Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 2 of 226
Found at i:430438 original size:44 final size:44
Alignment explanation
Indices: 430247--430477 Score: 174
Period size: 44 Copynumber: 5.3 Consensus size: 44
430237 CCTTCGTTTT
* *
430247 AATCCGCTCCACTGTAATATCA-GGAGATAGGATTACTATCTTC
1 AATCTGCTCCACTGTAATATCAGGGAGATAAGATTACTATCTTC
* * **
430290 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGA-T-CTGA--AAC
1 AATCTGCTCCACTGTAATATCAGGGAGATAAGATTACT-ATCTTC
* * ** * *
430331 GATCTAGCTCTACTGTAACT-TCAAAGAGATAAGA-TCCT-TCGTTTT
1 AATCT-GCTCCACTGTAA-TATCAGGGAGATAAGATTACTATC--TTC
* *
430376 ACATCCGCTCCACTGTAATATCAGGGAGATAGGATTACTATCTTC
1 A-ATCTGCTCCACTGTAATATCAGGGAGATAAGATTACTATCTTC
* * *
430421 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGC-ATCTTC
1 AATCTGCTCCACTGTAATATCAGGGAGATAAGAT-TACTATCTTC
*
430465 AATGTGCTCCACT
1 AATCTGCTCCACT
430478 TTGGGAGATA
Statistics
Matches: 145, Mismatches: 29, Indels: 27
0.72 0.14 0.13
Matches are distributed among these distances:
41 5 0.03
42 25 0.17
43 24 0.17
44 56 0.39
45 27 0.19
46 6 0.04
47 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATATCAGGGAGATAAGATTACTATCTTC
Found at i:430588 original size:165 final size:169
Alignment explanation
Indices: 430312--430624 Score: 508
Period size: 165 Copynumber: 1.9 Consensus size: 169
430302 TGTAATCTCA
*
430312 GGGAGATAAGATCTGAAACGATCTAGCTCTACTGTAACTTCAAAGAGATAAGATCCTTCGTTTTA
1 GGGAGATAAGATCTGAAACGATCTA-CTCTACTGTAACTTCAAAGAGATAAGATCCTTCATTTTA
* * *
430377 CATCCGCTCCACTGTAATATCAGGGAGATAGGATTACTATCTTCAATCTGCT-CCGCTGTAATCT
65 CATCCACTCCACTGTAATATCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCCACTGTAATCT
430441 -CAGGGAGATAAGATCTGCATCTTCAATGTGCTCCACTTT
130 CCAGGGAGATAAGATCTGCATCTTCAATGTGCTCCACTTT
* * *
430480 GGGAGATAAGATCTGAAACGATCTA-TCTACTGTAACTTCAGAGAGATATGATCCTTTATTTTA-
1 GGGAGATAAGATCTGAAACGATCTACTCTACTGTAACTTCAAAGAGATAAGATCCTTCATTTTAC
* *
430543 ATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCCACTGTAATTTC
66 ATCCACTCCACTGTAATATCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCCACTGTAATCTC
430608 CAGGGAGATAAGATCTG
131 CAGGGAGATAAGATCTG
430625 AAATTCTTTG
Statistics
Matches: 134, Mismatches: 9, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
165 48 0.36
166 44 0.33
167 17 0.13
168 25 0.19
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.30
Consensus pattern (169 bp):
GGGAGATAAGATCTGAAACGATCTACTCTACTGTAACTTCAAAGAGATAAGATCCTTCATTTTAC
ATCCACTCCACTGTAATATCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCCACTGTAATCTC
CAGGGAGATAAGATCTGCATCTTCAATGTGCTCCACTTT
Found at i:432802 original size:7 final size:8
Alignment explanation
Indices: 432777--432806 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
432767 CTATTTTGAC
432777 TTTGATTTT
1 TTTGA-TTT
432786 TTTGATTT
1 TTTGATTT
432794 TTTGATTT
1 TTTGATTT
432802 TTTGA
1 TTTGA
432807 ATTCATGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 16 0.76
9 5 0.24
ACGTcount: A:0.13, C:0.00, G:0.13, T:0.73
Consensus pattern (8 bp):
TTTGATTT
Found at i:437343 original size:30 final size:30
Alignment explanation
Indices: 437311--437366 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
437301 ATATTACATA
*
437311 AAAATAAAA-GATATAAGTATGTATATCGT
1 AAAATAAAACAATATAAGTATGTATATCGT
*
437340 AAAATAAAACAATGTAAGTATGTATAT
1 AAAATAAAACAATATAAGTATGTATAT
437367 GTATATAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 9 0.38
30 15 0.62
ACGTcount: A:0.54, C:0.04, G:0.12, T:0.30
Consensus pattern (30 bp):
AAAATAAAACAATATAAGTATGTATATCGT
Found at i:437507 original size:18 final size:18
Alignment explanation
Indices: 437486--437545 Score: 75
Period size: 18 Copynumber: 3.2 Consensus size: 18
437476 AAAATATGTT
*
437486 TATAAAAAGATATATAGA
1 TATAAAAAGATATAAAGA
*
437504 TATATAATAAGATATAAATA
1 TATA-AA-AAGATATAAAGA
*
437524 TATAATAAGATATAAAGA
1 TATAAAAAGATATAAAGA
437542 TATA
1 TATA
437546 TATAAATAGT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
18 19 0.53
19 3 0.08
20 14 0.39
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (18 bp):
TATAAAAAGATATAAAGA
Found at i:454772 original size:11 final size:13
Alignment explanation
Indices: 454752--454783 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
454742 AATAAATTAA
454752 TAAAATATCAT-T
1 TAAAATATCATAT
454764 TAAAA-ATCATAT
1 TAAAATATCATAT
454776 TAAAATAT
1 TAAAATAT
454784 TAATAAACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.28
12 11 0.61
13 2 0.11
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (13 bp):
TAAAATATCATAT
Found at i:455378 original size:22 final size:22
Alignment explanation
Indices: 455348--455395 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
455338 CTCTCTAATC
*
455348 CTCTCAATTTCCTTCCAAAATT
1 CTCTAAATTTCCTTCCAAAATT
455370 CTCTAAATTTCCTTCCAAAATT
1 CTCTAAATTTCCTTCCAAAATT
455392 CTCT
1 CTCT
455396 CAAACCCATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.27, C:0.31, G:0.00, T:0.42
Consensus pattern (22 bp):
CTCTAAATTTCCTTCCAAAATT
Found at i:455424 original size:51 final size:50
Alignment explanation
Indices: 455368--455482 Score: 176
Period size: 51 Copynumber: 2.3 Consensus size: 50
455358 CCTTCCAAAA
* *
455368 TTCTCTAAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAAGT
1 TTCTCTCAATTTCCATCCAAAATTCTCTCAAACCCATATTTAATTTCAA-T
* *
455419 TTCTCTCAATTCCCATCCAAAATTCTCTCAAATCCATATTTAATTTCAAT
1 TTCTCTCAATTTCCATCCAAAATTCTCTCAAACCCATATTTAATTTCAAT
455469 TTCTCCTCAATTTC
1 TTCT-CTCAATTTC
455483 ATTTTTTAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
50 5 0.09
51 53 0.91
ACGTcount: A:0.30, C:0.28, G:0.01, T:0.42
Consensus pattern (50 bp):
TTCTCTCAATTTCCATCCAAAATTCTCTCAAACCCATATTTAATTTCAAT
Found at i:456892 original size:12 final size:12
Alignment explanation
Indices: 456875--456902 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
456865 GGAGCAACGC
456875 CGGCACGACGGA
1 CGGCACGACGGA
456887 CGGCACGACGGA
1 CGGCACGACGGA
456899 CGGC
1 CGGC
456903 GACTGAAGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.21, C:0.36, G:0.43, T:0.00
Consensus pattern (12 bp):
CGGCACGACGGA
Found at i:457321 original size:10 final size:11
Alignment explanation
Indices: 457298--457323 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
457288 CGTGTTACAA
457298 TTTAGTCTTTT
1 TTTAGTCTTTT
457309 TTTAGTCTTTT
1 TTTAGTCTTTT
457320 TTTA
1 TTTA
457324 TTTCGAATCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.12, C:0.08, G:0.08, T:0.73
Consensus pattern (11 bp):
TTTAGTCTTTT
Found at i:457476 original size:3 final size:3
Alignment explanation
Indices: 457386--457467 Score: 119
Period size: 3 Copynumber: 27.3 Consensus size: 3
457376 GTACTTTTGC
*
457386 TAT TAT TAT TAT TAT TAT TGT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
457434 TAT TAT TAT TAT CAT TTT TAC TAT TAT TAG TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
457468 GGTATTATTG
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 69 1.00
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:466810 original size:18 final size:19
Alignment explanation
Indices: 466789--466831 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
466779 TTAAATATAA
* *
466789 AAAATGTTATTTTTAA-AT
1 AAAATGTTATCTTAAAGAT
466807 AAAA-GTTATCTTAAAGAT
1 AAAATGTTATCTTAAAGAT
466825 AAAATGT
1 AAAATGT
466832 GAAATTGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 9 0.43
18 10 0.48
19 2 0.10
ACGTcount: A:0.49, C:0.02, G:0.09, T:0.40
Consensus pattern (19 bp):
AAAATGTTATCTTAAAGAT
Found at i:473042 original size:3 final size:3
Alignment explanation
Indices: 473029--473137 Score: 86
Period size: 3 Copynumber: 36.7 Consensus size: 3
473019 TTATTTGCTC
*
473029 ATT ATT A-T ATT ATT A-T ATT -TT ATT ATT AGCTT ATT ATT ATT ATG
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A--TT ATT ATT ATT ATT
* *
473073 GTT ATT ATT ATT ATT ACT ATT ATT AATT ATT ATT AGTT -TT ATT -TT
1 ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT A-TT ATT ATT ATT
* *
473118 CTT -TT ATTT ATT ACT ATT AT
1 ATT ATT A-TT ATT ATT ATT AT
473138 ACTAATACAT
Statistics
Matches: 87, Mismatches: 8, Indels: 22
0.74 0.07 0.19
Matches are distributed among these distances:
2 12 0.14
3 64 0.74
4 8 0.09
5 3 0.03
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:476523 original size:5 final size:5
Alignment explanation
Indices: 476497--476554 Score: 62
Period size: 5 Copynumber: 10.8 Consensus size: 5
476487 ATGTGTTAAA
* *
476497 ATATAT ATATT AAATT ATTATT ATATT ATAGT ATATT ATATTAT ATATT
1 ATAT-T ATATT ATATT A-TATT ATATT ATATT ATATT ATA-T-T ATATT
476546 ATATT ATAT
1 ATATT ATAT
476555 AAATAAGTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
5 31 0.69
6 10 0.22
7 4 0.09
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (5 bp):
ATATT
Found at i:476533 original size:10 final size:9
Alignment explanation
Indices: 476498--476555 Score: 61
Period size: 8 Copynumber: 6.7 Consensus size: 9
476488 TGTGTTAAAA
476498 TATATATAT
1 TATATATAT
*
476507 TAAAT-TAT
1 TATATATAT
476515 TAT-TATAT
1 TATATATAT
476523 TATAGTATAT
1 TATA-TATAT
476533 TATAT-TA-
1 TATATATAT
476540 TATATTATAT
1 TATA-TATAT
476550 TATATA
1 TATATA
476556 AATAAGTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
7 5 0.12
8 14 0.34
9 9 0.22
10 13 0.32
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (9 bp):
TATATATAT
Found at i:476545 original size:12 final size:12
Alignment explanation
Indices: 476500--476555 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
476490 TGTTAAAATA
*
476500 TATATATTAAAT
1 TATATATTATAT
476512 TAT-TATTATATT
1 TATATATTATA-T
476524 ATAGTATATTATAT
1 -TA-TATATTATAT
476538 TATATATTATAT
1 TATATATTATAT
476550 TATATA
1 TATATA
476556 AATAAGTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 6 0.15
12 20 0.51
13 4 0.10
14 2 0.05
15 7 0.18
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (12 bp):
TATATATTATAT
Found at i:477892 original size:18 final size:19
Alignment explanation
Indices: 477869--477907 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
477859 ATATATAGAT
477869 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
477887 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
477906 AT
1 AT
477908 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:478257 original size:39 final size:39
Alignment explanation
Indices: 478147--478281 Score: 112
Period size: 39 Copynumber: 3.4 Consensus size: 39
478137 GACCTCGAGT
* * * *
478147 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-AATATTACTTCGGCTAG-TC
** ** * *
478188 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
* *
478226 CGATGAGACACTGGGTGTCAAATATTGCTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAAATATTACTTCG-GCTAGTC
*
478265 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
478282 CCATATTGGT
Statistics
Matches: 73, Mismatches: 19, Indels: 6
0.74 0.19 0.06
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
Found at i:478425 original size:18 final size:19
Alignment explanation
Indices: 478404--478444 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
478394 AATGAAATGA
478404 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
478422 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
478441 GAAA
1 GAAA
478445 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:489222 original size:127 final size:128
Alignment explanation
Indices: 489060--489339 Score: 410
Period size: 127 Copynumber: 2.2 Consensus size: 128
489050 TGAAGATGGC
*
489060 GATCTTATCTCCCTGAGATTAACAGCGGAGCAGATTGAAAGATAGTA-ATCTATCTCCCTGATAT
1 GATCTTATCTCCCTGAGATT-ACAGCGGAGCAGATTG-AAGATAGTACACCTA--TCCCTGATAT
* * * *
489124 TATAGTGGAGC-G-ATAAACGAAGGATCTTT-TGTCTTTGAAAGTTACAGTAGTAGTAGA-TCGT
62 TACAGTGGAGCGGAATAAAAGAAGGAT-TTTATCTCTCTGAAAGTTACAGTAG-AGTAGATTCGT
489185 TTCA
125 TTCA
489189 GATCTTAT-TCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTACACCTATCCCTGATATTACA
1 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTACACCTATCCCTGATATTACA
*
489253 GTGGAGCGGAATAAAAGAAGGATTTTATCTCTCTGAACGTTACAGTAGAGTAGATTCGTTTCA
66 GTGGAGCGGAATAAAAGAAGGATTTTATCTCTCTGAAAGTTACAGTAGAGTAGATTCGTTTCA
489316 GATCTTATCTCCCTGAGATTACAG
1 GATCTTATCTCCCTGAGATTACAG
489340 TGAAGCGGAT
Statistics
Matches: 139, Mismatches: 6, Indels: 13
0.88 0.04 0.08
Matches are distributed among these distances:
125 20 0.14
126 19 0.14
127 66 0.47
128 26 0.19
129 8 0.06
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (128 bp):
GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTACACCTATCCCTGATATTACA
GTGGAGCGGAATAAAAGAAGGATTTTATCTCTCTGAAAGTTACAGTAGAGTAGATTCGTTTCA
Found at i:489354 original size:86 final size:83
Alignment explanation
Indices: 489239--489425 Score: 225
Period size: 86 Copynumber: 2.2 Consensus size: 83
489229 AGTACACCTA
* * *
489239 TCCCTGATATTACAGTGGAGCGGAATAAAA-G-AAGGATTTTATCTCTCTGAACGTTACAGTAGA
1 TCCCTGAGATTACAGTGAAGCGGAATAAAATGAAAGGA-TTTATCTCTCTGAA-GTTA-AGCAGA
*
489302 GTAGATTCGTTTCAGATCTTATC
63 GTAGA-TCG-TGCAGATCTTATC
* *
489325 TCCCTGAGATTACAGTGAAGCGGATTAAAATGAAAGGATTTATCTTTCTGAAGTTAAGCAGAGTA
1 TCCCTGAGATTACAGTGAAGCGGAATAAAATGAAAGGATTTATCTCTCTGAAGTTAAGCAGAGTA
* *
489390 GATCGTGCAGGTCTTATT
66 GATCGTGCAGATCTTATC
*
489408 TCTCTGAGATTAACAGTG
1 TCCCTGAGATT-ACAGTG
489426 GGTAGACTGA
Statistics
Matches: 89, Mismatches: 9, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
83 20 0.22
84 9 0.10
85 10 0.11
86 31 0.35
87 14 0.16
88 5 0.06
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.32
Consensus pattern (83 bp):
TCCCTGAGATTACAGTGAAGCGGAATAAAATGAAAGGATTTATCTCTCTGAAGTTAAGCAGAGTA
GATCGTGCAGATCTTATC
Found at i:490947 original size:3 final size:3
Alignment explanation
Indices: 490934--491043 Score: 77
Period size: 3 Copynumber: 36.7 Consensus size: 3
490924 TTATTTGCTC
*
490934 ATT ATT A-T ATT ATT A-T ATT -TT ATT ATT AGCTT ATT ATT ATT ATG
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A--TT ATT ATT ATT ATT
* * *
490978 GTT TTT ATT ATT ATT ACT ATT ATT AATT ATT ATT AGTT -TT ATT -TT
1 ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT A-TT ATT ATT ATT
* * *
491023 CTT TTT ATTT ATT ACT ATT AT
1 ATT ATT A-TT ATT ATT ATT AT
491044 ACATAATACA
Statistics
Matches: 86, Mismatches: 11, Indels: 20
0.74 0.09 0.17
Matches are distributed among these distances:
2 10 0.12
3 65 0.76
4 8 0.09
5 3 0.03
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:494854 original size:20 final size:21
Alignment explanation
Indices: 494831--494878 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
494821 TATTTTATTT
* *
494831 AAATATATTATA-AATAATCA
1 AAATATATCATATAATAATAA
*
494851 AAAT-TATCATATTATAATAA
1 AAATATATCATATAATAATAA
494871 AAATATAT
1 AAATATAT
494879 ATTAAAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 6 0.26
20 14 0.61
21 3 0.13
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (21 bp):
AAATATATCATATAATAATAA
Found at i:494882 original size:18 final size:19
Alignment explanation
Indices: 494844--494887 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
494834 TATATTATAA
*
494844 ATAATCAAAATTATCATATT
1 ATAAT-AAAAATATCATATT
494864 ATAATAAAAATAT-ATATT
1 ATAATAAAAATATCATATT
*
494882 AAAATA
1 ATAATA
494888 TATATTAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 10 0.45
19 7 0.32
20 5 0.23
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (19 bp):
ATAATAAAAATATCATATT
Found at i:494887 original size:12 final size:12
Alignment explanation
Indices: 494870--494895 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
494860 TATTATAATA
494870 AAAATATATATT
1 AAAATATATATT
494882 AAAATATATATT
1 AAAATATATATT
494894 AA
1 AA
494896 TATAACATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
AAAATATATATT
Found at i:502116 original size:18 final size:18
Alignment explanation
Indices: 502084--502148 Score: 85
Period size: 18 Copynumber: 3.4 Consensus size: 18
502074 TTATAACTAT
*
502084 TTATATATATCTTTATATC
1 TTAT-TATATATTTATATC
502103 TTATTATATATTTATATC
1 TTATTATATATTTATATC
502121 TTATTATATATCTATATATC
1 TTATTATATAT-T-TATATC
*
502141 TTTTTATA
1 TTATTATA
502149 AACATATTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
18 24 0.57
19 5 0.12
20 13 0.31
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (18 bp):
TTATTATATATTTATATC
Found at i:502326 original size:30 final size:30
Alignment explanation
Indices: 502269--502324 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
502259 TTATATATAC
*
502269 ATATACATACTTACATTGTTTTATTTTACG
1 ATATACATACTTACATTCTTTTATTTTACG
*
502299 ATATACATACTTATA-TCTTTTATTTT
1 ATATACATACTTACATTCTTTTATTTT
502325 TATGTAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 10 0.42
30 14 0.58
ACGTcount: A:0.30, C:0.12, G:0.04, T:0.54
Consensus pattern (30 bp):
ATATACATACTTACATTCTTTTATTTTACG
Found at i:502394 original size:29 final size:29
Alignment explanation
Indices: 502362--502440 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 29
502352 ACCCATTTTT
*
502362 TATATATATACATATTTATAC-TTTTATA
1 TATATATATACATATTTATACGTGTTATA
*
502390 -ATATATATACATATGTACATACGTGTTATA
1 TATATATATACATAT-T-TATACGTGTTATA
* *
502420 TATATATACACATACTTATAC
1 TATATATATACATATTTATAC
502441 ATATTATTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
27 14 0.33
28 1 0.02
29 8 0.19
30 7 0.17
31 12 0.29
ACGTcount: A:0.41, C:0.11, G:0.04, T:0.44
Consensus pattern (29 bp):
TATATATATACATATTTATACGTGTTATA
Found at i:502447 original size:29 final size:27
Alignment explanation
Indices: 502362--502453 Score: 78
Period size: 29 Copynumber: 3.2 Consensus size: 27
502352 ACCCATTTTT
*
502362 TATATATATACATATTTATACTTTTATA
1 TATATATATACATA-TTATACTATTATA
*
502390 -ATATATATACATATGTACATACGTGTTATA
1 TATATATATACATAT-T--ATAC-TATTATA
* *
502420 TATATATACACATACTTATACATATTATT
1 TATATATATACATA-TTATAC-TATTATA
502449 TATAT
1 TATAT
502454 TTCAAAATCT
Statistics
Matches: 53, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
26 1 0.02
27 14 0.26
29 18 0.34
30 6 0.11
31 13 0.25
32 1 0.02
ACGTcount: A:0.40, C:0.10, G:0.03, T:0.47
Consensus pattern (27 bp):
TATATATATACATATTATACTATTATA
Found at i:506830 original size:7 final size:8
Alignment explanation
Indices: 506809--506838 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
506799 TCTCATGAAT
506809 TCAAAAAA
1 TCAAAAAA
506817 TCAAAAAA
1 TCAAAAAA
506825 TCAAAAAAA
1 TC-AAAAAA
506834 TCAAA
1 TCAAA
506839 GTCAAAATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.73, C:0.13, G:0.00, T:0.13
Consensus pattern (8 bp):
TCAAAAAA
Found at i:509115 original size:88 final size:88
Alignment explanation
Indices: 508966--509660 Score: 1166
Period size: 88 Copynumber: 7.9 Consensus size: 88
508956 CAATGAAGTT
*
508966 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
509031 TGTGATGGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
509054 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
509119 TGTGATGGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
509142 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
509207 TGTGATGGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
509230 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
509295 TGTGATGGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
509318 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
509383 TGTGATGGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
509406 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
*
509471 TGTGATAGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
* * * * *
509494 AAAGATCTTGCCTTCCTGCATTGACAGTGAAGCAGGTCGAAGACAAAAACCTTGCCTCTCTCGGT
1 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
*
509559 TGT-AGTGGAGCTGGTTAAAGA-A
66 TGTGA-TGGAGCTGGTTGAAGACA
** * * * * * **
509581 GCAGATCTTACCTTCCTGCATTAACAGCAAAGCAGATC-AA-AAACAAAGCCTTGCCTCCATCGG
1 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAA-CCTTGCCTCTTTCGG
*
509644 TTG-CATTGGAGCTGGTT
65 TTGTGA-TGGAGCTGGTT
509661 AAAGGTTACA
Statistics
Matches: 583, Mismatches: 21, Indels: 8
0.95 0.03 0.01
Matches are distributed among these distances:
85 5 0.01
86 30 0.05
87 33 0.06
88 515 0.88
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (88 bp):
AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
TGTGATGGAGCTGGTTGAAGACA
Found at i:511281 original size:18 final size:18
Alignment explanation
Indices: 511249--511313 Score: 85
Period size: 18 Copynumber: 3.4 Consensus size: 18
511239 ATTATAACTA
*
511249 TTATATATATCTTTATATC
1 TTAT-TATATATTTATATC
511268 TTATTATATATTTATATC
1 TTATTATATATTTATATC
511286 TTATTATATATCTATATATC
1 TTATTATATAT-T-TATATC
*
511306 TTTTTATA
1 TTATTATA
511314 AACATATTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
18 24 0.57
19 5 0.12
20 13 0.31
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (18 bp):
TTATTATATATTTATATC
Found at i:511301 original size:26 final size:26
Alignment explanation
Indices: 511234--511304 Score: 67
Period size: 26 Copynumber: 2.7 Consensus size: 26
511224 ATTTGTCCTA
*
511234 TTATTATTATAACTAT-TATATATATC
1 TTATTA-TATATCTATATATATATATC
* *
511260 TT-TATATCTTAT-TATATATTTATATC
1 TTAT-TAT-ATATCTATATATATATATC
511286 TTATTATATATCTATATAT
1 TTATTATATATCTATATAT
511305 CTTTTTATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
25 8 0.22
26 27 0.75
27 1 0.03
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.58
Consensus pattern (26 bp):
TTATTATATATCTATATATATATATC
Found at i:511492 original size:30 final size:30
Alignment explanation
Indices: 511420--511492 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 30
511410 TACGTCTATT
* *
511420 TTCTTTTATATATACATATACATACTTACA
1 TTCTTTTATTTTTACATATACATACTTACA
* *
511450 TTGTTTTA-TTTTACGATATACATACTTATA
1 TTCTTTTATTTTTAC-ATATACATACTTACA
511480 -TCTTTTATTTTTA
1 TTCTTTTATTTTTA
511493 TGTAATATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
29 10 0.28
30 26 0.72
ACGTcount: A:0.30, C:0.12, G:0.03, T:0.55
Consensus pattern (30 bp):
TTCTTTTATTTTTACATATACATACTTACA
Found at i:523101 original size:33 final size:33
Alignment explanation
Indices: 523032--523106 Score: 89
Period size: 33 Copynumber: 2.2 Consensus size: 33
523022 AATTTAATCC
* * *
523032 TCTCTCAAATTTCCTCTTAATTTCTTCTAAATTT
1 TCTCTC-AATTTCCTCTAAATTCCTTCTAAAATT
*
523066 TCTCTCAATTTGCTCTCAAATTCCTTC-AAAATT
1 TCTCTCAATTTCCTCT-AAATTCCTTCTAAAATT
523099 TCTCTCAA
1 TCTCTCAA
523107 ATCCATATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
33 22 0.61
34 14 0.39
ACGTcount: A:0.25, C:0.27, G:0.01, T:0.47
Consensus pattern (33 bp):
TCTCTCAATTTCCTCTAAATTCCTTCTAAAATT
Found at i:523108 original size:11 final size:11
Alignment explanation
Indices: 523032--523108 Score: 63
Period size: 11 Copynumber: 6.9 Consensus size: 11
523022 AATTTAATCC
523032 TCTCTCAAATT
1 TCTCTCAAATT
*
523043 TC-CTCTTAATT
1 TCTCTC-AAATT
523054 TCT-TCTAAATTT
1 TCTCTC-AAA-TT
523066 TCTCTC-AATT
1 TCTCTCAAATT
523076 TGCTCTCAAATT
1 T-CTCTCAAATT
*
523088 CCT-TCAAAATT
1 TCTCTC-AAATT
523099 TCTCTCAAAT
1 TCTCTCAAAT
523109 CCATATTTAT
Statistics
Matches: 54, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
10 8 0.15
11 33 0.61
12 11 0.20
13 2 0.04
ACGTcount: A:0.26, C:0.26, G:0.01, T:0.47
Consensus pattern (11 bp):
TCTCTCAAATT
Found at i:523133 original size:51 final size:51
Alignment explanation
Indices: 523070--523167 Score: 135
Period size: 51 Copynumber: 1.9 Consensus size: 51
523060 AAATTTTCTC
523070 TCAATTTGCTCTCAAATTCCT-TCAAAATTTCTCTCAAATCCATATTTATTT
1 TCAATTTGCTCTCAAATTCCTCT-AAAATTTCTCTCAAATCCATATTTATTT
* * * * *
523121 TCAATTTTCTCTCAAGTTCCTCTTAAATTTCTCTTAAATCCCTATTT
1 TCAATTTGCTCTCAAATTCCTCTAAAATTTCTCTCAAATCCATATTT
523168 TTAAATAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
51 40 0.98
52 1 0.02
ACGTcount: A:0.27, C:0.24, G:0.02, T:0.47
Consensus pattern (51 bp):
TCAATTTGCTCTCAAATTCCTCTAAAATTTCTCTCAAATCCATATTTATTT
Found at i:530213 original size:22 final size:21
Alignment explanation
Indices: 530187--530249 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 21
530177 ATATAAATAT
530187 TTTTAAAAATGTAAAAATAAAA
1 TTTT-AAAATGTAAAAATAAAA
* **
530209 TTTTAAAATATATTAATACAAA
1 TTTTAAAATGTAAAAATA-AAA
*
530231 TTTTAAAATGTCAAAATAA
1 TTTTAAAATGTAAAAATAA
530250 TATGTATATT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
21 12 0.36
22 21 0.64
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (21 bp):
TTTTAAAATGTAAAAATAAAA
Found at i:530679 original size:28 final size:30
Alignment explanation
Indices: 530647--530703 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 30
530637 ATTTATAAAA
**
530647 TTTTAAATTAGTAA-TAAT-AAAATTATAC
1 TTTTAAATTAAAAATTAATAAAAATTATAC
*
530675 TTTTAATTTAAAAATTAATAAAAATTATA
1 TTTTAAATTAAAAATTAATAAAAATTATA
530704 AAAATATTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 11 0.46
29 4 0.17
30 9 0.38
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (30 bp):
TTTTAAATTAAAAATTAATAAAAATTATAC
Found at i:535281 original size:28 final size:28
Alignment explanation
Indices: 535225--535281 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
535215 ACACACAGAC
** *
535225 ACACATTCTTACATACATACGTACTTAT
1 ACACATTCTTACATACATACAAACATAT
*
535253 ACACATTCTTACCTACATACAAACATAT
1 ACACATTCTTACATACATACAAACATAT
535281 A
1 A
535282 TGTATATGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.40, C:0.26, G:0.02, T:0.32
Consensus pattern (28 bp):
ACACATTCTTACATACATACAAACATAT
Found at i:546509 original size:33 final size:33
Alignment explanation
Indices: 546426--546518 Score: 132
Period size: 33 Copynumber: 2.8 Consensus size: 33
546416 TTGTTGTGAT
* * * *
546426 GGTGGTGGGTACTGCGGAGGCTGCTGTTGAGCA
1 GGTGGTGGGTATTGCGGTGGCTGTTGCTGAGCA
*
546459 GGTAGTGGGTATTGCGGTGGCTGTTGCTGAGCA
1 GGTGGTGGGTATTGCGGTGGCTGTTGCTGAGCA
*
546492 GGTGGTGGGTATTGCGGTGGTTGTTGC
1 GGTGGTGGGTATTGCGGTGGCTGTTGC
546519 GGCGGGAATT
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 53 1.00
ACGTcount: A:0.10, C:0.12, G:0.48, T:0.30
Consensus pattern (33 bp):
GGTGGTGGGTATTGCGGTGGCTGTTGCTGAGCA
Found at i:561941 original size:52 final size:52
Alignment explanation
Indices: 561863--561969 Score: 214
Period size: 52 Copynumber: 2.1 Consensus size: 52
561853 TTAGAAATCC
561863 ATCTTATCTATTGAAAGACACTAATATATGCAAGTGATGCCTATGAATTTAG
1 ATCTTATCTATTGAAAGACACTAATATATGCAAGTGATGCCTATGAATTTAG
561915 ATCTTATCTATTGAAAGACACTAATATATGCAAGTGATGCCTATGAATTTAG
1 ATCTTATCTATTGAAAGACACTAATATATGCAAGTGATGCCTATGAATTTAG
561967 ATC
1 ATC
561970 CCTCTCCTTA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 55 1.00
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.35
Consensus pattern (52 bp):
ATCTTATCTATTGAAAGACACTAATATATGCAAGTGATGCCTATGAATTTAG
Found at i:572096 original size:35 final size:35
Alignment explanation
Indices: 572057--572130 Score: 148
Period size: 35 Copynumber: 2.1 Consensus size: 35
572047 GTACAAAAAC
572057 CATGCATTTCCATGTGTTTTAGCTTTTGGATTTGG
1 CATGCATTTCCATGTGTTTTAGCTTTTGGATTTGG
572092 CATGCATTTCCATGTGTTTTAGCTTTTGGATTTGG
1 CATGCATTTCCATGTGTTTTAGCTTTTGGATTTGG
572127 CATG
1 CATG
572131 TATCTTGTTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.15, C:0.15, G:0.23, T:0.47
Consensus pattern (35 bp):
CATGCATTTCCATGTGTTTTAGCTTTTGGATTTGG
Found at i:575090 original size:4 final size:4
Alignment explanation
Indices: 575083--575141 Score: 55
Period size: 4 Copynumber: 14.8 Consensus size: 4
575073 TACATACATA
* * * * * *
575083 TATG TATG TATG CATG CATG CATG TATA TATG TAGG TATG CATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
575131 TATG TGTG TAT
1 TATG TATG TAT
575142 ATGTGCTGGT
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
4 45 1.00
ACGTcount: A:0.25, C:0.07, G:0.25, T:0.42
Consensus pattern (4 bp):
TATG
Found at i:575115 original size:24 final size:24
Alignment explanation
Indices: 575087--575133 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
575077 TACATATATG
*
575087 TATGTATGCATGCATGCATGTATA
1 TATGTAGGCATGCATGCATGTATA
* *
575111 TATGTAGGTATGCATGTATGTAT
1 TATGTAGGCATGCATGCATGTAT
575134 GTGTGTATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.40
Consensus pattern (24 bp):
TATGTAGGCATGCATGCATGTATA
Found at i:575121 original size:28 final size:28
Alignment explanation
Indices: 575080--575135 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
575070 ATATACATAC
*
575080 ATATATGTATGTATGCATGCATGCATGT
1 ATATATGTAGGTATGCATGCATGCATGT
* *
575108 ATATATGTAGGTATGCATGTATGTATGT
1 ATATATGTAGGTATGCATGCATGCATGT
575136 GTGTATATGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.29, C:0.07, G:0.23, T:0.41
Consensus pattern (28 bp):
ATATATGTAGGTATGCATGCATGCATGT
Found at i:575135 original size:20 final size:20
Alignment explanation
Indices: 575084--575135 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
575074 ACATACATAT
* *
575084 ATGTATGTATGCATGCATGC
1 ATGTATGTATGTAGGCATGC
* *
575104 ATGTATATATGTAGGTATGC
1 ATGTATGTATGTAGGCATGC
575124 ATGTATGTATGT
1 ATGTATGTATGT
575136 GTGTATATGT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.27, C:0.08, G:0.25, T:0.40
Consensus pattern (20 bp):
ATGTATGTATGTAGGCATGC
Found at i:575141 original size:20 final size:20
Alignment explanation
Indices: 575084--575141 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
575074 ACATACATAT
** *
575084 ATGTATGTATGCATGCATGC
1 ATGTATGTATGTGTGTATGC
*
575104 ATGTATATATGTAG-GTATGC
1 ATGTATGTATGT-GTGTATGC
575124 ATGTATGTATGTGTGTAT
1 ATGTATGTATGTGTGTAT
575142 ATGTGCTGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
19 1 0.03
20 30 0.97
ACGTcount: A:0.26, C:0.07, G:0.26, T:0.41
Consensus pattern (20 bp):
ATGTATGTATGTGTGTATGC
Found at i:586333 original size:24 final size:25
Alignment explanation
Indices: 586306--586352 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
586296 TTTATGAATT
*
586306 TTTATAATTCTTTTTA-AATTTTGA
1 TTTATAATTATTTTTATAATTTTGA
**
586330 TTTATTTTTATTTTTATAATTTT
1 TTTATAATTATTTTTATAATTTT
586353 TAGATTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 13 0.68
25 6 0.32
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (25 bp):
TTTATAATTATTTTTATAATTTTGA
Found at i:589835 original size:22 final size:22
Alignment explanation
Indices: 589777--589827 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
589767 CTTGAACTTG
589777 AACAAAT-ATT-AA-TAATGAA
1 AACAAATAATTAAATTAATGAA
589796 AACAAATAATTAAATTAAT-AA
1 AACAAATAATTAAATTAATGAA
589817 AACAAA-AATTA
1 AACAAATAATTA
589828 TGAATTAACC
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
19 7 0.24
20 8 0.28
21 10 0.34
22 4 0.14
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.25
Consensus pattern (22 bp):
AACAAATAATTAAATTAATGAA
Found at i:590217 original size:18 final size:18
Alignment explanation
Indices: 590194--590236 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
590184 TTAATTTCAA
*
590194 AAATTATAAAATATCAGT
1 AAATTATAAAATATCACT
590212 AAATTATAAAATATCACT
1 AAATTATAAAATATCACT
590230 AAATTAT
1 AAATTAT
590237 TTAAATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.35
Consensus pattern (18 bp):
AAATTATAAAATATCACT
Found at i:607044 original size:19 final size:19
Alignment explanation
Indices: 607020--607056 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
607010 CTTCTACCGT
607020 TTAAAATATATATTAAATA
1 TTAAAATATATATTAAATA
* *
607039 TTAAAATTTATGTTAAAT
1 TTAAAATATATATTAAAT
607057 TCCATTAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (19 bp):
TTAAAATATATATTAAATA
Found at i:607392 original size:14 final size:14
Alignment explanation
Indices: 607375--607413 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
607365 TTTTATTTTT
607375 AATTTATTATTAA-A
1 AATTTATT-TTAATA
607389 AATTTATTTTAATA
1 AATTTATTTTAATA
607403 AATTTAATTTT
1 AATTT-ATTTT
607414 TACTAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 4 0.17
14 14 0.61
15 5 0.22
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
AATTTATTTTAATA
Found at i:607414 original size:16 final size:15
Alignment explanation
Indices: 607375--607420 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
607365 TTTTATTTTT
*
607375 AATTTATTATTAA-A
1 AATTTATTTTTAATA
607389 AATTTA-TTTTAATA
1 AATTTATTTTTAATA
*
607403 AATTTAATTTTTACTA
1 AATTT-ATTTTTAATA
607419 AA
1 AA
607421 AATATTTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 5 0.19
14 12 0.44
15 1 0.04
16 9 0.33
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
AATTTATTTTTAATA
Found at i:607594 original size:96 final size:97
Alignment explanation
Indices: 607486--607797 Score: 391
Period size: 96 Copynumber: 3.2 Consensus size: 97
607476 AATAACTAGT
* * *
607486 TTTATTTGA-TTTTTCCTTAAAAATCCTAAATACTAAA-CTTCAATCTAATTTTTTAAAAATTTA
1 TTTATTTAATTTTTTCCTTAAAAATCCTAAATACTAAACCCT-AATCTAATTTTTTTAAAATTTA
*
607549 TAATTAATTTACTCAAGTAATCCTAAACCCTAA
65 TAATTAATTTACTCAAGTAACCCTAAACCCTAA
* * * *
607582 TTTATTTAATTTTTTCTTTAAAAACCCTAAACACTAAGCCCTAATCT-ATTTTTTTAAAATTTAT
1 TTTATTTAATTTTTTCCTTAAAAATCCTAAATACTAAACCCTAATCTAATTTTTTTAAAATTTAT
607646 AATTAATTTACTCAAGTAACCCTAAACCCTAA
66 AATTAATTTACTCAAGTAACCCTAAACCCTAA
** * * *
607678 TTTATTTAATTTTTTATTTAAAACTCATAAACT-CTAAACCCTAATCTAGTTTTTTTTAAAATTT
1 TTTATTTAATTTTTTCCTTAAAAATCCTAAA-TACTAAACCCTAATCTA-ATTTTTTTAAAATTT
* * * * *
607742 ATAATTAATTTAATTAAGAAACCCTAAACACTTA
64 ATAATTAATTTACTCAAGTAACCCTAAACCCTAA
*
607776 TTTAATTAA-TTTTTCCTTAAAA
1 TTTATTTAATTTTTTCCTTAAAA
607798 CCCTAAAATC
Statistics
Matches: 188, Mismatches: 23, Indels: 9
0.85 0.10 0.04
Matches are distributed among these distances:
96 95 0.51
97 40 0.21
98 53 0.28
ACGTcount: A:0.39, C:0.15, G:0.02, T:0.44
Consensus pattern (97 bp):
TTTATTTAATTTTTTCCTTAAAAATCCTAAATACTAAACCCTAATCTAATTTTTTTAAAATTTAT
AATTAATTTACTCAAGTAACCCTAAACCCTAA
Found at i:614121 original size:149 final size:150
Alignment explanation
Indices: 613849--614128 Score: 427
Period size: 149 Copynumber: 1.9 Consensus size: 150
613839 TGATCCATCT
* * *
613849 TACCAATTGTTGTATTATCGTTTGGAGATCATTAGTCGAACTTAAAAAAGAAACCTTAACAACCC
1 TACCAATTGTCGTATTATCGTTTGGAGATCATTAGCCGAACTTAAAAAAGAAAACTTAACAACCC
* * *
613914 AGTGACTTAAACAAAAACTTTTAAATAGTGCAGTGACCATATTGTAACTTTTTGAAATTGAGTGA
66 AGTGACTTAAACAAAAAATTTTAAATAGTACAGTGACCATATTGTAACTTTTTAAAATTGAGTGA
613979 CCAAAACATAAATTTACTAC
131 CCAAAACATAAATTTACTAC
* * *
613999 TACCAATTGTCGTATTGTCGTTTGGAGATCATTAGCCGAACTTAAAAAA-AAAACTTAATAACTC
1 TACCAATTGTCGTATTATCGTTTGGAGATCATTAGCCGAACTTAAAAAAGAAAACTTAACAACCC
* * * * *
614063 AGTGATTTAAACAAAAAATTTTGAATAGTACTGTGACCATGTTGTATCTTTTTAAAATTGAGTGA
66 AGTGACTTAAACAAAAAATTTTAAATAGTACAGTGACCATATTGTAACTTTTTAAAATTGAGTGA
614128 C
131 C
614129 ACACTAAAAA
Statistics
Matches: 116, Mismatches: 14, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
149 70 0.60
150 46 0.40
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33
Consensus pattern (150 bp):
TACCAATTGTCGTATTATCGTTTGGAGATCATTAGCCGAACTTAAAAAAGAAAACTTAACAACCC
AGTGACTTAAACAAAAAATTTTAAATAGTACAGTGACCATATTGTAACTTTTTAAAATTGAGTGA
CCAAAACATAAATTTACTAC
Found at i:622722 original size:3 final size:3
Alignment explanation
Indices: 622716--622744 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
622706 GGTTATCATC
622716 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
622745 AGAATCCAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:630565 original size:20 final size:20
Alignment explanation
Indices: 630519--630565 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 20
630509 TACTTTTGCC
630519 ATTTATAATATAATATATTTT
1 ATTTA-AATATAATATATTTT
630540 -TGTTAAATATAA-ATATTTAT
1 AT-TTAAATATAATATATTT-T
630560 ATTTAA
1 ATTTAA
630566 TCAAATAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
19 6 0.26
20 13 0.57
21 4 0.17
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (20 bp):
ATTTAAATATAATATATTTT
Found at i:642540 original size:19 final size:20
Alignment explanation
Indices: 642501--642538 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
642491 AATTTACGTT
642501 AAAATATTAATTTAAATTTA
1 AAAATATTAATTTAAATTTA
642521 AAAATA-TAATTTGAAATT
1 AAAATATTAATTT-AAATT
642539 AATTAATCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (20 bp):
AAAATATTAATTTAAATTTA
Found at i:643224 original size:22 final size:24
Alignment explanation
Indices: 643172--643224 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 24
643162 ATTCATCGAC
*
643172 ATTAAAT-TATATATTTTTACTATA
1 ATTAAATATATATATTTTTAC-AAA
643196 ATT-AATATATA-ATTTTTA-AAA
1 ATTAAATATATATATTTTTACAAA
643217 ATTAAATA
1 ATTAAATA
643225 AAAATTTGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 5 0.19
22 4 0.15
23 10 0.38
24 7 0.27
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (24 bp):
ATTAAATATATATATTTTTACAAA
Found at i:648589 original size:9 final size:9
Alignment explanation
Indices: 648575--648616 Score: 57
Period size: 9 Copynumber: 4.3 Consensus size: 9
648565 TTTTAAGAAA
648575 CAACAATAT
1 CAACAATAT
648584 CAACAATAT
1 CAACAATAT
648593 CAAGACAATAAT
1 C-A-ACAAT-AT
648605 CAACAATAT
1 CAACAATAT
648614 CAA
1 CAA
648617 TGTCGCGCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
9 15 0.50
10 6 0.20
11 6 0.20
12 3 0.10
ACGTcount: A:0.57, C:0.21, G:0.02, T:0.19
Consensus pattern (9 bp):
CAACAATAT
Found at i:648608 original size:21 final size:20
Alignment explanation
Indices: 648577--648616 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
648567 TTAAGAAACA
648577 ACAATATCAACAATATCAAG
1 ACAATATCAACAATATCAAG
648597 ACAATAATCAACAATATCAA
1 ACAAT-ATCAACAATATCAA
648617 TGTCGCGCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.57, C:0.20, G:0.03, T:0.20
Consensus pattern (20 bp):
ACAATATCAACAATATCAAG
Found at i:655639 original size:20 final size:21
Alignment explanation
Indices: 655598--655644 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
655588 ATTAAATTAA
655598 ATATTTTAACACAAAATTTTT
1 ATATTTTAACACAAAATTTTT
655619 A-ATTTTATACACAAAA-TTTT
1 ATATTTTA-ACACAAAATTTTT
655639 ATATTT
1 ATATTT
655645 CTTTAGGCAG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (21 bp):
ATATTTTAACACAAAATTTTT
Found at i:674327 original size:21 final size:21
Alignment explanation
Indices: 674293--674347 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 21
674283 TAATTAATAA
674293 TTAAAATATTATAATAGAAA-ATT
1 TTAAAATA--ATAATA-AAATATT
674316 TTAAAATAATAATAAAATTATT
1 TTAAAATAATAATAAAA-TATT
*
674338 TTAACATAAT
1 TTAAAATAAT
674348 TAAATATAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
20 3 0.10
21 6 0.21
22 12 0.41
23 8 0.28
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (21 bp):
TTAAAATAATAATAAAATATT
Found at i:675818 original size:22 final size:23
Alignment explanation
Indices: 675760--675837 Score: 68
Period size: 25 Copynumber: 3.2 Consensus size: 23
675750 AAGAACAATA
* * *
675760 AATAATAAAAGTTTCAAATAAAC
1 AATAATAAAACTTTAAAATAAAT
675783 AATATATAGGAAAAC-TTAAAATAAAT
1 AATA-AT---AAAACTTTAAAATAAAT
675809 AATAATAAAACATTTTAAAATAAAT
1 AATAATAAAAC--TTTAAAATAAAT
675834 AATA
1 AATA
675838 TTATATATAA
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
22 5 0.11
23 4 0.09
24 2 0.04
25 17 0.38
26 13 0.29
27 4 0.09
ACGTcount: A:0.63, C:0.05, G:0.04, T:0.28
Consensus pattern (23 bp):
AATAATAAAACTTTAAAATAAAT
Found at i:675887 original size:44 final size:41
Alignment explanation
Indices: 675803--675894 Score: 98
Period size: 44 Copynumber: 2.2 Consensus size: 41
675793 AAAACTTAAA
* *
675803 ATAAATAATAATAAAACATTTTAAAATAAATAATATTATAT
1 ATAAAAAATAATAAAACATTTTAAAATAAATAATAATATAT
675844 ATAAAAAATAAGTACAAACAGTTTT-AAAT-AATATATAGATATAT
1 ATAAAAAATAA-TA-AAACA-TTTTAAAATAAATA-ATA-ATATAT
*
675888 ATGAAAA
1 ATAAAAA
675895 TTTAAAAGAT
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
41 10 0.23
42 6 0.14
43 12 0.28
44 15 0.35
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.33
Consensus pattern (41 bp):
ATAAAAAATAATAAAACATTTTAAAATAAATAATAATATAT
Found at i:677108 original size:16 final size:16
Alignment explanation
Indices: 677087--677119 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
677077 TTCGTTGTAT
677087 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
*
677103 TGGAATAGAGGTGTAA
1 TGGAATAGAGGCGTAA
677119 T
1 T
677120 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.36, C:0.03, G:0.36, T:0.24
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:677470 original size:120 final size:120
Alignment explanation
Indices: 677334--677660 Score: 627
Period size: 120 Copynumber: 2.7 Consensus size: 120
677324 TTAATCATAT
677334 TTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGA
1 TTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGA
677399 ATTTACTCAAATCATAATATATGATACTATAAAATATAAATTAACATAATTATTA
66 ATTTACTCAAATCATAATATATGATACTATAAAATATAAATTAACATAATTATTA
*
677454 TTAAATATATTATAATTAAAAGATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGA
1 TTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGA
677519 ATTTACTCAAATCATAATATATGATACTATAAAATATAAATTAACATAATTATTA
66 ATTTACTCAAATCATAATATATGATACTATAAAATATAAATTAACATAATTATTA
* *
677574 TTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATAA
1 TTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGA
677639 ATTTACTCAAATCATAATATAT
66 ATTTACTCAAATCATAATATAT
677661 AATTGTTATT
Statistics
Matches: 203, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 203 1.00
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (120 bp):
TTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGA
ATTTACTCAAATCATAATATATGATACTATAAAATATAAATTAACATAATTATTA
Found at i:677606 original size:14 final size:15
Alignment explanation
Indices: 677557--677608 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
677547 ATAAAATATA
677557 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
677572 TATTAAATATATTAT
1 AATTAAATATATTAT
677587 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
677600 AATTTAATA
1 AATTAAATA
677609 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:677661 original size:61 final size:61
Alignment explanation
Indices: 677353--677664 Score: 247
Period size: 61 Copynumber: 5.2 Consensus size: 61
677343 TTATAATTAA
* *
677353 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATAAATTTACTCAAATCAT
* * * * * * *
677414 AATATATGATACT-ATAAAA-T-AT-A-AATTAACATAATTATTAT-TAAATATA-TTATAATTA
1 AATATATAAT-TTAATAAAATTCTTAATAATT-A-AT-ATTCTTATATAAATTTACTCA-AATCA
*
677472 A
61 T
* * *
677473 AAGATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATAAATTTACTCAAATCAT
* * * * * * *
677534 AATATATGATACT-ATAAAA-T-AT-A-AATTAACATAATTATTAT-TAAATATA-TTATAATTA
1 AATATATAAT-TTAATAAAATTCTTAATAATT-A-AT-ATTCTTATATAAATTTACTCA-AATCA
*
677592 A
61 T
677593 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATAAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATAAATTTACTCAAATCAT
677654 AATATATAATT
1 AATATATAATT
677665 GTTATTGCTT
Statistics
Matches: 187, Mismatches: 40, Indels: 48
0.68 0.15 0.17
Matches are distributed among these distances:
57 6 0.03
58 10 0.05
59 55 0.29
60 32 0.17
61 67 0.36
62 10 0.05
63 7 0.04
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.42
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATAAATTTACTCAAATCAT
Found at i:678485 original size:15 final size:15
Alignment explanation
Indices: 678465--678495 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
678455 ATCTGAGGAA
678465 AAGCAAGTCAAATGC
1 AAGCAAGTCAAATGC
678480 AAGCAAGTCAAATGC
1 AAGCAAGTCAAATGC
678495 A
1 A
678496 TAAGGAATGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.19, G:0.19, T:0.13
Consensus pattern (15 bp):
AAGCAAGTCAAATGC
Found at i:680089 original size:15 final size:15
Alignment explanation
Indices: 680066--680106 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
680056 TGAGCAATAC
680066 AAACATACAAAACAG
1 AAACATACAAAACAG
*
680081 AACCATACAAAACAG
1 AAACATACAAAACAG
680096 AAACA-ACAAAA
1 AAACATACAAAA
680107 GCTGCTACAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 6 0.25
15 18 0.75
ACGTcount: A:0.68, C:0.22, G:0.05, T:0.05
Consensus pattern (15 bp):
AAACATACAAAACAG
Found at i:687689 original size:30 final size:32
Alignment explanation
Indices: 687654--687716 Score: 85
Period size: 30 Copynumber: 2.0 Consensus size: 32
687644 TTTAGCCCCA
*
687654 TTAAAAATGATAAAAATTT-AATTTA-ATTTT
1 TTAAAAATGATAAAAATTTGAAATTACATTTT
* *
687684 TTAAAAATTATAAAATTTTGAAATTACATTTT
1 TTAAAAATGATAAAAATTTGAAATTACATTTT
687716 T
1 T
687717 ACTATCCTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 17 0.61
31 5 0.18
32 6 0.21
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.48
Consensus pattern (32 bp):
TTAAAAATGATAAAAATTTGAAATTACATTTT
Found at i:701245 original size:9 final size:9
Alignment explanation
Indices: 701231--701315 Score: 93
Period size: 9 Copynumber: 9.4 Consensus size: 9
701221 GTAGTGATTC
701231 AATTCGGTT
1 AATTCGGTT
*
701240 AATTCGGGT
1 AATTCGGTT
*
701249 AATTCAAG-T
1 AATTC-GGTT
701258 AATTCGGTT
1 AATTCGGTT
701267 AATTCAGG-T
1 AATTC-GGTT
*
701276 AATTCGGTA
1 AATTCGGTT
*
701285 AATTTGGTT
1 AATTCGGTT
*
701294 AATTCGATT
1 AATTCGGTT
701303 AATTCGGTT
1 AATTCGGTT
701312 AATT
1 AATT
701316 TTTAACCAAA
Statistics
Matches: 63, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
8 3 0.05
9 57 0.90
10 3 0.05
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.41
Consensus pattern (9 bp):
AATTCGGTT
Found at i:705973 original size:6 final size:7
Alignment explanation
Indices: 705947--705972 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
705937 GATCAATTAA
705947 TAAAAAT
1 TAAAAAT
705954 TAAAAAT
1 TAAAAAT
705961 TAAAAAT
1 TAAAAAT
705968 TAAAA
1 TAAAA
705973 TAATTTCTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
TAAAAAT
Found at i:713170 original size:14 final size:14
Alignment explanation
Indices: 713149--713182 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
713139 TGGTATGGGT
713149 TTAT-GGGTTTTGG
1 TTATAGGGTTTTGG
713162 TTATAGGGTTTTGG
1 TTATAGGGTTTTGG
713176 TTATAGG
1 TTATAGG
713183 CAAATGATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.15, C:0.00, G:0.35, T:0.50
Consensus pattern (14 bp):
TTATAGGGTTTTGG
Found at i:726845 original size:20 final size:20
Alignment explanation
Indices: 726820--726869 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
726810 TGGCTTAAAA
726820 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
726840 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
726857 GTGGTAGTGGATT
1 TTGGTAGTGGATT
726870 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:731484 original size:20 final size:20
Alignment explanation
Indices: 731459--731508 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
731449 TGGCTTAAAA
731459 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
731479 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
731496 GTGGTAGTGGATT
1 TTGGTAGTGGATT
731509 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:751662 original size:6 final size:6
Alignment explanation
Indices: 751651--751675 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
751641 CGAGGAAGAA
751651 GGAGAT GGAGAT GGAGAT GGAGAT G
1 GGAGAT GGAGAT GGAGAT GGAGAT G
751676 AAGGGAAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.52, T:0.16
Consensus pattern (6 bp):
GGAGAT
Found at i:760787 original size:22 final size:22
Alignment explanation
Indices: 760759--760802 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
760749 AAGGCATATT
760759 ATTAAGCAGTTAGTATCAAGCA
1 ATTAAGCAGTTAGTATCAAGCA
*
760781 ATTAAGCAGTTAGTATTAAGCA
1 ATTAAGCAGTTAGTATCAAGCA
760803 GTTAGAAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.41, C:0.11, G:0.18, T:0.30
Consensus pattern (22 bp):
ATTAAGCAGTTAGTATCAAGCA
Found at i:760798 original size:14 final size:14
Alignment explanation
Indices: 760781--760807 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
760771 GTATCAAGCA
760781 ATTAAGCAGTTAGT
1 ATTAAGCAGTTAGT
760795 ATTAAGCAGTTAG
1 ATTAAGCAGTTAG
760808 AAAGTTGTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.33
Consensus pattern (14 bp):
ATTAAGCAGTTAGT
Found at i:764117 original size:21 final size:20
Alignment explanation
Indices: 764087--764130 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
764077 CGAAGATATT
*
764087 TTTATTTTTATATAAAATATAA
1 TTTATTTTTAAAT-AAATA-AA
764109 TTTA-TTTTAAATAAATAAA
1 TTTATTTTTAAATAAATAAA
764128 TTT
1 TTT
764131 TCATTTCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 5 0.24
20 5 0.24
21 7 0.33
22 4 0.19
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTATTTTTAAATAAATAAA
Found at i:764701 original size:21 final size:21
Alignment explanation
Indices: 764659--764702 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
764649 TATTGTAATT
* *
764659 AATTTTTAAATTTATTATTCA
1 AATTGTTAAATTGATTATTCA
764680 AATTGTTAAATATGATTA-TCA
1 AATTGTTAAAT-TGATTATTCA
764701 AA
1 AA
764703 CACCATATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.48
Consensus pattern (21 bp):
AATTGTTAAATTGATTATTCA
Found at i:766464 original size:21 final size:21
Alignment explanation
Indices: 766435--766474 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
766425 AAAGTACAGA
*
766435 GACTTAATTAAATAAGTAGGG
1 GACTAAATTAAATAAGTAGGG
* *
766456 GACTAAATTGAATATGTAG
1 GACTAAATTAAATAAGTAG
766475 CACAATTTAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.42, C:0.05, G:0.23, T:0.30
Consensus pattern (21 bp):
GACTAAATTAAATAAGTAGGG
Found at i:769865 original size:17 final size:17
Alignment explanation
Indices: 769816--769866 Score: 75
Period size: 17 Copynumber: 3.0 Consensus size: 17
769806 ATGTGGCATG
*
769816 TACCTAAGTAATGTACA
1 TACCTAAGTAATGTATA
*
769833 TACCTAGGTAATGTATA
1 TACCTAAGTAATGTATA
*
769850 TACCTAAGTGATGTATA
1 TACCTAAGTAATGTATA
769867 GGGATTAGTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (17 bp):
TACCTAAGTAATGTATA
Found at i:773191 original size:19 final size:18
Alignment explanation
Indices: 773148--773185 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
773138 ATATATTATG
*
773148 ATTTTAGTAAATTCATAT
1 ATTTTATTAAATTCATAT
773166 ATTTTATTAAATT-ATAT
1 ATTTTATTAAATTCATAT
773183 ATT
1 ATT
773186 ATTTATATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (18 bp):
ATTTTATTAAATTCATAT
Found at i:773337 original size:39 final size:40
Alignment explanation
Indices: 773292--773396 Score: 122
Period size: 44 Copynumber: 2.5 Consensus size: 40
773282 TTTCCTTATG
* *
773292 CTATTACACCTCTATTCCATTCAACCAAACACAAGAATAC
1 CTATTACGCCTCTATTCCATTCAACCAAACAAAAGAATAC
* *
773332 C-ATTACGCCTCTATTCCATTACATTCAACCAAATAAAAGATTAC
1 CTATTACGCCTCTATT-C----CATTCAACCAAACAAAAGAATAC
773376 CTATTACGCCTCTATTCCATT
1 CTATTACGCCTCTATTCCATT
773397 ACGCATCTAT
Statistics
Matches: 55, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
39 13 0.24
40 6 0.11
44 22 0.40
45 14 0.25
ACGTcount: A:0.35, C:0.30, G:0.04, T:0.30
Consensus pattern (40 bp):
CTATTACGCCTCTATTCCATTCAACCAAACAAAAGAATAC
Found at i:773389 original size:45 final size:44
Alignment explanation
Indices: 773309--773398 Score: 144
Period size: 44 Copynumber: 2.0 Consensus size: 44
773299 ACCTCTATTC
*
773309 CATTCAACCAAACACAAGAATACCATTACGCCTCTATTCCATTA
1 CATTCAACCAAACAAAAGAATACCATTACGCCTCTATTCCATTA
* *
773353 CATTCAACCAAATAAAAGATTACCTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACAAAAGAATACC-ATTACGCCTCTATTCCATTA
773398 C
1 C
773399 GCATCTATTC
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 21 0.50
45 21 0.50
ACGTcount: A:0.38, C:0.30, G:0.04, T:0.28
Consensus pattern (44 bp):
CATTCAACCAAACAAAAGAATACCATTACGCCTCTATTCCATTA
Found at i:773399 original size:16 final size:16
Alignment explanation
Indices: 773378--773414 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
773368 AAGATTACCT
*
773378 ATTACGCCTCTATTCC
1 ATTACGCATCTATTCC
773394 ATTACGCATCTATTCC
1 ATTACGCATCTATTCC
773410 ATTAC
1 ATTAC
773415 AGCCAACCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.24, C:0.32, G:0.05, T:0.38
Consensus pattern (16 bp):
ATTACGCATCTATTCC
Found at i:773577 original size:20 final size:20
Alignment explanation
Indices: 773552--773590 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
773542 AAATTAAAGT
* *
773552 AAAATGAGATTGAAATGAAG
1 AAAATGAAATTCAAATGAAG
773572 AAAATGAAATTCAAATGAA
1 AAAATGAAATTCAAATGAA
773591 ATTTAAAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.59, C:0.03, G:0.18, T:0.21
Consensus pattern (20 bp):
AAAATGAAATTCAAATGAAG
Found at i:774513 original size:90 final size:88
Alignment explanation
Indices: 774346--774683 Score: 367
Period size: 90 Copynumber: 3.8 Consensus size: 88
774336 TAGAAAAATT
* * ** ** *
774346 AATAATACACAAC-AAATTAAATTTACA-ATACAAGAAAATACAAACATTTTTGAAGATTAATAC
1 AATAATAC-GAACTAAATTAAATTTACAGACACAA-AAAATACAAACATGATAAAAAATTAATAC
774409 ACGAAAATATAAAATTCAAACAACA
64 ACGAAAATATAAAATTCAAACAACA
* * *
774434 AATAATACGAACTAAATTAAATTTACAGACCCAACAAAATACAAATA-GATAGGTAAAATTAATA
1 AATAATACGAACTAAATTAAATTTACAGACACAA-AAAATACAAACATGATA--AAAAATTAATA
* *
774498 CACGAAAATTTAAAATTCAAACTACA
63 CACGAAAATATAAAATTCAAACAACA
* * **
774524 AATAATACGAGCTAAATTAAATTTATAGATACAACAAAAAAATACAAACATTCTAAAAAATTAAT
1 AATAATACGAACTAAATTAAATTTACAG--AC-AC-AAAAAATACAAACATGATAAAAAATTAAT
*
774589 ACACGAAAATATAAAATTGAAACAACA
62 ACACGAAAATATAAAATTCAAACAACA
** * ** *
774616 AATAATACCTACTAAATTAAATTTACAGATACAAAAAATACAAACATTCTAAAGAATTAATACAC
1 AATAATACGAACTAAATTAAATTTACAGACACAAAAAATACAAACATGATAAAAAATTAATACAC
774681 GAA
66 GAA
774684 TTTAATTTAT
Statistics
Matches: 213, Mismatches: 28, Indels: 18
0.82 0.11 0.07
Matches are distributed among these distances:
87 3 0.01
88 58 0.27
89 17 0.08
90 60 0.28
92 59 0.28
93 12 0.06
94 4 0.02
ACGTcount: A:0.57, C:0.14, G:0.05, T:0.24
Consensus pattern (88 bp):
AATAATACGAACTAAATTAAATTTACAGACACAAAAAATACAAACATGATAAAAAATTAATACAC
GAAAATATAAAATTCAAACAACA
Found at i:774623 original size:92 final size:90
Alignment explanation
Indices: 774359--774683 Score: 380
Period size: 92 Copynumber: 3.6 Consensus size: 90
774349 AATACACAAC
* * ** *
774359 AAATTAAATTTACA-AT--ACAAGAAAATACAAACATTTTTGAAGATTAATACACGAAAATATAA
1 AAATTAAATTTACAGATACACAAAAAAATACAAACATTCTAAAAAATTAATACACGAAAATATAA
774421 AATTCAAACAACAAATAATACGAACT
66 AATTCAAACAACAAATAATACG-ACT
* * * ** * *
774447 AAATTAAATTTACAG--ACCCAACAAAATACAAATA-GATAGGTAAAATTAATACACGAAAATTT
1 AAATTAAATTTACAGATACACAAAAAAATACAAACATTCTA--AAAAATTAATACACGAAAATAT
*
774509 AAAATTCAAACTACAAATAATACGAGCT
64 AAAATTCAAACAACAAATAATACGA-CT
*
774537 AAATTAAATTTATAGATACAACAAAAAAATACAAACATTCTAAAAAATTAATACACGAAAATATA
1 AAATTAAATTTACAGATAC-ACAAAAAAATACAAACATTCTAAAAAATTAATACACGAAAATATA
* *
774602 AAATTGAAACAACAAATAATACCTACT
65 AAATTCAAACAACAAATAATA-CGACT
*
774629 AAATTAAATTTACAGAT--AC-AAAAAATACAAACATTCTAAAGAATTAATACACGAA
1 AAATTAAATTTACAGATACACAAAAAAATACAAACATTCTAAAAAATTAATACACGAA
774684 TTTAATTTAT
Statistics
Matches: 203, Mismatches: 23, Indels: 22
0.82 0.09 0.09
Matches are distributed among these distances:
88 50 0.25
89 17 0.08
90 58 0.29
92 60 0.30
93 16 0.08
94 2 0.01
ACGTcount: A:0.57, C:0.13, G:0.06, T:0.24
Consensus pattern (90 bp):
AAATTAAATTTACAGATACACAAAAAAATACAAACATTCTAAAAAATTAATACACGAAAATATAA
AATTCAAACAACAAATAATACGACT
Found at i:778261 original size:18 final size:17
Alignment explanation
Indices: 778228--778266 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
778218 TTTTATAAAT
778228 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
778246 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
778263 TGTG
1 TGTG
778267 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:778519 original size:23 final size:22
Alignment explanation
Indices: 778492--778567 Score: 107
Period size: 23 Copynumber: 3.3 Consensus size: 22
778482 AGTGTTTTTG
778492 ATCAGTGGTAGCTTCGACTACAT
1 ATCAGTGGTAGCTTCG-CTACAT
* *
778515 TTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTC-GCTACAT
778538 ATCAGTGGTAGCTTCCGCTACAT
1 ATCAGTGGTAGCTT-CGCTACAT
778561 ATCAGTG
1 ATCAGTG
778568 TGGCACTTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
23 45 0.96
24 2 0.04
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (22 bp):
ATCAGTGGTAGCTTCGCTACAT
Found at i:789747 original size:31 final size:31
Alignment explanation
Indices: 789705--789785 Score: 89
Period size: 31 Copynumber: 2.7 Consensus size: 31
789695 GGCCCATATT
789705 TATTTTAAAAAT-TTTAAAAAAGTAAAAAAAA
1 TATTTTAAAAATATTT-AAAAAGTAAAAAAAA
* * *
789736 TATTTTCAAAATATTTTAAAATTAAAAAAAA
1 TATTTTAAAAATATTTAAAAAGTAAAAAAAA
789767 -A--TTAAAAATATTTTAAAAA
1 TATTTTAAAAATA-TTTAAAAA
789786 TATTTTAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
28 8 0.19
29 7 0.16
30 1 0.02
31 24 0.56
32 3 0.07
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (31 bp):
TATTTTAAAAATATTTAAAAAGTAAAAAAAA
Found at i:789765 original size:41 final size:40
Alignment explanation
Indices: 789705--789890 Score: 232
Period size: 41 Copynumber: 4.6 Consensus size: 40
789695 GGCCCATATT
* * *
789705 TATTTTAAAAATTTTAAAAAAGTAAAAAAAATATTTTCAAAA
1 TATTTT-AAAA-TTAAAAAAAATAAAAAAAATATTTTAAAAA
**
789747 TATTTTAAAATTAAAAAAAA-ATTAAAAATATTTTAAAAA
1 TATTTTAAAATTAAAAAAAATAAAAAAAATATTTTAAAAA
*
789786 TATTTTAAAATTAAAAAAAATTAAAAAAAGTATTTTAAAAA
1 TATTTTAAAATTAAAAAAAA-TAAAAAAAATATTTTAAAAA
* * * *
789827 TATTTTAAAATTTAAAAAAAATTAAAAAAGTATGTAAAAAA
1 TATTTTAAAA-TTAAAAAAAATAAAAAAAATATTTTAAAAA
789868 TATTTTAAAATT-AAAAAAATAAA
1 TATTTTAAAATTAAAAAAAATAAA
789891 TATATTTATT
Statistics
Matches: 129, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
39 46 0.36
40 10 0.08
41 57 0.44
42 16 0.12
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (40 bp):
TATTTTAAAATTAAAAAAAATAAAAAAAATATTTTAAAAA
Found at i:789877 original size:11 final size:11
Alignment explanation
Indices: 789731--789836 Score: 68
Period size: 11 Copynumber: 10.4 Consensus size: 11
789721 AAAAAGTAAA
789731 AAAAATATTTT
1 AAAAATATTTT
*
789742 CAAAATATTTT
1 AAAAATATTTT
789753 --AAA-A--TT
1 AAAAATATTTT
* **
789759 AAAAAAAAATT
1 AAAAATATTTT
789770 AAAAATATTTT
1 AAAAATATTTT
789781 AAAAATATTTT
1 AAAAATATTTT
*
789792 --AAA-A-TTA
1 AAAAATATTTT
* **
789799 AAAAAAATTAA
1 AAAAATATTTT
789810 AAAAAGTATTTT
1 AAAAA-TATTTT
789822 AAAAATATTTT
1 AAAAATATTTT
789833 AAAA
1 AAAA
789837 TTTAAAAAAA
Statistics
Matches: 76, Mismatches: 9, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
6 2 0.03
7 2 0.03
8 5 0.07
9 10 0.13
10 1 0.01
11 48 0.63
12 8 0.11
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:800704 original size:40 final size:40
Alignment explanation
Indices: 800642--800736 Score: 145
Period size: 40 Copynumber: 2.3 Consensus size: 40
800632 CTTTTCTTTC
* *
800642 TTTCTTTCCTTCCTTCCTTCTCTGTTTCGTTTTGCTCTCTG
1 TTTCTTT-CTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
*
800683 TTTCTTTCTTTCTCCCTTCTCTGTTTTGTTTTGCTCTCTG
1 TTTCTTTCTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
800723 TTTCTTTTCTTTCT
1 TTTC-TTTCTTTCT
800737 TTCTTTGTCA
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
40 34 0.68
41 16 0.32
ACGTcount: A:0.00, C:0.28, G:0.08, T:0.63
Consensus pattern (40 bp):
TTTCTTTCTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
Found at i:800753 original size:2 final size:2
Alignment explanation
Indices: 800746--800816 Score: 52
Period size: 2 Copynumber: 39.0 Consensus size: 2
800736 TTTCTTTGTC
800746 AT AT AT AT AT AT AT AT A- AT AT A- AT AT A- AT AT AT -T A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
800783 A- AT A- AT CAT -T ACT -T AC AT AT AT AT AT AT AT AT AT
1 AT AT AT AT -AT AT A-T AT AT AT AT AT AT AT AT AT AT AT
800817 TAACTAGAAT
Statistics
Matches: 56, Mismatches: 2, Indels: 22
0.70 0.03 0.28
Matches are distributed among these distances:
1 9 0.16
2 44 0.79
3 3 0.05
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:808046 original size:17 final size:21
Alignment explanation
Indices: 807996--808041 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
807986 AATTTTTTTC
807996 TTTTATATTCTTTCAACTTTA
1 TTTTATATTCTTTCAACTTTA
*
808017 TTTTATATTCTTTCAACTTTT
1 TTTTATATTCTTTCAACTTTA
808038 TTTT
1 TTTT
808042 TCTTTTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.20, C:0.13, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTATATTCTTTCAACTTTA
Found at i:815440 original size:37 final size:36
Alignment explanation
Indices: 815371--815558 Score: 123
Period size: 37 Copynumber: 4.9 Consensus size: 36
815361 TATTATATAG
* *
815371 TATTATATATTATG-ATTTTATTAAATTCATATAAGAA
1 TATTA-ATATTAAGAATTTTATTAAATT-ATATAATAA
* **
815408 TACTTAATATTAAGAATTTTATTAAATTATATATTTT
1 TA-TTAATATTAAGAATTTTATTAAATTATATAATAA
* * *
815445 TATTAAATTATATTTAATAATAATTATTTTAAATTATATTATATAG
1 TATT--A--ATA-TTAAGAAT--TT-TATTAAATTATA-TA-ATAA
*
815491 TATT-ATATTTATG-ATTTTATTAAATTCATATAA-AA
1 TATTAATA-TTAAGAATTTTATTAAATT-ATATAATAA
815526 TATTTAATATTAAGAATTTTATTAAATTATATA
1 TA-TTAATATTAAGAATTTTATTAAATTATATA
815559 TTTTTATTAA
Statistics
Matches: 120, Mismatches: 15, Indels: 33
0.71 0.09 0.20
Matches are distributed among these distances:
35 3 0.03
36 14 0.12
37 42 0.35
38 22 0.18
40 5 0.04
41 14 0.12
43 2 0.02
44 11 0.09
45 2 0.02
46 5 0.04
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.52
Consensus pattern (36 bp):
TATTAATATTAAGAATTTTATTAAATTATATAATAA
Found at i:815445 original size:18 final size:18
Alignment explanation
Indices: 815424--815575 Score: 69
Period size: 18 Copynumber: 7.9 Consensus size: 18
815414 ATATTAAGAA
815424 TTTTATTAAATTATATAT
1 TTTTATTAAATTATATAT
815442 TTTTATTAAATTATATTTAAT
1 TTTTATTAAATTATA--T-AT
*
815463 AATAATTATTTTAAATTATATTAT
1 --T--TT-TATTAAATTATA-TAT
** *
815487 ATAGTATTATATT-TATGA-
1 -TTTTATTAAATTATAT-AT
815505 TTTTATTAAATTCATATA-
1 TTTTATTAAATT-ATATAT
*** * *
815523 AAATATTTAATATTA-AGAA
1 TTTTA-TTAA-ATTATATAT
815542 TTTTATTAAATTATATAT
1 TTTTATTAAATTATATAT
815560 TTTTATTAAATTATAT
1 TTTTATTAAATTATAT
815576 TTAATAATAA
Statistics
Matches: 102, Mismatches: 17, Indels: 30
0.68 0.11 0.20
Matches are distributed among these distances:
17 13 0.13
18 43 0.42
19 13 0.13
20 11 0.11
21 2 0.02
23 3 0.03
24 2 0.02
25 4 0.04
26 11 0.11
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (18 bp):
TTTTATTAAATTATATAT
Found at i:815557 original size:118 final size:120
Alignment explanation
Indices: 815359--815658 Score: 541
Period size: 118 Copynumber: 2.5 Consensus size: 120
815349 ATTATTAATC
*
815359 TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATACTTAATATTAAGAA
1 TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAA
*
815424 TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAAT
66 TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAT
815479 TATATTATATAGTATTATAT-TTATGATTTTATTAAATTCATATAA-AATATTTAATATTAAGAA
1 TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAA
815542 TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAT
66 TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAT
* **
815597 TATATTTTATAGTATTATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAA
1 TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAA
815659 TTTTTTTTCT
Statistics
Matches: 173, Mismatches: 5, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
118 90 0.52
119 48 0.28
120 35 0.20
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.51
Consensus pattern (120 bp):
TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAA
TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAT
Found at i:815934 original size:16 final size:16
Alignment explanation
Indices: 815913--815954 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
815903 TTATTAAATT
*
815913 ATATATTTTAATTATA
1 ATATATTTTAATAATA
815929 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
815944 AT-TATGTTTAA
1 ATATAT-TTTAA
815955 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:815939 original size:15 final size:15
Alignment explanation
Indices: 815904--815945 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
815894 TTAAGAATTT
*
815904 TATTAAATTAT-ATA
1 TATTTAATTATAATA
815918 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
815932 TATTTAATAATAAT
1 TATTTAATTATAAT
815946 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:816091 original size:16 final size:16
Alignment explanation
Indices: 816070--816111 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
816060 TTATTAAATT
*
816070 ATATATTTTAATTATA
1 ATATATTTTAATAATA
816086 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
816101 AT-TATGTTTAA
1 ATATAT-TTTAA
816112 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:816096 original size:15 final size:15
Alignment explanation
Indices: 816061--816102 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
816051 TTAAGAATTT
*
816061 TATTAAATTAT-ATA
1 TATTTAATTATAATA
816075 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
816089 TATTTAATAATAAT
1 TATTTAATTATAAT
816103 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:816347 original size:156 final size:157
Alignment explanation
Indices: 815890--816360 Score: 872
Period size: 157 Copynumber: 3.0 Consensus size: 157
815880 AAGAATATTG
815890 ATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAA
1 ATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAA
815955 ATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAATA
66 ATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAATA
*
816020 ATAATTTACCAAAATAAATTTCTGCTA
131 ATAATTTACCAAAACAAATTTCTGCTA
816047 ATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAA
1 ATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAA
816112 ATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAATA
66 ATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAATA
816177 ATAATTTACCAAAACAAATTTCTGCTA
131 ATAATTTACCAAAACAAATTTCTGCTA
*
816204 ATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATA-ATTTAATAATAATTATGTTTAA
1 ATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAA
* *
816268 ATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATA
66 ATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAATA
* * *
816333 ATCATTTACTAAAACAAATTTATGCTA
131 ATAATTTACCAAAACAAATTTCTGCTA
816360 A
1 A
816361 GGGTATTCTA
Statistics
Matches: 307, Mismatches: 7, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
156 110 0.36
157 197 0.64
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (157 bp):
ATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAA
ATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAATA
ATAATTTACCAAAACAAATTTCTGCTA
Found at i:816504 original size:16 final size:16
Alignment explanation
Indices: 816483--816550 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
816473 GATTTGCTAT
816483 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
816499 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
816515 TACACCTCCAATCCAA
1 TACACCTCTAATCCAA
816531 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
816547 TACA
1 TACA
816551 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.24
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:817164 original size:29 final size:25
Alignment explanation
Indices: 817112--817176 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 25
817102 ATATTTGATC
*
817112 ATAATATTTTATAAATAAATAAATT
1 ATAATATTTTATAAATAAACAAATT
817137 ATAATACTTTTATAAAATATAAACAAATT
1 ATAATA-TTTTAT--AA-ATAAACAAATT
817166 ATAATAATTTT
1 ATAAT-ATTTT
817177 CCCTCATAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
25 6 0.18
26 6 0.18
28 2 0.06
29 19 0.56
30 1 0.03
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (25 bp):
ATAATATTTTATAAATAAACAAATT
Found at i:822233 original size:15 final size:15
Alignment explanation
Indices: 822210--822240 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
822200 GGGTAGTAGT
822210 CTAGAAGCGGCGGCA
1 CTAGAAGCGGCGGCA
*
822225 CTAGCAGCGGCGGCA
1 CTAGAAGCGGCGGCA
822240 C
1 C
822241 GAATATCAGT
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:0.23, C:0.32, G:0.39, T:0.06
Consensus pattern (15 bp):
CTAGAAGCGGCGGCA
Found at i:823942 original size:21 final size:21
Alignment explanation
Indices: 823918--823960 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
823908 TATATTTTAG
823918 ATATCAAATAATTA-AATATAA
1 ATAT-AAATAATTATAATATAA
* *
823939 ATATTAATAATTATATTATAA
1 ATATAAATAATTATAATATAA
823960 A
1 A
823961 AAATAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (21 bp):
ATATAAATAATTATAATATAA
Found at i:826692 original size:30 final size:30
Alignment explanation
Indices: 826635--826690 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
826625 TTTTATATAT
*
826635 ATATACATACTTACATTGTTTTATTTTACG
1 ATATACATACTTACATTCTTTTATTTTACG
*
826665 ATATACATACTTATA-TCTTTTATTTT
1 ATATACATACTTACATTCTTTTATTTT
826691 TATGTAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 10 0.42
30 14 0.58
ACGTcount: A:0.30, C:0.12, G:0.04, T:0.54
Consensus pattern (30 bp):
ATATACATACTTACATTCTTTTATTTTACG
Found at i:833017 original size:7 final size:8
Alignment explanation
Indices: 832998--833033 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
832988 TAAATTCAAA
832998 AAAAAATC
1 AAAAAATC
833006 AAAAAATC
1 AAAAAATC
*
833014 AAAAAATTA
1 AAAAAA-TC
833023 AAAAAATC
1 AAAAAATC
833031 AAA
1 AAA
833034 GTCAAAATAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
8 18 0.72
9 7 0.28
ACGTcount: A:0.78, C:0.08, G:0.00, T:0.14
Consensus pattern (8 bp):
AAAAAATC
Found at i:833019 original size:17 final size:16
Alignment explanation
Indices: 832998--833033 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
832988 TAAATTCAAA
832998 AAAAAATCAAAAAATC
1 AAAAAATCAAAAAATC
*
833014 AAAAAATTAAAAAAATC
1 AAAAAA-TCAAAAAATC
833031 AAA
1 AAA
833034 GTCAAAATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.78, C:0.08, G:0.00, T:0.14
Consensus pattern (16 bp):
AAAAAATCAAAAAATC
Found at i:834838 original size:87 final size:87
Alignment explanation
Indices: 834346--834819 Score: 725
Period size: 87 Copynumber: 5.4 Consensus size: 87
834336 ATCAGTGAAT
* * * *
834346 ATCGAAAACGAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGTAAATTTTACCT
1 ATCGAAAACGAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCT
* * *
834411 TCTTGCATTAATAGCGAAGCAG
66 TCCTGCGTTAACAGCGAAGCAG
834433 ATCGAAAACGAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCT
1 ATCGAAAACGAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCT
*
834498 TCCTGCGTTAACAGTGAAGCAG
66 TCCTGCGTTAACAGCGAAGCAG
* * *
834520 ATCGGAAACGAAGCCTTGCCTCCATCGGTTGCAGCGGAGCTGGTTAAAGATAGCAGATCTTGCCT
1 ATCGAAAACGAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCT
*
834585 TCCTGCATTAACAGCGAAGCAG
66 TCCTGCGTTAACAGCGAAGCAG
* *
834607 ATCGAAAATGAAGCCTTGCCTCCATCGGTTGTAGTGGAACTGGTTAAAGATAGCAGATCTTGCCT
1 ATCGAAAACGAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCT
*
834672 TCCTGCGTTAACAGTGAAGCAG
66 TCCTGCGTTAACAGCGAAGCAG
* * * * * *
834694 ATCAAAAACGAAGCCTTACATCCATCGGTTGCAGCGGAGTTGGTTAAAGATAGCAGATCTTGCCT
1 ATCGAAAACGAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCT
*
834759 TCCTGCGTTAACAGCGAAACAG
66 TCCTGCGTTAACAGCGAAGCAG
*
834781 ATCGAAAAC-AAGGCCTTGCCTTCATCGGTTGTAGTGGAG
1 ATCGAAAACGAA-GCCTTGCCTCCATCGGTTGTAGTGGAG
834820 TAGGTGGAAG
Statistics
Matches: 350, Mismatches: 36, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
86 2 0.01
87 348 0.99
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (87 bp):
ATCGAAAACGAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCT
TCCTGCGTTAACAGCGAAGCAG
Found at i:836667 original size:30 final size:30
Alignment explanation
Indices: 836610--836665 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
836600 TTTTATATAT
*
836610 ATATACATACTTACATTGTTTTATTTTACG
1 ATATACATACTTACATTCTTTTATTTTACG
*
836640 ATATACATACTTATA-TCTTTTATTTT
1 ATATACATACTTACATTCTTTTATTTT
836666 TATGTAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 10 0.42
30 14 0.58
ACGTcount: A:0.30, C:0.12, G:0.04, T:0.54
Consensus pattern (30 bp):
ATATACATACTTACATTCTTTTATTTTACG
Found at i:838780 original size:30 final size:29
Alignment explanation
Indices: 838746--838804 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
838736 GAATTGGATC
* *
838746 AAATCAAAATTTAATGTATAAAATTGCACA
1 AAATC-AAAGTTAATGTATAAAATTACACA
*
838776 AAATCAAAGTTCATGTATAAAATTACACA
1 AAATCAAAGTTAATGTATAAAATTACACA
838805 TTAAACTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 21 0.81
30 5 0.19
ACGTcount: A:0.53, C:0.12, G:0.07, T:0.29
Consensus pattern (29 bp):
AAATCAAAGTTAATGTATAAAATTACACA
Found at i:839300 original size:21 final size:21
Alignment explanation
Indices: 839263--839305 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
839253 CCCGAGTCGT
*
839263 TTTTATTATTATAATATTTTA
1 TTTTATTATTATAATATATTA
*
839284 TTTTATT-TTATTTATATATTA
1 TTTTATTATTA-TAATATATTA
839305 T
1 T
839306 GTAAATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTTATTATTATAATATATTA
Found at i:841315 original size:7 final size:7
Alignment explanation
Indices: 841303--841331 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
841293 TATAATTTCA
841303 GCAATGG
1 GCAATGG
841310 GCAATGG
1 GCAATGG
841317 GCAATGG
1 GCAATGG
841324 GCAATGG
1 GCAATGG
841331 G
1 G
841332 TGTGATTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.28, C:0.14, G:0.45, T:0.14
Consensus pattern (7 bp):
GCAATGG
Done.