Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 303 of 328
Found at i:90188465 original size:17 final size:19
Alignment explanation
Indices: 90188438--90188477 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
90188428 GGACTGGTTT
90188438 GGGTCGTGTGGG-CCACAC
1 GGGTCGTGTGGGCCCACAC
90188456 GGGT-GTGTGGGCCCACAC
1 GGGTCGTGTGGGCCCACAC
90188474 GGGT
1 GGGT
90188478 AGTCAACATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.10, C:0.25, G:0.47, T:0.17
Consensus pattern (19 bp):
GGGTCGTGTGGGCCCACAC
Found at i:90211842 original size:40 final size:39
Alignment explanation
Indices: 90211797--90211963 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 39
90211787 CGGAATATAA
90211797 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
90211837 CCGGATAGAATAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** *
90211877 CCGGATATAGTCACTAGCACATTTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACT-GCACAAATGCCTTCGGGTCTTAGC
* * * *
90211917 CCGGATATAATTTC-CAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAA--TCACTGCACAAATGCCTTCGGGTCTTAGC
90211956 CCGGATAT
1 CCGGATAT
90211964 CATTCAATTT
Statistics
Matches: 107, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
39 14 0.13
40 90 0.84
41 1 0.01
42 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (39 bp):
CCGGATATAATCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:90211947 original size:80 final size:79
Alignment explanation
Indices: 90211797--90211963 Score: 194
Period size: 80 Copynumber: 2.1 Consensus size: 79
90211787 CGGAATATAA
* **
90211797 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTTGCACGAATG
1 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACCAGCACGAATG
90211862 CCTTCGGGTCTTAGC
66 CCTTCGGG-CTTAGC
* ** * ** *
90211877 CCGGATATAGTCAC-TAGCACATTTGCCTTCGGGTCTTAACCCGGATATAATTTCCAGCA-TAAT
1 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACCAGCACGAA-
*
90211940 TGTCTTCGGGCTTAGC
64 TGCCTTCGGGCTTAGC
90211956 CCGGATAT
1 CCGGATAT
90211964 CATTCAATTT
Statistics
Matches: 74, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
79 17 0.23
80 57 0.77
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (79 bp):
CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACCAGCACGAATG
CCTTCGGGCTTAGC
Found at i:90216833 original size:11 final size:11
Alignment explanation
Indices: 90216817--90216845 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
90216807 GATGCCTATG
90216817 ATATGTGTTAA
1 ATATGTGTTAA
90216828 ATATGTGTTAA
1 ATATGTGTTAA
90216839 AT-TGTGT
1 ATATGTGT
90216846 GTGACATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.28
11 13 0.72
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.48
Consensus pattern (11 bp):
ATATGTGTTAA
Found at i:90218318 original size:30 final size:30
Alignment explanation
Indices: 90218282--90218412 Score: 164
Period size: 30 Copynumber: 4.5 Consensus size: 30
90218272 GACAAGATTG
* * * *
90218282 GCACTAAGTGTGCGGGTTTAAAATTGTACT-
1 GCACTAAGTGTGCGAGCTGAAAATTATA-TA
*
90218312 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
90218340 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
90218370 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
90218399 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
90218413 GATTCACTAT
Statistics
Matches: 92, Mismatches: 4, Indels: 11
0.86 0.04 0.10
Matches are distributed among these distances:
27 3 0.03
28 21 0.23
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:90218374 original size:58 final size:58
Alignment explanation
Indices: 90218282--90218412 Score: 167
Period size: 58 Copynumber: 2.2 Consensus size: 58
90218272 GACAAGATTG
* * * * * *
90218282 GCACTAAGTGTGCGGGTTTAAAATTGTACTGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACTGCACTAAGTGTGCGAG-CTGAAATATATA
90218340 GCACTAAGTGTGCGAGCTGAAAATTATA-TAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACT-GCACTAAGTGTGCGAGCTG-AAATATATA
90218399 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
90218413 GATTCACTAT
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
57 3 0.05
58 40 0.62
59 21 0.33
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACTGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:90224648 original size:10 final size:9
Alignment explanation
Indices: 90224609--90224648 Score: 53
Period size: 9 Copynumber: 4.2 Consensus size: 9
90224599 GGTTTCCATT
90224609 AAAAAAAAGG
1 AAAAAAAA-G
90224619 AAAAAAAAG
1 AAAAAAAAG
*
90224628 AAAGAAAAG
1 AAAAAAAAG
90224637 AAAAAAAGAG
1 AAAAAAA-AG
90224647 AA
1 AA
90224649 TAAATATATG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
9 15 0.56
10 12 0.44
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:90228249 original size:25 final size:25
Alignment explanation
Indices: 90228211--90228394 Score: 273
Period size: 25 Copynumber: 7.4 Consensus size: 25
90228201 AGTTAAGCTT
90228211 GTTAAA-TTGTTCTTAATAATTCCG
1 GTTAAATTTGTTCTTAATAATTCCG
*
90228235 GTTAAATTTGTTCTTAATAATTCCA
1 GTTAAATTTGTTCTTAATAATTCCG
90228260 GTTAAATTTGTTCTTAATAATTCCG
1 GTTAAATTTGTTCTTAATAATTCCG
*
90228285 GTTAAATTTGCTCTTAATAATTCCG
1 GTTAAATTTGTTCTTAATAATTCCG
*
90228310 GTTAAATTTGTTCTTAATAATTCCA
1 GTTAAATTTGTTCTTAATAATTCCG
* *
90228335 GTTAAATTT-TCTCTTAATATTTCCA
1 GTTAAATTTGT-TCTTAATAATTCCG
* * *
90228360 GTTAAATTTGCTCTTAATATTTTCG
1 GTTAAATTTGTTCTTAATAATTCCG
90228385 GTTAAATTTG
1 GTTAAATTTG
90228395 CCCTTATTAT
Statistics
Matches: 148, Mismatches: 9, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
24 7 0.05
25 141 0.95
ACGTcount: A:0.29, C:0.12, G:0.10, T:0.48
Consensus pattern (25 bp):
GTTAAATTTGTTCTTAATAATTCCG
Found at i:90229319 original size:45 final size:46
Alignment explanation
Indices: 90229255--90229432 Score: 274
Period size: 45 Copynumber: 4.0 Consensus size: 46
90229245 TATCGTACAG
* * *
90229255 TACTATTC-GGGCCTTTGAGCCTCGCAGGCTATAATGCCGGTGATA
1 TACTATTCAGGCCCTTCGAGCCTAGCAGGCTATAATGCCGGTGATA
90229300 TACTATTCAGGCCCTT-GAGCCTAGCAGGCTATAATGCCGGTGATA
1 TACTATTCAGGCCCTTCGAGCCTAGCAGGCTATAATGCCGGTGATA
* *
90229345 TACTATTC-GGGCTTTCGAGCCTAGCAGGCTATAATGCCGGTGATA
1 TACTATTCAGGCCCTTCGAGCCTAGCAGGCTATAATGCCGGTGATA
*
90229390 TACTATTCAGG-CCTTCGAGCCTAGTAGGCTATAATGCCGGTGA
1 TACTATTCAGGCCCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
90229433 ATTGATATCG
Statistics
Matches: 124, Mismatches: 6, Indels: 6
0.91 0.04 0.04
Matches are distributed among these distances:
44 5 0.04
45 111 0.90
46 8 0.06
ACGTcount: A:0.22, C:0.24, G:0.26, T:0.28
Consensus pattern (46 bp):
TACTATTCAGGCCCTTCGAGCCTAGCAGGCTATAATGCCGGTGATA
Found at i:90229410 original size:90 final size:89
Alignment explanation
Indices: 90229255--90229474 Score: 308
Period size: 90 Copynumber: 2.5 Consensus size: 89
90229245 TATCGTACAG
*
90229255 TACTATTCGGGCCTTT-GAGCCTCGCAGGCTATAATGCCGGTGATATACTATTCAGGCCCTTGAG
1 TACTATTCGGG-CTTTCGAGCCTAGCAGGCTATAATGCCGGTGATATACTATTCAGGCCCTTGAG
90229319 CCTAGCAGGCTATAATGCCGGTGATA
65 CCTAGCAGGCTATAATGCCGGTGA-A
90229345 TACTATTCGGGCTTTCGAGCCTAGCAGGCTATAATGCCGGTGATATACTATTCAGG-CCTTCGAG
1 TACTATTCGGGCTTTCGAGCCTAGCAGGCTATAATGCCGGTGATATACTATTCAGGCCCTT-GAG
*
90229409 CCTAGTAGGCTATAATGCCGGTGAA
65 CCTAGCAGGCTATAATGCCGGTGAA
* **
90229434 T--TGATATCGGGC-TTCAAGCCTAGCAGGAGA-AATGCCGGTGA
1 TACT-AT-TCGGGCTTTCGAGCCTAGCAGGCTATAATGCCGGTGA
90229475 ATGAATTCGG
Statistics
Matches: 121, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
87 12 0.10
88 17 0.14
89 16 0.13
90 76 0.63
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.27
Consensus pattern (89 bp):
TACTATTCGGGCTTTCGAGCCTAGCAGGCTATAATGCCGGTGATATACTATTCAGGCCCTTGAGC
CTAGCAGGCTATAATGCCGGTGAA
Found at i:90231970 original size:24 final size:24
Alignment explanation
Indices: 90231938--90232066 Score: 199
Period size: 24 Copynumber: 5.4 Consensus size: 24
90231928 CTAGAGGCCT
90231938 AGCCTCTTTTAATAACTGGGGCCA-A
1 AGCC-CTTTTAATAACTGGGG-CATA
*
90231963 AGCCCTTTCAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
90231987 AGCCCTTTT-ATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
90232010 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
90232034 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
90232058 AGCCCTTTT
1 AGCCCTTTT
90232067 TCACTTCCTC
Statistics
Matches: 100, Mismatches: 2, Indels: 5
0.93 0.02 0.05
Matches are distributed among these distances:
23 25 0.25
24 71 0.71
25 4 0.04
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:90232001 original size:47 final size:48
Alignment explanation
Indices: 90231938--90232065 Score: 197
Period size: 47 Copynumber: 2.7 Consensus size: 48
90231928 CTAGAGGCCT
90231938 AGCCTCTTTTAATAACTGGGGCCA-AAGCCCTTTCAATAACTGGGGCATA
1 AGCC-CTTTTAATAACTGGGG-CATAAGCCCTTTCAATAACTGGGGCATA
**
90231987 AGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATAAGCCCTTTCAATAACTGGGGCATA
*
90232034 AGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 AGCCCTTTTAATAACTGGGGCATAAGCCCTTT
90232066 TTCACTTCCT
Statistics
Matches: 75, Mismatches: 2, Indels: 5
0.91 0.02 0.06
Matches are distributed among these distances:
46 2 0.03
47 42 0.56
48 27 0.36
49 4 0.05
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (48 bp):
AGCCCTTTTAATAACTGGGGCATAAGCCCTTTCAATAACTGGGGCATA
Found at i:90232159 original size:19 final size:20
Alignment explanation
Indices: 90232116--90232175 Score: 95
Period size: 20 Copynumber: 3.0 Consensus size: 20
90232106 TTATGATTAC
90232116 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
90232136 ATCATGTGCATATC-TACAT
1 ATCATGTGCATATCATACAT
* *
90232155 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
90232175 A
1 A
90232176 CCATATTTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
19 17 0.47
20 19 0.53
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.35
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:90232250 original size:25 final size:25
Alignment explanation
Indices: 90232218--90232265 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
90232208 ATACATAAAC
* * *
90232218 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
90232243 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
90232266 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:90234638 original size:40 final size:40
Alignment explanation
Indices: 90234579--90234720 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
90234569 AAATTGAATG
* * *
90234579 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
90234619 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
90234659 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
90234699 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
90234721 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:90234721 original size:40 final size:39
Alignment explanation
Indices: 90234618--90234746 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
90234608 TGCTGGAAAT
* * *
90234618 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
90234658 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
90234698 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
90234738 TATATCCGG
1 TATATCCGG
90234747 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:90242205 original size:25 final size:25
Alignment explanation
Indices: 90242046--90242204 Score: 239
Period size: 25 Copynumber: 6.4 Consensus size: 25
90242036 AGTTAAGCTT
90242046 GTTAAA-TTGTTCTTAATAATTCCG
1 GTTAAATTTGTTCTTAATAATTCCG
90242070 GTTAAATTTGTTCTTAATAATTCCG
1 GTTAAATTTGTTCTTAATAATTCCG
*
90242095 GTTAAATTTGCTCTTAATAATTCCG
1 GTTAAATTTGTTCTTAATAATTCCG
*
90242120 GTTAAATTTGTTCTTAATAATTCTG
1 GTTAAATTTGTTCTTAATAATTCCG
* *
90242145 ATTAAATTTGTTCTTAATATTTCCG
1 GTTAAATTTGTTCTTAATAATTCCG
* * **
90242170 GTTAAATTTGCTCTTAATATTTCTA
1 GTTAAATTTGTTCTTAATAATTCCG
90242195 GTTAAATTTG
1 GTTAAATTTG
90242205 CCCTTATTAT
Statistics
Matches: 124, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
24 6 0.05
25 118 0.95
ACGTcount: A:0.28, C:0.11, G:0.11, T:0.49
Consensus pattern (25 bp):
GTTAAATTTGTTCTTAATAATTCCG
Found at i:90242528 original size:2 final size:2
Alignment explanation
Indices: 90242521--90242554 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
90242511 TATGGTAAAG
90242521 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
90242555 GAAAATATGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:90244620 original size:80 final size:80
Alignment explanation
Indices: 90244536--90244684 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
90244526 TATGGTAACC
* * * *
90244536 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
90244600 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
90244616 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
90244681 CCGG
66 CCGG
90244685 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:90244626 original size:40 final size:38
Alignment explanation
Indices: 90244577--90244684 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
90244567 ATCACGATTT
*
90244577 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
90244617 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
90244657 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
90244685 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:90246455 original size:45 final size:45
Alignment explanation
Indices: 90246404--90246646 Score: 363
Period size: 45 Copynumber: 5.5 Consensus size: 45
90246394 GGCTGTCACA
* *
90246404 AGCAGGCTATAATTCCGGTGATATACTATTCGGGCCTTTGAGCCT
1 AGCAGGCTATAATGCCGGTGATATACTATTCGGGCCTTCGAGCCT
90246449 AGCAGGCTATAATGCCGGTGATATACTATTCGGGCCCTT-GAGCCT
1 AGCAGGCTATAATGCCGGTGATATACTATTCGGG-CCTTCGAGCCT
*
90246494 AGCAGGCTATAATGCTGGTGATATACTATTCGGGCCTTCGAGCCT
1 AGCAGGCTATAATGCCGGTGATATACTATTCGGGCCTTCGAGCCT
90246539 AGCAGGCTATAATGCCGGTGATATACTATTCGGGCCTTCGAGCCT
1 AGCAGGCTATAATGCCGGTGATATACTATTCGGGCCTTCGAGCCT
* *
90246584 AGCAGGATATAATGCCAGTGA-AT--TGATATCGGG-CTTCGAGCCT
1 AGCAGGCTATAATGCCGGTGATATACT-AT-TCGGGCCTTCGAGCCT
*
90246627 AGCAGGCGA-AATGCCGGTGA
1 AGCAGGCTATAATGCCGGTGA
90246647 ATGAATTTGG
Statistics
Matches: 186, Mismatches: 8, Indels: 11
0.91 0.04 0.05
Matches are distributed among these distances:
42 11 0.06
43 19 0.10
44 11 0.06
45 141 0.76
46 4 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (45 bp):
AGCAGGCTATAATGCCGGTGATATACTATTCGGGCCTTCGAGCCT
Found at i:90256475 original size:55 final size:55
Alignment explanation
Indices: 90256391--90256516 Score: 173
Period size: 55 Copynumber: 2.3 Consensus size: 55
90256381 AACCGGTGTG
* * **
90256391 CAACACTGACTTTAAAACATAGCCATGGCACACACCCATGTGGTTTGCCCATGTA
1 CAACACTGACTTTAAAACACAGCCATGGCACACACCCATATGGCCTGCCCATGTA
* * * *
90256446 CAACACTGACTTTTAAACACGGCCATGGCACACGCCCGTATGGCCTGCCCATGTA
1 CAACACTGACTTTAAAACACAGCCATGGCACACACCCATATGGCCTGCCCATGTA
90256501 CAACACTGAC-TTAAAA
1 CAACACTGACTTTAAAA
90256517 TTTTAAGTGC
Statistics
Matches: 62, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
54 5 0.08
55 57 0.92
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.21
Consensus pattern (55 bp):
CAACACTGACTTTAAAACACAGCCATGGCACACACCCATATGGCCTGCCCATGTA
Found at i:90257352 original size:49 final size:47
Alignment explanation
Indices: 90257277--90257547 Score: 200
Period size: 47 Copynumber: 5.7 Consensus size: 47
90257267 GGATAAGTTA
* *
90257277 CTGATGCCATGTCCCAGACATAGTCTTACACTGGCTATCGTCATCGAGG
1 CTGATG-CATGTCCCAGACATCGTCTTACACTGGCTATCATC-TCGAGG
* * * * * *
90257326 TTGATGCCATGTCCCAGACATGGTCTTATACTAGCTCTCATAT-GTAAGTG
1 CTGATG-CATGTCCCAGACATCGTCTTACACTGGCTATCATCTCG--AG-G
* * *
90257376 CTGATGCATGTCCC-GAACAT-GTCTTACACTAGC-A-CAACTCTTA-G
1 CTGATGCATGTCCCAG-ACATCGTCTTACACTGGCTATCATCTC-GAGG
*
90257420 CTGATGCATGTCCCAGACA-CGTCTTACACTGGCTATCATCGTCGAGA
1 CTGATGCATGTCCCAGACATCGTCTTACACTGGCTATCATC-TCGAGG
** * * **
90257467 CCAATGCATGTCCCAAACA-CGTCTTACACTGGC-ACTCATCTCTACA
1 CTGATGCATGTCCCAGACATCGTCTTACACTGGCTA-TCATCTCGAGG
* *
90257513 CCGATGCCATGTCCCAGACATGGTCTTACACTGGC
1 CTGATG-CATGTCCCAGACATCGTCTTACACTGGC
90257548 ACACAAGAAA
Statistics
Matches: 182, Mismatches: 25, Indels: 31
0.76 0.11 0.13
Matches are distributed among these distances:
44 30 0.16
45 2 0.01
46 18 0.10
47 50 0.27
48 27 0.15
49 49 0.27
50 6 0.03
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (47 bp):
CTGATGCATGTCCCAGACATCGTCTTACACTGGCTATCATCTCGAGG
Found at i:90269986 original size:44 final size:44
Alignment explanation
Indices: 90269933--90270021 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
90269923 TAGACTTTAT
90269933 AGGCTTTACTGTTTGTAGCATATCCTAAAAACACACTTTCATCA
1 AGGCTTTACTGTTTGTAGCATATCCTAAAAACACACTTTCATCA
90269977 AGGCTTTACTGTTTGTAGCATATCCTAAAAACACACTTTCATCA
1 AGGCTTTACTGTTTGTAGCATATCCTAAAAACACACTTTCATCA
90270021 A
1 A
90270022 ACTTCACTTG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.34
Consensus pattern (44 bp):
AGGCTTTACTGTTTGTAGCATATCCTAAAAACACACTTTCATCA
Found at i:90270964 original size:26 final size:26
Alignment explanation
Indices: 90270935--90270985 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
90270925 TTATTTTATC
90270935 AAATAGTACAT-TAATTTGTTGAAAAA
1 AAATAGTACATATAATTTGTT-AAAAA
* *
90270961 AAATTGTACTTATAATTTGTTAAAA
1 AAATAGTACATATAATTTGTTAAAA
90270986 TATCATTAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 13 0.59
27 9 0.41
ACGTcount: A:0.47, C:0.04, G:0.10, T:0.39
Consensus pattern (26 bp):
AAATAGTACATATAATTTGTTAAAAA
Found at i:90281101 original size:2 final size:2
Alignment explanation
Indices: 90281094--90281123 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
90281084 TATACATGCC
90281094 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
90281124 TGTGATAGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:90286577 original size:18 final size:18
Alignment explanation
Indices: 90286554--90286588 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
90286544 GGACTCACAC
90286554 TTTATATGTATATAATCA
1 TTTATATGTATATAATCA
90286572 TTTATATGTATATAATC
1 TTTATATGTATATAATC
90286589 TTATGATATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.37, C:0.06, G:0.06, T:0.51
Consensus pattern (18 bp):
TTTATATGTATATAATCA
Found at i:90286952 original size:434 final size:433
Alignment explanation
Indices: 90286131--90286963 Score: 1576
Period size: 434 Copynumber: 1.9 Consensus size: 433
90286121 TGTATAGCAT
* *
90286131 TATAATCATTTTGTGTATATAATCTTATGATATGTCTCATGGATGGCATGAAAATGTTTGAGAAT
1 TATAATCATTTTATGTATATAATCTTATGATATGTCTCATGGATGGCATGAAAATGTTTGAGAAC
*
90286196 GATTAGCTATTGGAGTGGCTAATCAAGATTATATTTGATAACACGTATGCTTTATGTGCTAACTA
66 GATTAGCTATTGGAGTGGCTAATCAAGATTATATTTGATAACACGTATGCTTTATATGCTAACTA
*
90286261 ATCTATGGAAATCCATAAAATGGTGAAATTGGCTATAAAACAGAATCACGCAGCAACAGTGAGTG
131 ATCTATGGAAATCCATAAAATGGTGAAATTGGCTATAAAACAGAATCACACAGCAACAGTGAGTG
90286326 AGTTTGAAAAATCACTAAAAATAGTAGAGATAGAATTAGATGATGAATAAAATATGGAATTGAAG
196 AGTTTGAAAAATCACTAAAAATAGTAGAGATAGAATTAGATGATGAATAAAATATGGAATTGAAG
*
90286391 CTTAATGAATATATTTTCATTTCGAAGAAACAAAATAGGTAAAAGAGTTGTATTTTATGATATAT
261 CTTAATGAATATATTTTCATTTCGAAGAAACAAAATAGGTAAAAGAGTTGTATTTTATGAGATAT
*
90286456 TTATGTTTTGGTGAAATAGGGTCAGAGTGATTTCTGGATTTCCTATTCTGACTTTAGAAATTCAT
326 TTATGTTTTGGTGAAACAGGGTCAGAGTGATTTCTGGATTTCCTATTCTGACTTTAGAAATTCAT
90286521 CATAAATTGTGTAAAAATAATTAGGACTCACACTTTATATGTA
391 CATAAATTGTGTAAAAATAATTAGGACTCACACTTTATATGTA
90286564 TATAATCATTTATATGTATATAATCTTATGATATGTCTCATGGATGGCATGAAAATGTTTGAGAA
1 TATAATCATTT-TATGTATATAATCTTATGATATGTCTCATGGATGGCATGAAAATGTTTGAGAA
90286629 CGATTAGCTATTGGAGTGGCTAATCAAGATTATATTTGATAACACGTATGCTTTATATGCTAACT
65 CGATTAGCTATTGGAGTGGCTAATCAAGATTATATTTGATAACACGTATGCTTTATATGCTAACT
90286694 AATCTATGGAAATCCATAAAATGGTGAAATTGGCTATAAAACAGAATCACACAGCAACAGTGAGT
130 AATCTATGGAAATCCATAAAATGGTGAAATTGGCTATAAAACAGAATCACACAGCAACAGTGAGT
*
90286759 GAGTTTGAAAAATCACTAAAAATAGTATAGATAGAATTAGATGATGAATAAAATATGGAATTGAA
195 GAGTTTGAAAAATCACTAAAAATAGTAGAGATAGAATTAGATGATGAATAAAATATGGAATTGAA
*
90286824 GCTTAATGAATATATTTTCATTTCGAAGAAACAAAATCGGTAAAAGAGTTGTATTTTATGAGATA
260 GCTTAATGAATATATTTTCATTTCGAAGAAACAAAATAGGTAAAAGAGTTGTATTTTATGAGATA
*
90286889 TTTATGTTTTGGTGAAACAGGGTCAGAGTGATTTCTGGATTTCCTGTTCTGACTTTAGAAATTCA
325 TTTATGTTTTGGTGAAACAGGGTCAGAGTGATTTCTGGATTTCCTATTCTGACTTTAGAAATTCA
90286954 TCATAAATTG
390 TCATAAATTG
90286964 AGTCTATTTT
Statistics
Matches: 390, Mismatches: 9, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
433 11 0.03
434 379 0.97
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.34
Consensus pattern (433 bp):
TATAATCATTTTATGTATATAATCTTATGATATGTCTCATGGATGGCATGAAAATGTTTGAGAAC
GATTAGCTATTGGAGTGGCTAATCAAGATTATATTTGATAACACGTATGCTTTATATGCTAACTA
ATCTATGGAAATCCATAAAATGGTGAAATTGGCTATAAAACAGAATCACACAGCAACAGTGAGTG
AGTTTGAAAAATCACTAAAAATAGTAGAGATAGAATTAGATGATGAATAAAATATGGAATTGAAG
CTTAATGAATATATTTTCATTTCGAAGAAACAAAATAGGTAAAAGAGTTGTATTTTATGAGATAT
TTATGTTTTGGTGAAACAGGGTCAGAGTGATTTCTGGATTTCCTATTCTGACTTTAGAAATTCAT
CATAAATTGTGTAAAAATAATTAGGACTCACACTTTATATGTA
Found at i:90296428 original size:55 final size:55
Alignment explanation
Indices: 90296363--90296473 Score: 222
Period size: 55 Copynumber: 2.0 Consensus size: 55
90296353 TTTTGAGTAT
90296363 GACTCTACTAATTTGGGCTATTTATGGTCTTTTCTCTTTTAGGGACTAAATTGAA
1 GACTCTACTAATTTGGGCTATTTATGGTCTTTTCTCTTTTAGGGACTAAATTGAA
90296418 GACTCTACTAATTTGGGCTATTTATGGTCTTTTCTCTTTTAGGGACTAAATTGAA
1 GACTCTACTAATTTGGGCTATTTATGGTCTTTTCTCTTTTAGGGACTAAATTGAA
90296473 G
1 G
90296474 GAAAAAAGTA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.23, C:0.14, G:0.19, T:0.43
Consensus pattern (55 bp):
GACTCTACTAATTTGGGCTATTTATGGTCTTTTCTCTTTTAGGGACTAAATTGAA
Found at i:90296699 original size:10 final size:10
Alignment explanation
Indices: 90296684--90296733 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
90296674 AAATTTTAGG
90296684 ATTTAT-TTT
1 ATTTATCTTT
90296693 CATTTATCTTT
1 -ATTTATCTTT
*
90296704 AATTATCTTT
1 ATTTATCTTT
90296714 ATTTAT-TTGT
1 ATTTATCTT-T
*
90296724 AATTATCTTT
1 ATTTATCTTT
90296734 TAGAATTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
9 2 0.06
10 27 0.79
11 5 0.15
ACGTcount: A:0.24, C:0.08, G:0.02, T:0.66
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:90296717 original size:20 final size:20
Alignment explanation
Indices: 90296694--90296733 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
90296684 ATTTATTTTC
90296694 ATTTATCTT-TAATTATCTTT
1 ATTTAT-TTGTAATTATCTTT
90296714 ATTTATTTGTAATTATCTTT
1 ATTTATTTGTAATTATCTTT
90296734 TAGAATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.25, C:0.07, G:0.03, T:0.65
Consensus pattern (20 bp):
ATTTATTTGTAATTATCTTT
Found at i:90297481 original size:17 final size:18
Alignment explanation
Indices: 90297449--90297482 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
90297439 TTTTCCTCAT
90297449 TTTAATTTCTGCAATTTA
1 TTTAATTTCTGCAATTTA
90297467 TTTAATTTC-GCAATTT
1 TTTAATTTCTGCAATTT
90297483 CAATTCACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.26, C:0.12, G:0.06, T:0.56
Consensus pattern (18 bp):
TTTAATTTCTGCAATTTA
Found at i:90297520 original size:21 final size:21
Alignment explanation
Indices: 90297494--90297534 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
90297484 AATTCACTTT
90297494 AAATTCTGT-TTTTATTTTTCC
1 AAATTCT-TATTTTATTTTTCC
90297515 AAATTCTTAATTTTATTTTT
1 AAATTCTT-ATTTTATTTTT
90297535 TTATTTTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 1 0.06
21 7 0.39
22 10 0.56
ACGTcount: A:0.24, C:0.10, G:0.02, T:0.63
Consensus pattern (21 bp):
AAATTCTTATTTTATTTTTCC
Found at i:90298088 original size:18 final size:18
Alignment explanation
Indices: 90298069--90298146 Score: 65
Period size: 18 Copynumber: 4.3 Consensus size: 18
90298059 AAATTGTAAA
*
90298069 AAAAATTTAAAAATA--T
1 AAAAATATAAAAATATTT
90298085 -AAAATATAAAAATATTT
1 AAAAATATAAAAATATTT
* *
90298102 ACTAAAT-TAAAAACATTT
1 A-AAAATATAAAAATATTT
90298120 AATAAATTATAAAAATTATTT
1 AA-AAA-TATAAAAA-TATTT
90298141 AAAAAT
1 AAAAAT
90298147 TTTAAAAGTC
Statistics
Matches: 49, Mismatches: 5, Indels: 13
0.73 0.07 0.19
Matches are distributed among these distances:
15 13 0.27
17 1 0.02
18 14 0.29
19 6 0.12
20 9 0.18
21 6 0.12
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.35
Consensus pattern (18 bp):
AAAAATATAAAAATATTT
Found at i:90298094 original size:15 final size:15
Alignment explanation
Indices: 90298070--90298099 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
90298060 AATTGTAAAA
*
90298070 AAAATTTAAAAATAT
1 AAAATATAAAAATAT
90298085 AAAATATAAAAATAT
1 AAAATATAAAAATAT
90298100 TTACTAAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
AAAATATAAAAATAT
Found at i:90298134 original size:20 final size:20
Alignment explanation
Indices: 90298083--90298153 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
90298073 ATTTAAAAAT
*
90298083 ATAAAATATAAAAATATTTA
1 ATAAATTATAAAAATATTTA
* *
90298103 CTAAA-T-TAAAAACATTTA
1 ATAAATTATAAAAATATTTA
90298121 ATAAATTATAAAAATTATTTA
1 ATAAATTATAAAAA-TATTTA
*
90298142 A-AAATTTTAAAA
1 ATAAATTATAAAA
90298154 GTCATTAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
18 15 0.35
19 2 0.05
20 20 0.47
21 6 0.14
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (20 bp):
ATAAATTATAAAAATATTTA
Found at i:90298137 original size:9 final size:9
Alignment explanation
Indices: 90298069--90298185 Score: 50
Period size: 9 Copynumber: 12.8 Consensus size: 9
90298059 AAATTGTAAA
90298069 AAAAATT-T
1 AAAAATTAT
90298077 AAAAA-TAT
1 AAAAATTAT
90298085 -AAAA-TAT
1 AAAAATTAT
*
90298092 AAAAATATTT
1 AAAAAT-TAT
*
90298102 ACTAAATTA-
1 A-AAAATTAT
90298111 AAAACATT-T
1 AAAA-ATTAT
90298120 AATAAATTAT
1 AA-AAATTAT
90298130 AAAAATTATTT
1 AAAAATTA--T
*
90298141 AAAAATTTT
1 AAAAATTAT
* *
90298150 AAAAGTCATT
1 AAAAATTA-T
90298160 AAAAATT-T
1 AAAAATTAT
*
90298168 AAAATAATAT
1 AAAA-ATTAT
90298178 AACAAATT
1 AA-AAATT
90298186 CAATAAGTGG
Statistics
Matches: 82, Mismatches: 12, Indels: 28
0.67 0.10 0.23
Matches are distributed among these distances:
7 8 0.10
8 17 0.21
9 23 0.28
10 20 0.24
11 14 0.17
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (9 bp):
AAAAATTAT
Found at i:90298164 original size:20 final size:20
Alignment explanation
Indices: 90298109--90298164 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 20
90298099 TTTACTAAAT
*
90298109 TAAAAA-CATTTAATAAATTA
1 TAAAAATCA-TTAAAAAATTA
* * *
90298129 TAAAAATTATTTAAAAATTT
1 TAAAAATCATTAAAAAATTA
*
90298149 TAAAAGTCATTAAAAA
1 TAAAAATCATTAAAAA
90298165 TTTAAAATAA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
20 27 0.96
21 1 0.04
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.36
Consensus pattern (20 bp):
TAAAAATCATTAAAAAATTA
Found at i:90298923 original size:28 final size:29
Alignment explanation
Indices: 90298876--90298932 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
90298866 ATATAATATG
* *
90298876 TAAAAATATAAAATGAATTAGATTAAATA
1 TAAAAATATAAAATCAATTAGATAAAATA
* *
90298905 TAAAAATAT-TAATCAATTATATAAAATA
1 TAAAAATATAAAATCAATTAGATAAAATA
90298933 ATCATTAGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 15 0.62
29 9 0.38
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (29 bp):
TAAAAATATAAAATCAATTAGATAAAATA
Found at i:90300161 original size:13 final size:13
Alignment explanation
Indices: 90300143--90300174 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
90300133 TGCAAAGTCC
90300143 ACATATTGTTAAT
1 ACATATTGTTAAT
90300156 ACATATTGTTAAT
1 ACATATTGTTAAT
*
90300169 ATATAT
1 ACATAT
90300175 AGTTGATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (13 bp):
ACATATTGTTAAT
Found at i:90302464 original size:12 final size:12
Alignment explanation
Indices: 90302449--90302475 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
90302439 AAGAATAGAG
90302449 AATTAAAAAATA
1 AATTAAAAAATA
90302461 AATTAAAAAATA
1 AATTAAAAAATA
90302473 AAT
1 AAT
90302476 AACCAAATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (12 bp):
AATTAAAAAATA
Found at i:90305079 original size:43 final size:43
Alignment explanation
Indices: 90305031--90305196 Score: 164
Period size: 44 Copynumber: 3.9 Consensus size: 43
90305021 GATTCCGGTA
90305031 TGTGATTATGTGTAAGACCACGTTTGGGACGTTGGCATCGATT
1 TGTGATTATGTGTAAGACCACGTTTGGGACGTTGGCATCGATT
* * * *
90305074 TGTGATTTATGTGTAAGACCATGTTTGGAACATCGGCATC-ATAT
1 TGTGA-TTATGTGTAAGACCACGTTTGGGACGTTGGCATCGAT-T
* *
90305118 T-TGATTA-GTGTAAGACC-C-TATCTAGGACAG-TGGCATCGATA
1 TGTGATTATGTGTAAGACCACGT-T-TGGGAC-GTTGGCATCGATT
** *
90305159 TGTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTGATTATGTGTAAGACCACGTTTGGGACGTTGGCAT
90305197 TGTACGAGCT
Statistics
Matches: 99, Mismatches: 13, Indels: 22
0.74 0.10 0.16
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 21 0.21
42 12 0.12
43 30 0.30
44 33 0.33
45 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.33
Consensus pattern (43 bp):
TGTGATTATGTGTAAGACCACGTTTGGGACGTTGGCATCGATT
Found at i:90307085 original size:2 final size:2
Alignment explanation
Indices: 90307078--90307116 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
90307068 GTTAATGACG
90307078 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
90307117 TAATGATTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:90316252 original size:26 final size:26
Alignment explanation
Indices: 90316223--90316332 Score: 168
Period size: 26 Copynumber: 4.2 Consensus size: 26
90316213 TGGTACAAAT
90316223 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
*
90316249 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
* *
90316275 TGATAATGGGTTAAGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
90316301 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
90316327 TGATAA
1 TGATAA
90316333 GAATTTCATG
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
26 76 0.97
27 2 0.03
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:90317814 original size:27 final size:26
Alignment explanation
Indices: 90317793--90317842 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
90317783 AATACCTTTA
*
90317793 AAGTGGAAAATTACTGTTATACCCCT
1 AAGTGCAAAATTACTGTTATACCCCT
* *
90317819 AGGTGCAAAATTACCGTTATACCC
1 AAGTGCAAAATTACTGTTATACCC
90317843 GTAGGGTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (26 bp):
AAGTGCAAAATTACTGTTATACCCCT
Found at i:90317990 original size:27 final size:27
Alignment explanation
Indices: 90317949--90318061 Score: 129
Period size: 27 Copynumber: 4.2 Consensus size: 27
90317939 GAGGAAGCGT
*
90317949 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
90317976 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
90318003 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
90318031 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
90318057 TCTGG
1 TCTGG
90318062 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
26 5 0.07
27 55 0.73
28 15 0.20
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:90318054 original size:54 final size:54
Alignment explanation
Indices: 90317947--90318061 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
90317937 TGGAGGAAGC
*
90317947 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * * *
90318001 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
90318055 GTTCTGG
1 GTTCTGG
90318062 CAGCCATGCT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:90319672 original size:83 final size:82
Alignment explanation
Indices: 90319473--90319690 Score: 323
Period size: 81 Copynumber: 2.7 Consensus size: 82
90319463 AGATGCTCCT
* * *
90319473 GAGTAAAATGAGACAAATATATGGTAAGTATAAGAGTTAAACAATTGCCAGGTTGTTTATAAAAT
1 GAGTAAAATGAGACAAATATATGGTAAGTATAAGAGTTAAATAATTGTCAAGTTGTTTATAAAAT
*
90319538 CCTACGCTGTTATTATA
66 CCTACACTGTTATTATA
* * *
90319555 -TGTAAAATGAGACAAATATATGGTAAGTATAAGAGTTTAATAATTGTCAAGTTGTTTATAAACT
1 GAGTAAAATGAGACAAATATATGGTAAGTATAAGAGTTAAATAATTGTCAAGTTGTTTATAAAAT
90319619 CCTACACTGTT-TTGATA
66 CCTACACTGTTATT-ATA
* *
90319636 CGAGTAAAATGAGACAAATATATGGTAAGTATAAGAGTTCAATAATTGTAAAGTT
1 -GAGTAAAATGAGACAAATATATGGTAAGTATAAGAGTTAAATAATTGTCAAGTT
90319691 TTTTTTTATC
Statistics
Matches: 123, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
80 2 0.02
81 71 0.58
83 50 0.41
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.33
Consensus pattern (82 bp):
GAGTAAAATGAGACAAATATATGGTAAGTATAAGAGTTAAATAATTGTCAAGTTGTTTATAAAAT
CCTACACTGTTATTATA
Found at i:90331899 original size:26 final size:26
Alignment explanation
Indices: 90331868--90331949 Score: 164
Period size: 26 Copynumber: 3.2 Consensus size: 26
90331858 ATGAAATTCC
90331868 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
90331894 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
90331920 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
90331946 ATCA
1 ATCA
90331950 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.35, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:90338810 original size:26 final size:26
Alignment explanation
Indices: 90338774--90338881 Score: 207
Period size: 26 Copynumber: 4.2 Consensus size: 26
90338764 TGAAATTCCA
90338774 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
90338800 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
90338826 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
90338852 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
90338878 ATCA
1 ATCA
90338882 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.36, C:0.27, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:90340985 original size:30 final size:30
Alignment explanation
Indices: 90340943--90341008 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
90340933 TGTAGTATAA
*
90340943 CATATCAGATCAAACCATAGCATATCATAT
1 CATATCAGATCAAACCATAGCATAACATAT
**
90340973 CATATC-GAATCAAATTATAGCATAACATAT
1 CATATCAG-ATCAAACCATAGCATAACATAT
90341003 CATATC
1 CATATC
90341009 CTACTCCCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
29 1 0.03
30 31 0.97
ACGTcount: A:0.44, C:0.21, G:0.06, T:0.29
Consensus pattern (30 bp):
CATATCAGATCAAACCATAGCATAACATAT
Found at i:90346267 original size:32 final size:32
Alignment explanation
Indices: 90346226--90346295 Score: 106
Period size: 32 Copynumber: 2.2 Consensus size: 32
90346216 CCTAGCAGAC
*
90346226 GCCCATGTGGCCCACACT-ATCCAATTAACCCA
1 GCCCATGTGGCCCACA-TGACCCAATTAACCCA
90346258 GCCCATGTGGCCCACATGACCCAATTAACCCA
1 GCCCATGTGGCCCACATGACCCAATTAACCCA
*
90346290 ACCCAT
1 GCCCAT
90346296 ATGGGTCACA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
31 1 0.03
32 34 0.97
ACGTcount: A:0.29, C:0.41, G:0.13, T:0.17
Consensus pattern (32 bp):
GCCCATGTGGCCCACATGACCCAATTAACCCA
Found at i:90347734 original size:32 final size:33
Alignment explanation
Indices: 90347656--90347750 Score: 129
Period size: 33 Copynumber: 2.9 Consensus size: 33
90347646 TTTTGTTTTA
* *
90347656 TGTTTACTATCCTAGCAAACTATCTATGTTCTG
1 TGTTTACTATCCTAACAGACTATCTATGTTCTG
*
90347689 TGTTTACTATCCTAACAGACTATCTTTGTTCTG
1 TGTTTACTATCCTAACAGACTATCTATGTTCTG
* * *
90347722 TG-TTACTGTCCTAACAGACTTTCTCTGTT
1 TGTTTACTATCCTAACAGACTATCTATGTT
90347751 GATTCCATGG
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
32 24 0.43
33 32 0.57
ACGTcount: A:0.21, C:0.22, G:0.13, T:0.44
Consensus pattern (33 bp):
TGTTTACTATCCTAACAGACTATCTATGTTCTG
Found at i:90353923 original size:57 final size:56
Alignment explanation
Indices: 90353850--90353992 Score: 187
Period size: 57 Copynumber: 2.5 Consensus size: 56
90353840 CGCCATGAGG
*
90353850 GCGTCCTTTAATAGAGATAGCCACAAAGGAATCTATTTAACAGAGATAGCCACAAAT
1 GCGTCCTTTAACAGAGATAGCCACAAAGGAAT-TATTTAACAGAGATAGCCACAAAT
* * * * *
90353907 GTGTCCTTTAACAGAGATAGCCATAAAGGCATTCTTTAATAGAGATAGCCACAAAT
1 GCGTCCTTTAACAGAGATAGCCACAAAGGAATTATTTAACAGAGATAGCCACAAAT
* * *
90353963 GCATCCATTCAACAAAGATAGCCACAAAGG
1 GCGTCC-TTTAACAGAGATAGCCACAAAGG
90353993 CTCACTTTTA
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
56 26 0.35
57 48 0.65
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.22
Consensus pattern (56 bp):
GCGTCCTTTAACAGAGATAGCCACAAAGGAATTATTTAACAGAGATAGCCACAAAT
Found at i:90353925 original size:28 final size:28
Alignment explanation
Indices: 90353853--90354078 Score: 156
Period size: 28 Copynumber: 8.0 Consensus size: 28
90353843 CATGAGGGCG
* *
90353853 TCCTTTAATAGAGATAGCCACAAAGGAA
1 TCCTTTAACAGAGATAGCCACAAAGGCA
* * **
90353881 TCTATTTAACAGAGATAGCCACAAATGTG
1 TC-CTTTAACAGAGATAGCCACAAAGGCA
*
90353910 TCCTTTAACAGAGATAGCCATAAAGGCA
1 TCCTTTAACAGAGATAGCCACAAAGGCA
* * *
90353938 TTCTTTAATAGAGATAGCCACAAATGCA
1 TCCTTTAACAGAGATAGCCACAAAGGCA
* *
90353966 TCCATTCAACAAAGATAGCCACAAAGGC-
1 TCC-TTTAACAGAGATAGCCACAAAGGCA
* * *
90353994 TCACTTTTACACGTATACAGCCACAAAGG-A
1 TC-CTTTAACA-G-AGATAGCCACAAAGGCA
* * * *
90354024 TTCATTTATCA-ATGATCGCCACATAGGC-
1 -TCCTTTAACAGA-GATAGCCACAAAGGCA
* *
90354052 TCACTTTTA-ATAGATAGCCACAAAGGC
1 TC-CTTTAACAGAGATAGCCACAAAGGC
90354079 TTCCAGAGAT
Statistics
Matches: 151, Mismatches: 36, Indels: 23
0.72 0.17 0.11
Matches are distributed among these distances:
27 17 0.11
28 70 0.46
29 44 0.29
30 18 0.12
31 2 0.01
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.24
Consensus pattern (28 bp):
TCCTTTAACAGAGATAGCCACAAAGGCA
Found at i:90358472 original size:6 final size:6
Alignment explanation
Indices: 90358420--90358471 Score: 86
Period size: 6 Copynumber: 8.7 Consensus size: 6
90358410 ATATTTTCTC
* *
90358420 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT GTATAT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
90358468 ATAT
1 ATAT
90358472 AGCGAGGGAA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (6 bp):
ATATGT
Found at i:90361889 original size:2 final size:2
Alignment explanation
Indices: 90361882--90361910 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
90361872 GAGACTAGTC
90361882 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
90361911 CATGTCATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:90363169 original size:64 final size:63
Alignment explanation
Indices: 90362993--90363250 Score: 182
Period size: 68 Copynumber: 3.9 Consensus size: 63
90362983 CATATAGTTC
* * * * *
90362993 AGCTCTCTTGTAC-ACATGGTGAACACTCAGTACCACCCATGTGACCTAGCCA-ATTTATCTCGT
1 AGCTCTCTTG-ACTACATGGTGTACACT-AGTACCACCCATGCGACCTAGCTACATATATCCCGT
* * * * *
90363056 AGCTCT-TTGTCTACATGGTGTCCTTCACCTGGAACCACGCATGCGACCTAGCTACATATATCCC
1 AGCTCTCTTGACTACATGGTG---TACA-CTAGTACCACCCATGCGACCTAGCTACATATATCCC
90363120 GT
62 GT
* * *
90363122 AGCTCTCTTGCCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATGTCT
1 AGCTCTCTTGACTACATGGTGTACAC-TAGTACCACCCATGCGACCTAGCTACAT-AT-A--TCC
*
90363187 TGT
61 CGT
* * * ** *
90363190 AGCTCTCTTGTAC-ACATGATGTGCACTCAGCACCATACATGTGACCTAGCTACATACTATC
1 AGCTCTCTTG-ACTACATGGTGTACACT-AGTACCACCCATGCGACCTAGCTACATA-TATC
90363251 TGTATCATCC
Statistics
Matches: 154, Mismatches: 26, Indels: 28
0.74 0.12 0.13
Matches are distributed among these distances:
61 1 0.01
62 11 0.07
63 7 0.05
64 27 0.18
65 25 0.16
66 18 0.12
67 16 0.10
68 48 0.31
69 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (63 bp):
AGCTCTCTTGACTACATGGTGTACACTAGTACCACCCATGCGACCTAGCTACATATATCCCGT
Found at i:90363945 original size:30 final size:30
Alignment explanation
Indices: 90363911--90363971 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
90363901 TCCTTAACTC
90363911 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
90363941 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
90363971 A
1 A
90363972 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:90365949 original size:33 final size:33
Alignment explanation
Indices: 90365912--90365978 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
90365902 AAACAAAATG
*
90365912 ACATAGCTTGATTTTAGGACTAAAAGATGAAAA
1 ACATAGCTTGATTTTAAGACTAAAAGATGAAAA
90365945 ACATAGCTTGATTTTAAGACTAAAAGATGAAAA
1 ACATAGCTTGATTTTAAGACTAAAAGATGAAAA
90365978 A
1 A
90365979 TGTAAAAGAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.48, C:0.09, G:0.16, T:0.27
Consensus pattern (33 bp):
ACATAGCTTGATTTTAAGACTAAAAGATGAAAA
Found at i:90366892 original size:26 final size:26
Alignment explanation
Indices: 90366856--90366905 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
90366846 CCTATGGCCA
*
90366856 AAAAAAAAAGATAGAAGAAA-AGAAAG
1 AAAAAAAAAGAGA-AAGAAATAGAAAG
90366882 AAAAAAAAAGAGAAAGAAATAGAA
1 AAAAAAAAAGAGAAAGAAATAGAA
90366906 TGCTTATAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 6 0.27
26 16 0.73
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.04
Consensus pattern (26 bp):
AAAAAAAAAGAGAAAGAAATAGAAAG
Found at i:90367526 original size:42 final size:42
Alignment explanation
Indices: 90367479--90367676 Score: 245
Period size: 42 Copynumber: 4.7 Consensus size: 42
90367469 GTAAACAGAA
*
90367479 CTCTACACCTGGGTCTCTAAATGCAATGAAAAGTGAATAGAC
1 CTCTACACCTGGGTCTCTAAATGCAATGAAAAGTGAATGGAC
* * * *
90367521 TTCTACACCTGGTTCTTTAGATGCAATGAAAAGTGAATGGAC
1 CTCTACACCTGGGTCTCTAAATGCAATGAAAAGTGAATGGAC
* *
90367563 CTCTACACCTAGGTCTCTAGATGCAATGAAAAGTGAATGGAC
1 CTCTACACCTGGGTCTCTAAATGCAATGAAAAGTGAATGGAC
* * * *
90367605 CTCTACACTTGGGTCTCTAAATGCAACGAAAAGTAAATGGAT
1 CTCTACACCTGGGTCTCTAAATGCAATGAAAAGTGAATGGAC
* * * *
90367647 CTCCACACGTAGG-CATCTAAATGAAATGAA
1 CTCTACACCTGGGTC-TCTAAATGCAATGAA
90367677 TGTTTTCTTT
Statistics
Matches: 135, Mismatches: 20, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
41 1 0.01
42 134 0.99
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (42 bp):
CTCTACACCTGGGTCTCTAAATGCAATGAAAAGTGAATGGAC
Found at i:90368128 original size:20 final size:20
Alignment explanation
Indices: 90368091--90368127 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
90368081 ATTTTTATGG
90368091 TTTCTTTTTGTCTTTTTTGT
1 TTTCTTTTTGTCTTTTTTGT
90368111 TTTCTTTTTGT-TTTTTT
1 TTTCTTTTTGTCTTTTTT
90368128 TTTCATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.84
Consensus pattern (20 bp):
TTTCTTTTTGTCTTTTTTGT
Found at i:90373739 original size:45 final size:45
Alignment explanation
Indices: 90373689--90373917 Score: 178
Period size: 45 Copynumber: 5.0 Consensus size: 45
90373679 AATTGACGGT
*
90373689 TAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGG
1 TAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGA
* * * *
90373734 TAAGGAT-CTCATGTAAGACTATGTCAAG--ATGGCATCGGCATTGA
1 TAAGGATAC-CATGTAAGACCATGTCAAGACATGGCATTGGTA-AGA
* ** ** *
90373778 TTAAGGACT-CCATGTAAGACTACATCAAGATGTGGCATTGGCACTAATA
1 -TAAGGA-TACCATGTAAGACCATGTCAAGACATGGCATTGG---TAAGA
***
90373827 TAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGA
1 TAAGGATACCATGTAAGACCATGTCAAG-ACATGGCA-TTGGTAAGA
* * * * *
90373874 TAATGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAG
1 TAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAG
90373918 TTCTATAAGG
Statistics
Matches: 143, Mismatches: 29, Indels: 24
0.73 0.15 0.12
Matches are distributed among these distances:
43 10 0.07
44 2 0.01
45 55 0.38
46 9 0.06
47 35 0.24
48 20 0.14
49 7 0.05
50 5 0.03
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (45 bp):
TAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGA
Found at i:90374004 original size:55 final size:54
Alignment explanation
Indices: 90373878--90374071 Score: 248
Period size: 55 Copynumber: 3.6 Consensus size: 54
90373868 GTAAGATAAT
* * *
90373878 GATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAG
* * * *
90373932 GAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGAAAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGG-CAAG
* * *
90373988 G-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAG
* *
90374040 GATACCACGTAAGACCATGTCAAGACATGGCA
1 GATACCATGTAAGACCATGCCAAGACATGGCA
90374072 ATGGTAAGTT
Statistics
Matches: 121, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
52 4 0.03
53 32 0.26
54 39 0.32
55 42 0.35
56 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.22
Consensus pattern (54 bp):
GATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAG
Found at i:90374097 original size:108 final size:109
Alignment explanation
Indices: 90373883--90374093 Score: 318
Period size: 108 Copynumber: 2.0 Consensus size: 109
90373873 ATAATGATAT
* *
90373883 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAACCACGTAAGACC
* * * *
90373948 ATGTCAAGACATGGCATTGATGAGTTACTATAAGGAAAAGGTCC
66 ATGTCAAGACATGGCAATGATAAGTTACAAAAAGGAAAAGGTCC
* * *
90373992 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAGGATACCACGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAACCACGTAAGACC
*
90374056 ATGTCAAGACATGGCAATGGTAAGTT-CAAAAAGGAAAA
66 ATGTCAAGACATGGCAATGATAAGTTACAAAAAGGAAAA
90374094 AGGTTCCCGA
Statistics
Matches: 92, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
107 10 0.11
108 46 0.50
109 36 0.39
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.21
Consensus pattern (109 bp):
CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAACCACGTAAGACC
ATGTCAAGACATGGCAATGATAAGTTACAAAAAGGAAAAGGTCC
Found at i:90379416 original size:40 final size:40
Alignment explanation
Indices: 90379358--90379525 Score: 198
Period size: 40 Copynumber: 4.2 Consensus size: 40
90379348 TCTTCGAGAT
*
90379358 TTAG-CCGGATATAACAACTCACACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAGCAACTCACACAAATGCCTTCGGGTC
*
90379397 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAGCAACTCACACAAATGCCTTCGGGTC
* * *
90379437 TTAGCCCGGATATAATC-ACT-AGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATAT-AGCAACTCA-CACAAATGCCTTCGGGTC
* * * * *
90379477 ATAGCCCGGATATAGCAACTCGCACGAATGCCTTTGGATC
1 TTAGCCCGGATATAGCAACTCACACAAATGCCTTCGGGTC
*
90379517 TTAGTCCGG
1 TTAGCCCGG
90379526 TTATCATCCG
Statistics
Matches: 108, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
39 6 0.06
40 100 0.93
41 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAGCAACTCACACAAATGCCTTCGGGTC
Found at i:90379482 original size:80 final size:79
Alignment explanation
Indices: 90379349--90379525 Score: 234
Period size: 80 Copynumber: 2.2 Consensus size: 79
90379339 ACCCAAGTAT
* *
90379349 CTTCGAGAT-TTAGCCGGATATAACAACTCACACAAATGCCTTCGGGTCTTAGCCCGGATATAGC
1 CTTCG-GATCTTAGCCGGATATAACAACTCACACAAATGCCTTCGGGACATAGCCCGGATATAGC
90379413 AACTCGCACAAATGC
65 AACTCGCACAAATGC
* *
90379428 CTTCGGGTCTTAGCCCGGATATAATC-ACT-AGCATAAATGCCTTCGGGACATAGCCCGGATATA
1 CTTCGGATCTTAG-CCGGATATAA-CAACTCA-CACAAATGCCTTCGGGACATAGCCCGGATATA
*
90379491 GCAACTCGCACGAATGC
63 GCAACTCGCACAAATGC
*
90379508 CTTTGGATCTTAGTCCGG
1 CTTCGGATCTTAG-CCGG
90379526 TTATCATCCG
Statistics
Matches: 86, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
78 2 0.02
79 10 0.12
80 73 0.85
81 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (79 bp):
CTTCGGATCTTAGCCGGATATAACAACTCACACAAATGCCTTCGGGACATAGCCCGGATATAGCA
ACTCGCACAAATGC
Found at i:90380032 original size:44 final size:44
Alignment explanation
Indices: 90379983--90380070 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
90379973 CAAGATAAAG
90379983 CCATCAATATGCTTACCTATAGCCGAACGTACAACATCAATCTA
1 CCATCAATATGCTTACCTATAGCCGAACGTACAACATCAATCTA
90380027 CCATCAATATGCTTACCTATAGCCGAACGTACAACATCAATCTA
1 CCATCAATATGCTTACCTATAGCCGAACGTACAACATCAATCTA
90380071 TGTATTCATT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.36, C:0.30, G:0.09, T:0.25
Consensus pattern (44 bp):
CCATCAATATGCTTACCTATAGCCGAACGTACAACATCAATCTA
Found at i:90382615 original size:4 final size:4
Alignment explanation
Indices: 90382606--90382650 Score: 72
Period size: 4 Copynumber: 11.2 Consensus size: 4
90382596 GAACAAATAG
* *
90382606 ATGA ATGA ATGA ATGA ATGA ATGA ACGA ACGA ATGA ATGA ATGA A
1 ATGA ATGA ATGA ATGA ATGA ATGA ATGA ATGA ATGA ATGA ATGA A
90382651 ATTAGGGCAC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.51, C:0.04, G:0.24, T:0.20
Consensus pattern (4 bp):
ATGA
Found at i:90388665 original size:6 final size:6
Alignment explanation
Indices: 90388638--90388719 Score: 67
Period size: 6 Copynumber: 13.5 Consensus size: 6
90388628 ATAGGAAAAC
* ** *
90388638 AAAATA GAAATA AAAAGG AAAATA AAAATA AAAGATA AAAGATA AACATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAA-ATA AAA-ATA AAAATA
* * * *
90388688 AACATA AACATA AACATA AACATA AAAA-A AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAA
90388720 TCAGACTCAA
Statistics
Matches: 67, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
5 4 0.06
6 51 0.76
7 12 0.18
ACGTcount: A:0.74, C:0.06, G:0.06, T:0.13
Consensus pattern (6 bp):
AAAATA
Found at i:90390850 original size:17 final size:17
Alignment explanation
Indices: 90390828--90390866 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
90390818 TGTGGCTCGG
*
90390828 CCGTGTCTCGTACACGA
1 CCGTGTCTCGCACACGA
*
90390845 CCGTGTCTCGCACACGG
1 CCGTGTCTCGCACACGA
90390862 CCGTG
1 CCGTG
90390867 GGCTTTGCCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.13, C:0.38, G:0.28, T:0.21
Consensus pattern (17 bp):
CCGTGTCTCGCACACGA
Found at i:90401094 original size:10 final size:10
Alignment explanation
Indices: 90401081--90401116 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
90401071 AATAGATATG
90401081 AAAATAAATA
1 AAAATAAATA
*
90401091 AAAACGAAATA
1 AAAA-TAAATA
90401102 AAAATAAATA
1 AAAATAAATA
90401112 AAAAT
1 AAAAT
90401117 TATACAAGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.17
Consensus pattern (10 bp):
AAAATAAATA
Found at i:90401168 original size:24 final size:25
Alignment explanation
Indices: 90401140--90401186 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
90401130 ATAAATATAA
90401140 AACATTAAA-ATA-AAGTGTATAATT
1 AACATTAAATATATAA-TGTATAATT
90401164 AACATTAAATATATAATGTATAA
1 AACATTAAATATATAATGTATAA
90401187 ATGCAAGTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 9 0.43
25 10 0.48
26 2 0.10
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.34
Consensus pattern (25 bp):
AACATTAAATATATAATGTATAATT
Found at i:90402169 original size:16 final size:14
Alignment explanation
Indices: 90402143--90402185 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
90402133 GCCTATGGCC
90402143 AAAAAAAAAAGATAA
1 AAAAAAAAAAGA-AA
*
90402158 AAGAAAAGAAAGAAA
1 AA-AAAAAAAAGAAA
*
90402173 AAAAAAAATAGAA
1 AAAAAAAAAAGAA
90402186 TGCTTGTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 9 0.38
15 6 0.25
16 9 0.38
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.05
Consensus pattern (14 bp):
AAAAAAAAAAGAAA
Found at i:90402316 original size:3 final size:3
Alignment explanation
Indices: 90402308--90402376 Score: 75
Period size: 3 Copynumber: 22.7 Consensus size: 3
90402298 GTAAAAAATG
* *
90402308 ATA ATA ATA ATA ATA ATA ATA ATA AAA ATA ATA TTTA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA
* * * *
90402354 ATA GTA GTG ATG ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA AT
90402377 TTAGGCCTCG
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
3 55 0.96
4 2 0.04
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:90403322 original size:20 final size:20
Alignment explanation
Indices: 90403286--90403359 Score: 54
Period size: 20 Copynumber: 3.9 Consensus size: 20
90403276 AAATTTTAAA
*
90403286 AATATATTTTTATATTTTTT
1 AATATATTTTAATATTTTTT
90403306 AATA-ATTTTAATGA-TTTTT
1 AATATATTTTAAT-ATTTTTT
*
90403325 AA-AT-TTTTAAAATAATTTTT
1 AATATATTTT--AATATTTTTT
90403345 -ATA-ATTTTAA-ATTTT
1 AATATATTTTAATATTTT
90403360 AAAAAATTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 17
0.70 0.03 0.27
Matches are distributed among these distances:
17 4 0.09
18 7 0.16
19 16 0.36
20 18 0.40
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (20 bp):
AATATATTTTAATATTTTTT
Found at i:90403333 original size:50 final size:49
Alignment explanation
Indices: 90403252--90403357 Score: 126
Period size: 48 Copynumber: 2.1 Consensus size: 49
90403242 CATGTCAGGA
*
90403252 TTTAATTAATTTTTAAAATTTTAAAAATTTTAAAAATATATTTTTATATTT
1 TTTAATTAATTTTTAAAATTTTAAAAATTTT-AAAATA-ATTTTTATAATT
* * *
90403303 TTTAA-TAA-TTTTAATGATTTTTAAATTTTTAAAATAATTTTTATAATT
1 TTTAATTAATTTTTAA-AATTTTAAAAATTTTAAAATAATTTTTATAATT
*
90403351 TTAAATT
1 TTTAATT
90403358 TTAAAAAATT
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
48 15 0.31
49 13 0.27
50 15 0.31
51 5 0.10
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.58
Consensus pattern (49 bp):
TTTAATTAATTTTTAAAATTTTAAAAATTTTAAAATAATTTTTATAATT
Found at i:90403348 original size:9 final size:9
Alignment explanation
Indices: 90403291--90403352 Score: 54
Period size: 9 Copynumber: 6.6 Consensus size: 9
90403281 TTAAAAATAT
90403291 ATTTTTATA
1 ATTTTTATA
*
90403300 TTTTTTAATA
1 ATTTTT-ATA
* *
90403310 ATTTTAATG
1 ATTTTTATA
90403319 ATTTTTA-A
1 ATTTTTATA
90403327 ATTTTTAAAATA
1 ATTTTT---ATA
90403339 ATTTTTATA
1 ATTTTTATA
90403348 ATTTT
1 ATTTT
90403353 AAATTTTAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
8 6 0.14
9 21 0.50
10 7 0.17
11 1 0.02
12 7 0.17
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (9 bp):
ATTTTTATA
Found at i:90403353 original size:28 final size:28
Alignment explanation
Indices: 90403288--90403367 Score: 94
Period size: 28 Copynumber: 2.9 Consensus size: 28
90403278 ATTTTAAAAA
* *
90403288 TATATTTTTATATTTTT-TAATAATTTT
1 TATATTTTTAAATTTTTAAAATAATTTT
*
90403315 AATGATTTTTAAATTTTTAAAATAATTTT
1 TAT-ATTTTTAAATTTTTAAAATAATTTT
*
90403344 TATAATTTTAAA-TTTTAAAA-AATT
1 TATATTTTTAAATTTTTAAAATAATT
90403368 AATTAAATGC
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
26 4 0.09
27 10 0.22
28 21 0.46
29 11 0.24
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (28 bp):
TATATTTTTAAATTTTTAAAATAATTTT
Found at i:90408305 original size:43 final size:43
Alignment explanation
Indices: 90408241--90408401 Score: 250
Period size: 43 Copynumber: 3.7 Consensus size: 43
90408231 TTTATTGGAA
* *
90408241 AAAAACGCTGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
90408284 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
* * *
90408327 AAAAGTGCCGCTAAACGTCAAGGCTTTTAGCGGCGTTTGTGCG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
* * *
90408370 TAAAGCACCGCTAAATGTCAAGGCTTTTAGCG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCG
90408402 ACGCTTTTTT
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 109 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
Found at i:90408514 original size:31 final size:31
Alignment explanation
Indices: 90408479--90408559 Score: 81
Period size: 31 Copynumber: 2.5 Consensus size: 31
90408469 CTTCCTACAT
* *
90408479 TAAAATCCAACCAAATACAACAAATATAATA
1 TAAAATCCAACCAAAAACAACAAATATAACA
* * * *
90408510 TAAAATGCAGCCAAAAACAGCAAATTTAACA
1 TAAAATCCAACCAAAAACAACAAATATAACA
*
90408541 TAAAAAATACAACCAAAAA
1 T--AAAATCCAACCAAAAA
90408560 TATTAATTCT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 26 0.65
33 14 0.35
ACGTcount: A:0.62, C:0.19, G:0.04, T:0.16
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAACA
Found at i:90408829 original size:21 final size:21
Alignment explanation
Indices: 90408805--90408850 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
90408795 GCTCGTGCCT
*
90408805 CTGCCTCTCTCGCTGCAGCCG
1 CTGCCTCCCTCGCTGCAGCCG
* * *
90408826 CTGCCTCCCTCTCTGCTGCCT
1 CTGCCTCCCTCGCTGCAGCCG
90408847 CTGC
1 CTGC
90408851 TCTAAGTTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.02, C:0.50, G:0.20, T:0.28
Consensus pattern (21 bp):
CTGCCTCCCTCGCTGCAGCCG
Found at i:90414502 original size:9 final size:9
Alignment explanation
Indices: 90414490--90414706 Score: 175
Period size: 9 Copynumber: 23.4 Consensus size: 9
90414480 AATTATATAT
*
90414490 TTATCTAAG
1 TTATATAAG
90414499 TTATATAAG
1 TTATATAAG
*
90414508 TTATGTAAG
1 TTATATAAG
* *
90414517 TTATGTAAAT
1 TTATAT-AAG
*
90414527 TATGATATAAAA
1 T-T-ATAT-AAG
*
90414539 TATATTTAAG
1 T-TATATAAG
*
90414549 TATTATGTAAG
1 --TTATATAAG
*
90414560 TTATGTAAG
1 TTATATAAG
*
90414569 TTATAT-AT
1 TTATATAAG
*
90414577 TTATCTAAG
1 TTATATAAG
90414586 TTATATAAG
1 TTATATAAG
90414595 TTATATAAG
1 TTATATAAG
* *
90414604 TTATGTATG
1 TTATATAAG
90414613 TTATATAAG
1 TTATATAAG
*
90414622 TTATGTAAG
1 TTATATAAG
*
90414631 TTATATATG
1 TTATATAAG
90414640 TTATATAAG
1 TTATATAAG
* *
90414649 TTATGTAAT
1 TTATATAAG
90414658 TTATATAAG
1 TTATATAAG
90414667 TTATATAAG
1 TTATATAAG
* *
90414676 TTATGTACG
1 TTATATAAG
* *
90414685 TTTTGTAAG
1 TTATATAAG
*
90414694 TTATATAAA
1 TTATATAAG
90414703 TTAT
1 TTAT
90414707 GATATCAAAT
Statistics
Matches: 170, Mismatches: 32, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
8 6 0.04
9 138 0.81
10 5 0.03
11 11 0.06
12 10 0.06
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.47
Consensus pattern (9 bp):
TTATATAAG
Found at i:90414529 original size:27 final size:27
Alignment explanation
Indices: 90414490--90414707 Score: 213
Period size: 27 Copynumber: 7.9 Consensus size: 27
90414480 AATTATATAT
*
90414490 TTATCTAAGTTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
* * *
90414517 TTATGTAAATTATGATATAAAATATATTTAAG
1 TTATGT-AAGT-T-ATAT-AAGT-TATGTAAG
* * *
90414549 TATTATGTAAGTTATGTAAGTTATAT-AT
1 --TTATGTAAGTTATATAAGTTATGTAAG
* *
90414577 TTATCTAAGTTATATAAGTTATATAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
*
90414604 TTATGTATGTTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
* * *
90414631 TTATATATGTTATATAAGTTATGTAAT
1 TTATGTAAGTTATATAAGTTATGTAAG
* *
90414658 TTATATAAGTTATATAAGTTATGTACG
1 TTATGTAAGTTATATAAGTTATGTAAG
* *
90414685 TTTTGTAAGTTATATAAATTATG
1 TTATGTAAGTTATATAAGTTATG
90414708 ATATCAAATA
Statistics
Matches: 160, Mismatches: 23, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
26 22 0.14
27 99 0.62
28 4 0.03
29 5 0.03
30 7 0.04
31 6 0.04
32 8 0.05
33 3 0.02
34 6 0.04
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.47
Consensus pattern (27 bp):
TTATGTAAGTTATATAAGTTATGTAAG
Found at i:90414832 original size:15 final size:15
Alignment explanation
Indices: 90414812--90414867 Score: 64
Period size: 15 Copynumber: 3.8 Consensus size: 15
90414802 AAGTAGCGGG
90414812 ATTAAATAATATTTA
1 ATTAAATAATATTTA
90414827 ATTAAATAATATTT-
1 ATTAAATAATATTTA
90414841 A-TAAA-AATTATTTTA
1 ATTAAATAA-TA-TTTA
*
90414856 ATTAAGTAATAT
1 ATTAAATAATAT
90414868 ACATGTCGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
12 2 0.06
13 6 0.17
14 4 0.11
15 16 0.46
16 5 0.14
17 2 0.06
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:90415595 original size:289 final size:289
Alignment explanation
Indices: 90415077--90415778 Score: 1390
Period size: 289 Copynumber: 2.4 Consensus size: 289
90415067 ATAAAACGGA
90415077 GAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAG
1 GAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAG
90415142 CTCGATATAAGGCAACCCGTCAGGTTTCCA-CCTATATACTTTGAATCTTTAAAATATTTAAATA
66 CTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAATA
90415206 TTAAAATCAAACATTATTAATATAAAAAATAGTATTTTGAATATAATAATATCAAAAAAGAATCG
131 TTAAAATCAAACATTATTAATATAAAAAATAGTATTTTGAATATAATAATATCAAAAAAGAATCG
90415271 TAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATATAAATATTCAATAGTAAATGA
196 TAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATATAAATATTCAATAGTAAATGA
90415336 GCTCGATAGAACTTTTTTCAAGTCTTTTT
261 GCTCGATAGAACTTTTTTCAAGTCTTTTT
90415365 GAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAG
1 GAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAG
90415430 CTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAATA
66 CTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAATA
90415495 TTAAAATCAAACATTATTAATATAAAAAATAGTATTTTGAATATAATAATATCAAAAAAGAATCG
131 TTAAAATCAAACATTATTAATATAAAAAATAGTATTTTGAATATAATAATATCAAAAAAGAATCG
90415560 TAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATATAAATATTCAATAGTAAATGA
196 TAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATATAAATATTCAATAGTAAATGA
90415625 GCTCGATAGAACTTTTTTCAAGTCTTTTT
261 GCTCGATAGAACTTTTTTCAAGTCTTTTT
90415654 GAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAG
1 GAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAG
90415719 CTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAAT-TTTA
66 CTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTA
90415779 TAACAAGGTT
Statistics
Matches: 413, Mismatches: 0, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
288 99 0.24
289 314 0.76
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.36
Consensus pattern (289 bp):
GAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAG
CTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAATA
TTAAAATCAAACATTATTAATATAAAAAATAGTATTTTGAATATAATAATATCAAAAAAGAATCG
TAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATATAAATATTCAATAGTAAATGA
GCTCGATAGAACTTTTTTCAAGTCTTTTT
Found at i:90419672 original size:26 final size:26
Alignment explanation
Indices: 90419635--90419770 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
90419625 TGATACAAAT
* *
90419635 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
90419661 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
90419687 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
90419713 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
90419739 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
90419765 TGATAA
1 TGATAA
90419771 GAATTTCATG
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:90421804 original size:137 final size:137
Alignment explanation
Indices: 90421558--90421844 Score: 520
Period size: 137 Copynumber: 2.1 Consensus size: 137
90421548 GAGTAGTCTC
*
90421558 CCCAAATGGGTTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
* *
90421623 TGTTATCTGAATAAGGGGCTAAGGCCCGGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGCTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
90421688 ACTGTTA
131 ACTGTTA
*
90421695 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCTATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
90421760 TGCTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGCTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
90421825 ACTGTTA
131 ACTGTTA
**
90421832 CCTGAATGGGCTT
1 CCCAAATGGGCTT
90421845 AGGCCCAATA
Statistics
Matches: 144, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
137 144 1.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGCTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:90422854 original size:10 final size:11
Alignment explanation
Indices: 90422833--90422883 Score: 57
Period size: 12 Copynumber: 4.3 Consensus size: 11
90422823 ACTAAACCAC
90422833 TTTTCATATATA
1 TTTT-ATATATA
90422845 TATTTATATATA
1 T-TTTATATATA
*
90422857 TTTTAAAATAATA
1 TTTT-ATAT-ATA
90422870 TTTTATATATA
1 TTTTATATATA
90422881 TTT
1 TTT
90422884 ATCTTATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
11 9 0.26
12 15 0.44
13 10 0.29
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTATATATA
Found at i:90422892 original size:15 final size:15
Alignment explanation
Indices: 90422872--90422903 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
90422862 AAATAATATT
*
90422872 TTATATATATTTATC
1 TTATATACATTTATC
90422887 TTATATACATTTATC
1 TTATATACATTTATC
90422902 TT
1 TT
90422904 CTAAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATATACATTTATC
Found at i:90423972 original size:41 final size:41
Alignment explanation
Indices: 90423915--90424132 Score: 289
Period size: 41 Copynumber: 5.3 Consensus size: 41
90423905 GTTATGAGAT
*
90423915 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAGTGCTCTGGC
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGC
*
90423956 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGCTCTGGC
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGC
** *
90423997 TTTTAGCGGCGTTTTACTAAAAGCGCCGCTAATGCTTTGGC
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGC
* *
90424038 TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCT-GT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGC
* * ** *
90424078 TTTTAGCGGCGTTTTTTA-CTAAAACGCCGCTGTTGCTCT-GT
1 TTTTAGCGGCG--TTTTACCGAAAGCGCCGCTAATGCTCTGGC
90424119 TTTTAGCGGCGTTT
1 TTTTAGCGGCGTTT
90424133 CTTTTAGAAC
Statistics
Matches: 161, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
39 3 0.02
40 12 0.07
41 141 0.88
42 5 0.03
ACGTcount: A:0.17, C:0.23, G:0.25, T:0.35
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGC
Found at i:90425741 original size:32 final size:29
Alignment explanation
Indices: 90425705--90425763 Score: 73
Period size: 32 Copynumber: 1.9 Consensus size: 29
90425695 GATTGCAAAT
90425705 TTTAAAAAATCTTTAAAAAATATAATAAATTA
1 TTTAAAAAATC--TAAAAAATAT-ATAAATTA
* *
90425737 TTTAAGAAATCTAAAATATATATAAAT
1 TTTAAAAAATCTAAAAAATATATAAAT
90425764 AAAATATCGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 6 0.24
30 9 0.36
32 10 0.40
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (29 bp):
TTTAAAAAATCTAAAAAATATATAAATTA
Found at i:90427996 original size:17 final size:17
Alignment explanation
Indices: 90427974--90428007 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
90427964 GATATGATAC
90427974 TAAAAT-TATTAAAAAAT
1 TAAAATATA-TAAAAAAT
90427991 TAAAATATATAAAAAAT
1 TAAAATATATAAAAAAT
90428008 AGAGAAACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.88
18 2 0.12
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
TAAAATATATAAAAAAT
Found at i:90428293 original size:22 final size:21
Alignment explanation
Indices: 90428258--90428333 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
90428248 AAAAGGTATC
* *
90428258 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
90428279 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
90428302 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
90428321 TGC-AATCATATCT
1 TACAAATCATATCT
90428334 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:90428350 original size:35 final size:37
Alignment explanation
Indices: 90428287--90428384 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
90428277 ATTACAAAAT
90428287 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
90428323 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
90428358 CATATCATATCTAAGATTGCATATCAT
1 CATATCATATCTAAGATTG-ATATCAT
90428385 TGAAGATTAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:90428392 original size:17 final size:19
Alignment explanation
Indices: 90428294--90428384 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
90428284 AATCATATCT
90428294 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
90428313 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
90428331 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
90428348 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
90428367 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
90428385 TGAAGATTAT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:90428792 original size:45 final size:45
Alignment explanation
Indices: 90428737--90428936 Score: 303
Period size: 45 Copynumber: 4.5 Consensus size: 45
90428727 GGAAGGCGAT
* *
90428737 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
*
90428782 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * * *
90428827 ATCTGCT-TCTTCAATCTGCTCCCTGTCTAATACAGAGATTCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
*
90428871 ATCTGTTATCTTCGATTTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* *
90428916 ATCTGTCATCTTGGATCTGCT
1 ATCTGTTATCTTCGATCTGCT
90428937 TCGATGTAAA
Statistics
Matches: 138, Mismatches: 16, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
44 39 0.28
45 99 0.72
ACGTcount: A:0.23, C:0.28, G:0.15, T:0.33
Consensus pattern (45 bp):
ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
Found at i:90428859 original size:89 final size:90
Alignment explanation
Indices: 90428737--90428920 Score: 307
Period size: 89 Copynumber: 2.1 Consensus size: 90
90428727 GGAAGGCGAT
**
90428737 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTTCGATCTGC
1 ATCTGCTATCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTTCGATCTGC
90428802 TCCCCGTCTAATACAGAGACGCCAA
66 TCCCCGTCTAATACAGAGACGCCAA
* * *
90428827 ATCTGCT-TCTTCAATCTGCTCCCTGTCTAATACAGAGATTCCAAATCTGTTATCTTCGATTTGC
1 ATCTGCTATCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTTCGATCTGC
*
90428891 TCCCCGTCTAATACAGAGATGCCAA
66 TCCCCGTCTAATACAGAGACGCCAA
90428916 ATCTG
1 ATCTG
90428921 TCATCTTGGA
Statistics
Matches: 88, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
89 81 0.92
90 7 0.08
ACGTcount: A:0.24, C:0.29, G:0.15, T:0.32
Consensus pattern (90 bp):
ATCTGCTATCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTTCGATCTGC
TCCCCGTCTAATACAGAGACGCCAA
Found at i:90429083 original size:78 final size:78
Alignment explanation
Indices: 90428950--90429165 Score: 333
Period size: 78 Copynumber: 2.8 Consensus size: 78
90428940 ATGTAAACAC
* * * *
90428950 ATGAAGGTCAGGTCTGCTATGTCTTTGATCTGCTTCCCATCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
90429015 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * *
90429028 ATGAAGGTCAGATCAGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAAATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
90429093 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * **
90429106 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCAAATATGGAGATGCCAAAT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAAT
90429166 TTGTTTCTTC
Statistics
Matches: 124, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
78 124 1.00
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:90429473 original size:45 final size:44
Alignment explanation
Indices: 90429357--90429481 Score: 117
Period size: 45 Copynumber: 2.8 Consensus size: 44
90429347 CTTCGATCTG
** * **
90429357 CTCTCCGTCGAATATGGAGATGCCAAATCTGTT-TCTTCGATTTG
1 CTCTCCGTC-AATACAGAGATGCCAAATCTGTTATCTCCGATTCA
* * * **
90429401 TTCTCTGACAATACAGAGATGTTAAATCTGTTATCTCCGATTCA
1 CTCTCCGTCAATACAGAGATGCCAAATCTGTTATCTCCGATTCA
* *
90429445 CTCTCCGTCTAATACAGATATGCCAAATCTGTCATCT
1 CTCTCCGTC-AATACAGAGATGCCAAATCTGTTATCT
90429482 TGGATCTACT
Statistics
Matches: 62, Mismatches: 17, Indels: 3
0.76 0.21 0.04
Matches are distributed among these distances:
43 19 0.31
44 20 0.32
45 23 0.37
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (44 bp):
CTCTCCGTCAATACAGAGATGCCAAATCTGTTATCTCCGATTCA
Found at i:90429634 original size:78 final size:78
Alignment explanation
Indices: 90429505--90429721 Score: 339
Period size: 78 Copynumber: 2.8 Consensus size: 78
90429495 ATGTAAACAC
90429505 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
*
90429570 TGGATCTGCTTCA
66 TAGATCTGCTTCA
*
90429583 ATGAAGGTCCA-ATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
90429647 TTAGATCTGCTTCA
65 TTAGATCTGCTTCA
* * * **
90429661 ATGAAGGTCAGATCTGCTATGTCTTCAATCTGCTCTCTGT-TGAATATGGAGATGCCAAATC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCT-AATACAGAGATGCCAAATC
90429722 TGTTTCTTCG
Statistics
Matches: 128, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
77 3 0.02
78 123 0.96
79 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TAGATCTGCTTCA
Found at i:90429939 original size:556 final size:555
Alignment explanation
Indices: 90428790--90429984 Score: 1989
Period size: 555 Copynumber: 2.1 Consensus size: 555
90428780 AAATCTGTTA
* * * * * * * * * *
90428790 TCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGCTTCTTCAATCTGCTCCCTGTCT
1 TCTTCGATCTGCTCTCCGTCGAATATAGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGAC-
* * **
90428855 AATACAGAGAT-TCCAAATCTGTTATCTTCGATTTGCTCCCCGTCTAATACAGAGATGCCAAATC
65 AATACAGAGATGT-TAAATCTGTTATCTCCGATTCACTCCCCGTCTAATACAGAGATGCCAAATC
* * *
90428919 TGTCATCTTGGATCTGCTTCGATGTAAACACATGAAGGTCAGGTCTGCTATGTCTTTGATCTGCT
129 TGTCATCTTGGATCTACTTCGATGTAAACACATGAAGGTCAGATCTGCTATGTCTTCGATCTGCT
* *
90428984 TCCCATCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCAGCTGTG
194 CCCCATCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCAGCTATG
*
90429049 TCTTCGATCTGCTCCCCGTCTAATACAGAAATGCCAAATCATCTTGGATCTGCTTCAATGAAGGT
259 TCTTCGATCTGCTCCCCGTCTAATACAGAAATGCCAAATCATCTTAGATCTGCTTCAATGAAGGT
* *
90429114 CAGATCTGCTATGTCTTCGATCTGCTCTCCGTCAAATATGGAGATGCCAAATTTGTTTCTTCGAT
324 CAGATCTGCTATGTCTTCAATCTGCTCTCCGTCAAATATGGAGATGCCAAATCTGTTTCTTCGAT
*
90429179 TTGTTCTCTACAGTACAGAGATGTCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGC
389 TTGTTCTCTACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGC
* *
90429244 CAAATTTGCTATGTCTTCGATCTGCTCCTTGTCAACGCAAGGATGCCAAATCATCTTGGATCTAC
454 CAAATCTGCTATGTCTTCGATCTGCTCCTTGTCAACGCAAGGATGCCAAATCATCTTAGATCTAC
*
90429309 TTCGATGTGAAGACATCCGAAGGTTAGATCTGCTATG
519 TTCGATGTGAAGACATCCGAAGGTTAGATCTACTATG
*
90429346 TCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACA
1 TCTTCGATCTGCTCTCCGTCGAATATAGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACA
* *
90429411 ATACAGAGATGTTAAATCTGTTATCTCCGATTCACTCTCCGTCTAATACAGATATGCCAAATCTG
66 ATACAGAGATGTTAAATCTGTTATCTCCGATTCACTCCCCGTCTAATACAGAGATGCCAAATCTG
90429476 TCATCTTGGATCTACTTCGATGTAAACACATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCC
131 TCATCTTGGATCTACTTCGATGTAAACACATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCC
* * *
90429541 CCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCCA-ATCTGTTATGT
196 CCATCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGT-CAGATCAGCTATGT
*
90429605 CTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTAGATCTGCTTCAATGAAGGTC
260 CTTCGATCTGCTCCCCGTCTAATACAGAAATGCCAAATCATCTTAGATCTGCTTCAATGAAGGTC
* **
90429670 AGATCTGCTATGTCTTCAATCTGCTCTCTGTTGAATATGGAGATGCCAAATCTGTTTCTTCGATT
325 AGATCTGCTATGTCTTCAATCTGCTCTCCGTCAAATATGGAGATGCCAAATCTGTTTCTTCGATT
*
90429735 TGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACACGTGAAAGC
390 TGTTCTCT-ACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGC
90429800 CAAATCTGCTATGTCTTCGATCTGCTCCTTGTCAACGCAAGGATGCCAAATCATCTTAGATCTAC
454 CAAATCTGCTATGTCTTCGATCTGCTCCTTGTCAACGCAAGGATGCCAAATCATCTTAGATCTAC
90429865 TTCGATGTGAAGACATCCGAAGGTTAGATCTACTATG
519 TTCGATGTGAAGACATCCGAAGGTTAGATCTACTATG
*
90429902 TCTTCGATCTGCTCTCCGTCGAATATAGAGATGCCAAATATGTTTCTTCGATTTGTTCTCTGACA
1 TCTTCGATCTGCTCTCCGTCGAATATAGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACA
*
90429967 AAACAGAGATGTTAAATC
66 ATACAGAGATGTTAAATC
90429985 ATCTTGGATT
Statistics
Matches: 596, Mismatches: 40, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
555 307 0.52
556 289 0.48
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (555 bp):
TCTTCGATCTGCTCTCCGTCGAATATAGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGACA
ATACAGAGATGTTAAATCTGTTATCTCCGATTCACTCCCCGTCTAATACAGAGATGCCAAATCTG
TCATCTTGGATCTACTTCGATGTAAACACATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCC
CCATCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCAGCTATGTC
TTCGATCTGCTCCCCGTCTAATACAGAAATGCCAAATCATCTTAGATCTGCTTCAATGAAGGTCA
GATCTGCTATGTCTTCAATCTGCTCTCCGTCAAATATGGAGATGCCAAATCTGTTTCTTCGATTT
GTTCTCTACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGCCA
AATCTGCTATGTCTTCGATCTGCTCCTTGTCAACGCAAGGATGCCAAATCATCTTAGATCTACTT
CGATGTGAAGACATCCGAAGGTTAGATCTACTATG
Found at i:90433133 original size:44 final size:45
Alignment explanation
Indices: 90433043--90433171 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
90433033 GACAGAACGA
*
90433043 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
90433089 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
90433133 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
90433172 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:90440488 original size:44 final size:45
Alignment explanation
Indices: 90440398--90440526 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
90440388 GACAGAACGA
*
90440398 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
90440444 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
90440488 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
90440527 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:90447926 original size:17 final size:18
Alignment explanation
Indices: 90447904--90447938 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
90447894 GATATGATAC
*
90447904 TAAAAT-TATTAAAAAAT
1 TAAAATATATAAAAAAAT
90447921 TAAAATATATAAAAAAAT
1 TAAAATATATAAAAAAAT
90447939 CAGGGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAATATATAAAAAAAT
Found at i:90448233 original size:23 final size:22
Alignment explanation
Indices: 90448190--90448247 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
90448180 AAAAGGTATC
* *
90448190 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
90448211 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
90448234 TGCAAATCATATCT
1 TACAAATCATATCT
90448248 AAGATTGTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 19 0.59
23 10 0.31
ACGTcount: A:0.43, C:0.17, G:0.05, T:0.34
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:90448250 original size:19 final size:19
Alignment explanation
Indices: 90448226--90448298 Score: 114
Period size: 19 Copynumber: 3.9 Consensus size: 19
90448216 AATCATATCT
*
90448226 TCTAAGATTGCAAATCATA
1 TCTAAGATTGCATATCATA
*
90448245 TCTAAGATTG--TATCTTA
1 TCTAAGATTGCATATCATA
90448262 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
90448281 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
90448299 TGAAGATTAT
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
17 15 0.31
19 34 0.69
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:90448305 original size:36 final size:36
Alignment explanation
Indices: 90448219--90448306 Score: 115
Period size: 36 Copynumber: 2.4 Consensus size: 36
90448209 ATTACAAAAT
*
90448219 CATATCTTCTAAGATTGCAAATCATATCTAAGATTG
1 CATATCATCTAAGATTGCAAATCATATCTAAGATTG
* * * *
90448255 TATCTTATCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATCTAAGATTGCAAATCATATCTAAGATTG
90448291 CATATCAT-TGAAGATT
1 CATATCATCT-AAGATT
90448307 ATATTTTCAT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
35 1 0.02
36 42 0.98
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (36 bp):
CATATCATCTAAGATTGCAAATCATATCTAAGATTG
Found at i:90448306 original size:17 final size:19
Alignment explanation
Indices: 90448229--90448306 Score: 83
Period size: 19 Copynumber: 4.3 Consensus size: 19
90448219 CATATCTTCT
* *
90448229 AAGATTGCAAATCATATCT
1 AAGATTGCATATCATATCG
* *
90448248 AAGATTG--TATCTTATCT
1 AAGATTGCATATCATATCG
*
90448265 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCG
90448284 AAGATTGCATATCAT-T-G
1 AAGATTGCATATCATATCG
90448301 AAGATT
1 AAGATT
90448307 ATATTTTCAT
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
17 21 0.40
18 1 0.02
19 31 0.58
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (19 bp):
AAGATTGCATATCATATCG
Found at i:90448804 original size:24 final size:24
Alignment explanation
Indices: 90448773--90448841 Score: 95
Period size: 24 Copynumber: 2.9 Consensus size: 24
90448763 ACAAAGATTT
90448773 TTATGCTAATAAATG-TCAAATATA
1 TTATGCTAATAAATGCT-AAATATA
*
90448797 TTATGCTAATAGATGCTAAATATA
1 TTATGCTAATAAATGCTAAATATA
* *
90448821 TTATACTAATAAATACTAAAT
1 TTATGCTAATAAATGCTAAAT
90448842 CTTATAGAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
24 39 0.98
25 1 0.03
ACGTcount: A:0.46, C:0.09, G:0.07, T:0.38
Consensus pattern (24 bp):
TTATGCTAATAAATGCTAAATATA
Found at i:90449150 original size:16 final size:16
Alignment explanation
Indices: 90449126--90449159 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
90449116 AAGTTCGCAC
90449126 TTATGTAGCTTGCATT
1 TTATGTAGCTTGCATT
*
90449142 TTATTTAGCTTGCATT
1 TTATGTAGCTTGCATT
90449158 TT
1 TT
90449160 GCACAACTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.12, G:0.15, T:0.56
Consensus pattern (16 bp):
TTATGTAGCTTGCATT
Found at i:90449211 original size:16 final size:16
Alignment explanation
Indices: 90449186--90449231 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
90449176 ATTCAACTTG
*
90449186 CAGCTTGCACTTTTCA
1 CAGCTCGCACTTTTCA
* *
90449202 CAGCTCGCACATTTCT
1 CAGCTCGCACTTTTCA
*
90449218 CAACTCGCACTTTT
1 CAGCTCGCACTTTT
90449232 TCCGAGTTCG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.20, C:0.35, G:0.11, T:0.35
Consensus pattern (16 bp):
CAGCTCGCACTTTTCA
Found at i:90449574 original size:93 final size:93
Alignment explanation
Indices: 90449430--90449613 Score: 341
Period size: 93 Copynumber: 2.0 Consensus size: 93
90449420 GTTTCAACTA
90449430 TATGTCTGATGCTTTTAACACGAAGATCATCAAAACCTCCATCTTCATCTTTATCTTCAACTTCA
1 TATGTCTGATGCTTTTAACACGAAGATCATCAAAACCTCCATCTTCATCTTTATCTTCAACTTCA
*
90449495 GTCATCTTCTCAACCAATTTTGACTTTG
66 GTAATCTTCTCAACCAATTTTGACTTTG
* *
90449523 TATGTCTGATGCTTTTAACAGGAAGATCATCAAAACCTTCATCTTCATCTTTATCTTCAACTTCA
1 TATGTCTGATGCTTTTAACACGAAGATCATCAAAACCTCCATCTTCATCTTTATCTTCAACTTCA
90449588 GTAATCTTCTCAACCAATTTTGACTT
66 GTAATCTTCTCAACCAATTTTGACTT
90449614 GCACACTTGA
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 88 1.00
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.39
Consensus pattern (93 bp):
TATGTCTGATGCTTTTAACACGAAGATCATCAAAACCTCCATCTTCATCTTTATCTTCAACTTCA
GTAATCTTCTCAACCAATTTTGACTTTG
Found at i:90460828 original size:24 final size:24
Alignment explanation
Indices: 90460787--90460847 Score: 95
Period size: 24 Copynumber: 2.5 Consensus size: 24
90460777 AAAGAAATAA
*
90460787 CAAATACTTTTATGCTAATAAATGT
1 CAAATA-TATTATGCTAATAAATGT
90460812 CAAATATATTATGCTAATAAATGT
1 CAAATATATTATGCTAATAAATGT
*
90460836 TAAATATATTAT
1 CAAATATATTAT
90460848 ATTGATAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
24 28 0.82
25 6 0.18
ACGTcount: A:0.44, C:0.08, G:0.07, T:0.41
Consensus pattern (24 bp):
CAAATATATTATGCTAATAAATGT
Found at i:90460855 original size:24 final size:24
Alignment explanation
Indices: 90460787--90460857 Score: 79
Period size: 24 Copynumber: 2.9 Consensus size: 24
90460777 AAAGAAATAA
* *
90460787 CAAATACTTTTATGCTAATAAATGT
1 CAAATA-TATTATACTAATAAATGT
*
90460812 CAAATATATTATGCTAATAAATGT
1 CAAATATATTATACTAATAAATGT
* * *
90460836 TAAATATATTATATTGATAAAT
1 CAAATATATTATACTAATAAAT
90460858 ACTAAATCTT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
24 35 0.85
25 6 0.15
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (24 bp):
CAAATATATTATACTAATAAATGT
Found at i:90460863 original size:24 final size:24
Alignment explanation
Indices: 90460796--90460864 Score: 59
Period size: 24 Copynumber: 2.9 Consensus size: 24
90460786 ACAAATACTT
* *
90460796 TTATGCTAATAAAT-GTCAAATATA
1 TTATACTAATAAATACT-AAATATA
* **
90460820 TTATGCTAATAAATGTTAAATATA
1 TTATACTAATAAATACTAAATATA
* *
90460844 TTATATTGATAAATACTAAAT
1 TTATACTAATAAATACTAAAT
90460865 CTTCTAGAGA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
24 37 0.97
25 1 0.03
ACGTcount: A:0.46, C:0.06, G:0.07, T:0.41
Consensus pattern (24 bp):
TTATACTAATAAATACTAAATATA
Found at i:90460923 original size:30 final size:30
Alignment explanation
Indices: 90460878--90460940 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
90460868 CTAGAGAGAA
* *
90460878 AATATGTTTTGTTTAACTTGACTTGCAAGC
1 AATATATTTTATTTAACTTGACTTGCAAGC
*
90460908 AATATATTTTATTTAACTTGTCTTGCAAGC
1 AATATATTTTATTTAACTTGACTTGCAAGC
90460938 AAT
1 AAT
90460941 CTCTTTAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.44
Consensus pattern (30 bp):
AATATATTTTATTTAACTTGACTTGCAAGC
Found at i:90462586 original size:21 final size:19
Alignment explanation
Indices: 90462560--90462601 Score: 57
Period size: 21 Copynumber: 2.1 Consensus size: 19
90462550 ATTTTCTTAC
*
90462560 CATCAACTTAACCAACACAAA
1 CATCAAATTAA-CAAC-CAAA
90462581 CATCAAATTAACAACCAAA
1 CATCAAATTAACAACCAAA
90462600 CA
1 CA
90462602 AAATACCATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 6 0.30
20 4 0.20
21 10 0.50
ACGTcount: A:0.55, C:0.31, G:0.00, T:0.14
Consensus pattern (19 bp):
CATCAAATTAACAACCAAA
Found at i:90470737 original size:46 final size:46
Alignment explanation
Indices: 90470670--90470844 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
90470660 TGTAACCCGC
*
90470670 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
90470716 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * *
90470766 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
90470809 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
90470845 ATGCTCAACC
Statistics
Matches: 108, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 61 0.56
47 27 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Done.