTCTTACACTGGCTCTCATAATATGGCCGATGC
Found at i:64791934 original size:96 final size:96
Alignment explanation
Indices: 64791822--64792003 Score: 265
Period size: 96 Copynumber: 1.9 Consensus size: 96
64791812 ATGTCGATTT
* * * * * *
64791822 CATGTTCCAAACATGGTCTTACACTGGCTCTCATAATGTGGCCGACGTCATGTGCTAGACATGGT
1 CATGTTCCAAACATGGTCTTACACTGGCTCTCATAATATGGCCGACGCCATGTCCCAAACATGAT
* *
64791887 CTTACACTAGCACACATATCAACGCTGATGC
66 ATTACACTAGCACACACATCAACGCTGATGC
* * *
64791918 CATGTTCCAAATATGGTCTTACACTGGCTCTCATAATATGGTCGATGCCATGTCCCAAACATGAT
1 CATGTTCCAAACATGGTCTTACACTGGCTCTCATAATATGGCCGACGCCATGTCCCAAACATGAT
64791983 ATTACACTAGCACACACATCA
66 ATTACACTAGCACACACATCA
64792004 CCCAAATGTC
Statistics
Matches: 75, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
96 75 1.00
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (96 bp):
CATGTTCCAAACATGGTCTTACACTGGCTCTCATAATATGGCCGACGCCATGTCCCAAACATGAT
ATTACACTAGCACACACATCAACGCTGATGC
Found at i:64793837 original size:17 final size:16
Alignment explanation
Indices: 64793811--64793846 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
64793801 CTTCTATAAT
*
64793811 AAACAGCTAATCCTAG
1 AAACAGCTAATCCCAG
64793827 AAACTAGCTAATCCCAG
1 AAAC-AGCTAATCCCAG
64793844 AAA
1 AAA
64793847 ACTTCTAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.47, C:0.25, G:0.11, T:0.17
Consensus pattern (16 bp):
AAACAGCTAATCCCAG
Found at i:64794356 original size:32 final size:32
Alignment explanation
Indices: 64794315--64794377 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
64794305 AACTGATCAA
* *
64794315 ACAGATCGTCAATTCACGACAGTGGATACTTG
1 ACAGATCGTCAATTCACAAAAGTGGATACTTG
64794347 ACAGATCGTCAATTCACAAAAGTGGATACTT
1 ACAGATCGTCAATTCACAAAAGTGGATACTT
64794378 ATTCTTGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (32 bp):
ACAGATCGTCAATTCACAAAAGTGGATACTTG
Found at i:64801908 original size:12 final size:13
Alignment explanation
Indices: 64801891--64801922 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
64801881 GCAAATGTTA
64801891 AGTTTTG-TGCAT
1 AGTTTTGATGCAT
64801903 AGTTTTGATGCAT
1 AGTTTTGATGCAT
64801916 -GTTTTGA
1 AGTTTTGA
64801923 AATGTGCTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.19, C:0.06, G:0.25, T:0.50
Consensus pattern (13 bp):
AGTTTTGATGCAT
Found at i:64803008 original size:31 final size:31
Alignment explanation
Indices: 64802970--64803033 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
64802960 CCTTTTCATA
64802970 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
64803001 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
64803032 TT
1 TT
64803034 ACTGTAAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:64803269 original size:25 final size:23
Alignment explanation
Indices: 64803226--64803417 Score: 219
Period size: 23 Copynumber: 8.0 Consensus size: 23
64803216 TGCTTTATCA
*
64803226 TATAACTGGAGGCCT-AGCCTCTTT
1 TATAACTGG-GGCATAAGCC-CTTT
*
64803250 TAGTAACTGGGGCAAAAGCCCTTTT
1 TA-TAACTGGGGCATAAGCCC-TTT
64803275 TATAACTGGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTT
*
64803298 ATCATAACTGGGGCATAAGCCATTT
1 -T-ATAACTGGGGCATAAGCCCTTT
64803323 ATCATAACTGGGGCATAAGCCCTTT
1 -T-ATAACTGGGGCATAAGCCCTTT
*
64803348 AATAACAT-GGGCATAAGCCCTTT
1 TATAAC-TGGGGCATAAGCCCTTT
*
64803371 AATAACAT-GGGCATAAGCCCTTT
1 TATAAC-TGGGGCATAAGCCCTTT
*
64803394 AATAACTGGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTT
64803417 T
1 T
64803418 GCACTTCCTC
Statistics
Matches: 154, Mismatches: 7, Indels: 15
0.88 0.04 0.09
Matches are distributed among these distances:
22 1 0.01
23 67 0.44
24 25 0.16
25 61 0.40
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (23 bp):
TATAACTGGGGCATAAGCCCTTT
Found at i:64803359 original size:23 final size:23
Alignment explanation
Indices: 64803248--64803416 Score: 225
Period size: 23 Copynumber: 7.1 Consensus size: 23
64803238 CCTAGCCTCT
* *
64803248 TTTAGTAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
64803271 TTTTTATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
64803295 TTTATCATAACTGGGGCATAAGCCA
1 TTTA--ATAACTGGGGCATAAGCCC
64803320 TTTATCATAACTGGGGCATAAGCCC
1 TTTA--ATAACTGGGGCATAAGCCC
64803345 TTTAATAACAT-GGGCATAAGCCC
1 TTTAATAAC-TGGGGCATAAGCCC
64803368 TTTAATAACAT-GGGCATAAGCCC
1 TTTAATAAC-TGGGGCATAAGCCC
64803391 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
64803414 TTT
1 TTT
64803417 TGCACTTCCT
Statistics
Matches: 135, Mismatches: 6, Indels: 9
0.90 0.04 0.06
Matches are distributed among these distances:
22 1 0.01
23 67 0.50
24 21 0.16
25 46 0.34
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:64803489 original size:9 final size:9
Alignment explanation
Indices: 64803475--64803531 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
64803465 ATCTCATGTG
64803475 CATATCATA
1 CATATCATA
*
64803484 CATATCATGTG
1 CATATCA--TA
64803495 CATATCATA
1 CATATCATA
* *
64803504 CATGTCATGTG
1 CATATCA--TA
64803515 CATATCATA
1 CATATCATA
64803524 CATATCAT
1 CATATCAT
64803532 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:64803491 original size:20 final size:20
Alignment explanation
Indices: 64803463--64803533 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
64803453 GCATTTATGA
*
64803463 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
64803483 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
64803503 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
64803523 ACATATCATGT
1 ACATATCATGT
64803534 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:64803498 original size:11 final size:11
Alignment explanation
Indices: 64803468--64803522 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
64803458 TATGAACATC
64803468 TCATGTGCATA
1 TCATGTGCATA
*
64803479 TCA--TACATA
1 TCATGTGCATA
64803488 TCATGTGCATA
1 TCATGTGCATA
* *
64803499 TCA--TACATG
1 TCATGTGCATA
64803508 TCATGTGCATA
1 TCATGTGCATA
64803519 TCAT
1 TCAT
64803523 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:64804861 original size:27 final size:27
Alignment explanation
Indices: 64804772--64804863 Score: 123
Period size: 27 Copynumber: 3.4 Consensus size: 27
64804762 GGGCATATTC
*
64804772 GTCATTTTACCATACAGGGG-TATTACG
1 GTCATTTTACCCTACAGGGGCT-TTACG
*
64804799 GTCAGTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCCTACAGGGGCTTTACG
* *
64804826 GTCACTTTACCCTACAGGGGCTTTACA
1 GTCATTTTACCCTACAGGGGCTTTACG
*
64804853 GTCTTTTTACC
1 GTCATTTTACC
64804864 TAATAGGGGT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 57 0.98
28 1 0.02
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.34
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCTTTACG
Found at i:64804947 original size:27 final size:27
Alignment explanation
Indices: 64804917--64804968 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
64804907 GTAAATCTAC
64804917 AAACCAAAGGTATTTC-AGTAATTTTGT
1 AAACCAAAGGTATTTCTA-TAATTTTGT
*
64804944 AAACCAATGGTATTTCTATAATTTT
1 AAACCAAAGGTATTTCTATAATTTT
64804969 TAGAAAGTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.40
Consensus pattern (27 bp):
AAACCAAAGGTATTTCTATAATTTTGT
Found at i:64805030 original size:27 final size:27
Alignment explanation
Indices: 64805000--64805199 Score: 160
Period size: 27 Copynumber: 7.4 Consensus size: 27
64804990 GTAACTTTGT
64805000 AAATCAGGGGTATTTTGGTAATTTTAC
1 AAATCAGGGGTATTTTGGTAATTTTAC
* * * *
64805027 AAAT-TGAGGGTATTTCGATAATTTCAC
1 AAATCAG-GGGTATTTTGGTAATTTTAC
* **
64805054 AAACCAATGGTATTTTGGTAATTTTAC
1 AAATCAGGGGTATTTTGGTAATTTTAC
64805081 AAA-CTAGGGGTATTTTGGTAATTTTAC
1 AAATC-AGGGGTATTTTGGTAATTTTAC
*
64805108 AAAT-TGAGGGTATTTCT-GTAATTTTAC
1 AAATCAG-GGGTATTT-TGGTAATTTTAC
* * * *
64805135 AAACCAAGGGTATTTTAGCAATTTTAC
1 AAATCAGGGGTATTTTGGTAATTTTAC
* * **
64805162 AGA-CTA-GGGTATTTTAGTAATTTTGT
1 AAATC-AGGGGTATTTTGGTAATTTTAC
*
64805188 AAATCAAGGGTA
1 AAATCAGGGGTA
64805200 AAATAGGAAT
Statistics
Matches: 139, Mismatches: 23, Indels: 22
0.76 0.12 0.12
Matches are distributed among these distances:
26 25 0.18
27 113 0.81
28 1 0.01
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
AAATCAGGGGTATTTTGGTAATTTTAC
Found at i:64805101 original size:81 final size:81
Alignment explanation
Indices: 64805005--64805185 Score: 285
Period size: 81 Copynumber: 2.2 Consensus size: 81
64804995 TTTGTAAATC
*
64805005 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTC-GATAATTTCACAAACCAATGGTATTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCTG-TAATTTCACAAACCAAGGGTATTT
* *
64805069 TGGTAATTTTACAAACT
65 TAGCAATTTTACAAACT
*
64805086 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCTGTAATTTTACAAACCAAGGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCTGTAATTTCACAAACCAAGGGTATTTT
*
64805151 AGCAATTTTACAGACT
66 AGCAATTTTACAAACT
*
64805167 A-GGGTATTTTAGTAATTTT
1 AGGGGTATTTTGGTAATTTT
64805186 GTAAATCAAG
Statistics
Matches: 93, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
80 17 0.18
81 75 0.81
82 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCTGTAATTTCACAAACCAAGGGTATTTT
AGCAATTTTACAAACT
Found at i:64805176 original size:26 final size:26
Alignment explanation
Indices: 64805007--64805185 Score: 173
Period size: 27 Copynumber: 6.7 Consensus size: 26
64804997 TGTAAATCAG
* *
64805007 GGGTATTTTGGTAATTTTACAAATTGA
1 GGGTATTTTAGTAATTTTACAAACT-A
* * *
64805034 GGGTA-TTTCGATAATTTCACAAACCAA
1 GGGTATTTTAG-TAATTTTACAAA-CTA
* *
64805061 TGGTATTTTGGTAATTTTACAAACTA
1 GGGTATTTTAGTAATTTTACAAACTA
* *
64805087 GGGGTATTTTGGTAATTTTACAAATTGA
1 -GGGTATTTTAGTAATTTTACAAACT-A
*
64805115 GGGTATTTCT-GTAATTTTACAAACCAA
1 GGGTATTT-TAGTAATTTTACAAA-CTA
* *
64805142 GGGTATTTTAGCAATTTTACAGACTA
1 GGGTATTTTAGTAATTTTACAAACTA
64805168 GGGTATTTTAGTAATTTT
1 GGGTATTTTAGTAATTTT
64805186 GTAAATCAAG
Statistics
Matches: 128, Mismatches: 16, Indels: 17
0.80 0.10 0.11
Matches are distributed among these distances:
26 26 0.20
27 96 0.75
28 6 0.05
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (26 bp):
GGGTATTTTAGTAATTTTACAAACTA
Found at i:64805334 original size:27 final size:27
Alignment explanation
Indices: 64805178--64805327 Score: 203
Period size: 27 Copynumber: 5.6 Consensus size: 27
64805168 GGGTATTTTA
* *
64805178 GTAATTTTGTAAATCAAGGGTAAAATAG
1 GTAATTCTGTAAATCAAGGGTAAAA-CG
*
64805206 G-AATTCTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCAAGGGTAAAACG
*
64805232 GTAATTCTATAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCAAGGGTAAAACG
* *
64805259 GTACTTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCAAGGGTAAAACG
* *
64805286 GTAATTCTGTAAGTCAAAGGTAAAACG
1 GTAATTCTGTAAATCAAGGGTAAAACG
*
64805313 GTAATTATGTAAATC
1 GTAATTCTGTAAATC
64805328 GGGGGTACTT
Statistics
Matches: 107, Mismatches: 14, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
26 1 0.01
27 105 0.98
28 1 0.01
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.28
Consensus pattern (27 bp):
GTAATTCTGTAAATCAAGGGTAAAACG
Found at i:64807352 original size:133 final size:133
Alignment explanation
Indices: 64807109--64807376 Score: 482
Period size: 133 Copynumber: 2.0 Consensus size: 133
64807099 TGAAAACACA
64807109 ATGTCAGTACAATCTGGGCCAAAGCCCTATTTAGTCTTGGCATATACTGGGCCGAAGCCTTTTGT
1 ATGTCAGTACAATCTGGGCCAAAGCCCTATTTAGTCTTGGCATATACTGGGCCGAAGCCTTTTGT
* * *
64807174 TTAACGGTTACTGGGCCGAAGCCTTTTCATAAATCATATCACTAGGCCAAAGCCTTTTCATAAAT
66 TTAACGGTTACTAGGCCAAAGCCTTTTCATAAACCATATCACTAGGCCAAAGCCTTTTCATAAAT
64807239 CAT
131 CAT
* *
64807242 ATGTTAGTACAATCTGGGCCAAAGCCCTATTTAGTCTTGGCATATAGTGGGCCGAAGCCTTTTGT
1 ATGTCAGTACAATCTGGGCCAAAGCCCTATTTAGTCTTGGCATATACTGGGCCGAAGCCTTTTGT
*
64807307 TTAACGGTTACTAGGCCAAAGCCTTTTCATAAACCATATCACTAGGCCGAAGCCTTTTCATAAAT
66 TTAACGGTTACTAGGCCAAAGCCTTTTCATAAACCATATCACTAGGCCAAAGCCTTTTCATAAAT
64807372 CAT
131 CAT
64807375 AT
1 AT
64807377 CATTGGGCTG
Statistics
Matches: 129, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
133 129 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.31
Consensus pattern (133 bp):
ATGTCAGTACAATCTGGGCCAAAGCCCTATTTAGTCTTGGCATATACTGGGCCGAAGCCTTTTGT
TTAACGGTTACTAGGCCAAAGCCTTTTCATAAACCATATCACTAGGCCAAAGCCTTTTCATAAAT
CAT
Found at i:64807390 original size:31 final size:31
Alignment explanation
Indices: 64807316--64807394 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
64807306 TTTAACGGTT
*
64807316 ACTAGGCCAAAGCCTTTTCATAAACCATATC
1 ACTAGGCCGAAGCCTTTTCATAAACCATATC
*
64807347 ACTAGGCCGAAGCCTTTTCATAAATCATATC
1 ACTAGGCCGAAGCCTTTTCATAAACCATATC
* * *
64807378 ATTGGGCTGAAGCCTTT
1 ACTAGGCCGAAGCCTTT
64807395 ACTGTAAACG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.29
Consensus pattern (31 bp):
ACTAGGCCGAAGCCTTTTCATAAACCATATC
Found at i:64807465 original size:42 final size:42
Alignment explanation
Indices: 64807418--64807509 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
64807408 TGGCCCTTAG
* **
64807418 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
64807460 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
64807502 GCCCATTT
1 GCCCATTT
64807510 GGGGAGACTA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:64807725 original size:26 final size:26
Alignment explanation
Indices: 64807654--64807776 Score: 178
Period size: 26 Copynumber: 4.8 Consensus size: 26
64807644 CCTCTTTAAT
* **
64807654 AACTAGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
64807679 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
**
64807704 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
64807730 AACTGAGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
64807756 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
64807777 GCACTTCCTC
Statistics
Matches: 88, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
25 32 0.36
26 56 0.64
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:64807760 original size:52 final size:51
Alignment explanation
Indices: 64807654--64807776 Score: 212
Period size: 52 Copynumber: 2.4 Consensus size: 51
64807644 CCTCTTTAAT
* *
64807654 AACTAGGGCA-AAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGAGGCAAAGCCCTTTTCAATA
64807704 AACTGGGGCATAAGCCCTTTTCGGTAAACTGAGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGAGGCA-AAGCCCTTTTCAATA
64807756 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
64807777 GCACTTCCTC
Statistics
Matches: 69, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
50 9 0.13
51 24 0.35
52 36 0.52
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (51 bp):
AACTGGGGCATAAGCCCTTTTCGGTAAACTGAGGCAAAGCCCTTTTCAATA
Found at i:64808664 original size:27 final size:27
Alignment explanation
Indices: 64808606--64808672 Score: 98
Period size: 27 Copynumber: 2.5 Consensus size: 27
64808596 GAGGTATTAT
* *
64808606 GGTCACTTTACCCTACAAGGGCTTTAC
1 GGTCTCTTTACCTTACAAGGGCTTTAC
*
64808633 GGTCTCTTTACCTTACAGGGGCTTTAC
1 GGTCTCTTTACCTTACAAGGGCTTTAC
*
64808660 GGTCTTTTTACCT
1 GGTCTCTTTACCT
64808673 AATAGGGGTA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.16, C:0.27, G:0.19, T:0.37
Consensus pattern (27 bp):
GGTCTCTTTACCTTACAAGGGCTTTAC
Found at i:64808679 original size:27 final size:27
Alignment explanation
Indices: 64808606--64808680 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
64808596 GAGGTATTAT
* *
64808606 GGTCACTTTACCCT-ACAAGGGCTTTAC
1 GGTCTCTTTA-CCTAACAGGGGCTTTAC
*
64808633 GGTCTCTTTACCTTACAGGGGCTTTAC
1 GGTCTCTTTACCTAACAGGGGCTTTAC
* *
64808660 GGTCTTTTTACCTAATAGGGG
1 GGTCTCTTTACCTAACAGGGG
64808681 TATTTTAGTC
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
26 3 0.07
27 39 0.93
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.35
Consensus pattern (27 bp):
GGTCTCTTTACCTAACAGGGGCTTTAC
Found at i:64808909 original size:81 final size:81
Alignment explanation
Indices: 64808813--64808995 Score: 289
Period size: 81 Copynumber: 2.3 Consensus size: 81
64808803 TTTGTAAATC
*
64808813 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCTATAATTTCACAAA-CTAGTGGTATTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCTATAATTTCACAAACCAAG-GGTATTT
* *
64808877 TGGTAATTTTACAAACT
65 TAGCAATTTTACAAACT
* * *
64808894 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTTGTAATTTTACAAACCAAGGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCTATAATTTCACAAACCAAGGGTATTTT
64808959 AGCAATTTTACAAACT
66 AGCAATTTTACAAACT
64808975 A-GGGTATTTTGGTAATTTTAC
1 AGGGGTATTTTGGTAATTTTAC
64808996 TGATCCAGGG
Statistics
Matches: 95, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
80 20 0.21
81 72 0.76
82 3 0.03
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCTATAATTTCACAAACCAAGGGTATTTT
AGCAATTTTACAAACT
Found at i:64809052 original size:27 final size:27
Alignment explanation
Indices: 64808703--64809047 Score: 247
Period size: 27 Copynumber: 12.7 Consensus size: 27
64808693 TTCATCCTAC
* * * *
64808703 AAGGGTGTTTTGGTAAATCTACAAACT
1 AAGGGTATTTTAGTAATTTTACAAACT
* ** *
64808730 AAGGGTATTTCAGTAATTTTGTAAACC
1 AAGGGTATTTTAGTAATTTTACAAACT
* * * *
64808757 AATGGTATTTCCA-TAATTTTTAGAAAGT
1 AAGGGTATTT-TAGTAA-TTTTACAAACT
*
64808785 CAAGGGTATTTCT-GTAACTTTGTA-AATC-
1 -AAGGGTATTT-TAGTAA-TTT-TACAAACT
* * *
64808813 AGGGGTATTTTGGTAATTTTACAAATT
1 AAGGGTATTTTAGTAATTTTACAAACT
* *
64808840 GAGGGTATTTCTA-TAATTTCACAAACT
1 AAGGGTATTT-TAGTAATTTTACAAACT
*
64808867 -AGTGGTATTTTGGTAATTTTACAAACT
1 AAG-GGTATTTTAGTAATTTTACAAACT
* * *
64808894 AGGGGTATTTTGGTAATTTTACAAATT
1 AAGGGTATTTTAGTAATTTTACAAACT
* * *
64808921 GAGGGTATTTTTGTAATTTTACAAACC
1 AAGGGTATTTTAGTAATTTTACAAACT
*
64808948 AAGGGTATTTTAGCAATTTTACAAACT
1 AAGGGTATTTTAGTAATTTTACAAACT
* **
64808975 -AGGGTATTTTGGTAATTTTACTGA-T
1 AAGGGTATTTTAGTAATTTTACAAACT
* * **
64809000 CCAGGGTATTTTGGTAATTTTGTAAACT
1 -AAGGGTATTTTAGTAATTTTACAAACT
*
64809028 GAGGGTATTTTAGTAATTTT
1 AAGGGTATTTTAGTAATTTT
64809048 GTAAATCGAG
Statistics
Matches: 254, Mismatches: 49, Indels: 30
0.76 0.15 0.09
Matches are distributed among these distances:
25 3 0.01
26 29 0.11
27 190 0.75
28 12 0.05
29 18 0.07
30 2 0.01
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.41
Consensus pattern (27 bp):
AAGGGTATTTTAGTAATTTTACAAACT
Found at i:64809058 original size:27 final size:27
Alignment explanation
Indices: 64808815--64809208 Score: 231
Period size: 27 Copynumber: 14.6 Consensus size: 27
64808805 TGTAAATCAG
* *
64808815 GGGTATTTTGGTAATTTTACAAATTGA
1 GGGTATTTTAGTAATTTTACAAATCGA
* *
64808842 GGGTATTTCTA-TAATTTCACAAA-CTA
1 GGGTATTT-TAGTAATTTTACAAATCGA
* *
64808868 GTGGTATTTTGGTAATTTTACAAA-CTA
1 G-GGTATTTTAGTAATTTTACAAATCGA
* *
64808895 GGGGTATTTTGGTAATTTTACAAATTGA
1 -GGGTATTTTAGTAATTTTACAAATCGA
* * *
64808923 GGGTATTTTTGTAATTTTACAAACCAA
1 GGGTATTTTAGTAATTTTACAAATCGA
* *
64808950 GGGTATTTTAGCAATTTTACAAA-CTA
1 GGGTATTTTAGTAATTTTACAAATCGA
* ** *
64808976 GGGTATTTTGGTAATTTTACTGATCCA
1 GGGTATTTTAGTAATTTTACAAATCGA
* **
64809003 GGGTATTTTGGTAATTTTGTAAA-CTGA
1 GGGTATTTTAGTAATTTTACAAATC-GA
**
64809030 GGGTATTTTAGTAATTTTGTAAATCGA
1 GGGTATTTTAGTAATTTTACAAATCGA
**** * * *
64809057 GGGTAAAACAGTAATTCTATAAATCAA
1 GGGTATTTTAGTAATTTTACAAATCGA
**** * *
64809084 GGGTAAAACAGTAATTCTATAAATCGA
1 GGGTATTTTAGTAATTTTACAAATCGA
***** * *
64809111 GGGTAAAACGGTAATTCTATAAATCGA
1 GGGTATTTTAGTAATTTTACAAATCGA
***** * *
64809138 GGGTAAAACGGTAATTCTATAAATCGA
1 GGGTATTTTAGTAATTTTACAAATCGA
* * * *
64809165 GGGTACTTTGGTAATTTTACAATTTGA
1 GGGTATTTTAGTAATTTTACAAATCGA
*
64809192 GGGTATTTCAGTAATTT
1 GGGTATTTTAGTAATTT
64809209 GGTAAACTAA
Statistics
Matches: 313, Mismatches: 46, Indels: 16
0.83 0.12 0.04
Matches are distributed among these distances:
26 25 0.08
27 284 0.91
28 4 0.01
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (27 bp):
GGGTATTTTAGTAATTTTACAAATCGA
Found at i:64815686 original size:12 final size:13
Alignment explanation
Indices: 64815669--64815700 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
64815659 GCAAATGTTA
64815669 AGTTTTG-TGCAT
1 AGTTTTGATGCAT
64815681 AGTTTTGATGCAT
1 AGTTTTGATGCAT
64815694 -GTTTTGA
1 AGTTTTGA
64815701 AATGTGTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.19, C:0.06, G:0.25, T:0.50
Consensus pattern (13 bp):
AGTTTTGATGCAT
Found at i:64822844 original size:12 final size:13
Alignment explanation
Indices: 64822827--64822858 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
64822817 GCAAATGTTA
64822827 AGTTTTG-TGCAT
1 AGTTTTGATGCAT
64822839 AGTTTTGATGCAT
1 AGTTTTGATGCAT
64822852 -GTTTTGA
1 AGTTTTGA
64822859 AATGTGATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.19, C:0.06, G:0.25, T:0.50
Consensus pattern (13 bp):
AGTTTTGATGCAT
Found at i:64823956 original size:27 final size:28
Alignment explanation
Indices: 64823926--64823982 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
64823916 ATTTTTGATG
64823926 AAATGAGCTATTTG-GG-CTAATTTGTGA
1 AAATGAGCT-TTTGAGGACTAATTTGTGA
*
64823953 AAATGAGGTTTTGAAGGACTAATTTGTGA
1 AAATGAGCTTTTG-AGGACTAATTTGTGA
64823982 A
1 A
64823983 TTTAACATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 4 0.15
27 8 0.31
28 2 0.08
29 12 0.46
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.35
Consensus pattern (28 bp):
AAATGAGCTTTTGAGGACTAATTTGTGA
Found at i:64825025 original size:12 final size:13
Alignment explanation
Indices: 64825008--64825039 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
64824998 GCAAATGTTA
64825008 AGTTTTG-TGCAT
1 AGTTTTGATGCAT
64825020 AGTTTTGATGCAT
1 AGTTTTGATGCAT
64825033 -GTTTTGA
1 AGTTTTGA
64825040 AATGTGATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.19, C:0.06, G:0.25, T:0.50
Consensus pattern (13 bp):
AGTTTTGATGCAT
Found at i:64852045 original size:43 final size:42
Alignment explanation
Indices: 64851880--64852046 Score: 169
Period size: 43 Copynumber: 3.9 Consensus size: 42
64851870 TATAAGCTCG
* * *
64851880 TACAATGCC-ATATCCCAGATATAGTCTTACATGTCAA-C-ACA
1 TACAATGCCAATATCCCAGACATGGTCTTACACGT-AATCGA-A
* * * *
64851921 TATCAATGCCACTATCCCAGACAGGGTCTTACACGAAATCGAT
1 TA-CAATGCCAATATCCCAGACATGGTCTTACACGTAATCGAA
* *
64851964 TAACGATGCCAATGTCCCAGACATGGTCTTACACGTAATCTGAA
1 T-ACAATGCCAATATCCCAGACATGGTCTTACACGTAATC-GAA
* *
64852008 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATC
1 TACAATGCCAATATCCCAGACATGGTCTTACACGTAATC
64852047 ACATCTTGAT
Statistics
Matches: 105, Mismatches: 15, Indels: 10
0.81 0.12 0.08
Matches are distributed among these distances:
41 2 0.02
42 9 0.09
43 89 0.85
44 5 0.05
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (42 bp):
TACAATGCCAATATCCCAGACATGGTCTTACACGTAATCGAA
Found at i:64858583 original size:42 final size:42
Alignment explanation
Indices: 64858523--64858680 Score: 174
Period size: 42 Copynumber: 3.7 Consensus size: 42
64858513 TAGGGTTATG
* * **
64858523 TGTGATTTCATTTGAGACCATATCTGGGATATGAAATCGATA
1 TGTGATTTCATGTAAGACCATATCTGGGATATGGCATCGATA
*
64858565 TGTGATTTCATGTAAGACCATGA-CTGGGACATGGCATCGATA
1 TGTGATTTCATGTAAGACCAT-ATCTGGGATATGGCATCGATA
* ** * * *
64858607 TGGGACATCATGTAAGACCATACCTGGGCTATTGGCTTCGATA
1 TGTGATTTCATGTAAGACCATATCTGGGATA-TGGCATCGATA
**
64858650 TGTGATCCCATGTAAGACCATATCTGGGATA
1 TGTGATTTCATGTAAGACCATATCTGGGATA
64858681 GAGCATTGTC
Statistics
Matches: 96, Mismatches: 17, Indels: 5
0.81 0.14 0.04
Matches are distributed among these distances:
41 1 0.01
42 59 0.61
43 36 0.38
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.30
Consensus pattern (42 bp):
TGTGATTTCATGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:64861327 original size:27 final size:27
Alignment explanation
Indices: 64861279--64861392 Score: 113
Period size: 27 Copynumber: 4.2 Consensus size: 27
64861269 GGAGGAAGCG
*
64861279 TTCTGGTGGCTATGCCACAAATATCTA
1 TTCTGGTGGCTCTGCCACAAATATCTA
* * * * *
64861306 TTTTGGTGGCTCTGCGATAAATATTTG
1 TTCTGGTGGCTCTGCCACAAATATCTA
* *
64861333 TTCTGGTGGCTCAGCCACAAATATCTG
1 TTCTGGTGGCTCTGCCACAAATATCTA
* * *
64861360 TATCTGGTGACTCTGTCAC-AATATCTG
1 T-TCTGGTGGCTCTGCCACAAATATCTA
64861387 TTCTGG
1 TTCTGG
64861393 CAGCCATGCT
Statistics
Matches: 72, Mismatches: 14, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
26 5 0.07
27 53 0.74
28 14 0.19
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.37
Consensus pattern (27 bp):
TTCTGGTGGCTCTGCCACAAATATCTA
Found at i:64861383 original size:54 final size:54
Alignment explanation
Indices: 64861278--64861392 Score: 137
Period size: 54 Copynumber: 2.1 Consensus size: 54
64861268 TGGAGGAAGC
* * *
64861278 GTTCTGGTGGCTATGCCACAAATATCTATTTTGGTGGCTCTGCGATAAATATTT
1 GTTCTGGTGGCTATGCCACAAATATCTATTCTGGTGACTCTGCGATAAATATCT
* *
64861332 GTTCTGGTGGCTCA-GCCACAAATATCTGTATCTGGTGACTCTGTC-A-CAATATCT
1 GTTCTGGTGGCT-ATGCCACAAATATCTAT-TCTGGTGACTCTG-CGATAAATATCT
64861386 GTTCTGG
1 GTTCTGG
64861393 CAGCCATGCT
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
54 39 0.74
55 13 0.25
56 1 0.02
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTATTCTGGTGACTCTGCGATAAATATCT
Found at i:64863642 original size:50 final size:49
Alignment explanation
Indices: 64863519--64863713 Score: 205
Period size: 49 Copynumber: 3.9 Consensus size: 49
64863509 ATCTATTGTG
* * * * *
64863519 AGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC--AGACTAT
* * * ** *
64863571 -GATCACATGTGTAGTATTAAGTGTAGGCTACTACGTGTATTAGA-TGGT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-AT
64863619 GAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTAT
1 -AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTAT
* * *
64863669 TGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
64863714 TAGCTTCAGC
Statistics
Matches: 121, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
47 1 0.01
48 4 0.03
49 42 0.35
50 40 0.33
51 34 0.28
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (49 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTAT
Found at i:64863690 original size:49 final size:49
Alignment explanation
Indices: 64863520--64863715 Score: 223
Period size: 50 Copynumber: 3.9 Consensus size: 49
64863510 TCTATTGTGA
* * * *
64863520 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAG-ATA-TGT
* * * * ** * *
64863571 GATCACATGTGTAGTATTAAGTGTAGGCTACTACGTGTATTAGATGGTGA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGAT-ATGT
*
64863621 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTAT-T
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGA-TATGT
*
64863670 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
64863716 GCTTCAGCTA
Statistics
Matches: 122, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
48 2 0.02
49 42 0.34
50 43 0.35
51 35 0.29
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATATGT
Found at i:64869033 original size:28 final size:28
Alignment explanation
Indices: 64869001--64869065 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
64868991 ATTTACTAGA
*
64869001 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
64869029 ATACCCCTATGTATGCTAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
64869057 ATACCCCTA
1 ATACCCCTA
64869066 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:64869212 original size:28 final size:29
Alignment explanation
Indices: 64869171--64869233 Score: 94
Period size: 28 Copynumber: 2.2 Consensus size: 29
64869161 AGGAAGCATC
*
64869171 CTGGTGGCTATGCCACAAATTATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTAT
64869199 CTGGTGGC-ACTGCCACAAAATATCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGTAT
64869228 CTGGTG
1 CTGGTG
64869234 ACTCTGTCAC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
27 1 0.03
28 24 0.75
29 7 0.22
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (29 bp):
CTGGTGGCTATGCCACAAAATATCTGTAT
Found at i:64869244 original size:29 final size:28
Alignment explanation
Indices: 64869181--64869244 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
64869171 CTGGTGGCTA
* *
64869181 TGCCACAAATTATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
64869209 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
64869238 TGTCACA
1 TGCCACA
64869245 TTTTCTGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 16 0.52
29 15 0.48
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:64869719 original size:19 final size:19
Alignment explanation
Indices: 64869697--64869735 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
64869687 TTTTAATTAT
* *
64869697 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
64869716 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
64869735 T
1 T
64869736 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:64871900 original size:20 final size:19
Alignment explanation
Indices: 64871847--64871901 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
64871837 ATCATATGAG
* *
64871847 ACTGTTTTGTTATGGGCCA
1 ACTGTATTGATATGGGCCA
* *
64871866 AATGTATTGAAATGGGCCCA
1 ACTGTATTGATATGGG-CCA
*
64871886 ACTGTGTTGATATGGG
1 ACTGTATTGATATGGG
64871902 TTAAGGCCTA
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.24, C:0.13, G:0.29, T:0.35
Consensus pattern (19 bp):
ACTGTATTGATATGGGCCA
Found at i:64873440 original size:21 final size:21
Alignment explanation
Indices: 64873411--64873454 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
64873401 AATAAGTGTG
64873411 ATCAGTATGTTTATATGGTTAA
1 ATCAGTATGTTTA-ATGGTTAA
*
64873433 ATCA-TATGTTTAATTGTTAA
1 ATCAGTATGTTTAATGGTTAA
64873453 AT
1 AT
64873455 TAGAGATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.43
21 8 0.38
22 4 0.19
ACGTcount: A:0.34, C:0.05, G:0.14, T:0.48
Consensus pattern (21 bp):
ATCAGTATGTTTAATGGTTAA
Found at i:64877570 original size:42 final size:42
Alignment explanation
Indices: 64877523--64877683 Score: 171
Period size: 42 Copynumber: 3.8 Consensus size: 42
64877513 TAGGGTTATG
*
64877523 TGTGATTTCGTGTAAGACTATATCTGGGATATGGAATCGATA
1 TGTGATTTCGTGTAAGACCATATCTGGGATATGGAATCGATA
* * * *
64877565 TGTGATTTCGTGTAAGACCATGTCTGGGACATGCAATCTATA
1 TGTGATTTCGTGTAAGACCATATCTGGGATATGGAATCGATA
* ** * *
64877607 TGCGACATCGTGTAAGACCATAGT-TGGGTTATCGGCATCGATA
1 TGTGATTTCGTGTAAGACCATA-TCTGGGATAT-GGAATCGATA
** * *
64877650 TGTGATCCCATGTAAGACCATATCTAGGATATGG
1 TGTGATTTCGTGTAAGACCATATCTGGGATATGG
64877684 CATTGGGATC
Statistics
Matches: 95, Mismatches: 21, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
42 64 0.67
43 31 0.33
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (42 bp):
TGTGATTTCGTGTAAGACCATATCTGGGATATGGAATCGATA
Found at i:64883356 original size:71 final size:67
Alignment explanation
Indices: 64883279--64883420 Score: 194
Period size: 67 Copynumber: 2.1 Consensus size: 67
64883269 TCACCAGATA
* * *
64883279 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTGGCGAAGCCACCAGATTGCAGCGA
1 CAGATATTGTGACGAAGCCACCAGAACAG----ATATATGTGGCGAAGCCACCAGATTGCAGCGA
*
64883344 GGCTGC
62 GGCTAC
* *
64883350 CAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCT
1 CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCT
64883415 AC
66 AC
64883417 CAGA
1 CAGA
64883421 ACACTTCCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
67 40 0.62
71 25 0.38
ACGTcount: A:0.31, C:0.23, G:0.28, T:0.18
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCT
AC
Found at i:64883398 original size:27 final size:26
Alignment explanation
Indices: 64883350--64883401 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
64883340 GCGAGGCTGC
*
64883350 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
64883376 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
64883402 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:64893564 original size:68 final size:68
Alignment explanation
Indices: 64893464--64893599 Score: 236
Period size: 68 Copynumber: 2.0 Consensus size: 68
64893454 GCTTAACAAC
*
64893464 CCTAAAAAGTCATCAAGGTGGGAATTAACCCAAATTTGTTATGGCCTATCCATGAACACCTTAAC
1 CCTAAAAAGTCATCAAGGTGGGAATTAACCCAAATTTGGTATGGCCTATCCATGAACACCTTAAC
64893529 GCT
66 GCT
* * *
64893532 CCTAAAAAGTCATCAAGGTGGGAATTAACCCAAGTTTGGTATGGCCTATCCGTGAACATCTTAAC
1 CCTAAAAAGTCATCAAGGTGGGAATTAACCCAAATTTGGTATGGCCTATCCATGAACACCTTAAC
64893597 GCT
66 GCT
64893600 GAATCGGTAT
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
68 64 1.00
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.26
Consensus pattern (68 bp):
CCTAAAAAGTCATCAAGGTGGGAATTAACCCAAATTTGGTATGGCCTATCCATGAACACCTTAAC
GCT
Found at i:64894388 original size:42 final size:42
Alignment explanation
Indices: 64894293--64894390 Score: 110
Period size: 42 Copynumber: 2.3 Consensus size: 42
64894283 GGATAGACGG
* *
64894293 CTAGAACACATGCCTATGGGGCAAGCCGGTTGTCACACTCGAT
1 CTAG-ACACACGCCCATGGGGCAAGCCGGTTGTCACACTCGAT
* * *
64894336 TTAGATACACGCCCATGGGGCAAGCC-GTGTGTCACACAT-GGT
1 CTAGACACACGCCCATGGGGCAAGCCGGT-TGTCACAC-TCGAT
64894378 CTAGACACACGCC
1 CTAGACACACGCC
64894391 TGTGTGTCTA
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
41 2 0.04
42 40 0.87
43 4 0.09
ACGTcount: A:0.26, C:0.30, G:0.26, T:0.19
Consensus pattern (42 bp):
CTAGACACACGCCCATGGGGCAAGCCGGTTGTCACACTCGAT
Found at i:64897945 original size:40 final size:41
Alignment explanation
Indices: 64897888--64898075 Score: 194
Period size: 41 Copynumber: 4.7 Consensus size: 41
64897878 TTGAATGATG
* *
64897888 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAG-TGAC-CATA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-AAGAT-ACTAATA
*
64897928 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAATA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCAAGATACTAATA
*
64897969 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT-
1 TCCGGACTAAGATCCGAAGGCATTTGTGCAAGATACTAATA
* * * *
64898009 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAA-A
1 TCCGGACTAAGATCCGAAGGCATTTGTGCAAGATACTAATA
**
64898048 TCCGGGTTAAG-TCCCGAAGGCATTTGTG
1 TCCGGACTAAGAT-CCGAAGGCATTTGTG
64898076 AGAGTTACTA
Statistics
Matches: 134, Mismatches: 8, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
39 35 0.26
40 47 0.35
41 52 0.39
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (41 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCAAGATACTAATA
Found at i:64897970 original size:41 final size:40
Alignment explanation
Indices: 64897925--64898085 Score: 218
Period size: 41 Copynumber: 4.0 Consensus size: 40
64897915 CTAAGTGACC
64897925 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTA
1 ATATCCGGACTAAG-TCCGAAGGCATTTGTGCGAGATACTA
64897966 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTA
1 ATATCCGGACTAAG-TCCGAAGGCATTTGTGCGAGATACTA
* * *
64898007 AT-TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTA
1 ATATCCGGACTAAGTCCGAAGGCATTTGTGCGAGATACTA
** * *
64898046 A-ATCCGGGTTAAGTCCCGAAGGCATTTGTGAGAGTTACTA
1 ATATCCGGACTAAGT-CCGAAGGCATTTGTGCGAGATACTA
64898086 TAACCGGTTA
Statistics
Matches: 112, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
39 35 0.31
40 34 0.30
41 43 0.38
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGACTAAGTCCGAAGGCATTTGTGCGAGATACTA
Found at i:64898081 original size:40 final size:40
Alignment explanation
Indices: 64897888--64898085 Score: 233
Period size: 40 Copynumber: 5.0 Consensus size: 40
64897878 TTGAATGATG
* * * *
64897888 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
64897928 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
* * *
64897969 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
64898009 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
64898048 TCCGGGTTAAGTCCCGAAGGCATTTGTGAGAGTTACTA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
64898086 TAACCGGTTA
Statistics
Matches: 141, Mismatches: 12, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
39 35 0.25
40 58 0.41
41 48 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:64898106 original size:39 final size:40
Alignment explanation
Indices: 64897941--64898098 Score: 162
Period size: 39 Copynumber: 4.0 Consensus size: 40
64897931 GGACTAAGAT
* * **
64897941 CCGAAGGCATTTGTGCGAGATACTAATATCCGGACTAAGAT-
1 CCGAAGGCATTTGTGAGAGTTACTAA-ATCCGGGTTAA-ATC
* * * * *
64897982 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCT-AAGC
1 CCGAAGGCATTTGTGAGAGTTACTAAATCCGGGTTAAATC
* *
64898021 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGAGAGTTACTAAATCCGGGTTAAATC
64898061 CCGAAGGCATTTGTGAGAGTTACTATAA-CC-GGTTAAAT
1 CCGAAGGCATTTGTGAGAGTTACTA-AATCCGGGTTAAAT
64898099 TTCGAAGGTA
Statistics
Matches: 104, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
38 1 0.01
39 40 0.38
40 35 0.34
41 28 0.27
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTTGTGAGAGTTACTAAATCCGGGTTAAATC
Found at i:64905890 original size:79 final size:79
Alignment explanation
Indices: 64905759--64905964 Score: 231
Period size: 79 Copynumber: 2.6 Consensus size: 79
64905749 GGACTAAGAT
* * * **
64905759 CCGAAGGCATTTGGGCGAGATACTAATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACT
1 CCGAAGGCATTTGAGCGAGTTGCTAA-ATCCGGGTTAAGATCCGAAGGCATTTGTGCGAGATACT
* *
64905824 AATTCTGGGCTAAG-C
65 AA-ACCGGGCTAAGTC
* *
64905839 CCGAAGGCATTTGTGCGAGTTGCTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACT
1 CCGAAGGCATTTGAGCGAGTTGCTAAATCCGGGTTAAGAT-CCGAAGGCATTTGTGCGAGATACT
*
64905903 AAACCGGGCTATGTC
65 AAACCGGGCTAAGTC
* * * *
64905918 CCGAAGGCATTTGAACGAGTAGCTATATCC-GGTTAA-ATTCGAAGGCA
1 CCGAAGGCATTTGAGCGAGTTGCTAAATCCGGGTTAAGATCCGAAGGCA
64905965 CGTGTTTGGG
Statistics
Matches: 109, Mismatches: 14, Indels: 9
0.83 0.11 0.07
Matches are distributed among these distances:
77 8 0.07
78 16 0.15
79 62 0.57
80 23 0.21
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAGCGAGTTGCTAAATCCGGGTTAAGATCCGAAGGCATTTGTGCGAGATACTA
AACCGGGCTAAGTC
Found at i:64905937 original size:39 final size:41
Alignment explanation
Indices: 64905710--64905930 Score: 228
Period size: 39 Copynumber: 5.6 Consensus size: 41
64905700 GAATGAGTCT
* * * *
64905710 GGGCTAAGT-CCGAAGGC-TTTGTGCTAAGTGAC-CATATTC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAATATCC
* * *
64905749 GGACTAAGAT-CCGAAGGCATTTGGGCGAGATACTAATATCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAATATCC
* * *
64905790 GGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT-TCT
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAATATCC
*
64905830 GGGCTAAG-CCCGAAGGCATTTGTGCGAGTTGCTAA-ATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATATCC
*
64905869 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA-A-CC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATATCC
*
64905908 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
64905931 AACGAGTAGC
Statistics
Matches: 159, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
39 63 0.40
40 49 0.31
41 47 0.30
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (41 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATATCC
Found at i:64908132 original size:27 final size:27
Alignment explanation
Indices: 64908102--64908262 Score: 216
Period size: 27 Copynumber: 6.0 Consensus size: 27
64908092 CCTTAATCGA
* * *
64908102 TAAAATGATTATTTTTCCCTTATGAGG
1 TAAAATGACTGTTTTTCCCTTATGTGG
*
64908129 TAAAATGATTGTTTTTCCCTTATGTGG
1 TAAAATGACTGTTTTTCCCTTATGTGG
* *
64908156 TAAAATGACTGTTTTGCCCTTATATGG
1 TAAAATGACTGTTTTTCCCTTATGTGG
64908183 TAAAATGACTGTTTTGT-CCTTATGTGG
1 TAAAATGACTGTTTT-TCCCTTATGTGG
**
64908210 TAAAATGACAATTTTTCCCTTATGTGG
1 TAAAATGACTGTTTTTCCCTTATGTGG
* *
64908237 TAAAATGACTGTTTTGCCCTTGTGTG
1 TAAAATGACTGTTTTTCCCTTATGTG
64908263 ATGGATATAT
Statistics
Matches: 119, Mismatches: 13, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
26 1 0.01
27 118 0.99
ACGTcount: A:0.25, C:0.13, G:0.19, T:0.43
Consensus pattern (27 bp):
TAAAATGACTGTTTTTCCCTTATGTGG
Found at i:64908204 original size:81 final size:81
Alignment explanation
Indices: 64908102--64908257 Score: 242
Period size: 81 Copynumber: 1.9 Consensus size: 81
64908092 CCTTAATCGA
* ***
64908102 TAAAATGATTATTTTTCCCTTATGAGGTAAAATGATTGTTTTTCCCTTATGTGGTAAAATGACTG
1 TAAAATGACTATTTTTCCCTTATGAGGTAAAATGACAATTTTTCCCTTATGTGGTAAAATGACTG
64908167 TTTTGCCCTTATATGG
66 TTTTGCCCTTATATGG
* *
64908183 TAAAATGACTGTTTTGT-CCTTATGTGGTAAAATGACAATTTTTCCCTTATGTGGTAAAATGACT
1 TAAAATGACTATTTT-TCCCTTATGAGGTAAAATGACAATTTTTCCCTTATGTGGTAAAATGACT
64908247 GTTTTGCCCTT
65 GTTTTGCCCTT
64908258 GTGTGATGGA
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
81 67 0.99
82 1 0.01
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.44
Consensus pattern (81 bp):
TAAAATGACTATTTTTCCCTTATGAGGTAAAATGACAATTTTTCCCTTATGTGGTAAAATGACTG
TTTTGCCCTTATATGG
Found at i:64908627 original size:18 final size:18
Alignment explanation
Indices: 64908604--64908651 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
64908594 TACTGTTTAA
64908604 ACTGTTACTGCACTGATT
1 ACTGTTACTGCACTGATT
* *
64908622 ACTGTTATTGTACTGATT
1 ACTGTTACTGCACTGATT
64908640 ACTGTTACTGCA
1 ACTGTTACTGCA
64908652 ATGGGCCAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.42
Consensus pattern (18 bp):
ACTGTTACTGCACTGATT
Found at i:64909431 original size:42 final size:42
Alignment explanation
Indices: 64909324--64909474 Score: 160
Period size: 42 Copynumber: 3.6 Consensus size: 42
64909314 GGGGTGTTAC
* * * * *
64909324 ATATGGTCTTACATGTAATATCGTATCGATGCCAATAGCCTAG
1 ATATGGTCTTACACGTAATCTCATATCGATGCC-ATATCTTAG
* * * *
64909367 CTATGGTTTTATACGAAATCTCATATCGATGCCATATCTTAG
1 ATATGGTCTTACACGTAATCTCATATCGATGCCATATCTTAG
* * *
64909409 ATATGGTCTTACACGTAGTCTCATATTGATGCCATAT-TCCAG
1 ATATGGTCTTACACGTAATCTCATATCGATGCCATATCT-TAG
*
64909451 ATATGGTCTTACACGTAGTCTCAT
1 ATATGGTCTTACACGTAATCTCAT
64909475 TAATCCTAAT
Statistics
Matches: 91, Mismatches: 16, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
41 1 0.01
42 64 0.70
43 26 0.29
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.36
Consensus pattern (42 bp):
ATATGGTCTTACACGTAATCTCATATCGATGCCATATCTTAG
Found at i:64909985 original size:39 final size:38
Alignment explanation
Indices: 64909923--64910001 Score: 131
Period size: 39 Copynumber: 2.1 Consensus size: 38
64909913 AATCACCTAG
* *
64909923 CAAAAGTTGTTATCATATTCCAAACATGCATTTTCTAC
1 CAAAAGTTGTTACCATATTCCAAACATACATTTTCTAC
64909961 CAAAAGTTGTTTACCATATTCCAAACATACATTTTCTAC
1 CAAAAGTTG-TTACCATATTCCAAACATACATTTTCTAC
64910000 CA
1 CA
64910002 TTAGACATCA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
38 9 0.24
39 29 0.76
ACGTcount: A:0.35, C:0.23, G:0.06, T:0.35
Consensus pattern (38 bp):
CAAAAGTTGTTACCATATTCCAAACATACATTTTCTAC
Found at i:64913168 original size:18 final size:18
Alignment explanation
Indices: 64913145--64913180 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
64913135 GCTCCTCTCA
64913145 ACTGATCAAACAAGTCAT
1 ACTGATCAAACAAGTCAT
64913163 ACTGATCAAACAAGTCAT
1 ACTGATCAAACAAGTCAT
64913181 CAATCCTTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.22, G:0.11, T:0.22
Consensus pattern (18 bp):
ACTGATCAAACAAGTCAT
Found at i:64917009 original size:46 final size:48
Alignment explanation
Indices: 64916928--64917047 Score: 147
Period size: 48 Copynumber: 2.5 Consensus size: 48
64916918 GACAGGACAG
* *
64916928 GACAGAAATGAGCCATGTAAGTCCATA-T-CAGATATATGGCTTTGGA
1 GACAGGAATGAGCCATGTAAGTCCATATTACAGATATATGGCATTGGA
* *
64916974 GACAGGAATGAGCCATGTAAG-CCTATATTATATATATATGGCATTGGA
1 GACAGGAATGAGCCATGTAAGTCC-ATATTACAGATATATGGCATTGGA
* **
64917022 GACAGGAATAATTCATGTAAGTCCAT
1 GACAGGAATGAGCCATGTAAGTCCAT
64917048 GTCGAAGACA
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
45 2 0.03
46 23 0.37
47 1 0.02
48 35 0.56
49 2 0.03
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (48 bp):
GACAGGAATGAGCCATGTAAGTCCATATTACAGATATATGGCATTGGA
Found at i:64922838 original size:46 final size:48
Alignment explanation
Indices: 64922766--64922868 Score: 138
Period size: 46 Copynumber: 2.2 Consensus size: 48
64922756 GACAGGACAG
* * *
64922766 GACAGAAATGAGCCATGTAAGTCCATA-T-CAGATATATGACTTTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATTACAGATATATGACATTGGA
* * *
64922812 GACAGGAATGAGCCATGTAAGCCCATATTATATATATATGGCATTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATTACAGATATATGACATTGGA
64922860 GACAGGAAT
1 GACAGGAAT
64922869 AATTCATGTA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
46 25 0.51
47 1 0.02
48 23 0.47
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.25
Consensus pattern (48 bp):
GACAGGAATGAGCCATGTAAGCCCATATTACAGATATATGACATTGGA
Found at i:64925184 original size:34 final size:34
Alignment explanation
Indices: 64925141--64925209 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
64925131 TACCTGAGTC
64925141 ATCTCAAATTGGATTTACACACAATTCATCTTTG
1 ATCTCAAATTGGATTTACACACAATTCATCTTTG
*
64925175 ATCTCAAATTTGATTTACACACAATTCATCTTTG
1 ATCTCAAATTGGATTTACACACAATTCATCTTTG
64925209 A
1 A
64925210 CGTACTCGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.33, C:0.20, G:0.07, T:0.39
Consensus pattern (34 bp):
ATCTCAAATTGGATTTACACACAATTCATCTTTG
Found at i:64925408 original size:42 final size:42
Alignment explanation
Indices: 64925287--64925409 Score: 149
Period size: 43 Copynumber: 2.9 Consensus size: 42
64925277 GATAACATAC
** *
64925287 CAATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTAT
1 CAATGCCATATCCCAGATATGGTCTTACACATAGTCTCGTAT
* * * * *
64925329 CGATGTCAATAGCCCAGCTATGGTCTTATACGA-AGTCTCGTAT
1 CAATG-CCATATCCCAGATATGGTCTTACAC-ATAGTCTCGTAT
64925372 CAATGCCATATCCCAGATATGGTCTTACACATAGTCTC
1 CAATGCCATATCCCAGATATGGTCTTACACATAGTCTC
64925410 ATATTGATGT
Statistics
Matches: 65, Mismatches: 13, Indels: 6
0.77 0.15 0.07
Matches are distributed among these distances:
41 1 0.02
42 31 0.48
43 33 0.51
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (42 bp):
CAATGCCATATCCCAGATATGGTCTTACACATAGTCTCGTAT
Found at i:64925426 original size:42 final size:42
Alignment explanation
Indices: 64925294--64925451 Score: 133
Period size: 42 Copynumber: 3.8 Consensus size: 42
64925284 TACCAATGCC
** * *
64925294 ATATCCCAGATATGGTCTTACATGTAATCTCGTATCGATGTCA
1 ATATCCCAGATATGGTCTTACACATAGTCTCATATCGATGT-A
* * * * * **
64925337 ATAGCCCAGCTATGGTCTTATACGA-AGTCTCGTATCAATGCC
1 ATATCCCAGATATGGTCTTACAC-ATAGTCTCATATCGATGTA
* *
64925379 ATATCCCAGATATGGTCTTACACATAGTCTCATATTGATGTT
1 ATATCCCAGATATGGTCTTACACATAGTCTCATATCGATGTA
* * *
64925421 GTATCCC--ATATGGTTTTACACGTAGTCTCAT
1 ATATCCCAGATATGGTCTTACACATAGTCTCAT
64925452 TAACTCTAAT
Statistics
Matches: 93, Mismatches: 20, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
40 22 0.24
41 1 0.01
42 38 0.41
43 32 0.34
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (42 bp):
ATATCCCAGATATGGTCTTACACATAGTCTCATATCGATGTA
Found at i:64928186 original size:20 final size:20
Alignment explanation
Indices: 64928161--64928198 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
64928151 AATTTTGTAC
64928161 TTTA-TTATTATTATTAATCA
1 TTTATTTATT-TTATTAATCA
64928181 TTTATTTATTTTATTAAT
1 TTTATTTATTTTATTAAT
64928199 ATTATTTGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTATTTATTTTATTAATCA
Found at i:64928385 original size:6 final size:6
Alignment explanation
Indices: 64928374--64928407 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
64928364 TTATCAACAC
64928374 TTCTTT TTCTTT TTCTTTT TTCTTTT TTCTTT TT
1 TTCTTT TTCTTT TTC-TTT TTC-TTT TTCTTT TT
64928408 ACTCTCTGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 14 0.52
7 13 0.48
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTCTTT
Found at i:64928393 original size:7 final size:7
Alignment explanation
Indices: 64928377--64928407 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
64928367 TCAACACTTC
64928377 TTTTTC-
1 TTTTTCT
64928383 TTTTTCT
1 TTTTTCT
64928390 TTTTTCT
1 TTTTTCT
64928397 TTTTTCT
1 TTTTTCT
64928404 TTTT
1 TTTT
64928408 ACTCTCTGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTTCT
Found at i:64929438 original size:89 final size:92
Alignment explanation
Indices: 64929321--64929498 Score: 249
Period size: 89 Copynumber: 2.0 Consensus size: 92
64929311 GTAAAAATGA
* * * * *
64929321 GTGGAAAGAGTATCGAACAATACAAAAGCACTGAGAAAAGAGTAAAAAGTCCAGTG-ACAAA-A-
1 GTGGAAAAAGTATCGAACAAAACAAAAGCACTAAGAAAAGAGTAAAAAGTCAAGTGAAAAAATAG
*
64929383 AAATG-CACAAAAGTGAGAGAAAAGGG
66 AAAAGTCACAAAAGTGAGAGAAAAGGG
64929409 GTGGAAAAAAGTATCGAACAGAAAC-AAAGCACTAAGAAAAGAGTAAAAAGTCAAGTGAAAAAAT
1 GTGG-AAAAAGTATCGAACA-AAACAAAAGCACTAAGAAAAGAGTAAAAAGTCAAGTGAAAAAAT
64929473 AGAAAAGTCACAAAAGTGAGAGAAAA
64 AGAAAAGTCACAAAAGTGAGAGAAAA
64929499 CTCAGTCATC
Statistics
Matches: 78, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
88 4 0.05
89 44 0.56
90 7 0.09
91 1 0.01
92 4 0.05
93 18 0.23
ACGTcount: A:0.56, C:0.10, G:0.23, T:0.11
Consensus pattern (92 bp):
GTGGAAAAAGTATCGAACAAAACAAAAGCACTAAGAAAAGAGTAAAAAGTCAAGTGAAAAAATAG
AAAAGTCACAAAAGTGAGAGAAAAGGG
Done.