Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold3
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: 6198200
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 200361 characters in sequence are not A, C, G, or T
File 23 of 32
Found at i:3860482 original size:11 final size:11
Alignment explanation
Indices: 3860463--3860497 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
3860453 GATCAAATTA
*
3860463 ATTAAATAAAT
1 ATTATATAAAT
*
3860474 ATTATATAAAA
1 ATTATATAAAT
3860485 ATTATATAAAT
1 ATTATATAAAT
3860496 AT
1 AT
3860498 ATAAATTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
ATTATATAAAT
Found at i:3860486 original size:26 final size:27
Alignment explanation
Indices: 3860457--3860517 Score: 67
Period size: 26 Copynumber: 2.3 Consensus size: 27
3860447 TATAATGATC
*
3860457 AAATTAATTAAATA-A-ATATTATATAA
1 AAATTAATTAAATATATAAATTA-ATAA
3860483 AAATT-ATATAAATATATAAATTAATAA
1 AAATTAAT-TAAATATATAAATTAATAA
3860510 AAA-TAATT
1 AAATTAATT
3860518 TTTTTCTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
25 2 0.07
26 13 0.43
27 10 0.33
28 5 0.17
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (27 bp):
AAATTAATTAAATATATAAATTAATAA
Found at i:3860497 original size:17 final size:16
Alignment explanation
Indices: 3860477--3860515 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
3860467 AATAAATATT
3860477 ATATAAAAATTATATAA
1 ATATAAAAATTA-ATAA
*
3860494 ATATATAAATTAATAA
1 ATATAAAAATTAATAA
*
3860510 AAATAA
1 ATATAA
3860516 TTTTTTTCTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
ATATAAAAATTAATAA
Found at i:3860975 original size:26 final size:27
Alignment explanation
Indices: 3860938--3860990 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
3860928 GTGGGATGTT
* *
3860938 ATTTTTTTAAATAAGAAAA-TAGATAA
1 ATTTTTTAAAATAAAAAAATTAGATAA
3860964 ATTTTTTAAAATAAAAAAATTAGATAA
1 ATTTTTTAAAATAAAAAAATTAGATAA
3860991 TTAATTATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 17 0.71
27 7 0.29
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.38
Consensus pattern (27 bp):
ATTTTTTAAAATAAAAAAATTAGATAA
Found at i:3864996 original size:20 final size:20
Alignment explanation
Indices: 3864963--3865065 Score: 54
Period size: 20 Copynumber: 5.2 Consensus size: 20
3864953 TAATGATTAC
3864963 TATAAAAA-ACTAAAATATAA
1 TATAAAAATA-TAAAATATAA
3864983 TATAAAAATAT-AAATAT--
1 TATAAAAATATAAAATATAA
* * *
3865000 TTTAAAATTTATATAATATAAAA
1 TATAAAA---ATATAAAATATAA
* * *
3865023 TATTAATATATTAAAAT-TTA
1 TATAAAAATA-TAAAATATAA
* *
3865043 TATAAATATATAAATTATAA
1 TATAAAAATATAAAATATAA
3865063 TAT
1 TAT
3865066 CTAATCGAAA
Statistics
Matches: 62, Mismatches: 12, Indels: 18
0.67 0.13 0.20
Matches are distributed among these distances:
17 6 0.10
19 11 0.18
20 31 0.50
21 10 0.16
23 4 0.06
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (20 bp):
TATAAAAATATAAAATATAA
Found at i:3865016 original size:33 final size:33
Alignment explanation
Indices: 3864977--3865062 Score: 120
Period size: 32 Copynumber: 2.6 Consensus size: 33
3864967 AAAAACTAAA
*
3864977 ATATAATATAAAAATATAAATATTTTAAAATTT
1 ATATAATATAAAAATATAAATATATTAAAATTT
*
3865010 ATATAATAT-AAAATATTAATATATTAAAATTT
1 ATATAATATAAAAATATAAATATATTAAAATTT
*
3865042 ATATAAATATATAAATTATAA
1 ATAT-AATATA-AAAATATAA
3865063 TATCTAATCG
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
32 25 0.54
33 14 0.30
35 7 0.15
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (33 bp):
ATATAATATAAAAATATAAATATATTAAAATTT
Found at i:3865058 original size:18 final size:17
Alignment explanation
Indices: 3865002--3865058 Score: 66
Period size: 16 Copynumber: 3.4 Consensus size: 17
3864992 ATAAATATTT
3865002 TAAAATTTATAT-AATA
1 TAAAATTTATATAAATA
*
3865018 TAAAATATTA-ATATAT-
1 TAAAAT-TTATATAAATA
3865034 TAAAATTTATATAAATA
1 TAAAATTTATATAAATA
3865051 TATAAATT
1 TA-AAATT
3865059 ATAATATCTA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
15 3 0.09
16 19 0.56
17 7 0.21
18 5 0.15
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TAAAATTTATATAAATA
Found at i:3868927 original size:2 final size:2
Alignment explanation
Indices: 3868920--3868949 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
3868910 ATAATAGGCT
3868920 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3868950 CACACACACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3873810 original size:2 final size:2
Alignment explanation
Indices: 3873797--3873829 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
3873787 TTTCACCCAT
*
3873797 TA TA TA TG 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 T
3873830 GAACAAGTAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3878513 original size:15 final size:15
Alignment explanation
Indices: 3878490--3878543 Score: 51
Period size: 15 Copynumber: 3.8 Consensus size: 15
3878480 AGATTTTAAA
*
3878490 ATTATTATATAAAAT
1 ATTAATATATAAAAT
*
3878505 ATTAATATATTAAAT
1 ATTAATATATAAAAT
*
3878520 -TT-ATATATAATAT
1 ATTAATATATAAAAT
*
3878533 ATAAAT-TATAA
1 ATTAATATATAA
3878544 TACTAATCGA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
13 9 0.28
14 8 0.25
15 15 0.47
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTAATATATAAAAT
Found at i:3878528 original size:28 final size:29
Alignment explanation
Indices: 3878471--3878537 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
3878461 AATATAAATA
*
3878471 AAAATATAAAGATTTTAAAATTATTATAT
1 AAAATATAAAGATATTAAAATTATTATAT
* * *
3878500 AAAATATTAATATATTAAATTTA-TATAT
1 AAAATATAAAGATATTAAAATTATTATAT
*
3878528 AATATATAAA
1 AAAATATAAA
3878538 TTATAATACT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 13 0.41
29 19 0.59
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (29 bp):
AAAATATAAAGATATTAAAATTATTATAT
Found at i:3878550 original size:20 final size:19
Alignment explanation
Indices: 3878502--3878550 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 19
3878492 TATTATATAA
3878502 AATATTAATATATTAAATTT
1 AATA-TAATATATTAAATTT
3878522 ATATATAATATA-TAAATTAT
1 A-ATATAATATATTAAATT-T
3878542 AATACTAAT
1 AATA-TAAT
3878551 CGAAAGGAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 9 0.35
20 14 0.54
21 3 0.12
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (19 bp):
AATATAATATATTAAATTT
Found at i:3880881 original size:20 final size:20
Alignment explanation
Indices: 3880849--3880886 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
3880839 AGTAACTTGA
3880849 TCATTGTGTTGAGAAATTCC
1 TCATTGTGTTGAGAAATTCC
*
3880869 TCATT-TGTATGAGGAATT
1 TCATTGTGT-TGAGAAATT
3880887 GGTTTTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.26, C:0.11, G:0.21, T:0.42
Consensus pattern (20 bp):
TCATTGTGTTGAGAAATTCC
Found at i:3887769 original size:26 final size:27
Alignment explanation
Indices: 3887733--3887785 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
3887723 GTGGGATGTT
3887733 ATTTTTTT-AAATAAGAAAA-TAGATAA
1 ATTTTTTTAAAATAA-AAAATTAGATAA
3887759 ATTTTTTTAAAATAAAAAATTAGATAA
1 ATTTTTTTAAAATAAAAAATTAGATAA
3887786 TTAATATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 12 0.48
27 13 0.52
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.40
Consensus pattern (27 bp):
ATTTTTTTAAAATAAAAAATTAGATAA
Found at i:3891807 original size:32 final size:33
Alignment explanation
Indices: 3891766--3891850 Score: 120
Period size: 32 Copynumber: 2.6 Consensus size: 33
3891756 AAAAACTAAA
3891766 ATATAATATAAAAATATAAATAT-TTAAAATTT
1 ATATAATATAAAAATATAAATATATTAAAATTT
*
3891798 ATATAATAT-AAAATATTAATATATTAAAATTT
1 ATATAATATAAAAATATAAATATATTAAAATTT
*
3891830 ATATAAATATATAAATTATAA
1 ATAT-AATATA-AAAATATAA
3891851 TATCTAATCG
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
31 12 0.26
32 22 0.48
33 5 0.11
35 7 0.15
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (33 bp):
ATATAATATAAAAATATAAATATATTAAAATTT
Found at i:3891840 original size:8 final size:8
Alignment explanation
Indices: 3891771--3891850 Score: 51
Period size: 8 Copynumber: 9.8 Consensus size: 8
3891761 CTAAAATATA
*
3891771 ATATAAAA
1 ATATAAAT
3891779 ATATAAAT
1 ATATAAAT
*
3891787 ATTTAAAAT
1 ATAT-AAAT
*
3891796 TTATATAAT
1 ATATA-AAT
3891805 ATA-AAAT
1 ATATAAAT
3891812 AT-T-AAT
1 ATATAAAT
3891818 ATATTAAAATTT
1 ATA-T-AAA--T
3891830 ATATAAAT
1 ATATAAAT
3891838 ATATAAAT
1 ATATAAAT
3891846 -TATAA
1 ATATAA
3891851 TATCTAATCG
Statistics
Matches: 58, Mismatches: 5, Indels: 19
0.71 0.06 0.23
Matches are distributed among these distances:
6 5 0.09
7 10 0.17
8 22 0.38
9 11 0.19
10 5 0.09
11 1 0.02
12 4 0.07
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
ATATAAAT
Found at i:3891846 original size:18 final size:17
Alignment explanation
Indices: 3891779--3891846 Score: 70
Period size: 16 Copynumber: 3.9 Consensus size: 17
3891769 TAATATAAAA
3891779 ATATAAATATTTAAAATTT
1 ATATAAATA--TAAAATTT
3891798 ATAT-AATATAAAATATT
1 ATATAAATATAAAAT-TT
*
3891815 A-ATATAT-TAAAATTT
1 ATATAAATATAAAATTT
3891830 ATATAAATATATAAATT
1 ATATAAATATA-AAATT
3891847 ATAATATCTA
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
15 3 0.07
16 19 0.45
17 7 0.17
18 9 0.21
19 4 0.10
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATATAAATATAAAATTT
Found at i:3892375 original size:14 final size:15
Alignment explanation
Indices: 3892347--3892378 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
3892337 AATATAAAGA
3892347 AAAATTATAAATCTT
1 AAAATTATAAATCTT
3892362 AAAATTAT-AATCTT
1 AAAATTATAAATCTT
3892376 AAA
1 AAA
3892379 TTTAATAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (15 bp):
AAAATTATAAATCTT
Found at i:3895700 original size:2 final size:2
Alignment explanation
Indices: 3895693--3895746 Score: 99
Period size: 2 Copynumber: 27.0 Consensus size: 2
3895683 ATAATAGGCT
3895693 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
3895735 TA TA TC TA TA TA
1 TA TA TA TA TA TA
3895747 CACACACACA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3900608 original size:2 final size:2
Alignment explanation
Indices: 3900595--3900627 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
3900585 TTTCACCCAT
*
3900595 TA TA TA TG 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 T
3900628 GAACAAGTAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3907569 original size:21 final size:20
Alignment explanation
Indices: 3907544--3907595 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
3907534 GAATTAAATC
*
3907544 TAAAAATTTAAATTATTATTA
1 TAAAAATTTAAAATATT-TTA
* *
3907565 T-AAAATAATAAAATATTTTT
1 TAAAAAT-TTAAAATATTTTA
3907585 TAAAAATTTAA
1 TAAAAATTTAA
3907596 TTTTATATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
20 11 0.44
21 14 0.56
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
TAAAAATTTAAAATATTTTA
Found at i:3907645 original size:28 final size:27
Alignment explanation
Indices: 3907583--3907645 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
3907573 TAAAATATTT
*
3907583 TTTAAA-AATTTAATTTTATATTAATA
1 TTTAAATATTTTAATTTTATATTAATA
**
3907609 TTTTTATATTTTATATTTTATAATTAA-A
1 TTTAAATATTTTA-ATTTTAT-ATTAATA
3907637 TTTAAATAT
1 TTTAAATAT
3907646 AAATTTTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
26 4 0.14
27 5 0.17
28 15 0.52
29 5 0.17
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (27 bp):
TTTAAATATTTTAATTTTATATTAATA
Found at i:3907815 original size:59 final size:59
Alignment explanation
Indices: 3907745--3907863 Score: 193
Period size: 59 Copynumber: 2.0 Consensus size: 59
3907735 TTAATTGACC
*
3907745 GATGTTTGGATAAATTTATAGTCGCCCTAGAAAATGGATTGGGGCATCATCAAATAATT
1 GATGTTTGGATAAATTTATAGTCGCCCTAGAAAATGGATTGCGGCATCATCAAATAATT
* * **
3907804 GATGTTTGGATAAGTTTATTGTCGCTTTAGAAAATGGATTGCGGCATCATCAAATAATT
1 GATGTTTGGATAAATTTATAGTCGCCCTAGAAAATGGATTGCGGCATCATCAAATAATT
3907863 G
1 G
3907864 TCACACCTTC
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
59 55 1.00
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.34
Consensus pattern (59 bp):
GATGTTTGGATAAATTTATAGTCGCCCTAGAAAATGGATTGCGGCATCATCAAATAATT
Found at i:3911369 original size:17 final size:18
Alignment explanation
Indices: 3911324--3911372 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
3911314 CACTATTTGT
*
3911324 TAAATTATAAATATAATA
1 TAAATTTTAAATATAATA
*
3911342 TAAATTATTAAATATATTA
1 TAAATT-TTAAATATAATA
3911361 -AAATTTTAAATA
1 TAAATTTTAAATA
3911373 CAAAAATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 7 0.25
18 11 0.39
19 10 0.36
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TAAATTTTAAATATAATA
Found at i:3911450 original size:13 final size:13
Alignment explanation
Indices: 3911417--3911453 Score: 53
Period size: 11 Copynumber: 3.1 Consensus size: 13
3911407 TAAAAAATCA
3911417 TATTTAA-TATAT
1 TATTTAATTATAT
3911429 TATTT--TTATAT
1 TATTTAATTATAT
3911440 TATTTAATTATAT
1 TATTTAATTATAT
3911453 T
1 T
3911454 TAGACACAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
11 10 0.45
12 5 0.23
13 7 0.32
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (13 bp):
TATTTAATTATAT
Found at i:3911455 original size:53 final size:53
Alignment explanation
Indices: 3911394--3911506 Score: 156
Period size: 53 Copynumber: 2.1 Consensus size: 53
3911384 TATATTATAT
*
3911394 ATATATTTAAACATAAAAAATCATATTTAATATATTATTTTTATA-TTATTTAA
1 ATATATTTAAACACAAAAAATCATATTTAATATATTATTTTTATATTTA-TTAA
* * * * *
3911447 TTATATTTAGACACAAAATATTATATTTATTATATTATTTTTATATTTATTAA
1 ATATATTTAAACACAAAAAATCATATTTAATATATTATTTTTATATTTATTAA
3911500 ATATATT
1 ATATATT
3911507 GTATTATAAC
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
53 49 0.94
54 3 0.06
ACGTcount: A:0.43, C:0.04, G:0.01, T:0.52
Consensus pattern (53 bp):
ATATATTTAAACACAAAAAATCATATTTAATATATTATTTTTATATTTATTAA
Found at i:3913664 original size:27 final size:27
Alignment explanation
Indices: 3913604--3913666 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
3913594 ACTAAAAAAT
*
3913604 ATAAAAAATAATTAAATTTATACATAA
1 ATAAAAATTAATTAAATTTATACATAA
* * *
3913631 AT-TAAATTAATTTAAATTT-TATATTA
1 ATAAAAATTAA-TTAAATTTATACATAA
3913657 ATAAAAATTA
1 ATAAAAATTA
3913667 TATCTATTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
26 13 0.45
27 16 0.55
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (27 bp):
ATAAAAATTAATTAAATTTATACATAA
Found at i:3914897 original size:17 final size:17
Alignment explanation
Indices: 3914852--3914921 Score: 60
Period size: 17 Copynumber: 4.2 Consensus size: 17
3914842 TTTTAAATTT
3914852 TATAT-AATAT-AAAT-
1 TATATAAATATAAAATA
3914866 TAT-TAATATATTAAAATA
1 TATATAA-ATA-TAAAATA
*
3914884 TATATGAATATAAAATA
1 TATATAAATATAAAATA
*
3914901 T-TTTAAATATAATAATA
1 TATATAAATATAA-AATA
3914918 TATA
1 TATA
3914922 CATATAATAT
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
13 1 0.02
14 4 0.09
15 3 0.07
16 10 0.23
17 17 0.39
18 7 0.16
19 2 0.05
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (17 bp):
TATATAAATATAAAATA
Found at i:3922999 original size:2 final size:2
Alignment explanation
Indices: 3922992--3923025 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
3922982 ATTTCTAGGC
3922992 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
3923026 TTCTAAGGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3926236 original size:16 final size:18
Alignment explanation
Indices: 3926215--3926249 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
3926205 TACATATTAA
3926215 TTTGTTT-TTTT-TTTTT
1 TTTGTTTCTTTTCTTTTT
3926231 TTTGTTTCTTTTCTTTTT
1 TTTGTTTCTTTTCTTTTT
3926249 T
1 T
3926250 AAACTTGGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 4 0.24
18 6 0.35
ACGTcount: A:0.00, C:0.06, G:0.06, T:0.89
Consensus pattern (18 bp):
TTTGTTTCTTTTCTTTTT
Found at i:3929263 original size:15 final size:15
Alignment explanation
Indices: 3929231--3929313 Score: 57
Period size: 14 Copynumber: 5.5 Consensus size: 15
3929221 AATATAAATT
* *
3929231 TATATAATTTA-TAT
1 TATATAAATTATTAA
3929245 TATATAAATTATTAA
1 TATATAAATTATTAA
3929260 TATATAAATTTATATAA
1 TATATAAA-TTAT-TAA
* * *
3929277 AATAAATAATAATTTAA
1 TATATA-AATTA-TTAA
3929294 -ATAT-AATTA-TAA
1 TATATAAATTATTAA
3929306 TATATAAA
1 TATATAAA
3929314 AATAATATAA
Statistics
Matches: 55, Mismatches: 7, Indels: 14
0.72 0.09 0.18
Matches are distributed among these distances:
12 3 0.05
13 4 0.07
14 16 0.29
15 10 0.18
16 7 0.13
17 12 0.22
18 3 0.05
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATATAAATTATTAA
Found at i:3929275 original size:27 final size:26
Alignment explanation
Indices: 3929231--3929313 Score: 79
Period size: 21 Copynumber: 3.3 Consensus size: 26
3929221 AATATAAATT
*
3929231 TATATAATTTATATTATATAAATTATTAA
1 TATATAAATT-TA-TATATAAATTA-TAA
3929260 TATATAAATTTATATA-AAA-TA-AA
1 TATATAAATTTATATATAAATTATAA
*
3929283 TA-AT-AATTTAAATAT-AATTATAA
1 TATATAAATTTATATATAAATTATAA
3929306 TATATAAA
1 TATATAAA
3929314 AATAATATAA
Statistics
Matches: 47, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
21 11 0.23
22 4 0.09
23 8 0.17
24 2 0.04
25 4 0.09
26 3 0.06
27 4 0.09
28 2 0.04
29 9 0.19
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
TATATAAATTTATATATAAATTATAA
Found at i:3929326 original size:6 final size:6
Alignment explanation
Indices: 3929271--3929328 Score: 50
Period size: 6 Copynumber: 9.8 Consensus size: 6
3929261 ATATAAATTT
* * *
3929271 ATATAA A-ATAA ATA-ATA ATTTAA ATATAA TTATAA TATATAA AAAT-A
1 ATATAA ATATAA ATATA-A ATATAA ATATAA ATATAA -ATATAA ATATAA
3929318 ATATAA ATATA
1 ATATAA ATATA
3929329 CGATGCAACC
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
5 10 0.24
6 25 0.61
7 6 0.15
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (6 bp):
ATATAA
Found at i:3929605 original size:21 final size:21
Alignment explanation
Indices: 3929577--3929617 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
3929567 GATAAAATCA
3929577 TTTTAATTTAA-ATTATTTTC
1 TTTTAATTTAACATTATTTTC
3929597 TTTTGAATTTAATCATTATTT
1 TTTT-AATTTAA-CATTATTT
3929618 AATTAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 7 0.39
23 7 0.39
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (21 bp):
TTTTAATTTAACATTATTTTC
Found at i:3939762 original size:118 final size:115
Alignment explanation
Indices: 3939621--3939996 Score: 520
Period size: 118 Copynumber: 3.2 Consensus size: 115
3939611 GGTGGCAGTT
* ** * *
3939621 TAAGTTTGGGTGACTTGATGTCACTTAGTGTGGTAGTCTAGGTCGCCTTGGTGGCGATCTAAGTT
1 TAAGTTTGAGTGACTTGGCGTCACTTAGTGTGGTAATC-AGGCCGCCTTGGTGGCGATCTAAGTT
* * *
3939686 TGGGTGACTTAGTGTCACTTAGTGTG-GTAATTTGGATCGCCTTGGTGGTGATC
65 TGGGTGACTTAGTGTCACCTAGTGTGTG-AA-TCGGGTC-CCTTGGTGGTGATC
*
3939739 TAAGCTTGAGTGACTTGGCGTCACTTAGTGTGGTAATCAGGCCGCCTTGGTGGCGATCTAAGTTT
1 TAAGTTTGAGTGACTTGGCGTCACTTAGTGTGGTAATCAGGCCGCCTTGGTGGCGATCTAAGTTT
* ** * *
3939804 GGGTGACTTAGTGTCACCTAGTCTGTGAATCGGGTCATTTAGTTTGGGCGATC
66 GGGTGACTTAGTGTCACCTAGTGTGTGAATCGGGTCCCTT-G-GT-GGTGATC
* *
3939857 TAAGTTTGAATGACTTGGCGTTACTTAGTGTGGTAATCAGGCCGCCTTGGTGGCGATCTAAGTTT
1 TAAGTTTGAGTGACTTGGCGTCACTTAGTGTGGTAATCAGGCCGCCTTGGTGGCGATCTAAGTTT
*
3939922 GGGTGACTTAGTGTCACCTAGTGTGTGAATCGGGTCACCTTGGTGGTGAAC
66 GGGTGACTTAGTGTCACCTAGTGTGTGAATCGGGTC-CCTTGGTGGTGATC
3939973 TAAGTTTGAGTGACTTGGCGTCAC
1 TAAGTTTGAGTGACTTGGCGTCAC
3939997 CCACTGCGCG
Statistics
Matches: 228, Mismatches: 25, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
115 2 0.01
116 33 0.14
117 53 0.23
118 138 0.61
119 2 0.01
ACGTcount: A:0.18, C:0.16, G:0.32, T:0.34
Consensus pattern (115 bp):
TAAGTTTGAGTGACTTGGCGTCACTTAGTGTGGTAATCAGGCCGCCTTGGTGGCGATCTAAGTTT
GGGTGACTTAGTGTCACCTAGTGTGTGAATCGGGTCCCTTGGTGGTGATC
Found at i:3939811 original size:58 final size:58
Alignment explanation
Indices: 3939606--3940032 Score: 405
Period size: 58 Copynumber: 7.3 Consensus size: 58
3939596 AATCTGGGTT
* * *
3939606 GCCTTGGTGGC-AGTTTAAGTTTGGGTGACTTGATGTCACTTAGTGTGGTAGTCTAGGTC
1 GCCTTGGTGGCGA-TCTAAGTTTGGGTGACTTGGTGTCACTTAGTGTGGTAATC-AGGTC
* **
3939665 GCCTTGGTGGCGATCTAAGTTTGGGTGACTTAGTGTCACTTAGTGTGGTAATTTGGATC
1 GCCTTGGTGGCGATCTAAGTTTGGGTGACTTGGTGTCACTTAGTGTGGTAATCAGG-TC
* * * * *
3939724 GCCTTGGTGGTGATCTAAGCTTGAGTGACTTGGCGTCACTTAGTGTGGTAATCAGGCC
1 GCCTTGGTGGCGATCTAAGTTTGGGTGACTTGGTGTCACTTAGTGTGGTAATCAGGTC
* * * *
3939782 GCCTTGGTGGCGATCTAAGTTTGGGTGACTTAGTGTCACCTAGTCT-GTGAATCGGGTC
1 GCCTTGGTGGCGATCTAAGTTTGGGTGACTTGGTGTCACTTAGTGTGGT-AATCAGGTC
** * ** * * *
3939840 -ATTTAGTTTGGGCGATCTAAGTTTGAATGACTTGGCGTTACTTAGTGTGGTAATCAGGCC
1 GCCTT-G-GT-GGCGATCTAAGTTTGGGTGACTTGGTGTCACTTAGTGTGGTAATCAGGTC
* * *
3939900 GCCTTGGTGGCGATCTAAGTTTGGGTGACTTAGTGTCACCTAGTGT-GTGAATCGGGTC
1 GCCTTGGTGGCGATCTAAGTTTGGGTGACTTGGTGTCACTTAGTGTGGT-AATCAGGTC
* * * * * ** * * *
3939958 ACCTTGGTGGTGAACTAAGTTTGAGTGACTTGGCGTCACCCACTGCGCG-AATCTGGTC
1 GCCTTGGTGGCGATCTAAGTTTGGGTGACTTGGTGTCACTTAGTGTG-GTAATCAGGTC
*
3940016 GCCTTGGTGACGATCTA
1 GCCTTGGTGGCGATCTA
3940033 TGGTTGTAGT
Statistics
Matches: 297, Mismatches: 60, Indels: 23
0.78 0.16 0.06
Matches are distributed among these distances:
57 6 0.02
58 147 0.49
59 99 0.33
60 41 0.14
61 4 0.01
ACGTcount: A:0.17, C:0.17, G:0.32, T:0.33
Consensus pattern (58 bp):
GCCTTGGTGGCGATCTAAGTTTGGGTGACTTGGTGTCACTTAGTGTGGTAATCAGGTC
Found at i:3939917 original size:176 final size:177
Alignment explanation
Indices: 3939673--3939997 Score: 429
Period size: 176 Copynumber: 1.8 Consensus size: 177
3939663 TCGCCTTGGT
** * ** * *
3939673 GGCGATCTAAGTTTGGGTGACTTAGTGTCACTTAGTGTGGTAATTTGGATCGCCTTGGTGGTGAT
1 GGCGATCTAAGTTTGAATGACTTAGCGTCACTTAGTGTGGTAATCAGGACCGCCTTGGTGGCGAT
* * * *
3939738 CTAAGCTTGAGTGACTTGGCGTCACTTAGTGTG-GTAATCAGGCCGCCTTGGTGGCGATCTAAGT
66 CTAAGCTTGAGTGACTTAGCGTCACCTAGTGTGTG-AATCAGGCCACCTTGGTGGCGAACTAAGT
* *
3939802 TTGGGTGACTTAGTGTCACCTAGTCTGTGAATCGGGTCATTTAGTTTG
130 TTGAGTGACTTAGCGTCACCTAGTCTGTGAATCGGGTCATTTAGTTTG
* *
3939850 GGCGATCTAAGTTTGAATGACTTGGCGTTACTTAGTGTGGTAATCAGG-CCGCCTTGGTGGCGAT
1 GGCGATCTAAGTTTGAATGACTTAGCGTCACTTAGTGTGGTAATCAGGACCGCCTTGGTGGCGAT
* * * * * *
3939914 CTAAGTTTGGGTGACTTAGTGTCACCTAGTGTGTGAATCGGGTCACCTTGGTGGTGAACTAAGTT
66 CTAAGCTTGAGTGACTTAGCGTCACCTAGTGTGTGAATCAGGCCACCTTGGTGGCGAACTAAGTT
*
3939979 TGAGTGACTTGGCGTCACC
131 TGAGTGACTTAGCGTCACC
3939998 CACTGCGCGA
Statistics
Matches: 125, Mismatches: 22, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
176 83 0.66
177 42 0.34
ACGTcount: A:0.18, C:0.17, G:0.32, T:0.34
Consensus pattern (177 bp):
GGCGATCTAAGTTTGAATGACTTAGCGTCACTTAGTGTGGTAATCAGGACCGCCTTGGTGGCGAT
CTAAGCTTGAGTGACTTAGCGTCACCTAGTGTGTGAATCAGGCCACCTTGGTGGCGAACTAAGTT
TGAGTGACTTAGCGTCACCTAGTCTGTGAATCGGGTCATTTAGTTTG
Found at i:3944946 original size:34 final size:34
Alignment explanation
Indices: 3944889--3944953 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
3944879 TATGTTCGAG
* * * *
3944889 GGGTGAATACGATCGTAATGCTTGGTGACCAAAA
1 GGGTGAACACGATCGCAACGCTTGATGACCAAAA
*
3944923 GGGTGAACACGATCGCCACGCTTGATGACCA
1 GGGTGAACACGATCGCAACGCTTGATGACCA
3944954 GACTTGGACG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (34 bp):
GGGTGAACACGATCGCAACGCTTGATGACCAAAA
Found at i:3945493 original size:14 final size:14
Alignment explanation
Indices: 3945474--3945500 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
3945464 ATCAAGTGCC
3945474 AAAATAAATAAAAT
1 AAAATAAATAAAAT
3945488 AAAATAAATAAAA
1 AAAATAAATAAAA
3945501 GGAAAAAAGC
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:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
AAAATAAATAAAAT
Found at i:3974673 original size:13 final size:13
Alignment explanation
Indices: 3974655--3974679 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3974645 ATATATAGAG
3974655 AGAAATAAAATAT
1 AGAAATAAAATAT
3974668 AGAAATAAAATA
1 AGAAATAAAATA
3974680 ATCAAGAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.20
Consensus pattern (13 bp):
AGAAATAAAATAT
Found at i:3975135 original size:3 final size:3
Alignment explanation
Indices: 3975127--3975162 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
3975117 TTCCTTCACT
3975127 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
3975163 AATTCAATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:3976215 original size:17 final size:16
Alignment explanation
Indices: 3976193--3976245 Score: 52
Period size: 17 Copynumber: 3.2 Consensus size: 16
3976183 ATTGAAGTTT
3976193 ATTTTATTATTTTAAAA
1 ATTTTA-TATTTTAAAA
* *
3976210 ATTTTAAATTATTAATA
1 ATTTTATATT-TTAAAA
* *
3976227 TTTTTATATTTTTAAA
1 ATTTTATATTTTAAAA
3976243 ATT
1 ATT
3976246 AAATTTAAAT
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
16 9 0.32
17 19 0.68
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
ATTTTATATTTTAAAA
Found at i:3976271 original size:29 final size:31
Alignment explanation
Indices: 3976238--3976307 Score: 76
Period size: 29 Copynumber: 2.3 Consensus size: 31
3976228 TTTTATATTT
*
3976238 TTAAAATTA-AATTTAAA-TAATATTT-TTAA
1 TTAAAATTATAATTTAAATTAA-ATTTACTAA
*
3976267 TT-AAATAATAATTTAAATTAAATTTAACTAA
1 TTAAAATTATAATTTAAATTAAATTT-ACTAA
3976298 TTAAAATTAT
1 TTAAAATTAT
3976308 TAAATATAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
28 5 0.15
29 14 0.42
30 3 0.09
31 5 0.15
32 6 0.18
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (31 bp):
TTAAAATTATAATTTAAATTAAATTTACTAA
Found at i:3976272 original size:17 final size:17
Alignment explanation
Indices: 3976244--3976289 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
3976234 ATTTTTAAAA
*
3976244 TTAAATTTAAATAATATT
1 TTAAA-TTAAATAATAAT
*
3976262 TTTAATTAAATAATAAT
1 TTAAATTAAATAATAAT
3976279 TTAAATTAAAT
1 TTAAATTAAAT
3976290 TTAACTAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 21 0.84
18 4 0.16
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TTAAATTAAATAATAAT
Found at i:3976293 original size:23 final size:22
Alignment explanation
Indices: 3976241--3976344 Score: 75
Period size: 23 Copynumber: 5.0 Consensus size: 22
3976231 TATATTTTTA
3976241 AAATTAAATTTAAATAATATTT
1 AAATTAAATTTAAATAATATTT
3976263 ---TT-AA-TTAAATAATAATTT
1 AAATTAAATTTAAATAAT-ATTT
* *
3976281 AAATTAAATTTAACT-A-ATTA
1 AAATTAAATTTAAATAATATTT
*
3976301 AAATT--ATTAAATATAATATTT
1 AAATTAAATTTAA-ATAATATTT
*
3976322 AAATTTAATTTAATATAA-ATTT
1 AAATTAAATTTAA-ATAATATTT
3976344 A
1 A
3976345 CTATGCGATC
Statistics
Matches: 65, Mismatches: 6, Indels: 22
0.70 0.06 0.24
Matches are distributed among these distances:
17 9 0.14
18 11 0.17
19 3 0.05
20 9 0.14
21 10 0.15
22 8 0.12
23 15 0.23
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (22 bp):
AAATTAAATTTAAATAATATTT
Found at i:3976641 original size:2 final size:2
Alignment explanation
Indices: 3976634--3976663 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
3976624 CCTAAGATAC
3976634 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
3976664 GGACAAAAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3978849 original size:21 final size:22
Alignment explanation
Indices: 3978813--3978859 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
3978803 CTATAAAAAC
3978813 ATAATACGAAAAATA-TATATAT
1 ATAATACGAAAAATATTA-ATAT
*
3978835 ATAATA-GAAATATATTAATAT
1 ATAATACGAAAAATATTAATAT
3978856 ATAA
1 ATAA
3978860 AATAACGATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (22 bp):
ATAATACGAAAAATATTAATAT
Found at i:3981506 original size:26 final size:21
Alignment explanation
Indices: 3981449--3981497 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
3981439 ATTTTTGATA
*
3981449 AAAATATTATATTATGAAAAT
1 AAAATATTGTATTATGAAAAT
3981470 AAAATATTGTATTATGAAAAT
1 AAAATATTGTATTATGAAAAT
*
3981491 AAGATAT
1 AAAATAT
3981498 AAGTTTGTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.55, C:0.00, G:0.08, T:0.37
Consensus pattern (21 bp):
AAAATATTGTATTATGAAAAT
Found at i:3981947 original size:2 final size:2
Alignment explanation
Indices: 3981940--3981965 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3981930 ACATAGAATA
3981940 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
3981966 GTCTTTCACC
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:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3983573 original size:22 final size:22
Alignment explanation
Indices: 3983520--3983600 Score: 60
Period size: 22 Copynumber: 3.7 Consensus size: 22
3983510 TTATTTTTTA
* *
3983520 TAAT-ATTTAAATTTAAAATAT
1 TAATAATTTATATATAAAATAT
*
3983541 TATTTAA-TTATATATAAAATAT
1 TA-ATAATTTATATATAAAATAT
*
3983563 TAATAATTTATGTTATATAAATAT
1 TAATAATTTAT-ATATA-AAATAT
* *
3983587 AAATATTTTA-ATAT
1 TAATAATTTATATAT
3983601 TTTATTTATA
Statistics
Matches: 47, Mismatches: 8, Indels: 9
0.73 0.12 0.14
Matches are distributed among these distances:
21 5 0.11
22 23 0.49
23 5 0.11
24 14 0.30
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (22 bp):
TAATAATTTATATATAAAATAT
Found at i:3983589 original size:31 final size:31
Alignment explanation
Indices: 3983552--3983611 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
3983542 ATTTAATTAT
3983552 ATATAAA-ATATTAATAATTTATGTTATATAA
1 ATATAAATATATTAATAATTTAT-TTATATAA
* *
3983583 ATATAAATATTTTAATATTTTATTTATAT
1 ATATAAATATATTAATAATTTATTTATAT
3983612 TATTTTTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 13 0.50
32 13 0.50
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (31 bp):
ATATAAATATATTAATAATTTATTTATATAA
Found at i:3985879 original size:3 final size:3
Alignment explanation
Indices: 3985873--3985916 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
3985863 GCTACAGCTA
* * * *
3985873 CAG CAG CAG CAG CAG CAG CAT CAG CAT CAG CAT CAG CAT CAG CA
1 CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CA
3985917 TCAGGCAATT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.34, C:0.34, G:0.23, T:0.09
Consensus pattern (3 bp):
CAG
Found at i:3985882 original size:6 final size:6
Alignment explanation
Indices: 3985876--3985920 Score: 72
Period size: 6 Copynumber: 7.5 Consensus size: 6
3985866 ACAGCTACAG
* *
3985876 CAGCAG CAGCAG CAGCAT CAGCAT CAGCAT CAGCAT CAGCAT CAG
1 CAGCAT CAGCAT CAGCAT CAGCAT CAGCAT CAGCAT CAGCAT CAG
3985921 GCAATTACTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.33, C:0.33, G:0.22, T:0.11
Consensus pattern (6 bp):
CAGCAT
Found at i:3987298 original size:27 final size:27
Alignment explanation
Indices: 3987268--3987321 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
3987258 TCTATTGAGA
3987268 CTGGACTTCACCGATACTTGTAAGAAT
1 CTGGACTTCACCGATACTTGTAAGAAT
3987295 CTGGACTTCACCGATACTTGTAAGAAT
1 CTGGACTTCACCGATACTTGTAAGAAT
3987322 TCATACAGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.30
Consensus pattern (27 bp):
CTGGACTTCACCGATACTTGTAAGAAT
Found at i:3987395 original size:2 final size:2
Alignment explanation
Indices: 3987340--3987377 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
3987330 CTTTATTTGA
*
3987340 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3987378 TTTAAAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:3989843 original size:2 final size:2
Alignment explanation
Indices: 3989836--3989863 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3989826 TTGCATGTAA
3989836 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
3989864 CAGTTAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3990594 original size:15 final size:15
Alignment explanation
Indices: 3990574--3990628 Score: 76
Period size: 15 Copynumber: 3.6 Consensus size: 15
3990564 CGTTAGGATA
*
3990574 ATTTTAAATTGAATT
1 ATTTTAAATTAAATT
3990589 ATTTTAAATTAAATT
1 ATTTTAAATTAAATT
3990604 ATTTTAAATTTTAAA-T
1 ATTTTAAA--TTAAATT
3990620 ATTTTAAAT
1 ATTTTAAAT
3990629 ATTTTAAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
14 1 0.03
15 22 0.59
16 9 0.24
17 5 0.14
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (15 bp):
ATTTTAAATTAAATT
Found at i:3990624 original size:16 final size:16
Alignment explanation
Indices: 3990574--3990645 Score: 64
Period size: 15 Copynumber: 4.6 Consensus size: 16
3990564 CGTTAGGATA
* *
3990574 ATTTTAAA-TTGAATT
1 ATTTTAAATTTTAAAT
3990589 ATTTTAAA--TTAAATT
1 ATTTTAAATTTTAAA-T
3990604 ATTTTAAATTTTAAAT
1 ATTTTAAATTTTAAAT
3990620 ATTTTAAATATTTTAAA-
1 ATTTT-AA-ATTTTAAAT
3990637 A-TTTAAATT
1 ATTTTAAATT
3990646 ATTTTGAGTT
Statistics
Matches: 50, Mismatches: 2, Indels: 11
0.79 0.03 0.17
Matches are distributed among these distances:
14 6 0.12
15 19 0.38
16 9 0.18
17 8 0.16
18 8 0.16
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (16 bp):
ATTTTAAATTTTAAAT
Found at i:3990625 original size:9 final size:9
Alignment explanation
Indices: 3990597--3990650 Score: 62
Period size: 9 Copynumber: 6.2 Consensus size: 9
3990587 TTATTTTAAA
3990597 TTAAATTATT
1 TTAAA-TATT
3990607 TT-AA-ATT
1 TTAAATATT
3990614 TTAAATATT
1 TTAAATATT
3990623 TTAAATATT
1 TTAAATATT
3990632 TTAAA-A-T
1 TTAAATATT
3990639 TTAAATTATT
1 TTAAA-TATT
3990649 TT
1 TT
3990651 GAGTTAAAGA
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
7 11 0.28
8 3 0.08
9 20 0.51
10 5 0.13
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (9 bp):
TTAAATATT
Found at i:3990626 original size:26 final size:26
Alignment explanation
Indices: 3990597--3990650 Score: 83
Period size: 25 Copynumber: 2.1 Consensus size: 26
3990587 TTATTTTAAA
*
3990597 TTAAATTATTTTAAATTTTAAA-TATT
1 TTAAA-TATTTTAAAATTTAAATTATT
3990623 TTAAATATTTTAAAATTTAAATTATT
1 TTAAATATTTTAAAATTTAAATTATT
3990649 TT
1 TT
3990651 GAGTTAAAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 15 0.58
26 11 0.42
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (26 bp):
TTAAATATTTTAAAATTTAAATTATT
Found at i:3990710 original size:15 final size:16
Alignment explanation
Indices: 3990622--3990710 Score: 74
Period size: 16 Copynumber: 5.6 Consensus size: 16
3990612 TTTTAAATAT
*
3990622 TTTAAA-TATTTTAAAA
1 TTTAAATTATTTT-GAA
*
3990638 TTTAAATTATTTTGAG
1 TTTAAATTATTTTGAA
* * * *
3990654 TTAAAGATCACTTTAAA
1 TTTAA-ATTATTTTGAA
*
3990671 TTTAAATCATTTTGAA
1 TTTAAATTATTTTGAA
3990687 TTTAAATTATTTTG-A
1 TTTAAATTATTTTGAA
*
3990702 TTTAGATTA
1 TTTAAATTA
3990711 ATTAAATTTA
Statistics
Matches: 59, Mismatches: 12, Indels: 5
0.78 0.16 0.07
Matches are distributed among these distances:
15 9 0.15
16 33 0.56
17 17 0.29
ACGTcount: A:0.39, C:0.03, G:0.07, T:0.51
Consensus pattern (16 bp):
TTTAAATTATTTTGAA
Found at i:3990801 original size:21 final size:21
Alignment explanation
Indices: 3990775--3990834 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
3990765 TTAATTTTAA
*
3990775 AATTCAGATTAA-ATTGAGTTT
1 AATTCA-ATTAAGATTAAGTTT
* *
3990796 AATTCATTTTAAGTTTAAGTTT
1 AATTCA-ATTAAGATTAAGTTT
*
3990818 AATTCAATTAAGCTTAA
1 AATTCAATTAAGATTAA
3990835 TATATTCATT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
21 19 0.59
22 13 0.41
ACGTcount: A:0.38, C:0.07, G:0.10, T:0.45
Consensus pattern (21 bp):
AATTCAATTAAGATTAAGTTT
Found at i:3991579 original size:16 final size:16
Alignment explanation
Indices: 3991556--3991611 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 16
3991546 TAATTATTCA
3991556 AATCATTTCGAGTTCG
1 AATCATTTCGAGTTCG
* ** * *
3991572 AGTCATTTTAAATTTG
1 AATCATTTCGAGTTCG
*
3991588 AATAATTTCGAGTTCG
1 AATCATTTCGAGTTCG
3991604 AATCATTT
1 AATCATTT
3991612 TCGAAACTAT
Statistics
Matches: 28, Mismatches: 12, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.43
Consensus pattern (16 bp):
AATCATTTCGAGTTCG
Found at i:3992096 original size:2 final size:2
Alignment explanation
Indices: 3992089--3992128 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
3992079 GATGGAGGAC
3992089 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
3992129 CAAAGAATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3992952 original size:6 final size:6
Alignment explanation
Indices: 3992938--3992968 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
3992928 TATTTTATAA
*
3992938 AAATTT AAATAT AAATAT AAATAT AAATAT A
1 AAATAT AAATAT AAATAT AAATAT AAATAT A
3992969 TGTTTACGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
AAATAT
Found at i:3993461 original size:22 final size:21
Alignment explanation
Indices: 3993424--3993475 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 21
3993414 TTAATGTAAG
3993424 TTTT-ATAAATTTTAATAGAA
1 TTTTGATAAATTTTAATAGAA
*
3993444 TTTTGATAAATTTTTAATATAA
1 TTTTGATAAA-TTTTAATAGAA
3993466 TATTTGATAA
1 T-TTTGATAA
3993476 CTTAAATGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 4 0.14
21 5 0.18
22 11 0.39
23 8 0.29
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (21 bp):
TTTTGATAAATTTTAATAGAA
Found at i:3995674 original size:20 final size:20
Alignment explanation
Indices: 3995651--3995694 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
3995641 CCAGTAAGAA
3995651 TACTCCCCCAGTGCTAAGTT
1 TACTCCCCCAGTGCTAAGTT
*
3995671 TACTCCCCCCGTGCTAAGTT
1 TACTCCCCCAGTGCTAAGTT
3995691 TACT
1 TACT
3995695 TGCGGAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.18, C:0.36, G:0.14, T:0.32
Consensus pattern (20 bp):
TACTCCCCCAGTGCTAAGTT
Found at i:4000632 original size:17 final size:18
Alignment explanation
Indices: 4000600--4000633 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4000590 AAATGTATTA
4000600 CTTTTTTAATCATTAAAC
1 CTTTTTTAATCATTAAAC
*
4000618 CTTTTTTTATC-TTAAA
1 CTTTTTTAATCATTAAA
4000634 AAATAAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.15, G:0.00, T:0.56
Consensus pattern (18 bp):
CTTTTTTAATCATTAAAC
Found at i:4003846 original size:34 final size:34
Alignment explanation
Indices: 4003781--4003994 Score: 245
Period size: 34 Copynumber: 6.4 Consensus size: 34
4003771 GCATGATGTA
* * * *
4003781 TTGATTAAAT-GGTGATTTAGTAGTTTATCATTG
1 TTGATTAAATGGGAGATTTGGTAGCTTACCATTG
* * * * **
4003814 TTGATTAAATGGGTGATTTGATGGTTTGTCATTG
1 TTGATTAAATGGGAGATTTGGTAGCTTACCATTG
*
4003848 TTGACTAAAT-GGAGATTTGGTAGCTTACCATTG
1 TTGATTAAATGGGAGATTTGGTAGCTTACCATTG
* *
4003881 TTGATTAAATGGGAAATTTGGTAGCTTACCATTA
1 TTGATTAAATGGGAGATTTGGTAGCTTACCATTG
*
4003915 TTGATTAAATGGGTGATTTGGT-GACTTACCATTG
1 TTGATTAAATGGGAGATTTGGTAG-CTTACCATTG
* * *
4003949 TTAACTAAATGGGAGATTTGGTAGGTTACCATTG
1 TTGATTAAATGGGAGATTTGGTAGCTTACCATTG
4003983 TTGATTAAATGG
1 TTGATTAAATGG
4003995 TGGTTTTTAC
Statistics
Matches: 154, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
33 37 0.24
34 116 0.75
35 1 0.01
ACGTcount: A:0.27, C:0.07, G:0.25, T:0.41
Consensus pattern (34 bp):
TTGATTAAATGGGAGATTTGGTAGCTTACCATTG
Found at i:4003900 original size:67 final size:66
Alignment explanation
Indices: 4003781--4003996 Score: 254
Period size: 67 Copynumber: 3.2 Consensus size: 66
4003771 GCATGATGTA
* * * * * **
4003781 TTGATTAAATGGTGATTTAGTAGTTTATCATTGTTGATTAAATGGGTGATTTGATGGTTTGTCAT
1 TTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTGG-TTACCAT
4003846 TG
65 TG
* * * *
4003848 TTGACTAAATGGAGATTTGGTAGCTTACCATTGTTGATTAAATGGGAAATTTGGTAGCTTACCAT
1 TTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGT-GGTTACCAT
*
4003913 TA
65 TG
* *
4003915 TTGATTAAATGGGTGATTTGGT-GACTTACCATTGTTAACTAAATGGGAGATTTGGTAGGTTACC
1 TTGATTAAAT-GGTGATTTGGTAG-CTTACCATTGTTGATTAAATGGGAGATTTGGT-GGTTACC
4003979 ATTG
63 ATTG
4003983 TTGATTAAATGGTG
1 TTGATTAAATGGTG
4003997 GTTTTTACCA
Statistics
Matches: 127, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
67 67 0.53
68 60 0.47
ACGTcount: A:0.27, C:0.07, G:0.25, T:0.41
Consensus pattern (66 bp):
TTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTGGTTACCATT
G
Found at i:4005428 original size:20 final size:21
Alignment explanation
Indices: 4005393--4005435 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
4005383 AAAATAAATA
**
4005393 AAAATAATTTTTATTTTA-AT
1 AAAATAATTTAAATTTTATAT
4005413 AAAATAATTTAAATTTTATAT
1 AAAATAATTTAAATTTTATAT
4005434 AA
1 AA
4005436 TATGTCATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AAAATAATTTAAATTTTATAT
Found at i:4005837 original size:19 final size:17
Alignment explanation
Indices: 4005801--4005851 Score: 52
Period size: 19 Copynumber: 3.0 Consensus size: 17
4005791 GTTTTTAATT
*
4005801 TATTTTTTATATTTATA
1 TATTTTTTATAATTATA
4005818 TATTTATTTAATAATTATA
1 TATTT-TTT-ATAATTATA
*
4005837 TA-TATTTA-AATTATA
1 TATTTTTTATAATTATA
4005852 AAAAATTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
15 7 0.23
16 1 0.03
17 8 0.27
18 4 0.13
19 10 0.33
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TATTTTTTATAATTATA
Found at i:4005863 original size:7 final size:7
Alignment explanation
Indices: 4005853--4005896 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
4005843 TAAATTATAA
4005853 AAAATTT
1 AAAATTT
4005860 AAAATTT
1 AAAATTT
4005867 AAAATATT
1 AAAAT-TT
*
4005875 AAAATAT
1 AAAATTT
*
4005882 AAACAATT
1 AAA-ATTT
4005890 AAAATTT
1 AAAATTT
4005897 TATTAATTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
7 19 0.61
8 12 0.39
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (7 bp):
AAAATTT
Found at i:4007077 original size:2 final size:2
Alignment explanation
Indices: 4007027--4007063 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
4007017 TAAAGCAATC
4007027 TA 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 TA T
4007064 GTATTCATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4008639 original size:33 final size:33
Alignment explanation
Indices: 4008601--4008669 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
4008591 TCAAGCCTGA
4008601 TTTTGAACTCCCGTCCCGATCCATGTTGCAGCC
1 TTTTGAACTCCCGTCCCGATCCATGTTGCAGCC
*
4008634 TTTTGACCTCCCGTCCCGATCCATGTTGCAGCC
1 TTTTGAACTCCCGTCCCGATCCATGTTGCAGCC
4008667 TTT
1 TTT
4008670 CTTAGGCTGC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.13, C:0.36, G:0.17, T:0.33
Consensus pattern (33 bp):
TTTTGAACTCCCGTCCCGATCCATGTTGCAGCC
Found at i:4010912 original size:6 final size:6
Alignment explanation
Indices: 4010878--4010915 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
4010868 TGTCCTCGCA
* *
4010878 AAAAAA AAAAAA AAAAAG AAAAAG -AAAAG AAAAAG AAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAA
4010916 GCATCATCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
5 5 0.17
6 25 0.83
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:4010912 original size:11 final size:10
Alignment explanation
Indices: 4010877--4010916 Score: 55
Period size: 11 Copynumber: 4.0 Consensus size: 10
4010867 CTGTCCTCGC
4010877 AAAAAAAAA-
1 AAAAAAAAAG
4010886 AAAAAAAAAG
1 AAAAAAAAAG
4010896 AAAAAGAAAAG
1 AAAAA-AAAAG
*
4010907 AAAAAGAAAG
1 AAAAAAAAAG
4010917 CATCATCAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
9 9 0.32
10 9 0.32
11 10 0.36
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:4011966 original size:20 final size:20
Alignment explanation
Indices: 4011941--4012002 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
4011931 TATAATTAAT
*
4011941 ATTTTTTATATTTATTAAAA
1 ATTTTTTATATTTATTATAA
*
4011961 ATTTTTAAT-TTATATTATTAA
1 ATTTTTTATATT-TATTA-TAA
*
4011982 ATTTTTT-TACTTATTATAA
1 ATTTTTTATATTTATTATAA
4012001 AT
1 AT
4012003 GTAATTATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
19 7 0.20
20 19 0.54
21 9 0.26
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (20 bp):
ATTTTTTATATTTATTATAA
Found at i:4011995 original size:22 final size:24
Alignment explanation
Indices: 4011946--4011995 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 24
4011936 TTAATATTTT
*
4011946 TTATATTTATTAAAAATTTTTAAT
1 TTATATTTATTAAAAATTTTTAAC
* *
4011970 TTATA-TTATT-AAATTTTTTTAC
1 TTATATTTATTAAAAATTTTTAAC
4011992 TTAT
1 TTAT
4011996 TATAAATGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 13 0.57
23 5 0.22
24 5 0.22
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (24 bp):
TTATATTTATTAAAAATTTTTAAC
Found at i:4012070 original size:15 final size:15
Alignment explanation
Indices: 4012042--4012093 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 15
4012032 TTATATTTAT
4012042 TTAAATAATA-AAAAA
1 TTAAA-AATATAAAAA
4012057 TTAAAAATAT-AAAA
1 TTAAAAATATAAAAA
*
4012071 TCATAAAATATAAACAA
1 TTA-AAAATATAAA-AA
4012088 TTAAAA
1 TTAAAA
4012094 TTTTATTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
14 10 0.32
15 12 0.39
16 5 0.16
17 4 0.13
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (15 bp):
TTAAAAATATAAAAA
Found at i:4015841 original size:18 final size:18
Alignment explanation
Indices: 4015818--4015854 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
4015808 TAATATATAT
4015818 TCTCAAGTCGAAGACAAA
1 TCTCAAGTCGAAGACAAA
4015836 TCTCAAGTCGAAGACAAA
1 TCTCAAGTCGAAGACAAA
4015854 T
1 T
4015855 AACTAATGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.43, C:0.22, G:0.16, T:0.19
Consensus pattern (18 bp):
TCTCAAGTCGAAGACAAA
Found at i:4016612 original size:2 final size:2
Alignment explanation
Indices: 4016605--4016643 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
4016595 GACATCAATA
4016605 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
4016644 CCGGAGGGGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4022407 original size:6 final size:6
Alignment explanation
Indices: 4022370--4022403 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
4022360 ATATATTAAA
*
4022370 ATATTT ATATTT ATATTT ATATTT ATATAT ATAT
1 ATATTT ATATTT ATATTT ATATTT ATATTT ATAT
4022404 ATATTATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (6 bp):
ATATTT
Found at i:4027180 original size:21 final size:18
Alignment explanation
Indices: 4027142--4027180 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
4027132 CGCTTTCCCC
4027142 TTGTTTTCTTTTCTTTTT
1 TTGTTTTCTTTTCTTTTT
*
4027160 TTGTTCTTCTTCTTCCTTTT
1 TTGTT-TTCTT-TTCTTTTT
4027180 T
1 T
4027181 CTCCCCTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 5 0.28
20 8 0.44
ACGTcount: A:0.00, C:0.18, G:0.05, T:0.77
Consensus pattern (18 bp):
TTGTTTTCTTTTCTTTTT
Found at i:4030629 original size:19 final size:21
Alignment explanation
Indices: 4030605--4030647 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
4030595 ATTTTATTAA
4030605 TTTAATT-AATT-AATATAAT
1 TTTAATTAAATTAAATATAAT
*
4030624 TTTAATTAAATTAAATATCAT
1 TTTAATTAAATTAAATATAAT
4030645 TTT
1 TTT
4030648 TTAATTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.33
20 4 0.19
21 10 0.48
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (21 bp):
TTTAATTAAATTAAATATAAT
Found at i:4031066 original size:2 final size:2
Alignment explanation
Indices: 4031053--4031082 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
4031043 AAGTTTGACA
*
4031053 AT AT AT AC 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
4031083 TAGGATAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:4031238 original size:23 final size:25
Alignment explanation
Indices: 4031194--4031246 Score: 74
Period size: 23 Copynumber: 2.2 Consensus size: 25
4031184 ATTAATTGTC
*
4031194 AAAATTAAATTTATAAATAATAGTA
1 AAAATTAAATTTATAAATAATAATA
*
4031219 AAAATTATA-TTA-AAATAATAATA
1 AAAATTAAATTTATAAATAATAATA
4031242 AAAAT
1 AAAAT
4031247 ATCTCAATCC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 15 0.58
24 3 0.12
25 8 0.31
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (25 bp):
AAAATTAAATTTATAAATAATAATA
Found at i:4032287 original size:2 final size:2
Alignment explanation
Indices: 4032280--4032324 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
4032270 GTTAAAGCAA
4032280 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
4032322 TC T
1 TC T
4032325 ATATATATAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:4032329 original size:2 final size:2
Alignment explanation
Indices: 4032324--4032352 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
4032314 TCTCTCTCTC
4032324 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4032353 GATTAATCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4037165 original size:22 final size:23
Alignment explanation
Indices: 4037140--4037196 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 23
4037130 CAATTACAAG
**
4037140 AATTA-ATAAAAATTTTGAATTA
1 AATTATATAAAAATTTAAAATTA
4037162 AATTATTATAAAAATTTAAAATTA
1 AATTA-TATAAAAATTTAAAATTA
*
4037186 AAGATATATAA
1 AA-TTATATAA
4037197 GTATTTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 5 0.17
24 22 0.76
25 2 0.07
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.39
Consensus pattern (23 bp):
AATTATATAAAAATTTAAAATTA
Found at i:4039317 original size:16 final size:17
Alignment explanation
Indices: 4039303--4039337 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
4039293 TTTTTAAATG
4039303 ATTATTTAAAAAAATAA
1 ATTATTTAAAAAAATAA
*
4039320 ATT-TTTTAAAAAATAA
1 ATTATTTAAAAAAATAA
4039336 AT
1 AT
4039338 GATAATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 14 0.82
17 3 0.18
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATTATTTAAAAAAATAA
Found at i:4039398 original size:15 final size:15
Alignment explanation
Indices: 4039380--4039435 Score: 53
Period size: 15 Copynumber: 3.8 Consensus size: 15
4039370 GAAAAAATAA
4039380 TTATTTATATTTAAT
1 TTATTTATATTTAAT
*
4039395 TTATTTATTTTTAA-
1 TTATTTATATTTAAT
* *
4039409 ATATTTTTA-TTAAT
1 TTATTTATATTTAAT
*
4039423 TAAATTTATATTT
1 T-TATTTATATTT
4039436 TTAATTTATG
Statistics
Matches: 31, Mismatches: 7, Indels: 5
0.72 0.16 0.12
Matches are distributed among these distances:
13 4 0.13
14 6 0.19
15 19 0.61
16 2 0.06
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TTATTTATATTTAAT
Found at i:4039666 original size:22 final size:21
Alignment explanation
Indices: 4039619--4039668 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
4039609 GAAAGGAAGG
*
4039619 TTAAAATGAAAGGAAAATAAA
1 TTAAAAAGAAAGGAAAATAAA
*
4039640 ATAAAAAGAAAAGGCAAAAT-AA
1 TTAAAAAG-AAAGG-AAAATAAA
4039662 TTAAAAA
1 TTAAAAA
4039669 AATCCAGTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 6 0.25
22 13 0.54
23 5 0.21
ACGTcount: A:0.70, C:0.02, G:0.12, T:0.16
Consensus pattern (21 bp):
TTAAAAAGAAAGGAAAATAAA
Found at i:4050676 original size:2 final size:2
Alignment explanation
Indices: 4050669--4050717 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
4050659 CATGAAACAA
4050669 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
4050711 AT AT AT A
1 AT AT AT A
4050718 AAGAGTATGT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4055240 original size:3 final size:3
Alignment explanation
Indices: 4055232--4055268 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
4055222 AAAGAAAAAC
*
4055232 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA AAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
4055269 CCCTTGAGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:4055798 original size:24 final size:24
Alignment explanation
Indices: 4055762--4055808 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
4055752 TTAGTCAAAT
4055762 TAATATTTAATATATAATATATTA
1 TAATATTTAATATATAATATATTA
* * *
4055786 TAATTTTTCATATTTAATATATT
1 TAATATTTAATATATAATATATT
4055809 TTCTAATCAT
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:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (24 bp):
TAATATTTAATATATAATATATTA
Found at i:4056581 original size:6 final size:7
Alignment explanation
Indices: 4056567--4056591 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
4056557 CCATTTTGCC
4056567 TTTGTTT
1 TTTGTTT
4056574 TTTGTTT
1 TTTGTTT
4056581 TTTGTTT
1 TTTGTTT
4056588 TTTG
1 TTTG
4056592 GTTGTTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (7 bp):
TTTGTTT
Found at i:4058067 original size:17 final size:19
Alignment explanation
Indices: 4058028--4058068 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 19
4058018 GAGTATAATT
* *
4058028 TTTAAAATATATAAATTTT
1 TTTAAAATATATAAATATA
4058047 TTTAAAA-AT-TAAATATA
1 TTTAAAATATATAAATATA
4058064 TTTAA
1 TTTAA
4058069 TATAAATTGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 11 0.55
18 2 0.10
19 7 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TTTAAAATATATAAATATA
Found at i:4063166 original size:27 final size:27
Alignment explanation
Indices: 4063136--4063194 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
4063126 ATTTGTCTTC
4063136 TCATCTGAAAAAACAAAC-CCATCATCG
1 TCATC-GAAAAAACAAACACCATCATCG
** * *
4063163 TCATCGTCAAAATAAACATCATCATCG
1 TCATCGAAAAAACAAACACCATCATCG
4063190 TCATC
1 TCATC
4063195 CTCGTTTGTG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 9 0.33
27 18 0.67
ACGTcount: A:0.41, C:0.29, G:0.07, T:0.24
Consensus pattern (27 bp):
TCATCGAAAAAACAAACACCATCATCG
Found at i:4064124 original size:20 final size:20
Alignment explanation
Indices: 4064101--4064142 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
4064091 CACTACCATT
*
4064101 CTTATATGGCTGCATGTGTA
1 CTTATATGGCTGCATGAGTA
4064121 CTTATATGGCTGCATGAGTA
1 CTTATATGGCTGCATGAGTA
4064141 CT
1 CT
4064143 GGTTTTAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.21, C:0.17, G:0.24, T:0.38
Consensus pattern (20 bp):
CTTATATGGCTGCATGAGTA
Found at i:4064289 original size:12 final size:13
Alignment explanation
Indices: 4064257--4064303 Score: 53
Period size: 12 Copynumber: 3.7 Consensus size: 13
4064247 ATGTAAAAAA
*
4064257 ATATATTCATAATT
1 ATATATTTATAA-T
*
4064271 GTATATTTATAAT
1 ATATATTTATAAT
4064284 -TATATTTA-AAT
1 ATATATTTATAAT
4064295 ATATATTTA
1 ATATATTTA
4064304 ATATAAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 3 0.10
12 16 0.53
13 1 0.03
14 10 0.33
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (13 bp):
ATATATTTATAAT
Found at i:4064304 original size:12 final size:12
Alignment explanation
Indices: 4064272--4064308 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
4064262 TTCATAATTG
4064272 TATATTTATAAT-
1 TATATTTA-AATA
4064284 TATATTTAAATA
1 TATATTTAAATA
4064296 TATATTT-AATA
1 TATATTTAAATA
4064307 TA
1 TA
4064309 AATATCATAC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 9 0.38
12 15 0.62
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
TATATTTAAATA
Found at i:4067102 original size:2 final size:2
Alignment explanation
Indices: 4067095--4067141 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
4067085 CTATTAATAC
4067095 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
4067137 AT AT A
1 AT AT A
4067142 ACGAATTCAC
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:4072310 original size:2 final size:2
Alignment explanation
Indices: 4072303--4072332 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4072293 TTAAAGCCAA
4072303 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
4072333 TTTTTTTTCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4079133 original size:20 final size:21
Alignment explanation
Indices: 4079093--4079134 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
4079083 CATATATTTT
**
4079093 TAATTATATTATTTTTTAAAA
1 TAATTATATTATTTTAAAAAA
4079114 TAATTAT-TTATTTTAAAAAA
1 TAATTATATTATTTTAAAAAA
4079134 T
1 T
4079135 TAATAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TAATTATATTATTTTAAAAAA
Found at i:4079138 original size:21 final size:21
Alignment explanation
Indices: 4079092--4079143 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
4079082 TCATATATTT
**
4079092 TTAATTATATTATTTTTTAAAA
1 TTAATTAT-TTATTTTAAAAAA
4079114 -TAATTATTTATTTTAAAAAA
1 TTAATTATTTATTTTAAAAAA
*
4079134 TTAATAATTT
1 TTAATTATTT
4079144 TAATATTGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TTAATTATTTATTTTAAAAAA
Found at i:4079143 original size:17 final size:18
Alignment explanation
Indices: 4079106--4079146 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
4079096 TTATATTATT
* *
4079106 TTTTAAAATAATTATTTA
1 TTTTAAAATAATTAATAA
4079124 TTTTAAAA-AATTAATAA
1 TTTTAAAATAATTAATAA
4079141 TTTTAA
1 TTTTAA
4079147 TATTGTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTTAAAATAATTAATAA
Found at i:4081776 original size:5 final size:4
Alignment explanation
Indices: 4081751--4081784 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
4081741 TTTTCTTTTC
*
4081751 TTAT TTAT TTAT TTAT TTATT TTAT TTTT TTAT T
1 TTAT TTAT TTAT TTAT TTA-T TTAT TTAT TTAT T
4081785 ATCTTTGATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (4 bp):
TTAT
Found at i:4082178 original size:21 final size:22
Alignment explanation
Indices: 4082143--4082183 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
4082133 AAAATTAAAA
4082143 AATTATTACATATATAATTTTTT
1 AATTATTACATATAT-ATTTTTT
4082166 AATT-TTA-ATATATATTTT
1 AATTATTACATATATATTTT
4082184 AAAAATATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 6 0.33
22 3 0.17
23 4 0.22
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (22 bp):
AATTATTACATATATATTTTTT
Found at i:4083076 original size:7 final size:7
Alignment explanation
Indices: 4083064--4083090 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
4083054 ATGACTATTG
4083064 GGCTACT
1 GGCTACT
4083071 GGCTACT
1 GGCTACT
4083078 GGCTACT
1 GGCTACT
4083085 GGCTAC
1 GGCTAC
4083091 GGAGACAGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.30, G:0.30, T:0.26
Consensus pattern (7 bp):
GGCTACT
Found at i:4093717 original size:17 final size:19
Alignment explanation
Indices: 4093695--4093736 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
4093685 ATTATAATTT
4093695 TATTTAA-AATTT-TATTA
1 TATTTAAGAATTTATATTA
4093712 TATTTAAGAATTTATATTA
1 TATTTAAGAATTTATATTA
4093731 TATTTA
1 TATTTA
4093737 CAACTAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 7 0.30
18 5 0.22
19 11 0.48
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
TATTTAAGAATTTATATTA
Found at i:4094368 original size:24 final size:24
Alignment explanation
Indices: 4094340--4094387 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
4094330 TTTTGCTTGA
* * *
4094340 AACAAACTACATTTTCATTGTTTT
1 AACAAAATAAATTTTAATTGTTTT
*
4094364 AACAAAATAAATTTTAATTTTTTT
1 AACAAAATAAATTTTAATTGTTTT
4094388 TATTTTTCAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.40, C:0.10, G:0.02, T:0.48
Consensus pattern (24 bp):
AACAAAATAAATTTTAATTGTTTT
Found at i:4095667 original size:21 final size:22
Alignment explanation
Indices: 4095642--4095682 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
4095632 ACGTTAAAAA
4095642 CTATTGC-ACTCTCAAAAATGG
1 CTATTGCTACTCTCAAAAATGG
* *
4095663 CTATTTCTTCTCTCAAAAAT
1 CTATTGCTACTCTCAAAAAT
4095683 TAAAAATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.32, C:0.24, G:0.07, T:0.37
Consensus pattern (22 bp):
CTATTGCTACTCTCAAAAATGG
Found at i:4097225 original size:23 final size:21
Alignment explanation
Indices: 4097201--4097241 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
4097191 TTTAAAAATA
4097201 AAATTTAATAGATTTATAATCT
1 AAATTT-ATAGATTTATAATCT
* *
4097223 AAATTTTTATATTTATAAT
1 AAATTTATAGATTTATAAT
4097242 TTTTTAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (21 bp):
AAATTTATAGATTTATAATCT
Found at i:4098168 original size:13 final size:14
Alignment explanation
Indices: 4098150--4098178 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
4098140 TAATATTTAA
4098150 TAAATTTAAA-ATT
1 TAAATTTAAATATT
4098163 TAAATTTAAATATT
1 TAAATTTAAATATT
4098177 TA
1 TA
4098179 TATTATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TAAATTTAAATATT
Found at i:4098205 original size:19 final size:20
Alignment explanation
Indices: 4098167--4098205 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
4098157 AAAATTTAAA
* *
4098167 TTTAAATATTTATATTATTT
1 TTTAAATATATATATAATTT
4098187 TTTAAA-ATATATATAATTT
1 TTTAAATATATATATAATTT
4098206 AAGATATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTAAATATATATATAATTT
Found at i:4098735 original size:22 final size:22
Alignment explanation
Indices: 4098707--4098793 Score: 72
Period size: 23 Copynumber: 3.9 Consensus size: 22
4098697 TTATAATAGA
*
4098707 TATAAAA-ATAATTTAAATATAT
1 TATAAAATATAA-TAAAATATAT
*
4098729 TATAAAATATAATAAAATATAAA
1 TATAAAATATAATAAAATAT-AT
* *
4098752 TATAATATTTATATATAAATATA-
1 TATAAAATATA-ATA-AAATATAT
*
4098775 TAAAAAAT-TAATAAAATAT
1 TATAAAATATAATAAAATAT
4098794 TAAAATATAA
Statistics
Matches: 55, Mismatches: 6, Indels: 10
0.77 0.08 0.14
Matches are distributed among these distances:
20 6 0.11
21 3 0.05
22 16 0.29
23 20 0.36
24 4 0.07
25 6 0.11
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
TATAAAATATAATAAAATATAT
Found at i:4098743 original size:10 final size:10
Alignment explanation
Indices: 4098720--4098805 Score: 63
Period size: 10 Copynumber: 8.2 Consensus size: 10
4098710 AAAAATAATT
*
4098720 TAAATATATTA
1 TAAA-ATATAA
4098731 TAAAATATAA
1 TAAAATATAA
4098741 TAAAATATAAA
1 TAAAATAT-AA
4098752 TATAATATTTATATA
1 TA-AA-A--TATA-A
4098767 TAAATATATAA
1 TAAA-ATATAA
4098778 -AAAAT-TAA
1 TAAAATATAA
4098786 TAAAATAT--
1 TAAAATATAA
4098794 TAAAATATAA
1 TAAAATATAA
4098804 TA
1 TA
4098806 TTACATATTT
Statistics
Matches: 64, Mismatches: 1, Indels: 21
0.74 0.01 0.24
Matches are distributed among these distances:
8 11 0.17
9 7 0.11
10 19 0.30
11 9 0.14
12 6 0.09
13 1 0.02
14 5 0.08
15 6 0.09
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
TAAAATATAA
Found at i:4098744 original size:21 final size:20
Alignment explanation
Indices: 4098701--4098805 Score: 74
Period size: 22 Copynumber: 5.0 Consensus size: 20
4098691 ATACAATTAT
*
4098701 AATAGATATAAAA-ATAATTTA
1 AATATATATAAAATATAA--TA
4098722 AATATATTATAAAATATAATAA
1 AATATA-TATAAAATATAAT-A
*
4098744 AATATAAATATAATATTTATATATA
1 AATAT--ATATAA-A-ATATA-ATA
*
4098769 AATATATAAAAAAT-TAATA
1 AATATATATAAAATATAATA
4098788 AA-ATAT-TAAAATATAATA
1 AATATATATAAAATATAATA
4098806 TTACATATTT
Statistics
Matches: 70, Mismatches: 5, Indels: 21
0.73 0.05 0.22
Matches are distributed among these distances:
17 5 0.07
18 9 0.13
19 5 0.07
20 2 0.03
21 7 0.10
22 14 0.20
23 14 0.20
24 2 0.03
25 10 0.14
26 2 0.03
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (20 bp):
AATATATATAAAATATAATA
Found at i:4098753 original size:37 final size:37
Alignment explanation
Indices: 4098681--4098753 Score: 87
Period size: 37 Copynumber: 2.0 Consensus size: 37
4098671 ACTCGACCAC
* *
4098681 TTTAAATATAATACAATTATAATAGATATAAAAATAA
1 TTTAAATATAATACAAATATAATAGAAATAAAAATAA
*
4098718 TTTAAATATATTATA-AAATATAATA-AAATATAAATA
1 TTTAAATATA--ATACAAATATAATAGAAATAAAAATA
4098754 TAATATTTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
37 19 0.61
38 9 0.29
39 3 0.10
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (37 bp):
TTTAAATATAATACAAATATAATAGAAATAAAAATAA
Done.