Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, 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: 16962412
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 73
Found at i:746744 original size:54 final size:54
Alignment explanation
Indices: 746673--747072 Score: 353
Period size: 54 Copynumber: 7.1 Consensus size: 54
746663 TTTTAAAATA
* * *
746673 ATTTATTTAAAATAATTTATTAGTGTGGATTGATTTATTTTAAAATATTGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* ***
746727 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTGTTGTAGTTGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTA-T-TT-TA-AAATATGGATTG
* *
746785 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATAGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
** *
746839 ATTTATTTTTTAAA-AAAATATTAGTATGAATTGATTTATTTTAAAATATGGATTG
1 ATTTA--TTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* *
746894 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTT-AAATA---ATTT
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* * * * * *
746944 A-TTAGTATCAATTGATTTTTTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATAG
1 ATTTA-TTTTAAAT-A-ATTTATT--AGTATGGATTGATTTATTTT-AA-AA--TA-T-G----G
747008 ATTG
51 ATTG
* * * *
747012 ATTTATTGTAAATAATTTATTTGTATAGATTGATTTATTTTAAAATATCGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
747066 ATTTATT
1 ATTTATT
747073 ATTGTAGTTG
Statistics
Matches: 280, Mismatches: 39, Indels: 54
0.75 0.10 0.14
Matches are distributed among these distances:
49 3 0.01
50 9 0.03
51 1 0.00
52 5 0.02
53 12 0.04
54 101 0.36
55 46 0.16
56 12 0.04
57 5 0.02
58 43 0.15
59 3 0.01
60 2 0.01
62 2 0.01
63 2 0.01
64 17 0.06
66 5 0.02
67 1 0.00
68 8 0.03
69 3 0.01
ACGTcount: A:0.36, C:0.01, G:0.11, T:0.53
Consensus pattern (54 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
Found at i:746763 original size:32 final size:32
Alignment explanation
Indices: 746722--747055 Score: 269
Period size: 32 Copynumber: 11.5 Consensus size: 32
746712 TTAAAATATT
746722 GATTGATTTATTTTAAATAATTTATTAGTATA
1 GATTGATTTATTTTAAATAATTTATTAGTATA
* * *
746754 GATTGATTTATTGTT--GT-A---GTT-GTATG
1 GATTGATTTATT-TTAAATAATTTATTAGTATA
746780 GATTGATTTATTTTAAATAATTTATTAGTAT-
1 GATTGATTTATTTTAAATAATTTATTAGTATA
*
746811 GAATTGATTTATTTT-AA-AA--TA-TAG-ATT
1 G-ATTGATTTATTTTAAATAATTTATTAGTATA
* **
746838 GATTTA-TT-TTTTAAA-AAAATATTAGTAT-
1 GATTGATTTATTTTAAATAATTTATTAGTATA
746866 GAATTGATTTATTTT-AA-AA--TA-T-G----
1 G-ATTGATTTATTTTAAATAATTTATTAGTATA
746889 GATTGATTTATTTTAAATAATTTATTAGTATA
1 GATTGATTTATTTTAAATAATTTATTAGTATA
746921 GATTGATTTATTTTAAATAATTTATTAGTATCA
1 GATTGATTTATTTTAAATAATTTATTAGTAT-A
*
746954 -ATTGATTT-TTTT---TAA---A--A-TATG
1 GATTGATTTATTTTAAATAATTTATTAGTATA
746975 GATTGATTTATTTTAAATAATTTATTAGTATA
1 GATTGATTTATTTTAAATAATTTATTAGTATA
* *
747007 GATTGATTTATTGTAAATAATTTATTTGTATA
1 GATTGATTTATTTTAAATAATTTATTAGTATA
747039 GATTGATTTATTTTAAA
1 GATTGATTTATTTTAAA
747056 ATATCGATTG
Statistics
Matches: 250, Mismatches: 12, Indels: 80
0.73 0.04 0.23
Matches are distributed among these distances:
22 24 0.10
23 8 0.03
24 6 0.02
25 9 0.04
26 28 0.11
27 11 0.04
28 13 0.05
29 7 0.03
30 9 0.04
31 15 0.06
32 117 0.47
33 3 0.01
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.52
Consensus pattern (32 bp):
GATTGATTTATTTTAAATAATTTATTAGTATA
Found at i:746893 original size:22 final size:22
Alignment explanation
Indices: 746863--746905 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
746853 AAAATATTAG
746863 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
*
746885 TATGGATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
746906 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:746913 original size:14 final size:14
Alignment explanation
Indices: 746894--746946 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 14
746884 ATATGGATTG
746894 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* *
746908 ATTTATTAGTATAGATTG
1 ATTTATT--T-TA-AATA
746926 ATTTATTTTAAATA
1 ATTTATTTTAAATA
746940 ATTTATT
1 ATTTATT
746947 AGTATCAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
14 16 0.52
15 2 0.06
16 2 0.06
17 2 0.06
18 9 0.29
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.57
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:746976 original size:86 final size:86
Alignment explanation
Indices: 746673--747113 Score: 456
Period size: 86 Copynumber: 5.3 Consensus size: 86
746663 TTTTAAAATA
* * * *
746673 ATTTATTTAAAATAATTTATTAGTGTGGATTGATTTATTTTAAAATATTGATTGATTTATTTTAA
1 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
746738 ATAATTTATTAGTATAGATTG
66 ATAATTTATTAGTATAGATTG
* * * * * *
746759 ATTTATTGTT--GT-A---GTT-GTATGGATTGATTTATTTT-AAATA---ATTTA-TTAGTATG
1 ATTTATT-TTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTA-TTTT
* * *
746812 AATTGATTTATTTTAAAATATAGATTG
64 AAATAATTTA--TT--AGTATAGATTG
**
746839 ATTTATTTTTTAAA-AAAATATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTTT
1 ATTTA--TTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTTT
746903 AAATAATTTATTAGTATAGATTG
64 AAATAATTTATTAGTATAGATTG
* *
746926 ATTTATTTTAAATAATTTATTAGTATCAATTGATTTTTTTTAAAATATGGATTGATTTATTTTAA
1 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
746991 ATAATTTATTAGTATAGATTG
66 ATAATTTATTAGTATAGATTG
* * *
747012 ATTTATTGTAAATAATTTATTTGTAT-AGATTGATTTATTTTAAAATATCGATTGATTTA--TT-
1 ATTTATTTTAAATAATTTATTAGTATGA-ATTGATTTATTTTAAAATATGGATTGATTTATTTTA
*
747073 -AT--TGTAGTT-GTATAGATTG
65 AATAATTTA-TTAGTATAGATTG
747092 ATTTATTTTAAATAATTTATTA
1 ATTTATTTTAAATAATTTATTA
747114 TTGTAGTTGT
Statistics
Matches: 302, Mismatches: 30, Indels: 52
0.79 0.08 0.14
Matches are distributed among these distances:
75 3 0.01
76 14 0.05
78 2 0.01
79 5 0.02
80 66 0.22
81 6 0.02
82 4 0.01
83 1 0.00
84 3 0.01
85 9 0.03
86 131 0.43
87 34 0.11
88 5 0.02
89 2 0.01
91 14 0.05
92 3 0.01
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (86 bp):
ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
ATAATTTATTAGTATAGATTG
Found at i:747493 original size:17 final size:17
Alignment explanation
Indices: 747471--747506 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
747461 GATTCTTTTT
*
747471 AGTATAATACAGGCTTA
1 AGTATAATACAGACTTA
*
747488 AGTATAATATAGACTTA
1 AGTATAATACAGACTTA
747505 AG
1 AG
747507 AGTCACATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.44, C:0.08, G:0.17, T:0.31
Consensus pattern (17 bp):
AGTATAATACAGACTTA
Found at i:750342 original size:15 final size:15
Alignment explanation
Indices: 750322--750352 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
750312 CTTTATTCTC
*
750322 AAAATAAATTTATAA
1 AAAATAAAATTATAA
750337 AAAATAAAATTATAA
1 AAAATAAAATTATAA
750352 A
1 A
750353 TATATCTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
AAAATAAAATTATAA
Found at i:762556 original size:240 final size:240
Alignment explanation
Indices: 762128--762593 Score: 729
Period size: 240 Copynumber: 1.9 Consensus size: 240
762118 GCGTCTGAAA
* * *
762128 CCACGCTCCACCACCTATCGAGCAAACCCACTCACTCAACTCAAGCTAAGAGACGACGAAGAGGT
1 CCACGCTCCACCACCTATCGAGCAAACCCACACACACAACTCAAGCTAAGAGACGACGAAGAGAT
* * * *
762193 AACAACGTCGACGAACAACGAACCGCTTCTTCAAATAGAACAAAGTTGAGCATGAACCACTACAC
66 AACAACGTCGACAAACAACGAACCGCTTCTTCAAATAGAACAAACTTGAACATGAACCACTAAAC
* * *
762258 ATAGTCAAGAGATAAACCTCCGTACAAACATCCACTATCGAAGACGGAAACGACCACTTTCACGA
131 AAAGTCAAGAGATAAACCGCCGTACAAACATCCACTATCGAAGACGGAAACAACCACTTTCACGA
* * *
762323 TG-TGGTGGTCGCCTCCACCACCGACCTTGCTTTGATTAATGAACG
196 -GACGATGGCCGCCTCCACCACCGACCTTGCTTTGATTAATGAACG
* * *
762368 CCACGCTCCACCACCTATCGAGCAAACCCACACACACAATTCAAGCTAAGAGGCGATGAAGAGAT
1 CCACGCTCCACCACCTATCGAGCAAACCCACACACACAACTCAAGCTAAGAGACGACGAAGAGAT
762433 AACAACGTCAGA-AAACAACGAACCGCTTCTTCAAATAGAACAAACTTGAACATGAACCACTAAA
66 AACAACGTC-GACAAACAACGAACCGCTTCTTCAAATAGAACAAACTTGAACATGAACCACTAAA
* * *
762497 CAAAGTCAAGAGATAAACCGCCGTACAGACATCCACTTTCGAGGACGGAAACAACCACTTTCACG
130 CAAAGTCAAGAGATAAACCGCCGTACAAACATCCACTATCGAAGACGGAAACAACCACTTTCACG
762562 AGACGATGGCCGCCTCCACCACCGACCTTGCT
195 AGACGATGGCCGCCTCCACCACCGACCTTGCT
762594 GCTAAAAGAT
Statistics
Matches: 205, Mismatches: 19, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
239 1 0.00
240 202 0.99
241 2 0.01
ACGTcount: A:0.36, C:0.31, G:0.17, T:0.16
Consensus pattern (240 bp):
CCACGCTCCACCACCTATCGAGCAAACCCACACACACAACTCAAGCTAAGAGACGACGAAGAGAT
AACAACGTCGACAAACAACGAACCGCTTCTTCAAATAGAACAAACTTGAACATGAACCACTAAAC
AAAGTCAAGAGATAAACCGCCGTACAAACATCCACTATCGAAGACGGAAACAACCACTTTCACGA
GACGATGGCCGCCTCCACCACCGACCTTGCTTTGATTAATGAACG
Found at i:769707 original size:29 final size:30
Alignment explanation
Indices: 769675--769746 Score: 103
Period size: 29 Copynumber: 2.4 Consensus size: 30
769665 AAATTAATGT
769675 ACAGAAAATTAAAGGA-AAAAGTGTAAATA
1 ACAGAAAATTAAAGGACAAAAGTGTAAATA
* *
769704 ACAGAAAAATAAAGTACAAAAGTGTAAATA
1 ACAGAAAATTAAAGGACAAAAGTGTAAATA
769734 AC-GAAAATGTAAA
1 ACAGAAAAT-TAAA
769747 TCAAACAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
29 19 0.50
30 19 0.50
ACGTcount: A:0.62, C:0.06, G:0.15, T:0.17
Consensus pattern (30 bp):
ACAGAAAATTAAAGGACAAAAGTGTAAATA
Found at i:769744 original size:15 final size:16
Alignment explanation
Indices: 769691--769747 Score: 52
Period size: 15 Copynumber: 3.8 Consensus size: 16
769681 AATTAAAGGA
769691 AAAAGTGTAAATAACAG
1 AAAAGTGTAAATAAC-G
*
769708 AAAA--ATAAAGT-AC-
1 AAAAGTGTAAA-TAACG
769721 AAAAGTGTAAATAACG
1 AAAAGTGTAAATAACG
769737 AAAA-TGTAAAT
1 AAAAGTGTAAAT
769748 CAAACAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
13 4 0.12
14 1 0.03
15 19 0.58
16 5 0.15
17 4 0.12
ACGTcount: A:0.61, C:0.05, G:0.14, T:0.19
Consensus pattern (16 bp):
AAAAGTGTAAATAACG
Found at i:778249 original size:22 final size:23
Alignment explanation
Indices: 778203--778249 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
778193 TCCCCTAGGA
*
778203 GGAATCGGTTCCCCTTCAAAGGG
1 GGAATCAGTTCCCCTTCAAAGGG
778226 GGAATCAGTTCCCCTTC-AAGGG
1 GGAATCAGTTCCCCTTCAAAGGG
778248 GG
1 GG
778250 TATCGATTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 7 0.30
23 16 0.70
ACGTcount: A:0.21, C:0.26, G:0.32, T:0.21
Consensus pattern (23 bp):
GGAATCAGTTCCCCTTCAAAGGG
Found at i:778259 original size:22 final size:22
Alignment explanation
Indices: 778187--778260 Score: 75
Period size: 23 Copynumber: 3.5 Consensus size: 22
778177 CCATGGGAGT
*
778187 ATCGATTCCCC-T--AGGAGGA
1 ATCGATTCCCCTTCAAGGGGGA
*
778206 ATCGGTTCCCCTTCAAAGGGGGA
1 ATCGATTCCCCTTC-AAGGGGGA
*
778229 ATC-AGTTCCCCTTCAAGGGGGT
1 ATCGA-TTCCCCTTCAAGGGGGA
778251 ATCGATTCCC
1 ATCGATTCCC
778261 TCTGCCCTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
19 10 0.22
20 1 0.02
22 15 0.33
23 19 0.42
ACGTcount: A:0.22, C:0.28, G:0.26, T:0.24
Consensus pattern (22 bp):
ATCGATTCCCCTTCAAGGGGGA
Found at i:780921 original size:22 final size:22
Alignment explanation
Indices: 780896--780946 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
780886 TTAGTACTTA
780896 AGAATAGAACCCAAGTATATCT
1 AGAATAGAACCCAAGTATATCT
780918 AGAATAGAACCCAAGTATATCT
1 AGAATAGAACCCAAGTATATCT
780940 AGAATAG
1 AGAATAG
780947 TCATCTACCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.47, C:0.16, G:0.16, T:0.22
Consensus pattern (22 bp):
AGAATAGAACCCAAGTATATCT
Found at i:785054 original size:22 final size:22
Alignment explanation
Indices: 785029--785080 Score: 104
Period size: 22 Copynumber: 2.4 Consensus size: 22
785019 ATCTATCTCC
785029 CTAAACCCAAGCCTAAAGCCAT
1 CTAAACCCAAGCCTAAAGCCAT
785051 CTAAACCCAAGCCTAAAGCCAT
1 CTAAACCCAAGCCTAAAGCCAT
785073 CTAAACCC
1 CTAAACCC
785081 CCCCCCAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.40, C:0.38, G:0.08, T:0.13
Consensus pattern (22 bp):
CTAAACCCAAGCCTAAAGCCAT
Found at i:787330 original size:42 final size:40
Alignment explanation
Indices: 787236--787342 Score: 151
Period size: 42 Copynumber: 2.6 Consensus size: 40
787226 GCCCAAAATT
* *
787236 CTTATGAATGGCCTGAAGGACTTATCATCTTGCTCGAAAGA
1 CTTAT-AATGGCCTGAAGGACTTAGCATCATGCTCGAAAGA
*
787277 CTTATAGATGGCCCGAAGGACTTACGCATCATGCTCGAAAGA
1 CTTATA-ATGGCCTGAAGGACTTA-GCATCATGCTCGAAAGA
787319 CTTACTAATGGCCTGAAGGACTTA
1 CTTA-TAATGGCCTGAAGGACTTA
787343 AACTGATTCG
Statistics
Matches: 59, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
40 1 0.02
41 21 0.36
42 35 0.59
43 2 0.03
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.26
Consensus pattern (40 bp):
CTTATAATGGCCTGAAGGACTTAGCATCATGCTCGAAAGA
Found at i:787609 original size:42 final size:42
Alignment explanation
Indices: 787504--787609 Score: 133
Period size: 41 Copynumber: 2.5 Consensus size: 42
787494 GAAATGTTGA
* * * *
787504 AAACATCTTGCCCGAAGGTCTTATAAATGGCCCGAAGGACTT
1 AAACATCTTGCTCGAAAGACTTATAAATGACCCGAAGGACTT
* * *
787546 -ATCATCTTGCTCGAAAGACTTATAGATGACCCGAAGGATTT
1 AAACATCTTGCTCGAAAGACTTATAAATGACCCGAAGGACTT
*
787587 AAACATCATGCTCGAAAGACTTA
1 AAACATCTTGCTCGAAAGACTTA
787610 CTGATGGCTA
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
41 34 0.63
42 20 0.37
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (42 bp):
AAACATCTTGCTCGAAAGACTTATAAATGACCCGAAGGACTT
Found at i:787767 original size:57 final size:56
Alignment explanation
Indices: 787688--787909 Score: 247
Period size: 57 Copynumber: 4.0 Consensus size: 56
787678 GTTTTCAATT
* * *
787688 ATCATCAAGAAATCCCTAAAAATTATGCTTAGATTCTTTAAAAATTCTTTGGAAATA
1 ATCATCAAGAAACCCCTAAAAATCAGGCTTAG-TTCTTTAAAAATTCTTTGGAAATA
* * *
787745 ATCATCAAGAAACCCCTGAAAATCAGGCTTAGTT-TCTAAAAACTCATTT-G-AA-A
1 ATCATCAAGAAACCCCTAAAAATCAGGCTTAGTTCTTTAAAAATTC-TTTGGAAATA
* * * * * *
787798 A-CATCAAGAAACCCTTAACAATTAGGCTTATCTTCTTTTAAAAATTCATTGGAAATC
1 ATCATCAAGAAACCCCTAAAAATCAGGCTTA-GTTC-TTTAAAAATTCTTTGGAAATA
*
787855 ATCATCAAGAAACCCCTAAAAATCAGGCTTAGTTTCTTTAAAAATTCTTTTGAAA
1 ATCATCAAGAAACCCCTAAAAATCAGGCTTAG-TTCTTTAAAAATTCTTTGGAAA
787910 ACATCATGTT
Statistics
Matches: 135, Mismatches: 21, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
52 25 0.19
53 4 0.03
54 4 0.03
55 20 0.15
56 7 0.05
57 46 0.34
58 29 0.21
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (56 bp):
ATCATCAAGAAACCCCTAAAAATCAGGCTTAGTTCTTTAAAAATTCTTTGGAAATA
Found at i:787866 original size:110 final size:110
Alignment explanation
Indices: 787690--787915 Score: 330
Period size: 110 Copynumber: 2.0 Consensus size: 110
787680 TTTCAATTAT
* *
787690 CATCAAGAAATCCCTAAAAATTATGCTTAGATTCTTTAAAAATTCTTTGGAAATAATCATCAAGA
1 CATCAAGAAATCCCTAAAAATTAGGCTTAGATTCTTTAAAAATTCATTGGAAATAATCATCAAGA
*
787755 AACCCCTGAAAATCAGGCTTAGTTTC-TAAAAACTCATTTGAAAA
66 AACCCCTAAAAATCAGGCTTAGTTTCTTAAAAACTCATTTGAAAA
* ** *
787799 CATCAAGAAA-CCCTTAACAATTAGGCTTATCTTCTTTTAAAAATTCATTGGAAATCATCATCAA
1 CATCAAGAAATCCC-TAAAAATTAGGCTTAGATTC-TTTAAAAATTCATTGGAAATAATCATCAA
* *
787863 GAAACCCCTAAAAATCAGGCTTAGTTTCTTTAAAAATTCTTTTGAAAA
64 GAAACCCCTAAAAATCAGGCTTAGTTTC-TTAAAAACTCATTTGAAAA
787911 CATCA
1 CATCA
787916 TGTTGTTTGG
Statistics
Matches: 104, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
108 3 0.03
109 26 0.25
110 54 0.52
112 21 0.20
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (110 bp):
CATCAAGAAATCCCTAAAAATTAGGCTTAGATTCTTTAAAAATTCATTGGAAATAATCATCAAGA
AACCCCTAAAAATCAGGCTTAGTTTCTTAAAAACTCATTTGAAAA
Found at i:789658 original size:29 final size:30
Alignment explanation
Indices: 789615--789672 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 30
789605 AAAATAGAAA
789615 CATCGAATGCAATTAGTGCATCGATGCATG
1 CATCGAATGCAATTAGTGCATCGATGCATG
789645 CATCG-ATGCAATTAGTGCATCGATGCAT
1 CATCGAATGCAATTAGTGCATCGATGCAT
789673 AAGGCATGCA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 23 0.82
30 5 0.18
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (30 bp):
CATCGAATGCAATTAGTGCATCGATGCATG
Found at i:789665 original size:17 final size:17
Alignment explanation
Indices: 789615--789671 Score: 70
Period size: 17 Copynumber: 3.6 Consensus size: 17
789605 AAAATAGAAA
789615 CATCGAATGCAATTAGTG
1 CATCG-ATGCAATTAGTG
789633 CATCGATGC----A-TG
1 CATCGATGCAATTAGTG
789645 CATCGATGCAATTAGTG
1 CATCGATGCAATTAGTG
789662 CATCGATGCA
1 CATCGATGCA
789672 TAAGGCATGC
Statistics
Matches: 34, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
12 11 0.32
13 1 0.03
16 1 0.03
17 16 0.47
18 5 0.15
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (17 bp):
CATCGATGCAATTAGTG
Found at i:789684 original size:19 final size:18
Alignment explanation
Indices: 789640--789691 Score: 63
Period size: 19 Copynumber: 2.9 Consensus size: 18
789630 GTGCATCGAT
*
789640 GCATGCATCGATGCAATTA
1 GCATGCATCGATGC-ATAA
789659 G--TGCATCGATGCATAA
1 GCATGCATCGATGCATAA
789675 GGCATGCATCGATGCAT
1 -GCATGCATCGATGCAT
789692 CCCAGTAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
16 3 0.10
17 12 0.41
19 14 0.48
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (18 bp):
GCATGCATCGATGCATAA
Found at i:791370 original size:21 final size:21
Alignment explanation
Indices: 791345--791411 Score: 134
Period size: 21 Copynumber: 3.2 Consensus size: 21
791335 GTATATGATT
791345 CTTAAGGAATGATATGTGGTC
1 CTTAAGGAATGATATGTGGTC
791366 CTTAAGGAATGATATGTGGTC
1 CTTAAGGAATGATATGTGGTC
791387 CTTAAGGAATGATATGTGGTC
1 CTTAAGGAATGATATGTGGTC
791408 CTTA
1 CTTA
791412 TGGACATTAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.28, C:0.10, G:0.27, T:0.34
Consensus pattern (21 bp):
CTTAAGGAATGATATGTGGTC
Found at i:791470 original size:22 final size:22
Alignment explanation
Indices: 791428--791470 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
791418 TTATTATATG
**
791428 GCACTACGGTGCAATTCTACGT
1 GCACTACGGTGCAATGATACGT
*
791450 GCACTTCGGTGCAATGATACG
1 GCACTACGGTGCAATGATACG
791471 AGCTGTGGTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.26
Consensus pattern (22 bp):
GCACTACGGTGCAATGATACGT
Found at i:792630 original size:23 final size:24
Alignment explanation
Indices: 792576--792628 Score: 61
Period size: 28 Copynumber: 2.0 Consensus size: 24
792566 TTAGGCTAAC
792576 TTGGGAAGGTAATGTGTTTCAGGTTAAT
1 TTGGGAAGGTAATGTGTTTCAGG----T
*
792604 TTGGGTAGGTAATGTGTTTCAGGT
1 TTGGGAAGGTAATGTGTTTCAGGT
792628 T
1 T
792629 GGCTTCTTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 2 0.08
28 22 0.92
ACGTcount: A:0.21, C:0.04, G:0.34, T:0.42
Consensus pattern (24 bp):
TTGGGAAGGTAATGTGTTTCAGGT
Found at i:793701 original size:16 final size:17
Alignment explanation
Indices: 793682--793722 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
793672 CGATCCAAAA
793682 TTTCGGATATCCGA-AT
1 TTTCGGATATCCGATAT
*
793698 TTTCAGG-TATCCGATTT
1 TTTC-GGATATCCGATAT
793715 TTTCGGAT
1 TTTCGGAT
793723 CGGATACGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.44
Consensus pattern (17 bp):
TTTCGGATATCCGATAT
Found at i:794346 original size:4 final size:4
Alignment explanation
Indices: 794337--794384 Score: 55
Period size: 4 Copynumber: 12.2 Consensus size: 4
794327 TTGGATATGT
* *
794337 TTTC TTTC -TTC TTTC TTTA TTT- ATTC TTTC TATTC TTTC TTTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC T-TTC TTTC TTTC TTTC
794384 T
1 T
794385 GTGTGTTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
3 5 0.13
4 29 0.76
5 4 0.11
ACGTcount: A:0.06, C:0.21, G:0.00, T:0.73
Consensus pattern (4 bp):
TTTC
Found at i:798013 original size:16 final size:16
Alignment explanation
Indices: 797994--798030 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
797984 TCATTTATCA
*
797994 TTTATTAATTTTAAGT
1 TTTATTAATATTAAGT
*
798010 TTTATTAATATTAATT
1 TTTATTAATATTAAGT
798026 TTTAT
1 TTTAT
798031 ATTAGAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (16 bp):
TTTATTAATATTAAGT
Found at i:801852 original size:182 final size:182
Alignment explanation
Indices: 801554--802211 Score: 883
Period size: 182 Copynumber: 3.6 Consensus size: 182
801544 TACAAATGAA
* * * * * * *
801554 AAATATATCGATCCATAGCAATATAACATGTAAAAATATAATAAAACAGGTGTC-ATTATGATAA
1 AAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACAGGTCTCGA-AATGATAA
** * **
801618 AACCGGTAAACCGCTACTGGATATATTGAAAGTGTCGAT-CAATTAATATAAGTATCGACACTTT
65 AACCGGTAAAAAGATACCAGATATATTGAAAGTGTCGATAC-ATTAATATAAGTATCGACACTTT
*
801682 TGTAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATAC
129 CGTAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATAC
* * *
801736 AAATGTATCAATCCATAACAATATAACATGTAATAATATGACAAAACAGGTCTCGAAATGATAAA
1 AAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACAGGTCTCGAAATGATAAA
* *
801801 ATCGGTAAAAAGATACCAGATATATTGAAAGTGTCGATACATTAGTATAAGTATCGACACTTTCG
66 ACCGGTAAAAAGATACCAGATATATTGAAAGTGTCGATACATTAATATAAGTATCGACACTTTCG
*
801866 TAATTTAAAAGAGAAGAAGTAATAGCGCCTAAAAAGTGTCGATACTTTATAC
131 TAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATAC
* * *
801918 AAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAATAGGTCTCGAAATGATAAA
1 AAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACAGGTCTCGAAATGATAAA
* * * *
801983 ACCGGTAAAAAGATA-CTGAATATATTAAAAGTGTCGATAAATTAATATAAGTATCGATACTTTC
66 ACCGGTAAAAAGATACCAG-ATATATTGAAAGTGTCGATACATTAATATAAGTATCGACACTTTC
*
802047 GTAATTTAAAAGAGAAGAAATTATAGCGCCTAAAAAGTGTCGATACTTTATGA-
130 GTAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTAT-AC
* * * * *
802100 AAACGTATCGATCCATAACAATATAATAGGTAAAAATATGACAAAACCGGTATCGAAATGACAAA
1 AAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACAGGTCTCGAAATGATAAA
* ** * * * * * *
802165 ACCAGTAAAGCGCTACCGGTTATGTTGAAAGTGTCGGTACTTTAATA
66 ACCGGTAAAAAGATACCAGATATATTGAAAGTGTCGATACATTAATA
802212 AGTACGCGTA
Statistics
Matches: 423, Mismatches: 48, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
181 2 0.00
182 416 0.98
183 5 0.01
ACGTcount: A:0.44, C:0.13, G:0.16, T:0.27
Consensus pattern (182 bp):
AAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACAGGTCTCGAAATGATAAA
ACCGGTAAAAAGATACCAGATATATTGAAAGTGTCGATACATTAATATAAGTATCGACACTTTCG
TAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATAC
Found at i:804104 original size:22 final size:22
Alignment explanation
Indices: 804053--804108 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 22
804043 ATATTTTTTG
*
804053 TTTTTTTATATAAAATGATGGTA
1 TTTTATTATATAAAATGAT-GTA
*
804076 TAGTTATTATATAAAATGAT-TAA
1 T-TTTATTATATAAAATGATGT-A
804099 TTTTATTATA
1 TTTTATTATA
804109 AATGCAGGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
22 9 0.32
23 3 0.11
24 16 0.57
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (22 bp):
TTTTATTATATAAAATGATGTA
Found at i:804804 original size:18 final size:18
Alignment explanation
Indices: 804781--804819 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
804771 GAGAAAATTT
* *
804781 GAAGAAGTAAAGATGGAG
1 GAAGAAGAAAAGATAGAG
804799 GAAGAAGAAAAGATAGAG
1 GAAGAAGAAAAGATAGAG
804817 GAA
1 GAA
804820 ATGAAGAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.36, T:0.08
Consensus pattern (18 bp):
GAAGAAGAAAAGATAGAG
Found at i:805145 original size:17 final size:17
Alignment explanation
Indices: 805123--805156 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
805113 TAAATATTTT
805123 ATGAAAAGATATTAATC
1 ATGAAAAGATATTAATC
805140 ATGAAAAGATATTAATC
1 ATGAAAAGATATTAATC
805157 CTAATGATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.06, G:0.12, T:0.29
Consensus pattern (17 bp):
ATGAAAAGATATTAATC
Found at i:806331 original size:19 final size:19
Alignment explanation
Indices: 806307--806356 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
806297 AAATATAGGG
806307 TTAATTTTGTATAAGATTT
1 TTAATTTTGTATAAGATTT
*
806326 TTAATTTTGTATACGATTT
1 TTAATTTTGTATAAGATTT
*
806345 ATAATTTTGTAT
1 TTAATTTTGTAT
806357 GTGAATGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.30, C:0.02, G:0.10, T:0.58
Consensus pattern (19 bp):
TTAATTTTGTATAAGATTT
Found at i:807139 original size:198 final size:198
Alignment explanation
Indices: 806632--807446 Score: 1314
Period size: 198 Copynumber: 4.1 Consensus size: 198
806622 TTGTCCAAGT
**
806632 ATACTTTGTGTCCAGAATGATTTCCTTACCAA-GTGCATGGA-AATGTGTCGATACATTTAT-AA
1 ATACTTTGTGTCCAGAATGATTTCCTTACCAAGGT-CA-CCATAATGTGTCGATACATTTATAAA
* * *
806694 ACGTATCGATCCCAAAAACATCGAGACCCATAATTATAATATAATAGGTAAATTATCAATCTAAC
64 AAGTATCGATCCAAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATCTAAC
* * *
806759 CGGTCTAAATACACCAGTTTATGAGAAAACAAGTATACATAAAGTATCGACACTTGTTT-AATTT
129 CGGTCTAAATACACCGGTTTATGAGAAAACAAGTGTACATGAAGTATCGACACTT-TTTGAATTT
806823 GTGTCG
193 GTGTCG
* *
806829 ATCCCATACTTTGTGTCCACAATGATTTCCTTACCAAGGTCACCATAATGTGTCGATACATCTAT
1 -----ATACTTTGTGTCCAGAATGATTTCCTTACCAAGGTCACCATAATGTGTCGATACATTTAT
806894 AAAAAGTATCGATCCAAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATCT
61 AAAAAGTATCGATCCAAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATCT
* * *
806959 AATCGGTCTAATTACACCGGTTTATGAGAAAACATGTGTACATGAAGTATCGACACTTTTTGAAT
126 AACCGGTCTAAATACACCGGTTTATGAGAAAACAAGTGTACATGAAGTATCGACACTTTTTGAAT
807024 TTGTGTCG
191 TTGTGTCG
*
807032 ATACTTTGTGTCCAGAATGATTTCCTTACCAAGGTCACCATAATGTGTCTATACATTTATAAAAA
1 ATACTTTGTGTCCAGAATGATTTCCTTACCAAGGTCACCATAATGTGTCGATACATTTATAAAAA
807097 GTATCGATCCAAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATCTAACCG
66 GTATCGATCCAAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATCTAACCG
* * * *
807162 GTCTAATTACACCGGTTTATGAGAAAACAGGTGTACATGAAGTATCAACACTTTTTTAATTTGTG
131 GTCTAAATACACCGGTTTATGAGAAAACAAGTGTACATGAAGTATCGACACTTTTTGAATTTGTG
807227 TCG
196 TCG
* *
807230 ATACTTTGTGTCTAGAATGATTTCCTTACCAAGGTCACCATAAGGTGTCGATACATTTATAAAAA
1 ATACTTTGTGTCCAGAATGATTTCCTTACCAAGGTCACCATAATGTGTCGATACATTTATAAAAA
*
807295 GTATCGATCCAAAAAACATCGAGACCCATAATTTTAATGTAATAGGTAAATTATCAATCTAACCG
66 GTATCGATCCAAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATCTAACCG
*
807360 GTCTAAATACACCGGTTTATGAGAAAACAAGTGTACATGAAGTATCGACACTTTTTGAATTTGTA
131 GTCTAAATACACCGGTTTATGAGAAAACAAGTGTACATGAAGTATCGACACTTTTTGAATTTGTG
807425 TCG
196 TCG
* *
807428 ATACTTTTTGTCCATAATG
1 ATACTTTGTGTCCAGAATG
807447 TAAATGGTCA
Statistics
Matches: 577, Mismatches: 32, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
198 396 0.69
201 1 0.00
202 54 0.09
203 126 0.22
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (198 bp):
ATACTTTGTGTCCAGAATGATTTCCTTACCAAGGTCACCATAATGTGTCGATACATTTATAAAAA
GTATCGATCCAAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTATCAATCTAACCG
GTCTAAATACACCGGTTTATGAGAAAACAAGTGTACATGAAGTATCGACACTTTTTGAATTTGTG
TCG
Found at i:808019 original size:19 final size:17
Alignment explanation
Indices: 807987--808023 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
807977 AAATATAAAG
807987 AAAAAAAATGAATAGAGA
1 AAAAAAAATGAATA-AGA
808005 AAAAAAAATGAAATAAGA
1 AAAAAAAATG-AATAAGA
808023 A
1 A
808024 TATGAACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.11
Consensus pattern (17 bp):
AAAAAAAATGAATAAGA
Found at i:809962 original size:105 final size:105
Alignment explanation
Indices: 809780--810442 Score: 1231
Period size: 105 Copynumber: 6.3 Consensus size: 105
809770 TGTTTCGAGG
** * * *
809780 CAATATCCTTCGTTGTGAAGCAGCAATTGGCTCTGAAATTAAGAAATGTTCGTTGACAACCAGCG
1 CAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCG
809845 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
66 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
* * *
809885 CAATATCCTTCGTTGTGAAGTTGAAATCGGCTCTGAAATTGAGAAATGTTCGTTGACAACTAGCG
1 CAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCG
809950 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
66 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
809990 CAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCG
1 CAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCG
810055 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
66 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
810095 CAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCG
1 CAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCG
*
810160 GTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTC
66 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
810200 CAATATCCTTCGTTGTGAAGTTGAAA-TGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCG
1 CAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCG
810264 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
66 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
810304 CAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCG
1 CAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCG
810369 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
66 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
810409 CAATATCCTTCGTTGTGAAGTTGAAA-TGGCTCTG
1 CAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
810443 GGTAAAACCT
Statistics
Matches: 546, Mismatches: 11, Indels: 3
0.98 0.02 0.01
Matches are distributed among these distances:
104 111 0.20
105 435 0.80
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (105 bp):
CAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCG
GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
Found at i:817846 original size:21 final size:22
Alignment explanation
Indices: 817821--817869 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 22
817811 TCTTTATTTG
*
817821 ATCTTCTAATATTTTTATCTTT
1 ATCTTCTAATATTTTTAGCTTT
* *
817843 -TCTTC-CATTTTTTTAGCTTT
1 ATCTTCTAATATTTTTAGCTTT
817863 ATCTTCT
1 ATCTTCT
817870 TCGTCAAAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.16, C:0.18, G:0.02, T:0.63
Consensus pattern (22 bp):
ATCTTCTAATATTTTTAGCTTT
Found at i:821775 original size:19 final size:17
Alignment explanation
Indices: 821743--821779 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
821733 AAATATAAAG
821743 AAAAAAAATGAATAGAGA
1 AAAAAAAATGAATA-AGA
821761 AAAAAAAATGAAATAAGA
1 AAAAAAAATG-AATAAGA
821779 A
1 A
821780 TATGAACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.11
Consensus pattern (17 bp):
AAAAAAAATGAATAAGA
Found at i:823594 original size:15 final size:15
Alignment explanation
Indices: 823545--823597 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
823535 CAGAATCGGG
823545 GCTCTTCTCAACCCA
1 GCTCTTCTCAACCCA
** *
823560 TATCTTTTCAACCCA
1 GCTCTTCTCAACCCA
*
823575 CCTCTTCTCAACCCA
1 GCTCTTCTCAACCCA
823590 GCTCTTCT
1 GCTCTTCT
823598 GAGAAAATCA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.19, C:0.43, G:0.04, T:0.34
Consensus pattern (15 bp):
GCTCTTCTCAACCCA
Found at i:826368 original size:22 final size:21
Alignment explanation
Indices: 826343--826388 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
826333 TAAAAAAAGG
*
826343 TATACATAATGTATCGATACTT
1 TATACAT-ATGTATCGACACTT
* *
826365 TATACATTTGTGTCGACACTT
1 TATACATATGTATCGACACTT
826386 TAT
1 TAT
826389 GTCCATAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.43
Consensus pattern (21 bp):
TATACATATGTATCGACACTT
Found at i:826469 original size:197 final size:200
Alignment explanation
Indices: 826006--826527 Score: 680
Period size: 197 Copynumber: 2.6 Consensus size: 200
825996 TATTTTCCAA
* * *
826006 CCAAAGCAAGTTCACAAATAAA-TGTCGATACATTTATATCAAGTGTCGATCCCAAAAACATCAA
1 CCAAACCAAGTTCACAAA-AAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGA
* * *
826070 AACCCGTAACTATAATGTAATAGGTCACTTTACAATATAACCGGTTTAAATTTACCGGTTTTCTG
65 AACCCGTAATTATAATGTAATAGGTCACTTTACAATGTAACCGGTTTAAATTTACCGGTTATCTG
* * * *
826135 AGAAAATAGGTCTACAATATATATCGACACTTTATTCATTTGTGTCGATACATGTTGTCCAGAAT
130 AGAAAAAAGGTATACAATATATATCGACACTTTATACATTTGTGTCGACACATGTTGTCCAGAAT
**
826200 GTATTT
195 AAATTT
* * * *
826206 CTAAACCAAGTGCACGAACAAAGTGTCGATACATTTATACCAAGTGTCGATCCCAAAAACATCGA
1 CCAAACCAAGTTCAC-AAAAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGA
* * * * * * *
826271 AACACATAATTATAATGTAATAGGTAACATAACAATGTAACCGGTCTAAATATACCGGTTAT-T-
65 AACCCGTAATTATAATGTAATAGGTCACTTTACAATGTAACCGGTTTAAATTTACCGGTTATCTG
* * * *
826334 A-AAAAAAGGTATAC-ATAATGTATCGATACTTTATACATTTGTGTCGACAC-TTTATGTCCATA
130 AGAAAAAAGGTATACAAT-ATATATCGACACTTTATACATTTGTGTCGACACATGT-TGTCCAGA
826396 ATAAATTTT
193 ATAAA-TTT
* * *
826405 CCAAA-CAAGTTCACAAAAAAGTGTCGATACATTTAGAAAAAGTGTCGATCCTAAAAACATCGAA
1 CCAAACCAAGTTCACAAAAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAA
826469 ACCCGTAATTATAATGTAATAGGTCACTTTACAATGTAACCGGTTTAAATTTACCGGTT
66 ACCCGTAATTATAATGTAATAGGTCACTTTACAATGTAACCGGTTTAAATTTACCGGTT
826528 TAAATTTACC
Statistics
Matches: 277, Mismatches: 40, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
197 101 0.36
198 58 0.21
199 8 0.03
200 16 0.06
201 94 0.34
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.30
Consensus pattern (200 bp):
CCAAACCAAGTTCACAAAAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAA
ACCCGTAATTATAATGTAATAGGTCACTTTACAATGTAACCGGTTTAAATTTACCGGTTATCTGA
GAAAAAAGGTATACAATATATATCGACACTTTATACATTTGTGTCGACACATGTTGTCCAGAATA
AATTT
Found at i:826526 original size:14 final size:14
Alignment explanation
Indices: 826507--826542 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
826497 TTACAATGTA
826507 ACCGGTTTAAATTT
1 ACCGGTTTAAATTT
826521 ACCGGTTTAAATTT
1 ACCGGTTTAAATTT
826535 ACCGGTTT
1 ACCGGTTT
826543 TATGAGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.42
Consensus pattern (14 bp):
ACCGGTTTAAATTT
Found at i:830255 original size:198 final size:196
Alignment explanation
Indices: 829742--830264 Score: 608
Period size: 198 Copynumber: 2.6 Consensus size: 196
829732 ATTAGATTTT
** *
829742 GTGTCGATACATTTATAACAAGTATCGATCCC-AAAATCAAAGAGACCGATAATTATAATGTAAT
1 GTGTCGATACATTTA-AA-AAGTATCGATCCCGAAAA-CATCGAAACCGATAATTATAATGTAAT
* * *
829806 AGGTAAATTTCCAATGTAACCGG-TAGAAATATACCGGGTTCATGAGAGAATAGGTCAACATAAA
63 AGGTAAATTTACAATGTAACCGGTTA-AAATATACC-GGTTAATGAGAAAATAGGTCAACATAAA
* * * * * *
829870 GTATCGACACTTTTTTAATTTGTGTCGATACATTTTTTCAAAATGAATGGCAAACGAGGTGTACG
126 GTATCGACACTCTTTAAATATGTGTCGATACATTTTTTCAAAATGAAAGACAAACGAGGTGCACG
829935 CATAAA
191 CATAAA
* * *
829941 GTGTCGATACATTTGTAAAAAGTATCGATCCTCG-AAACATCGAAATCGATAATTATTATGTAAC
1 GTGTCGATACA-TT-TAAAAAGTATCGATCC-CGAAAACATCGAAACCGATAATTATAATGTAAT
* * * * *
830005 AGGTAAATTTACAATGTAACCGGTTAAAATATACCGGTTAATTAGCAAATAGGTCTACATTATGT
63 AGGTAAATTTACAATGTAACCGGTTAAAATATACCGGTTAATGAGAAAATAGGTCAACATAAAGT
* *
830070 ATCGACACTCTTTAAATATGTGTCGATA-TTTTTTTCCAAAAT-AAAGCACAAACGAGTTGCACG
128 ATCGACACTCTTTAAATATGTGTCGATACATTTTTT-CAAAATGAAAG-ACAAACGAGGTGCACG
830133 CATAAA
191 CATAAA
* *
830139 GTGTCGATACATTTAAAATTGTATCGATCCCGAAAACATCGAAACCGAT-ATACATAATGTAATA
1 GTGTCGATACATTTAAAA-AGTATCGATCCCGAAAACATCGAAACCGATAAT-TATAATGTAATA
* * * * * * *
830203 GGTCAATTTATAATGTAACCAGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCAATATAA
64 GGTAAATTTACAATGTAACCGGTTAAAATATACCGG-TTAATGAGAAAATAGGTCAACATAA
830265 GCGTTACCTA
Statistics
Matches: 275, Mismatches: 38, Indels: 23
0.82 0.11 0.07
Matches are distributed among these distances:
196 9 0.03
197 76 0.28
198 103 0.37
199 75 0.27
200 10 0.04
201 2 0.01
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (196 bp):
GTGTCGATACATTTAAAAAGTATCGATCCCGAAAACATCGAAACCGATAATTATAATGTAATAGG
TAAATTTACAATGTAACCGGTTAAAATATACCGGTTAATGAGAAAATAGGTCAACATAAAGTATC
GACACTCTTTAAATATGTGTCGATACATTTTTTCAAAATGAAAGACAAACGAGGTGCACGCATAA
A
Found at i:830393 original size:23 final size:23
Alignment explanation
Indices: 830343--830387 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
830333 TGCCTATTTT
*
830343 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAGCGCTACCTAATAC
*
830366 ATTATATAAGCGCTACTTAATA
1 ATTATATAAGCGCTACCTAATA
830388 TGTTATTGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.36
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:830405 original size:87 final size:87
Alignment explanation
Indices: 830259--830421 Score: 272
Period size: 87 Copynumber: 1.9 Consensus size: 87
830249 AAATAGGTCA
* * *
830259 ATATAAGCGTTACCTATTACATTATATAAGCGCTACCTGATTTGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
830324 CCGGTTAAATGCCTATTTTATT
66 CCGGTTAAATGCCTATTTTATT
* *
830346 ATATAAGCGCTACCTATTACATTATATAAGCGCTACTTAATATGTTATTGTGCTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
*
830411 CTGGTTAAATG
66 CCGGTTAAATG
830422 ATATAACATA
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 70 1.00
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.42
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
CCGGTTAAATGCCTATTTTATT
Found at i:831936 original size:3 final size:3
Alignment explanation
Indices: 831911--831968 Score: 53
Period size: 3 Copynumber: 19.0 Consensus size: 3
831901 CTATTTAATT
* * * *
831911 TTA TTT TTA TTA TAA TTA GTA TTA TTA TTTA TCA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
* *
831957 TTC TGA TTA TTA
1 TTA TTA TTA TTA
831969 CATTTTACAT
Statistics
Matches: 42, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
3 39 0.93
4 3 0.07
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:831947 original size:19 final size:19
Alignment explanation
Indices: 831920--831958 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
831910 TTTATTTTTA
831920 TTATAATTAGTATTATTAT
1 TTATAATTAGTATTATTAT
* *
831939 TTATCATTATTATTATTAT
1 TTATAATTAGTATTATTAT
831958 T
1 T
831959 CTGATTATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (19 bp):
TTATAATTAGTATTATTAT
Found at i:834006 original size:10 final size:10
Alignment explanation
Indices: 833991--834027 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
833981 TATTTGTGTA
833991 TATATATTAT
1 TATATATTAT
834001 TATATA-TAT
1 TATATATTAT
834010 GTAT-TATTAT
1 -TATATATTAT
834020 TATATATT
1 TATATATT
834028 TATTTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
9 8 0.33
10 16 0.67
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (10 bp):
TATATATTAT
Found at i:834042 original size:23 final size:23
Alignment explanation
Indices: 834011--834071 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
834001 TATATATATG
* *
834011 TATTATTATTATATAT-TTATTTT
1 TATTTTTATTATAT-TGTTAATTT
834034 TATTTTTATT-TATTGTTAATTT
1 TATTTTTATTATATTGTTAATTT
*
834056 TATTCTTTACTATATT
1 TATT-TTTATTATATT
834072 ACTATCCGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
21 1 0.03
22 13 0.41
23 14 0.44
24 4 0.12
ACGTcount: A:0.26, C:0.03, G:0.02, T:0.69
Consensus pattern (23 bp):
TATTTTTATTATATTGTTAATTT
Found at i:834045 original size:16 final size:16
Alignment explanation
Indices: 834024--834059 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
834014 TATTATTATA
* *
834024 TATTTATTTTTATTTT
1 TATTTATTGTTAATTT
834040 TATTTATTGTTAATTT
1 TATTTATTGTTAATTT
834056 TATT
1 TATT
834060 CTTTACTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (16 bp):
TATTTATTGTTAATTT
Found at i:834727 original size:11 final size:11
Alignment explanation
Indices: 834711--834735 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
834701 CCCATTCGAT
834711 TTAATTCCAAA
1 TTAATTCCAAA
834722 TTAATTCCAAA
1 TTAATTCCAAA
834733 TTA
1 TTA
834736 CCAAAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.16, G:0.00, T:0.40
Consensus pattern (11 bp):
TTAATTCCAAA
Found at i:837051 original size:20 final size:20
Alignment explanation
Indices: 837026--837066 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
837016 ACATTACTTC
837026 TCTTTTCAACCTTGAAACAT
1 TCTTTTCAACCTTGAAACAT
*
837046 TCTTTTCGACCTTGAAACAT
1 TCTTTTCAACCTTGAAACAT
837066 T
1 T
837067 GCATTTATCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.27, C:0.24, G:0.07, T:0.41
Consensus pattern (20 bp):
TCTTTTCAACCTTGAAACAT
Found at i:837686 original size:22 final size:22
Alignment explanation
Indices: 837661--837707 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
837651 CAATCAAAAC
837661 AAAGAGAAAATAAGCAAAG-GAA
1 AAAGAGAAAA-AAGCAAAGAGAA
* *
837683 AAAGAGCAAAGAGCAAAGAGAA
1 AAAGAGAAAAAAGCAAAGAGAA
837705 AAA
1 AAA
837708 AAACAAAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.68, C:0.06, G:0.23, T:0.02
Consensus pattern (22 bp):
AAAGAGAAAAAAGCAAAGAGAA
Found at i:837714 original size:22 final size:21
Alignment explanation
Indices: 837673--837716 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
837663 AGAGAAAATA
* *
837673 AGCAAAGGAAAAAGAGCAAAG
1 AGCAAAGGAAAAAAAACAAAG
837694 AGCAAAGAGAAAAAAAACAAAG
1 AGCAAAG-GAAAAAAAACAAAG
837716 A
1 A
837717 AAGAAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.68, C:0.09, G:0.23, T:0.00
Consensus pattern (21 bp):
AGCAAAGGAAAAAAAACAAAG
Found at i:837725 original size:16 final size:16
Alignment explanation
Indices: 837704--837734 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
837694 AGCAAAGAGA
837704 AAAAAAACAAAGAAAG
1 AAAAAAACAAAGAAAG
837720 AAAAAAACAAAGAAA
1 AAAAAAACAAAGAAA
837735 ATAAGACAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.84, C:0.06, G:0.10, T:0.00
Consensus pattern (16 bp):
AAAAAAACAAAGAAAG
Found at i:838807 original size:32 final size:33
Alignment explanation
Indices: 838766--838835 Score: 99
Period size: 32 Copynumber: 2.2 Consensus size: 33
838756 CTAAAGCAAG
*
838766 AAACATTGAATGTTGG-GGCATAT-TTGGAGATT
1 AAACATTGAATATTGGAGGCATATCTTGGA-ATT
838798 AAACATTGAATATTGGAGGCATATCTTGGAATT
1 AAACATTGAATATTGGAGGCATATCTTGGAATT
*
838831 CAACA
1 AAACA
838836 AATATCTCTC
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
32 15 0.44
33 14 0.41
34 5 0.15
ACGTcount: A:0.36, C:0.10, G:0.23, T:0.31
Consensus pattern (33 bp):
AAACATTGAATATTGGAGGCATATCTTGGAATT
Found at i:840136 original size:36 final size:36
Alignment explanation
Indices: 840096--840176 Score: 94
Period size: 35 Copynumber: 2.3 Consensus size: 36
840086 TGTCTCTTTG
** *
840096 GAAACAAATTTTACCATCTTTGAGTAT-GTTTCCCTT
1 GAAACAAATTCAAACATCTTTGAG-ATCGTTTCCCTT
*
840132 GAAACAAA-ACAAACATCTTTGAGATCGTTTCCCTT
1 GAAACAAATTCAAACATCTTTGAGATCGTTTCCCTT
*
840167 GAAACGAATT
1 GAAACAAATT
840177 ATGTCTCATT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
34 2 0.05
35 27 0.73
36 8 0.22
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (36 bp):
GAAACAAATTCAAACATCTTTGAGATCGTTTCCCTT
Found at i:840546 original size:28 final size:28
Alignment explanation
Indices: 840514--840595 Score: 103
Period size: 28 Copynumber: 2.9 Consensus size: 28
840504 AAAACACATC
*
840514 ATCTTTGAGTTTGTTTTTCTTGAAACAA
1 ATCTTTGAGTCTGTTTTTCTTGAAACAA
**
840542 ATCTTTGAGTCTGTTTCTT-TTGAAACTT
1 ATCTTTGAGTCTGTTT-TTCTTGAAACAA
* *
840570 ATCTTTGAGTCGGTTTCTCTTGAAAC
1 ATCTTTGAGTCTGTTTTTCTTGAAAC
840596 CAGTATCCCT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
27 1 0.02
28 44 0.94
29 2 0.04
ACGTcount: A:0.21, C:0.15, G:0.16, T:0.49
Consensus pattern (28 bp):
ATCTTTGAGTCTGTTTTTCTTGAAACAA
Found at i:840841 original size:133 final size:134
Alignment explanation
Indices: 840603--840961 Score: 499
Period size: 133 Copynumber: 2.7 Consensus size: 134
840593 AACCAGTATC
* * * * *
840603 CCTAAAGATGGCCGGAACACTTCATCACGTATGAGCCGTGTCATTCCCCGACCAGACCTCCTCAT
1 CCTAAAGATGGCCAGAACTCTTCATCAAGTATGAGTCGTGTCATTCCCTGACCAGACCTCCTCAT
** * *
840668 CATATAGGAGCTGTGTCACCCTTAGATAACCAGCCGTCCTCATCGCGTAGGAACCGAGTTATCA-
66 CACGTAGGAGCTGTGTCACCCTTAGATAACCAGCCATCCTCATCACGTAGGAACCGAGTTATCAC
840732 CCTT
131 CCTT
* * * *
840736 CCTAAATATGACCAGAACTCTTCATCAAGTATGAGTCGTGTCATTCACTGACCAGACCTCCTTAT
1 CCTAAAGATGGCCAGAACTCTTCATCAAGTATGAGTCGTGTCATTCCCTGACCAGACCTCCTCAT
* *
840801 CACGTAGGAG-TCGTGTCACCCCTAGATAACCAGCCATCCTCATCACGTAGGAACTGAGTTATCA
66 CACGTAGGAGCT-GTGTCACCCTTAGATAACCAGCCATCCTCATCACGTAGGAACCGAGTTATCA
840865 CCCTT
130 CCCTT
* * * *
840870 TCTAAAGATGGCCAAGAACTCTTCATCACA-TATGAGTCGTGTCATCCCCTGACCAAATCTCCTC
1 CCTAAAGATGGCC-AGAACTCTTCATCA-AGTATGAGTCGTGTCATTCCCTGACCAGACCTCCTC
840934 ATCACGTAGGAGCTGTGTCACCCTTAGA
64 ATCACGTAGGAGCTGTGTCACCCTTAGA
840962 CGACCGGACC
Statistics
Matches: 197, Mismatches: 24, Indels: 8
0.86 0.10 0.03
Matches are distributed among these distances:
132 1 0.01
133 112 0.57
134 14 0.07
135 68 0.35
136 2 0.01
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.25
Consensus pattern (134 bp):
CCTAAAGATGGCCAGAACTCTTCATCAAGTATGAGTCGTGTCATTCCCTGACCAGACCTCCTCAT
CACGTAGGAGCTGTGTCACCCTTAGATAACCAGCCATCCTCATCACGTAGGAACCGAGTTATCAC
CCTT
Found at i:841176 original size:3 final size:3
Alignment explanation
Indices: 841162--841213 Score: 59
Period size: 3 Copynumber: 17.0 Consensus size: 3
841152 AATTTGATTT
* * * *
841162 TTA TTA TAA TTA TTA TTA TTA TTTA TCA TTA TTA TTA TTA TTC TGA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
841208 TTA TTA
1 TTA TTA
841214 CATTTTACAT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
3 37 0.93
4 3 0.08
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:841187 original size:19 final size:19
Alignment explanation
Indices: 841165--841203 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
841155 TTGATTTTTA
841165 TTATAATTATTATTATTAT
1 TTATAATTATTATTATTAT
*
841184 TTATCATTATTATTATTAT
1 TTATAATTATTATTATTAT
841203 T
1 T
841204 CTGATTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (19 bp):
TTATAATTATTATTATTAT
Found at i:844088 original size:10 final size:10
Alignment explanation
Indices: 844073--844109 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
844063 TATTTGTGTA
844073 TATATATTAT
1 TATATATTAT
844083 TATATA-TAT
1 TATATATTAT
844092 GTAT-TATTAT
1 -TATATATTAT
844102 TATATATT
1 TATATATT
844110 TATATTTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
9 8 0.33
10 16 0.67
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (10 bp):
TATATATTAT
Found at i:844096 original size:16 final size:16
Alignment explanation
Indices: 844071--844125 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 16
844061 ATTATTTGTG
844071 TATATATATTATTATA
1 TATATATATTATTATA
*
844087 TATATGTATTATTAT-
1 TATATATATTATTATA
*
844102 TATATAT-TTA-TATT
1 TATATATATTATTATA
*
844116 TATATTTATT
1 TATATATATT
844126 TATTGTTAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
13 3 0.09
14 9 0.26
15 8 0.24
16 14 0.41
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (16 bp):
TATATATATTATTATA
Found at i:844121 original size:19 final size:19
Alignment explanation
Indices: 844071--844115 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
844061 ATTATTTGTG
844071 TATATA-TATTATTATATA
1 TATATATTATTATTATATA
*
844089 TATGTATTATTATTATATA
1 TATATATTATTATTATATA
*
844108 TTTATATT
1 TATATATT
844116 TATATTTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (19 bp):
TATATATTATTATTATATA
Found at i:850812 original size:3 final size:3
Alignment explanation
Indices: 850804--850968 Score: 276
Period size: 3 Copynumber: 55.0 Consensus size: 3
850794 TTTTTTACCC
850804 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
850852 TTA TTA TTA TTA TCA TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
850900 TTA TTA TCA TTA TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
850948 TCA TCA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA
850969 AATATATTAA
Statistics
Matches: 152, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 152 1.00
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:852296 original size:18 final size:19
Alignment explanation
Indices: 852262--852299 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
852252 TAATTTAGTC
852262 ATTTATTTTATATGTTTTT
1 ATTTATTTTATATGTTTTT
852281 ATTTATTTTA-ATGTTTTT
1 ATTTATTTTATATGTTTTT
852299 A
1 A
852300 AAATATATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (19 bp):
ATTTATTTTATATGTTTTT
Found at i:863772 original size:16 final size:16
Alignment explanation
Indices: 863751--863825 Score: 87
Period size: 17 Copynumber: 4.4 Consensus size: 16
863741 ATTATGCTTG
*
863751 AAGAAAAAAGAAAGAA
1 AAGAAAAAAGAAAAAA
863767 AAGAAAGAAAAGGAAAAAA
1 AAG-AA-AAAA-GAAAAAA
863786 ATAGAAAAAAGAAAAAA
1 A-AGAAAAAAGAAAAAA
*
863803 GAGAAAAAAGAAGAAAA
1 AAGAAAAAAGAA-AAAA
863820 AAGAAA
1 AAGAAA
863826 GGAGATCAAG
Statistics
Matches: 51, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
16 14 0.27
17 18 0.35
18 8 0.16
19 9 0.18
20 2 0.04
ACGTcount: A:0.80, C:0.00, G:0.19, T:0.01
Consensus pattern (16 bp):
AAGAAAAAAGAAAAAA
Found at i:863792 original size:10 final size:9
Alignment explanation
Indices: 863754--863821 Score: 73
Period size: 9 Copynumber: 7.4 Consensus size: 9
863744 ATGCTTGAAG
863754 AAAAAAGAA
1 AAAAAAGAA
*
863763 AGAAAAGAA
1 AAAAAAGAA
* *
863772 AGAAAAGGA
1 AAAAAAGAA
* *
863781 AAAAAATAG
1 AAAAAAGAA
863790 AAAAAAGAA
1 AAAAAAGAA
*
863799 AAAAGAGAA
1 AAAAAAGAA
863808 AAAAGAAGAA
1 AAAA-AAGAA
863818 AAAA
1 AAAA
863822 GAAAGGAGAT
Statistics
Matches: 48, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
9 40 0.83
10 8 0.17
ACGTcount: A:0.81, C:0.00, G:0.18, T:0.01
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:863793 original size:36 final size:36
Alignment explanation
Indices: 863752--863821 Score: 99
Period size: 36 Copynumber: 1.9 Consensus size: 36
863742 TTATGCTTGA
*
863752 AGAAAAAAGAAAGAAA-AGAAAGAAA-AGGAAAAAAAT
1 AGAAAAAAGAAA-AAAGAGAAA-AAAGAAGAAAAAAAT
863788 AGAAAAAAGAAAAAAGAGAAAAAAGAAGAAAAAA
1 AGAAAAAAGAAAAAAGAGAAAAAAGAAGAAAAAA
863822 GAAAGGAGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
35 6 0.19
36 25 0.81
ACGTcount: A:0.80, C:0.00, G:0.19, T:0.01
Consensus pattern (36 bp):
AGAAAAAAGAAAAAAGAGAAAAAAGAAGAAAAAAAT
Found at i:863794 original size:26 final size:28
Alignment explanation
Indices: 863752--863826 Score: 97
Period size: 26 Copynumber: 2.8 Consensus size: 28
863742 TTATGCTTGA
*
863752 AGAAAAAAGAA-AGAAAAGAAAGAAAAG
1 AGAAAAAAGAAGAAAAAAGAAAGAAAAG
863779 -GAAAAAA-ATAGAAAAAAG-AA-AAAAG
1 AGAAAAAAGA-AGAAAAAAGAAAGAAAAG
863804 AGAAAAAAGAAGAAAAAAGAAAG
1 AGAAAAAAGAAGAAAAAAGAAAG
863827 GAGATCAAGG
Statistics
Matches: 41, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
25 6 0.15
26 26 0.63
27 9 0.22
ACGTcount: A:0.79, C:0.00, G:0.20, T:0.01
Consensus pattern (28 bp):
AGAAAAAAGAAGAAAAAAGAAAGAAAAG
Found at i:864195 original size:18 final size:17
Alignment explanation
Indices: 864154--864199 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
864144 CTATTTCAAG
*
864154 TTCAATTTATTTGAAAT
1 TTCAATTTATTTGAAAA
* *
864171 TTAAATTATTTTTGAAAA
1 TTCAATT-TATTTGAAAA
864189 TTCAATTTATT
1 TTCAATTTATT
864200 CTTTTCTATT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.54
Consensus pattern (17 bp):
TTCAATTTATTTGAAAA
Found at i:864198 original size:19 final size:18
Alignment explanation
Indices: 864154--864199 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
864144 CTATTTCAAG
864154 TTCAATTTA--TTTGAAA
1 TTCAATTTATTTTTGAAA
* *
864170 TTTAAATTATTTTTGAAAA
1 TTCAATTTATTTTTG-AAA
864189 TTCAATTTATT
1 TTCAATTTATT
864200 CTTTTCTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
16 7 0.30
18 4 0.17
19 12 0.52
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.54
Consensus pattern (18 bp):
TTCAATTTATTTTTGAAA
Found at i:865122 original size:83 final size:83
Alignment explanation
Indices: 864983--865273 Score: 555
Period size: 83 Copynumber: 3.5 Consensus size: 83
864973 GTAATATGCT
864983 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAA
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAA
865048 TTTAGAAGATAAATTTGC
66 TTTAGAAGATAAATTTGC
865066 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAA
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAA
*
865131 TTTAGAAGATGAATTTGC
66 TTTAGAAGATAAATTTGC
865149 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAA
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAA
*
865214 TTTACAAGATAAATTTGC
66 TTTAGAAGATAAATTTGC
*
865232 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATATGATCTG
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
865274 ATTCGGTAGG
Statistics
Matches: 204, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
83 204 1.00
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.37
Consensus pattern (83 bp):
CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAA
TTTAGAAGATAAATTTGC
Found at i:866324 original size:116 final size:116
Alignment explanation
Indices: 866015--866582 Score: 931
Period size: 116 Copynumber: 4.9 Consensus size: 116
866005 ATTCAAATCT
* *
866015 ATCATTTGATGGATCATCATTTCCAGAAGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGA
1 ATCATTTGATGGATCAACATTGCCAG--GAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGA
*
866080 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACATTTTT-TCTGAATTC
64 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAAC-TTTTTGTTTGAATTC
* * * *** *
866133 ATCACTGGATGGATTATTTTTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGA
1 ATCATTTGATGGATCAACATTGCC--AGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGA
866198 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTTGTTTGAATTC
64 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTTGTTTGAATTC
*
866251 ATCATTTGATGGATCAACATTGCCAGGAAGAGTTCATAATGAGAAGAATTCGTCATCTGAAGAAG
1 ATCATTTGATGGATCAACATTGCCAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAG
866316 GAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTTGTTTGAATTC
66 GAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTTGTTTGAATTC
* *
866367 ATCATTTGATGGATCAACATTGCCAGGAAGAGTCCATAATGAGAAGAATTCGTCATCTGAAGAAG
1 ATCATTTGATGGATCAACATTGCCAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAG
*
866432 GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTGAATTC
66 GAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTTGTTTGAATTC
866483 ATCATTTGATGGATCAACATTGCCAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAG
1 ATCATTTGATGGATCAACATTGCCAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAG
* * *
866548 GAAGAAGAAGTTTATAATAAGAAGAACTTGTTCAA
66 GAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAA
866583 TAATTCTATC
Statistics
Matches: 427, Mismatches: 20, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
116 301 0.70
117 5 0.01
118 119 0.28
120 2 0.00
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.30
Consensus pattern (116 bp):
ATCATTTGATGGATCAACATTGCCAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAG
GAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTTGTTTGAATTC
Found at i:866911 original size:3 final size:3
Alignment explanation
Indices: 866903--867029 Score: 209
Period size: 3 Copynumber: 42.3 Consensus size: 3
866893 TACCCATATC
*
866903 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATC
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
866951 ATT ATT ATT ATT ATT ATT ATC ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
866999 ATT ATT ATC ATC ATC ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
867030 AATATATTAA
Statistics
Matches: 118, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 118 1.00
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:868428 original size:18 final size:19
Alignment explanation
Indices: 868394--868431 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
868384 TAATTTAGTC
868394 ATTTATTTTATATGTTTTT
1 ATTTATTTTATATGTTTTT
868413 ATTTATTTTA-ATGTTTTT
1 ATTTATTTTATATGTTTTT
868431 A
1 A
868432 AAATATATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (19 bp):
ATTTATTTTATATGTTTTT
Found at i:870490 original size:57 final size:57
Alignment explanation
Indices: 870418--870532 Score: 185
Period size: 57 Copynumber: 2.0 Consensus size: 57
870408 TTGGCCAAGG
*
870418 CTCTAAACAAAGCAACCTTAATGGATACCACTAAATATCCCCCGCCACCGTCAAACA
1 CTCTAAACAAAGCAACCCTAATGGATACCACTAAATATCCCCCGCCACCGTCAAACA
* * * *
870475 CTCTAAACGAAGCAACCCTAATGGATACCACTGAATCTCCCCTGCCACCGTCAAACA
1 CTCTAAACAAAGCAACCCTAATGGATACCACTAAATATCCCCCGCCACCGTCAAACA
870532 C
1 C
870533 AAGTACCAAG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 53 1.00
ACGTcount: A:0.36, C:0.37, G:0.10, T:0.17
Consensus pattern (57 bp):
CTCTAAACAAAGCAACCCTAATGGATACCACTAAATATCCCCCGCCACCGTCAAACA
Found at i:888237 original size:17 final size:18
Alignment explanation
Indices: 888215--888252 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
888205 TAACTTAATA
*
888215 TAATTTTCTAT-TATTTT
1 TAATTTTATATATATTTT
888232 TAA-TTTATATATATTTT
1 TAATTTTATATATATTTT
888249 TAAT
1 TAAT
888253 AAAATTTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (18 bp):
TAATTTTATATATATTTT
Found at i:891951 original size:23 final size:23
Alignment explanation
Indices: 891908--891952 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
891898 CCTGGGTGGT
*
891908 TGACTCTGGCGCGTCACACCATG
1 TGACTCTGGCGCATCACACCATG
*
891931 TGACTCTGGATGCATCA-ACCAT
1 TGACTCTGG-CGCATCACACCAT
891953 TGATCTCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.24
Consensus pattern (23 bp):
TGACTCTGGCGCATCACACCATG
Found at i:894011 original size:23 final size:23
Alignment explanation
Indices: 893955--894020 Score: 71
Period size: 23 Copynumber: 2.9 Consensus size: 23
893945 TTTTATATGA
* * *
893955 CACTACGGTGCAATTCTACGCGG
1 CACTTCGGTGTAATTTTACGCGG
* *
893978 TACTTCGGTGTAATTTTACGTGG
1 CACTTCGGTGTAATTTTACGCGG
894001 CACTTCGGTGT-ATTTATACG
1 CACTTCGGTGTAATTT-TACG
894021 AGTTGTGGTG
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
22 4 0.11
23 32 0.89
ACGTcount: A:0.20, C:0.21, G:0.24, T:0.35
Consensus pattern (23 bp):
CACTTCGGTGTAATTTTACGCGG
Found at i:896400 original size:39 final size:41
Alignment explanation
Indices: 896356--896436 Score: 114
Period size: 39 Copynumber: 2.0 Consensus size: 41
896346 TTTATTATCT
*
896356 CAATAAATGAAA-TATAATAATTTTTTTC-TAAAAAA-CCCA
1 CAATAAAT-AAATTATAATAATGTTTTTCTTAAAAAATCCCA
*
896395 CAATAAATAAATTGTAATAATGTTTTTCTTAAAAAATCCCA
1 CAATAAATAAATTATAATAATGTTTTTCTTAAAAAATCCCA
896436 C
1 C
896437 TAAAATTATA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
38 3 0.08
39 22 0.59
40 7 0.19
41 5 0.14
ACGTcount: A:0.48, C:0.14, G:0.04, T:0.35
Consensus pattern (41 bp):
CAATAAATAAATTATAATAATGTTTTTCTTAAAAAATCCCA
Found at i:914793 original size:2 final size:2
Alignment explanation
Indices: 914786--914835 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
914776 TATTTAATTC
914786 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
914828 AT AT AT AT
1 AT AT AT AT
914836 TCTAGTTATA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:917627 original size:54 final size:54
Alignment explanation
Indices: 917569--917865 Score: 522
Period size: 54 Copynumber: 5.5 Consensus size: 54
917559 TTGCTTCAGA
917569 GAGTATGGAACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAGG
1 GAGTATGGAACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAGG
917623 GAGTATGGAACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAGG
1 GAGTATGGAACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAGG
* *
917677 GAGTATGGAACTCGAACATCTTCTTCTTACTGGTTCGCTCTCTCTTTCTCTAGG
1 GAGTATGGAACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAGG
* * **
917731 GAGTATGGAACTCAAACATATTCTTCTTACATGTTCGCTCCCTCTTTCTCTAGG
1 GAGTATGGAACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAGG
* *
917785 GAGTATGGAACTCGAATATCTTCTTCTTACGGGTTCGCTCCCTCTTTATCTAGG
1 GAGTATGGAACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAGG
917839 GAGTATGGAACTCGAACATCTTCTTCT
1 GAGTATGGAACTCGAACATCTTCTTCT
917866 GCTTTATTGC
Statistics
Matches: 229, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 229 1.00
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.36
Consensus pattern (54 bp):
GAGTATGGAACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAGG
Found at i:918292 original size:37 final size:37
Alignment explanation
Indices: 918241--918356 Score: 130
Period size: 37 Copynumber: 3.2 Consensus size: 37
918231 TTGCTCCAAC
* *
918241 ACTCTTCCGA-GAAGGTTTAAAAAGGATATGCTTCACT
1 ACTCTT-CGATGAAGGCTTAAAAAGGATTTGCTTCACT
* *
918278 ACTCTTCGATGAAGGCTT-AAGAGGGTTTGCTTCACT
1 ACTCTTCGATGAAGGCTTAAAAAGGATTTGCTTCACT
* * *
918314 ACTCTT-TAGTGAAGGCTCAAAATGGATTTGCTTCACT
1 ACTCTTCGA-TGAAGGCTTAAAAAGGATTTGCTTCACT
918351 ACTCTT
1 ACTCTT
918357 TGGTGAAGAC
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
35 1 0.01
36 32 0.48
37 34 0.51
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.34
Consensus pattern (37 bp):
ACTCTTCGATGAAGGCTTAAAAAGGATTTGCTTCACT
Found at i:918357 original size:37 final size:36
Alignment explanation
Indices: 918260--918364 Score: 131
Period size: 36 Copynumber: 2.9 Consensus size: 36
918250 AGAAGGTTTA
* * *
918260 AAAAGGATATGCTTCACTACTC-TTCGATGAAGGCTT
1 AAAAGGATTTGCTTCACTACTCTTTAG-TGAAGGCTC
* *
918296 AAGAGGGTTTGCTTCACTACTCTTTAGTGAAGGCTC
1 AAAAGGATTTGCTTCACTACTCTTTAGTGAAGGCTC
*
918332 AAAATGGATTTGCTTCACTACTCTTTGGTGAAG
1 AAAA-GGATTTGCTTCACTACTCTTTAGTGAAG
918365 ACTTGGCTTT
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
36 30 0.51
37 29 0.49
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (36 bp):
AAAAGGATTTGCTTCACTACTCTTTAGTGAAGGCTC
Found at i:919809 original size:126 final size:125
Alignment explanation
Indices: 919579--919828 Score: 304
Period size: 126 Copynumber: 2.0 Consensus size: 125
919569 TAATGCCGCA
* * * *
919579 ATATTATCTTATTCAGGTACGAGCCTTCAAAATGCTCCAACACCTCAAATTATAAGGCTCGTTTT
1 ATATTATCTCATACAGGTACGAGCCTTCAAAATGCCCCAACACCTCAAATTATAAGGCTCATTTT
* * ** *
919644 CAATGCCTTCTTGGTCTGAACCTTATCATCTCAACATGATGTAGGGTTCAGTCGTGCCCCG
66 CAATGACTCCTTGGTCCAAACCTTATCATCTCAACATGATGT-GGGTTCAGTCATGCCCCG
* * * * * *
919705 ATATTATCTCATACTGGTACGGGCCTTCAAAATGCCCCATCATCTCAATTTGTAAGGCTCATTAT
1 ATATTATCTCATACAGGTACGAGCCTTCAAAATGCCCCAACACCTCAAATTATAAGGCTCATT-T
* * * *
919770 TC-ATGACTCCTTGGTCCAAATCTTGTCATCTCAATATGATGTGGGTTTAGTCATGCCCC
65 TCAATGACTCCTTGGTCCAAACCTTATCATCTCAACATGATGTGGGTTCAGTCATGCCCC
919829 AATGTGGGTA
Statistics
Matches: 104, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
125 15 0.14
126 86 0.83
127 3 0.03
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (125 bp):
ATATTATCTCATACAGGTACGAGCCTTCAAAATGCCCCAACACCTCAAATTATAAGGCTCATTTT
CAATGACTCCTTGGTCCAAACCTTATCATCTCAACATGATGTGGGTTCAGTCATGCCCCG
Found at i:923339 original size:72 final size:72
Alignment explanation
Indices: 923222--923372 Score: 257
Period size: 72 Copynumber: 2.1 Consensus size: 72
923212 CCCCTAACAG
*
923222 GTTCTTGATCAATTGCTATCATCACATTGGTTGCACCACTAACATTCAGATTCTCACCTGAAGTC
1 GTTCTTGATCAATTGCTATCATCACATTGGTTGCACCACTAACATTCAGATTCTCACCCGAAGTC
*
923287 TTCATCT
66 TTCATAT
* *
923294 GTTCTTGATCATTTGCTATCATCACATTGGTTGCACCATTAACATTCAGATTCTCACCCGAAGTC
1 GTTCTTGATCAATTGCTATCATCACATTGGTTGCACCACTAACATTCAGATTCTCACCCGAAGTC
923359 TTCATAT
66 TTCATAT
*
923366 TTTCTTG
1 GTTCTTG
923373 TGTAATAGGG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 74 1.00
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.38
Consensus pattern (72 bp):
GTTCTTGATCAATTGCTATCATCACATTGGTTGCACCACTAACATTCAGATTCTCACCCGAAGTC
TTCATAT
Found at i:924133 original size:55 final size:55
Alignment explanation
Indices: 924047--924169 Score: 194
Period size: 55 Copynumber: 2.2 Consensus size: 55
924037 CAGGATATCT
* * *
924047 TTCTTTATGGATCGGTCTTCAATCAGTTTCAAATTTCTTCATTCATCGGATGTCC
1 TTCTTTATGAATCGCTCTTCAATCAGGTTCAAATTTCTTCATTCATCGGATGTCC
*
924102 TTCTTTATGAATCGCTCTTCAGTCAGGTTCAAATTTCTTCATTCATCGGATGTCC
1 TTCTTTATGAATCGCTCTTCAATCAGGTTCAAATTTCTTCATTCATCGGATGTCC
924157 TT-TTTCATGAATC
1 TTCTTT-ATGAATC
924170 ATCTGAACGC
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
54 3 0.05
55 60 0.95
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.44
Consensus pattern (55 bp):
TTCTTTATGAATCGCTCTTCAATCAGGTTCAAATTTCTTCATTCATCGGATGTCC
Found at i:942197 original size:32 final size:32
Alignment explanation
Indices: 942150--942212 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
942140 AATGAGTTTC
*
942150 TTTATTAAAATAATATTATTTAGGGTAAATTT
1 TTTATTAAAACAATATTATTTAGGGTAAATTT
*
942182 TTTATTCAAACAATATTATTTAGGGTAAATT
1 TTTATTAAAACAATATTATTTAGGGTAAATT
942213 ATAAATTTGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.40, C:0.03, G:0.10, T:0.48
Consensus pattern (32 bp):
TTTATTAAAACAATATTATTTAGGGTAAATTT
Found at i:948316 original size:6 final size:6
Alignment explanation
Indices: 948305--948338 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
948295 CTTACTTGCA
948305 AAAATT AAAATT AAAATT AAAATT AAAATT AAAA
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAA
948339 AGTTCGATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (6 bp):
AAAATT
Found at i:948887 original size:22 final size:22
Alignment explanation
Indices: 948847--948888 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
948837 AAATTCAGTA
*
948847 ACTAAATTAAGATATAATAAGG
1 ACTAAATTAAGATAAAATAAGG
948869 ACTAAATTGAA-ATAAAATAA
1 ACTAAATT-AAGATAAAATAA
948889 AATTACATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.60, C:0.05, G:0.10, T:0.26
Consensus pattern (22 bp):
ACTAAATTAAGATAAAATAAGG
Found at i:949911 original size:3 final size:3
Alignment explanation
Indices: 949898--949941 Score: 56
Period size: 3 Copynumber: 15.3 Consensus size: 3
949888 CAAATATGTA
* *
949898 AAT AA- AAT AAT AAT AAT AAT AAT GAT GAT AAT AAT AAT -AT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
949942 TTTTTAACCC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
2 4 0.11
3 33 0.89
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:950629 original size:61 final size:61
Alignment explanation
Indices: 950500--950969 Score: 599
Period size: 61 Copynumber: 7.7 Consensus size: 61
950490 GTAGCTTCAA
** * *
950500 AGTTGGATATTATTCGTTGTGAAGTTGAAATCCAAGT-AT-TGCTTTACCAAATTGGCTTTG
1 AGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAA-TCTTGTGCTTCACCAAATTGGCTTTG
* * **
950560 AGTTGGATATCCTTCGTTGTGAAGTTGAAATTCAATCTTGTGTTTCACCAAATCAGCTTTG
1 AGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTGTGCTTCACCAAATTGGCTTTG
* * ** * * *
950621 AGTTGGATATCCTTCGCTGTGAAGTTGAAATCCAA-GTACTGCTTCACCGAATTGACTTTA
1 AGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTGTGCTTCACCAAATTGGCTTTG
* * * * *
950681 AGTTGGATATCATTCGTTGTGAAGTTGAAATCTAATATTGTGTAAGTTTCACCAAATTAGCTTTG
1 AGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAAT-CT-TGT--GCTTCACCAAATTGGCTTTG
* * *
950746 AGTTGGATATTCTTCGTTGTGAAGTTGAAATTCAAGT-AT-TGCTTCACCAAATTGGCTTTG
1 AGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAA-TCTTGTGCTTCACCAAATTGGCTTTG
* *
950806 AGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTCGTGCTTCACCAAATTGTCTTTG
1 AGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTGTGCTTCACCAAATTGGCTTTG
* *
950867 AGTTTGATATCATTCGTTGTGAAGTTGAAATCCAATCTTGTGCTTCACCAAATTGGCTTTG
1 AGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTGTGCTTCACCAAATTGGCTTTG
*
950928 AGTTGGATATCCTTCGTTGTAAAGTTGAAATCCAATCTTGTG
1 AGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTGTG
950970 TTGTTGCGTT
Statistics
Matches: 351, Mismatches: 49, Indels: 19
0.84 0.12 0.05
Matches are distributed among these distances:
59 2 0.01
60 132 0.38
61 166 0.47
62 2 0.01
63 2 0.01
65 46 0.13
66 1 0.00
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.39
Consensus pattern (61 bp):
AGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTGTGCTTCACCAAATTGGCTTTG
Found at i:950814 original size:246 final size:247
Alignment explanation
Indices: 950500--950970 Score: 739
Period size: 246 Copynumber: 1.9 Consensus size: 247
950490 GTAGCTTCAA
*
950500 AGTTGGATATTATTCGTTGTGAAGTTGAAATCCAAGTATTGCTTTACCAAATTGGCTTTGAGTTG
1 AGTTGGATATTATTCGTTGTGAAGTTGAAATCCAAGTATTGCTTCACCAAATTGGCTTTGAGTTG
* * *
950565 GATATCCTTCGTTGTGAAGTTGAAATTCAATCTTGTGTTTCACCAAATCAG-CTTTGAGTTGGAT
66 GATATCCTTCGTTGTGAAGTTGAAATCCAATCTCGTGCTTCACCAAAT-AGTCTTTGAGTTGGAT
* * *
950629 ATCCTTCGCTGTGAAGTTGAAATCCAA-GTACTGCTTCACCGAATTGACTTTAAGTTGGATATCA
130 ATCATTCGCTGTGAAGTTGAAATCCAATCTACTGCTTCACCAAATTGACTTTAAGTTGGATATCA
* *
950693 TTCGTTGTGAAGTTGAAATCTAATATTGTGTAAGTTTCACCAAATTAGCTTTG
195 TTCGTTGTAAAGTTGAAATCCAATATTGTGTAAGTTTCACCAAATTAGCTTTG
* *
950746 AGTTGGATATTCTTCGTTGTGAAGTTGAAATTCAAGTATTGCTTCACCAAATTGGCTTTGAGTTG
1 AGTTGGATATTATTCGTTGTGAAGTTGAAATCCAAGTATTGCTTCACCAAATTGGCTTTGAGTTG
* *
950811 GATATCCTTCGTTGTGAAGTTGAAATCCAATCTCGTGCTTCACCAAATTGTCTTTGAGTTTGATA
66 GATATCCTTCGTTGTGAAGTTGAAATCCAATCTCGTGCTTCACCAAATAGTCTTTGAGTTGGATA
* ** * * *
950876 TCATTCGTTGTGAAGTTGAAATCCAATCTTGTGCTTCACCAAATTGGCTTTGAGTTGGATATCCT
131 TCATTCGCTGTGAAGTTGAAATCCAATCTACTGCTTCACCAAATTGACTTTAAGTTGGATATCAT
*
950941 TCGTTGTAAAGTTGAAATCCAATCTTGTGT
196 TCGTTGTAAAGTTGAAATCCAATATTGTGT
950971 TGTTGCGTTG
Statistics
Matches: 203, Mismatches: 20, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
245 1 0.00
246 144 0.71
247 58 0.29
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.39
Consensus pattern (247 bp):
AGTTGGATATTATTCGTTGTGAAGTTGAAATCCAAGTATTGCTTCACCAAATTGGCTTTGAGTTG
GATATCCTTCGTTGTGAAGTTGAAATCCAATCTCGTGCTTCACCAAATAGTCTTTGAGTTGGATA
TCATTCGCTGTGAAGTTGAAATCCAATCTACTGCTTCACCAAATTGACTTTAAGTTGGATATCAT
TCGTTGTAAAGTTGAAATCCAATATTGTGTAAGTTTCACCAAATTAGCTTTG
Found at i:957114 original size:18 final size:18
Alignment explanation
Indices: 957070--957121 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
957060 ATATAACACA
* * *
957070 TATGTCCCAAATGATCAC
1 TATGTCCCGAAGGACCAC
*
957088 TATGTCCCGATGGACCAC
1 TATGTCCCGAAGGACCAC
957106 TATGTCCCGAAGGACC
1 TATGTCCCGAAGGACC
957122 GCGTAGACCC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (18 bp):
TATGTCCCGAAGGACCAC
Found at i:957890 original size:20 final size:22
Alignment explanation
Indices: 957862--957919 Score: 75
Period size: 20 Copynumber: 2.6 Consensus size: 22
957852 TTCCTCTTGA
*
957862 AGTGTATCGATGCATTC-T-AC
1 AGTGCATCGATGCATTCTTAAC
957882 AGTGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC-TTAAC
957905 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
957920 CTGCCCATGC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 16 0.48
22 1 0.03
23 3 0.09
24 13 0.39
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.33
Consensus pattern (22 bp):
AGTGCATCGATGCATTCTTAAC
Found at i:957994 original size:64 final size:63
Alignment explanation
Indices: 957907--958047 Score: 160
Period size: 64 Copynumber: 2.2 Consensus size: 63
957897 TCTTTAACAT
* * * *
957907 GTGCATCGATGCACTGCCCATGCATTGATACACAAATTACCTTCGATGTTTTCAT-TTTAAGGG
1 GTGCATCGATGCACTGCCCATGCATCGATACACAAATTACATTCGATG-TTTCATCTTTAAAGA
* * * * *
957970 GATGCATCGATGCACT-CCTTATGCATCGATGCACCAATTTCATTCGATGTTTCTTCTTTAAAGA
1 G-TGCATCGATGCACTGCC-CATGCATCGATACACAAATTACATTCGATGTTTCATCTTTAAAGA
958034 GTGCATCGATGCAC
1 GTGCATCGATGCAC
958048 ATTGAAATGT
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
63 21 0.32
64 45 0.68
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.33
Consensus pattern (63 bp):
GTGCATCGATGCACTGCCCATGCATCGATACACAAATTACATTCGATGTTTCATCTTTAAAGA
Found at i:959567 original size:30 final size:30
Alignment explanation
Indices: 959533--959598 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
959523 GAAAGGGATT
*
959533 AAATAGCA-AAAGAAAAAAATTAAAGTACTA
1 AAATAGCACAAA-AAAAAAATTAAAGGACTA
* *
959563 AAATAGCACAAACAAAAAATTAAAGGATTA
1 AAATAGCACAAAAAAAAAATTAAAGGACTA
959593 AAATAG
1 AAATAG
959599 TATTAATAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
30 29 0.91
31 3 0.09
ACGTcount: A:0.65, C:0.08, G:0.11, T:0.17
Consensus pattern (30 bp):
AAATAGCACAAAAAAAAAATTAAAGGACTA
Found at i:960021 original size:152 final size:155
Alignment explanation
Indices: 959851--960159 Score: 588
Period size: 152 Copynumber: 2.0 Consensus size: 155
959841 TAAAATAAAA
959851 ATAAATAAAAAATGAAAGAATTAGTGACTAAAATGTAAAAACATGGCTAAGTTATTGGGACTGAA
1 ATAAATAAAAAATGAAAGAATTAGTGACTAAAATGTAAAAACATGGCTAAGTTATTGGGACTGAA
959916 ATAGTGATTTTACCAAATAATTAAAACATGCATAACAAATAGGTGCAATACCAATTTTGGTCCTA
66 ATAGTGATTTTACCAAATAATTAAAACATGCATAACAAATAGGTGCAATACCAATTTTGGTCCTA
959981 CAGGGACCAAAA-T-AAACACAGCT
131 CAGGGACCAAAAGTAAAACACAGCT
960004 ATAAAT-AAAAATGAAAGAATTAGTGACTAAAATGTAAAAACATGGCTAAGTTATTGGGACTGAA
1 ATAAATAAAAAATGAAAGAATTAGTGACTAAAATGTAAAAACATGGCTAAGTTATTGGGACTGAA
960068 ATAGTGATTTTACCAAATAATTAAAACATGCATAACAAATAGGTGCAATACCAATTTTGGTCCTA
66 ATAGTGATTTTACCAAATAATTAAAACATGCATAACAAATAGGTGCAATACCAATTTTGGTCCTA
960133 CAGGGACCAAAATGTAAAACACAGCT
131 CAGGGACCAAAA-GTAAAACACAGCT
960159 A
1 A
960160 AAGTGGAGGT
Statistics
Matches: 153, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
152 135 0.88
153 6 0.04
154 1 0.01
155 11 0.07
ACGTcount: A:0.46, C:0.13, G:0.16, T:0.25
Consensus pattern (155 bp):
ATAAATAAAAAATGAAAGAATTAGTGACTAAAATGTAAAAACATGGCTAAGTTATTGGGACTGAA
ATAGTGATTTTACCAAATAATTAAAACATGCATAACAAATAGGTGCAATACCAATTTTGGTCCTA
CAGGGACCAAAAGTAAAACACAGCT
Found at i:962115 original size:37 final size:39
Alignment explanation
Indices: 962065--962141 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 39
962055 TCTAATATGT
962065 TCTCCAAATCCAAT-A-AACAAATGAG-AACCCAAGACCC
1 TCTCCAAATCCAATAACAACAAATGAGAAACCC-AGACCC
962102 TCTCCAAATCCAATAACCAACAAATGAGAAACCCAGACCC
1 TCTCCAAATCCAATAA-CAACAAATGAGAAACCCAGACCC
962142 ATCCTCTTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
37 14 0.39
38 1 0.03
40 16 0.44
41 5 0.14
ACGTcount: A:0.45, C:0.34, G:0.08, T:0.13
Consensus pattern (39 bp):
TCTCCAAATCCAATAACAACAAATGAGAAACCCAGACCC
Found at i:970071 original size:16 final size:16
Alignment explanation
Indices: 970050--970080 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
970040 TCTCTAAACA
970050 ATTTTAATATAATTTT
1 ATTTTAATATAATTTT
970066 ATTTTAATATAATTT
1 ATTTTAATATAATTT
970081 ATATATTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
ATTTTAATATAATTTT
Found at i:970207 original size:107 final size:107
Alignment explanation
Indices: 970011--970243 Score: 341
Period size: 107 Copynumber: 2.2 Consensus size: 107
970001 TATTTTTAAG
*
970011 TTAAA-TTATTTTTATTTTGTGATTTGAATTCTCTAAACAATTTTAATATAATTTTATTTTAATA
1 TTAAATTTATTTTTATTTTGTGATTTGAATTCTCTAAACAATTTTAATAAAATTTTATTTTAATA
970075 TAATTTATATATTATTATTTAAAAAA-AATT-TAAATAAAAATA
66 TAATTTATATATTATTATTTAAAAAATAATTGT-AA-AAAAATA
* * *
970117 TTAAATTTATTTTTATTTTGTGATTTGGATTCTCTAAATAATTTTAATAAAATTTTATTTTTGAT
1 TTAAATTTATTTTTATTTTGTGATTTGAATTCTCTAAACAATTTTAATAAAATTTTA-TTTTAAT
970182 ATAATTTATATATTATTATTT-AAAAATAATTGTAAAAAAATA
65 ATAATTTATATATTATTATTTAAAAAATAATTGTAAAAAAATA
*
970224 TTGAACTCTT-TTTTTATTTT
1 TT-AAAT-TTATTTTTATTTT
970244 TAAGTCTTAC
Statistics
Matches: 116, Mismatches: 5, Indels: 10
0.89 0.04 0.08
Matches are distributed among these distances:
106 5 0.04
107 62 0.53
108 46 0.40
109 3 0.03
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.53
Consensus pattern (107 bp):
TTAAATTTATTTTTATTTTGTGATTTGAATTCTCTAAACAATTTTAATAAAATTTTATTTTAATA
TAATTTATATATTATTATTTAAAAAATAATTGTAAAAAAATA
Found at i:970265 original size:107 final size:106
Alignment explanation
Indices: 970011--970271 Score: 270
Period size: 107 Copynumber: 2.5 Consensus size: 106
970001 TATTTTTAAG
* * * *
970011 TTAAA-TTATTTTTATTTTGTGATTTGA-ATTCTCTAAACAATTTTAATATAATTTTATTTTAAT
1 TTAAATTTATTTTTATTTTGTAATTT-ACATTATCT-AATAATTTTAATAAAATTTTATTTTAAT
970074 ATAATTTATATATTATTATTTAAAAAAAATTTAAATAAAAATA
64 ATAATTTATATATTATTATTTAAAAAAAATTTAAATAAAAATA
* ** * *
970117 TTAAATTTATTTTTATTTTGTGATTTGGATTCTCTAAATAATTTTAATAAAATTTTATTTTTGAT
1 TTAAATTTATTTTTATTTTGTAATTTACATTATCT-AATAATTTTAATAAAATTTTA-TTTTAAT
*
970182 ATAATTTATATATTATTATTTAAAAATAATTGT-AA-AAAAATA
64 ATAATTTATATATTATTATTTAAAAAAAATT-TAAATAAAAATA
*
970224 TTGAACTCTT-TTTTTATTTT-TAAGTCTTACATTGAT-T-ATAA-TTTAATA
1 TT-AAAT-TTATTTTTATTTTGTAA-T-TTACATT-ATCTAATAATTTTAATA
970272 TATATGTGAA
Statistics
Matches: 136, Mismatches: 10, Indels: 18
0.83 0.06 0.11
Matches are distributed among these distances:
106 12 0.09
107 62 0.46
108 52 0.38
109 9 0.07
110 1 0.01
ACGTcount: A:0.39, C:0.03, G:0.05, T:0.52
Consensus pattern (106 bp):
TTAAATTTATTTTTATTTTGTAATTTACATTATCTAATAATTTTAATAAAATTTTATTTTAATAT
AATTTATATATTATTATTTAAAAAAAATTTAAATAAAAATA
Found at i:971034 original size:4 final size:4
Alignment explanation
Indices: 971025--971225 Score: 61
Period size: 4 Copynumber: 51.5 Consensus size: 4
971015 AACGAAATTC
* * * * * *
971025 CTCT CTCT CTCT CTCC CTCT CTCT CTCC CTCC CTCC CTCC CTCC CTCT
1 CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT
* * * * * * *
971073 CCCT CTCC CTCT CCCT CTCC CTCC CTC- CCCT CCCT CTCT CTCT C-CT
1 CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT
* * * * * * * * * * * *
971119 CCCT CCCC CTCC CTCT CCCC CTCC CTTT CCCT C-CC CT-T CCCT CCCT
1 CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT
* * * * * * *
971165 CTCC CTCT CTC- CCCT CTCC CTCT CCCC CTCT CTCC CCCT CTCT CTCT
1 CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT
* *
971212 CCCC CTCT CTCT CT
1 CTCT CTCT CTCT CT
971226 AATGGGAGAT
Statistics
Matches: 147, Mismatches: 45, Indels: 10
0.73 0.22 0.05
Matches are distributed among these distances:
3 10 0.07
4 137 0.93
ACGTcount: A:0.00, C:0.67, G:0.00, T:0.33
Consensus pattern (4 bp):
CTCT
Found at i:971036 original size:6 final size:6
Alignment explanation
Indices: 971025--971225 Score: 61
Period size: 6 Copynumber: 34.3 Consensus size: 6
971015 AACGAAATTC
* * * * * *
971025 CTCTCT CTCTCT CTCCCT CTCTCT CTCCCT CCCTCC CTCCCT CCCTCT
1 CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT
* * * * * * *
971073 CCCTCT CCCTCT CCCTCT CCCTCC CTC-CC CTCCCT CTCTCT CTC-CT
1 CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT
* * * * * * * * * * * *
971119 CCCTCC CCCTCC CTCTCC CCCTCC CTTTCC CTC-CC CT-TCC CTCCCT
1 CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT
* * * * * * *
971165 CTCCCT CTCTC- CCCTCT CCCTCT CCCCCT CTCTCC CCCTCT CTCTCT
1 CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT
* *
971212 CCCCCT CTCTCT CT
1 CTCTCT CTCTCT CT
971226 AATGGGAGAT
Statistics
Matches: 153, Mismatches: 37, Indels: 10
0.76 0.19 0.05
Matches are distributed among these distances:
5 21 0.14
6 132 0.86
ACGTcount: A:0.00, C:0.67, G:0.00, T:0.33
Consensus pattern (6 bp):
CTCTCT
Found at i:971046 original size:12 final size:12
Alignment explanation
Indices: 971029--971224 Score: 153
Period size: 12 Copynumber: 16.9 Consensus size: 12
971019 AAATTCCTCT
971029 CTCTCTCTCTCC
1 CTCTCTCTCTCC
971041 CTCTCTCTCTCC
1 CTCTCTCTCTCC
* *
971053 CTCCCTCCCTCC
1 CTCTCTCTCTCC
971065 CTC-C-CTCTCC
1 CTCTCTCTCTCC
*
971075 CTCTCCCTCTCC
1 CTCTCTCTCTCC
971087 CTCTC-C-CTCC
1 CTCTCTCTCTCC
971097 CTC-C-C-CTCC
1 CTCTCTCTCTCC
971106 CTCTCTCTCTCC
1 CTCTCTCTCTCC
* * *
971118 TCCCTCCCCCTCC
1 -CTCTCTCTCTCC
* *
971131 CTCTCCCCCTCC
1 CTCTCTCTCTCC
*
971143 CT-T-TCCCTCC
1 CTCTCTCTCTCC
*
971153 C-CT-TCCCTCC
1 CTCTCTCTCTCC
971163 CTCTCCCTCTCTCCC
1 CTCT--CTCTCT-CC
*
971178 CTCTCCCTCTCC
1 CTCTCTCTCTCC
* *
971190 CCCTCTCTCCCC
1 CTCTCTCTCTCC
971202 CTCTCTCTCTCC
1 CTCTCTCTCTCC
*
971214 CCCTCTCTCTC
1 CTCTCTCTCTC
971225 TAATGGGAGA
Statistics
Matches: 156, Mismatches: 16, Indels: 24
0.80 0.08 0.12
Matches are distributed among these distances:
9 9 0.06
10 32 0.21
11 7 0.04
12 84 0.54
13 14 0.09
14 4 0.03
15 6 0.04
ACGTcount: A:0.00, C:0.67, G:0.00, T:0.33
Consensus pattern (12 bp):
CTCTCTCTCTCC
Found at i:972576 original size:3 final size:3
Alignment explanation
Indices: 972568--972655 Score: 126
Period size: 3 Copynumber: 29.0 Consensus size: 3
972558 ATTTATTTAT
*
972568 TTA TTA TTA TTA TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA TAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
972615 TTA TTA TTA TATA TATA TTA -TA TATA TTA TTA TTA TTA TTA
1 TTA TTA TTA T-TA T-TA TTA TTA T-TA TTA TTA TTA TTA TTA
972656 AAAAAATAAT
Statistics
Matches: 79, Mismatches: 2, Indels: 8
0.89 0.02 0.09
Matches are distributed among these distances:
2 4 0.05
3 65 0.82
4 10 0.13
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:974063 original size:15 final size:17
Alignment explanation
Indices: 974034--974065 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
974024 TTATTATTAT
974034 TATATAGTCATATAATA
1 TATATAGTCATATAATA
974051 TATATA-TCA-ATAATA
1 TATATAGTCATATAATA
974066 ATTATATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 3 0.20
17 6 0.40
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (17 bp):
TATATAGTCATATAATA
Found at i:974574 original size:293 final size:293
Alignment explanation
Indices: 974048--974634 Score: 1069
Period size: 293 Copynumber: 2.0 Consensus size: 293
974038 TAGTCATATA
974048 ATATATATATCAATAATAATTATATTAAATCTTAATTTGATTTTACATAAATTATTTTTTTATCA
1 ATATATATATCAATAATAATTATATTAAATCTTAATTTGATTTTACATAAATTATTTTTTTATCA
974113 TATTTTAATATTTATTTATTTTTCAATATCAAAGAAAAGGGCAGTCTTAATACAACTGGATGTCC
66 TATTTTAATATTTATTTA-TTTTCAATATCAAAGAAAAGGGCAGTCTTAATACAACTGGATGTCC
974178 TATTCTGGTATTTTAAAATTAAATATTATAAAAAATATAATTAAAATTTTATTTAAATTATAATA
130 TATTCTGGTATTTTAAAATTAAATATTATAAAAAATATAATTAAAATTTTATTTAAATTATAATA
974243 TTATTAATATCGAAGAAAGAGCTGTCTTAAGGCACCTAGAAGTCCTTTTCTGATATTTCTAAATA
195 TTATTAATATCGAAGAAAGAGCTGTCTTAAGGCACCTAGAAGTCCTTTTCTGATATTTCTAAATA
974308 CGTAAATATC-TATTTATGTTTAATATATTTTCT
260 CGTAAATATCTTATTTATGTTTAATATATTTTCT
974341 ATATATA-ATCAATAATAATTTATATTAAATCTTAATTTGATTTTACATAAATTATTTTTTTATC
1 ATATATATATCAATAATAA-TTATATTAAATCTTAATTTGATTTTACATAAATTATTTTTTTATC
974405 ATATTTTAATATTTATTTA-TTTCAATATCAAAGAAAAGGGCAGTCTTAA-ACAACTGGATGTCC
65 ATATTTTAATATTTATTTATTTTCAATATCAAAGAAAAGGGCAGTCTTAATACAACTGGATGTCC
974468 TATTCTGGTATTTTAAAATTAAATA-TAT-AAAAATATAATTAAAATTTTATTTAAATTATTATA
130 TATTCTGGTATTTTAAAATTAAATATTATAAAAAATATAATTAAAATTTTATTT-AA--ATTATA
974531 ATATTTATTAATATCGAAGAAAAGAGCTGTCTTAAGGCACCTAGAAGTCCTTTTCTGATATTTCT
192 ATA-TTATTAATATCGAAG-AAAGAGCTGTCTTAAGGCACCTAGAAGTCCTTTTCTGATATTTCT
974596 AAATACGTAAATATCTTATTTATGTTTAATATATTTTCT
255 AAATACGTAAATATCTTATTTATGTTTAATATATTTTCT
974635 TAAAAATATT
Statistics
Matches: 287, Mismatches: 0, Indels: 13
0.96 0.00 0.04
Matches are distributed among these distances:
288 24 0.08
289 5 0.02
290 39 0.14
291 39 0.14
292 26 0.09
293 131 0.46
294 23 0.08
ACGTcount: A:0.39, C:0.09, G:0.08, T:0.44
Consensus pattern (293 bp):
ATATATATATCAATAATAATTATATTAAATCTTAATTTGATTTTACATAAATTATTTTTTTATCA
TATTTTAATATTTATTTATTTTCAATATCAAAGAAAAGGGCAGTCTTAATACAACTGGATGTCCT
ATTCTGGTATTTTAAAATTAAATATTATAAAAAATATAATTAAAATTTTATTTAAATTATAATAT
TATTAATATCGAAGAAAGAGCTGTCTTAAGGCACCTAGAAGTCCTTTTCTGATATTTCTAAATAC
GTAAATATCTTATTTATGTTTAATATATTTTCT
Found at i:975563 original size:28 final size:27
Alignment explanation
Indices: 975510--975563 Score: 63
Period size: 28 Copynumber: 2.0 Consensus size: 27
975500 TCGGATCGGA
* *
975510 CTAGCCGGTTCAATCGAGAACTGTTGT
1 CTAGCCGGTTCAATCGACAACGGTTGT
* *
975537 CTAGTCCGGTTCAATCTACACCGGTTG
1 CTAG-CCGGTTCAATCGACAACGGTTG
975564 AACTGCTAGT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
27 4 0.18
28 18 0.82
ACGTcount: A:0.20, C:0.26, G:0.24, T:0.30
Consensus pattern (27 bp):
CTAGCCGGTTCAATCGACAACGGTTGT
Found at i:975628 original size:11 final size:10
Alignment explanation
Indices: 975602--975627 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
975592 GAACCGTTCG
975602 AAAAAATCGA
1 AAAAAATCGA
975612 AAAAAATCGA
1 AAAAAATCGA
975622 AAAAAA
1 AAAAAA
975628 AACCGCCAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.77, C:0.08, G:0.08, T:0.08
Consensus pattern (10 bp):
AAAAAATCGA
Found at i:978828 original size:10 final size:11
Alignment explanation
Indices: 978801--978829 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
978791 TCTCTTTCCT
978801 TTTTTTTCTTG
1 TTTTTTTCTTG
978812 TTTTTTT-TTG
1 TTTTTTTCTTG
978822 TTTTTTTC
1 TTTTTTTC
978830 ATTTGTTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.86
Consensus pattern (11 bp):
TTTTTTTCTTG
Found at i:980741 original size:31 final size:31
Alignment explanation
Indices: 980703--980765 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
980693 GAGTCGAGGG
980703 TTACCTATGTTCTACGGAACATATGGACAGT
1 TTACCTATGTTCTACGGAACATATGGACAGT
*
980734 TTACCTATGTTCTTCGGAACATATGGACAGT
1 TTACCTATGTTCTACGGAACATATGGACAGT
980765 T
1 T
980766 ACATAGGTCC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (31 bp):
TTACCTATGTTCTACGGAACATATGGACAGT
Found at i:981848 original size:3 final size:3
Alignment explanation
Indices: 981840--981878 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
981830 AATTAAATTT
* *
981840 TAA TAA TAA TAA TTAA TAA TAT TAA TAA TAA TAG TAA TA
1 TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TA
981879 TTTTTGTAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:982377 original size:30 final size:31
Alignment explanation
Indices: 982338--982396 Score: 111
Period size: 30 Copynumber: 1.9 Consensus size: 31
982328 TTTTAAGTTA
982338 GAGAGACGAATTTAAACTTATAAAATTTTTT
1 GAGAGACGAATTTAAACTTATAAAATTTTTT
982369 GAGA-ACGAATTTAAACTTATAAAATTTT
1 GAGAGACGAATTTAAACTTATAAAATTTT
982397 AGGAGTACGA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 24 0.86
31 4 0.14
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.37
Consensus pattern (31 bp):
GAGAGACGAATTTAAACTTATAAAATTTTTT
Found at i:982407 original size:30 final size:29
Alignment explanation
Indices: 982335--982407 Score: 101
Period size: 30 Copynumber: 2.4 Consensus size: 29
982325 GTATTTTAAG
982335 TTAGAGAGACGAATTTAAACTTATAAAATT
1 TTAG-GAGACGAATTTAAACTTATAAAATT
**
982365 TTTTGAGAACGAATTTAAACTTATAAAATT
1 TTAGGAG-ACGAATTTAAACTTATAAAATT
982395 TTAGGAGTACGAA
1 TTAGGAG-ACGAA
982408 AATAGATTCT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 3 0.08
30 34 0.92
ACGTcount: A:0.44, C:0.07, G:0.15, T:0.34
Consensus pattern (29 bp):
TTAGGAGACGAATTTAAACTTATAAAATT
Found at i:995467 original size:24 final size:22
Alignment explanation
Indices: 995426--995504 Score: 71
Period size: 24 Copynumber: 3.7 Consensus size: 22
995416 GAATGCAATT
995426 AGTGCATCGATGCA---TAAGG
1 AGTGCATCGATGCACTGTAAGG
995445 AGTGCATCGATGCACATGTTAAGG
1 AGTGCATCGATGCAC-TG-TAAGG
*
995469 -GATGCATCGATACACTGT-A-G
1 AG-TGCATCGATGCACTGTAAGG
*
995489 AATGCATCGATGCACT
1 AGTGCATCGATGCACT
995505 TCAAGGGGAA
Statistics
Matches: 50, Mismatches: 3, Indels: 13
0.76 0.05 0.20
Matches are distributed among these distances:
19 14 0.28
20 14 0.28
21 1 0.02
22 1 0.02
23 3 0.06
24 17 0.34
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (22 bp):
AGTGCATCGATGCACTGTAAGG
Found at i:996236 original size:20 final size:19
Alignment explanation
Indices: 996188--996236 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 19
996178 GAGTCGAGGG
996188 TTCATAGGTCATTCGGGACA
1 TTCATA-GTCATTCGGGACA
* *
996208 TACAGTAGTCATTCGGGATA
1 TTCA-TAGTCATTCGGGACA
996228 TTTCATAGT
1 -TTCATAGT
996237 GGTCATTCGA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 19 0.79
21 5 0.21
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (19 bp):
TTCATAGTCATTCGGGACA
Found at i:996245 original size:23 final size:24
Alignment explanation
Indices: 996215--996259 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
996205 ACATACAGTA
* *
996215 GTCATTCGGGAT-ATTTCATAGTG
1 GTCATTCGAGATAAATTCATAGTG
996238 GTCATTCGAGATAAATTCATAG
1 GTCATTCGAGATAAATTCATAG
996260 CCCCTAATGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.36
Consensus pattern (24 bp):
GTCATTCGAGATAAATTCATAGTG
Found at i:1009527 original size:23 final size:23
Alignment explanation
Indices: 1009498--1009584 Score: 102
Period size: 23 Copynumber: 3.8 Consensus size: 23
1009488 TAAGCTACCA
* * *
1009498 AAAGGCAGAGAAAAACGTGTCAC
1 AAAGACAGAGAAAAATGTGTCAT
* * *
1009521 AAAGGCAAAGATAAATGTGTCAT
1 AAAGACAGAGAAAAATGTGTCAT
*
1009544 AAAGACAGAGATAAATGTGTCAT
1 AAAGACAGAGAAAAATGTGTCAT
*
1009567 AAAGACAGAGAAACATGT
1 AAAGACAGAGAAAAATGT
1009585 CACAAATACA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 56 1.00
ACGTcount: A:0.49, C:0.11, G:0.23, T:0.16
Consensus pattern (23 bp):
AAAGACAGAGAAAAATGTGTCAT
Found at i:1014046 original size:19 final size:20
Alignment explanation
Indices: 1014002--1014046 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
1013992 ATAGATAGAT
* *
1014002 CTCTTTTGTAAAGATGAAAG
1 CTCTTTTGGAAAAATGAAAG
*
1014022 CTCTTTTGGAAAAATGGAA-
1 CTCTTTTGGAAAAATGAAAG
1014041 CTCTTT
1 CTCTTT
1014047 CTAAGAATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (20 bp):
CTCTTTTGGAAAAATGAAAG
Done.