Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 198 of 410
Found at i:60560418 original size:36 final size:36
Alignment explanation
Indices: 60560371--60560441 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
60560361 TTTTTTATTT
60560371 TGGCTCCACCTCTTGATTCTCTAGCATATATAGAAA
1 TGGCTCCACCTCTTGATTCTCTAGCATATATAGAAA
*
60560407 TGGCTCCACCTCTTGATTCTCTAGTATATATAGAA
1 TGGCTCCACCTCTTGATTCTCTAGCATATATAGAA
60560442 TGGTGAAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (36 bp):
TGGCTCCACCTCTTGATTCTCTAGCATATATAGAAA
Found at i:60563173 original size:18 final size:19
Alignment explanation
Indices: 60563141--60563185 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
60563131 AAAGCCATAG
60563141 TTTTTTTAACAAATAAAT-
1 TTTTTTTAACAAATAAATC
*
60563159 TATTTTTTAA-TAATAAATC
1 T-TTTTTTAACAAATAAATC
60563178 TTTTTTTA
1 TTTTTTTA
60563186 TATTTTTCCA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 15 0.62
19 9 0.38
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (19 bp):
TTTTTTTAACAAATAAATC
Found at i:60563444 original size:10 final size:11
Alignment explanation
Indices: 60563418--60563459 Score: 52
Period size: 10 Copynumber: 3.9 Consensus size: 11
60563408 TTTACAGTAA
60563418 ATATACAAATAT
1 ATATA-AAATAT
60563430 ATATAAAATAT
1 ATATAAAATAT
*
60563441 -TATAAAATAA
1 ATATAAAATAT
60563451 AT-TAAAATA
1 ATATAAAATA
60563460 GAAAAAAGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
10 16 0.57
11 7 0.25
12 5 0.18
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (11 bp):
ATATAAAATAT
Found at i:60563458 original size:20 final size:22
Alignment explanation
Indices: 60563419--60563459 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
60563409 TTACAGTAAA
*
60563419 TATACAAATATATATAAAATAT
1 TATACAAATAAATATAAAATAT
60563441 TATA-AAATAAAT-TAAAATA
1 TATACAAATAAATATAAAATA
60563460 GAAAAAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (22 bp):
TATACAAATAAATATAAAATAT
Found at i:60563525 original size:23 final size:23
Alignment explanation
Indices: 60563499--60563549 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
60563489 CAAAAAAATA
*
60563499 AAATATTATTTTTAAAAAA-TTTT
1 AAATATTA-ATTTAAAAAACTTTT
60563522 AAATA-TAATTTAAAAAACTTTT
1 AAATATTAATTTAAAAAACTTTT
*
60563544 GAATAT
1 AAATAT
60563550 CTTTAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 9 0.38
22 10 0.42
23 5 0.21
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
AAATATTAATTTAAAAAACTTTT
Found at i:60563533 original size:21 final size:20
Alignment explanation
Indices: 60563509--60563558 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
60563499 AAATATTATT
60563509 TTTAAAAAATTTTAAATATAA
1 TTTAAAAAATTTTAAATAT-A
* *
60563530 TTTAAAAAACTTTTGAATATC
1 TTTAAAAAA-TTTTAAATATA
60563551 TTTAAAAA
1 TTTAAAAA
60563559 TAATTTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 17 0.65
22 9 0.35
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (20 bp):
TTTAAAAAATTTTAAATATA
Found at i:60563537 original size:22 final size:22
Alignment explanation
Indices: 60563512--60563583 Score: 65
Period size: 22 Copynumber: 3.2 Consensus size: 22
60563502 TATTATTTTT
60563512 AAAAAATTTTAAATATAATTTA
1 AAAAAATTTTAAATATAATTTA
* * *
60563534 AAAAACTTTTGAATAT-CTTTA
1 AAAAAATTTTAAATATAATTTA
* *
60563555 AAAATAATTTAAAAATTTATATTTA
1 AAAA-AATTT-TAAATATA-ATTTA
60563580 AAAA
1 AAAA
60563584 TTTGTATTTA
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
21 8 0.21
22 18 0.47
23 4 0.11
25 8 0.21
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (22 bp):
AAAAAATTTTAAATATAATTTA
Found at i:60563597 original size:15 final size:14
Alignment explanation
Indices: 60563561--60563616 Score: 76
Period size: 14 Copynumber: 3.9 Consensus size: 14
60563551 TTTAAAAATA
60563561 ATTTAAAAATTTAT
1 ATTTAAAAATTTAT
*
60563575 ATTTAAAAATTTGT
1 ATTTAAAAATTTAT
*
60563589 ATTTAAAAAATTTAA
1 ATTT-AAAAATTTAT
*
60563604 ATTTAAAATTTTA
1 ATTTAAAAATTTA
60563617 AAAAATAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
14 25 0.68
15 12 0.32
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (14 bp):
ATTTAAAAATTTAT
Found at i:60563619 original size:22 final size:23
Alignment explanation
Indices: 60563590--60563675 Score: 68
Period size: 23 Copynumber: 3.6 Consensus size: 23
60563580 AAAATTTGTA
60563590 TTTAAAAAATTTAA-ATTT-AAAAT
1 TTTAAAAAA--TAATATTTAAAAAT
*
60563613 TTTAAAAAATAATTTTTAAAAAT
1 TTTAAAAAATAATATTTAAAAAT
* * *
60563636 TTTAAAATATACATTTTTAAATAT
1 TTTAAAAAATA-ATATTTAAAAAT
*
60563660 TATAAACCAAATAATA
1 TTTAAA--AAATAATA
60563676 AATTTGAAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
21 3 0.06
22 3 0.06
23 24 0.46
24 16 0.31
25 2 0.04
26 4 0.08
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (23 bp):
TTTAAAAAATAATATTTAAAAAT
Found at i:60563634 original size:23 final size:23
Alignment explanation
Indices: 60563608--60563674 Score: 80
Period size: 24 Copynumber: 2.8 Consensus size: 23
60563598 ATTTAAATTT
60563608 AAAATTTTAAAAAATAATTTTTA
1 AAAATTTTAAAAAATAATTTTTA
*
60563631 AAAATTTTAAAATATACATTTTTA
1 AAAATTTTAAAAAATA-ATTTTTA
* *
60563655 AATATTATAAACCAAATAAT
1 AAAATTTTAAA--AAATAAT
60563675 AAATTTGAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
23 15 0.41
24 16 0.43
25 2 0.05
26 4 0.11
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.40
Consensus pattern (23 bp):
AAAATTTTAAAAAATAATTTTTA
Found at i:60563743 original size:21 final size:21
Alignment explanation
Indices: 60563719--60563843 Score: 101
Period size: 21 Copynumber: 5.8 Consensus size: 21
60563709 TTTTAAATGT
* * *
60563719 TTTATAATATTAAAAATTATG
1 TTTAAAATTTTAAAAATTATA
*
60563740 TTTAAAAGTTTAAAAATTATA
1 TTTAAAATTTTAAAAATTATA
*
60563761 TTT-AAATTTTAAATATATATA
1 TTTAAAATTTTAAAAAT-TATA
*
60563782 TTTAAAATTTTAAAAAATAATA
1 TTTAAAATTTT-AAAAATTATA
* *
60563804 TTATAAAAAATTT-AAAATATACA
1 TT-T-AAAATTTTAAAAAT-TATA
*
60563827 TTTAAAATATTATAAAA
1 TTTAAAATTTTA-AAAA
60563844 CCAATAATAA
Statistics
Matches: 83, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
20 11 0.13
21 33 0.40
22 18 0.22
23 14 0.17
24 7 0.08
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.43
Consensus pattern (21 bp):
TTTAAAATTTTAAAAATTATA
Found at i:60563857 original size:45 final size:46
Alignment explanation
Indices: 60563768--60563859 Score: 116
Period size: 45 Copynumber: 2.0 Consensus size: 46
60563758 ATATTTAAAT
* * * *
60563768 TTTAAATATATATATTTAAAATTTTAAAAAATAATATTATAAAAAA
1 TTTAAATATATACATTTAAAATATTAAAAAACAATAATATAAAAAA
*
60563814 TTTAAA-ATATACATTTAAAATATTATAAAACCAATAATA-AAAAAA
1 TTTAAATATATACATTTAAAATATTA-AAAAACAATAATATAAAAAA
60563859 T
1 T
60563860 AAAAAAGCAA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
45 24 0.60
46 16 0.40
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (46 bp):
TTTAAATATATACATTTAAAATATTAAAAAACAATAATATAAAAAA
Found at i:60563884 original size:31 final size:34
Alignment explanation
Indices: 60563849--60563925 Score: 88
Period size: 32 Copynumber: 2.3 Consensus size: 34
60563839 TAAAACCAAT
60563849 AATAAAAAAATAAAAAAGCAAATAAAG-G-AC-A
1 AATAAAAAAATAAAAAAGCAAATAAAGAGAACAA
* * *
60563880 AATAAAAAGACTAAAATAGTAAATAAAGAAGAACAA
1 AATAAAAA-AATAAAAAAGCAAATAAAG-AGAACAA
60563916 AATAAAAAAA
1 AATAAAAAAA
60563926 AACGAAAAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
31 8 0.22
32 16 0.43
34 1 0.03
35 3 0.08
36 9 0.24
ACGTcount: A:0.74, C:0.05, G:0.09, T:0.12
Consensus pattern (34 bp):
AATAAAAAAATAAAAAAGCAAATAAAGAGAACAA
Found at i:60563903 original size:21 final size:22
Alignment explanation
Indices: 60563879--60563919 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
60563869 AATAAAGGAC
60563879 AAATAAA-AAG-ACTAAAATAGT
1 AAATAAAGAAGAAC-AAAATAGT
60563900 AAATAAAGAAGAACAAAATA
1 AAATAAAGAAGAACAAAATA
60563920 AAAAAAAACG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.39
22 9 0.50
23 2 0.11
ACGTcount: A:0.71, C:0.05, G:0.10, T:0.15
Consensus pattern (22 bp):
AAATAAAGAAGAACAAAATAGT
Found at i:60566200 original size:47 final size:45
Alignment explanation
Indices: 60566085--60566211 Score: 190
Period size: 41 Copynumber: 2.8 Consensus size: 45
60566075 CCGGGATAAG
*
60566085 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGT
1 CACA-AGTACTTCATCGGAACAAATCCGGAACTTTAACATTATAGT
60566131 ----AGTACTTCATCGGAACAAATCCGGAACTTTAACATTATAGT
1 CACAAGTACTTCATCGGAACAAATCCGGAACTTTAACATTATAGT
60566172 ACACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACA
1 -CAC-AAGTACTTCATCGGAACAAATCCGGAACTTTAACA
60566212 GTAGTCGACA
Statistics
Matches: 74, Mismatches: 1, Indels: 11
0.86 0.01 0.13
Matches are distributed among these distances:
41 40 0.54
47 34 0.46
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.26
Consensus pattern (45 bp):
CACAAGTACTTCATCGGAACAAATCCGGAACTTTAACATTATAGT
Found at i:60573539 original size:47 final size:47
Alignment explanation
Indices: 60573382--60573514 Score: 248
Period size: 47 Copynumber: 2.8 Consensus size: 47
60573372 CCGGGATAAG
* *
60573382 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
60573429 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
60573476 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACA
1 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACA
60573515 GTAGTCGACA
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 84 1.00
ACGTcount: A:0.39, C:0.23, G:0.14, T:0.25
Consensus pattern (47 bp):
CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
Found at i:60575633 original size:12 final size:12
Alignment explanation
Indices: 60575616--60575640 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
60575606 TTGTAAATTA
60575616 AACAAATAAAAT
1 AACAAATAAAAT
60575628 AACAAATAAAAT
1 AACAAATAAAAT
60575640 A
1 A
60575641 GTTTCTAGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (12 bp):
AACAAATAAAAT
Found at i:60576652 original size:101 final size:101
Alignment explanation
Indices: 60576475--60576837 Score: 426
Period size: 101 Copynumber: 3.6 Consensus size: 101
60576465 AATTGATGGA
* *
60576475 TAAGACCTTGGTTGGACCATGGCAATATTTAAATGTAAGACCATAGCTGGGCTATGACATTTTAG
1 TAAGACCATGGTTGGACCATGGCAATATTTAAATGTAAGACCATAGCTGGGCTATGACATTTTAA
*
60576540 TGAAAAGACCATAATTGGGTTATGGCACCGTGAGCG
66 TGAAAAGACCATAACTGGGTTATGGCACCGTGAGCG
* *
60576576 TAAGACCATGGTTGGACCATGGCAATATTTAAATGTAAGACCATAGCTAGGCTATGGCATTTTAA
1 TAAGACCATGGTTGGACCATGGCAATATTTAAATGTAAGACCATAGCTGGGCTATGACATTTTAA
*
60576641 TGAAAATACCATAACTGGGTTATGGCACCGTGAGCG
66 TGAAAAGACCATAACTGGGTTATGGCACCGTGAGCG
* * * * *
60576677 TAAGACCATGATTGGACCATGGTTGTATATATATAAGTGTGTAAGACCATAACTGGGCTATGACA
1 TAAGACCATGGTTGGACCAT-G--GCA-ATATTTAA--ATGTAAGACCATAGCTGGGCTATGACA
* * * *** *
60576742 TCCTGAA-GATAAGACCATAACTGGGTTATGGCACTACGAGTG
60 T-TTTAATGAAAAGACCATAACTGGGTTATGGCACCGTGAGCG
* * ** * *
60576784 TAAGACCATGGTAGGGCCATGGCAATA--TATGTGTAAGACCATAGTTGGACTATG
1 TAAGACCATGGTTGGACCATGGCAATATTTAAATGTAAGACCATAGCTGGGCTATG
60576838 GCATCAAGAA
Statistics
Matches: 226, Mismatches: 29, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
99 21 0.09
101 116 0.51
102 1 0.00
103 3 0.01
104 4 0.02
105 7 0.03
106 1 0.00
107 70 0.31
108 3 0.01
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (101 bp):
TAAGACCATGGTTGGACCATGGCAATATTTAAATGTAAGACCATAGCTGGGCTATGACATTTTAA
TGAAAAGACCATAACTGGGTTATGGCACCGTGAGCG
Found at i:60576788 original size:33 final size:34
Alignment explanation
Indices: 60576715--60576792 Score: 90
Period size: 33 Copynumber: 2.4 Consensus size: 34
60576705 ATATATAAGT
*
60576715 GTGTAAGACCATAACTGGGCTATGACATCCTGAA
1 GTGTAAGACCATAACTGGGCTATGACATACTGAA
* * *
60576749 G-ATAAGACCATAACTGGGTTATGGCACTAC-G-A
1 GTGTAAGACCATAACTGGGCTATGACA-TACTGAA
60576781 GTGTAAGACCAT
1 GTGTAAGACCAT
60576793 GGTAGGGCCA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
32 2 0.05
33 32 0.86
34 3 0.08
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.23
Consensus pattern (34 bp):
GTGTAAGACCATAACTGGGCTATGACATACTGAA
Found at i:60583406 original size:12 final size:12
Alignment explanation
Indices: 60583389--60583413 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
60583379 TTGTAAATTA
60583389 AACAAATAAAAT
1 AACAAATAAAAT
60583401 AACAAATAAAAT
1 AACAAATAAAAT
60583413 A
1 A
60583414 GTTTCTAGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (12 bp):
AACAAATAAAAT
Found at i:60585867 original size:46 final size:46
Alignment explanation
Indices: 60585800--60585971 Score: 217
Period size: 46 Copynumber: 3.7 Consensus size: 46
60585790 AACCCGCCCC
*
60585800 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCA
*
60585846 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C-A-TTCGCATCCA
* * *
60585894 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCA
*
60585939 TAGGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
60585972 ATGCTCAACC
Statistics
Matches: 108, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 1 0.01
46 60 0.56
47 28 0.26
48 3 0.03
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCA
Found at i:60585912 original size:93 final size:93
Alignment explanation
Indices: 60585805--60585975 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
60585795 GCCCCTAAGT
*
60585805 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
60585870 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
60585898 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
60585963 CGAGTTCGGATGC
66 CGAGTTCGGATGC
60585976 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:60593217 original size:46 final size:46
Alignment explanation
Indices: 60593150--60593321 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
60593140 AACCCGCCCC
*
60593150 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
60593196 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * *
60593244 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
60593289 TAGGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
60593322 ATGCTCAACC
Statistics
Matches: 107, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 1 0.01
46 60 0.56
47 28 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:60593262 original size:93 final size:93
Alignment explanation
Indices: 60593155--60593325 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
60593145 GCCCCTAAGT
* *
60593155 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
60593220 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
60593248 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
60593313 CGAGTTCGGATGC
66 CGAGTTCGGATGC
60593326 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:60597115 original size:29 final size:29
Alignment explanation
Indices: 60597073--60597174 Score: 204
Period size: 29 Copynumber: 3.5 Consensus size: 29
60597063 GTGACAAGAT
60597073 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
1 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
60597102 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
1 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
60597131 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
1 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
60597160 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
60597175 GAATTTAAAT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 73 1.00
ACGTcount: A:0.32, C:0.15, G:0.28, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCAAGCTTGAAAAGTA
Found at i:60597193 original size:29 final size:29
Alignment explanation
Indices: 60597161--60597233 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
60597151 TGAAAAGTAT
* * *
60597161 GGCACTAAGTGTGCGAATTTAAATTATAC
1 GGCACTAAGTGTGCGAACTTAAATCACAC
* * *
60597190 GGCACTATGTGTGCGAGCTTAAATCACAT
1 GGCACTAAGTGTGCGAACTTAAATCACAC
60597219 GGCACTAAGTGTGCG
1 GGCACTAAGTGTGCG
60597234 TGATCGATTA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (29 bp):
GGCACTAAGTGTGCGAACTTAAATCACAC
Found at i:60597194 original size:58 final size:58
Alignment explanation
Indices: 60597074--60597233 Score: 195
Period size: 58 Copynumber: 2.8 Consensus size: 58
60597064 TGACAAGATT
*
60597074 GGCACTAAGTGTGCAAGCTTGAAAAGTATGGCACTAAGTGTGC-AAGCTTGAAAAGTAT
1 GGCACTAAGTGTGCAAGCTTGAAAAGTATGGCACTAAGTGTGCGAA-CTTGAAAAGTAC
*
60597132 GGCACTAAGTGTGCAAGCTTGAAAAGTATGGCACTAAGTGTGCGAA-TTTAAATTA-TAC
1 GGCACTAAGTGTGCAAGCTTGAAAAGTATGGCACTAAGTGTGCGAACTTGAAA--AGTAC
* * *
60597190 GGCACTATGTGTGCGAGCTT-AAATCA-CATGGCACTAAGTGTGCG
1 GGCACTAAGTGTGCAAGCTTGAAA--AGTATGGCACTAAGTGTGCG
60597234 TGATCGATTA
Statistics
Matches: 92, Mismatches: 5, Indels: 10
0.86 0.05 0.09
Matches are distributed among these distances:
57 8 0.09
58 80 0.87
59 4 0.04
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.26
Consensus pattern (58 bp):
GGCACTAAGTGTGCAAGCTTGAAAAGTATGGCACTAAGTGTGCGAACTTGAAAAGTAC
Found at i:60604197 original size:21 final size:23
Alignment explanation
Indices: 60604162--60604204 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
60604152 CCAAAACAGT
*
60604162 ATAAATGATAGGAAAAC-TAAAG
1 ATAAATGACAGGAAAACATAAAG
60604184 ATAAAT-ACAGGAAAACATAAA
1 ATAAATGACAGGAAAACATAAA
60604205 AAACAGTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.63, C:0.07, G:0.14, T:0.16
Consensus pattern (23 bp):
ATAAATGACAGGAAAACATAAAG
Found at i:60607041 original size:23 final size:21
Alignment explanation
Indices: 60607009--60607064 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 21
60606999 AAGAGAGAAT
60607009 GAAAAATAAAGAGTAA-ACAAAA
1 GAAAAATAAA-AG-AACACAAAA
*
60607031 GAAAAATTAAAAGAACATAAAA
1 GAAAAA-TAAAAGAACACAAAA
60607053 GAAAAAATAAAA
1 G-AAAAATAAAA
60607065 TTGCTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
21 2 0.07
22 19 0.63
23 9 0.30
ACGTcount: A:0.75, C:0.04, G:0.11, T:0.11
Consensus pattern (21 bp):
GAAAAATAAAAGAACACAAAA
Found at i:60607717 original size:20 final size:20
Alignment explanation
Indices: 60607688--60607737 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
60607678 GGTTATTTGC
60607688 ATGTTAGGGCTT-AGGATTT
1 ATGTTAGGGCTTGAGGATTT
*
60607707 ATGTGTAGGGCTTGAGGGTTT
1 ATGT-TAGGGCTTGAGGATTT
60607728 ATGGTTAGGG
1 AT-GTTAGGG
60607738 TTTTTGAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 4 0.15
20 8 0.30
21 13 0.48
22 2 0.07
ACGTcount: A:0.18, C:0.04, G:0.40, T:0.38
Consensus pattern (20 bp):
ATGTTAGGGCTTGAGGATTT
Found at i:60607797 original size:39 final size:39
Alignment explanation
Indices: 60607753--60607838 Score: 104
Period size: 39 Copynumber: 2.2 Consensus size: 39
60607743 GAGAAAAAAA
*
60607753 TAGGGTTTA-AGGTTTAAAAAGAATAAATAAA-TACGGGTT
1 TAGGGTTTAGAGGTTTAAAAA-AATAAATAAATTA-AGGTT
* **
60607792 TAGGGTTTAGAGTTTTTTAAAAATAAATAAATTAAGGTT
1 TAGGGTTTAGAGGTTTAAAAAAATAAATAAATTAAGGTT
60607831 TAGGGTTT
1 TAGGGTTT
60607839 TTAAAAAATA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
39 31 0.76
40 10 0.24
ACGTcount: A:0.40, C:0.01, G:0.22, T:0.37
Consensus pattern (39 bp):
TAGGGTTTAGAGGTTTAAAAAAATAAATAAATTAAGGTT
Found at i:60608111 original size:124 final size:124
Alignment explanation
Indices: 60607959--60608237 Score: 332
Period size: 125 Copynumber: 2.2 Consensus size: 124
60607949 GTAAATATAC
* * * * *
60607959 AAAAAAAGCTTCCAACTGGATGCTTTTTTAT-TACAATTTAATTTTG-AAAAATAATTTTGAGAA
1 AAAAAGAGCTCCCAGCTGGAAGCTTTTTTATGTACAA-TTAATTCTGAAAAAATAATTTT--G-A
60608022 GATAGTTCT-AAAAAATAGGTTAAAAAACGCTTCAAGCAAGATACAATGTCAGCAAAAGTACT
62 GATAGTTCTAAAAAAATAGGTTAAAAAACGCTTCAAGCAAGATACAATGTCAGCAAAAGTACT
* * * * *
60608084 AAAAA-AGGCTCCTAGTTGGACGCTTTTTTTTTGTACAATTGATTCTGAAAAAATAATTTTGAGA
1 AAAAAGA-GCTCCCAGCTGGAAGC-TTTTTTATGTACAATTAATTCTGAAAAAATAATTTTGAGA
* * * * *
60608148 TAGTTTTAAAAAAATAGGTTAAAAAACGCTTCAATCAGGATGCACTGTCAGCAAAAGTACT
64 TAGTTCTAAAAAAATAGGTTAAAAAACGCTTCAAGCAAGATACAATGTCAGCAAAAGTACT
*
60608209 GAAAAGAGCTCCCAGCTGGAAGCTTTTTT
1 AAAAAGAGCTCCCAGCTGGAAGCTTTTTT
60608238 CAGTAGTGCT
Statistics
Matches: 131, Mismatches: 17, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
124 16 0.12
125 83 0.63
126 15 0.11
127 17 0.13
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (124 bp):
AAAAAGAGCTCCCAGCTGGAAGCTTTTTTATGTACAATTAATTCTGAAAAAATAATTTTGAGATA
GTTCTAAAAAAATAGGTTAAAAAACGCTTCAAGCAAGATACAATGTCAGCAAAAGTACT
Found at i:60611582 original size:21 final size:21
Alignment explanation
Indices: 60611539--60611591 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
60611529 TACAAGGCAC
**
60611539 ACATGCCCGTGTGGTCAAGGG
1 ACATGCCCGTGTGACCAAGGG
60611560 ACATGCCCGTGTGACCATA-GG
1 ACATGCCCGTGTGACCA-AGGG
*
60611581 ACAAGCCCGTG
1 ACATGCCCGTG
60611592 CTACAGGCCG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 27 0.96
22 1 0.04
ACGTcount: A:0.23, C:0.28, G:0.32, T:0.17
Consensus pattern (21 bp):
ACATGCCCGTGTGACCAAGGG
Found at i:60613451 original size:27 final size:23
Alignment explanation
Indices: 60613404--60613449 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
60613394 GACCATATAA
60613404 ATCTATTAAAATAAATTTTCTTT
1 ATCTATTAAAATAAATTTTCTTT
60613427 ATCTATTAAAATAAATTTTCTTT
1 ATCTATTAAAATAAATTTTCTTT
60613450 CTAGCTCGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.52
Consensus pattern (23 bp):
ATCTATTAAAATAAATTTTCTTT
Found at i:60617349 original size:18 final size:18
Alignment explanation
Indices: 60617326--60617362 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
60617316 AAAGAAATAT
60617326 ATAAGGGTTAGGATACAC
1 ATAAGGGTTAGGATACAC
60617344 ATAAGGGTTAGGATACAC
1 ATAAGGGTTAGGATACAC
60617362 A
1 A
60617363 CCTGGCATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.11, G:0.27, T:0.22
Consensus pattern (18 bp):
ATAAGGGTTAGGATACAC
Found at i:60617595 original size:17 final size:17
Alignment explanation
Indices: 60617573--60617615 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
60617563 CCATTGCATG
60617573 TAATCTGGCTCGCACGC
1 TAATCTGGCTCGCACGC
60617590 TAATCTGGCTCGCACGC
1 TAATCTGGCTCGCACGC
60617607 TAACTCTGG
1 TAA-TCTGG
60617616 AATGATAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 20 0.80
18 5 0.20
ACGTcount: A:0.19, C:0.33, G:0.23, T:0.26
Consensus pattern (17 bp):
TAATCTGGCTCGCACGC
Found at i:60625803 original size:20 final size:20
Alignment explanation
Indices: 60625764--60625804 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
60625754 GACCATTTGC
* *
60625764 TAATTTCAAATAACACATAT
1 TAATTTCAAATAAAAAATAT
*
60625784 TAATTTCTAATAAAAAATAT
1 TAATTTCAAATAAAAAATAT
60625804 T
1 T
60625805 TTGCGAAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.39
Consensus pattern (20 bp):
TAATTTCAAATAAAAAATAT
Found at i:60628188 original size:3 final size:3
Alignment explanation
Indices: 60628180--60628546 Score: 155
Period size: 3 Copynumber: 123.0 Consensus size: 3
60628170 AATGGTTTGA
60628180 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
60628227 AAT AAT AAT AAT AAT GAT AAT GAT AAT GAT AAC AAT ATT AA- CAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
* * * * * * ** *
60628275 TAT AAGT AAT -AT AA- AGT -TT GA- AAG GAT GTT AGT AAAT AAAT AAT
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT -AAT AAT
* * * ** * * *
60628319 AA- GAT GAT AAT AAA AAT GTCT AAA AAGA AAT AAT AAT AAGT AAGT AAGG
1 AAT AAT AAT AAT AAT AAT -AAT AAT AA-T AAT AAT AAT AA-T AA-T AA-T
* * * * * * * * * *
60628368 AA- AAA AAA AAG AAG AAA AAG AAT GAT -GT AAT AAT AAT GAT ATT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * ** *
60628413 ATT AAT TAT TTT AAT AAT -AT AAT AAT AAT AA- AAT AAAG AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
*
60628457 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
60628505 AGT AAT AGT AAT AGT AGT AGT AAT AAT AAT AAT AAT ATT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
60628547 TAATTTAATA
Statistics
Matches: 281, Mismatches: 64, Indels: 38
0.73 0.17 0.10
Matches are distributed among these distances:
2 17 0.06
3 237 0.84
4 27 0.10
ACGTcount: A:0.60, C:0.01, G:0.08, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:60630012 original size:52 final size:52
Alignment explanation
Indices: 60629908--60630013 Score: 131
Period size: 52 Copynumber: 2.0 Consensus size: 52
60629898 GGTGTAGGAT
* * * * * *
60629908 TTGTGGCTTTAATCTGCTCTACTGCAACGTCAGGGAGATAAGATTTGTTATC
1 TTGTAGCTTTAATCTGCTCTACTACAACGTCAGGGAAATAAAATTCGCTATC
* * *
60629960 TTGTAGCTTTAATCTGTTCTACTATAACTTCAGGGAAATAAAATTCGCTATC
1 TTGTAGCTTTAATCTGCTCTACTACAACGTCAGGGAAATAAAATTCGCTATC
60630012 TT
1 TT
60630014 TAATCTGCTC
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
52 45 1.00
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.39
Consensus pattern (52 bp):
TTGTAGCTTTAATCTGCTCTACTACAACGTCAGGGAAATAAAATTCGCTATC
Found at i:60630237 original size:44 final size:44
Alignment explanation
Indices: 60630152--60630555 Score: 176
Period size: 44 Copynumber: 9.0 Consensus size: 44
60630142 TTCGTCATAA
* * * *
60630152 TAACTTTAATCCATCCC-ACTGCAACTTCAAGGG-TATGAGATTTG
1 TAACTTCAATCTA-CCCTACTGCAACTTC-AGGGAGATAAGATTTG
* *
60630196 TAACTTCAATCTACCCTACTACAACTTCAGTGAGATAAGATTTGG
1 TAACTTCAATCTACCCTACTGCAACTTCAGGGAGATAAGATTT-G
** * * *
60630241 TATTTTTAATCTACTCC-ACTGCGACTTCAGGGAGATAAGACTTG
1 TAACTTCAATCTAC-CCTACTGCAACTTCAGGGAGATAAGATTTG
* * * * * * *
60630285 TGACTTCAACCTGCTCTATTGCAACTTCAGGGAGATAAGGTTTA
1 TAACTTCAATCTACCCTACTGCAACTTCAGGGAGATAAGATTTG
* * *** * * * *
60630329 TAGCTTTAATCTGTTCTACAGTAACTTCAGAGAGATAAGATTTTC
1 TAACTTCAATCTACCCTACTGCAACTTCAGGGAGATAAGA-TTTG
** * * * * * *
60630374 TATTTTTAGTCTGCTCC-ACTGCAACTCCTGGGAGATAAGATTTA
1 TAACTTCAATCTAC-CCTACTGCAACTTCAGGGAGATAAGATTTG
** * * *
60630418 TGGCTTTAATCTACTCC-ACTACAACTTCAAGGAGATAAGATTTTCCATG
1 TAACTTCAATCTAC-CCTACTGCAACTTCAGGGAGATAAGA--TT---TG
* * * *
60630467 ATAACTTCGATCTGTCCC-ACTGCAATTTCAGGTGTG-TAAGATTTG
1 -TAACTTCAATCT-ACCCTACTGCAACTTCAGG-GAGATAAGATTTG
** * *
60630512 TGGCTTCAATCTGCTCC-ACTGCAACTTTAGGGAGATAAGATTTG
1 TAACTTCAATCTAC-CCTACTGCAACTTCAGGGAGATAAGATTTG
60630556 CCATGATAGC
Statistics
Matches: 270, Mismatches: 73, Indels: 34
0.72 0.19 0.09
Matches are distributed among these distances:
43 10 0.04
44 156 0.58
45 67 0.25
46 5 0.02
48 2 0.01
49 1 0.00
50 26 0.10
51 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.34
Consensus pattern (44 bp):
TAACTTCAATCTACCCTACTGCAACTTCAGGGAGATAAGATTTG
Found at i:60630444 original size:89 final size:89
Alignment explanation
Indices: 60630295--60630462 Score: 214
Period size: 89 Copynumber: 1.9 Consensus size: 89
60630285 TGACTTCAAC
* * * * ** * *
60630295 CTGCTCTATTGCAACTTCAGGGAGATAAGGTTTATAGCTTTAATCTGTTCTACAGTAACTTC-AG
1 CTGCTCCACTGCAACTCCAGGGAGATAAGATTTATAGCTTTAATCTACTCCACAGCAACTTCAAG
60630359 AGAGATAAGATTTTCTATTTTTAGT
66 -GAGATAAGATTTTCTATTTTTAGT
* *
60630384 CTGCTCCACTGCAACTCCTGGGAGATAAGATTTATGGCTTTAATCTACTCCACTA-CAACTTCAA
1 CTGCTCCACTGCAACTCCAGGGAGATAAGATTTATAGCTTTAATCTACTCCAC-AGCAACTTCAA
60630448 GGAGATAAGATTTTC
65 GGAGATAAGATTTTC
60630463 CATGATAACT
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
89 64 0.96
90 3 0.04
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (89 bp):
CTGCTCCACTGCAACTCCAGGGAGATAAGATTTATAGCTTTAATCTACTCCACAGCAACTTCAAG
GAGATAAGATTTTCTATTTTTAGT
Found at i:60630579 original size:94 final size:94
Alignment explanation
Indices: 60630409--60630590 Score: 247
Period size: 94 Copynumber: 1.9 Consensus size: 94
60630399 TCCTGGGAGA
* *
60630409 TAAGATTTATGGCTTTAATCTACTCCACTACAACTTCAAGGAGATAAGATTTTCCATGATAACTT
1 TAAGATTTATGGCTTCAATCTACTCCACTACAACTTCAAGGAGATAAGATTTGCCATGATAACTT
* **
60630474 CGATCTGTCCCACTGCAATTTCAGGTGTG
66 CAATCCATCCCACTGCAATTTCAGGTGTG
* * * * * *
60630503 TAAGATTTGTGGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCCATGATAGCTT
1 TAAGATTTATGGCTTCAATCTACTCCACTACAACTTCAAGGAGATAAGATTTGCCATGATAACTT
**
60630568 CAATCCATCCCACTTTAATTTCA
66 CAATCCATCCCACTGCAATTTCA
60630591 AAGATGCAGG
Statistics
Matches: 75, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
94 75 1.00
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (94 bp):
TAAGATTTATGGCTTCAATCTACTCCACTACAACTTCAAGGAGATAAGATTTGCCATGATAACTT
CAATCCATCCCACTGCAATTTCAGGTGTG
Found at i:60632248 original size:62 final size:62
Alignment explanation
Indices: 60632151--60632275 Score: 232
Period size: 62 Copynumber: 2.0 Consensus size: 62
60632141 ATGATATTTG
*
60632151 CATATGACGCATCTTTCACCCACTTAGTGAAATAATTGACGACCACAAAGATGAATCAATGC
1 CATATGACGCATCCTTCACCCACTTAGTGAAATAATTGACGACCACAAAGATGAATCAATGC
*
60632213 CATATGACGCATCCTTCACCTACTTAGTGAAATAATTGACGACCACAAAGATGAATCAATGC
1 CATATGACGCATCCTTCACCCACTTAGTGAAATAATTGACGACCACAAAGATGAATCAATGC
60632275 C
1 C
60632276 TGCTAGAAGC
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.24
Consensus pattern (62 bp):
CATATGACGCATCCTTCACCCACTTAGTGAAATAATTGACGACCACAAAGATGAATCAATGC
Found at i:60633927 original size:246 final size:246
Alignment explanation
Indices: 60633493--60633985 Score: 839
Period size: 246 Copynumber: 2.0 Consensus size: 246
60633483 ATCTTGAAAG
*
60633493 GCCTTGATAGCTAGTGGTTACGGCCCTCGGCTGACCTACAATGACCGATTTAGAATACCCTTTAT
1 GCCTTGATAACTAGTGGTTACGGCCCTCGGCTGACCTACAATGACCGATTTAGAATACCCTTTAT
* * *
60633558 TATATATGCTTAGGTTATTTACTTCATTTTCCTTATTCTTTGGGTTGATCTTTTGACGCTTTCTC
66 TATATATGCTCAGGTTATTTACTTCATTTTCCTTATTCTTCGGGTTGATCTTTTGACGCTTTCCC
* *
60633623 CTGCATCTATCTTCCCACTTCTTATTGTGTTTTCAATCATCTCGCTAAACATTACTATATCTGAG
131 CTGCATCTATCTTCCCACTTCTTATTGTGTTTTCAATCATCTCGCCAAACATTACTATATCTGAA
* *
60633688 AAGCTTCTCGTAGCGCTTCCCAACATATAGG-TAATGAAT-GGTGCTTTCAGA
196 AACCTACTCGTAGCGCTTCCCAACATAT-GGTTAATGAATAGG-GCTTTCAGA
*
60633739 GCCTTGATAACTAGTGGTTACGGCCCTCGGCTGACCTACAATGACCGATTTGGAATACCCTTTAT
1 GCCTTGATAACTAGTGGTTACGGCCCTCGGCTGACCTACAATGACCGATTTAGAATACCCTTTAT
*
60633804 TATATATGCTCAGGTTATTTACTTCATTTTCCTTGTTCTTCGAGG-TGATCTTTTGACGCTTTCC
66 TATATATGCTCAGGTTATTTACTTCATTTTCCTTATTCTTCG-GGTTGATCTTTTGACGCTTTCC
*
60633868 CCTGCATCTATCTTCCTACTTCTTATTGTGTTTTCAATCATCTCGCCAAACATTACTATATCTGA
130 CCTGCATCTATCTTCCCACTTCTTATTGTGTTTTCAATCATCTCGCCAAACATTACTATATCTGA
60633933 AAACCTACTCGTAGCGCTTCCCAACATATGGTTAATGAATAGGGCTTTCAGA
195 AAACCTACTCGTAGCGCTTCCCAACATATGGTTAATGAATAGGGCTTTCAGA
60633985 G
1 G
60633986 TGTTGATGAA
Statistics
Matches: 233, Mismatches: 11, Indels: 6
0.93 0.04 0.02
Matches are distributed among these distances:
245 2 0.01
246 227 0.97
247 4 0.02
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (246 bp):
GCCTTGATAACTAGTGGTTACGGCCCTCGGCTGACCTACAATGACCGATTTAGAATACCCTTTAT
TATATATGCTCAGGTTATTTACTTCATTTTCCTTATTCTTCGGGTTGATCTTTTGACGCTTTCCC
CTGCATCTATCTTCCCACTTCTTATTGTGTTTTCAATCATCTCGCCAAACATTACTATATCTGAA
AACCTACTCGTAGCGCTTCCCAACATATGGTTAATGAATAGGGCTTTCAGA
Found at i:60636895 original size:3 final size:3
Alignment explanation
Indices: 60636887--60636959 Score: 137
Period size: 3 Copynumber: 24.3 Consensus size: 3
60636877 ATGGTTTGAA
*
60636887 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT TAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
60636935 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
60636960 TTAACATAAA
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 68 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:60637093 original size:3 final size:3
Alignment explanation
Indices: 60637085--60637256 Score: 120
Period size: 3 Copynumber: 58.0 Consensus size: 3
60637075 AAAAATGATG
* * *
60637085 TAA TAA TAA TGA TAA TAA -AA TAAA GAA TAA TAA T-A TAT TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA
* * * * * * *
60637129 TAA TAG TAG TAG TAA -AGA CAA TAA T-A TAA TAA GAA TGA TGA TAA
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
60637173 TAA TAC TAA TAC T-A TCAA TAA TAG TAA TAA TAG TAA TAA TAA GAA
1 TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
60637218 TAA TAG TAA TAA TAA TAG TAG TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
60637257 AATTAATTAA
Statistics
Matches: 134, Mismatches: 27, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
2 8 0.06
3 121 0.90
4 5 0.04
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:60640322 original size:30 final size:30
Alignment explanation
Indices: 60640282--60640358 Score: 118
Period size: 30 Copynumber: 2.6 Consensus size: 30
60640272 ATATGATCAT
*
60640282 GATCAGATCTTGGTATTTCAGTTAGGAAAG
1 GATCAGATCTTGGTATATCAGTTAGGAAAG
* *
60640312 GATCAAATCTTGGTAAATCAGTTAGGAAAG
1 GATCAGATCTTGGTATATCAGTTAGGAAAG
*
60640342 GATCTGATCTTGGTATA
1 GATCAGATCTTGGTATA
60640359 ACTATTAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.32, C:0.10, G:0.25, T:0.32
Consensus pattern (30 bp):
GATCAGATCTTGGTATATCAGTTAGGAAAG
Found at i:60642375 original size:37 final size:37
Alignment explanation
Indices: 60642325--60642395 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
60642315 ATACACCAAC
60642325 CAAATCCCACACATTCTCCAATTTCGAATCATAACAT
1 CAAATCCCACACATTCTCCAATTTCGAATCATAACAT
60642362 CAAATCCCACACATTCTCCAATTTCGAATCATAA
1 CAAATCCCACACATTCTCCAATTTCGAATCATAA
60642396 AAGACAATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.38, C:0.32, G:0.03, T:0.27
Consensus pattern (37 bp):
CAAATCCCACACATTCTCCAATTTCGAATCATAACAT
Found at i:60645224 original size:6 final size:6
Alignment explanation
Indices: 60645213--60645240 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
60645203 ATGTACATGC
60645213 ATATTG ATATTG ATATTG ATATTG ATAT
1 ATATTG ATATTG ATATTG ATATTG ATAT
60645241 CTTAATGTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (6 bp):
ATATTG
Found at i:60647081 original size:26 final size:26
Alignment explanation
Indices: 60647013--60647081 Score: 104
Period size: 26 Copynumber: 2.7 Consensus size: 26
60647003 AAAGCTCCGG
*
60647013 AGAGCCATTAATCAGGAAGCTTACGA
1 AGAGCCATTAATCGGGAAGCTTACGA
*
60647039 AGAGCCTTTAATCGGGAAGCTTACGA
1 AGAGCCATTAATCGGGAAGCTTACGA
60647065 AGAGCCATATAAT-GGGA
1 AGAGCCAT-TAATCGGGA
60647082 TGCTCATAAG
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
26 35 0.90
27 4 0.10
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.20
Consensus pattern (26 bp):
AGAGCCATTAATCGGGAAGCTTACGA
Found at i:60659593 original size:73 final size:73
Alignment explanation
Indices: 60659513--60659660 Score: 287
Period size: 73 Copynumber: 2.0 Consensus size: 73
60659503 GTGAATTGTA
*
60659513 AAATTCAATTCAAAACTCAAATATATGAGGAATCCATCAAAATCACTAAACAAGTTACCTTACCG
1 AAATTCAATTCAAAACTCAAATATATAAGGAATCCATCAAAATCACTAAACAAGTTACCTTACCG
60659578 ATATTTTC
66 ATATTTTC
60659586 AAATTCAATTCAAAACTCAAATATATAAGGAATCCATCAAAATCACTAAACAAGTTACCTTACCG
1 AAATTCAATTCAAAACTCAAATATATAAGGAATCCATCAAAATCACTAAACAAGTTACCTTACCG
60659651 ATATTTTC
66 ATATTTTC
60659659 AA
1 AA
60659661 TTCGATAAAC
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 74 1.00
ACGTcount: A:0.45, C:0.20, G:0.06, T:0.28
Consensus pattern (73 bp):
AAATTCAATTCAAAACTCAAATATATAAGGAATCCATCAAAATCACTAAACAAGTTACCTTACCG
ATATTTTC
Found at i:60664088 original size:23 final size:23
Alignment explanation
Indices: 60664057--60664105 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
60664047 AATGATAGCC
*
60664057 AATCCATACCCAGAATAACATCA
1 AATCAATACCCAGAATAACATCA
60664080 AATCAATACCCAGAATAACATCA
1 AATCAATACCCAGAATAACATCA
60664103 AAT
1 AAT
60664106 TCCCAAAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.51, C:0.27, G:0.04, T:0.18
Consensus pattern (23 bp):
AATCAATACCCAGAATAACATCA
Found at i:60669210 original size:29 final size:30
Alignment explanation
Indices: 60669166--60669241 Score: 75
Period size: 29 Copynumber: 2.5 Consensus size: 30
60669156 TTATGCTTCC
*
60669166 AATCTTTATATCTTTTTACCT-TTAAAATTT
1 AATCTTTATAT-TTTTTAACTCTTAAAATTT
* * *
60669196 AGTCTTTCTA-TTTTTAATTCTTAAAATTT
1 AATCTTTATATTTTTTAACTCTTAAAATTT
*
60669225 AATCTTTTTAATTTTTT
1 AATCTTTAT-ATTTTTT
60669242 TATTTAATAC
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
28 7 0.19
29 16 0.43
30 9 0.24
31 5 0.14
ACGTcount: A:0.28, C:0.11, G:0.01, T:0.61
Consensus pattern (30 bp):
AATCTTTATATTTTTTAACTCTTAAAATTT
Found at i:60670673 original size:2 final size:2
Alignment explanation
Indices: 60670666--60670702 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
60670656 TAACTTCAAT
60670666 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
60670703 ATGATGAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:60674234 original size:3 final size:3
Alignment explanation
Indices: 60674226--60674274 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
60674216 AAATTAAGTT
60674226 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
60674274 T
1 T
60674275 GTTTTTGTTC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:60679078 original size:22 final size:22
Alignment explanation
Indices: 60679050--60679095 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
60679040 TTGGAATTGT
60679050 AGACGACATAATAATCCTTCTA
1 AGACGACATAATAATCCTTCTA
*
60679072 AGACGACATAATAATTCTTCTA
1 AGACGACATAATAATCCTTCTA
60679094 AG
1 AG
60679096 TATTTGAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.28
Consensus pattern (22 bp):
AGACGACATAATAATCCTTCTA
Found at i:60685549 original size:48 final size:46
Alignment explanation
Indices: 60685431--60685551 Score: 154
Period size: 46 Copynumber: 2.6 Consensus size: 46
60685421 TTTACAGTGT
60685431 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAAA
* * *
60685477 GCCAGTGTAAGACATGTCTGGGACATGTATCGGCCTCGATATAT-ACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-AT-TATGA-AA
* * *
60685525 GCTAGTGTAAGACCTGTTTAGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
60685552 GCGTCAGCTA
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
46 34 0.52
47 3 0.05
48 28 0.43
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAAA
Found at i:60692515 original size:2 final size:2
Alignment explanation
Indices: 60692504--60692538 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
60692494 CTATTATTTT
*
60692504 TA TA -A TA TA TA TA TA TA TA TA TA TA TT TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
60692539 GATTTCATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:60692907 original size:11 final size:11
Alignment explanation
Indices: 60692891--60692922 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
60692881 TCTCAACAAC
60692891 AAAAAAAAAAG
1 AAAAAAAAAAG
60692902 AAAAAAAAAAG
1 AAAAAAAAAAG
60692913 AACAAAAAAA
1 AA-AAAAAAA
60692923 CCCTTTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.65
12 7 0.35
ACGTcount: A:0.91, C:0.03, G:0.06, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:60701188 original size:21 final size:21
Alignment explanation
Indices: 60701164--60701217 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
60701154 CACCATTGTT
60701164 TCTAATCTCACCGCTACAGTA
1 TCTAATCTCACCGCTACAGTA
*
60701185 TCTAATCTCACCGTTACAGTA
1 TCTAATCTCACCGCTACAGTA
*
60701206 ACTAATCTCACC
1 TCTAATCTCACC
60701218 ACCACCGCTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.30, C:0.33, G:0.07, T:0.30
Consensus pattern (21 bp):
TCTAATCTCACCGCTACAGTA
Found at i:60704223 original size:29 final size:29
Alignment explanation
Indices: 60704190--60704292 Score: 152
Period size: 29 Copynumber: 3.6 Consensus size: 29
60704180 CCTTCGAGCT
** * *
60704190 CGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
60704219 TGCACATTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
60704248 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
60704277 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
60704293 ATCTCGTCAC
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:60704224 original size:58 final size:58
Alignment explanation
Indices: 60704161--60704292 Score: 156
Period size: 58 Copynumber: 2.3 Consensus size: 58
60704151 AATTTAAGCC
* * * * * *
60704161 CGCACACATAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
* * * * **
60704219 TGCACATTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
60704277 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
60704293 ATCTCGTCAC
Statistics
Matches: 60, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.26
Consensus pattern (58 bp):
CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
Found at i:60711540 original size:48 final size:48
Alignment explanation
Indices: 60711469--60711630 Score: 166
Period size: 48 Copynumber: 3.4 Consensus size: 48
60711459 GTAACAAGCT
* * * *
60711469 GATGCCATGTCCTAGATAGGTCTTACACTAGCTTGTATATCTCGAGGCC
1 GATG-CATGTCCTAGACATGTCTTACACTGGCTTGTATATCTTGAGGCC
* * * * * ** * *
60711518 AAAGCATGTCCCAGACATGTCTTATACTGGC-TCT-CGTCTTAATGCC
1 GATGCATGTCCTAGACATGTCTTACACTGGCTTGTATATCTTGAGGCC
* *
60711564 GATGCATGTCCTTGACATGTCTTACACTGGCTGGTATATCTTGAGGCC
1 GATGCATGTCCTAGACATGTCTTACACTGGCTTGTATATCTTGAGGCC
60711612 GATGCATGTCCTAGACATG
1 GATGCATGTCCTAGACATG
60711631 ACTGTCTCTC
Statistics
Matches: 86, Mismatches: 25, Indels: 5
0.74 0.22 0.04
Matches are distributed among these distances:
46 33 0.38
47 3 0.03
48 48 0.56
49 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.31
Consensus pattern (48 bp):
GATGCATGTCCTAGACATGTCTTACACTGGCTTGTATATCTTGAGGCC
Found at i:60714478 original size:18 final size:18
Alignment explanation
Indices: 60714455--60714490 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
60714445 TTCTTGGGTG
60714455 GTAGTCGATTATCAACTC
1 GTAGTCGATTATCAACTC
**
60714473 GTAGTCTTTTATCAACTC
1 GTAGTCGATTATCAACTC
60714491 CAATTATCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (18 bp):
GTAGTCGATTATCAACTC
Found at i:60717659 original size:68 final size:68
Alignment explanation
Indices: 60717550--60717685 Score: 263
Period size: 68 Copynumber: 2.0 Consensus size: 68
60717540 ATATAATCAT
60717550 TTCTGAGTTATAAAAACTAGATCAAATTTAAAAATTTTCCATAATTGTTTAAAAGACCTTGATAT
1 TTCTGAGTTATAAAAACTAGATCAAATTTAAAAATTTTCCATAATTGTTTAAAAGACCTTGATAT
60717615 GGG
66 GGG
*
60717618 TTCTGAGTTATAAAAACTAGATCAAATTTAAAACTTTTCCATAATTGTTTAAAAGACCTTGATAT
1 TTCTGAGTTATAAAAACTAGATCAAATTTAAAAATTTTCCATAATTGTTTAAAAGACCTTGATAT
60717683 GGG
66 GGG
60717686 ACTACGAGGC
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 67 1.00
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (68 bp):
TTCTGAGTTATAAAAACTAGATCAAATTTAAAAATTTTCCATAATTGTTTAAAAGACCTTGATAT
GGG
Found at i:60719232 original size:49 final size:49
Alignment explanation
Indices: 60719173--60719284 Score: 136
Period size: 49 Copynumber: 2.3 Consensus size: 49
60719163 GCCATATTCT
* *
60719173 AGACAGGTCTTACACTGACTTTCATATATCGAG-GCCGATACCGTGTCCC
1 AGACAGGTCTTACACTGACTCTCATATATC-AGTGCCGATACCATGTCCC
* * * * * *
60719222 AGACAAGTCTTACATTGGCTCTCATCTATCAGTGTCGATGCCATGTCCC
1 AGACAGGTCTTACACTGACTCTCATATATCAGTGCCGATACCATGTCCC
60719271 AGACAGGTCTTACA
1 AGACAGGTCTTACA
60719285 TTAGCTTGTG
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
48 2 0.04
49 51 0.96
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.28
Consensus pattern (49 bp):
AGACAGGTCTTACACTGACTCTCATATATCAGTGCCGATACCATGTCCC
Found at i:60719329 original size:48 final size:48
Alignment explanation
Indices: 60719257--60719477 Score: 190
Period size: 46 Copynumber: 4.7 Consensus size: 48
60719247 CTATCAGTGT
* *
60719257 CGATGCCATGTCCCAGACAGGTCTTACATTAGCTTGTGTATCTCGAGGC
1 CGATG-CATGTCCCAGACATGTCTTACACTAGCTTGTGTATCTCGAGGC
* * * * *
60719306 CAATGCGTGTCCCAGACATGTCTTATACTAGCTCTCGT-T-T-T-AATGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCT-T-GTGTATCTCGAGGC
*
60719352 CGATGCATGTCCCAGACATGTCTTACACT-GGTTG-GTAAATCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTTGTGT--ATCTCGAGGC
* * ** *
60719400 CGATGCATGTCCCAGACATGTCTTACACTGGC-TCTAAATAT--ATGGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTTGTGTATCTCGA-GGC
* *
60719446 CTATGCATGCCCCAGACATGTCTTACACTAGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGC
60719478 ATACATATCA
Statistics
Matches: 140, Mismatches: 21, Indels: 25
0.75 0.11 0.13
Matches are distributed among these distances:
43 2 0.01
44 1 0.01
45 3 0.02
46 62 0.44
47 5 0.04
48 58 0.41
49 7 0.05
50 2 0.01
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (48 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTTGTGTATCTCGAGGC
Found at i:60719394 original size:94 final size:94
Alignment explanation
Indices: 60719257--60719477 Score: 268
Period size: 94 Copynumber: 2.3 Consensus size: 94
60719247 CTATCAGTGT
* * *
60719257 CGATGCCATGTCCCAGACAGGTCTTACATTAGCTTGTGTATCTCGAGGCCAATGCGTGTCCCAGA
1 CGATG-CATGTCCCAGACATGTCTTACACTAGCTTGTGTATCTCGAGGCCAATGCATGTCCCAGA
* *** *
60719322 CATGTCTTATACTAGCTCTCGTTTTAAT-GC
65 CATGTCTTACACTAGCTCTAAATAT-ATGGC
* *
60719352 CGATGCATGTCCCAGACATGTCTTACACT-GGTTG-GTAAATCTCGAGGCCGATGCATGTCCCAG
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTTGTGT--ATCTCGAGGCCAATGCATGTCCCAG
*
60719415 ACATGTCTTACACTGGCTCTAAATATATGGC
64 ACATGTCTTACACTAGCTCTAAATATATGGC
* *
60719446 CTATGCATGCCCCAGACATGTCTTACACTAGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGC
60719478 ATACATATCA
Statistics
Matches: 108, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
92 2 0.02
93 6 0.06
94 94 0.87
95 6 0.06
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (94 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTTGTGTATCTCGAGGCCAATGCATGTCCCAGAC
ATGTCTTACACTAGCTCTAAATATATGGC
Found at i:60721505 original size:42 final size:42
Alignment explanation
Indices: 60721446--60721529 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
60721436 CAAAGCATTT
60721446 AAGAACTGTTTTGAAGACATTACGAGATAAGCAACTATATGC
1 AAGAACTGTTTTGAAGACATTACGAGATAAGCAACTATATGC
60721488 AAGAACTGTTTTGAAGACATTACGAGATAAGCAACTATATGC
1 AAGAACTGTTTTGAAGACATTACGAGATAAGCAACTATATGC
60721530 TAAGTTTAGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.26
Consensus pattern (42 bp):
AAGAACTGTTTTGAAGACATTACGAGATAAGCAACTATATGC
Found at i:60721914 original size:13 final size:13
Alignment explanation
Indices: 60721896--60721924 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
60721886 AGTTGTTTAT
60721896 TAAACTAATTAAC
1 TAAACTAATTAAC
60721909 TAAACTAATTAAC
1 TAAACTAATTAAC
60721922 TAA
1 TAA
60721925 TTAAACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:60726474 original size:48 final size:48
Alignment explanation
Indices: 60726403--60726830 Score: 378
Period size: 48 Copynumber: 8.9 Consensus size: 48
60726393 ACATTTAGGT
* *
60726403 GATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
* * * * *
60726451 GATATGAGAGCCAATGTAAGACCATGT-TCAGAACATGGCATCGGCGAT
1 GATATGAGAGCCAGTGTAAGACCATGTCT-GGGACATGGCATCGGCCAC
* * ***
60726499 GTTGTGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTT
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
* * * * * *
60726547 GATATGTGCGCTAATGTAAGACCATGTCTGGGAGATGGCATCGACCAC
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
* * ***
60726595 -ATCATGAGAGCCAGTGTAAGACCATGTCTGGGGCATGGCATCAGCGTT
1 GAT-ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
*** * * * *
60726643 GATATGCTCGCTAGTGTAAGACCATGTCTGGGAGATGGCATTGACCAC
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
* ** *
60726691 -ATCATGAGAGCCAGTGTAAGACCATGTCTGGGACATGACATCGGTAAT
1 GAT-ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
* ** * * * * * *
60726739 GAGAAAAAAGCTAGTGTAAGACCATGTCTAGGACATGGCGTCGGTCTC
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
* * * *
60726787 GACATGTGAGCCAGT-TAAGACCATGTTTGGAACATGGCATCGGC
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
60726831 AATTCACCGT
Statistics
Matches: 294, Mismatches: 80, Indels: 13
0.76 0.21 0.03
Matches are distributed among these distances:
47 29 0.10
48 261 0.89
49 4 0.01
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (48 bp):
GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
Found at i:60726585 original size:96 final size:96
Alignment explanation
Indices: 60726412--60726734 Score: 434
Period size: 96 Copynumber: 3.4 Consensus size: 96
60726402 TGATATGTGT
*** * * *
60726412 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAATGTAAGACCATG
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGCGCTAATGTAAGACCATG
* * * * * ** **
60726477 T-TCAGAACATGGCATCGGCGATGTTGTGAGA
66 TCT-GGGAGATGGCATCGACCACATCATGAGA
60726508 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGCGCTAATGTAAGACCATG
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGCGCTAATGTAAGACCATG
60726573 TCTGGGAGATGGCATCGACCACATCATGAGA
66 TCTGGGAGATGGCATCGACCACATCATGAGA
* * *
60726604 GCCAGTGTAAGACCATGTCTGGGGCATGGCATCAGCGTTGATATGCT-CGCTAGTGTAAGACCAT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATG-TGCGCTAATGTAAGACCAT
*
60726668 GTCTGGGAGATGGCATTGACCACATCATGAGA
65 GTCTGGGAGATGGCATCGACCACATCATGAGA
*
60726700 GCCAGTGTAAGACCATGTCTGGGACATGACATCGG
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG
60726735 TAATGAGAAA
Statistics
Matches: 203, Mismatches: 22, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
96 201 0.99
97 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.22
Consensus pattern (96 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGCGCTAATGTAAGACCATG
TCTGGGAGATGGCATCGACCACATCATGAGA
Found at i:60728929 original size:49 final size:49
Alignment explanation
Indices: 60728873--60728969 Score: 167
Period size: 49 Copynumber: 2.0 Consensus size: 49
60728863 GTTGCTTGAG
60728873 TTTGTTGCTATGCTATTTTGAGCATGTAACACCCTCGACCCGACCTGAA
1 TTTGTTGCTATGCTATTTTGAGCATGTAACACCCTCGACCCGACCTGAA
* * *
60728922 TTTGTTGCTATGCTATTTTGATCATGTAACGCCCTCGACTCGACCTGA
1 TTTGTTGCTATGCTATTTTGAGCATGTAACACCCTCGACCCGACCTGA
60728970 TTGACTGGAT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.35
Consensus pattern (49 bp):
TTTGTTGCTATGCTATTTTGAGCATGTAACACCCTCGACCCGACCTGAA
Found at i:60729889 original size:29 final size:29
Alignment explanation
Indices: 60729800--60729895 Score: 84
Period size: 31 Copynumber: 3.2 Consensus size: 29
60729790 GAAAAACCAC
* * * *
60729800 AAAGGCTTCCACATATAGCAAATTCAGCTAC
1 AAAGGC-T-CACATATAACAGATTCAGCCAT
* *
60729831 AAAGGCTTCCACATATAACAGGTTCTGCCAT
1 AAAGGC-T-CACATATAACAGATTCAGCCAT
* *
60729862 TAAGGCTCACATATAATAGATTCAGCCAT
1 AAAGGCTCACATATAACAGATTCAGCCAT
60729891 AAAGG
1 AAAGG
60729896 TATCACTTTT
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
29 23 0.43
30 1 0.02
31 30 0.56
ACGTcount: A:0.38, C:0.23, G:0.16, T:0.24
Consensus pattern (29 bp):
AAAGGCTCACATATAACAGATTCAGCCAT
Found at i:60736823 original size:48 final size:48
Alignment explanation
Indices: 60736453--60736823 Score: 478
Period size: 48 Copynumber: 7.7 Consensus size: 48
60736443 TAAAGTACCA
* ** * * *
60736453 ATGCCATGTCCCAGACATGGTCTTACATGAATC-CACATATCATCACCA
1 ATGCCATGTCCCAGACATGGTCTTACA-CAGGCACATATATCATCGCCG
* * * *
60736501 ATGCCATGTCCCAAACATGGTTTTACA-ATGGCACATATATCATCGTCA
1 ATGCCATGTCCCAGACATGGTCTTACACA-GGCACATATATCATCGCCG
* * * *
60736549 ATGCCATGTCCTAGACATGGTCTTACACAGACACATATATCATTGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCG
* *
60736597 ATGCCATGTCCTAGACATGGTCTTACACAGGTACATATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCG
* * *
60736645 ATGCCATGTCCTAGACATGGTCTTACACAGGCATATATATCATCGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCG
*
60736693 ATGCCATGTCCCAAACATGGTCTTACACAGGCACATATATCATCGCC-
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCG
* *
60736740 AAGACCATGTCCCAGACATGGTCTTACACATGCACATATATCATCGCCG
1 ATG-CCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCG
* *
60736789 ATGCCATGTCCCAGACATGGGCTTACAAAGGCACA
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACA
60736824 CTTCTCAGAT
Statistics
Matches: 285, Mismatches: 33, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
46 1 0.00
47 3 0.01
48 278 0.98
49 3 0.01
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCG
Found at i:60739510 original size:18 final size:19
Alignment explanation
Indices: 60739477--60739516 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
60739467 GCAAGGTTAT
*
60739477 TATATTCATAGGGTTTGCA
1 TATAATCATAGGGTTTGCA
60739496 TATAATCAT-GGGTTTGCA
1 TATAATCATAGGGTTTGCA
60739514 TAT
1 TAT
60739517 CTTACTAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.42
Consensus pattern (19 bp):
TATAATCATAGGGTTTGCA
Found at i:60742378 original size:44 final size:43
Alignment explanation
Indices: 60742225--60742391 Score: 140
Period size: 43 Copynumber: 3.9 Consensus size: 43
60742215 GGCTCGTACA
* ** * * * *
60742225 ATGCCAACGTCTCAGATGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACATAGTCTTACACGAAATCACAAATCG
** * * * *
60742268 ATGCC-ACAGTCCCAGACAGGGTCTTCCACGAACTCATATA-CG
1 ATGCCAAC-GTCCCAGACATAGTCTTACACGAAATCACAAATCG
* * *
60742310 ATGCCAATGTCCCAGACATGGTCTTACACATAAATCACAAATCG
1 ATGCCAACGTCCCAGACATAGTCTTACAC-GAAATCACAAATCG
* *
60742354 ATGCCAACGTCCTAGACGTAGTCTTACACGAAATCACA
1 ATGCCAACGTCCCAGACATAGTCTTACACGAAATCACA
60742392 TATCAGAATC
Statistics
Matches: 99, Mismatches: 21, Indels: 8
0.77 0.16 0.06
Matches are distributed among these distances:
42 28 0.28
43 44 0.44
44 27 0.27
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATAGTCTTACACGAAATCACAAATCG
Found at i:60742378 original size:86 final size:85
Alignment explanation
Indices: 60742225--60742385 Score: 191
Period size: 86 Copynumber: 1.9 Consensus size: 85
60742215 GGCTCGTACA
* ** ** * *
60742225 ATGCCAACGTCTCAGATGTGGTCTTACATGTAATCACATATCGATGCCACAGTCCCAGACAGGGT
1 ATGCCAACGTCCCAGACATGGTCTTACACATAATCACAAATCGATGCCACAGTCCCAGACAGAGT
*
60742290 CTTCCACGAACTCATATACG
66 CTTACACGAACTCATATACG
* *
60742310 ATGCCAATGTCCCAGACATGGTCTTACACATAAATCACAAATCGATGCCA-ACGTCCTAGAC-GT
1 ATGCCAACGTCCCAGACATGGTCTTACACAT-AATCACAAATCGATGCCACA-GTCCCAGACAG-
60742373 AGTCTTACACGAA
63 AGTCTTACACGAA
60742386 ATCACATATC
Statistics
Matches: 63, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
85 27 0.43
86 36 0.57
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (85 bp):
ATGCCAACGTCCCAGACATGGTCTTACACATAATCACAAATCGATGCCACAGTCCCAGACAGAGT
CTTACACGAACTCATATACG
Found at i:60745289 original size:40 final size:40
Alignment explanation
Indices: 60745245--60745385 Score: 221
Period size: 40 Copynumber: 3.5 Consensus size: 40
60745235 CAAGCACAAT
*
60745245 TGCCTTCGGGTCTTAACCCGGATATAACAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA
60745285 TGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA
* **
60745325 TGCCTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAA
1 TGCCTTCGGGTCTTAGCCCGGATATAA-CAACTCGCACGAA
*
60745365 TGCCTTCGGGACTTAGCCCGG
1 TGCCTTCGGGTCTTAGCCCGG
60745386 GTATCATTCA
Statistics
Matches: 95, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
40 94 0.99
41 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA
Found at i:60753252 original size:40 final size:40
Alignment explanation
Indices: 60753208--60753348 Score: 228
Period size: 40 Copynumber: 3.5 Consensus size: 40
60753198 CAAGCACAAT
*
60753208 TGCCTTCGGGTCTTAACCCGGATATAACAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA
60753248 TGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA
* * **
60753288 TGCCTTCGGGTCTTAGCCCGGATATAATAACTAGCATAAA
1 TGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA
*
60753328 TGCCTTCGGGACTTAGCCCGG
1 TGCCTTCGGGTCTTAGCCCGG
60753349 GTATCATTCA
Statistics
Matches: 95, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 95 1.00
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA
Found at i:60758638 original size:21 final size:20
Alignment explanation
Indices: 60758628--60758666 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
60758618 TCTTTGATGC
60758628 CGACTGAAATTTTTTACTTGA
1 CGACTGAAATTTTTTAC-TGA
60758649 CGACTGAAATTTTTTACT
1 CGACTGAAATTTTTTACT
60758667 CAAAATCTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.44
Consensus pattern (20 bp):
CGACTGAAATTTTTTACTGA
Found at i:60761681 original size:43 final size:43
Alignment explanation
Indices: 60761634--60761784 Score: 155
Period size: 43 Copynumber: 3.5 Consensus size: 43
60761624 TCTCAAATGT
* * *
60761634 GGTCTTACATGTAATCACATATCGATGCCATTGTCCCAGATAG
1 GGTCTTACACGTAATCACATATCGATGCCAATGTCCCAGACAG
* * *
60761677 GGTCTTACACG-AACTCATATAT-GATGCCAATGTCCTAGACAT
1 GGTCTTACACGTAA-TCACATATCGATGCCAATGTCCCAGACAG
* * *
60761719 GGTCTTACACATAAATCACAAATCGATGCCAACGTCCCAGAC-G
1 GGTCTTACACGT-AATCACATATCGATGCCAATGTCCCAGACAG
* *
60761762 CAGTCTTACACGAAATCACATAT
1 -GGTCTTACACGTAATCACATAT
60761785 TAGAATCCTA
Statistics
Matches: 87, Mismatches: 16, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
42 28 0.32
43 32 0.37
44 27 0.31
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (43 bp):
GGTCTTACACGTAATCACATATCGATGCCAATGTCCCAGACAG
Found at i:60761711 original size:42 final size:43
Alignment explanation
Indices: 60761615--60761784 Score: 150
Period size: 43 Copynumber: 4.0 Consensus size: 43
60761605 GGCTCGTACA
* * *
60761615 ATGCCAATGTCTCAAAT-GTGGTCTTACATGTAATCACATATCG
1 ATGCCAATGTCCCAGATAG-GGTCTTACACGTAATCACATATCG
* *
60761658 ATGCCATTGTCCCAGATAGGGTCTTACACG-AACTCATATAT-G
1 ATGCCAATGTCCCAGATAGGGTCTTACACGTAA-TCACATATCG
* * * * *
60761700 ATGCCAATGTCCTAGACATGGTCTTACACATAAATCACAAATCG
1 ATGCCAATGTCCCAGATAGGGTCTTACACGT-AATCACATATCG
* * * *
60761744 ATGCCAACGTCCCAGA-CGCAGTCTTACACGAAATCACATAT
1 ATGCCAATGTCCCAGATAG-GGTCTTACACGTAATCACATAT
60761785 TAGAATCCTA
Statistics
Matches: 101, Mismatches: 20, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
42 28 0.28
43 46 0.46
44 27 0.27
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGATAGGGTCTTACACGTAATCACATATCG
Found at i:60766213 original size:29 final size:28
Alignment explanation
Indices: 60766157--60766287 Score: 111
Period size: 29 Copynumber: 4.5 Consensus size: 28
60766147 ATTTAAGCCC
*** *
60766157 GCACACATAGTGCCATACCCTTCGAGCT
1 GCACACATAGTGCCATATTTTTCCAGCT
** *
60766185 CGCACACCCAGTGCCGTATTTTTCCAGCTT
1 -GCACACATAGTGCCATATTTTTCCAGC-T
*
60766215 GCACACATAGTGTCATATTTTTCCAGCAT
1 GCACACATAGTGCCATATTTTTCCAGC-T
* *
60766244 GCACACTTAGTGCCATATATTTCCAGC-
1 GCACACATAGTGCCATATTTTTCCAGCT
*
60766271 ACACACACTTAGTGCCA
1 GCACACA--TAGTGCCA
60766288 ATCTCGTCAC
Statistics
Matches: 82, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
27 5 0.06
29 76 0.93
30 1 0.01
ACGTcount: A:0.25, C:0.32, G:0.15, T:0.27
Consensus pattern (28 bp):
GCACACATAGTGCCATATTTTTCCAGCT
Found at i:60774214 original size:40 final size:40
Alignment explanation
Indices: 60774169--60774336 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
60774159 CGGAATACAA
60774169 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
60774209 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
60774249 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
60774289 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
60774329 CCGGATAT
1 CCGGATAT
60774337 CATTCAATTG
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
39 3 0.03
40 102 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:60782190 original size:40 final size:40
Alignment explanation
Indices: 60782145--60782312 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
60782135 CGGAATACAA
60782145 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
60782185 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
60782225 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
60782265 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
60782305 CCGGATAT
1 CCGGATAT
60782313 CATTCAATTG
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
39 3 0.03
40 102 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:60785772 original size:43 final size:42
Alignment explanation
Indices: 60785723--60785813 Score: 103
Period size: 42 Copynumber: 2.1 Consensus size: 42
60785713 TTATAGGGGG
**
60785723 TCTCATA-TCGATACCAATAGCCCATCTATGGTCTTACACGAAA
1 TCTCATACT-GATACC-ATAGCCCAGATATGGTCTTACACGAAA
** * *
60785766 TCTCATACTGATGTCATATCTCAGATATGGTCTTACACGAAA
1 TCTCATACTGATACCATAGCCCAGATATGGTCTTACACGAAA
60785808 TCTCAT
1 TCTCAT
60785814 CTAACCCTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
42 29 0.71
43 11 0.27
44 1 0.02
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.32
Consensus pattern (42 bp):
TCTCATACTGATACCATAGCCCAGATATGGTCTTACACGAAA
Found at i:60794196 original size:23 final size:24
Alignment explanation
Indices: 60794143--60794223 Score: 101
Period size: 24 Copynumber: 3.4 Consensus size: 24
60794133 TATTAGCTCG
* *
60794143 TAAGAGCTTACTGTTTTCAGCTTA
1 TAAGAGCTTACTGTTTTCATCTCA
**
60794167 TTGGAGCTTACTG-TTTCATCTCA
1 TAAGAGCTTACTGTTTTCATCTCA
*
60794190 TAAGAGCTTACTGTTTTCATCTCG
1 TAAGAGCTTACTGTTTTCATCTCA
*
60794214 TCAGAGCTTA
1 TAAGAGCTTA
60794224 TCGATTCAGC
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
23 19 0.40
24 29 0.60
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.41
Consensus pattern (24 bp):
TAAGAGCTTACTGTTTTCATCTCA
Found at i:60796327 original size:28 final size:29
Alignment explanation
Indices: 60796295--60796408 Score: 130
Period size: 28 Copynumber: 4.0 Consensus size: 29
60796285 TACCTGTATC
*
60796295 TGGCCCATTTA-GCCC-AATCATATTCATA
1 TGGCCCA-TTAGGCCCAAATCACATTCATA
*
60796323 TGGCCCATTAGGCCCAAATCACCTGT--TA
1 TGGCCCATTAGGCCCAAATCACAT-TCATA
*
60796351 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
60796380 TGGCCCGTTAGGCCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
60796408 T
1 T
60796409 TCATGCTCAC
Statistics
Matches: 75, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
27 4 0.05
28 48 0.64
29 22 0.29
30 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:60796371 original size:57 final size:57
Alignment explanation
Indices: 60796286--60796395 Score: 152
Period size: 57 Copynumber: 1.9 Consensus size: 57
60796276 AAATTCACAT
* *
60796286 ACCTGTATCTGGCCCATTTAGCCCAATCATATTCATATGGCCCATTAGGCCCAAATC
1 ACCTGTATATGGCCCATTTAGCCCAATCACATTCATATGGCCCATTAGGCCCAAATC
* *
60796343 ACCTGT-TATGGCCCA-TTAGGCCCAAATCACATTTATATGGCCCGTTAGGCCCA
1 ACCTGTATATGGCCCATTTA-GCCC-AATCACATTCATATGGCCCATTAGGCCCA
60796396 GTCACATTCA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
55 3 0.06
56 12 0.26
57 32 0.68
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.27
Consensus pattern (57 bp):
ACCTGTATATGGCCCATTTAGCCCAATCACATTCATATGGCCCATTAGGCCCAAATC
Found at i:60796648 original size:8 final size:8
Alignment explanation
Indices: 60796634--60796669 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
60796624 GCTTTTTAGT
60796634 ATTTCGGC
1 ATTTCGGC
*
60796642 TTTTCGGC
1 ATTTCGGC
60796650 ATTTCGGC
1 ATTTCGGC
60796658 ATTTCGGC
1 ATTTCGGC
60796666 ATTT
1 ATTT
60796670 GCCGATTCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.11, C:0.22, G:0.22, T:0.44
Consensus pattern (8 bp):
ATTTCGGC
Found at i:60796653 original size:16 final size:16
Alignment explanation
Indices: 60796619--60796669 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 16
60796609 GAAGCCAAAC
** *
60796619 TTTCGGCTTTTTAGTA
1 TTTCGGCTTTTCGGCA
60796635 TTTCGGCTTTTCGGCA
1 TTTCGGCTTTTCGGCA
*
60796651 TTTCGGCATTTCGGCA
1 TTTCGGCTTTTCGGCA
60796667 TTT
1 TTT
60796670 GCCGATTCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.10, C:0.20, G:0.22, T:0.49
Consensus pattern (16 bp):
TTTCGGCTTTTCGGCA
Found at i:60806787 original size:28 final size:29
Alignment explanation
Indices: 60806755--60806869 Score: 119
Period size: 29 Copynumber: 4.0 Consensus size: 29
60806745 TACCTGTATC
* *
60806755 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
60806783 TGGCCCATTAGGCCCAAATTACCTAT-ATA
1 TGGCCCATTAGGCCCAAATCACAT-TCATA
* *
60806812 TGGCCCATTAGGCCCAAATCACATTTATT
1 TGGCCCATTAGGCCCAAATCACATTCATA
** *
60806841 TGGCCTGTTAGGCCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
60806869 T
1 T
60806870 TCATGCTCAC
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
28 26 0.36
29 45 0.62
30 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.30
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:60806818 original size:57 final size:58
Alignment explanation
Indices: 60806745--60806856 Score: 145
Period size: 58 Copynumber: 1.9 Consensus size: 58
60806735 CAAATTCACA
* * *
60806745 TACCTGTATCTGGCCCATTAAGCCC-AATCATATTCATATGGCCCATTAGGCCCAAAT
1 TACCTATATATGGCCCATTAAGCCCAAATCACATTCATATGGCCCATTAGGCCCAAAT
* * * **
60806802 TACCTATATATGGCCCATTAGGCCCAAATCACATTTATTTGGCCTGTTAGGCCCA
1 TACCTATATATGGCCCATTAAGCCCAAATCACATTCATATGGCCCATTAGGCCCA
60806857 GTCACATTCA
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
57 22 0.48
58 24 0.52
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (58 bp):
TACCTATATATGGCCCATTAAGCCCAAATCACATTCATATGGCCCATTAGGCCCAAAT
Found at i:60808611 original size:16 final size:17
Alignment explanation
Indices: 60808580--60808618 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
60808570 TACAAACATT
*
60808580 TCATAATCATCATATCA
1 TCATAGTCATCATATCA
60808597 TCATAGTCA-CATATCA
1 TCATAGTCATCATATCA
*
60808613 TTATAG
1 TCATAG
60808619 AGTCCCTTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (17 bp):
TCATAGTCATCATATCA
Found at i:60810012 original size:43 final size:42
Alignment explanation
Indices: 60809940--60810096 Score: 172
Period size: 43 Copynumber: 3.7 Consensus size: 42
60809930 AGCTCGTACA
** *
60809940 ATGCCAACATCCCAGACATGGTCTTACATGTAATCGAATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCAAATA-CG
* * * * *
60809983 ATGTCACTGTGCCAGACAGGGTCTTACATGAAATCAAATACG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCAAATACG
* *
60810025 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCATAAGT-CA
1 ATGCCAATGTCCCAGACATGGTCTTACATGT-AATCA-AA-TACG
*
60810069 ATGCCAACGTCCCAGACATGGTCTTACA
1 ATGCCAATGTCCCAGACATGGTCTTACA
60810097 CGAAAACACA
Statistics
Matches: 95, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
42 27 0.28
43 37 0.39
44 30 0.32
45 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.24
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAATCAAATACG
Found at i:60811497 original size:66 final size:65
Alignment explanation
Indices: 60811363--60811498 Score: 148
Period size: 66 Copynumber: 2.1 Consensus size: 65
60811353 CACACACGGA
* *
60811363 CGTGTGACCGGCCGTGTGGTACAAGTTAGTATACCCCCTGTTTGGCACACGGCCTAACATATGAG
1 CGTGTGACCGGCCGTGTGGTACAAGTCAGTATACCCCCTGTTTGGCACACGGCCTAACACATGAG
* * * * * * **
60811428 CGTGTGACTTGGCCGTGTTGTATAAGTCAGTATACTCTCTAGTTT-TCACACGGCCTGGCACATG
1 CGTGTGAC-CGGCCGTGTGGTACAAGTCAGTATACCCCCT-GTTTGGCACACGGCCTAACACATG
*
60811492 GG
64 AG
60811494 CGTGT
1 CGTGT
60811499 CTTCGGTCTG
Statistics
Matches: 58, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
65 8 0.14
66 46 0.79
67 4 0.07
ACGTcount: A:0.19, C:0.24, G:0.28, T:0.29
Consensus pattern (65 bp):
CGTGTGACCGGCCGTGTGGTACAAGTCAGTATACCCCCTGTTTGGCACACGGCCTAACACATGAG
Found at i:60813452 original size:2 final size:2
Alignment explanation
Indices: 60813445--60813478 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
60813435 ATCATCTCAA
60813445 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
60813479 CAAAATTATA
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:60813510 original size:24 final size:27
Alignment explanation
Indices: 60813468--60813522 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 27
60813458 TATATATATA
60813468 TATATATATATCAAAATTAT-AAC-AT
1 TATATATATATCAAAATTATAAACAAT
60813493 TATATA-ATAT-AAATATTATAAACAAT
1 TATATATATATCAAA-ATTATAAACAAT
60813519 TATA
1 TATA
60813523 AAACAAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.11
24 9 0.33
25 9 0.33
26 6 0.22
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (27 bp):
TATATATATATCAAAATTATAAACAAT
Found at i:60813523 original size:24 final size:25
Alignment explanation
Indices: 60813467--60813536 Score: 67
Period size: 24 Copynumber: 2.9 Consensus size: 25
60813457 ATATATATAT
60813467 ATATATATATATCAAA-ATTAT-AACA
1 ATATATA-ATAT-AAATATTATAAACA
*
60813492 TTATATAATATAAATATTATAAACA
1 ATATATAATATAAATATTATAAACA
* *
60813517 AT-TATAAAACAAATA-TATAA
1 ATATATAATATAAATATTATAA
60813537 GGAGATAGTT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
23 8 0.21
24 20 0.51
25 11 0.28
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.36
Consensus pattern (25 bp):
ATATATAATATAAATATTATAAACA
Found at i:60817336 original size:12 final size:12
Alignment explanation
Indices: 60817319--60817344 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
60817309 AAAATAGGGC
60817319 TTTAGCAGCGTT
1 TTTAGCAGCGTT
60817331 TTTAGCAGCGTT
1 TTTAGCAGCGTT
60817343 TT
1 TT
60817345 ATCAAAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.15, G:0.23, T:0.46
Consensus pattern (12 bp):
TTTAGCAGCGTT
Found at i:60817463 original size:41 final size:41
Alignment explanation
Indices: 60817368--60817571 Score: 249
Period size: 41 Copynumber: 5.1 Consensus size: 41
60817358 GTAAAAATTA
* *
60817368 TAAAACATAGAGCAATAGCGGCG-TTT---T-AAACGCCGC
1 TAAAAAATAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGC
* * * *
60817404 T-AAAAATAGAGCAATAGCGGCGTTTTTGGTAAAACGCCAC
1 TAAAAAATAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGC
*
60817444 TAAAAAATAGAGCATTAGCGGTGCTTTCGGTAAAACGCCGC
1 TAAAAAATAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGC
* * *
60817485 TAAAAACTAGAGCATTAGCAGCGCTTTCGGTAAAACGTCGC
1 TAAAAAATAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGC
** *
60817526 TAAAAACCAGAGCATTAGCGGCGCTTTCGATAAAACGCCGC
1 TAAAAAATAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGC
60817567 TAAAA
1 TAAAA
60817572 GTCATATAAC
Statistics
Matches: 147, Mismatches: 15, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
35 20 0.14
36 4 0.03
39 1 0.01
40 9 0.06
41 113 0.77
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (41 bp):
TAAAAAATAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGC
Found at i:60817683 original size:54 final size:55
Alignment explanation
Indices: 60817584--60817701 Score: 130
Period size: 54 Copynumber: 2.2 Consensus size: 55
60817574 CATATAACCC
* ** * * *
60817584 CTAAAACCCTAAACCCCAAAAAAATCATAAACACTAATTTGTAACCCTTAAAATA
1 CTAAACCCCTAAACCCCAAAAAAATCATAAACACTAAACTATAACCCCTAAAACA
* * * * *
60817639 CTAAACCCCTAAA-TCCTAAAAAATCCTAAACAGTAAACTATAACCCCTAAAACC
1 CTAAACCCCTAAACCCCAAAAAAATCATAAACACTAAACTATAACCCCTAAAACA
60817693 CTAAACCCC
1 CTAAACCCC
60817702 AAAAAACATC
Statistics
Matches: 52, Mismatches: 11, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
54 40 0.77
55 12 0.23
ACGTcount: A:0.48, C:0.31, G:0.02, T:0.19
Consensus pattern (55 bp):
CTAAACCCCTAAACCCCAAAAAAATCATAAACACTAAACTATAACCCCTAAAACA
Found at i:60818606 original size:9 final size:8
Alignment explanation
Indices: 60818588--60818661 Score: 62
Period size: 8 Copynumber: 8.9 Consensus size: 8
60818578 TTTATATGAT
60818588 AATTTAAA
1 AATTTAAA
60818596 AATTATAAA
1 AATT-TAAA
60818605 AATCTTCAAAA
1 AAT-TT--AAA
60818616 AATTTTAAA
1 AA-TTTAAA
60818625 AA-TTAAA
1 AATTTAAA
60818632 AA-TTAAA
1 AATTTAAA
*
60818639 AATTAAAA
1 AATTTAAA
*
60818647 AACTTAAA
1 AATTTAAA
*
60818655 TATTTAA
1 AATTTAA
60818662 TATTTAATAT
Statistics
Matches: 55, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
7 14 0.25
8 19 0.35
9 13 0.24
10 1 0.02
11 7 0.13
12 1 0.02
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (8 bp):
AATTTAAA
Found at i:60818639 original size:6 final size:7
Alignment explanation
Indices: 60818620--60818647 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
60818610 TCAAAAAATT
60818620 TTAAAAA
1 TTAAAAA
60818627 TTAAAAA
1 TTAAAAA
60818634 TTAAAAA
1 TTAAAAA
60818641 TTAAAAA
1 TTAAAAA
60818648 ACTTAAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
TTAAAAA
Found at i:60821652 original size:96 final size:96
Alignment explanation
Indices: 60821502--60821675 Score: 294
Period size: 96 Copynumber: 1.8 Consensus size: 96
60821492 GTTATCGATG
* * *
60821502 GGAATAATCGAGCAGATACGGAGCCCAAGAAGCTTGGTTCGAGCAAGGGAAAAGCCGAAGCCAAG
1 GGAACAATCGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGGAAAAGCCGAAGCCAAG
60821567 AGGGCAAAGAGGAACAAGTCTGTCATCAAAA
66 AGGGCAAAGAGGAACAAGTCTGTCATCAAAA
* *
60821598 GGAACAATGGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGGTAAAGCCGAAGCCAAG
1 GGAACAATCGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGGAAAAGCCGAAGCCAAG
*
60821663 AGGGCTAAGAGGA
66 AGGGCAAAGAGGA
60821676 GCAAAAAGAA
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
96 72 1.00
ACGTcount: A:0.39, C:0.18, G:0.33, T:0.10
Consensus pattern (96 bp):
GGAACAATCGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGGAAAAGCCGAAGCCAAG
AGGGCAAAGAGGAACAAGTCTGTCATCAAAA
Found at i:60827670 original size:43 final size:43
Alignment explanation
Indices: 60827577--60827805 Score: 264
Period size: 43 Copynumber: 5.3 Consensus size: 43
60827567 AAGTTTATAT
* *
60827577 TCTTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTC-TGA
1 TCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGG
* * * * * * *
60827619 TATATAGCGGCATTTTTAGAAAAAGCGACGCTAAAGGTGATGG
1 TCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGG
* *
60827662 TCTTTAGCGGCGTTTGTGGGAAAAGAGCCGCTAAAGGTCATGG
1 TCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGG
* *
60827705 TCTTTAGCGGCGTTTGGGGGAAAAGCGCCGCTAAAGGTCATGG
1 TCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGG
* * * * *
60827748 TCTTTAGTGGCGTTTGCGGGAAAAGGGCCGCTAAAGGTCA-CG
1 TCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGG
*
60827790 ACTTTTAGCGGCGTTT
1 TC-TTTAGCGGCGTTT
60827806 TTTTTTTAAA
Statistics
Matches: 159, Mismatches: 26, Indels: 3
0.85 0.14 0.02
Matches are distributed among these distances:
42 33 0.21
43 126 0.79
ACGTcount: A:0.24, C:0.17, G:0.32, T:0.26
Consensus pattern (43 bp):
TCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGG
Found at i:60829546 original size:25 final size:25
Alignment explanation
Indices: 60829512--60829559 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
60829502 CCTCTAGGAG
60829512 AAGAAAATTCAATATGTCGAATTCA
1 AAGAAAATTCAATATGTCGAATTCA
*
60829537 AAGAAAATTCACTATGTCGAATT
1 AAGAAAATTCAATATGTCGAATT
60829560 TGAATAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.29
Consensus pattern (25 bp):
AAGAAAATTCAATATGTCGAATTCA
Found at i:60830438 original size:20 final size:19
Alignment explanation
Indices: 60830391--60830440 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
60830381 CAATATAAAC
60830391 ATTAAATT--TAATTTAAT
1 ATTAAATTAATAATTTAAT
60830408 ATTAAGA-TAATAACTTTAAT
1 ATTAA-ATTAATAA-TTTAAT
60830428 ATTAAATTAATAA
1 ATTAAATTAATAA
60830441 AATATTATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
17 6 0.21
18 1 0.04
19 4 0.14
20 17 0.61
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (19 bp):
ATTAAATTAATAATTTAAT
Found at i:60830444 original size:25 final size:25
Alignment explanation
Indices: 60830397--60830444 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
60830387 AAACATTAAA
*
60830397 TTTAATTTAATATTAAGATAATAAC
1 TTTAATTTAATATTAAGAAAATAAC
*
60830422 TTTAATATTAA-ATTAATAAAATA
1 TTTAAT-TTAATATTAAGAAAATA
60830445 TTATTAAGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (25 bp):
TTTAATTTAATATTAAGAAAATAAC
Found at i:60830496 original size:68 final size:70
Alignment explanation
Indices: 60830344--60830499 Score: 160
Period size: 68 Copynumber: 2.2 Consensus size: 70
60830334 ATTAAATTTA
* * *
60830344 ATATT-AAATATTATTAAATTAATACAATATTTATCTACAATATAAACATTAAATTTAATTTAAT
1 ATATTAAAATAATATTAAATTAATAAAATATTTATCTA-AAGATAAACATTAAATTTAATTTAAT
60830408 ATTAAG
65 ATTAAG
* ** ** *
60830414 ATAATAACTTTAATATTAAATTAATAAAATA-TTAT-T-AAGATAAGTATTAAATTTAGTTTAAT
1 ATATTAA-AATAATATTAAATTAATAAAATATTTATCTAAAGATAAACATTAAATTTAATTTAAT
60830476 ATTAA-
65 ATTAAG
60830481 ATCTATTAAAATAATATTA
1 A--TATTAAAATAATATTA
60830500 TTTTTGGAAT
Statistics
Matches: 70, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
67 1 0.01
68 35 0.50
69 5 0.07
70 5 0.07
71 5 0.07
72 19 0.27
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.43
Consensus pattern (70 bp):
ATATTAAAATAATATTAAATTAATAAAATATTTATCTAAAGATAAACATTAAATTTAATTTAATA
TTAAG
Found at i:60835096 original size:25 final size:25
Alignment explanation
Indices: 60835068--60835117 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
60835058 TCCAAAAATT
*
60835068 TCCTAGCCCTAACAAAATTAAAAAA
1 TCCTAACCCTAACAAAATTAAAAAA
*
60835093 TCCTAACCCTATCAAAATTAAAAAA
1 TCCTAACCCTAACAAAATTAAAAAA
60835118 AATCGAGAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.52, C:0.24, G:0.02, T:0.22
Consensus pattern (25 bp):
TCCTAACCCTAACAAAATTAAAAAA
Found at i:60835308 original size:32 final size:33
Alignment explanation
Indices: 60835272--60835337 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
60835262 GTTATACAAT
*
60835272 TTAACTTAAAAT-TTCATTAA-AAAAATGACAGA
1 TTAACTTAAAATATTCA-TAATAAAAATGAAAGA
**
60835304 TTAACTTATTATATTCATAATAAAAATGAAAGA
1 TTAACTTAAAATATTCATAATAAAAATGAAAGA
60835337 T
1 T
60835338 GAAATGATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
32 13 0.45
33 16 0.55
ACGTcount: A:0.52, C:0.08, G:0.06, T:0.35
Consensus pattern (33 bp):
TTAACTTAAAATATTCATAATAAAAATGAAAGA
Found at i:60835348 original size:33 final size:33
Alignment explanation
Indices: 60835284--60835349 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
60835274 AACTTAAAAT
* * * *
60835284 TTCATTAAAAAAATGACAGATTAACTTATTATA
1 TTCATTAAAAAAATGAAAGATGAAATGATTATA
60835317 TTCA-TAATAAAAATGAAAGATGAAATGATTATA
1 TTCATTAA-AAAAATGAAAGATGAAATGATTATA
60835350 ATGTATAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 3 0.11
33 25 0.89
ACGTcount: A:0.52, C:0.06, G:0.09, T:0.33
Consensus pattern (33 bp):
TTCATTAAAAAAATGAAAGATGAAATGATTATA
Found at i:60848493 original size:29 final size:28
Alignment explanation
Indices: 60848461--60848527 Score: 91
Period size: 29 Copynumber: 2.4 Consensus size: 28
60848451 CATAATTTTA
60848461 TATAAT-TTGTAATAATTTTTTGCAATTT
1 TATAATATT-TAATAATTTTTTGCAATTT
*
60848489 CTATAATATTTAATAATTTTTTTCAATTT
1 -TATAATATTTAATAATTTTTTGCAATTT
*
60848518 TATATTATTT
1 TATAATATTT
60848528 TTAGTAAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
28 9 0.26
29 24 0.69
30 2 0.06
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.60
Consensus pattern (28 bp):
TATAATATTTAATAATTTTTTGCAATTT
Found at i:60848645 original size:26 final size:25
Alignment explanation
Indices: 60848593--60848648 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
60848583 TTTTTTGTAA
**
60848593 TTTTTAAAAATTATGTTCTTTATTT
1 TTTTTAAAAATTATAATCTTTATTT
*
60848618 TTTTTAGAAAATTATAAT-TTTATAT
1 TTTTTA-AAAATTATAATCTTTATTT
60848643 TTTTTA
1 TTTTTA
60848649 TTCGCCACGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 18 0.67
26 9 0.33
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (25 bp):
TTTTTAAAAATTATAATCTTTATTT
Found at i:60848748 original size:29 final size:29
Alignment explanation
Indices: 60848713--60848781 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
60848703 TTTTGAGGGT
60848713 TCAATTGATTGCTTATATTT-GATT-AAGGC
1 TCAATTGATTGC-TAT-TTTAGATTGAAGGC
* * *
60848742 TTAATTGAGTGCTATTTTAGATTGATGGC
1 TCAATTGATTGCTATTTTAGATTGAAGGC
60848771 TCAATTGATTG
1 TCAATTGATTG
60848782 TTGAATTCTT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
27 3 0.09
28 7 0.21
29 23 0.70
ACGTcount: A:0.26, C:0.09, G:0.20, T:0.45
Consensus pattern (29 bp):
TCAATTGATTGCTATTTTAGATTGAAGGC
Found at i:60855991 original size:11 final size:11
Alignment explanation
Indices: 60855972--60856009 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
60855962 ATACGTATGA
*
60855972 ATTTTAATTTT
1 ATTTAAATTTT
60855983 ATTTAAATTTT
1 ATTTAAATTTT
*
60855994 ATTT-AATTTA
1 ATTTAAATTTT
60856004 ATTTAA
1 ATTTAA
60856010 GTTACTAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 9 0.38
11 15 0.62
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
ATTTAAATTTT
Found at i:60856002 original size:16 final size:17
Alignment explanation
Indices: 60855971--60856004 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
60855961 TATACGTATG
*
60855971 AATTTTAATTTTATTTA
1 AATTTTAATTTAATTTA
60855988 AATTTT-ATTTAATTTA
1 AATTTTAATTTAATTTA
60856004 A
1 A
60856005 TTTAAGTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
AATTTTAATTTAATTTA
Found at i:60860063 original size:46 final size:45
Alignment explanation
Indices: 60860010--60860185 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 45
60860000 TATTTGGGCA
60860010 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
60860056 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
60860103 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
60860149 -CCTGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
60860186 GTGGGTTACA
Statistics
Matches: 110, Mismatches: 12, Indels: 16
0.80 0.09 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 3 0.03
46 66 0.60
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Done.