Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold36
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: 4808052
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 18886 characters in sequence are not A, C, G, or T
File 24 of 28
Found at i:3662300 original size:13 final size:14
Alignment explanation
Indices: 3662262--3662303 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
3662252 ATTAAAAATT
3662262 ATTATATATTAAATCA
1 ATTATAT-TTAAA-CA
3662278 ATTCATATTTAAA-A
1 ATT-ATATTTAAACA
3662292 ATTATATTTAAA
1 ATTATATTTAAA
3662304 TTTAAATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 9 0.36
14 4 0.16
16 8 0.32
17 4 0.16
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTATATTTAAACA
Found at i:3668709 original size:27 final size:30
Alignment explanation
Indices: 3668676--3668738 Score: 80
Period size: 27 Copynumber: 2.2 Consensus size: 30
3668666 TTATGTATTT
3668676 TAAAATT-TATATATATTA-AA-A-ATAGAA
1 TAAAATTATAT-TATATTATAATATATAGAA
3668703 TAAAATTATATTATATTATAATTATATAGAA
1 TAAAATTATATTATATTATAA-TATATAGAA
3668734 TAAAA
1 TAAAA
3668739 AAGTTGAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
27 14 0.45
28 5 0.16
30 1 0.03
31 11 0.35
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (30 bp):
TAAAATTATATTATATTATAATATATAGAA
Found at i:3669029 original size:3 final size:3
Alignment explanation
Indices: 3669021--3669073 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
3669011 ACCTAGCACC
3669021 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
3669069 TTA TT
1 TTA TT
3669074 TAGAATAAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:3671301 original size:15 final size:15
Alignment explanation
Indices: 3671281--3671312 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
3671271 AATGTATCGT
3671281 AACGTGCACTTGTCA
1 AACGTGCACTTGTCA
3671296 AACGTGCACTTGTCA
1 AACGTGCACTTGTCA
3671311 AA
1 AA
3671313 TTGTCGAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (15 bp):
AACGTGCACTTGTCA
Found at i:3677198 original size:16 final size:16
Alignment explanation
Indices: 3677177--3677211 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
3677167 GTTATTTACA
*
3677177 TATATATATATAAATT
1 TATATATACATAAATT
3677193 TATATATACATAAATT
1 TATATATACATAAATT
3677209 TAT
1 TAT
3677212 TTTTTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (16 bp):
TATATATACATAAATT
Found at i:3677251 original size:19 final size:21
Alignment explanation
Indices: 3677229--3677267 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
3677219 TTTTTTATTT
3677229 TAATT-TTTTAAAA-ATATAA
1 TAATTCTTTTAAAACATATAA
3677248 TAATTCTTTTAAAACATATA
1 TAATTCTTTTAAAACATATA
3677268 TTTTTATCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 8 0.44
21 5 0.28
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (21 bp):
TAATTCTTTTAAAACATATAA
Found at i:3678071 original size:20 final size:20
Alignment explanation
Indices: 3678046--3678085 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
3678036 GCTCTGACAA
3678046 ATATTGAATTATAATTAGAT
1 ATATTGAATTATAATTAGAT
*
3678066 ATATTGAATTTTAATTAGAT
1 ATATTGAATTATAATTAGAT
3678086 CTGATAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.47
Consensus pattern (20 bp):
ATATTGAATTATAATTAGAT
Found at i:3680603 original size:19 final size:18
Alignment explanation
Indices: 3680579--3680617 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
3680569 CCGATGGATG
*
3680579 TTGTGATTAAAACTTGATT
1 TTGTGAGTAAAAC-TGATT
*
3680598 TTGTGAGTGAAACTGATT
1 TTGTGAGTAAAACTGATT
3680616 TT
1 TT
3680618 TTATTATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.28, C:0.05, G:0.21, T:0.46
Consensus pattern (18 bp):
TTGTGAGTAAAACTGATT
Found at i:3685324 original size:3 final size:3
Alignment explanation
Indices: 3685316--3685345 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
3685306 TAAGAATGTT
3685316 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
3685346 CTGAGAAGGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:3686778 original size:19 final size:19
Alignment explanation
Indices: 3686756--3686799 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
3686746 TTATATTTAT
*
3686756 ATATTTTTATATATAA-AAA
1 ATATTTTTAAATA-AATAAA
*
3686775 ATATATTTAAATAAATAAA
1 ATATTTTTAAATAAATAAA
3686794 ATATTT
1 ATATTT
3686800 ATATTTTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 2 0.10
19 19 0.90
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
ATATTTTTAAATAAATAAA
Found at i:3686778 original size:21 final size:21
Alignment explanation
Indices: 3686754--3686810 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
3686744 TATTATATTT
3686754 ATATATTTTTATATATAAAAA
1 ATATATTTTTATATATAAAAA
** * *
3686775 ATATATTTAAATAAATAAAAT
1 ATATATTTTTATATATAAAAA
*
3686796 ATTTATATTTTATAT
1 ATATAT-TTTTATAT
3686811 TTTTAATATT
Statistics
Matches: 27, Mismatches: 8, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
21 22 0.81
22 5 0.19
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATATATTTTTATATATAAAAA
Found at i:3686797 original size:17 final size:17
Alignment explanation
Indices: 3686768--3686800 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
3686758 ATTTTTATAT
3686768 ATAAAAAATATATTTAA
1 ATAAAAAATATATTTAA
3686785 ATAAATAAA-ATATTTA
1 ATAAA-AAATATATTTA
3686801 TATTTTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
ATAAAAAATATATTTAA
Found at i:3687290 original size:14 final size:13
Alignment explanation
Indices: 3687265--3687309 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
3687255 ATTAAATTAA
*
3687265 ATATTAAATATTT
1 ATATAAAATATTT
* *
3687278 ATTTAATAATATTA
1 ATATAA-AATATTT
3687292 ATATAAAATATTT
1 ATATAAAATATTT
3687305 ATATA
1 ATATA
3687310 TTTAATAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
13 15 0.58
14 11 0.42
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
ATATAAAATATTT
Found at i:3687302 original size:27 final size:28
Alignment explanation
Indices: 3687251--3687350 Score: 98
Period size: 27 Copynumber: 3.4 Consensus size: 28
3687241 TATTATGTAT
*
3687251 TTTAATTAAATTAAATATTAAATATTTA
1 TTTAATTAAATTAAATATAAAATATTTA
3687279 TTTAA-TAATATT-AATATAAAATATTTATATA
1 TTTAATTAA-ATTAAATATAAAATA--T-T-TA
*
3687310 TTTAATAAAATTATAATAT-AAATATTTA
1 TTTAATTAAATTA-AATATAAAATATTTA
3687338 TTTGAATTAAATT
1 TTT-AATTAAATT
3687351 TTTTTAATAT
Statistics
Matches: 60, Mismatches: 3, Indels: 17
0.75 0.04 0.21
Matches are distributed among these distances:
27 13 0.22
28 13 0.22
29 10 0.17
30 2 0.03
31 10 0.17
32 7 0.12
33 5 0.08
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (28 bp):
TTTAATTAAATTAAATATAAAATATTTA
Found at i:3687315 original size:31 final size:32
Alignment explanation
Indices: 3687277--3687338 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 32
3687267 ATTAAATATT
*
3687277 TATTTAATAATA-T-TAATATAAAATATTTATA
1 TATTTAATAAAATTATAATAT-AAATATTTATA
3687308 TATTTAATAAAATTATAATATAAATATTTAT
1 TATTTAATAAAATTATAATATAAATATTTAT
3687339 TTGAATTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 11 0.39
32 11 0.39
33 6 0.21
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (32 bp):
TATTTAATAAAATTATAATATAAATATTTATA
Found at i:3698227 original size:2 final size:2
Alignment explanation
Indices: 3698220--3698266 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
3698210 AGCTTACAAA
3698220 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3698262 AT AT A
1 AT AT A
3698267 GAGAGAGAGA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3710467 original size:16 final size:16
Alignment explanation
Indices: 3710446--3710481 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
3710436 AGCATGAGAC
3710446 CAAGAGGAATTATGAA
1 CAAGAGGAATTATGAA
3710462 CAAGAGGAATTATGAA
1 CAAGAGGAATTATGAA
3710478 CAAG
1 CAAG
3710482 TTGCAGTCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.50, C:0.08, G:0.25, T:0.17
Consensus pattern (16 bp):
CAAGAGGAATTATGAA
Found at i:3714581 original size:692 final size:688
Alignment explanation
Indices: 3713213--3714613 Score: 1761
Period size: 692 Copynumber: 2.0 Consensus size: 688
3713203 ATTTACAACG
* * * *
3713213 GCAGACATTTCTTGAATGTACCTTATCTTGAGTAGTAAATTCTACCTTCTTTGAAGCTGGGGAAA
1 GCAGACATTTCTTGAATATACCTTATCTT--GCAGTAAATTCTAACTTCTTTGAAGCTGAGGAAA
*
3713278 AAAAGGGAACACGGCAATGTAAGTTTGAGAATATTTTGTGCAATGAACACAAATGTCTAGAATGT
64 AAAAGAGAACACGGCAATGTAAGTTTGAGAATATTTTGTGCAATGAACACAAATGTCTAGAATGT
** *
3713343 TAATTTGAGCTCTAGACTCATGTAATACTATTTACAAAAAGATGGAAGAAAGCCTCAGCATATGA
129 TAATTTGAGCTCTAGACTCATGTAATACTATTTACAAAAAGACAGAAGAAAGCCTCAGCATAAGA
* * * * *
3713408 ACAAAGGGCTCTAGAATAGGCATCTTGGGTTGTTAGGTGATTAAAGAAATATGATCTAGACCAAC
194 ACAAAGGGCTCTAGAATAGGAATCTTGGCTTATTAGGTGATTAAAGAAATAAGATCTAGACCAAA
* ** * * * *
3713473 AATAAGAACTAATGTGGAGGCATGAATGTTCATTTTCACTATGCTAATTTGAATAATTATCATAA
259 AATAAGAACCAATGTAAAAGCATGAATGTTCATTTTCACTACGCTAATTTAAATAAGTATC----
* * *
3713538 ATATAAGTTCCACTGACCTAAGAATCACATTTTCATCAAAAGAAGTCCTTTGAATTCGTATTTGT
320 A-AT-AG---C-CTGACCTAAGAATCACATTTCCATCAAAAGAAATCCTTTGAATTCGTATTTAT
**
3713603 GGCATCAAAGAAAAATCTTTGGGTGCAGCAGCATAAAACAATGTGGAGACAAAGGGAAACGAAAA
379 GGCATCAAAGAAAAATCTTTGGGTGCAGCAGCA-AAAACAATGCAGAGACAAAGGGAAACGAAAA
* ** * * *
3713668 ATACTTACATGACACAGCTTGATTATCTGCTGATTTCGATTCCTTTTTGCCACTAGAATTTGCAG
443 ATACTTACATGACACAGCTTGAGTATCAACTGATTTCAACTCCTTTTTGCCACTAGAATTCGCAG
*
3713733 TGTTGGACACTTTGTTAGATTTCTGGATTGAAGCCCTTACATCCTCAAATAAATCAGCGTCAAGA
508 TGTTGGACACTTTGTTAGATTTCTGGATTGAAGCCCTTACATCCTCAAATAAATCAGCCTCAAGA
* *
3713798 CTTTCTAATGTCAAAGTTTCAGAATCCAAGGTTGTTAATGAATAATAAGATTTGTTTACATCTTC
573 CTTTCCAATGTCAAAGTTTCAGAATCCAAAGTTGTTAATGAATAATAAGATTTGTTTACATCTTC
* * *
3713863 TTGGATCCCAGGCAATGCATGTATTTGACCTTTCCCATTGCCTCCCAGCAC
638 TTGAATCCCAGGCAATGCACGTATTTGACCTTTCCCACTGCCTCCCAGCAC
3713914 GCAGACATTTCTTGAATATACCTTATCTT-CAGTAAATTCTAACTTCTTTGAAGCT-AGGAATAA
1 GCAGACATTTCTTGAATATACCTTATCTTGCAGTAAATTCTAACTTCTTTGAAGCTGAGGAA-AA
*** * * * * * *
3713977 AAAGAGAATGGGGCACTGTCAGTTTTAGAATATTTTGTGCGATGAACA-AGCATGTCTAGATTGT
65 AAAGAGAACACGGCAATGTAAGTTTGAGAATATTTTGTGCAATGAACACA-AATGTCTAGAATGT
* * *
3714041 TAATTTGAGCTCTAGACTTATGTAATATTATTTACAAAATAGACAGAAGAAAGCTTCAGCATAAG
129 TAATTTGAGCTCTAGACTCATGTAATACTATTTACAAAA-AGACAGAAGAAAGCCTCAGCATAAG
* * *
3714106 AACAAAGGGTTCTAGAATAGCCTAGAATAGCCATTTTGCTTAATTAGGTGATTAAAGAAATAAGG
193 AACAAAGGGCTCTAGAATAG----GAAT---C--TTGGCTT-ATTAGGTGATTAAAGAAATAAGA
* * * * **
3714171 TCTGGACCAAAAATGAGAACCACTGTAAAAGCATGAATGTTCATTTTCCCTACGCTCGTTTAAAT
248 TCTAGACCAAAAATAAGAACCAATGTAAAAGCATGAATGTTCATTTTCACTACGCTAATTTAAAT
* *
3714236 AAGTATC-AT-G-C-G-CCTAATG-ATCACATTTCCCTCAAAGGAAATCCTTTGAAGTT-GTATT
313 AAGTATCAATAGCCTGACCTAA-GAATCACATTTCCATCAAAAGAAATCCTTTGAA-TTCGTATT
* *
3714294 TATGGCATCAAAGAAAAATCATTT-GGTGCAGTAGC-AAAACAGTGCAGAGACAAAGGGAAAC-A
376 TATGGCATCAAAGAAAAATC-TTTGGGTGCAGCAGCAAAAACAATGCAGAGACAAAGGGAAACGA
* * * * *
3714356 AACAATACTTACGTGACGCAG-TTCGAGTGTCAATTGTTTTCAACTCCTTTTTGCCACTAGAATT
440 AA-AATACTTACATGACACAGCTT-GAGTATCAACTGATTTCAACTCCTTTTTGCCACTAGAATT
3714420 CGC-GATGTTGGACACTTTGTTAGATTTCTGGATTGAAGCCCTTACATCCTCAAATAAATCAGCC
503 CGCAG-TGTTGGACACTTTGTTAGATTTCTGGATTGAAGCCCTTACATCCTCAAATAAATCAGCC
*
3714484 TCAAGACTTTCCAATGTCAAAGTTTCAGAATCCAAAGTTGTTAATGAATCATAAGATTTGTTTAC
567 TCAAGACTTTCCAATGTCAAAGTTTCAGAATCCAAAGTTGTTAATGAATAATAAGATTTGTTTAC
* * *
3714549 ATCTTCTTGAATCCCAGGCAATGTACGTATTTGACCTTTCTCACTGCCTCCCAGCAT
632 ATCTTCTTGAATCCCAGGCAATGCACGTATTTGACCTTTCCCACTGCCTCCCAGCAC
3714606 GCTAGACA
1 GC-AGACA
3714614 ACTCCTCCGG
Statistics
Matches: 609, Mismatches: 71, Indels: 48
0.84 0.10 0.07
Matches are distributed among these distances:
691 6 0.01
692 246 0.40
693 5 0.01
694 66 0.11
695 7 0.01
696 1 0.00
697 5 0.01
698 115 0.19
699 40 0.07
701 29 0.05
703 5 0.01
706 1 0.00
708 5 0.01
709 78 0.13
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (688 bp):
GCAGACATTTCTTGAATATACCTTATCTTGCAGTAAATTCTAACTTCTTTGAAGCTGAGGAAAAA
AAGAGAACACGGCAATGTAAGTTTGAGAATATTTTGTGCAATGAACACAAATGTCTAGAATGTTA
ATTTGAGCTCTAGACTCATGTAATACTATTTACAAAAAGACAGAAGAAAGCCTCAGCATAAGAAC
AAAGGGCTCTAGAATAGGAATCTTGGCTTATTAGGTGATTAAAGAAATAAGATCTAGACCAAAAA
TAAGAACCAATGTAAAAGCATGAATGTTCATTTTCACTACGCTAATTTAAATAAGTATCAATAGC
CTGACCTAAGAATCACATTTCCATCAAAAGAAATCCTTTGAATTCGTATTTATGGCATCAAAGAA
AAATCTTTGGGTGCAGCAGCAAAAACAATGCAGAGACAAAGGGAAACGAAAAATACTTACATGAC
ACAGCTTGAGTATCAACTGATTTCAACTCCTTTTTGCCACTAGAATTCGCAGTGTTGGACACTTT
GTTAGATTTCTGGATTGAAGCCCTTACATCCTCAAATAAATCAGCCTCAAGACTTTCCAATGTCA
AAGTTTCAGAATCCAAAGTTGTTAATGAATAATAAGATTTGTTTACATCTTCTTGAATCCCAGGC
AATGCACGTATTTGACCTTTCCCACTGCCTCCCAGCAC
Found at i:3715351 original size:13 final size:14
Alignment explanation
Indices: 3715333--3715362 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
3715323 GAATTTTTTA
3715333 AAAAAAAAAT-TAG
1 AAAAAAAAATATAG
3715346 AAAAAAAAATATAG
1 AAAAAAAAATATAG
3715360 AAA
1 AAA
3715363 TTTTTATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.13
Consensus pattern (14 bp):
AAAAAAAAATATAG
Found at i:3716304 original size:20 final size:22
Alignment explanation
Indices: 3716278--3716329 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
3716268 ATTTATAATA
3716278 ATATATATTTAT-AT-TAATTT
1 ATATATATTTATAATATAATTT
* *
3716298 TTATATATTAATAATATAATTT
1 ATATATATTTATAATATAATTT
*
3716320 ATATAAATTT
1 ATATATATTT
3716330 TATCATCTTC
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
20 10 0.40
21 2 0.08
22 13 0.52
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
ATATATATTTATAATATAATTT
Found at i:3716329 original size:32 final size:34
Alignment explanation
Indices: 3716264--3716330 Score: 102
Period size: 32 Copynumber: 2.0 Consensus size: 34
3716254 TTTATTATAA
* *
3716264 TTATATTTATAATAATATATATTTATATTAATTT
1 TTATATATATAATAATATATATTTATATAAATTT
3716298 TTATATAT-TAATAATATA-ATTTATATAAATTT
1 TTATATATATAATAATATATATTTATATAAATTT
3716330 T
1 T
3716331 ATCATCTTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
32 14 0.45
33 10 0.32
34 7 0.23
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (34 bp):
TTATATATATAATAATATATATTTATATAAATTT
Found at i:3716800 original size:2 final size:2
Alignment explanation
Indices: 3716793--3716821 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3716783 CATATACACT
3716793 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3716822 GATACTTGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3719847 original size:16 final size:16
Alignment explanation
Indices: 3719826--3719856 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3719816 AAATGTCTCG
3719826 TTTTTTTCCTTTTTTT
1 TTTTTTTCCTTTTTTT
*
3719842 TTTTTTTTCTTTTTT
1 TTTTTTTCCTTTTTT
3719857 CTATTTCAGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (16 bp):
TTTTTTTCCTTTTTTT
Found at i:3720039 original size:25 final size:26
Alignment explanation
Indices: 3720001--3720050 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
3719991 TAAATATTTA
* * *
3720001 TTTGATTTTTATATTTTAATTAAAAT
1 TTTGATTTTAATATTTAAATAAAAAT
3720027 TTTGA-TTTAATATTTAAATAAAAA
1 TTTGATTTTAATATTTAAATAAAAA
3720051 ATTATCAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (26 bp):
TTTGATTTTAATATTTAAATAAAAAT
Found at i:3720042 original size:24 final size:26
Alignment explanation
Indices: 3720001--3720049 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 26
3719991 TAAATATTTA
* *
3720001 TTTGATTTTTATATTTTAATTAAAAT
1 TTTGATTTTAATATTTTAAATAAAAT
3720027 TTTGA-TTTAATA-TTTAAATAAAA
1 TTTGATTTTAATATTTTAAATAAAA
3720050 AATTATCAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 10 0.48
25 6 0.29
26 5 0.24
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (26 bp):
TTTGATTTTAATATTTTAAATAAAAT
Found at i:3720643 original size:22 final size:21
Alignment explanation
Indices: 3720611--3720661 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 21
3720601 CTATTATATT
* *
3720611 ATTAATTTAATTTTTAAAAATA
1 ATTAATATAATTATT-AAAATA
*
3720633 ATTAATATAATTATTACAATA
1 ATTAATATAATTATTAAAATA
*
3720654 AATAATAT
1 ATTAATAT
3720662 CATCTTCATT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 12 0.48
22 13 0.52
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (21 bp):
ATTAATATAATTATTAAAATA
Found at i:3730391 original size:2 final size:2
Alignment explanation
Indices: 3730386--3730417 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
3730376 GTGTGTGTGT
3730386 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
3730418 TTACTTGAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:3741353 original size:15 final size:17
Alignment explanation
Indices: 3741316--3741360 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 17
3741306 TTTGATATTT
*
3741316 TTAAAATATTATTTAAAA
1 TTAATATATTATTT-AAA
3741334 TTAATATATTATTT-AA
1 TTAATATATTATTTAAA
3741350 -TAATATATTAT
1 TTAATATATTAT
3741361 AATTTTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 11 0.42
16 2 0.08
18 13 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TTAATATATTATTTAAA
Found at i:3742172 original size:14 final size:14
Alignment explanation
Indices: 3742150--3742179 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
3742140 TTTAATTTTA
*
3742150 ATTTTTTATTTTGT
1 ATTTTTTATTTAGT
3742164 ATTTTTTATTTAGT
1 ATTTTTTATTTAGT
3742178 AT
1 AT
3742180 ATTTGAGGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (14 bp):
ATTTTTTATTTAGT
Found at i:3742635 original size:19 final size:20
Alignment explanation
Indices: 3742603--3742650 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
3742593 TTATTTGGTA
3742603 ATTATTTTTGCTTT-TTTATT
1 ATTATTTTTGCTTTATTT-TT
3742623 ATTATTTTT-CTTTATTTTT
1 ATTATTTTTGCTTTATTTTT
*
3742642 GTTATTTTT
1 ATTATTTTT
3742651 AATATTTGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 14 0.54
20 12 0.46
ACGTcount: A:0.15, C:0.04, G:0.04, T:0.77
Consensus pattern (20 bp):
ATTATTTTTGCTTTATTTTT
Found at i:3743817 original size:247 final size:247
Alignment explanation
Indices: 3743521--3744008 Score: 879
Period size: 247 Copynumber: 2.0 Consensus size: 247
3743511 ATAGATATGG
* * *
3743521 ATTTATTTAATAATTCATTGACTTTTTAATATTTTTAATCAATTTTTTTAATAAATTTTTATATT
1 ATTTATTTAATAATTCATGGACTTTTTAATATTTTTAACCAAATTTTTTAATAAATTTTTATATT
3743586 AACCCTCAAATTAATTTAATGACAATTAATGATGTCATTGTCCTAAATAAAGCAAATTTCATATT
66 AACCCTCAAATTAATTTAATGACAATTAATGATGTCATTGTCCTAAATAAAGCAAATTTCATATT
3743651 GAAAATTTTCAATAATTTCATCATTATAGAAAC-AAATGGTAACCATACTTAGCTAATGTAAACC
131 GAAAATTTTCAATAATTTCATCATTATAGAAACAAAATGGTAACCATACTTAGCTAAT-TAAACC
*
3743715 TTATTTCATAAGGACAAATCATTCCATGAGATGATTATTTAAAATTTTAACCA
195 TTATTTCATAAGGAAAAATCATTCCATGAGATGATTATTTAAAATTTTAACCA
* *
3743768 ATTTTTTTAATAATTCATGGACTTTTTAATATTTTTAACCAAATTTTTTAATAAATTTTTATGTT
1 ATTTATTTAATAATTCATGGACTTTTTAATATTTTTAACCAAATTTTTTAATAAATTTTTATATT
*
3743833 AACCCTCAAATTAATTTAATGACAATTAATGATGTCATTGTCCTAACTAAAGCAAATTTCATATT
66 AACCCTCAAATTAATTTAATGACAATTAATGATGTCATTGTCCTAAATAAAGCAAATTTCATATT
*
3743898 GAAAATTTTCAATAATTTCATCATTATAGAAACAAAATGGTAACCATACTTAGCTAATTTAACCT
131 GAAAATTTTCAATAATTTCATCATTATAGAAACAAAATGGTAACCATACTTAGCTAATTAAACCT
*
3743963 TATTTCATAAGGAAAAATCATTCCATGAGATGATTATTTAGAATTT
196 TATTTCATAAGGAAAAATCATTCCATGAGATGATTATTTAAAATTT
3744009 CATATGATTT
Statistics
Matches: 231, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
247 207 0.90
248 24 0.10
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.41
Consensus pattern (247 bp):
ATTTATTTAATAATTCATGGACTTTTTAATATTTTTAACCAAATTTTTTAATAAATTTTTATATT
AACCCTCAAATTAATTTAATGACAATTAATGATGTCATTGTCCTAAATAAAGCAAATTTCATATT
GAAAATTTTCAATAATTTCATCATTATAGAAACAAAATGGTAACCATACTTAGCTAATTAAACCT
TATTTCATAAGGAAAAATCATTCCATGAGATGATTATTTAAAATTTTAACCA
Found at i:3744426 original size:15 final size:17
Alignment explanation
Indices: 3744389--3744433 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 17
3744379 TTTGATATTT
*
3744389 TTAAAATATTATTTAAAA
1 TTAATATATTATTT-AAA
3744407 TTAATATATTATTT-AA
1 TTAATATATTATTTAAA
3744423 -TAATATATTAT
1 TTAATATATTAT
3744434 AATTTTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 11 0.42
16 2 0.08
18 13 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TTAATATATTATTTAAA
Found at i:3744445 original size:12 final size:12
Alignment explanation
Indices: 3744430--3744474 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
3744420 TAATAATATA
3744430 TTATAATTTTAT
1 TTATAATTTTAT
3744442 TTATAATTTTAT
1 TTATAATTTTAT
3744454 TT-TAATTTTAT
1 TTATAATTTTAT
*
3744465 ATATTAATTT
1 TTA-TAATTT
3744475 AAAATTTAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 10 0.33
12 14 0.47
13 6 0.20
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TTATAATTTTAT
Found at i:3744454 original size:23 final size:23
Alignment explanation
Indices: 3744415--3744474 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
3744405 AATTAATATA
*
3744415 TTATTTAATAA-TATATTATAATT
1 TTATTT-ATAATTTTATTATAATT
*
3744438 TTATTTATAATTTTATTTTAATT
1 TTATTTATAATTTTATTATAATT
*
3744461 TTATATATTAATTT
1 TTATTTA-TAATTT
3744475 AAAATTTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
22 4 0.12
23 22 0.69
24 6 0.19
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (23 bp):
TTATTTATAATTTTATTATAATT
Found at i:3744459 original size:11 final size:11
Alignment explanation
Indices: 3744428--3744474 Score: 58
Period size: 11 Copynumber: 4.0 Consensus size: 11
3744418 TTTAATAATA
*
3744428 TATTATAATTT
1 TATTTTAATTT
3744439 TATTTATAATTT
1 TATTT-TAATTT
3744451 TATTTTAATTT
1 TATTTTAATTT
3744462 TATATATTAATTT
1 TAT-T-TTAATTT
3744475 AAAATTTAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
11 13 0.41
12 12 0.38
13 7 0.22
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (11 bp):
TATTTTAATTT
Found at i:3744475 original size:18 final size:18
Alignment explanation
Indices: 3744410--3744476 Score: 50
Period size: 18 Copynumber: 3.8 Consensus size: 18
3744400 TTTAAAATTA
**
3744410 ATATATT-ATTTAATAAT
1 ATATATTAATTTAATTTT
*
3744427 ATAT-TATAATTTTA-TTT
1 ATATAT-TAATTTAATTTT
* *
3744444 ATAATTTTATTTTAATTTT
1 AT-ATATTAATTTAATTTT
3744463 ATATATTAATTTAA
1 ATATATTAATTTAA
3744477 AATTTAATTA
Statistics
Matches: 38, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
16 1 0.03
17 8 0.21
18 23 0.61
19 6 0.16
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
ATATATTAATTTAATTTT
Found at i:3745267 original size:16 final size:14
Alignment explanation
Indices: 3745228--3745258 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
3745218 AAATTATTTA
3745228 ATTTTA-ATTTTTT
1 ATTTTATATTTTTT
3745241 ATTTTATATTTTTT
1 ATTTTATATTTTTT
3745255 ATTT
1 ATTT
3745259 AGTATATTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
ATTTTATATTTTTT
Found at i:3745720 original size:19 final size:20
Alignment explanation
Indices: 3745688--3745735 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
3745678 TTATTTGGTA
3745688 ATTATTTTTGCTTT-TTTATT
1 ATTATTTTTGCTTTATTT-TT
3745708 ATTATTTTT-CTTTATTTTT
1 ATTATTTTTGCTTTATTTTT
*
3745727 GTTATTTTT
1 ATTATTTTT
3745736 AATATTTGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 14 0.54
20 12 0.46
ACGTcount: A:0.15, C:0.04, G:0.04, T:0.77
Consensus pattern (20 bp):
ATTATTTTTGCTTTATTTTT
Found at i:3746256 original size:3 final size:3
Alignment explanation
Indices: 3746248--3746276 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
3746238 AAAGAAAAAG
3746248 TAA TAA TAA TAA TAA TAA TAA TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
3746277 AAACAATAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:3746902 original size:246 final size:247
Alignment explanation
Indices: 3746607--3747093 Score: 861
Period size: 247 Copynumber: 2.0 Consensus size: 247
3746597 ATAGATATGG
* * *
3746607 ATTTATTTAATAATTTATTGACTTTTTAATATTTTTAACCAATTTTTTTAAT-AAATTTTATATT
1 ATTTATTTAATAATTCATGGACTTTTTAATATTTTTAACCAAATTTTTTAATAAAATTTTATATT
*
3746671 AACCCTCAAATTAATTTAATGGCAATTAATGATGTCATTGTCCTAAATAAAGCAAATTTCATATT
66 AACCCTCAAATTAATTTAATGACAATTAATGATGTCATTGTCCTAAATAAAGCAAATTTCATATT
3746736 GAAAATTTTCAATAATTTCATCATTATAGAAAC-AAATGGTAACCATACTTAGCTAATGTAAACC
131 GAAAATTTTCAATAATTTCATCATTATAGAAACAAAATGGTAACCATACTTAGCTAAT-TAAACC
*
3746800 TTATTTCATAAGGACAAATCATTCCATGAGATGATTATTTAAAATTTTAACCA
195 TTATTTCATAAGGAAAAATCATTCCATGAGATGATTATTTAAAATTTTAACCA
* *
3746853 ATTTTTTTAATAATTCATGGACTTTTTAATATTTTTAACCAAATTTTTTAATAAAATTTTATGTT
1 ATTTATTTAATAATTCATGGACTTTTTAATATTTTTAACCAAATTTTTTAATAAAATTTTATATT
*
3746918 AACCCTCAAATTAATTTAATGACAATTAATGATGTCATTGTCCTAACTAAAGCAAATTTCATATT
66 AACCCTCAAATTAATTTAATGACAATTAATGATGTCATTGTCCTAAATAAAGCAAATTTCATATT
*
3746983 GAAAATTTTCAATAATTTCATCATTATAGAAACAAAATGGTAACCATACTTAGCTAATTTAACCT
131 GAAAATTTTCAATAATTTCATCATTATAGAAACAAAATGGTAACCATACTTAGCTAATTAAACCT
*
3747048 TATTTCATAAGGAAAAATCATTCCATGAGATGATTATTTAGAATTT
196 TATTTCATAAGGAAAAATCATTCCATGAGATGATTATTTAAAATTT
3747094 CATATGATTT
Statistics
Matches: 229, Mismatches: 10, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
246 48 0.21
247 157 0.69
248 24 0.10
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (247 bp):
ATTTATTTAATAATTCATGGACTTTTTAATATTTTTAACCAAATTTTTTAATAAAATTTTATATT
AACCCTCAAATTAATTTAATGACAATTAATGATGTCATTGTCCTAAATAAAGCAAATTTCATATT
GAAAATTTTCAATAATTTCATCATTATAGAAACAAAATGGTAACCATACTTAGCTAATTAAACCT
TATTTCATAAGGAAAAATCATTCCATGAGATGATTATTTAAAATTTTAACCA
Found at i:3747668 original size:13 final size:14
Alignment explanation
Indices: 3747643--3747673 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
3747633 AAAATAGTAT
3747643 TTTTAAGAATTATA
1 TTTTAAGAATTATA
3747657 TTTTAA-AATTATA
1 TTTTAAGAATTATA
3747670 TTTT
1 TTTT
3747674 TTTTAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (14 bp):
TTTTAAGAATTATA
Found at i:3747675 original size:15 final size:15
Alignment explanation
Indices: 3747640--3747674 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
3747630 GGTAAAATAG
3747640 TATTTTTAAGAATTA
1 TATTTTTAAGAATTA
3747655 TA-TTTTAA-AATTA
1 TATTTTTAAGAATTA
3747668 TATTTTT
1 TATTTTT
3747675 TTTAAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 7 0.37
14 10 0.53
15 2 0.11
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (15 bp):
TATTTTTAAGAATTA
Found at i:3755729 original size:2 final size:2
Alignment explanation
Indices: 3755718--3755763 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
3755708 CAGAGAAAAA
*
3755718 AG AG AA AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
3755760 AG AG
1 AG AG
3755764 GGAAGAGGAG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3756037 original size:13 final size:12
Alignment explanation
Indices: 3756005--3756036 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
3755995 TTTAAGAAAC
3756005 AAAAATA-ATTA
1 AAAAATATATTA
3756016 AAAAATATATTA
1 AAAAATATATTA
3756028 AAAAA-ATAT
1 AAAAATATAT
3756037 AACATTATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (12 bp):
AAAAATATATTA
Found at i:3756407 original size:29 final size:29
Alignment explanation
Indices: 3756338--3756396 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
3756328 TTTTAGATAC
* *
3756338 AAAATA-AAAATATAATATATTATATTTAA
1 AAAATATAAAA-ATAATATAATAAATTTAA
3756367 AAAATATAAAAATAATATAATAAATTTAA
1 AAAATATAAAAATAATATAATAAATTTAA
3756396 A
1 A
3756397 TATATTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 23 0.85
30 4 0.15
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (29 bp):
AAAATATAAAAATAATATAATAAATTTAA
Found at i:3756710 original size:21 final size:23
Alignment explanation
Indices: 3756686--3756727 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
3756676 TATAATAAAA
3756686 TATAACATAAA-ATA-AAATAAT
1 TATAACATAAATATATAAATAAT
*
3756707 TATAATATAAATATATAAATA
1 TATAACATAAATATATAAATA
3756728 TTTTAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
22 3 0.17
23 5 0.28
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (23 bp):
TATAACATAAATATATAAATAAT
Found at i:3756727 original size:28 final size:27
Alignment explanation
Indices: 3756655--3756727 Score: 76
Period size: 31 Copynumber: 2.5 Consensus size: 27
3756645 GAGGATCTAC
3756655 AAATATTATATAA-AAAATAATTATAATA
1 AAATA-TATA-AATAAAATAATTATAATA
3756683 AAATATAACATAAAATAAAATAATTATAATA
1 AAATAT---AT-AAATAAAATAATTATAATA
3756714 TAAATATATAAATA
1 -AAATATATAAATA
3756728 TTTTAAAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
27 1 0.03
28 10 0.26
29 2 0.05
30 4 0.10
31 16 0.41
32 6 0.15
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (27 bp):
AAATATATAAATAAAATAATTATAATA
Found at i:3756735 original size:33 final size:33
Alignment explanation
Indices: 3756668--3756804 Score: 107
Period size: 33 Copynumber: 4.4 Consensus size: 33
3756658 TATTATATAA
* **
3756668 AAAATAATTATAATA-AAATATA-ACATAAAAT
1 AAAATAATTATAATATAAATATATAAATAATTT
*
3756699 AAAATAATTATAATATAAATATATAAATATTTT
1 AAAATAATTATAATATAAATATATAAATAATTT
* * *
3756732 AAAAT-TTATATAATATAAA-A-AT-ATTAATAT
1 AAAATAAT-TATAATATAAATATATAAATAATTT
*
3756762 AAAA-AA--ATTATATAAA-ATAT-AATAATTT
1 AAAATAATTATAATATAAATATATAAATAATTT
3756790 AAATATAATTATAAT
1 AAA-ATAATTATAAT
3756805 TCATAAAATT
Statistics
Matches: 84, Mismatches: 13, Indels: 17
0.74 0.11 0.15
Matches are distributed among these distances:
27 10 0.12
28 11 0.13
29 1 0.01
30 11 0.13
31 17 0.20
32 13 0.15
33 21 0.25
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (33 bp):
AAAATAATTATAATATAAATATATAAATAATTT
Found at i:3756759 original size:14 final size:14
Alignment explanation
Indices: 3756742--3756792 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
3756732 AAAATTTATA
3756742 TAATATAAAAATAT
1 TAATATAAAAATAT
*
3756756 TAATATAAAAAAAT
1 TAATATAAAAATAT
*
3756770 T-ATATAAAATATAA
1 TAATATAAAA-ATAT
*
3756784 TAATTTAAA
1 TAATATAAA
3756793 TATAATTATA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
13 8 0.26
14 17 0.55
15 6 0.19
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
TAATATAAAAATAT
Found at i:3756761 original size:19 final size:19
Alignment explanation
Indices: 3756684--3756763 Score: 53
Period size: 16 Copynumber: 4.4 Consensus size: 19
3756674 ATTATAATAA
* * *
3756684 AATATAACATAAAATAAAAT
1 AATATAATATAAAA-ATATT
*
3756704 AATTATAATATAAATATA-T
1 AA-TATAATATAAAAATATT
* *
3756723 AA-AT-ATTTTAAAAT-TT
1 AATATAATATAAAAATATT
3756739 -ATATAATATAAAAATATT
1 AATATAATATAAAAATATT
3756757 AATATAA
1 AATATAA
3756764 AAAAATTATA
Statistics
Matches: 46, Mismatches: 8, Indels: 13
0.69 0.12 0.19
Matches are distributed among these distances:
15 1 0.02
16 10 0.22
17 10 0.22
18 2 0.04
19 9 0.20
20 4 0.09
21 10 0.22
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (19 bp):
AATATAATATAAAAATATT
Found at i:3756795 original size:34 final size:33
Alignment explanation
Indices: 3756732--3756833 Score: 89
Period size: 34 Copynumber: 3.0 Consensus size: 33
3756722 TAAATATTTT
*
3756732 AAAATTTATATAATATAAAAATATTAATATAAA
1 AAAATTTATAAAATATAAAAATATTAATATAAA
* *
3756765 AAAATTATATAAAATATAATAAT-TTAAATATAATT
1 AAAATT-TATAAAATATAAAAATATT-AATATAA-A
* * * * *
3756800 ATAATTCATAAAATTTTAAAATATTTAAGATAAA
1 AAAATTTATAAAATATAAAAATA-TTAATATAAA
3756834 TTTAAAAAAT
Statistics
Matches: 54, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
33 8 0.15
34 33 0.61
35 11 0.20
36 2 0.04
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (33 bp):
AAAATTTATAAAATATAAAAATATTAATATAAA
Found at i:3757230 original size:9 final size:9
Alignment explanation
Indices: 3757216--3757272 Score: 60
Period size: 9 Copynumber: 6.0 Consensus size: 9
3757206 ATATTTTTAT
*
3757216 ATATATAAA
1 ATATATATA
3757225 ATATATATA
1 ATATATATA
*
3757234 ATAAATATA
1 ATATATATA
3757243 ATATGATGATTA
1 ATAT-AT-A-TA
3757255 ATATATATA
1 ATATATATA
*
3757264 ATATTTATA
1 ATATATATA
3757273 TTTAAATTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
9 29 0.71
10 3 0.07
11 3 0.07
12 6 0.15
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (9 bp):
ATATATATA
Found at i:3757938 original size:28 final size:28
Alignment explanation
Indices: 3757907--3757965 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
3757897 TTAGAGTTTT
3757907 TTTATATATT-TTT-ATAATTAAAAAATTA
1 TTTATA-ATTATTTAAT-ATTAAAAAATTA
*
3757935 TTTATAATTATTTAATGTTAAAAAATTA
1 TTTATAATTATTTAATATTAAAAAATTA
3757963 TTT
1 TTT
3757966 GCTCATTTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 3 0.11
28 23 0.82
29 2 0.07
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (28 bp):
TTTATAATTATTTAATATTAAAAAATTA
Found at i:3758345 original size:14 final size:15
Alignment explanation
Indices: 3758326--3758366 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
3758316 AAAATATATA
3758326 TTATTTTATAAA-TT
1 TTATTTTATAAATTT
3758340 TTA-TTTATAAAATTT
1 TTATTTTAT-AAATTT
3758355 TTATTTTATAAA
1 TTATTTTATAAA
3758367 AAATAAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 5 0.21
14 6 0.25
15 8 0.33
16 5 0.21
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
TTATTTTATAAATTT
Found at i:3758358 original size:15 final size:15
Alignment explanation
Indices: 3758326--3758367 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 15
3758316 AAAATATATA
3758326 TTATTTTAT-AAATT
1 TTATTTTATAAAATT
3758340 TTA-TTTATAAAATTT
1 TTATTTTATAAAA-TT
3758355 TTATTTTATAAAA
1 TTATTTTATAAAA
3758368 AATAAAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 5 0.20
14 6 0.24
15 5 0.20
16 9 0.36
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TTATTTTATAAAATT
Found at i:3758415 original size:14 final size:14
Alignment explanation
Indices: 3758396--3758422 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
3758386 TAATTATTTA
3758396 ATAAATATAAATAT
1 ATAAATATAAATAT
3758410 ATAAATATAAATA
1 ATAAATATAAATA
3758423 AAAATATGAT
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
ATAAATATAAATAT
Found at i:3758558 original size:17 final size:18
Alignment explanation
Indices: 3758523--3758565 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
3758513 CTATTATGTT
3758523 TATTATTTTAATAATTTA
1 TATTATTTTAATAATTTA
*
3758541 TATTATTTTTAT-ATTTA
1 TATTATTTTAATAATTTA
*
3758558 TATAATTT
1 TATTATTT
3758566 ATTTAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 12 0.52
18 11 0.48
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TATTATTTTAATAATTTA
Found at i:3758562 original size:26 final size:27
Alignment explanation
Indices: 3758514--3758567 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 27
3758504 TTACAATATC
3758514 TATTATGTTTATTATTTTAATAATTTA
1 TATTATGTTTATTATTTTAATAATTTA
*
3758541 TATTATTTTTA-TA-TTTATATAATTTA
1 TATTATGTTTATTATTTTA-ATAATTTA
3758567 T
1 T
3758568 TTAAAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 4 0.16
26 11 0.44
27 10 0.40
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (27 bp):
TATTATGTTTATTATTTTAATAATTTA
Found at i:3758733 original size:27 final size:26
Alignment explanation
Indices: 3758678--3758752 Score: 73
Period size: 27 Copynumber: 2.8 Consensus size: 26
3758668 TTATTCACTT
**
3758678 AAAAATAATAAATTTTTAATTTTTAAA
1 AAAAATAAT-AATTAATAATTTTTAAA
3758705 AAAAATAATAATTAATAATTATTTTAAA
1 AAAAATAATAATTAATAA-T-TTTTAAA
*
3758733 ATAAAAT-AT-ATGAATAATTT
1 A-AAAATAATAATTAATAATTT
3758753 AATTTTATGT
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
25 2 0.05
26 8 0.19
27 17 0.40
28 10 0.24
29 5 0.12
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.41
Consensus pattern (26 bp):
AAAAATAATAATTAATAATTTTTAAA
Found at i:3758757 original size:29 final size:30
Alignment explanation
Indices: 3758692--3758759 Score: 81
Period size: 28 Copynumber: 2.3 Consensus size: 30
3758682 ATAATAAATT
*
3758692 TTTAATTTTTAAAAAAAATAATAATTAATAA
1 TTTAA-TTTTAAAAAAAATAATAATGAATAA
3758723 -TT-ATTTTAAAATAAAAT-AT-ATGAATAA
1 TTTAATTTTAAAA-AAAATAATAATGAATAA
3758750 TTTAATTTTA
1 TTTAATTTTA
3758760 TGTTTATTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
27 7 0.21
28 12 0.36
29 12 0.36
30 2 0.06
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (30 bp):
TTTAATTTTAAAAAAAATAATAATGAATAA
Found at i:3759229 original size:20 final size:21
Alignment explanation
Indices: 3759204--3759251 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
3759194 ATGAATATTA
3759204 AAATATAATAATTAA-TTAAT
1 AAATATAATAATTAATTTAAT
*
3759224 AAATAT-ATATTTAATTTAAT
1 AAATATAATAATTAATTTAAT
3759244 -AATATAAT
1 AAATATAAT
3759252 TAAAAATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
AAATATAATAATTAATTTAAT
Found at i:3759234 original size:32 final size:31
Alignment explanation
Indices: 3759198--3759259 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
3759188 AATTAAATGA
3759198 ATATTAAAATATAATAAT-TAATTAATAAATAT
1 ATATT-AAATATAATAATATAATTAA-AAATAT
* *
3759230 ATATTTAATTTAATAATATAATTAAAAATA
1 ATATTAAATATAATAATATAATTAAAAATA
3759260 AAAAAATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 15 0.56
32 12 0.44
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (31 bp):
ATATTAAATATAATAATATAATTAAAAATAT
Found at i:3759239 original size:19 final size:20
Alignment explanation
Indices: 3759204--3759249 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
3759194 ATGAATATTA
3759204 AAATATAATAATTAA-TTAAT
1 AAATAT-ATAATTAATTTAAT
*
3759224 AAATATATATTTAATTTAAT
1 AAATATATAATTAATTTAAT
3759244 -AATATA
1 AAATATA
3759250 ATTAAAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 13 0.54
20 11 0.46
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
AAATATATAATTAATTTAAT
Found at i:3759259 original size:15 final size:15
Alignment explanation
Indices: 3759200--3759299 Score: 55
Period size: 15 Copynumber: 6.5 Consensus size: 15
3759190 TTAAATGAAT
3759200 ATTAAAATATAATAATTA
1 ATTAAAA-ATAAT-A-TA
3759218 ATTAATAAAT-ATATA
1 ATTAA-AAATAATATA
* *
3759233 TTTAATTTAATAATATA
1 ATTAA--AAATAATATA
* *
3759250 ATTAAAAATAAAAAA
1 ATTAAAAATAATATA
**
3759265 ATTAAATCTAA-ATA
1 ATTAAAAATAATATA
*
3759279 CTTAAAAATAA-A-A
1 ATTAAAAATAATATA
3759292 ATTAAAAA
1 ATTAAAAA
3759300 ATTATATTTA
Statistics
Matches: 66, Mismatches: 13, Indels: 11
0.73 0.14 0.12
Matches are distributed among these distances:
13 8 0.12
14 11 0.17
15 22 0.33
16 5 0.08
17 11 0.17
18 7 0.11
19 2 0.03
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (15 bp):
ATTAAAAATAATATA
Found at i:3759768 original size:17 final size:17
Alignment explanation
Indices: 3759746--3759778 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
3759736 AAATGAGTAT
*
3759746 TTAAATTATTATTTTTA
1 TTAAATAATTATTTTTA
3759763 TTAAATAATTATTTTT
1 TTAAATAATTATTTTT
3759779 TTTCTATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTAAATAATTATTTTTA
Found at i:3760067 original size:12 final size:12
Alignment explanation
Indices: 3760050--3760079 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
3760040 AATATAATGG
3760050 TAAAATTAAAAA
1 TAAAATTAAAAA
3760062 TAAAATTAAAAA
1 TAAAATTAAAAA
*
3760074 CAAAAT
1 TAAAAT
3760080 GAGAAAGTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.23
Consensus pattern (12 bp):
TAAAATTAAAAA
Found at i:3760400 original size:23 final size:23
Alignment explanation
Indices: 3760372--3760418 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
3760362 CTTAACTATT
* *
3760372 TATATTTTTATTTCATACTCGTA
1 TATATTATTATTTCATAATCGTA
*
3760395 TATATTATTATTTTATAATCGTA
1 TATATTATTATTTCATAATCGTA
3760418 T
1 T
3760419 TTAAAATATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.30, C:0.09, G:0.04, T:0.57
Consensus pattern (23 bp):
TATATTATTATTTCATAATCGTA
Found at i:3760448 original size:27 final size:26
Alignment explanation
Indices: 3760418--3760511 Score: 75
Period size: 27 Copynumber: 3.5 Consensus size: 26
3760408 TATAATCGTA
3760418 TTTAAAATATTTTATATTTATATAAAT
1 TTTAAAATA-TTTATATTTATATAAAT
* *
3760445 TTTAATATATTAATAATTTATATTATAAT
1 TTTAAAATATTTAT-ATTTATA-TA-AAT
* *
3760474 ATTTTAAA-ATTTATATTCATATCAAAT
1 -TTTAAAATATTTATATTTATAT-AAAT
*
3760501 TTT-TAATATTT
1 TTTAAAATATTT
3760512 TATACGTATT
Statistics
Matches: 54, Mismatches: 7, Indels: 13
0.73 0.09 0.18
Matches are distributed among these distances:
25 2 0.04
26 11 0.20
27 19 0.35
28 9 0.17
29 8 0.15
30 5 0.09
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (26 bp):
TTTAAAATATTTATATTTATATAAAT
Found at i:3760460 original size:18 final size:17
Alignment explanation
Indices: 3760426--3760532 Score: 51
Period size: 17 Copynumber: 5.9 Consensus size: 17
3760416 TATTTAAAAT
3760426 ATTTTATATTTATATAA
1 ATTTTATATTTATATAA
3760443 ATTTTAATATATTA-AT-A
1 ATTTT-ATAT-TTATATAA
3760460 A-TTTATATTATAATATTTTAA
1 ATTTTATATT-T-ATA---TAA
* *
3760481 AATTTATATTCATATCAA
1 ATTTTATATTTATAT-AA
*
3760499 ATTTTTAATATTT-TATAC
1 A-TTTT-ATATTTATATAA
* *
3760517 GTATTATATTTATATA
1 ATTTTATATTTATATA
3760533 GTAATATTCA
Statistics
Matches: 70, Mismatches: 6, Indels: 28
0.67 0.06 0.27
Matches are distributed among these distances:
14 1 0.01
15 5 0.07
16 10 0.14
17 16 0.23
18 10 0.14
19 9 0.13
20 9 0.13
21 2 0.03
22 8 0.11
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (17 bp):
ATTTTATATTTATATAA
Found at i:3760465 original size:55 final size:56
Alignment explanation
Indices: 3760394--3760509 Score: 130
Period size: 55 Copynumber: 2.1 Consensus size: 56
3760384 TCATACTCGT
* * ** *
3760394 ATATATTATTATTTTATA-ATCGTATTTAAAATATTTTATATTTATAT-AAA-TTTTA
1 ATATATTAATAATTTATATATAATATTTAAAA-A-TTTATATTCATATCAAATTTTTA
*
3760449 ATATATTAATAATTTATATTATAATATTTTAAAATTTATATTCATATCAAATTTTTA
1 ATATATTAATAATTTATA-TATAATATTTAAAAATTTATATTCATATCAAATTTTTA
3760506 ATAT
1 ATAT
3760510 TTTATACGTA
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
55 28 0.55
56 4 0.08
57 19 0.37
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (56 bp):
ATATATTAATAATTTATATATAATATTTAAAAATTTATATTCATATCAAATTTTTA
Found at i:3760487 original size:22 final size:23
Alignment explanation
Indices: 3760447--3760490 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
3760437 ATATAAATTT
3760447 TAATATATTAATAATTTATATTA
1 TAATATATTAATAATTTATATTA
*
3760470 TAATATTTTAA-AATTTATATT
1 TAATATATTAATAATTTATATT
3760491 CATATCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
TAATATATTAATAATTTATATTA
Found at i:3760799 original size:18 final size:18
Alignment explanation
Indices: 3760767--3760801 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
3760757 TTATATAATA
3760767 TTAATATAAAAAATATAT
1 TTAATATAAAAAATATAT
3760785 TTAA-ATAAAATAATATA
1 TTAATATAAAA-AATATA
3760802 AAAGATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
TTAATATAAAAAATATAT
Found at i:3761572 original size:26 final size:26
Alignment explanation
Indices: 3761543--3761595 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
3761533 GACGGATCTA
*
3761543 TACTCGTGCCTTAATATATATTTTTT
1 TACTCATGCCTTAATATATATTTTTT
3761569 TACTCATGCCTTAATATATATTTTTT
1 TACTCATGCCTTAATATATATTTTTT
3761595 T
1 T
3761596 GAAGTGTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.25, C:0.15, G:0.06, T:0.55
Consensus pattern (26 bp):
TACTCATGCCTTAATATATATTTTTT
Found at i:3761713 original size:3 final size:3
Alignment explanation
Indices: 3761705--3761734 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
3761695 TGAATAATTG
3761705 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
3761735 GGTTAAGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:3769120 original size:40 final size:40
Alignment explanation
Indices: 3769034--3769124 Score: 105
Period size: 40 Copynumber: 2.3 Consensus size: 40
3769024 TAATTAATCA
* * * *
3769034 TTAATAAATATGTAATTTCTTACTTCATTTTTATTAATTG
1 TTAATAAACATGTAATTTCTTACTCCATTTTAAGTAATTG
*
3769074 TAAATAAACATGTAATTTCTTACTCCAATTTTAAGT-ATCT-
1 TTAATAAACATGTAATTTCTTACTCC-ATTTTAAGTAAT-TG
3769114 TTAATAAACAT
1 TTAATAAACAT
3769125 TTTCCTTTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
40 35 0.81
41 8 0.19
ACGTcount: A:0.37, C:0.11, G:0.04, T:0.47
Consensus pattern (40 bp):
TTAATAAACATGTAATTTCTTACTCCATTTTAAGTAATTG
Found at i:3769519 original size:15 final size:15
Alignment explanation
Indices: 3769501--3769530 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
3769491 TAGGAAATAT
3769501 AACTATTTTCCAACA
1 AACTATTTTCCAACA
3769516 AACTATTTTCCAACA
1 AACTATTTTCCAACA
3769531 GAAGGGCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.27, G:0.00, T:0.33
Consensus pattern (15 bp):
AACTATTTTCCAACA
Found at i:3771518 original size:15 final size:16
Alignment explanation
Indices: 3771493--3771531 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
3771483 TTTATAATTA
3771493 AATTTAAATAAA-AAT
1 AATTTAAATAAATAAT
* *
3771508 ATTTTATATAAATAAT
1 AATTTAAATAAATAAT
3771524 AATTTAAA
1 AATTTAAA
3771532 ACGAATTTAC
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AATTTAAATAAATAAT
Found at i:3775504 original size:20 final size:19
Alignment explanation
Indices: 3775481--3775566 Score: 56
Period size: 20 Copynumber: 4.6 Consensus size: 19
3775471 AATTTAATAA
3775481 TTTAATAATTTATACATATT
1 TTTAATAATTTATA-ATATT
* * **
3775501 TTT-AT-ATTAATAAAAAA
1 TTTAATAATTTATAATATT
*
3775518 TTTAA-AATTT-TATTTATT
1 TTTAATAATTTATA-ATATT
3775536 TTTAATAATATTA-AATTATT
1 TTTAATAAT-TTATAA-TATT
3775556 TTTAATAATTT
1 TTTAATAATTT
3775567 TCATCAAAAC
Statistics
Matches: 49, Mismatches: 10, Indels: 15
0.66 0.14 0.20
Matches are distributed among these distances:
17 7 0.14
18 16 0.33
19 7 0.14
20 19 0.39
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTAATAATTTATAATATT
Found at i:3775674 original size:13 final size:14
Alignment explanation
Indices: 3775641--3775709 Score: 54
Period size: 13 Copynumber: 4.9 Consensus size: 14
3775631 TAAAATTTTT
*
3775641 ATTTAAA-AT-AAT
1 ATTTAAATATAAAA
*
3775653 ATTTGAATA-AAAA
1 ATTTAAATATAAAA
3775666 ATTTAAATATAAAAATA
1 ATTTAAATAT--AAA-A
*
3775683 ATTATAAATATTAAA
1 ATT-TAAATATAAAA
3775698 ATTTAAATATAA
1 ATTTAAATATAA
3775710 TATTTTTTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
12 6 0.13
13 11 0.24
14 8 0.18
15 4 0.09
16 5 0.11
17 4 0.09
18 7 0.16
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (14 bp):
ATTTAAATATAAAA
Found at i:3775692 original size:18 final size:17
Alignment explanation
Indices: 3775661--3775699 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
3775651 ATATTTGAAT
3775661 AAAA-AATTTAAATATA
1 AAAATAATTTAAATATA
*
3775677 AAAATAATTATAAATATT
1 AAAATAATT-TAAATATA
3775695 AAAAT
1 AAAAT
3775700 TTAAATATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 4 0.20
18 12 0.60
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AAAATAATTTAAATATA
Found at i:3776378 original size:22 final size:21
Alignment explanation
Indices: 3776348--3776391 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
3776338 TAATAAATTA
3776348 TTAAAATAAAAAAATATTATTT
1 TTAAAATAAAAAAATATT-TTT
* **
3776370 TTAATATAATTAAATATTTTT
1 TTAAAATAAAAAAATATTTTT
3776391 T
1 T
3776392 ATTACTTAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TTAAAATAAAAAAATATTTTT
Found at i:3776631 original size:16 final size:17
Alignment explanation
Indices: 3776597--3776645 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
3776587 GAGTTATATA
*
3776597 AATATAATATA-ATAGAT
1 AATATAAAATATA-AGAT
3776614 AAT-TAAAATATAAGAT
1 AATATAAAATATAAGAT
*
3776630 AATATGAAATATAAGA
1 AATATAAAATATAAGA
3776646 ATATTTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 13 0.46
17 15 0.54
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.31
Consensus pattern (17 bp):
AATATAAAATATAAGAT
Found at i:3776710 original size:27 final size:28
Alignment explanation
Indices: 3776631--3776713 Score: 80
Period size: 31 Copynumber: 2.8 Consensus size: 28
3776621 ATATAAGATA
3776631 ATATGAAATATAAGAATATTTTAAAATTTAT
1 ATAT-AAATATAA-AATATTTTAAAA-TTAT
* *
3776662 ATATATGAAT-TATTAATTTTTTAAAA-TAT
1 ATATA--AATATA-AAATATTTTAAAATTAT
3776691 ATATAAATATAAAATATTTTAAA
1 ATATAAATATAAAATATTTTAAA
3776714 TATGATTATA
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
27 13 0.30
28 2 0.05
29 8 0.18
30 1 0.02
31 17 0.39
32 3 0.07
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.45
Consensus pattern (28 bp):
ATATAAATATAAAATATTTTAAAATTAT
Found at i:3776715 original size:16 final size:17
Alignment explanation
Indices: 3776683--3776716 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
3776673 ATTAATTTTT
3776683 TAAAATATATATAAATA
1 TAAAATATATATAAATA
*
3776700 TAAAATAT-TTTAAATA
1 TAAAATATATATAAATA
3776716 T
1 T
3776717 GATTATAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TAAAATATATATAAATA
Found at i:3776726 original size:27 final size:27
Alignment explanation
Indices: 3776680--3776731 Score: 63
Period size: 27 Copynumber: 1.9 Consensus size: 27
3776670 ATTATTAATT
*
3776680 TTTTAAAATATATATAAATATAAAATA
1 TTTTAAAATATATATAAATAAAAAATA
3776707 TTTT-AAATATGAT-TATAATAAAAAA
1 TTTTAAAATAT-ATATA-AATAAAAAA
3776732 AATATAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (27 bp):
TTTTAAAATATATATAAATAAAAAATA
Found at i:3778829 original size:25 final size:26
Alignment explanation
Indices: 3778792--3778863 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 26
3778782 AAAGCTTTGT
*
3778792 TATATGTATAAAATAATATTTTTA-AAA
1 TATATTTA-AAAAT-ATATTTTTATAAA
*
3778819 TAT-TTTAAAAATTATATTTTTATAAC
1 TATATTTAAAAA-TATATTTTTATAAA
3778845 TATATTTAAATAATATATT
1 TATATTTAAA-AATATATT
3778864 AATTAAAAGT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
25 13 0.33
26 9 0.23
27 15 0.38
28 2 0.05
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (26 bp):
TATATTTAAAAATATATTTTTATAAA
Found at i:3778857 original size:14 final size:13
Alignment explanation
Indices: 3778802--3778863 Score: 51
Period size: 14 Copynumber: 4.9 Consensus size: 13
3778792 TATATGTATA
3778802 AAATAATAT-TTT
1 AAATAATATATTT
*
3778814 TAA-AATAT-TTT
1 AAATAATATATTT
3778825 AAA-AATTATATTT
1 AAATAA-TATATTT
**
3778838 TTATAACTATATTT
1 AAATAA-TATATTT
3778852 AAATAATATATT
1 AAATAATATATT
3778864 AATTAAAAGT
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
11 12 0.30
12 5 0.12
13 10 0.25
14 13 0.32
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (13 bp):
AAATAATATATTT
Found at i:3778861 original size:27 final size:25
Alignment explanation
Indices: 3778801--3778863 Score: 74
Period size: 25 Copynumber: 2.4 Consensus size: 25
3778791 TTATATGTAT
*
3778801 AAAATAATATTTTTAAAATATTTTA
1 AAAATTATATTTTTAAAATATTTTA
*
3778826 AAAATTATATTTTTATAACTATATTTA
1 AAAATTATATTTTTA-AAATAT-TTTA
3778853 AATAA-TATATT
1 AA-AATTATATT
3778864 AATTAAAAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
25 14 0.42
26 5 0.15
27 12 0.36
28 2 0.06
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (25 bp):
AAAATTATATTTTTAAAATATTTTA
Found at i:3786797 original size:12 final size:12
Alignment explanation
Indices: 3786780--3786823 Score: 52
Period size: 12 Copynumber: 3.3 Consensus size: 12
3786770 TTTAATTTTA
3786780 AAATATAATAAT
1 AAATATAATAAT
3786792 AAATATCAATAAAAAT
1 AAATAT-AAT---AAT
3786808 AAATATAATAAT
1 AAATATAATAAT
3786820 AAAT
1 AAAT
3786824 TTTAATATCC
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
12 13 0.46
13 3 0.11
15 3 0.11
16 9 0.32
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (12 bp):
AAATATAATAAT
Found at i:3786823 original size:16 final size:17
Alignment explanation
Indices: 3786784--3786823 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
3786774 ATTTTAAAAT
3786784 ATAAT-AATAAATATCA
1 ATAATAAATAAATATCA
3786800 ATAA-AAATAAATAT-A
1 ATAATAAATAAATATCA
3786815 ATAATAAAT
1 ATAATAAAT
3786824 TTTAATATCC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 5 0.23
16 17 0.77
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (17 bp):
ATAATAAATAAATATCA
Found at i:3787864 original size:24 final size:23
Alignment explanation
Indices: 3787835--3787883 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
3787825 ATTTGAATTA
* *
3787835 AATTAATATAAAATTTATTTTATT
1 AATTAAAATAAAATTAATTTT-TT
*
3787859 AATTAAAATAATATTAATTTTTT
1 AATTAAAATAAAATTAATTTTTT
3787882 AA
1 AA
3787884 AAAATCATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
AATTAAAATAAAATTAATTTTTT
Found at i:3787873 original size:20 final size:20
Alignment explanation
Indices: 3787836--3787873 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
3787826 TTTGAATTAA
*
3787836 ATTAATATAAAATTTATTTT
1 ATTAATATAAAATATATTTT
3787856 ATTAAT-TAAAATAATATT
1 ATTAATATAAAAT-ATATT
3787874 AATTTTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATTAATATAAAATATATTTT
Found at i:3787901 original size:23 final size:25
Alignment explanation
Indices: 3787849--3787945 Score: 62
Period size: 21 Copynumber: 3.9 Consensus size: 25
3787839 AATATAAAAT
3787849 TTATTTTATTAATTAAAATAATATTA
1 TTATTTTATTAA-TAAAATAATATTA
*
3787875 --ATTTT-TTAA-AAAATCATATTA
1 TTATTTTATTAATAAAATAATATTA
* * *
3787896 TTATTTATACTTAAATTAAATAAAAATAA
1 TTATTT-TA-TT-AATAAAAT-AATATTA
3787925 TTA-TTTATT-ATATAAATAATA
1 TTATTTTATTAATA-AAATAATA
3787946 ATTAAAATAA
Statistics
Matches: 55, Mismatches: 7, Indels: 20
0.67 0.09 0.24
Matches are distributed among these distances:
21 11 0.20
23 8 0.15
24 11 0.20
25 4 0.07
26 4 0.07
27 4 0.07
28 6 0.11
29 7 0.13
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.48
Consensus pattern (25 bp):
TTATTTTATTAATAAAATAATATTA
Found at i:3788027 original size:81 final size:85
Alignment explanation
Indices: 3787858--3788034 Score: 299
Period size: 81 Copynumber: 2.1 Consensus size: 85
3787848 TTTATTTTAT
3787858 TAATTAAAATAATATTAATTTTTTAAAAAATCATATTATTATTTATACTTAAATTAAATAAAAAT
1 TAATTAAAATAATATTAATTTTTTAAAAAATCATATTATTATTTATAC-TAAATTAAATAAAAAT
3787923 AATTATTTATTATATAAATAA
65 AATTATTTATTATATAAATAA
*
3787944 TAATTAAAATAATATTAATTTTTTAAAAAATTATATTATTA-TT-TA-T-AATTAAATAAAAATA
1 TAATTAAAATAATATTAATTTTTTAAAAAATCATATTATTATTTATACTAAATTAAATAAAAATA
3788005 ATTATTTATTATATAAATAA
66 ATTATTTATTATATAAATAA
*
3788025 TAATTTAAAT
1 TAATTAAAAT
3788035 TTAATATAAT
Statistics
Matches: 89, Mismatches: 2, Indels: 5
0.93 0.02 0.05
Matches are distributed among these distances:
81 44 0.49
82 1 0.01
84 2 0.02
85 2 0.02
86 40 0.45
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (85 bp):
TAATTAAAATAATATTAATTTTTTAAAAAATCATATTATTATTTATACTAAATTAAATAAAAATA
ATTATTTATTATATAAATAA
Found at i:3788547 original size:2 final size:2
Alignment explanation
Indices: 3788540--3788574 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
3788530 CACGTTTCTT
3788540 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3788575 GTACATTACT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3794778 original size:11 final size:10
Alignment explanation
Indices: 3794758--3794795 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
3794748 ATTTTAAAAT
3794758 ATTTATTTAA
1 ATTTATTTAA
3794768 ATTTAATTT-A
1 ATTT-ATTTAA
3794778 ATATTATTTAA
1 AT-TTATTTAA
3794789 ATTTATT
1 ATTTATT
3794796 ATATTGAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 16 0.64
11 9 0.36
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (10 bp):
ATTTATTTAA
Found at i:3798694 original size:23 final size:23
Alignment explanation
Indices: 3798660--3798709 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
3798650 GGTTCAATGT
3798660 TTTGGATACTAAAATAAAAAATC
1 TTTGGATACTAAAATAAAAAATC
*
3798683 TTTGGATTCTAAAATAAAAAATC
1 TTTGGATACTAAAATAAAAAATC
3798706 TTTG
1 TTTG
3798710 TTTACCAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.46, C:0.08, G:0.10, T:0.36
Consensus pattern (23 bp):
TTTGGATACTAAAATAAAAAATC
Found at i:3799058 original size:36 final size:36
Alignment explanation
Indices: 3799011--3799084 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
3799001 CATTGTGCTC
3799011 GGGTTGGATTTGCCATCAGTAGACTCCTCGACAGTA
1 GGGTTGGATTTGCCATCAGTAGACTCCTCGACAGTA
*
3799047 GGGTTGTATTTGCCATCAGTAGACTCCTCGACAGTA
1 GGGTTGGATTTGCCATCAGTAGACTCCTCGACAGTA
3799083 GG
1 GG
3799085 TTTGCCCTGC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (36 bp):
GGGTTGGATTTGCCATCAGTAGACTCCTCGACAGTA
Found at i:3810952 original size:20 final size:18
Alignment explanation
Indices: 3810927--3810970 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
3810917 TATTTTAATA
3810927 ATTTAAATTAAATATTATTT
1 ATTTAAA-TAAA-ATTATTT
3810947 ATTT-AATAAAATTATTT
1 ATTTAAATAAAATTATTT
*
3810964 TTTTAAA
1 ATTTAAA
3810971 ATTTATTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 10 0.45
18 6 0.27
19 2 0.09
20 4 0.18
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTTAAATAAAATTATTT
Found at i:3810970 original size:14 final size:15
Alignment explanation
Indices: 3810934--3810980 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 15
3810924 ATAATTTAAA
3810934 TTAAATATTATTTATT
1 TTAAA-ATTATTTATT
3810950 TAATAAAATTATTT-TT
1 T--TAAAATTATTTATT
3810966 TTAAAATTTATTTAT
1 TTAAAA-TTATTTAT
3810981 AAAATATTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
16 5 0.19
17 7 0.26
18 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TTAAAATTATTTATT
Found at i:3813162 original size:2 final size:2
Alignment explanation
Indices: 3813157--3813182 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3813147 ATGTGTGTGT
3813157 GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA
3813183 TCTAGTTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:3815879 original size:22 final size:22
Alignment explanation
Indices: 3815851--3815912 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 22
3815841 AGATAAAAAT
* *
3815851 TAAATTATTTAATTTTATTTGA
1 TAAATTATTTAATTTTATATAA
*
3815873 TAAATTATATTTA-TTTA-ATAA
1 TAAATTAT-TTAATTTTATATAA
3815894 TAAATATATTTAATTTTAT
1 TAAAT-TATTTAATTTTAT
3815913 GTTTAATTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
21 10 0.31
22 19 0.59
23 3 0.09
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
TAAATTATTTAATTTTATATAA
Found at i:3815993 original size:20 final size:20
Alignment explanation
Indices: 3815943--3815993 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
3815933 TTTCAACTTG
*
3815943 AATTTTAATT-TAAATTAAA
1 AATTTTAATTATTAATTAAA
*
3815962 AATTTT-ACTATTAATTAAA
1 AATTTTAATTATTAATTAAA
3815981 AATTTTAATTATT
1 AATTTTAATTATT
3815994 TAAATTGTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 2 0.07
19 20 0.74
20 5 0.19
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (20 bp):
AATTTTAATTATTAATTAAA
Found at i:3823528 original size:44 final size:44
Alignment explanation
Indices: 3823465--3823549 Score: 170
Period size: 44 Copynumber: 1.9 Consensus size: 44
3823455 GTATGATACT
3823465 TCACCCCTCATAAACGAACTAGACACCAGTTTGAGATTGTTTAA
1 TCACCCCTCATAAACGAACTAGACACCAGTTTGAGATTGTTTAA
3823509 TCACCCCTCATAAACGAACTAGACACCAGTTTGAGATTGTT
1 TCACCCCTCATAAACGAACTAGACACCAGTTTGAGATTGTT
3823550 GCCATTTCCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (44 bp):
TCACCCCTCATAAACGAACTAGACACCAGTTTGAGATTGTTTAA
Found at i:3829819 original size:22 final size:23
Alignment explanation
Indices: 3829786--3829866 Score: 78
Period size: 22 Copynumber: 3.4 Consensus size: 23
3829776 TTTATTTTAA
3829786 TATTTATTATATTAATAAAATAT
1 TATTTATTATATTAATAAAATAT
**
3829809 TATTT-TTATATTAAT-ATTTAT
1 TATTTATTATATTAATAAAATAT
3829830 ATATTT-TTATAATTAAATAAAAATAT
1 -TATTTATTAT-ATT-AAT-AAAATAT
3829856 TAGTTTATTAT
1 TA-TTTATTAT
3829867 TAAATAATAA
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
21 4 0.09
22 19 0.40
23 8 0.17
24 3 0.06
25 2 0.04
26 7 0.15
27 4 0.09
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (23 bp):
TATTTATTATATTAATAAAATAT
Found at i:3829868 original size:47 final size:44
Alignment explanation
Indices: 3829781--3829869 Score: 110
Period size: 47 Copynumber: 2.0 Consensus size: 44
3829771 GAAAGTTTAT
*
3829781 TTTAATATTTATTATATTAATAAAATATTATTTTTATATTAATA
1 TTTAATATTTATTATATTAATAAAATATTATTTATATATTAATA
3829825 TTTATATATTT-TTATAATTAAATAAAAATATTAGTTTAT-TATTAA
1 TTTA-ATATTTATTAT-ATT-AAT-AAAATATTA-TTTATATATTAA
3829870 ATAATAATTT
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
44 8 0.21
45 9 0.23
46 3 0.08
47 15 0.38
48 4 0.10
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (44 bp):
TTTAATATTTATTATATTAATAAAATATTATTTATATATTAATA
Found at i:3837842 original size:17 final size:17
Alignment explanation
Indices: 3837820--3837859 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
3837810 TAAAAACATG
*
3837820 AAAAATTAAAAGAGAAT
1 AAAAATTAAAAGAGAAA
* *
3837837 AAAAATTGAAAGATAAA
1 AAAAATTAAAAGAGAAA
3837854 AAAAAT
1 AAAAAT
3837860 ATATCTTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.17
Consensus pattern (17 bp):
AAAAATTAAAAGAGAAA
Found at i:3838303 original size:4 final size:4
Alignment explanation
Indices: 3838294--3838323 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
3838284 AATCCAACGT
*
3838294 ATAC ATAC ATAC ATAC ATAT ATAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
3838324 GACAGTAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (4 bp):
ATAC
Found at i:3839142 original size:12 final size:13
Alignment explanation
Indices: 3839125--3839157 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
3839115 TATGAACACA
3839125 AAATAAAT-AAAT
1 AAATAAATAAAAT
3839137 AAATAAATAAAAT
1 AAATAAATAAAAT
*
3839150 AAAGAAAT
1 AAATAAAT
3839158 TGAGCTAGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (13 bp):
AAATAAATAAAAT
Found at i:3840455 original size:28 final size:28
Alignment explanation
Indices: 3840371--3840458 Score: 76
Period size: 31 Copynumber: 3.1 Consensus size: 28
3840361 TGTATTATTT
*
3840371 TTTTATATTTAAAATT-TTAAAT--AATA
1 TTTTATA-TTAATATTATTAAATAAAATA
*
3840397 TCTTTAT-TATAATTTTATTTAACATATAAATA
1 T-TTTATAT-TAATATTA-TTAA-ATA-AAATA
3840429 TTTTATATTAATATTATTAAATAAAATA
1 TTTTATATTAATATTATTAAATAAAATA
3840457 TT
1 TT
3840459 GGCGCGGTAG
Statistics
Matches: 50, Mismatches: 3, Indels: 16
0.72 0.04 0.23
Matches are distributed among these distances:
25 1 0.02
26 6 0.12
27 5 0.10
28 11 0.22
29 5 0.10
30 4 0.08
31 12 0.24
32 6 0.12
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (28 bp):
TTTTATATTAATATTATTAAATAAAATA
Found at i:3842539 original size:16 final size:16
Alignment explanation
Indices: 3842510--3842551 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
3842500 ATATAATAAG
3842510 TATAAATATAAAAAAA
1 TATAAATATAAAAAAA
* *
3842526 TATAATTATTAAAAAA
1 TATAAATATAAAAAAA
*
3842542 TTTAAA-ATAA
1 TATAAATATAA
3842552 TTAAATATAT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
15 3 0.14
16 18 0.86
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
TATAAATATAAAAAAA
Found at i:3843380 original size:28 final size:30
Alignment explanation
Indices: 3843347--3843423 Score: 88
Period size: 32 Copynumber: 2.5 Consensus size: 30
3843337 CCACAATCAT
*
3843347 ATTTAAAATATTATATTT-T-T-ATATAAA
1 ATTTAATATATTATATTTATATCATATAAA
3843374 ATTTTAATATATTAATAATTTATATCATATAAA
1 A-TTTAATATATT-AT-ATTTATATCATATAAA
3843407 ATTTAATATATTTATAT
1 ATTTAATATA-TTATAT
3843424 CATAATTATT
Statistics
Matches: 42, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
27 1 0.02
28 10 0.24
29 2 0.05
30 4 0.10
31 3 0.07
32 12 0.29
33 10 0.24
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (30 bp):
ATTTAATATATTATATTTATATCATATAAA
Found at i:3843409 original size:16 final size:16
Alignment explanation
Indices: 3843366--3843411 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
3843356 ATTATATTTT
3843366 TATATAAAATTT-TAA
1 TATATAAAATTTATAA
3843381 TATATTAATAATTTAT-A
1 TATA-TAA-AATTTATAA
3843398 TCATATAAAATTTA
1 T-ATATAAAATTTA
3843412 ATATATTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 4 0.15
16 9 0.33
17 10 0.37
18 4 0.15
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (16 bp):
TATATAAAATTTATAA
Found at i:3843458 original size:25 final size:25
Alignment explanation
Indices: 3843420--3843482 Score: 71
Period size: 24 Copynumber: 2.6 Consensus size: 25
3843410 TAATATATTT
3843420 ATATCATAATTATTTTA-TTTTTAC
1 ATATCATAATTATTTTACTTTTTAC
* *
3843444 ATATTATAATATATTTTACTTTTT-T
1 ATATCATAAT-TATTTTACTTTTTAC
3843469 ATAT-AT-ATTATTTT
1 ATATCATAATTATTTT
3843483 TACCATATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
22 6 0.17
23 2 0.06
24 11 0.31
25 11 0.31
26 5 0.14
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (25 bp):
ATATCATAATTATTTTACTTTTTAC
Found at i:3845002 original size:14 final size:14
Alignment explanation
Indices: 3844967--3845013 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
3844957 TTTATTCAAT
*
3844967 ATTTAAAAAATTTAA
1 ATTTAAAATA-TTAA
*
3844982 A-TAAAAATATTAA
1 ATTTAAAATATTAA
3844995 ATTTAAAATATTAA
1 ATTTAAAATATTAA
3845009 ATTTA
1 ATTTA
3845014 TTTAAAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 5 0.18
14 22 0.79
15 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
ATTTAAAATATTAA
Found at i:3845130 original size:17 final size:17
Alignment explanation
Indices: 3845105--3845143 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
3845095 AATTTATATT
3845105 ATATAAAATATTAAAAA
1 ATATAAAATATTAAAAA
* *
3845122 ATATTAAATTTTAAAAA
1 ATATAAAATATTAAAAA
*
3845139 TTATA
1 ATATA
3845144 TATAATATAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
ATATAAAATATTAAAAA
Found at i:3845368 original size:3 final size:3
Alignment explanation
Indices: 3845360--3845409 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
3845350 TATAAAAGGT
*
3845360 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
3845408 TA
1 TA
3845410 GCCAAAGATT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:3845741 original size:19 final size:21
Alignment explanation
Indices: 3845713--3845754 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
3845703 AATTTATGTA
3845713 TTTATATTATT-TAA-TATAT
1 TTTATATTATTATAATTATAT
*
3845732 TTTATTTTATTATAATTATAT
1 TTTATATTATTATAATTATAT
3845753 TT
1 TT
3845755 AAAATATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 10 0.50
20 3 0.15
21 7 0.35
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTATATTATTATAATTATAT
Found at i:3845745 original size:15 final size:16
Alignment explanation
Indices: 3845720--3845815 Score: 76
Period size: 15 Copynumber: 6.2 Consensus size: 16
3845710 GTATTTATAT
3845720 TATTTAATATATTTTA
1 TATTTAATATATTTTA
* *
3845736 T-TTTATTATA-ATTA
1 TATTTAATATATTTTA
*
3845750 TATTTAAAATATTTTA
1 TATTTAATATATTTTA
*
3845766 TATTTATATAAATTTTAA
1 TATTTA-ATATATTTT-A
* *
3845784 TATATAA-ATAATTTA
1 TATTTAATATATTTTA
*
3845799 TA-TT-ATATATATTA
1 TATTTAATATATTTTA
3845813 TAT
1 TAT
3845816 AAATTTTAAA
Statistics
Matches: 61, Mismatches: 13, Indels: 13
0.70 0.15 0.15
Matches are distributed among these distances:
13 1 0.02
14 13 0.21
15 18 0.30
16 15 0.25
17 8 0.13
18 6 0.10
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TATTTAATATATTTTA
Found at i:3845756 original size:30 final size:28
Alignment explanation
Indices: 3845720--3845788 Score: 88
Period size: 30 Copynumber: 2.4 Consensus size: 28
3845710 GTATTTATAT
3845720 TATTTAATATATTTTAT-TTTATTATAATTA
1 TATTTAATATATTTTATATTTA-TATAA--A
*
3845750 TATTTAAAATATTTTATATTTATATAAA
1 TATTTAATATATTTTATATTTATATAAA
3845778 T-TTTAATATAT
1 TATTTAATATAT
3845789 AAATAATTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
27 9 0.25
28 2 0.06
30 21 0.58
31 4 0.11
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (28 bp):
TATTTAATATATTTTATATTTATATAAA
Done.