Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, whole genome shotgun sequence
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: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 35 of 195
Found at i:7632685 original size:20 final size:21
Alignment explanation
Indices: 7632647--7632685 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
7632637 ACTCGATTCT
7632647 AAATATTATTATATTAATAAA
1 AAATATTATTATATTAATAAA
*
7632668 AAATATTTTTAT-TTAATA
1 AAATATTATTATATTAATA
7632686 TTTCTTCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AAATATTATTATATTAATAAA
Found at i:7632884 original size:22 final size:22
Alignment explanation
Indices: 7632858--7632901 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
7632848 TTCATTACTT
*
7632858 TAATAATTAATGTTA-TTTAATA
1 TAAT-ATTAATATTATTTTAATA
7632880 TAATATTAATATTATTTTAATA
1 TAATATTAATATTATTTTAATA
7632902 ATATGAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
TAATATTAATATTATTTTAATA
Found at i:7632904 original size:20 final size:21
Alignment explanation
Indices: 7632858--7632918 Score: 72
Period size: 20 Copynumber: 3.0 Consensus size: 21
7632848 TTCATTACTT
*
7632858 TAATAATTAATGTTATTTAATA
1 TAAT-ATTAATATTATTTAATA
*
7632880 TAATATTAATATTATTTTA-A
1 TAATATTAATATTATTTAATA
*
7632900 TAATATGAATATT-TTTAAT
1 TAATATTAATATTATTTAAT
7632919 CTTTTTTAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
19 4 0.12
20 13 0.38
21 13 0.38
22 4 0.12
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.52
Consensus pattern (21 bp):
TAATATTAATATTATTTAATA
Found at i:7633067 original size:21 final size:21
Alignment explanation
Indices: 7633043--7633095 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
7633033 TTATAGATAG
*
7633043 TTTAATATAAAAT-ATAATTAT
1 TTTAATATAAAATAAT-ACTAT
7633064 TTTAATATAAAATAATACTAT
1 TTTAATATAAAATAATACTAT
7633085 TTTAATCATAA
1 TTTAAT-ATAA
7633096 TTGTTAATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 23 0.79
22 6 0.21
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (21 bp):
TTTAATATAAAATAATACTAT
Found at i:7633903 original size:34 final size:37
Alignment explanation
Indices: 7633833--7633905 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 37
7633823 TCTTGATTTT
*
7633833 AATATTATTATATTAATAAATTTAATATTTTAATATTA
1 AATATTATTATA-TAATAAAATTAATATTTTAATATTA
*
7633871 AATATTATTA-A-AATAAAATT-ATTTTTTAATATTA
1 AATATTATTATATAATAAAATTAATATTTTAATATTA
7633905 A
1 A
7633906 TAAATATAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
34 14 0.42
35 8 0.24
37 1 0.03
38 10 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (37 bp):
AATATTATTATATAATAAAATTAATATTTTAATATTA
Found at i:7633920 original size:34 final size:35
Alignment explanation
Indices: 7633841--7633921 Score: 87
Period size: 34 Copynumber: 2.3 Consensus size: 35
7633831 TTAATATTAT
* * *
7633841 TATATTAATAAATTTAATATTTTAATATTAAATAT
1 TATAATAATAAAATTAATATTTTAATATTAAATAA
*
7633876 TATTAA-AATAAAATT-ATTTTTTAATATT-AATAAA
1 TA-TAATAATAAAATTAATATTTTAATATTAAAT-AA
7633910 TATAATAATAAA
1 TATAATAATAAA
7633922 TAATTTCAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
33 6 0.15
34 21 0.54
35 10 0.26
36 2 0.05
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (35 bp):
TATAATAATAAAATTAATATTTTAATATTAAATAA
Found at i:7654452 original size:11 final size:11
Alignment explanation
Indices: 7654433--7654462 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
7654423 ATCGATAAGC
7654433 TTTTCTTTTCT
1 TTTTCTTTTCT
*
7654444 TTTTTTTTTCT
1 TTTTCTTTTCT
7654455 TTTTCTTT
1 TTTTCTTT
7654463 CGTAAGGGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (11 bp):
TTTTCTTTTCT
Found at i:7660389 original size:2 final size:2
Alignment explanation
Indices: 7660382--7660415 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
7660372 ATGTGAAGCA
7660382 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
7660416 TGTCTGCCTA
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:7661279 original size:23 final size:24
Alignment explanation
Indices: 7661250--7661333 Score: 104
Period size: 24 Copynumber: 3.6 Consensus size: 24
7661240 TATTTTTTTA
7661250 ATATTTT-AATTTTTGTAAAAATC
1 ATATTTTAAATTTTTGTAAAAATC
*
7661273 ATATTTTTAAAGTTTTG-AAAAATC
1 ATA-TTTTAAATTTTTGTAAAAATC
*
7661297 ATGTTTTTAAATTTTT-TAAAAATC
1 AT-ATTTTAAATTTTTGTAAAAATC
7661321 ATATTTT-AATTTT
1 ATATTTTAAATTTT
7661334 AAAAAAATTC
Statistics
Matches: 53, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
22 6 0.11
23 7 0.13
24 33 0.62
25 7 0.13
ACGTcount: A:0.38, C:0.04, G:0.05, T:0.54
Consensus pattern (24 bp):
ATATTTTAAATTTTTGTAAAAATC
Found at i:7661280 original size:24 final size:25
Alignment explanation
Indices: 7661253--7661327 Score: 111
Period size: 24 Copynumber: 3.1 Consensus size: 25
7661243 TTTTTTAATA
7661253 TTTT-AATTTTTGTAAAAATCATAT
1 TTTTAAATTTTTGTAAAAATCATAT
* *
7661277 TTTTAAAGTTTTG-AAAAATCATGT
1 TTTTAAATTTTTGTAAAAATCATAT
7661301 TTTTAAATTTTT-TAAAAATCATAT
1 TTTTAAATTTTTGTAAAAATCATAT
7661325 TTT
1 TTT
7661328 AATTTTAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
24 38 0.84
25 7 0.16
ACGTcount: A:0.37, C:0.04, G:0.05, T:0.53
Consensus pattern (25 bp):
TTTTAAATTTTTGTAAAAATCATAT
Found at i:7661458 original size:31 final size:31
Alignment explanation
Indices: 7661398--7661467 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
7661388 TGTAAGTGAA
*
7661398 TTAAAATTATCAAATTAAAATAATATAAATT
1 TTAAATTTATCAAATTAAAATAATATAAATT
*
7661429 TTAAATTTATGAAATATAATAA-AAT-TAAATT
1 TTAAATTTATCAAAT-TAA-AATAATATAAATT
*
7661460 CTAAATTT
1 TTAAATTT
7661468 TCATAAAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
31 26 0.76
32 6 0.18
33 2 0.06
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.41
Consensus pattern (31 bp):
TTAAATTTATCAAATTAAAATAATATAAATT
Found at i:7661849 original size:19 final size:21
Alignment explanation
Indices: 7661809--7661897 Score: 78
Period size: 20 Copynumber: 4.3 Consensus size: 21
7661799 ATTCGAATTA
*
7661809 ATAAAATATTATTATTTAAAT
1 ATAAAATAATATTATTTAAAT
7661830 ATAAAATAATATT-TTT-AAT
1 ATAAAATAATATTATTTAAAT
* **
7661849 ATAAATATAAAATTAAATAAAT
1 ATAAA-ATAATATTATTTAAAT
* *
7661871 ATATAGAT-ATA-TATATAAAT
1 ATA-AAATAATATTATTTAAAT
7661891 ATAAAAT
1 ATAAAAT
7661898 TAAATAAATA
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
19 11 0.20
20 21 0.38
21 15 0.27
22 8 0.14
23 1 0.02
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.40
Consensus pattern (21 bp):
ATAAAATAATATTATTTAAAT
Found at i:7661857 original size:6 final size:6
Alignment explanation
Indices: 7661846--7661907 Score: 51
Period size: 6 Copynumber: 10.7 Consensus size: 6
7661836 TAATATTTTT
* *
7661846 AATATA AATATA AA-ATTA AATA-A ATATATA GATATA TATATA AATATA
1 AATATA AATATA AATA-TA AATATA A-ATATA AATATA AATATA AATATA
*
7661894 AA-ATT AA-ATA AATA
1 AATATA AATATA AATA
7661908 AGTAAAAAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
5 11 0.24
6 33 0.72
7 2 0.04
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.34
Consensus pattern (6 bp):
AATATA
Found at i:7661865 original size:12 final size:13
Alignment explanation
Indices: 7661846--7661903 Score: 61
Period size: 12 Copynumber: 4.8 Consensus size: 13
7661836 TAATATTTTT
7661846 AATATAAATATAA
1 AATATAAATATAA
7661859 AAT-TAAATA-AA
1 AATATAAATATAA
* *
7661870 TATATAGATAT-A
1 AATATAAATATAA
*
7661882 TATATAAATATAA
1 AATATAAATATAA
7661895 AAT-TAAATA
1 AATATAAATA
7661904 AATAAGTAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
11 4 0.11
12 28 0.74
13 6 0.16
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (13 bp):
AATATAAATATAA
Found at i:7662413 original size:2 final size:2
Alignment explanation
Indices: 7662406--7662435 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7662396 TCTCACCTTT
7662406 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
7662436 AGATTGATTC
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:7664906 original size:61 final size:62
Alignment explanation
Indices: 7664841--7664978 Score: 181
Period size: 62 Copynumber: 2.2 Consensus size: 62
7664831 TTAAATATGT
* * *
7664841 AATAATTGAT-TTTTAAAAAAAATTACTTGACTTAATTATTGCGTTTATTTAAAAGAAATGC
1 AATAATTGATATTTTAAAAAAAATTACTTGACTCAATTACTGCATTTATTTAAAAGAAATGC
* * * *
7664902 AATAATTTATATTTTTAAAAAAATTTCTTGACTCAATTACTGCATTTATTTAAAAGAAACG-
1 AATAATTGATATTTTAAAAAAAATTACTTGACTCAATTACTGCATTTATTTAAAAGAAATGC
*
7664963 AGGTAATTGATATTTT
1 A-ATAATTGATATTTT
7664979 TTAAACCATA
Statistics
Matches: 66, Mismatches: 9, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
61 10 0.15
62 56 0.85
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.42
Consensus pattern (62 bp):
AATAATTGATATTTTAAAAAAAATTACTTGACTCAATTACTGCATTTATTTAAAAGAAATGC
Found at i:7666563 original size:25 final size:25
Alignment explanation
Indices: 7666534--7666589 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
7666524 TATAGTTTTT
7666534 AATTAATAAAAATCATAATTGTTTC
1 AATTAATAAAAATCATAATTGTTTC
** * *
7666559 AATTAATACCATTCTTAATTGTTTC
1 AATTAATAAAAATCATAATTGTTTC
7666584 AATTAA
1 AATTAA
7666590 ATACTATCAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.43, C:0.11, G:0.04, T:0.43
Consensus pattern (25 bp):
AATTAATAAAAATCATAATTGTTTC
Found at i:7668433 original size:43 final size:45
Alignment explanation
Indices: 7668385--7668471 Score: 142
Period size: 45 Copynumber: 2.0 Consensus size: 45
7668375 GATGGAAATT
7668385 GTTTTTCAAA-AGT-ACATAGATAGAATAATTTTTTATTAAGATA
1 GTTTTTCAAAGAGTAACATAGATAGAATAATTTTTTATTAAGATA
* *
7668428 GTTTTTCAAAGGGTAACATGGATAGAATAATTTTTTATTAAGAT
1 GTTTTTCAAAGAGTAACATAGATAGAATAATTTTTTATTAAGAT
7668472 CAAATGTGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
43 10 0.25
44 2 0.05
45 28 0.70
ACGTcount: A:0.39, C:0.05, G:0.15, T:0.41
Consensus pattern (45 bp):
GTTTTTCAAAGAGTAACATAGATAGAATAATTTTTTATTAAGATA
Found at i:7668645 original size:28 final size:28
Alignment explanation
Indices: 7668586--7668645 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 28
7668576 ATTTTCTCTA
*
7668586 AAAATCAAATAATCTTAAATTAAATATG
1 AAAATCAAATAATCTTAAATTAAATATC
*
7668614 AAAATCAAAT-A-CTTATAATTAAGATTTC
1 AAAATCAAATAATCTTA-AATTAA-ATATC
7668642 AAAA
1 AAAA
7668646 AAAAATTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 4 0.14
27 7 0.25
28 17 0.61
ACGTcount: A:0.57, C:0.08, G:0.03, T:0.32
Consensus pattern (28 bp):
AAAATCAAATAATCTTAAATTAAATATC
Found at i:7669192 original size:25 final size:24
Alignment explanation
Indices: 7669141--7669192 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
7669131 TATTTTAATT
* *
7669141 TTTAAAATTTTATTAATTTATCGA
1 TTTAAAATTTTATTAAATTATCAA
*
7669165 TTTAAAATTTTTATTAAATTATTAA
1 TTTAAAA-TTTTATTAAATTATCAA
7669190 TTT
1 TTT
7669193 TTTAAAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 7 0.29
25 17 0.71
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (24 bp):
TTTAAAATTTTATTAAATTATCAA
Found at i:7669211 original size:52 final size:52
Alignment explanation
Indices: 7669113--7669211 Score: 132
Period size: 52 Copynumber: 1.9 Consensus size: 52
7669103 AAATAAAATT
**
7669113 TTTAATAATTTTTTTACATATTTTAATTTTTAAAATTTTATTAATTTATCGA
1 TTTAATAATTTTTTTACATATTTTAATTTTTAAAATTTTACAAATTTATCGA
7669165 TTTAA-AATTTTTATTA-A-ATTATTAATTTTTTAAAATTTTACAAATTT
1 TTTAATAATTTTT-TTACATATT-TTAA-TTTTTAAAATTTTACAAATTT
7669212 TACTTAAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
50 3 0.07
51 12 0.29
52 27 0.64
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (52 bp):
TTTAATAATTTTTTTACATATTTTAATTTTTAAAATTTTACAAATTTATCGA
Found at i:7671900 original size:59 final size:57
Alignment explanation
Indices: 7671806--7672089 Score: 279
Period size: 59 Copynumber: 4.8 Consensus size: 57
7671796 TGCTTTTGTA
* *** * *
7671806 CAAGAAAAAATTGATACTTTTAACTTTT-CTCCAAAATTTTTTTTTTTGAAACTTTAATTT
1 CAAG-AAAAATTGATACTTTCAACTTTTCCT-CAAAA-AAATTTTTTAGAAAC-TTATTTT
* * *
7671866 CAAGAAAAATTAATACTTTCAACTTTTCCTCAAAAAAATCTTTTTTAAAAAATTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAAA--TTTTTTAGAAACTTATTTT
* *
7671925 CAA-AGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAACTTATTTT
1 CAAGA-AAAATTGATACTTTCAACTTTTCCTCAAAAAAATTTTTTAG-AAACTTATTTT
* * * *
7671983 TAAAAAAAATTGATACTTTCAATTTTTTC-CAAAAAAATTTTTTAGAAGACTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAAATTTTTTAGAA-ACTTATTTT
* *
7672040 GAAGGAAAATTGATACTTTCAA-TTTCTCCTCAAAAATATATTTTTTAGAA
1 CAAGAAAAATTGATACTTTCAACTTT-TCCTCAAAAA-A-ATTTTTTAGAA
7672090 TTTTTATTTA
Statistics
Matches: 192, Mismatches: 21, Indels: 22
0.82 0.09 0.09
Matches are distributed among these distances:
56 5 0.03
57 52 0.27
58 42 0.22
59 67 0.35
60 26 0.14
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.43
Consensus pattern (57 bp):
CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAAATTTTTTAGAAACTTATTTT
Found at i:7671992 original size:58 final size:58
Alignment explanation
Indices: 7671810--7672089 Score: 282
Period size: 57 Copynumber: 4.8 Consensus size: 58
7671800 TTTGTACAAG
* * * * *
7671810 AAAAAATTGATACTTTTAAC-TTTTCTCCAAAATTTTTTTTTTTG-AAACTTTAATTTCAA
1 AAAAAATTGATACTTTCAACTTTTTCT-CAAAA-ATATTTTTTAGAAAAC-TTATTTTCAA
* * * * *
7671869 GAAAAATTAATACTTTCAACTTTTCCTCAAAAAAATCTTTTTTA-AAAAATTATTTTCAA
1 AAAAAATTGATACTTTCAACTTTTTCTC--AAAAATATTTTTTAGAAAACTTATTTTCAA
* *
7671928 AGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAACTTATTTTTAA
1 AAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAACTTATTTTCAA
* * * *
7671986 AAAAAATTGATACTTTCAATTTTTTC-CAAAAAAATTTTTTAGAAGACTTATTTTGAA
1 AAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAACTTATTTTCAA
** *
7672043 GGAAAATTGATACTTTCAA-TTTCTCCTCAAAAATATATTTTTTAGAA
1 AAAAAATTGATACTTTCAACTTT-TTCTC-AAAA-ATATTTTTTAGAA
7672090 TTTTTATTTA
Statistics
Matches: 187, Mismatches: 25, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
56 3 0.02
57 60 0.32
58 38 0.20
59 55 0.29
60 27 0.14
61 4 0.02
ACGTcount: A:0.40, C:0.11, G:0.05, T:0.44
Consensus pattern (58 bp):
AAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAACTTATTTTCAA
Found at i:7672113 original size:5 final size:5
Alignment explanation
Indices: 7672103--7672141 Score: 60
Period size: 5 Copynumber: 7.4 Consensus size: 5
7672093 TTATTTAAAG
7672103 AAAAT AAAAT AAAAT AAAAAT AAAAAT AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT -AAAAT -AAAAT AAAAT AAAAT AA
7672142 GAAATACTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 22 0.67
6 11 0.33
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:7672128 original size:22 final size:23
Alignment explanation
Indices: 7672104--7672147 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 23
7672094 TATTTAAAGA
7672104 AAATAAAATAAAATAA-AAATAA
1 AAATAAAATAAAATAAGAAATAA
7672126 AAATAAAATAAAATAAGAAATA
1 AAATAAAATAAAATAAGAAATA
7672148 CTAAATAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (23 bp):
AAATAAAATAAAATAAGAAATAA
Found at i:7672130 original size:17 final size:16
Alignment explanation
Indices: 7672103--7672147 Score: 65
Period size: 17 Copynumber: 2.8 Consensus size: 16
7672093 TTATTTAAAG
7672103 AAAAT-AAAATAAAAT
1 AAAATAAAAATAAAAT
7672118 AAAAATAAAAATAAAAT
1 -AAAATAAAAATAAAAT
7672135 AAAATAAGAAATA
1 AAAATAA-AAATA
7672148 CTAAATAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 12 0.44
17 15 0.56
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (16 bp):
AAAATAAAAATAAAAT
Found at i:7672192 original size:10 final size:10
Alignment explanation
Indices: 7672104--7672208 Score: 53
Period size: 10 Copynumber: 10.6 Consensus size: 10
7672094 TATTTAAAGA
7672104 AAATAA-AAT
1 AAATAATAAT
7672113 -AA-AATAA-
1 AAATAATAAT
*
7672120 AAATAAAAAT
1 AAATAATAAT
7672130 AAAATAA-AAT
1 -AAATAATAAT
*
7672140 AAGA-AATACT
1 AA-ATAATAAT
**
7672150 AAATAATTCT
1 AAATAATAAT
*
7672160 AATCTAATCAAT
1 AA-ATAAT-AAT
7672172 AAATAATAAT
1 AAATAATAAT
7672182 -AATAATAAAT
1 AAATAAT-AAT
*
7672192 AAATAAATAAA
1 AAAT-AATAAT
7672203 AAATAA
1 AAATAA
7672209 ATGAAAAAAA
Statistics
Matches: 75, Mismatches: 8, Indels: 25
0.69 0.07 0.23
Matches are distributed among these distances:
7 2 0.03
8 6 0.08
9 15 0.20
10 23 0.31
11 23 0.31
12 6 0.08
ACGTcount: A:0.70, C:0.04, G:0.01, T:0.25
Consensus pattern (10 bp):
AAATAATAAT
Found at i:7672206 original size:15 final size:15
Alignment explanation
Indices: 7672169--7672220 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
7672159 TAATCTAATC
*
7672169 AATAAATAAT-AAT-
1 AATAAAAAATAAATA
*
7672182 AATAATAAATAAATA
1 AATAAAAAATAAATA
7672197 AATAAAAAATAAATGA
1 AATAAAAAATAAAT-A
7672213 AA-AAAAAA
1 AATAAAAAA
7672221 CCTTGAAACA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
13 8 0.24
14 3 0.09
15 19 0.58
16 3 0.09
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (15 bp):
AATAAAAAATAAATA
Found at i:7673099 original size:21 final size:21
Alignment explanation
Indices: 7673083--7673171 Score: 90
Period size: 21 Copynumber: 4.2 Consensus size: 21
7673073 AAATAAAGAT
* *
7673083 AATATATTAATAGATAATTAA
1 AATATAATAATAGATAAATAA
* *
7673104 AAGAAAATAATTAGATAAATAA
1 AATATAATAA-TAGATAAATAA
* *
7673126 AAAATATTAATAGATAAATAA
1 AATATAATAATAGATAAATAA
*
7673147 TA-ATAATAATAGATAAATAA
1 AATATAATAATAGATAAATAA
7673167 TAATA
1 -AATA
7673172 AAGTATATAT
Statistics
Matches: 55, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
20 17 0.31
21 20 0.36
22 18 0.33
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (21 bp):
AATATAATAATAGATAAATAA
Found at i:7673136 original size:43 final size:43
Alignment explanation
Indices: 7673060--7673166 Score: 121
Period size: 43 Copynumber: 2.6 Consensus size: 43
7673050 AGAAAGAAAG
* * * * * *
7673060 AAAAGAAAA-AATAAAATAAAGATAATATATTAATAGATAATT
1 AAAAGAAAATAATTAGATAAATAAAAAATATTAATAGATAAAT
7673102 AAAAGAAAATAATTAGATAAATAAAAAATATTAATAGATAAAT
1 AAAAGAAAATAATTAGATAAATAAAAAATATTAATAGATAAAT
* *
7673145 AATA-ATAATAA-TAGATAAATAA
1 AAAAGAAAATAATTAGATAAATAA
7673167 TAATAAAGTA
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
41 11 0.20
42 15 0.27
43 30 0.54
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (43 bp):
AAAAGAAAATAATTAGATAAATAAAAAATATTAATAGATAAAT
Found at i:7673142 original size:17 final size:17
Alignment explanation
Indices: 7673107--7673168 Score: 52
Period size: 20 Copynumber: 3.4 Consensus size: 17
7673097 TAATTAAAAG
*
7673107 AAAATAATTAGATAAATAA
1 AAAAT-ATTA-ATAGATAA
7673126 AAAATATTAATAGATAAA
1 AAAATATTAATAGAT-AA
*
7673144 TAATAATAATAATAGATAA
1 -AA-AATATTAATAGATAA
*
7673163 ATAATA
1 AAAATA
7673169 ATAAAGTATA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
17 9 0.24
18 7 0.19
19 9 0.24
20 12 0.32
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (17 bp):
AAAATATTAATAGATAA
Found at i:7673150 original size:3 final size:3
Alignment explanation
Indices: 7673128--7673234 Score: 65
Period size: 3 Copynumber: 33.7 Consensus size: 3
7673118 ATAAATAAAA
* *
7673128 AAT ATT AAT AGAT AAAT AAT AAT AAT AAT AGAT AAAT AAT AAT AA- AGT
1 AAT AAT AAT A-AT -AAT AAT AAT AAT AAT A-AT -AAT AAT AAT AAT AAT
* * * *
7673176 ATAT ATT AACA AAT AAAT GAT AAT AAT AAT AAT AAT -AT ATT AAT AAAT
1 A-AT AAT AA-T AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
*
7673224 AGT AAT AAT AA
1 AAT AAT AAT AA
7673235 ATAAATAAAT
Statistics
Matches: 80, Mismatches: 14, Indels: 20
0.70 0.12 0.18
Matches are distributed among these distances:
2 3 0.04
3 57 0.71
4 18 0.22
5 2 0.03
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:7673169 original size:17 final size:16
Alignment explanation
Indices: 7673121--7673242 Score: 99
Period size: 17 Copynumber: 7.6 Consensus size: 16
7673111 TAATTAGATA
* *
7673121 AATAAAAAATATTAAT
1 AATAAATAATAATAAT
7673137 AGATAAATAATAATAAT
1 A-ATAAATAATAATAAT
*
7673154 AATAGAT-A-AATAAT
1 AATAAATAATAATAAT
* *
7673168 AATAAAGTATATATTAACA
1 AATAAA-TA-ATAATAA-T
*
7673187 AATAAATGATAATAAT
1 AATAAATAATAATAAT
*
7673203 AAT-AATAAT-ATATT
1 AATAAATAATAATAAT
*
7673217 AATAAATAGTAATAAT
1 AATAAATAATAATAAT
7673233 AAATAAATAA
1 -AATAAATAA
7673243 ATAAGATACA
Statistics
Matches: 83, Mismatches: 14, Indels: 17
0.73 0.12 0.15
Matches are distributed among these distances:
14 18 0.22
15 12 0.14
16 13 0.16
17 29 0.35
18 5 0.06
19 6 0.07
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (16 bp):
AATAAATAATAATAAT
Found at i:7673192 original size:49 final size:49
Alignment explanation
Indices: 7673129--7673242 Score: 146
Period size: 49 Copynumber: 2.4 Consensus size: 49
7673119 TAAATAAAAA
*
7673129 ATATTAATAGATAAATAATAATAATAATAGATAA-ATAATAATAAAGTA-T
1 ATATTAATAAATAAATAATAATAATAATA-ATAATATAATAATAAA-TAGT
* * *
7673178 ATATTAACAAATAAATGATAATAATAATAATAATATATTAATAAATAGT
1 ATATTAATAAATAAATAATAATAATAATAATAATATAATAATAAATAGT
7673227 A-A-TAATAAATAAATAA
1 ATATTAATAAATAAATAA
7673243 ATAAGATACA
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
47 12 0.21
48 7 0.12
49 38 0.67
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.32
Consensus pattern (49 bp):
ATATTAATAAATAAATAATAATAATAATAATAATATAATAATAAATAGT
Found at i:7673237 original size:4 final size:4
Alignment explanation
Indices: 7673217--7673290 Score: 50
Period size: 4 Copynumber: 18.5 Consensus size: 4
7673207 ATAATATATT
*
7673217 AATA AATA GTAAT- AATA AATA AATA AATA AGATA CAAAA AAT- AA-A
1 AATA AATA --AATA AATA AATA AATA AATA A-ATA -AATA AATA AATA
*
7673262 AATA CA-A AATA AA-A AATAA AATA AATA AA
1 AATA AATA AATA AATA AAT-A AATA AATA AA
7673291 ATGAAATGGG
Statistics
Matches: 56, Mismatches: 4, Indels: 20
0.70 0.05 0.25
Matches are distributed among these distances:
3 12 0.21
4 31 0.55
5 9 0.16
6 4 0.07
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.20
Consensus pattern (4 bp):
AATA
Found at i:7673260 original size:14 final size:15
Alignment explanation
Indices: 7673227--7673291 Score: 57
Period size: 15 Copynumber: 4.5 Consensus size: 15
7673217 AATAAATAGT
*
7673227 AATAATAAATA-AATA
1 AATAA-AAATACAAAA
*
7673242 AAT-AAGATACAAAA
1 AATAAAAATACAAAA
7673256 AATAAAAATACAAAA
1 AATAAAAATACAAAA
*
7673271 TA-AAAAATA-AAATA
1 AATAAAAATACAAA-A
7673285 AATAAAA
1 AATAAAA
7673292 TGAAATGGGC
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
13 7 0.17
14 16 0.39
15 18 0.44
ACGTcount: A:0.77, C:0.03, G:0.02, T:0.18
Consensus pattern (15 bp):
AATAAAAATACAAAA
Found at i:7673268 original size:15 final size:14
Alignment explanation
Indices: 7673227--7673291 Score: 53
Period size: 14 Copynumber: 4.5 Consensus size: 14
7673217 AATAAATAGT
*
7673227 AATAATAAATAAATA
1 AATAA-AAATAAAAA
*
7673242 AAT-AAGATACAAAA
1 AATAAAAATA-AAAA
*
7673256 AATAAAAAT-ACAA
1 AATAAAAATAAAAA
7673269 AATAAAAAATAAAATA
1 AAT-AAAAATAAAA-A
7673285 AATAAAA
1 AATAAAA
7673292 TGAAATGGGC
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
13 10 0.25
14 13 0.32
15 13 0.32
16 4 0.10
ACGTcount: A:0.77, C:0.03, G:0.02, T:0.18
Consensus pattern (14 bp):
AATAAAAATAAAAA
Found at i:7673282 original size:12 final size:13
Alignment explanation
Indices: 7673254--7673286 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
7673244 TAAGATACAA
7673254 AAAATAAAAATAC
1 AAAATAAAAATAC
*
7673267 AAAATAAAAA-AT
1 AAAATAAAAATAC
7673279 AAAATAAA
1 AAAATAAA
7673287 TAAAATGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAATAAAAATAC
Found at i:7673554 original size:64 final size:64
Alignment explanation
Indices: 7673486--7673627 Score: 141
Period size: 64 Copynumber: 2.2 Consensus size: 64
7673476 TTACAAAAAA
* * *
7673486 TTGAATGAGATTATTGAAGACATTTTTTGT-TGAAAACACCTTTCAATAATCTAT-TTAAAAAAT
1 TTGAATGAGATTATTGAAGACATTTTTT-TCTAAAAACACC-TTCAATAATCCATATAAAAAAAT
7673549 T
64 T
* * * **
7673550 TTGAA-AAGGATTATTGAAGGCGTTTTTTTCTAAAAATGCCTTCAATAATCCATATAAAAAAATT
1 TTGAATGA-GATTATTGAAGACATTTTTTTCTAAAAACACCTTCAATAATCCATATAAAAAAATT
7673614 TT-ATATG-GATTATT
1 TTGA-ATGAGATTATT
7673628 TACTGATAAA
Statistics
Matches: 64, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
63 22 0.34
64 42 0.66
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.40
Consensus pattern (64 bp):
TTGAATGAGATTATTGAAGACATTTTTTTCTAAAAACACCTTCAATAATCCATATAAAAAAATT
Found at i:7674055 original size:37 final size:35
Alignment explanation
Indices: 7673978--7674057 Score: 97
Period size: 35 Copynumber: 2.2 Consensus size: 35
7673968 AAGAGACTTT
* * *
7673978 TACTGATAGATTTTTAATACCATTAAAATATACCA
1 TACTTATAGATTTTTAATAACATCAAAATATACCA
* *
7674013 TACTTATAGATTTTTAATAACGTCAGAATATATATCA
1 TACTTATAGATTTTTAATAACATCA-AA-ATATACCA
7674050 TACTTATA
1 TACTTATA
7674058 CTAATATTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
35 21 0.55
36 2 0.05
37 15 0.39
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.40
Consensus pattern (35 bp):
TACTTATAGATTTTTAATAACATCAAAATATACCA
Found at i:7674310 original size:64 final size:63
Alignment explanation
Indices: 7674212--7674610 Score: 314
Period size: 64 Copynumber: 6.3 Consensus size: 63
7674202 ATTGAATAGG
* * * * *
7674212 ATTATTGAAAGCATTTTTAACCAAAAATACCTTCAATAATCCATACAAAAAATTTTGTTGAGGGA
1 ATTATTGAAGGCATTTTTGACCAAAAATACCTTCAATAATCCCT-CAAAAAA-TTTATTAAGGGA
* *
7674277 ATTATTGAAGGCA-TTTTGACCAAAAATACCTTCAATAATCCTTTGAAAAAATTTCA--AAGGG-
1 ATTATTGAAGGCATTTTTGACCAAAAATACCTTCAATAATCC-CTCAAAAAATTT-ATTAAGGGA
*** ** * * *
7674338 ATTATTGAAGATTTTTTTGACCAAAAATGTCTTGAATAA-CTCTTTATAAAAATTTATTAA-GGA
1 ATTATTGAAGGCATTTTTGACCAAAAATACCTTCAATAATC-CCTCA-AAAAATTTATTAAGGGA
* * * *
7674401 GATTATTTAAGGTATTTTT-AGGCAAAAACACCTTCAATAATCCCTCATAAAAATTTATTAAGGG
1 -ATTATTGAAGGCATTTTTGA-CCAAAAATACCTTCAATAATCCCTCA-AAAAATTTATTAAGGG
*
7674465 G
63 A
* *** *
7674466 ATTATTAAAGGCATTTTTGGTAAAAAATACCTTCAATAATCCCTCATAAAAATTTATGGAA-GGA
1 ATTATTGAAGGCATTTTTGACCAAAAATACCTTCAATAATCCCTCA-AAAAATTTAT-TAAGGGA
* * * * * *
7674530 ATTATT-AAAGTATTTTTGACCAAAAATGCATTCAATAATCTCTCATAAAAATTTATTGATGGG-
1 ATTATTGAAGGCATTTTTGACCAAAAATACCTTCAATAATCCCTCA-AAAAATTTATT-AAGGGA
* *
7674593 ATTATTCAAGGTATTTTT
1 ATTATTGAAGGCATTTTT
7674611 TGTCAAAAAT
Statistics
Matches: 274, Mismatches: 43, Indels: 35
0.78 0.12 0.10
Matches are distributed among these distances:
61 15 0.05
62 37 0.14
63 55 0.20
64 149 0.54
65 18 0.07
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (63 bp):
ATTATTGAAGGCATTTTTGACCAAAAATACCTTCAATAATCCCTCAAAAAATTTATTAAGGGA
Found at i:7674575 original size:127 final size:128
Alignment explanation
Indices: 7674383--7674631 Score: 324
Period size: 127 Copynumber: 2.0 Consensus size: 128
7674373 ATAACTCTTT
* * * *
7674383 ATAAAAATTTATTAAGGAGATTATTTAAGGTATTTTTAGGCAAAAACACCTTCAATAATCCCTCA
1 ATAAAAATTTATGAAGGAGATTATTTAAAGTATTTTTAGCCAAAAACACATTCAATAATCCCTCA
7674448 TAAAAATTTATTAAGGGGATTATTAAAGGCATTTTTGGTAAAAAATACCTTCAATAATCCCTC
66 TAAAAATTTATTAAGGGGATTATTAAAGGCATTTTTGGTAAAAAATACCTTCAATAATCCCTC
** *
7674511 ATAAAAATTTATGGAAGGA-ATTA-TTAAAGTATTTTT-GACCAAAAATGCATTCAATAATCTCT
1 ATAAAAATTTAT-GAAGGAGATTATTTAAAGTATTTTTAG-CCAAAAACACATTCAATAATCCCT
* * * * * * * *
7674573 CATAAAAATTTATTGATGGGATTATTCAAGGTATTTTTTGTCAAAAATGCCTTGAATAA
64 CATAAAAATTTATTAAGGGGATTATTAAAGGCATTTTTGGTAAAAAATACCTTCAATAA
7674632 CCACATTGAA
Statistics
Matches: 104, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
126 1 0.01
127 82 0.79
128 16 0.15
129 5 0.05
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.36
Consensus pattern (128 bp):
ATAAAAATTTATGAAGGAGATTATTTAAAGTATTTTTAGCCAAAAACACATTCAATAATCCCTCA
TAAAAATTTATTAAGGGGATTATTAAAGGCATTTTTGGTAAAAAATACCTTCAATAATCCCTC
Found at i:7680207 original size:25 final size:25
Alignment explanation
Indices: 7680179--7680228 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
7680169 GGTTTCTACG
*
7680179 ACCCTCGAAATCAGTTACGTAACCT
1 ACCCTAGAAATCAGTTACGTAACCT
7680204 ACCCTAGAAATCAGTTACGTAACCT
1 ACCCTAGAAATCAGTTACGTAACCT
7680229 GGGTCTTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.34, C:0.30, G:0.12, T:0.24
Consensus pattern (25 bp):
ACCCTAGAAATCAGTTACGTAACCT
Found at i:7685835 original size:2 final size:2
Alignment explanation
Indices: 7685828--7685855 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7685818 TCTCCATTAT
7685828 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
7685856 AGCTAAGGAG
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):
TA
Found at i:7688645 original size:18 final size:18
Alignment explanation
Indices: 7688604--7688651 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
7688594 ATACTTTAGG
*
7688604 ATGATACATTTGTGGTAG
1 ATGATACATTTGTGGTAA
** *
7688622 GGGATACATTTTTGGTAA
1 ATGATACATTTGTGGTAA
7688640 ATGATACATTTG
1 ATGATACATTTG
7688652 AGGAGGTGGA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.29, C:0.06, G:0.25, T:0.40
Consensus pattern (18 bp):
ATGATACATTTGTGGTAA
Found at i:7688698 original size:18 final size:18
Alignment explanation
Indices: 7688640--7688698 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 18
7688630 TTTTTGGTAA
7688640 ATGATACATTTGAGGAGGTGG
1 ATGATACATTTGA--A-GTGG
* * *
7688661 AGGATATATTTGAGGTGG
1 ATGATACATTTGAAGTGG
7688679 ATGATACATTTGAAGTGG
1 ATGATACATTTGAAGTGG
7688697 AT
1 AT
7688699 AATAACCATA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
18 21 0.66
21 11 0.34
ACGTcount: A:0.31, C:0.03, G:0.34, T:0.32
Consensus pattern (18 bp):
ATGATACATTTGAAGTGG
Found at i:7689055 original size:6 final size:6
Alignment explanation
Indices: 7689041--7689084 Score: 61
Period size: 6 Copynumber: 7.3 Consensus size: 6
7689031 CCAAAATTTA
* * *
7689041 CACCAT CACCGT CACCAT CATCAT CACCAT CACCAT CATCAT CA
1 CACCAT CACCAT CACCAT CACCAT CACCAT CACCAT CACCAT CA
7689085 TCATTATCTA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.32, C:0.45, G:0.02, T:0.20
Consensus pattern (6 bp):
CACCAT
Found at i:7689065 original size:18 final size:18
Alignment explanation
Indices: 7689044--7689084 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
7689034 AAATTTACAC
*
7689044 CATCACCGTCACCATCAT
1 CATCACCATCACCATCAT
7689062 CATCACCATCACCATCAT
1 CATCACCATCACCATCAT
7689080 CATCA
1 CATCA
7689085 TCATTATCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.32, C:0.44, G:0.02, T:0.22
Consensus pattern (18 bp):
CATCACCATCACCATCAT
Found at i:7692722 original size:496 final size:493
Alignment explanation
Indices: 7692060--7693002 Score: 1493
Period size: 496 Copynumber: 1.9 Consensus size: 493
7692050 ATTCTAAATT
7692060 TTTTAAATTTTTAGTTTTTAATCTTAAGAATAATAGATCATAAAACGCTAAATTTATTAAGTAAC
1 TTTTAAATTTTTAGTTTTTAATCTTAAGAATAATAGATCATAAAACGCTAAATTTATTAAGTAAC
7692125 TTAATCTTTTTTATACACTAATTGATATAAATTTTTTTTATCACAAATAACTTTCAATAATAATA
66 TTAATCTTTTTTATACACTAATTGATATAAATTTTTTTTATCACAAATAACTTTCAATAATAATA
* * * *
7692190 TAATAAATACAATCTTCAATAATTACTCAAAAATAATAAGAATGAATCTAATATCAAAAGAATTA
131 TAATAAATACAATCTTCAATAATTACACAAAAATAATAAAAATGAATCTAATATAAAAAAAATTA
* *
7692255 ACAACAATATAAATACCAAAACAACAAAAAAATTTATTAAATTTCAGATACAAAATTATAAATTA
196 ACAACAATATAAATACCAAAACAACAAAAAAA--TATTAAATTTCAAATACAAAATCATAAATTA
* * *
7692320 ATATATAATACAATCAAAATATAATATTTAATTTTACTTAATTTTCATCTAACTTAT-AAAAAAA
259 ATATATAACAAAATCAAAATATAATATTTAATTTTAATTAATTTTCATCTAACTTATAAAAAAAA
*
7692384 ATTATCAAAAATTTTCATCTAAAATCTCTATATATATAATATTAAATTATTAATCCCTTAATTTT
324 ATTATCAAAAATTTTCATCTAAAATCTCTATATAGATAATATTAAATTATTAATCCCTTAA-TTT
* * *
7692449 TTTTAATTATAAA-TCTTCAATCCCTCTAATTAGATTTTTTCTGAAAAAA-TTTTAAAATTTTAA
388 TTTTAATTATAAATTC-TCAATACCTCTAATTAAATTTTATCT-AAAAAATTTTTAAAATTTTAA
7692512 AATTTTCAAACTTATATTTTAATAAAATTTTCAAACTTATATA
451 AATTTTCAAACTTATATTTTAATAAAATTTTCAAACTTATATA
* *
7692555 TTTT-AATTTTTAGTTTTTAATCTTAATAAGAGTAATAGATCATAAAATGCTAAATTTATTAAGT
1 TTTTAAATTTTTAGTTTTTAATC-T--TAAGAATAATAGATCATAAAACGCTAAATTTATTAAGT
* *
7692619 AACTTAAT-TTTTTTGATACATTAATTGATATAAA-TTTTTTTATCACAAATTACTTTCAATAAT
63 AACTTAATCTTTTTT-ATACACTAATTGATATAAATTTTTTTTATCACAAATAACTTTCAATAAT
* * *
7692682 TATATAATAAATAGAATCTTCAATAATTACACAAAAATAATAAAAATTAATCTAATATAAAAAAA
127 AATATAATAAATACAATCTTCAATAATTACACAAAAATAATAAAAATGAATCTAATATAAAAAAA
* *
7692747 ATTGACAACAATATAAATACCAAAACAACAAAAACATATTAAATTTCAAATACAAAATCATAAAT
192 ATTAACAACAATATAAATACCAAAACAACAAAAAAATATTAAATTTCAAATACAAAATCATAAAT
* *
7692812 TAATATATAACAAAATTAAAATATAATATTTAATTTTAATTATTTTTCATCTAACTTATACAAAA
257 TAATATATAACAAAATCAAAATATAATATTTAATTTTAATTAATTTTCATCTAACTTAT---AAA
* *
7692877 AAAAAATTATCAAAAATTTTCATCTAAAATCTCTATATAGATTATATTAAATTATTAATTCCTTA
319 AAAAAATTATCAAAAATTTTCATCTAAAATCTCTATATAGATAATATTAAATTATTAATCCCTTA
*
7692942 ATTTTTTTAATTATAAATTCTCAATACTTCTAATTAAATTTTATCTAAAAAATTTTTAAAA
384 ATTTTTTTAATTATAAATTCTCAATACCTCTAATTAAATTTTATCTAAAAAATTTTTAAAA
7693003 ATTAATTACA
Statistics
Matches: 411, Mismatches: 27, Indels: 18
0.90 0.06 0.04
Matches are distributed among these distances:
494 99 0.24
495 5 0.01
496 132 0.32
497 108 0.26
498 67 0.16
ACGTcount: A:0.47, C:0.10, G:0.02, T:0.40
Consensus pattern (493 bp):
TTTTAAATTTTTAGTTTTTAATCTTAAGAATAATAGATCATAAAACGCTAAATTTATTAAGTAAC
TTAATCTTTTTTATACACTAATTGATATAAATTTTTTTTATCACAAATAACTTTCAATAATAATA
TAATAAATACAATCTTCAATAATTACACAAAAATAATAAAAATGAATCTAATATAAAAAAAATTA
ACAACAATATAAATACCAAAACAACAAAAAAATATTAAATTTCAAATACAAAATCATAAATTAAT
ATATAACAAAATCAAAATATAATATTTAATTTTAATTAATTTTCATCTAACTTATAAAAAAAAAT
TATCAAAAATTTTCATCTAAAATCTCTATATAGATAATATTAAATTATTAATCCCTTAATTTTTT
TAATTATAAATTCTCAATACCTCTAATTAAATTTTATCTAAAAAATTTTTAAAATTTTAAAATTT
TCAAACTTATATTTTAATAAAATTTTCAAACTTATATA
Found at i:7694113 original size:58 final size:57
Alignment explanation
Indices: 7693860--7694536 Score: 703
Period size: 58 Copynumber: 11.7 Consensus size: 57
7693850 TTTTGTGCAG
* * * * *
7693860 GAAAAATTGATACTTTTAACTTTTTCTC-AAAATATTTTTT-AGAAATTTTAATTTCGA
1 GAAAAATTGATACTTTCAAC-TTTTCCCAAAAATATTTTTTGA-AAACTTTATTTTCAA
* * * *
7693917 GGAAAATTGATACTTTCAACTTTTCTCC-AAAATA-TTTTTGGAAACTTTAATTTCGA
1 GAAAAATTGATACTTTCAACTTTTC-CCAAAAATATTTTTTGAAAACTTTATTTTCAA
* ** *
7693973 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTGAAAA-TTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCC-CAAAAATATTTTTTGAAAACTTTATTTTCAA
* * * *
7694030 GGAAAATTGATACTTTCAATTTTTTCCCAAAAATATTTTTTGAAAAACTTTAATTTCGA
1 GAAAAATTGATACTTTCAA-CTTTTCCCAAAAATATTTTTTG-AAAACTTTATTTTCAA
* * * * *
7694089 GAAAAATTTATACTTTCAACTTTTCTTCAAAAAAACTTTTTTTGAAAA-TTTTTTTTTAA
1 GAAAAATTGATACTTTCAACTTTTC-CCAAAAATA--TTTTTTGAAAACTTTATTTTCAA
* *
7694148 GAAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGAAAACTTTAATTTCGA
1 GAAAAATTGATACTTTCAAC-TTTTCCCAAAAATATTTTTTGAAAACTTTATTTTCAA
* * *
7694206 GAAAAATTCATACTTTCAAC-TTTCCTCAAAAAAAAGTTTTTTGAAAA-TTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCC-C-AAAAATA-TTTTTTGAAAACTTTATTTTCAA
* *
7694264 GGAAAATTGATACTTTCAACTTTTCGCCAAAAATATTTTTT-AGAAAGTTTATTTTCAA
1 GAAAAATTGATACTTTCAACTTTTC-CCAAAAATATTTTTTGA-AAACTTTATTTTCAA
* ** *
7694322 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTGAAAAC-TTATTTTGAA
1 GAAAAATTGATACTTTCAACTTTTCC-CAAAAA-TATTTTTTGAAAACTTTATTTTCAA
* * * *** *
7694380 GAAAAATTGATGCTTGCAACATTTCCTCAAAACCCCTTTTTTGAAAA-TTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCC-CAAAA-ATATTTTTTGAAAACTTTATTTTCAA
*
7694438 GAAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAAGC-TTATTTTCAA
1 GAAAAATTGATACTTTCAACTTTTCCC-AAAAATATTTTTT-GAAAACTTTATTTTCAA
7694496 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT
1 GAAAAATTGATACTTTCAACTTTT-CCCAAAAATATTTTTT
7694537 TTTGGATTTT
Statistics
Matches: 531, Mismatches: 60, Indels: 57
0.82 0.09 0.09
Matches are distributed among these distances:
55 1 0.00
56 56 0.11
57 98 0.18
58 265 0.50
59 93 0.18
60 11 0.02
61 7 0.01
ACGTcount: A:0.36, C:0.13, G:0.08, T:0.43
Consensus pattern (57 bp):
GAAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTGAAAACTTTATTTTCAA
Found at i:7694113 original size:116 final size:115
Alignment explanation
Indices: 7693860--7694536 Score: 796
Period size: 116 Copynumber: 5.9 Consensus size: 115
7693850 TTTTGTGCAG
* * * * * ** *
7693860 GAAAAATTGATACTTTTAACTTTTTCTCAAAATA--TTTTTTAGAAATTTTAATTTCGAGGAAAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAAACCTTTTTT-GAAAATTTATTTTTAAGAAAAA
*
7693923 TTGATACTTTCAACTTTTCTCC-AAAATA-TTTTTGGAAACTTTAATTTCGA
65 TTGATACTTTCAACTTTTC-CCAAAAATATTTTTTGAAAACTTTAATTTCGA
* *
7693973 GGAAAATTGATACTTTCAACTTTTCCTC-AAAAACCTTTTTTGAAAATTTATTTTTAAGGAAAAT
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAAACCTTTTTTGAAAATTTATTTTTAAGAAAAAT
*
7694037 TGATACTTTCAATTTTTTCCCAAAAATATTTTTTGAAAAACTTTAATTTCGA
66 TGATACTTTCAA-CTTTTCCCAAAAATATTTTTTG-AAAACTTTAATTTCGA
* * * *
7694089 GAAAAATTTATACTTTCAACTTTTCTTCAAAAAAACTTTTTTTGAAAATTTTTTTTTAAGAAAAA
1 GAAAAATTGATACTTTCAACTTTTCCTC-AAAAAACCTTTTTTGAAAATTTATTTTTAAGAAAAA
7694154 TTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGAAAACTTTAATTTCGA
65 TTGATACTTTCAAC-TTTTCCCAAAAATATTTTTTGAAAACTTTAATTTCGA
* ** *
7694206 GAAAAATTCATACTTTCAAC-TTTCCTCAAAAAAAAGTTTTTTGAAAATTTATTTTTAAGGAAAA
1 GAAAAATTGATACTTTCAACTTTTCCTC-AAAAAACCTTTTTTGAAAATTTATTTTTAAGAAAAA
* * *
7694270 TTGATACTTTCAACTTTTCGCCAAAAATATTTTTT-AGAAAGTTTATTTTCAA
65 TTGATACTTTCAACTTTTC-CCAAAAATATTTTTTGA-AAACTTTAATTTCGA
* * * *
7694322 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTGAAAACTTATTTTGAAGAAAAAT
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAAACCTTTTTTGAAAATTTATTTTTAAGAAAAAT
* * * *** * **
7694387 TGATGCTTGCAACATTTCCTCAAAACCCCTTTTTTGAAAA-TTTATTTTTAA
66 TGATACTTTCAACTTTTCC-CAAAA-ATATTTTTTGAAAACTTTAATTTCGA
* ** ** *
7694438 GAAAAATTGATACTTTCAACTTTTCC-CTAAAAATATTTTTTGGAAAGCTTATTTTCAAGAAAAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAAACCTTTTTT-GAAAATTTATTTTTAAGAAAAA
7694502 TTGATACTTTCAACTTTTCCCCAAAAATATTTTTT
65 TTGATACTTTCAACTTTT-CCCAAAAATATTTTTT
7694537 TTTGGATTTT
Statistics
Matches: 493, Mismatches: 54, Indels: 32
0.85 0.09 0.06
Matches are distributed among these distances:
112 4 0.01
113 58 0.12
114 17 0.03
115 30 0.06
116 264 0.54
117 53 0.11
118 67 0.14
ACGTcount: A:0.36, C:0.13, G:0.08, T:0.43
Consensus pattern (115 bp):
GAAAAATTGATACTTTCAACTTTTCCTCAAAAAACCTTTTTTGAAAATTTATTTTTAAGAAAAAT
TGATACTTTCAACTTTTCCCAAAAATATTTTTTGAAAACTTTAATTTCGA
Found at i:7694386 original size:174 final size:172
Alignment explanation
Indices: 7693860--7694528 Score: 778
Period size: 174 Copynumber: 3.9 Consensus size: 172
7693850 TTTTGTGCAG
* * * * * *
7693860 GAAAAATTGATACTTTTAACTTTTTCTC-AAAATATTTTTTAGAAATTTTAATTTCGAGGAAAAT
1 GAAAAATTGATACTTTCAACATTTCCTCAAAAATATTTTTT-GAAAATTTAATTTCAAGAAAAAT
* * * *
7693924 TGATACTTTCAACTTTTCTCC-AAAATA-TTTTTGGAAACTTTAATTTCGAGGAAAATTGATACT
65 TGATACTTTCAACTTTTCTCCAAAAATATTTTTTGGAAAGTTTATTTTCAAGAAAAATTGATACT
* *
7693987 TTCAACTTTTCCTCAAAAACCTTTTTTGAAAATTTATTTTTAA
130 TTCAACTTTTCCTCAAAAACCTTTTTTGAAAACTTATTTTGAA
* ** *
7694030 GGAAAATTGATACTTTCAATTTTTTCC-CAAAAATATTTTTTGAAAAACTTTAATTTCGAGAAAA
1 GAAAAATTGATACTTTCAA-CATTTCCTCAAAAATATTTTTTG-AAAA-TTTAATTTCAAGAAAA
* * * * * * *
7694094 ATTTATACTTTCAACTTTTCTTCAAAAAAACTTTTTTTGAAAATTTTTTTTTAAGAAAAATTGAT
63 ATTGATACTTTCAACTTTTCTCCAAAAATA-TTTTTTGGAAAGTTTATTTTCAAGAAAAATTGAT
** *
7694159 ACTTTCAACTTTTTCC-CAAAAATATTTTTTGAAAACTTTAATTTCG-A
127 ACTTTCAAC-TTTTCCTCAAAAACCTTTTTTGAAAAC-TT-ATTTTGAA
* * * * *
7694206 GAAAAATTCATACTTTCAAC-TTTCCTCAAAAAAAAGTTTTTTGAAAATTTATTTTTAAGGAAAA
1 GAAAAATTGATACTTTCAACATTTCCTC-AAAAATA-TTTTTTGAAAATTTAATTTCAAGAAAAA
* * *
7694270 TTGATACTTTCAACTTTTCGCCAAAAATATTTTTTAGAAAGTTTATTTTCAAGGAAAATTGATAC
64 TTGATACTTTCAACTTTTCTCCAAAAATATTTTTTGGAAAGTTTATTTTCAAGAAAAATTGATAC
7694335 TTTCAACTTTTCCTCAAAAACCCTTTTTTGAAAACTTATTTTGAA
129 TTTCAACTTTTCCTCAAAAA-CCTTTTTTGAAAACTTATTTTGAA
* * *** * *
7694380 GAAAAATTGATGCTTGCAACATTTCCTCAAAACCCCTTTTTTGAAAATTTATTTTTAAGAAAAAT
1 GAAAAATTGATACTTTCAACATTTCCTCAAAA-ATATTTTTTGAAAATTTAATTTCAAGAAAAAT
*
7694445 TGATACTTTCAACTTTTC-CCTAAAAATATTTTTTGGAAAGCTTATTTTCAAGAAAAATTGATAC
65 TGATACTTTCAACTTTTCTCC-AAAAATATTTTTTGGAAAGTTTATTTTCAAGAAAAATTGATAC
*
7694509 TTTCAACTTTTCCCCAAAAA
129 TTTCAACTTTTCCTCAAAAA
7694529 TATTTTTTTT
Statistics
Matches: 428, Mismatches: 52, Indels: 34
0.83 0.10 0.07
Matches are distributed among these distances:
170 19 0.04
171 20 0.05
172 36 0.08
173 18 0.04
174 178 0.42
175 110 0.26
176 36 0.08
177 11 0.03
ACGTcount: A:0.37, C:0.14, G:0.08, T:0.42
Consensus pattern (172 bp):
GAAAAATTGATACTTTCAACATTTCCTCAAAAATATTTTTTGAAAATTTAATTTCAAGAAAAATT
GATACTTTCAACTTTTCTCCAAAAATATTTTTTGGAAAGTTTATTTTCAAGAAAAATTGATACTT
TCAACTTTTCCTCAAAAACCTTTTTTGAAAACTTATTTTGAA
Found at i:7694582 original size:6 final size:6
Alignment explanation
Indices: 7694555--7694644 Score: 98
Period size: 6 Copynumber: 15.5 Consensus size: 6
7694545 TTATTTAAAG
* * * *
7694555 AAAAT- AAAATA AAAAGTG AAAATA AAAA-A TAAAGA AAAGT- AAAATA
1 AAAATA AAAATA AAAA-TA AAAATA AAAATA AAAATA AAAATA AAAATA
*
7694601 AAAATA AAAATA AAAAT- AAAATA AAGATA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA
7694645 GAATATTAAA
Statistics
Matches: 71, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
5 18 0.25
6 48 0.68
7 5 0.07
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:7694615 original size:23 final size:23
Alignment explanation
Indices: 7694555--7694644 Score: 112
Period size: 23 Copynumber: 3.9 Consensus size: 23
7694545 TTATTTAAAG
7694555 AAAAT-AAAATAAAAAGTGAAAATA
1 AAAATAAAAATAAAAA-T-AAAATA
* * *
7694579 AAAA-ATAAAGAAAAGTAAAATA
1 AAAATAAAAATAAAAATAAAATA
7694601 AAAATAAAAATAAAAATAAAATA
1 AAAATAAAAATAAAAATAAAATA
*
7694624 AAGATAAAAATAAAAATAAAA
1 AAAATAAAAATAAAAATAAAA
7694645 GAATATTAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
22 10 0.18
23 36 0.63
24 11 0.19
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.16
Consensus pattern (23 bp):
AAAATAAAAATAAAAATAAAATA
Found at i:7694621 original size:29 final size:28
Alignment explanation
Indices: 7694555--7694644 Score: 110
Period size: 29 Copynumber: 3.1 Consensus size: 28
7694545 TTATTTAAAG
*
7694555 AAAATAAAATAAAAAGTGAAAATAAAAAATA
1 AAAATAAAAT-AAAA-TAAAAAT-AAAAATA
* *
7694586 AAGA-AAAGTAAAATAAAAATAAAAATA
1 AAAATAAAATAAAATAAAAATAAAAATA
7694613 AAAATAAAATAAAGATAAAAATAAAAATA
1 AAAATAAAATAAA-ATAAAAATAAAAATA
7694642 AAA
1 AAA
7694645 GAATATTAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
27 10 0.19
28 13 0.25
29 22 0.42
30 4 0.08
31 3 0.06
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.16
Consensus pattern (28 bp):
AAAATAAAATAAAATAAAAATAAAAATA
Found at i:7695385 original size:1 final size:1
Alignment explanation
Indices: 7695374--7695422 Score: 53
Period size: 1 Copynumber: 49.0 Consensus size: 1
7695364 AACTTGACAC
* * * * *
7695374 TTTTTTGTTTTTATTTTTTTTTTGTTTTGTTTTGTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
7695423 GGTTAAAATT
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 38 1.00
ACGTcount: A:0.02, C:0.00, G:0.08, T:0.90
Consensus pattern (1 bp):
T
Found at i:7695396 original size:17 final size:17
Alignment explanation
Indices: 7695374--7695423 Score: 68
Period size: 17 Copynumber: 2.9 Consensus size: 17
7695364 AACTTGACAC
7695374 TTTTTTGTTTTTATTT-T
1 TTTTTTGTTTTT-TTTGT
7695391 TTTTTTGTTTTGTTTTGT
1 TTTTTTGTTTT-TTTTGT
7695409 TTTTTT-TTTTTTTTG
1 TTTTTTGTTTTTTTTG
7695424 GTTAAAATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
16 5 0.16
17 18 0.58
18 8 0.26
ACGTcount: A:0.02, C:0.00, G:0.10, T:0.88
Consensus pattern (17 bp):
TTTTTTGTTTTTTTTGT
Found at i:7695401 original size:22 final size:21
Alignment explanation
Indices: 7695376--7695423 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 21
7695366 CTTGACACTT
7695376 TTTTGTTTTTATTTTTTTTTTG
1 TTTTGTTTTT-TTTTTTTTTTG
7695398 TTTTGTTTTGTTTTTTTTTTT-
1 TTTTGTTTT-TTTTTTTTTTTG
7695419 TTTTG
1 TTTTG
7695424 GTTAAAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 5 0.20
22 19 0.76
23 1 0.04
ACGTcount: A:0.02, C:0.00, G:0.10, T:0.88
Consensus pattern (21 bp):
TTTTGTTTTTTTTTTTTTTTG
Found at i:7695541 original size:44 final size:42
Alignment explanation
Indices: 7695442--7695693 Score: 214
Period size: 42 Copynumber: 5.9 Consensus size: 42
7695432 TTTGATCAAA
* * *
7695442 GCTCCTCTAAGCAGAGGCTTAACGACTTTGAGAAACATAAACAAA
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGA-AAA-ATAAA-AAG
7695487 GCTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAATAAACAAG
1 GCTCCTCTAATCAGAGGCTCAACGAC-TTTGAAAAATAAA-AAG
* * *
7695531 GCTCCTCTAATCAGAGGCTCAATGATTTTGAAAAA-ATAAATG
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATA-AAAAG
* *
7695573 GCTCCTCTAATCAGAGGCATCAACAACTTTG-AAAAT--AATG
1 GCTCCTCTAATCAGAGGC-TCAACGACTTTGAAAAATAAAAAG
* * * * *
7695613 GCTCCTCTAATCAGAGGTATC-ACAACTTTGGAAGAGT-AAATG
1 GCTCCTCTAATCAGAGG-CTCAACGACTTT-GAAAAATAAAAAG
* *
7695655 GCTCCTCTAAAT-AGAGGCATC-ACAACTTTGAAAAGTAAA
1 GCTCCTCT-AATCAGAGGC-TCAACGACTTTGAAAAATAAA
7695694 TTGCTCCTCT
Statistics
Matches: 182, Mismatches: 14, Indels: 25
0.82 0.06 0.11
Matches are distributed among these distances:
39 8 0.04
40 24 0.13
41 9 0.05
42 54 0.30
43 23 0.13
44 32 0.18
45 27 0.15
46 5 0.03
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.24
Consensus pattern (42 bp):
GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAAAAG
Found at i:7695589 original size:42 final size:43
Alignment explanation
Indices: 7695442--7695629 Score: 217
Period size: 44 Copynumber: 4.4 Consensus size: 43
7695432 TTTGATCAAA
* * *
7695442 GCTCCTCTAAGCAGAGGCTTAACGACTTTGAGAAACATAAACAAA
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGA-AAA-ATAAACAAG
7695487 GCTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAATAAACAAG
1 GCTCCTCTAATCAGAGGCTCAACGAC-TTTGAAAAATAAACAAG
* * *
7695531 GCTCCTCTAATCAGAGGCTCAATGATTTTGAAAAA-ATAA-ATG
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATA-AACAAG
* *
7695573 GCTCCTCTAATCAGAGGCATCAACAACTTTG-AAAAT--A-ATG
1 GCTCCTCTAATCAGAGGC-TCAACGACTTTGAAAAATAAACAAG
7695613 GCTCCTCTAATCAGAGG
1 GCTCCTCTAATCAGAGG
7695630 TATCACAACT
Statistics
Matches: 130, Mismatches: 9, Indels: 13
0.86 0.06 0.09
Matches are distributed among these distances:
40 21 0.16
42 25 0.19
43 20 0.15
44 32 0.25
45 27 0.21
46 5 0.04
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.24
Consensus pattern (43 bp):
GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAACAAG
Found at i:7695671 original size:42 final size:41
Alignment explanation
Indices: 7695557--7695826 Score: 332
Period size: 42 Copynumber: 6.5 Consensus size: 41
7695547 GCTCAATGAT
* *
7695557 TTTGAAAAAATAAATGGCTCCTCT-AATCAGAGGCATCAACAAC
1 TTTG-AAAAGTAAATTGCTCCTCTAAAT-AGAGGCATC-ACAAC
* *
7695600 TTTGAAAA-T-AATGGCTCCTCT-AATCAGAGGTATCACAAC
1 TTTGAAAAGTAAATTGCTCCTCTAAAT-AGAGGCATCACAAC
* *
7695639 TTTGGAAGAGTAAATGGCTCCTCTAAATAGAGGCATCACAAC
1 TTT-GAAAAGTAAATTGCTCCTCTAAATAGAGGCATCACAAC
* *
7695681 TTTGAAAAGTAAATTGCTCCTCTAAATAGAGGCACCTCAAC
1 TTTGAAAAGTAAATTGCTCCTCTAAATAGAGGCATCACAAC
* * **
7695722 TTTTAGAAAGTAAATTGCTCCTCTAAATAGAGGCAGCTTAAC
1 TTTGA-AAAGTAAATTGCTCCTCTAAATAGAGGCATCACAAC
*
7695764 TTTTGAAAAGTAAATTGCTCCTCTAAATAGAGGCACCACAAC
1 -TTTGAAAAGTAAATTGCTCCTCTAAATAGAGGCATCACAAC
7695806 TTTGAAAAGTAAATTGCTCCT
1 TTTGAAAAGTAAATTGCTCCT
7695827 TGACAATCAT
Statistics
Matches: 207, Mismatches: 14, Indels: 14
0.88 0.06 0.06
Matches are distributed among these distances:
39 8 0.04
40 28 0.14
41 61 0.29
42 99 0.48
43 11 0.05
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (41 bp):
TTTGAAAAGTAAATTGCTCCTCTAAATAGAGGCATCACAAC
Found at i:7695734 original size:83 final size:83
Alignment explanation
Indices: 7695567--7695826 Score: 334
Period size: 83 Copynumber: 3.1 Consensus size: 83
7695557 TTTGAAAAAA
*
7695567 TAAATGGCTCCTCT-AATCAGAGGCATCAACAACTTTGAAAA-T-AATGGCTCCTCT-AATCAGA
1 TAAATGGCTCCTCTAAAT-AGAGGCATC-ACAACTTTGAAAAGTAAATTGCTCCTCTAAAT-AGA
* * *
7695628 GGTATCACAAC-TTTGGAAGAG
63 GGCACCACAACTTTTAGAA-AG
7695649 TAAATGGCTCCTCTAAATAGAGGCATCACAACTTTGAAAAGTAAATTGCTCCTCTAAATAGAGGC
1 TAAATGGCTCCTCTAAATAGAGGCATCACAACTTTGAAAAGTAAATTGCTCCTCTAAATAGAGGC
*
7695714 ACCTCAACTTTTAGAAAG
66 ACCACAACTTTTAGAAAG
* * **
7695732 TAAATTGCTCCTCTAAATAGAGGCAGCTTAACTTTTGAAAAGTAAATTGCTCCTCTAAATAGAGG
1 TAAATGGCTCCTCTAAATAGAGGCATCACAAC-TTTGAAAAGTAAATTGCTCCTCTAAATAGAGG
*
7695797 CACCACAACTTTGA-AAAG
65 CACCACAACTTTTAGAAAG
*
7695815 TAAATTGCTCCT
1 TAAATGGCTCCT
7695827 TGACAATCAT
Statistics
Matches: 161, Mismatches: 11, Indels: 11
0.88 0.06 0.06
Matches are distributed among these distances:
81 13 0.08
82 24 0.15
83 71 0.44
84 53 0.33
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.27
Consensus pattern (83 bp):
TAAATGGCTCCTCTAAATAGAGGCATCACAACTTTGAAAAGTAAATTGCTCCTCTAAATAGAGGC
ACCACAACTTTTAGAAAG
Found at i:7697397 original size:10 final size:9
Alignment explanation
Indices: 7697382--7697407 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
7697372 TCTTTCTTTC
7697382 TTTTTTTTA
1 TTTTTTTTA
7697391 TTTTTTTTA
1 TTTTTTTTA
7697400 TTTTTTTT
1 TTTTTTTT
7697408 CATCATCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:7697428 original size:15 final size:15
Alignment explanation
Indices: 7697400--7697432 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
7697390 ATTTTTTTTA
7697400 TTTTTTTTCATCATCT
1 TTTTTTTTCATCAT-T
7697416 TTTTTTTTC-TCATT
1 TTTTTTTTCATCATT
7697430 TTT
1 TTT
7697433 CATATATTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 4 0.24
16 9 0.53
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTTTTTCATCATT
Found at i:7702106 original size:57 final size:57
Alignment explanation
Indices: 7702043--7702716 Score: 677
Period size: 58 Copynumber: 11.7 Consensus size: 57
7702033 TTGTGCAGGA
* * * **
7702043 AAAATTGATACTTTTAACTTTTTCTCAAAATATTTTTTAGAAATTTTAATTTCGAGG
1 AAAATTGATACTTTCAACTTTTTCTCAAAATATTTTTTAGAAAATTTATTTTTAAGG
* * * * *
7702100 AAAATTGATACTTTCAACTTTTT-TCCAAAATA-TTTTTGGAAACTTTAATTTCATGG
1 AAAATTGATACTTTCAACTTTTTCT-CAAAATATTTTTTAGAAAATTTATTTTTAAGG
* * *
7702156 AAAATTGATACTTTCAACTTTTCCTTAAAA-ACCTTTTTT-GAAAATTTCTTTTTAAGG
1 AAAATTGATACTTTCAACTTTTTCTCAAAATA--TTTTTTAGAAAATTTATTTTTAAGG
* * *
7702213 AAAATTGATACTTTTAACTTTTTCTCAAAAATATTTTTT-GAAAAACTTTAATTTTGAGG
1 AAAATTGATACTTTCAACTTTTTCTC-AAAATATTTTTTAG-AAAA-TTTATTTTTAAGG
* * *
7702272 AAAATTTATACTTTCAACTTTTTCTCAAAAAACCTTTTTT-GAAAATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTTCTCAAAATA--TTTTTTAGAAAATTTATTTTTAAGG
* * * * *
7702330 AAAATTGATACTTTCAAC-TTTTCACCAAAAATATTTTTGAGAAACTTTAATTTTGAGG
1 AAAATTGATACTTTCAACTTTTTC-TC-AAAATATTTTTTAGAAAATTTATTTTTAAGG
* * *
7702388 AAAATTGATACTTTCAACTTTTTCTCAAAAAAATTTTTTTTGAAAATTTATTTTTAAAG
1 AAAATTGATACTTTCAACTTTTTCTC-AAAATA-TTTTTTAGAAAATTTATTTTTAAGG
* *
7702447 AAAATTGATACTTTCAAC-TTTTCTCCAAAAATATTTTTTAGAAAGTTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTTCT-C-AAAATATTTTTTAGAAAATTTATTTTTAAGG
* * * * *
7702505 AAAATGGATACTTTCAAGTTTTTCTCAAAACCCA-TTTTT-GAAAACTTATTTTGAAGG
1 AAAATTGATACTTTCAACTTTTTCTCAAAA--TATTTTTTAGAAAATTTATTTTTAAGG
* * *
7702562 AAAATTGATACTTTCAACTTTTCCTCAAAACT-TCTTTTTTGAAAATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTTCTCAAAA-TAT-TTTTTAGAAAATTTATTTTTAAGG
* * * * ** *
7702620 AAAATTGATAGTTTCAATTTTTTCCTAAAAATATTTTTTGGAAAGCTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTT-CTCAAAATATTTTTTAGAAAATTTATTTTTAAGG
* *
7702678 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTT
1 AAAATTGATACTTTCAACTTTT-TCTCAAAATATTTTTT
7702717 TTTGGATTTT
Statistics
Matches: 521, Mismatches: 70, Indels: 51
0.81 0.11 0.08
Matches are distributed among these distances:
55 1 0.00
56 48 0.09
57 134 0.26
58 224 0.43
59 107 0.21
60 7 0.01
ACGTcount: A:0.36, C:0.12, G:0.08, T:0.45
Consensus pattern (57 bp):
AAAATTGATACTTTCAACTTTTTCTCAAAATATTTTTTAGAAAATTTATTTTTAAGG
Found at i:7702717 original size:116 final size:113
Alignment explanation
Indices: 7702043--7702717 Score: 732
Period size: 117 Copynumber: 5.8 Consensus size: 113
7702033 TTGTGCAGGA
* * * * * **
7702043 AAAATTGATACTTTTAACTTTTTCTCAAAATATTTTTTAGAAATTTTAATTTCGAGGAAAATTGA
1 AAAATTGATACTTTCAACTTTTTCTAAAAACATTTTTT-GAAAATTTATTTTTAAGGAAAATTGA
* * * * *
7702108 TACTTTCAACTTTTTTCC-AAAATA-TTTTTGGAAACTTTAATTTCATGG
65 TACTTTCAAC-TTTTCCCAAAAATATTTTTTTGAAAATTTAATTTTAAGG
* * *
7702156 AAAATTGATACTTTCAACTTTTCCTTAAAAACCTTTTTTGAAAATTTCTTTTTAAGGAAAATTGA
1 AAAATTGATACTTTCAACTTTTTC-TAAAAACATTTTTTGAAAATTTATTTTTAAGGAAAATTGA
* * *
7702221 TACTTTTAACTTTTTCTCAAAAATA-TTTTTTGAAAAACTTTAATTTTGAGG
65 TACTTTCAAC-TTTTCCCAAAAATATTTTTTTG-AAAA-TTTAATTTTAAGG
* * *
7702272 AAAATTTATACTTTCAACTTTTTCTCAAAAAACCTTTTTTGAAAATTTATTTTTAAGAAAAATTG
1 AAAATTGATACTTTCAACTTTTTCT--AAAAACATTTTTTGAAAATTTATTTTTAAGGAAAATTG
** * *
7702337 ATACTTTCAACTTTTCACCAAAAATATTTTTGAGAAACTTTAATTTTGAGG
64 ATACTTTCAACTTTTC-CCAAAAATATTTTTTTGAAAATTTAATTTTAAGG
* *
7702388 AAAATTGATACTTTCAACTTTTTCTCAAAAAAATTTTTTTTGAAAATTTATTTTTAAAGAAAATT
1 AAAATTGATACTTTCAACTTTTTCT-AAAAACA--TTTTTTGAAAATTTATTTTTAAGGAAAATT
* *
7702453 GATACTTTCAACTTTTCTCCAAAAATATTTTTTAGAAAGTTT-ATTTTCAAGG
63 GATACTTTCAACTTTTC-CCAAAAATATTTTTTTGAAAATTTAATTTT-AAGG
* * * * *
7702505 AAAATGGATACTTTCAAGTTTTTCTCAAAACCCA-TTTTTGAAAACTTATTTTGAAGGAAAATTG
1 AAAATTGATACTTTCAACTTTTTCT-AAAA-ACATTTTTTGAAAATTTATTTTTAAGGAAAATTG
* * *
7702569 ATACTTTCAACTTTTCCTCAAAACT-TCTTTTTTGAAAATTTATTTTTAAGA
64 ATACTTTCAACTTTTCC-CAAAAATAT-TTTTTTGAAAATTTAATTTTAAGG
* * * ** *
7702620 AAAATTGATAGTTTCAATTTTTTCCTAAAAATATTTTTTGGAAAGCTTATTTTCAAGGAAAATTG
1 AAAATTGATACTTTCAACTTTTT-CTAAAAACATTTTTT-GAAAATTTATTTTTAAGGAAAATTG
7702685 ATACTTTCAACTTTTCCCTAAAAATATTTTTTT
64 ATACTTTCAACTTTTCCC-AAAAATATTTTTTT
7702718 TTGGATTTTA
Statistics
Matches: 485, Mismatches: 57, Indels: 37
0.84 0.10 0.06
Matches are distributed among these distances:
113 58 0.12
114 26 0.05
115 103 0.21
116 136 0.28
117 156 0.32
118 6 0.01
ACGTcount: A:0.36, C:0.12, G:0.08, T:0.45
Consensus pattern (113 bp):
AAAATTGATACTTTCAACTTTTTCTAAAAACATTTTTTGAAAATTTATTTTTAAGGAAAATTGAT
ACTTTCAACTTTTCCCAAAAATATTTTTTTGAAAATTTAATTTTAAGG
Found at i:7702758 original size:13 final size:12
Alignment explanation
Indices: 7702735--7702801 Score: 68
Period size: 13 Copynumber: 5.6 Consensus size: 12
7702725 TTATTTAAAG
7702735 AAAATAAAATAA
1 AAAATAAAATAA
7702747 AAAATGAAAATAA
1 AAAAT-AAAATAA
*
7702760 AAAAT-TAA-AA
1 AAAATAAAATAA
*
7702770 AAAGTAAAAT-A
1 AAAATAAAATAA
7702781 AAAATAAAAATAA
1 AAAAT-AAAATAA
7702794 AAGAATAA
1 AA-AATAA
7702802 TAAAGAAATC
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
10 6 0.13
11 9 0.20
12 10 0.22
13 17 0.38
14 3 0.07
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.16
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:7702762 original size:6 final size:6
Alignment explanation
Indices: 7702735--7702795 Score: 52
Period size: 6 Copynumber: 9.5 Consensus size: 6
7702725 TTATTTAAAG
* *
7702735 AAAAT- AAAATAA AAAATG AAAATAA AAAATTA AAAAAA GTAAAATA AAAATA
1 AAAATA AAAAT-A AAAATA AAAAT-A AAAA-TA AAAATA --AAAATA AAAATA
7702787 AAAATA AAA
1 AAAATA AAA
7702796 GAATAATAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
5 5 0.11
6 21 0.46
7 14 0.30
8 6 0.13
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:7702768 original size:35 final size:36
Alignment explanation
Indices: 7702729--7702809 Score: 105
Period size: 34 Copynumber: 2.2 Consensus size: 36
7702719 TGGATTTTAT
*
7702729 TTAAAGAAAA-TAAAATAAAAAATGAAAATAAAA-AA
1 TTAAAGAAAAGTAAAAT-AAAAATAAAAATAAAAGAA
7702764 TTAAA-AAAAGTAAAATAAAAATAAAAATAAAAGAA
1 TTAAAGAAAAGTAAAATAAAAATAAAAATAAAAGAA
7702799 TAATAAAGAAA
1 T--TAAAGAAA
7702810 TCTAATCTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
34 19 0.47
35 14 0.35
37 4 0.10
38 3 0.08
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (36 bp):
TTAAAGAAAAGTAAAATAAAAATAAAAATAAAAGAA
Found at i:7702778 original size:22 final size:20
Alignment explanation
Indices: 7702731--7702810 Score: 74
Period size: 22 Copynumber: 3.8 Consensus size: 20
7702721 GATTTTATTT
7702731 AAAGAAAAT--AAAATAAAA
1 AAAGAAAATAAAAAATAAAA
*
7702749 AATGAAAATAAAAAATTAAAA
1 AAAGAAAATAAAAAA-TAAAA
*
7702770 AAAGTAAAATAAAAATAAAAATA
1 AAAG-AAAATAAAAA-ATAAA-A
7702793 AAAGAATAATAAAGAAAT
1 AAAGAA-AATAAA-AAAT
7702811 CTAATCTAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
18 8 0.16
20 4 0.08
21 8 0.16
22 15 0.30
23 13 0.26
24 2 0.04
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.16
Consensus pattern (20 bp):
AAAGAAAATAAAAAATAAAA
Found at i:7702805 original size:28 final size:29
Alignment explanation
Indices: 7702740--7702805 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 29
7702730 TAAAGAAAAT
*
7702740 AAAATAA-AAAATGAAAATAAAAAATTAA
1 AAAATAATAAAATAAAAATAAAAAATTAA
*
7702768 AAAA-AGTAAAATAAAAAT-AAAAA-TAA
1 AAAATAATAAAATAAAAATAAAAAATTAA
7702794 AAGAATAATAAA
1 AA-AATAATAAA
7702806 GAAATCTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
26 5 0.16
27 8 0.25
28 19 0.59
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.17
Consensus pattern (29 bp):
AAAATAATAAAATAAAAATAAAAAATTAA
Found at i:7703220 original size:24 final size:23
Alignment explanation
Indices: 7703183--7703295 Score: 74
Period size: 24 Copynumber: 4.7 Consensus size: 23
7703173 ATTAATCAAA
*
7703183 ATAAAAAGATAAATATATTAATAG
1 ATAAAAA-AAAAATATATTAATAG
*
7703207 ATAACAAAAAAAATA-ATTAGATAA
1 ATAA-AAAAAAAATATATTA-ATAG
7703231 ATAATAATAAAAAATA-A--AAGTAG
1 ATAA-AA-AAAAAATATATTAA-TAG
* *
7703254 ATAAATAATACAA-ATATTAATAG
1 ATAAA-AAAAAAATATATTAATAG
7703277 ATAAAAAAATAAAATATAT
1 AT-AAAAAA-AAAATATAT
7703296 ATATTAAATA
Statistics
Matches: 70, Mismatches: 8, Indels: 21
0.71 0.08 0.21
Matches are distributed among these distances:
21 1 0.01
22 7 0.10
23 19 0.27
24 27 0.39
25 16 0.23
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (23 bp):
ATAAAAAAAAAATATATTAATAG
Found at i:7703220 original size:36 final size:37
Alignment explanation
Indices: 7703180--7703292 Score: 103
Period size: 36 Copynumber: 3.2 Consensus size: 37
7703170 AAAATTAATC
* *
7703180 AAAATAAAAAGATAAATATATTAATAGATAACAAAA-
1 AAAATAAATAGATAAATATATTAATAGATAAAAAAAG
* *
7703216 AAAATAATTAGATAAATA-A-TAATA-AAAAATAAAAG
1 AAAATAAATAGATAAATATATTAATAGATAAA-AAAAG
* * *
7703251 TAGATAAATA-ATACAA-ATATTAATAGATAAAAAAAT
1 AAAATAAATAGATA-AATATATTAATAGATAAAAAAAG
7703287 AAAATA
1 AAAATA
7703293 TATATATTAA
Statistics
Matches: 60, Mismatches: 11, Indels: 12
0.72 0.13 0.14
Matches are distributed among these distances:
33 3 0.05
34 13 0.22
35 11 0.18
36 29 0.48
37 4 0.07
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.24
Consensus pattern (37 bp):
AAAATAAATAGATAAATATATTAATAGATAAAAAAAG
Found at i:7703237 original size:27 final size:27
Alignment explanation
Indices: 7703202--7703267 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 27
7703192 TAAATATATT
*
7703202 AATAGATAACAAAAAA-AATAATTAGATA
1 AATA-ATAACAAAAAATAA-AAGTAGATA
*
7703230 AATAATAATAAAAAATAAAAGTAGATA
1 AATAATAACAAAAAATAAAAGTAGATA
7703257 AATAAT-ACAAA
1 AATAATAACAAA
7703268 TATTAATAGA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
26 4 0.12
27 24 0.71
28 6 0.18
ACGTcount: A:0.70, C:0.03, G:0.06, T:0.21
Consensus pattern (27 bp):
AATAATAACAAAAAATAAAAGTAGATA
Found at i:7703242 original size:23 final size:23
Alignment explanation
Indices: 7703216--7703309 Score: 54
Period size: 27 Copynumber: 4.0 Consensus size: 23
7703206 GATAACAAAA
7703216 AAAATAATTAGATAAATAATAAT
1 AAAATAATTAGATAAATAATAAT
*
7703239 AAAAAATAAAAGTAGATAAATAATACA-
1 --AAAAT--AATTAGATAAATAATA-AT
*
7703266 AATATTAA-TAGATAAA-AA-AAT
1 AA-AATAATTAGATAAATAATAAT
*
7703287 AAAATATATATA-TTAAATAATAA
1 AAAATA-AT-TAGATAAATAATAA
7703310 AAATAAAAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 21
0.69 0.05 0.26
Matches are distributed among these distances:
20 4 0.07
21 4 0.07
22 6 0.11
23 12 0.22
24 4 0.07
25 7 0.13
26 2 0.04
27 15 0.27
28 1 0.02
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.28
Consensus pattern (23 bp):
AAAATAATTAGATAAATAATAAT
Found at i:7703292 original size:29 final size:28
Alignment explanation
Indices: 7703260--7703320 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 28
7703250 GTAGATAAAT
7703260 AATACAAATATT-AATAGATAAAAAAATAA
1 AATACAAATATTAAATA-ATAAAAAAA-AA
* * *
7703289 AATATATATATTAAATAATAAAAATAAA
1 AATACAAATATTAAATAATAAAAAAAAA
7703317 AATA
1 AATA
7703321 AAAACCTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 6 0.21
29 18 0.64
30 4 0.14
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.28
Consensus pattern (28 bp):
AATACAAATATTAAATAATAAAAAAAAA
Found at i:7707512 original size:14 final size:15
Alignment explanation
Indices: 7707493--7707521 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
7707483 TAATTTAAAA
7707493 AAAATTTT-AAAATG
1 AAAATTTTGAAAATG
7707507 AAAATTTTGAAAATG
1 AAAATTTTGAAAATG
7707522 TTATAATCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.34
Consensus pattern (15 bp):
AAAATTTTGAAAATG
Found at i:7707821 original size:2 final size:2
Alignment explanation
Indices: 7707816--7707842 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7707806 TCATAAATGG
7707816 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 T
7707843 TACCATTCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7710151 original size:125 final size:125
Alignment explanation
Indices: 7709929--7710179 Score: 412
Period size: 125 Copynumber: 2.0 Consensus size: 125
7709919 AAAAAAAAAC
* * *
7709929 TTATATAAGAATTTATTGATCTATTAATATACCCAGGTTTAAAACTAGTTAAACTTAATTTTTCA
1 TTATATAAGAATTTATTGATCTATAAAAATACCCAGGTTTAAAACTAGTTAAACTTAAATTTTCA
*
7709994 AGGGAGAATGGTAAAATAAGATTACAAGGCCAATGTGGTTTCTAGGGAAGACATTCTTGA
66 AGCGAGAATGGTAAAATAAGATTACAAGGCCAATGTGGTTTCTAGGGAAGACATTCTTGA
* * * *
7710054 TTATATATGAATTTTTTTATCTATAAAAATATCCAGGTTTAAAACTAGTTAAACTTAAATTTTCA
1 TTATATAAGAATTTATTGATCTATAAAAATACCCAGGTTTAAAACTAGTTAAACTTAAATTTTCA
* *
7710119 AGCGAGAATGGTAAAATGAGATTATAAGGCCAATGTGGTTTCTAGGGAAGACATTCTTGA
66 AGCGAGAATGGTAAAATAAGATTACAAGGCCAATGTGGTTTCTAGGGAAGACATTCTTGA
7710179 T
1 T
7710180 CCCAAGAAAG
Statistics
Matches: 116, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
125 116 1.00
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.35
Consensus pattern (125 bp):
TTATATAAGAATTTATTGATCTATAAAAATACCCAGGTTTAAAACTAGTTAAACTTAAATTTTCA
AGCGAGAATGGTAAAATAAGATTACAAGGCCAATGTGGTTTCTAGGGAAGACATTCTTGA
Found at i:7715053 original size:60 final size:58
Alignment explanation
Indices: 7714910--7715111 Score: 157
Period size: 60 Copynumber: 3.4 Consensus size: 58
7714900 TATGAGGAGT
** * * *
7714910 ATTATAATAATTTTAATCAATTATGGTAGGATGGGCATTTACGTAAATATGGTATA-AAAGT-
1 ATTATAATAATTTTAGCCAATTATGATAGAAT-GGCATTT-C-TAATTATGGTA-AGAAA-TC
* * *
7714971 ATTATAATAATTTT-GACTAATTATGATACAATGGTTATTTCATAATTATGGTAAGAAATC
1 ATTATAATAATTTTAG-CCAATTATGATAGAATGG-CATTTC-TAATTATGGTAAGAAATC
* * * *
7715031 ATTATAATAATTTTAGCCAATTATAATAGAAAGAGCA-TT-T--TTATAGTAAGAGATC
1 ATTATAATAATTTTAGCCAATTATGATAGAATG-GCATTTCTAATTATGGTAAGAAATC
*
7715086 ATTATAATAATTTTAGCTAATTATGA
1 ATTATAATAATTTTAGCCAATTATGA
7715112 GAAGAGAGGT
Statistics
Matches: 117, Mismatches: 18, Indels: 18
0.76 0.12 0.12
Matches are distributed among these distances:
55 37 0.32
57 1 0.01
59 4 0.03
60 44 0.38
61 31 0.26
ACGTcount: A:0.41, C:0.06, G:0.13, T:0.40
Consensus pattern (58 bp):
ATTATAATAATTTTAGCCAATTATGATAGAATGGCATTTCTAATTATGGTAAGAAATC
Found at i:7715491 original size:129 final size:128
Alignment explanation
Indices: 7715236--7715504 Score: 321
Period size: 129 Copynumber: 2.1 Consensus size: 128
7715226 TTAATATATG
*
7715236 TTATTTAACATTTAATAAGTAATTTAATAGGGGTATTATAATACATTTCAAACAAAAATTCACAT
1 TTATTTAAAATTTAATAAGTAATTTAATAGGGGTATTATAATACATTTCAAACAAAAATTCACAT
* * * * * *
7715301 GTCAAATTTTTATGAAGCAATAGTAAGGGTGTTTTAGTAATTTAATATATAGTTAAATTTATA
66 GTCAAATTTTTATAAAGCAATAGCAAGAGTATTTTAATAATTTAATAGATAGTTAAATTTATA
* * * *
7715364 TTATATTAAAATTTTATATGTAATTTAATAGGGGTATTATAGTA-ATTTTAAA-ATAAAATGTCA
1 TTAT-TTAAAATTTAATAAGTAATTTAATAGGGGTATTATAATACATTTCAAACA-AAAAT-TCA
* * *
7715427 CATGTCAAATTTTTGTAAAGTAAT-GACAAGAGTATTTTAATAATTTAATAGAT-GATTAATTTT
63 CATGTCAAATTTTTATAAAGCAATAG-CAAGAGTATTTTAATAATTTAATAGATAG-TTAAATTT
7715490 ATA
126 ATA
*
7715493 TTGTGTTAAAAT
1 TTAT-TTAAAAT
7715505 AAGTACTATA
Statistics
Matches: 120, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
127 1 0.01
128 18 0.15
129 101 0.84
ACGTcount: A:0.41, C:0.04, G:0.12, T:0.42
Consensus pattern (128 bp):
TTATTTAAAATTTAATAAGTAATTTAATAGGGGTATTATAATACATTTCAAACAAAAATTCACAT
GTCAAATTTTTATAAAGCAATAGCAAGAGTATTTTAATAATTTAATAGATAGTTAAATTTATA
Found at i:7716766 original size:34 final size:34
Alignment explanation
Indices: 7716728--7716799 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 34
7716718 TCCGAAAATG
* * **
7716728 ATTTTTGGTATAGTT-AATAAGTTTTTGAAAATTC
1 ATTTTTGGTACA-TTGAAGAAGTTTTCAAAAATTC
7716762 ATTTTTGGTACATTGAAGAAGTTTTCAAAAATTC
1 ATTTTTGGTACATTGAAGAAGTTTTCAAAAATTC
7716796 ATTT
1 ATTT
7716800 CTAGTAACTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 2 0.06
34 31 0.94
ACGTcount: A:0.33, C:0.06, G:0.14, T:0.47
Consensus pattern (34 bp):
ATTTTTGGTACATTGAAGAAGTTTTCAAAAATTC
Found at i:7717335 original size:60 final size:60
Alignment explanation
Indices: 7717259--7717385 Score: 159
Period size: 60 Copynumber: 2.1 Consensus size: 60
7717249 GTAAAAGGGA
* * * *
7717259 TATTATAGTAAGTTTGATCAATTGTGATAGGAAT-GTA-TTTCTATAATTATGATAGGATGG
1 TATTATAGTAAGTTTGATCAATTAT-AAAGAAATGGTATTTTC-ATAATTATGATAGGATAG
* * *
7717319 TATTATAGTAATTTTGATTAATTATAAAGAAATGGTATTTTCATAATTATGATATGATAG
1 TATTATAGTAAGTTTGATCAATTATAAAGAAATGGTATTTTCATAATTATGATAGGATAG
7717379 TATTATA
1 TATTATA
7717386 ATAAAAATTA
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
59 6 0.10
60 48 0.83
61 4 0.07
ACGTcount: A:0.37, C:0.02, G:0.17, T:0.44
Consensus pattern (60 bp):
TATTATAGTAAGTTTGATCAATTATAAAGAAATGGTATTTTCATAATTATGATAGGATAG
Found at i:7717671 original size:180 final size:180
Alignment explanation
Indices: 7717354--7717678 Score: 401
Period size: 180 Copynumber: 1.8 Consensus size: 180
7717344 AAAGAAATGG
** **
7717354 TATTTTCATAATTATGATATGATAGTATTATAATAAAAATTATAAGAGAATATATATTTTTGTAA
1 TATTTTCATAATTATGATAAAATAGTATTATAATAAAAATTATAAGAGAATATATATTTTCATAA
* * *
7717419 TTATGATATGAGAGCATAATAGTCAATTTAGTCATGTGTTAATTTCTTATCAAACAATGAAAAGA
66 TTATAATATGAGAGCATAATAGTCAATTTAGTCATGTGTCAATTTCTTATCAAACAAGGAAAAGA
*
7717484 GTATTTTGTTAATTTTCTAGAGATTTTTTGCTCATTTAATAGGGAAAAGA
131 GTATTTTGATAATTTTCTAGAGATTTTTTGCTCATTTAATAGGGAAAAGA
*
7717534 TATTTTCCATAATTATGATACAAAT-GTATTA-AATAAATAATTATAAGAGAA-ATGTATTTTCA
1 TATTTT-CATAATTATGATA-AAATAGTATTATAATAAA-AATTATAAGAGAATATATATTTTCA
* * * * * * *
7717596 TAATTATAATGTGATGA-TATAATAGTTAATTTGGTCATGTGTCCATTTTTTATTAAACGATAGG
63 TAATTATAATATGA-GAGCATAATAGTCAATTTAGTCATGTGTCAATTTCTTATCAAAC-A-AGG
*
7717660 AATA-A-TATTTTGATAATTT
125 AAAAGAGTATTTTGATAATTT
7717679 CATAAGTGAT
Statistics
Matches: 122, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
180 79 0.65
181 36 0.30
182 7 0.06
ACGTcount: A:0.39, C:0.06, G:0.13, T:0.42
Consensus pattern (180 bp):
TATTTTCATAATTATGATAAAATAGTATTATAATAAAAATTATAAGAGAATATATATTTTCATAA
TTATAATATGAGAGCATAATAGTCAATTTAGTCATGTGTCAATTTCTTATCAAACAAGGAAAAGA
GTATTTTGATAATTTTCTAGAGATTTTTTGCTCATTTAATAGGGAAAAGA
Found at i:7717969 original size:17 final size:18
Alignment explanation
Indices: 7717944--7717980 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
7717934 ATTTTCTTTT
7717944 TTAATATATATTTAA-TAA
1 TTAATATAT-TTTAATTAA
7717962 TTAA-ATATTTTAATTAA
1 TTAATATATTTTAATTAA
7717979 TT
1 TT
7717981 TTAAAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 5 0.28
17 9 0.50
18 4 0.22
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TTAATATATTTTAATTAA
Found at i:7720383 original size:28 final size:28
Alignment explanation
Indices: 7720349--7720402 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
7720339 TTGTACTACA
* *
7720349 AATCTAACAATATGTATAGCCAACAACC
1 AATCTAACAATATATATAACCAACAACC
7720377 AATCTAACAATATATATAACCAACAA
1 AATCTAACAATATATATAACCAACAA
7720403 TTATTTGATC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.52, C:0.22, G:0.04, T:0.22
Consensus pattern (28 bp):
AATCTAACAATATATATAACCAACAACC
Found at i:7727485 original size:27 final size:27
Alignment explanation
Indices: 7727443--7727494 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
7727433 TGAGCACTCT
7727443 AAGACATAAACAAAAACCCAAAACCCC
1 AAGACATAAACAAAAACCCAAAACCCC
*
7727470 AAGACATAAACCAAAACCCAAAACC
1 AAGACATAAACAAAAACCCAAAACC
7727495 TTTCAAATTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.60, C:0.33, G:0.04, T:0.04
Consensus pattern (27 bp):
AAGACATAAACAAAAACCCAAAACCCC
Found at i:7728069 original size:19 final size:19
Alignment explanation
Indices: 7728042--7728079 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
7728032 CAAATTAATT
7728042 TTCTCTAAAATCAAACCAA
1 TTCTCTAAAATCAAACCAA
* *
7728061 TTCTTTAAAGTCAAACCAA
1 TTCTCTAAAATCAAACCAA
7728080 ACTAAACCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.45, C:0.24, G:0.03, T:0.29
Consensus pattern (19 bp):
TTCTCTAAAATCAAACCAA
Found at i:7728175 original size:16 final size:17
Alignment explanation
Indices: 7728142--7728174 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
7728132 ATGAATTGAG
7728142 ATGAAGAAGAAAACAAA
1 ATGAAGAAGAAAACAAA
7728159 ATGAA-AAG-AAACAAA
1 ATGAAGAAGAAAACAAA
7728174 A
1 A
7728175 AAAGTAACAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 3 0.19
17 5 0.31
ACGTcount: A:0.73, C:0.06, G:0.15, T:0.06
Consensus pattern (17 bp):
ATGAAGAAGAAAACAAA
Found at i:7730094 original size:19 final size:20
Alignment explanation
Indices: 7730072--7730110 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
7730062 CTTGAATAAA
*
7730072 TATTT-TGAATTAATTTTAT
1 TATTTATGAATAAATTTTAT
*
7730091 TATTTATTAATAAATTTTAT
1 TATTTATGAATAAATTTTAT
7730111 ATGATAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (20 bp):
TATTTATGAATAAATTTTAT
Found at i:7731180 original size:30 final size:30
Alignment explanation
Indices: 7731146--7731239 Score: 77
Period size: 30 Copynumber: 3.2 Consensus size: 30
7731136 ATTTTTTTTT
7731146 AAAATAATATTATAAGAACTAAATTTCTTA
1 AAAATAATATTATAAGAACTAAATTTCTTA
* * * *
7731176 AAAATACTATCATAAAAATTAAATTAT-TT-
1 AAAATAATATTATAAGAACTAAATT-TCTTA
* * * * *
7731205 TATATAATACTATAAGGACTAAA-ATCTTA
1 AAAATAATATTATAAGAACTAAATTTCTTA
7731234 AAAATA
1 AAAATA
7731240 GAAAAATATA
Statistics
Matches: 46, Mismatches: 15, Indels: 7
0.68 0.22 0.10
Matches are distributed among these distances:
27 1 0.02
28 2 0.04
29 19 0.41
30 23 0.50
31 1 0.02
ACGTcount: A:0.54, C:0.07, G:0.03, T:0.35
Consensus pattern (30 bp):
AAAATAATATTATAAGAACTAAATTTCTTA
Found at i:7732349 original size:43 final size:43
Alignment explanation
Indices: 7732300--7732385 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
7732290 ATAAGATATG
*
7732300 AAGACAACTTTCCCCTTCTTGTTTCTTTCTTATAAGCAATGAC
1 AAGACAACTTTCCCCTTCTTGTTACTTTCTTATAAGCAATGAC
7732343 AAGACAACTTTCCCCTTCTTGTTACTTTCTTATAAGCAATGAC
1 AAGACAACTTTCCCCTTCTTGTTACTTTCTTATAAGCAATGAC
7732386 GCTCCCATAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.27, C:0.26, G:0.09, T:0.38
Consensus pattern (43 bp):
AAGACAACTTTCCCCTTCTTGTTACTTTCTTATAAGCAATGAC
Found at i:7733977 original size:30 final size:30
Alignment explanation
Indices: 7733941--7734004 Score: 112
Period size: 30 Copynumber: 2.1 Consensus size: 30
7733931 CTTCATGGGT
7733941 CATGCCATACCTGAAT-TTTCCTTTCTTGGC
1 CATGCCATACCTGAATCTTT-CTTTCTTGGC
7733971 CATGCCATACCTGAATCTTTCTTTCTTGGC
1 CATGCCATACCTGAATCTTTCTTTCTTGGC
7734001 CATG
1 CATG
7734005 TCTTGGCCTC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 30 0.91
31 3 0.09
ACGTcount: A:0.17, C:0.30, G:0.14, T:0.39
Consensus pattern (30 bp):
CATGCCATACCTGAATCTTTCTTTCTTGGC
Found at i:7734186 original size:15 final size:16
Alignment explanation
Indices: 7734168--7734197 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7734158 AATGATTTCA
7734168 TATTT-ATATTTTTTT
1 TATTTCATATTTTTTT
7734183 TATTTCATATTTTTT
1 TATTTCATATTTTTT
7734198 ATTTAATGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (16 bp):
TATTTCATATTTTTTT
Found at i:7735483 original size:23 final size:24
Alignment explanation
Indices: 7735447--7735514 Score: 75
Period size: 24 Copynumber: 2.9 Consensus size: 24
7735437 AAATGCAGTA
* *
7735447 GCAGCAGAAAAACCAGAAAA-ACT
1 GCAGAAGAAGAACCAGAAAATACT
* *
7735470 GCTGAAGAAGAACCAGAAAATATT
1 GCAGAAGAAGAACCAGAAAATACT
* *
7735494 GCAGGACAAGAACCAGAAAAT
1 GCAGAAGAAGAACCAGAAAAT
7735515 GCTTCAGCAG
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
23 17 0.46
24 20 0.54
ACGTcount: A:0.53, C:0.18, G:0.21, T:0.09
Consensus pattern (24 bp):
GCAGAAGAAGAACCAGAAAATACT
Found at i:7735538 original size:30 final size:28
Alignment explanation
Indices: 7735504--7735609 Score: 114
Period size: 24 Copynumber: 3.8 Consensus size: 28
7735494 GCAGGACAAG
7735504 AACCAGAAAATGCTTCAGCAGCAGAACAGA
1 AACCAGAAAATGC-T-AGCAGCAGAACAGA
7735534 AACCAGAAAA---T-GCAGCAGAACAGA
1 AACCAGAAAATGCTAGCAGCAGAACAGA
*
7735558 AACCAGAAATATTGCAGTAGCAGCAGAACAAA
1 AACCAGAAA-A-TGC--TAGCAGCAGAACAGA
7735590 AACCAGAAAATGC-AGCAGCA
1 AACCAGAAAATGCTAGCAGCA
7735610 ACAGAACATA
Statistics
Matches: 67, Mismatches: 1, Indels: 19
0.77 0.01 0.22
Matches are distributed among these distances:
24 22 0.33
25 1 0.01
26 1 0.01
27 7 0.10
30 13 0.19
31 2 0.03
32 21 0.31
ACGTcount: A:0.50, C:0.22, G:0.20, T:0.08
Consensus pattern (28 bp):
AACCAGAAAATGCTAGCAGCAGAACAGA
Found at i:7735586 original size:32 final size:30
Alignment explanation
Indices: 7735494--7735623 Score: 119
Period size: 30 Copynumber: 4.4 Consensus size: 30
7735484 AGAAAATATT
* * **
7735494 GCAGGACAAGAACCAGAAAATGCTTCAGCA
1 GCAGAACAAAAACCAGAAAATGCAGCAGCA
*
7735524 GCAGAACAGAAACCAGAAAAT------GCA
1 GCAGAACAAAAACCAGAAAATGCAGCAGCA
* *
7735548 GCAGAACAGAAACCAGAAATATTGCAGTAGCA
1 GCAGAACAAAAACCAGAAA-A-TGCAGCAGCA
7735580 GCAGAACAAAAACCAGAAAATGCAGCAGCA
1 GCAGAACAAAAACCAGAAAATGCAGCAGCA
*
7735610 ACAGAACATAAAAC
1 GCAGAACA-AAAAC
7735624 GAAAAAAAGG
Statistics
Matches: 85, Mismatches: 6, Indels: 17
0.79 0.06 0.16
Matches are distributed among these distances:
24 22 0.26
25 1 0.01
26 1 0.01
30 34 0.40
31 6 0.07
32 21 0.25
ACGTcount: A:0.51, C:0.22, G:0.20, T:0.08
Consensus pattern (30 bp):
GCAGAACAAAAACCAGAAAATGCAGCAGCA
Found at i:7737199 original size:18 final size:18
Alignment explanation
Indices: 7737176--7737216 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
7737166 TTTTTAAAAT
7737176 AATAATTATAAAAT-ATAA
1 AATAA-TATAAAATAATAA
7737194 AATAATATAAAATAATAA
1 AATAATATAAAATAATAA
7737212 AATAA
1 AATAA
7737217 AATTTTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
AATAATATAAAATAATAA
Found at i:7737225 original size:13 final size:13
Alignment explanation
Indices: 7737170--7737231 Score: 56
Period size: 13 Copynumber: 4.7 Consensus size: 13
7737160 ATTCTTTTTT
7737170 TAAAATAATAATTA
1 TAAAATAA-AATTA
7737184 TAAAATATAAA--A
1 TAAAATA-AAATTA
* *
7737196 TAATATAAAATAA
1 TAAAATAAAATTA
*
7737209 TAAAATAAAATTT
1 TAAAATAAAATTA
7737222 TAAATATAAA
1 TAAA-ATAAA
7737232 TAGTCATACT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
11 3 0.08
12 7 0.17
13 15 0.38
14 14 0.35
15 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
TAAAATAAAATTA
Found at i:7738108 original size:21 final size:19
Alignment explanation
Indices: 7738082--7738129 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 19
7738072 ATCTTAACAC
*
7738082 ATAAAAAAAA-GTCAAAATA
1 ATAAAAAAAACAT-AAAATA
7738101 ATACAAAACAAACATAAAATA
1 ATA-AAAA-AAACATAAAATA
7738122 ATAAAAAA
1 ATAAAAAA
7738130 TTTTAATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
19 4 0.16
20 8 0.32
21 12 0.48
22 1 0.04
ACGTcount: A:0.75, C:0.08, G:0.02, T:0.15
Consensus pattern (19 bp):
ATAAAAAAAACATAAAATA
Found at i:7747224 original size:15 final size:15
Alignment explanation
Indices: 7747204--7747252 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
7747194 TAGTTAGATC
7747204 TCAAATGTCATGTTT
1 TCAAATGTCATGTTT
* * *
7747219 TCAAATGTCAAGATC
1 TCAAATGTCATGTTT
7747234 TCAAATGTCATGTTT
1 TCAAATGTCATGTTT
7747249 TCAA
1 TCAA
7747253 CCACATAAAC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (15 bp):
TCAAATGTCATGTTT
Found at i:7748738 original size:21 final size:21
Alignment explanation
Indices: 7748709--7748748 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
7748699 CTTTTTATTT
* *
7748709 TTATCTTATATATTTATATAA
1 TTATCTTATAAATATATATAA
*
7748730 TTATTTTATAAATATATAT
1 TTATCTTATAAATATATAT
7748749 TAAAATATAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (21 bp):
TTATCTTATAAATATATATAA
Found at i:7748745 original size:27 final size:27
Alignment explanation
Indices: 7748715--7748777 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
7748705 ATTTTTATCT
* * *
7748715 TATATATTTATATA-ATTATTTTATAAA
1 TATATATTAAAATATATT-TTTAATAAA
7748742 TATATATTAAAATATATTTTTAATAAA
1 TATATATTAAAATATATTTTTAATAAA
*
7748769 AATATATTA
1 TATATATTA
7748778 GTTTTAATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 28 0.90
28 3 0.10
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (27 bp):
TATATATTAAAATATATTTTTAATAAA
Found at i:7754680 original size:16 final size:15
Alignment explanation
Indices: 7754661--7754694 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
7754651 CCCTATCCTC
7754661 TTTTCATTTTATTTCT
1 TTTTCATTTTATTT-T
*
7754677 TTTTCTTTTTATTTT
1 TTTTCATTTTATTTT
7754692 TTT
1 TTT
7754695 CTTCAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTCATTTTATTTT
Found at i:7754683 original size:21 final size:20
Alignment explanation
Indices: 7754659--7754697 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
7754649 TACCCTATCC
7754659 TCTTTTCATTTTATTTCTTTT
1 TCTTTTCATTTT-TTTCTTTT
*
7754680 TCTTTTTATTTTTTTCTT
1 TCTTTTCATTTTTTTCTT
7754698 CAAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.08, C:0.13, G:0.00, T:0.79
Consensus pattern (20 bp):
TCTTTTCATTTTTTTCTTTT
Found at i:7757389 original size:9 final size:8
Alignment explanation
Indices: 7757370--7757427 Score: 52
Period size: 8 Copynumber: 7.5 Consensus size: 8
7757360 TGCAATTTTA
7757370 GTTTTAGG
1 GTTTTAGG
7757378 GTTTTAAGG
1 GTTTT-AGG
7757387 G-TTTAGG
1 GTTTTAGG
*
7757394 GTTTCA--
1 GTTTTAGG
*
7757400 ATTTTAGG
1 GTTTTAGG
7757408 G-TTTAGAG
1 GTTTTAG-G
7757416 GTTTTAGG
1 GTTTTAGG
7757424 GTTT
1 GTTT
7757428 AGTTTCAAGT
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
6 4 0.10
7 9 0.22
8 18 0.45
9 9 0.22
ACGTcount: A:0.17, C:0.02, G:0.33, T:0.48
Consensus pattern (8 bp):
GTTTTAGG
Found at i:7757397 original size:37 final size:37
Alignment explanation
Indices: 7757328--7757429 Score: 115
Period size: 37 Copynumber: 2.8 Consensus size: 37
7757318 AGGATTTAGG
* *
7757328 ATTTTAGGGTTTCGA--TTTTGGGGTTTCA-GGTTTGCA
1 ATTTTAGGGTTTAGAGGTTTTAGGGTTT-AGGGTTT-CA
*
7757364 ATTTTA-GTTTTAG-GGTTTTAAGGGTTTAGGGTTTCA
1 ATTTTAGGGTTTAGAGGTTTT-AGGGTTTAGGGTTTCA
7757400 ATTTTAGGGTTTAGAGGTTTTAGGGTTTAG
1 ATTTTAGGGTTTAGAGGTTTTAGGGTTTAG
7757430 TTTCAAGTTT
Statistics
Matches: 56, Mismatches: 4, Indels: 11
0.79 0.06 0.15
Matches are distributed among these distances:
35 5 0.09
36 19 0.34
37 26 0.46
38 6 0.11
ACGTcount: A:0.18, C:0.04, G:0.30, T:0.48
Consensus pattern (37 bp):
ATTTTAGGGTTTAGAGGTTTTAGGGTTTAGGGTTTCA
Found at i:7757429 original size:16 final size:15
Alignment explanation
Indices: 7757370--7757428 Score: 68
Period size: 16 Copynumber: 3.9 Consensus size: 15
7757360 TGCAATTTTA
7757370 GTTTTAGGGTTTTAAG
1 GTTTTAGGG-TTTAAG
*
7757386 GGTTTAGGGTTTCAA-
1 GTTTTAGGGTTT-AAG
7757401 -TTTTAGGGTTTAGAG
1 GTTTTAGGGTTTA-AG
7757416 GTTTTAGGGTTTA
1 GTTTTAGGGTTTA
7757429 GTTTCAAGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
13 1 0.03
14 11 0.30
15 3 0.08
16 22 0.59
ACGTcount: A:0.19, C:0.02, G:0.32, T:0.47
Consensus pattern (15 bp):
GTTTTAGGGTTTAAG
Found at i:7757617 original size:21 final size:22
Alignment explanation
Indices: 7757593--7757655 Score: 78
Period size: 21 Copynumber: 3.0 Consensus size: 22
7757583 TGGAGGATTT
7757593 AGGTTTT-GATTTTAGGGTTTG
1 AGGTTTTAGATTTTAGGGTTTG
*
7757614 AGGTTTTAGGA-TTT-CGGTTTG
1 AGGTTTTA-GATTTTAGGGTTTG
*
7757635 AGGTTTTAGGTTTTAGGGTTT
1 AGGTTTTAGATTTTAGGGTTT
7757656 TGATTTCAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
20 1 0.03
21 24 0.69
22 8 0.23
23 2 0.06
ACGTcount: A:0.14, C:0.02, G:0.33, T:0.51
Consensus pattern (22 bp):
AGGTTTTAGATTTTAGGGTTTG
Found at i:7757645 original size:7 final size:7
Alignment explanation
Indices: 7757590--7757656 Score: 64
Period size: 7 Copynumber: 9.4 Consensus size: 7
7757580 ATTTGGAGGA
7757590 TTTAGGT
1 TTTAGGT
*
7757597 TTT-GAT
1 TTTAGGT
7757603 TTTAGGGT
1 TTTA-GGT
*
7757611 TTGAGGT
1 TTTAGGT
*
7757618 TTTAGGA
1 TTTAGGT
*
7757625 TTTCGGT
1 TTTAGGT
*
7757632 TTGAGGT
1 TTTAGGT
7757639 TTTAGGT
1 TTTAGGT
7757646 TTTAGGGT
1 TTTA-GGT
7757654 TTT
1 TTT
7757657 GATTTCAAGA
Statistics
Matches: 47, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
6 5 0.11
7 31 0.66
8 11 0.23
ACGTcount: A:0.13, C:0.01, G:0.31, T:0.54
Consensus pattern (7 bp):
TTTAGGT
Found at i:7757693 original size:14 final size:14
Alignment explanation
Indices: 7757678--7757726 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
7757668 TTAAGATTTG
*
7757678 GGGTTTCGATTTTG
1 GGGTTTCGATTTTA
7757692 GGGTTT-GAAGTTTTA
1 GGGTTTCG-A-TTTTA
*
7757707 AGGTTTCGATTTTA
1 GGGTTTCGATTTTA
7757721 GGGTTT
1 GGGTTT
7757727 TGAAGGCTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
13 1 0.03
14 17 0.59
15 10 0.34
16 1 0.03
ACGTcount: A:0.14, C:0.04, G:0.33, T:0.49
Consensus pattern (14 bp):
GGGTTTCGATTTTA
Found at i:7757724 original size:29 final size:29
Alignment explanation
Indices: 7757371--7757786 Score: 188
Period size: 29 Copynumber: 14.4 Consensus size: 29
7757361 GCAATTTTAG
* * * *
7757371 TTTTAGGGTTTTAAGGGTTTAGGGTTTCAA
1 TTTTAGGGTTTGAA-GTTTTAAGGTTTCGA
* * *
7757401 TTTTAGGGTTTAGAGGTTTTAGGGTTTAG-
1 TTTTAGGGTTT-GAAGTTTTAAGGTTTCGA
* * *
7757430 TTTCA-AGTTTGAAGGATTTAAGGTTTCGA
1 TTTTAGGGTTTGAA-GTTTTAAGGTTTCGA
7757459 TTTTAGGGTTTG-AGATTTTAAGGTTTCGA
1 TTTTAGGGTTTGAAG-TTTTAAGGTTTCGA
* * * *
7757488 TTTTAGGATTTGATGTTTTAGGGTTTCAA
1 TTTTAGGGTTTGAAGTTTTAAGGTTTCGA
*** * ** *
7757517 TTTTAAAATTT-AAGGTTTGGGGTTTTGA
1 TTTTAGGGTTTGAAGTTTTAAGGTTTCGA
* * * *
7757545 TTTTAAGGTTTGAGGTTTTAAGGCTTAG-
1 TTTTAGGGTTTGAAGTTTTAAGGTTTCGA
* * * * * * *
7757573 TGTCAAGATTTGGAGGATTT-AGGTTTTGA
1 TTTTAGGGTTT-GAAGTTTTAAGGTTTCGA
* *
7757602 TTTTAGGGTTTGAGGTTTT-AGGATTTCGG
1 TTTTAGGGTTTGAAGTTTTAAGG-TTTCGA
* * * * *
7757631 TTTGA-GGTTTTAGGTTTTAGGGTTTTGA
1 TTTTAGGGTTTGAAGTTTTAAGGTTTCGA
* * * * **
7757659 TTTCAAGATTT-AAGATTTGGGGTTTCGA
1 TTTTAGGGTTTGAAGTTTTAAGGTTTCGA
*
7757687 TTTTGGGGTTTGAAGTTTTAAGGTTTCGA
1 TTTTAGGGTTTGAAGTTTTAAGGTTTCGA
** *
7757716 TTTTAGGGTTTTGAAGGCTTAAGGTTTGGAA
1 TTTTAGGG-TTTGAAGTTTTAAGGTTTCG-A
* * * *
7757747 GGTTTAGGGATT-ATA-TTTTAGGGTTTCAA
1 -TTTTAGGGTTTGA-AGTTTTAAGGTTTCGA
7757776 TTTTAGGGTTT
1 TTTTAGGGTTT
7757787 TGAAATTTAG
Statistics
Matches: 292, Mismatches: 77, Indels: 36
0.72 0.19 0.09
Matches are distributed among these distances:
27 2 0.01
28 110 0.38
29 114 0.39
30 54 0.18
31 5 0.02
32 7 0.02
ACGTcount: A:0.21, C:0.03, G:0.29, T:0.47
Consensus pattern (29 bp):
TTTTAGGGTTTGAAGTTTTAAGGTTTCGA
Found at i:7758066 original size:18 final size:18
Alignment explanation
Indices: 7758043--7758096 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
7758033 CTAGGCAGGA
*
7758043 AATTTTTTTTATTATTTT
1 AATTTTTTTTATTATTAT
* * *
7758061 AATTTTTATAATCATTAT
1 AATTTTTTTTATTATTAT
7758079 -ATATTTTTTTATTATTAT
1 AAT-TTTTTTTATTATTAT
7758097 TATTATTATT
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
17 2 0.07
18 26 0.93
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.69
Consensus pattern (18 bp):
AATTTTTTTTATTATTAT
Found at i:7758319 original size:37 final size:37
Alignment explanation
Indices: 7758264--7758467 Score: 144
Period size: 37 Copynumber: 5.5 Consensus size: 37
7758254 TCGTTTCATG
* * * *
7758264 GTGTTATCCCAATTGATTTTTTATTTTTTGACTTGCA
1 GTGTTATCCCGATCGATTCTTTATTTTTCGACTTGCA
* * * * *
7758301 GTGTTATCCTGATCGATTTTTTATTTCTCAACTTGCG
1 GTGTTATCCCGATCGATTCTTTATTTTTCGACTTGCA
* ** *
7758338 GTGTTGTCCC-AGTTAATTCTTTAATTTT-GACTTGCA
1 GTGTTATCCCGA-TCGATTCTTTATTTTTCGACTTGCA
* * * **
7758374 GTGTTGTCCCGATCGATTATTTACTTTTCGA-TTCGTG
1 GTGTTATCCCGATCGATTCTTTATTTTTCGACTT-GCA
* * ***
7758411 GTGTTATCCTGATCGATTCTTTATTTTTCAACTTATG
1 GTGTTATCCCGATCGATTCTTTATTTTTCGACTTGCA
* *
7758448 GTGTTATCTCGATCAATTCT
1 GTGTTATCCCGATCGATTCT
7758468 GTAAGACCTC
Statistics
Matches: 131, Mismatches: 31, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
36 31 0.24
37 98 0.75
38 2 0.02
ACGTcount: A:0.18, C:0.17, G:0.16, T:0.49
Consensus pattern (37 bp):
GTGTTATCCCGATCGATTCTTTATTTTTCGACTTGCA
Found at i:7758414 original size:73 final size:73
Alignment explanation
Indices: 7758252--7758419 Score: 187
Period size: 73 Copynumber: 2.3 Consensus size: 73
7758242 CCGGACAAAA
* * * * * *
7758252 TTTCGTTTCATGGTGTTATCCCAATTGATTTTTTATTTTTTGACTTGCAGTGTTATCCTGATCGA
1 TTTCGATTCGTGGTGTTATCCCAATTAATTCTTTATATTTTGACTTGCAGTGTTATCCCGATCGA
*
7758317 TTTTTTAT
66 TTATTTAT
* * * * *
7758325 TTCTCAACTT-GCGGTGTTGTCCCAGTTAATTCTTTA-ATTTTGACTTGCAGTGTTGTCCCGATC
1 TT-TCGA-TTCGTGGTGTTATCCCAATTAATTCTTTATATTTTGACTTGCAGTGTTATCCCGATC
7758388 GATTATTTACT
64 GATTATTTA-T
7758399 TTTCGATTCGTGGTGTTATCC
1 TTTCGATTCGTGGTGTTATCC
7758420 TGATCGATTC
Statistics
Matches: 76, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
72 2 0.03
73 47 0.62
74 25 0.33
75 2 0.03
ACGTcount: A:0.16, C:0.17, G:0.17, T:0.49
Consensus pattern (73 bp):
TTTCGATTCGTGGTGTTATCCCAATTAATTCTTTATATTTTGACTTGCAGTGTTATCCCGATCGA
TTATTTAT
Found at i:7758430 original size:73 final size:71
Alignment explanation
Indices: 7758252--7758438 Score: 178
Period size: 73 Copynumber: 2.5 Consensus size: 71
7758242 CCGGACAAAA
* * * *
7758252 TTTCGTTTCATGGTGTTATCCCAATTGATTTTTTATTTTTTGACTTGCAGTGTTATCCTGATCGA
1 TTTCGATTCGTGGTGTTAT-CCAATTGATTCTTTA-TTTTTGACTTGCAGTGTTATCCCGATCGA
*
7758317 TTTTTTAT
64 TTATTTAT
* * * * * * *
7758325 TTCTCAACTT-GCGGTGTTGTCCCAGTTAATTCTTTAATTTTGACTTGCAGTGTTGTCCCGATCG
1 TT-TCGA-TTCGTGGTGTTAT-CCAATTGATTCTTTATTTTTGACTTGCAGTGTTATCCCGATCG
7758389 ATTATTTACT
63 ATTATTTA-T
* *
7758399 TTTCGATTCGTGGTGTTATCCTGATCGATTCTTTATTTTT
1 TTTCGATTCGTGGTGTTATCC-AATTGATTCTTTATTTTT
7758439 CAACTTATGG
Statistics
Matches: 89, Mismatches: 20, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
72 4 0.04
73 58 0.65
74 25 0.28
75 2 0.02
ACGTcount: A:0.16, C:0.17, G:0.17, T:0.51
Consensus pattern (71 bp):
TTTCGATTCGTGGTGTTATCCAATTGATTCTTTATTTTTGACTTGCAGTGTTATCCCGATCGATT
ATTTAT
Found at i:7758494 original size:22 final size:21
Alignment explanation
Indices: 7758469--7758534 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 21
7758459 ATCAATTCTG
7758469 TAAGACCTCTGGGCATAATTT
1 TAAGACCTCTGGGCATAATTT
7758490 CTAAGACCT-TCGGGCATAATCTT
1 -TAAGACCTCT-GGGCATAAT-TT
* *
7758513 TAAGACCTCCGGGTATAATTT
1 TAAGACCTCTGGGCATAATTT
7758534 T
1 T
7758535 GATTTGGAGT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
21 4 0.10
22 33 0.85
23 2 0.05
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.33
Consensus pattern (21 bp):
TAAGACCTCTGGGCATAATTT
Found at i:7758583 original size:37 final size:36
Alignment explanation
Indices: 7758531--7758856 Score: 207
Period size: 37 Copynumber: 8.9 Consensus size: 36
7758521 CCGGGTATAA
* * *
7758531 TTTTGATTTGGAGTGTTATCCCGGTCGATTCTTTACT
1 TTTTGACTTGCAGTGTTATCCCGATCGATTCTTTA-T
* * *
7758568 TTTTGACTTGCAGTGTTAT-CCTAGTCGATTTTTTAA
1 TTTTGACTTGCAGTGTTATCCCGA-TCGATTCTTTAT
* * *
7758604 TTTTGA-TTCGC-GATGTTGTCCTGATTGATTCTTTAT
1 TTTTGACTT-GCAG-TGTTATCCCGATCGATTCTTTAT
** * * * *
7758640 TTCTCAACTTGCGGTGTTAT-CCTAGTTGATTCTTTAA
1 TT-TTGACTTGCAGTGTTATCCCGA-TCGATTCTTTAT
* *
7758677 TTTTGACTTGCAGTGTTCTCTCGATCGATTCTTTAT
1 TTTTGACTTGCAGTGTTATCCCGATCGATTCTTTAT
* * * ** *
7758713 TTCTCGACTTGTAGTGTTGTCCC-AGTTAATTCTTTAA
1 TT-TTGACTTGCAGTGTTATCCCGA-TCGATTCTTTAT
*
7758750 TTTCGACTTGCAGTGTTA-CCTCGATCGATTCTTTACT
1 TTTTGACTTGCAGTGTTATCC-CGATCGATTCTTTA-T
* * * *
7758787 TTTCGATTTG-TGATGTTATCCCGATCGATTTTTTATTT
1 TTTTGACTTGCAG-TGTTATCCCGATCGATTCTTTA--T
* * *
7758825 TTTTGACTTACGGTGTTATCCTGATCGATTCT
1 TTTTGACTTGCAGTGTTATCCCGATCGATTCT
7758857 ATAAGACCTT
Statistics
Matches: 223, Mismatches: 48, Indels: 35
0.73 0.16 0.11
Matches are distributed among these distances:
35 5 0.02
36 79 0.35
37 108 0.48
38 30 0.13
39 1 0.00
ACGTcount: A:0.16, C:0.17, G:0.17, T:0.49
Consensus pattern (36 bp):
TTTTGACTTGCAGTGTTATCCCGATCGATTCTTTAT
Found at i:7758650 original size:73 final size:73
Alignment explanation
Indices: 7758528--7758784 Score: 263
Period size: 73 Copynumber: 3.5 Consensus size: 73
7758518 CCTCCGGGTA
* * * * * **
7758528 TAATTTTGATTTGGAGTGTTATCCCGGTCGATTCTTTACTTT-TTGACTTGCAGTGTTATCCTAG
1 TAATTTTGACTTGCAGTGTTCTCTCGATCGATTCTTTA-TTTCTCAACTTGCAGTGTTATCCTAG
*
7758592 TCGATTTTT
65 TCGATTCTT
* * *
7758601 TAATTTTGA-TTCGC-GATGTTGTC-CTGATTGATTCTTTATTTCTCAACTTGCGGTGTTATCCT
1 TAATTTTGACTT-GCAG-TGTTCTCTC-GATCGATTCTTTATTTCTCAACTTGCAGTGTTATCCT
*
7758663 AGTTGATTCTT
63 AGTCGATTCTT
* * * *
7758674 TAATTTTGACTTGCAGTGTTCTCTCGATCGATTCTTTATTTCTCGACTTGTAGTGTTGTCCCAGT
1 TAATTTTGACTTGCAGTGTTCTCTCGATCGATTCTTTATTTCTCAACTTGCAGTGTTATCCTAGT
**
7758739 TAATTCTT
66 CGATTCTT
*
7758747 TAATTTCGACTTGCAGTGTTAC-CTCGATCGATTCTTTA
1 TAATTTTGACTTGCAGTGTT-CTCTCGATCGATTCTTTA
7758785 CTTTTCGATT
Statistics
Matches: 158, Mismatches: 18, Indels: 16
0.82 0.09 0.08
Matches are distributed among these distances:
72 7 0.04
73 146 0.92
74 5 0.03
ACGTcount: A:0.17, C:0.18, G:0.18, T:0.48
Consensus pattern (73 bp):
TAATTTTGACTTGCAGTGTTCTCTCGATCGATTCTTTATTTCTCAACTTGCAGTGTTATCCTAGT
CGATTCTT
Found at i:7758804 original size:146 final size:146
Alignment explanation
Indices: 7758528--7758856 Score: 310
Period size: 146 Copynumber: 2.2 Consensus size: 146
7758518 CCTCCGGGTA
* * * * *
7758528 TAATTTTGATTTGGAGTGTTATCCCGGTCGATTCTTTACTTTTTGACTTGCAGTGTTATCCTAGT
1 TAATTTTGACTTGCAGTGTTATCCCGATCGATTCTTTACTTTTCGACTTGCAGTGTTATCCCAGT
* * * * * *
7758593 CGATTTTTTAATTTTGATTCGCGATGTTGTCCTGATTGATTCTTTATTTCTCAACTTGCGGTGTT
66 CAATTCTTTAATTTCGATTCGCGATGTTGACCTGATCGATTCTTTATTTCTCAACTTGCGATGTT
7758658 ATCCTAGTTGATTCTT
131 ATCCTAGTTGATTCTT
* * * *
7758674 TAATTTTGACTTGCAGTGTTCTCTCGATCGATTCTTTA-TTTCTCGACTTGTAGTGTTGTCCCAG
1 TAATTTTGACTTGCAGTGTTATCCCGATCGATTCTTTACTTT-TCGACTTGCAGTGTTATCCCAG
* * * *
7758738 TTAATTCTTTAATTTCGACTT-GC-AGTGTT-ACCTCGATCGATTCTTTACTTT-TCGATTTGTG
65 TCAATTCTTTAATTTCGA-TTCGCGA-TGTTGACCT-GATCGATTCTTTA-TTTCTCAACTTGCG
* * *
7758799 ATGTTATCC-CGATCGATTTTT
126 ATGTTATCCTAG-TTGATTCTT
* * * *
7758820 TATTTTTTTGACTTACGGTGTTATCCTGATCGATTCT
1 TA--ATTTTGACTTGCAGTGTTATCCCGATCGATTCT
7758857 ATAAGACCTT
Statistics
Matches: 147, Mismatches: 28, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
145 8 0.05
146 107 0.73
147 5 0.03
148 27 0.18
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.49
Consensus pattern (146 bp):
TAATTTTGACTTGCAGTGTTATCCCGATCGATTCTTTACTTTTCGACTTGCAGTGTTATCCCAGT
CAATTCTTTAATTTCGATTCGCGATGTTGACCTGATCGATTCTTTATTTCTCAACTTGCGATGTT
ATCCTAGTTGATTCTT
Done.