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 361 of 410
Found at i:111138840 original size:20 final size:19
Alignment explanation
Indices: 111138814--111138873 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 19
111138804 TGAAATTTTA
111138814 AAAGATAAATACAAATAAAT
1 AAAGATAAATA-AAATAAAT
* *
111138834 AATGATAATTAAATATAAAT
1 AAAGATAAATAAA-ATAAAT
111138854 AAAGATAAATGAAAATAAAT
1 AAAGATAAAT-AAAATAAAT
111138874 CCTAGAATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
19 2 0.06
20 29 0.85
21 3 0.09
ACGTcount: A:0.67, C:0.02, G:0.07, T:0.25
Consensus pattern (19 bp):
AAAGATAAATAAAATAAAT
Found at i:111138871 original size:10 final size:10
Alignment explanation
Indices: 111138814--111138873 Score: 61
Period size: 10 Copynumber: 6.0 Consensus size: 10
111138804 TGAAATTTTA
111138814 AAAGATAAAT
1 AAAGATAAAT
111138824 ACAA-ATAAAT
1 A-AAGATAAAT
* *
111138834 AATGATAATT
1 AAAGATAAAT
*
111138844 AAATATAAAT
1 AAAGATAAAT
111138854 AAAGATAAAT
1 AAAGATAAAT
111138864 GAAA-ATAAAT
1 -AAAGATAAAT
111138874 CCTAGAATTA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
9 1 0.02
10 35 0.85
11 5 0.12
ACGTcount: A:0.67, C:0.02, G:0.07, T:0.25
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:111142214 original size:25 final size:25
Alignment explanation
Indices: 111142180--111142236 Score: 114
Period size: 25 Copynumber: 2.3 Consensus size: 25
111142170 AAAGATGATT
111142180 TAATTTTAATTCCAACCACTCATGC
1 TAATTTTAATTCCAACCACTCATGC
111142205 TAATTTTAATTCCAACCACTCATGC
1 TAATTTTAATTCCAACCACTCATGC
111142230 TAATTTT
1 TAATTTT
111142237 TCCGTTAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.32, C:0.25, G:0.04, T:0.40
Consensus pattern (25 bp):
TAATTTTAATTCCAACCACTCATGC
Found at i:111142530 original size:14 final size:14
Alignment explanation
Indices: 111142511--111142562 Score: 77
Period size: 14 Copynumber: 3.7 Consensus size: 14
111142501 GTTTGTCAGT
111142511 AAAATGATTTCTGG
1 AAAATGATTTCTGG
*
111142525 AAAATGATTTCTGA
1 AAAATGATTTCTGG
* *
111142539 AAAATAATTTATGG
1 AAAATGATTTCTGG
111142553 AAAATGATTT
1 AAAATGATTT
111142563 TTTTTTCTGG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 33 1.00
ACGTcount: A:0.44, C:0.04, G:0.15, T:0.37
Consensus pattern (14 bp):
AAAATGATTTCTGG
Found at i:111144948 original size:12 final size:12
Alignment explanation
Indices: 111144931--111144956 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
111144921 GTTAAAAATA
111144931 ATTATCATTTTC
1 ATTATCATTTTC
111144943 ATTATCATTTTC
1 ATTATCATTTTC
111144955 AT
1 AT
111144957 CATTTAGACT
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:0.27, C:0.15, G:0.00, T:0.58
Consensus pattern (12 bp):
ATTATCATTTTC
Found at i:111144958 original size:21 final size:21
Alignment explanation
Indices: 111144934--111144982 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
111144924 AAAAATAATT
*
111144934 ATCATTTTCATTATCATTTTC
1 ATCATTTTCACTATCATTTTC
**
111144955 ATCATTTAGACTATCATTTTC
1 ATCATTTTCACTATCATTTTC
111144976 AT-ATTTT
1 ATCATTTT
111144983 AATCCCAAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 4 0.17
21 20 0.83
ACGTcount: A:0.27, C:0.16, G:0.02, T:0.55
Consensus pattern (21 bp):
ATCATTTTCACTATCATTTTC
Found at i:111148642 original size:12 final size:11
Alignment explanation
Indices: 111148625--111148696 Score: 56
Period size: 12 Copynumber: 6.0 Consensus size: 11
111148615 ATATAGTAAT
111148625 ATAAATCATATA
1 ATAAAT-ATATA
111148637 ATAAATAATATA
1 ATAAAT-ATATA
*
111148649 A-AAAAATATA
1 ATAAATATATA
*
111148659 TATATATATATA
1 -ATAAATATATA
111148671 ATAAAATCTATATA
1 AT-AAA--TATATA
111148685 ATATAATATATA
1 ATA-AATATATA
111148697 TAAGAAAGAT
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
10 5 0.10
11 6 0.12
12 27 0.55
13 1 0.02
14 10 0.20
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (11 bp):
ATAAATATATA
Found at i:111148669 original size:22 final size:21
Alignment explanation
Indices: 111148644--111148689 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
111148634 ATAATAAATA
111148644 ATATAAAAAAATATATATATAT
1 ATATAAAAAAATATATATA-AT
* *
111148666 ATATAATAAAATCTATATAAT
1 ATATAAAAAAATATATATAAT
111148687 ATA
1 ATA
111148690 ATATATATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (21 bp):
ATATAAAAAAATATATATAAT
Found at i:111148684 original size:14 final size:14
Alignment explanation
Indices: 111148607--111148826 Score: 93
Period size: 14 Copynumber: 16.4 Consensus size: 14
111148597 ATAATTTACA
111148607 AATAAAATATATAGT
1 AATAAAATATATA-T
*
111148622 AATATAAAT-CATAT
1 AATA-AAATATATAT
111148636 AAT-AAATA-ATAT
1 AATAAAATATATAT
111148648 AA-AAAA-ATATAT
1 AATAAAATATATAT
111148660 -AT---ATATATAT
1 AATAAAATATATAT
*
111148670 AATAAAATCTATAT
1 AATAAAATATATAT
*
111148684 AATATAATATATAT
1 AATAAAATATATAT
*
111148698 AAGAAAGATATAT-T
1 AATAAA-ATATATAT
*
111148712 -ATAAGGAATAATAGAT
1 AATAA--AAT-ATATAT
111148728 AATAAAATATAGTATGT
1 AATAAAATATA-TA--T
** *
111148745 GGTAAAA-ATACAT
1 AATAAAATATATAT
*
111148758 AA-ATAA-A-ATAT
1 AATAAAATATATAT
*
111148769 AATGAAATATGATAT
1 AATAAAATAT-ATAT
*
111148784 AAGAAAA-ATATAT
1 AATAAAATATATAT
*
111148797 AA-AATA-ATA-AT
1 AATAAAATATATAT
111148808 AATAATAATA-ATAT
1 AATAA-AATATATAT
111148822 AATAA
1 AATAA
111148827 GTACTTTTTT
Statistics
Matches: 156, Mismatches: 22, Indels: 55
0.67 0.09 0.24
Matches are distributed among these distances:
9 1 0.01
10 6 0.04
11 13 0.08
12 31 0.20
13 13 0.08
14 43 0.28
15 31 0.20
16 8 0.05
17 10 0.06
ACGTcount: A:0.61, C:0.01, G:0.06, T:0.32
Consensus pattern (14 bp):
AATAAAATATATAT
Found at i:111148722 original size:48 final size:47
Alignment explanation
Indices: 111148613--111148714 Score: 125
Period size: 48 Copynumber: 2.1 Consensus size: 47
111148603 TACAAATAAA
111148613 ATATATAGTAATATAAATCATATAATAAATAATATAAAAAAATATATAT
1 ATATATAG-AATA-AAATCATATAATAAATAATATAAAAAAATATATAT
* *
111148662 ATATATATAATAAAATCTATATAATATAATATATATAAGAAAGATATAT-T
1 ATATATAGAATAAAATC-ATATAATA-AATA-ATATAA-AAAAATATATAT
111148712 ATA
1 ATA
111148715 AGGAATAATA
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
47 5 0.11
48 12 0.26
49 11 0.23
50 10 0.21
51 9 0.19
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (47 bp):
ATATATAGAATAAAATCATATAATAAATAATATAAAAAAATATATAT
Found at i:111148807 original size:3 final size:3
Alignment explanation
Indices: 111148790--111148826 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
111148780 ATATAAGAAA
111148790 AAT ATAT AA- AAT AAT AAT AAT AAT AAT AAT -AT AAT AA
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
111148827 GTACTTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
2 4 0.13
3 24 0.77
4 3 0.10
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:111148951 original size:20 final size:20
Alignment explanation
Indices: 111148886--111148951 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
111148876 CACATAGTAA
*
111148886 AATAT-ATATATATAACAGAAT
1 AATATAATA-ATATAAAAG-AT
* * *
111148907 AGATATAATAATAAAAAAAAA
1 A-ATATAATAATATAAAAGAT
*
111148928 AATATAATAATATAATAGAT
1 AATATAATAATATAAAAGAT
111148948 AATA
1 AATA
111148952 AAAAATAATA
Statistics
Matches: 35, Mismatches: 8, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
20 19 0.54
21 3 0.09
22 10 0.29
23 3 0.09
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.29
Consensus pattern (20 bp):
AATATAATAATATAAAAGAT
Found at i:111150777 original size:88 final size:85
Alignment explanation
Indices: 111150671--111151133 Score: 280
Period size: 88 Copynumber: 5.3 Consensus size: 85
111150661 TCAGTAAAAT
* * *
111150671 CATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGATCTGTTATC
1 CATCTGAAAGTCAGATCTGCTATGTATCTGCTCTCC-TCGAAATCGAGATGCCAGATCT-TTATC
111150736 TTAGATCTGCTTTGGTGTGAGAA
64 TTAGATCTGCTTTGGTGTGA-AA
* * ** * * * * *
111150759 CATCTGAAAGTCAAATCTGCTATGTCTTCTATTTGTTCCTTGTAAACACAAGAATGCCAAATC--
1 CATCTGAAAGTCAGATCTGCTATGT-ATCT-GCT-CTCCTCG-AAA-TCGAG-ATGCCAGATCTT
* ** *
111150822 -ATCTTGGATCTGCTTCAGTAT-AAA
60 TATCTTAGATCTGCTTTGGTGTGAAA
* * * *
111150846 TATCT-AAAGGTTAGATCTACTATGTATCTGCTCTCCGTCGAAATAGAGATGCCAGATCTATTAT
1 CATCTGAAA-GTCAGATCTGCTATGTATCTGCTCTCC-TCGAAATCGAGATGCCAGATCT-TTAT
111150910 CTTAGATCTGCTTTGGTGTGAGAA
63 CTTAGATCTGCTTTGGTGTGA-AA
* * * * * * * * *
111150934 CATCTGAAAGTCAAATCTGCTATGTCTTTGATTTGTTCCTTGTAAACACAAGAATGCCAAATC--
1 CATCTGAAAGTCAGATCTGCTATGTATCTG--CT-CTCCTCG-AAA-TCGAG-ATGCCAGATCTT
* * **
111150997 -ATCTTCGATCTAC-TT-CAGTGAAA
60 TATCTTAGATCTGCTTTGGTGTGAAA
* * * * * *
111151020 TCAACTGAAGGTTAGATCTGCTATGTATTTGCTCTCCATCGAAATGGAGATCCCAGATCTGTTAT
1 -CATCTGAAAGTCAGATCTGCTATGTATCTGCTCTCC-TCGAAATCGAGATGCCAGATCT-TTAT
* *
111151085 CTTGGATCTGCTTTGATGTGAAAA
63 CTTAGATCTGCTTTGGTGTG-AAA
111151109 CATCTGAAAGTCAGATCTGCTATGT
1 CATCTGAAAGTCAGATCTGCTATGT
111151134 TTTCGATTTG
Statistics
Matches: 275, Mismatches: 70, Indels: 60
0.68 0.17 0.15
Matches are distributed among these distances:
82 17 0.06
83 4 0.01
84 12 0.04
85 6 0.02
86 36 0.13
87 51 0.19
88 72 0.26
89 37 0.13
90 6 0.02
91 12 0.04
92 4 0.01
93 18 0.07
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (85 bp):
CATCTGAAAGTCAGATCTGCTATGTATCTGCTCTCCTCGAAATCGAGATGCCAGATCTTTATCTT
AGATCTGCTTTGGTGTGAAA
Found at i:111150886 original size:175 final size:175
Alignment explanation
Indices: 111150588--111151176 Score: 928
Period size: 175 Copynumber: 3.4 Consensus size: 175
111150578 CGTAAACACG
* * * * * * *
111150588 TGAAAGCCAAATCTGTTGTGTCTTCGATTTGCTCCTTGTGAACACAAGGATGCCAAATCATCTCG
1 TGAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTG
111150653 GATCTGCTTCAGTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGA
66 GATCTGCTTCAGTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGA
111150718 GATGCCAGATCTGTTATCTTAGATCTGCTTTGGTGTGAGAACATC
131 GATGCCAGATCTGTTATCTTAGATCTGCTTTGGTGTGAGAACATC
*
111150763 TGAAAGTCAAATCTGCTATGTCTTCTATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTG
1 TGAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTG
* * *
111150828 GATCTGCTTCAGTATAAAT-ATCTAAAGGTTAGATCTACTATGTATCTGCTCTCCGTCGAAATAG
66 GATCTGCTTCAGTA-AAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGG
*
111150892 AGATGCCAGATCTATTATCTTAGATCTGCTTTGGTGTGAGAACATC
130 AGATGCCAGATCTGTTATCTTAGATCTGCTTTGGTGTGAGAACATC
* *
111150938 TGAAAGTCAAATCTGCTATGTCTTTGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTC
1 TGAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTG
* * * * *
111151003 GATCTACTTCAGTGAAATCAACTGAAGGTTAGATCTGCTATGTATTTGCTCTCCATCGAAATGGA
66 GATCTGCTTCAGTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGA
* * * *
111151068 GATCCCAGATCTGTTATCTTGGATCTGCTTTGATGTGAAAACATC
131 GATGCCAGATCTGTTATCTTAGATCTGCTTTGGTGTGAGAACATC
* * *
111151113 TGAAAGTCAGATCTGCTATGTTTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATTATCTT
1 TGAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTT
111151177 TAATCTACAT
Statistics
Matches: 380, Mismatches: 32, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
174 4 0.01
175 372 0.98
176 4 0.01
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (175 bp):
TGAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTG
GATCTGCTTCAGTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGA
GATGCCAGATCTGTTATCTTAGATCTGCTTTGGTGTGAGAACATC
Found at i:111159184 original size:15 final size:15
Alignment explanation
Indices: 111159142--111159191 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
111159132 ATAACTTTGA
*
111159142 ATGCAAATG-ATGCG
1 ATGCAAATGCATGAG
111159156 ATG-AAATGCTATGAG
1 ATGCAAATGC-ATGAG
111159171 ATGCAAATGCATGA-
1 ATGCAAATGCATGAG
111159185 ATGCAAA
1 ATGCAAA
111159192 AAGGACATCG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.31
15 11 0.34
16 6 0.19
ACGTcount: A:0.42, C:0.12, G:0.24, T:0.22
Consensus pattern (15 bp):
ATGCAAATGCATGAG
Found at i:111163328 original size:37 final size:37
Alignment explanation
Indices: 111163286--111163367 Score: 105
Period size: 37 Copynumber: 2.2 Consensus size: 37
111163276 AAAGTGTATA
**
111163286 ATATAATTTACAA-ATAAAATATATAGTAATATAAATC-
1 ATATAATAAACAATATAAAATATATA-TAATA-AAATCT
*
111163323 ATATAATAAATAATATAAAATATATATAATAAAATCT
1 ATATAATAAACAATATAAAATATATATAATAAAATCT
111163360 ATATAATA
1 ATATAATA
111163368 TAATATATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
36 5 0.12
37 23 0.57
38 12 0.30
ACGTcount: A:0.60, C:0.04, G:0.01, T:0.35
Consensus pattern (37 bp):
ATATAATAAACAATATAAAATATATATAATAAAATCT
Found at i:111163328 original size:42 final size:39
Alignment explanation
Indices: 111163282--111163371 Score: 114
Period size: 38 Copynumber: 2.3 Consensus size: 39
111163272 AAATAAAGTG
111163282 TATAATATAATTTACAAATAAAATATATAGTAATATAAATC-A
1 TATAATATAA-TTA-AAATAAAATATATA-TAATA-AAATCTA
*
111163324 TATAATA-AA-TAATATAAAATATATATAATAAAATCTA
1 TATAATATAATTAAAATAAAATATATATAATAAAATCTA
111163361 TATAATATAAT
1 TATAATATAAT
111163372 ATATATAAGA
Statistics
Matches: 44, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
36 5 0.11
37 13 0.30
38 15 0.34
39 2 0.05
41 2 0.05
42 7 0.16
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.37
Consensus pattern (39 bp):
TATAATATAATTAAAATAAAATATATATAATAAAATCTA
Found at i:111163333 original size:28 final size:26
Alignment explanation
Indices: 111163302--111163625 Score: 97
Period size: 25 Copynumber: 13.1 Consensus size: 26
111163292 TTTACAAATA
111163302 AAATATATAGTAATATAAATCATATAAT
1 AAATATATA-TAATATAAAT-ATATAAT
*
111163330 AAATA-ATATAA-A-ATATATATAAT
1 AAATATATATAATATAAATATATAAT
* *
111163353 AAAATCTATATAATATAATATATATAAG
1 -AAATATATATAATATAA-ATATATAAT
* **
111163381 AAAGATATAT--TATAAGGA-ATAAT
1 AAATATATATAATATAAATATATAAT
* * * * **
111163404 AGATA-ATAAAATAT-AGTATGTGGT
1 AAATATATATAATATAAATATATAAT
* *
111163428 AAAAATACATAA-AT-AA-ATATAAT
1 AAATATATATAATATAAATATATAAT
*
111163451 GAAATATGATATAAGA-AAA-ATAT-AT
1 -AAATAT-ATATAATATAAATATATAAT
*
111163476 AAA-ATA-ATAATA-ATA-ATATAAT
1 AAATATATATAATATAAATATATAAT
* * * * * *
111163498 AAGTACTTTTTTATATAAAAATATAGT
1 AAATA-TATATAATATAAATATATAAT
* **
111163525 -AATATATATAATAAAAATATATACC
1 AAATATATATAATATAAATATATAAT
* * *
111163550 ACATA-GTA-AATAT--ATATATAAC
1 AAATATATATAATATAAATATATAAT
* * *
111163572 AGAATAGATATAATAATAAA-AAATAAA
1 A-AATATATATAAT-ATAAATATATAAT
*
111163599 AAATATA-ATAATAT-AATAGATAAT
1 AAATATATATAATATAAATATATAAT
111163623 AAA
1 AAA
111163626 AAATAATATG
Statistics
Matches: 216, Mismatches: 53, Indels: 58
0.66 0.16 0.18
Matches are distributed among these distances:
21 11 0.05
22 17 0.08
23 29 0.13
24 44 0.20
25 51 0.24
26 26 0.12
27 24 0.11
28 14 0.06
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.32
Consensus pattern (26 bp):
AAATATATATAATATAAATATATAAT
Found at i:111163362 original size:23 final size:25
Alignment explanation
Indices: 111163323--111163379 Score: 66
Period size: 23 Copynumber: 2.4 Consensus size: 25
111163313 AATATAAATC
111163323 ATATAAT-AAATAATATAAAATAT-
1 ATATAATAAAATAATATAAAATATA
* *
111163346 ATATAATAAAAT-CTATATAATATA
1 ATATAATAAAATAATATAAAATATA
111163370 ATATATATAA
1 ATATA-ATAA
111163380 GAAAGATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 16 0.55
24 9 0.31
25 4 0.14
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (25 bp):
ATATAATAAAATAATATAAAATATA
Found at i:111163419 original size:14 final size:14
Alignment explanation
Indices: 111163298--111163418 Score: 87
Period size: 14 Copynumber: 8.8 Consensus size: 14
111163288 ATAATTTACA
111163298 AATAAAATATATAGT
1 AATAAAATATATA-T
*
111163313 AATATAAAT-CATAT
1 AATA-AAATATATAT
111163327 AAT--AA-ATA-AT
1 AATAAAATATATAT
111163337 -ATAAAATATATAT
1 AATAAAATATATAT
*
111163350 AATAAAATCTATAT
1 AATAAAATATATAT
*
111163364 AATATAATATATAT
1 AATAAAATATATAT
*
111163378 AAGAAAGATATAT-T
1 AATAAA-ATATATAT
*
111163392 -ATAAGGAATAATAGAT
1 AATAA--AAT-ATATAT
111163408 AATAAAATATA
1 AATAAAATATA
111163419 GTATGTGGTA
Statistics
Matches: 84, Mismatches: 9, Indels: 27
0.70 0.08 0.22
Matches are distributed among these distances:
9 2 0.02
10 2 0.02
11 5 0.06
12 3 0.04
13 5 0.06
14 38 0.45
15 20 0.24
16 5 0.06
17 4 0.05
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (14 bp):
AATAAAATATATAT
Found at i:111167841 original size:14 final size:14
Alignment explanation
Indices: 111167822--111167849 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
111167812 AAAATGACTC
111167822 TGTTAGTTTGTTAT
1 TGTTAGTTTGTTAT
111167836 TGTTAGTTTGTTAT
1 TGTTAGTTTGTTAT
111167850 ACAGGCTGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.00, G:0.21, T:0.64
Consensus pattern (14 bp):
TGTTAGTTTGTTAT
Found at i:111168668 original size:15 final size:16
Alignment explanation
Indices: 111168648--111168687 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
111168638 ATTTGAAAAC
111168648 TTTTAAATA-ATATTA
1 TTTTAAATATATATTA
*
111168663 TTTTAAAGATATATTA
1 TTTTAAATATATATTA
111168679 TTTATAAAT
1 TTT-TAAAT
111168688 TTAAAATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 8 0.38
16 9 0.43
17 4 0.19
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
TTTTAAATATATATTA
Found at i:111168887 original size:21 final size:20
Alignment explanation
Indices: 111168863--111168902 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
111168853 AAAACAAATT
111168863 AAATTAATTAAATAAAATTAA
1 AAATTAATTAAA-AAAATTAA
111168884 AAATTAATTAAAAAAATTA
1 AAATTAATTAAAAAAATTA
111168903 TGAAAAAGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AAATTAATTAAAAAAATTAA
Found at i:111173155 original size:56 final size:57
Alignment explanation
Indices: 111173089--111173228 Score: 151
Period size: 58 Copynumber: 2.5 Consensus size: 57
111173079 ACCCCTACAT
* * *
111173089 ACATGCATATGGCCCA-CTTGGCCC-ATCTC-ATTCATATGGCCCATCAGGCCCAATTC
1 ACATTCATATGGCCCATC-AGGCCCAAT-TCAATTCATATGGCCCATCAGGCCCAAATC
* *
111173145 ACATTCATATGGCCCATCAGGCCCAATTCATATTCATATGGCCTATTAGGCCCAAATC
1 ACATTCATATGGCCCATCAGGCCCAATTCA-ATTCATATGGCCCATCAGGCCCAAATC
* * * *
111173203 ACCTTTATATGGCCCGTTAGGCCCAA
1 ACATTCATATGGCCCATCAGGCCCAA
111173229 ATCACCTTAT
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
56 22 0.31
57 3 0.04
58 46 0.65
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (57 bp):
ACATTCATATGGCCCATCAGGCCCAATTCAATTCATATGGCCCATCAGGCCCAAATC
Found at i:111173175 original size:23 final size:26
Alignment explanation
Indices: 111173089--111173198 Score: 87
Period size: 29 Copynumber: 4.0 Consensus size: 26
111173079 ACCCCTACAT
* *
111173089 ACATGCATATGGCCCA-CTTGGCCCATC
1 ACATTCATATGGCCCATC-AGGCCCA-C
*
111173116 TCATTCATATGGCCCATCAGGCCCAATTC
1 ACATTCATATGGCCCATCAGGCCC-A--C
111173145 ACATTCATATGGCCCATCAGGCCCAATTC
1 ACATTCATATGGCCCATCAGGCCC-A--C
* * *
111173174 ATATTCATATGGCCTATTAGGCCCA
1 ACATTCATATGGCCCATCAGGCCCA
111173199 AATCACCTTT
Statistics
Matches: 73, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
27 19 0.26
28 3 0.04
29 51 0.70
ACGTcount: A:0.25, C:0.33, G:0.15, T:0.26
Consensus pattern (26 bp):
ACATTCATATGGCCCATCAGGCCCAC
Found at i:111173236 original size:29 final size:29
Alignment explanation
Indices: 111173117--111173233 Score: 153
Period size: 29 Copynumber: 4.0 Consensus size: 29
111173107 TGGCCCATCT
*
111173117 CATTCATATGGCCCATCAGGCCCAATTCA
1 CATTCATATGGCCCATCAGGCCCAAATCA
*
111173146 CATTCATATGGCCCATCAGGCCCAATTCA
1 CATTCATATGGCCCATCAGGCCCAAATCA
* * *
111173175 TATTCATATGGCCTATTAGGCCCAAATCA
1 CATTCATATGGCCCATCAGGCCCAAATCA
* * * *
111173204 CCTTTATATGGCCCGTTAGGCCCAAATCA
1 CATTCATATGGCCCATCAGGCCCAAATCA
111173233 C
1 C
111173234 CTTATATTCA
Statistics
Matches: 79, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 79 1.00
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.26
Consensus pattern (29 bp):
CATTCATATGGCCCATCAGGCCCAAATCA
Found at i:111182935 original size:67 final size:67
Alignment explanation
Indices: 111182853--111182988 Score: 245
Period size: 67 Copynumber: 2.0 Consensus size: 67
111182843 AATAAGAGAC
*
111182853 GTTTATAATTGAGTTAAAGCTGTACTGCAACTCGAAAAAATTTTAAATTTTTATTATGTCTATTC
1 GTTTATAATTAAGTTAAAGCTGTACTGCAACTCGAAAAAATTTTAAATTTTTATTATGTCTATTC
111182918 AA
66 AA
* *
111182920 GTTTATAATTAAGTTAAAGTTGTACTGCAACTCGAAAAAATTTTAAATTTTTATTATGTTTATTC
1 GTTTATAATTAAGTTAAAGCTGTACTGCAACTCGAAAAAATTTTAAATTTTTATTATGTCTATTC
111182985 AA
66 AA
111182987 GT
1 GT
111182989 GTTTCTCCTC
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.43
Consensus pattern (67 bp):
GTTTATAATTAAGTTAAAGCTGTACTGCAACTCGAAAAAATTTTAAATTTTTATTATGTCTATTC
AA
Found at i:111183514 original size:32 final size:35
Alignment explanation
Indices: 111183453--111183527 Score: 86
Period size: 32 Copynumber: 2.3 Consensus size: 35
111183443 GTCGCTGTAA
*
111183453 ATTTAATATATAAAATATTATATAAGGTAACATAT
1 ATTTAATATATAAAATATAATATAAGGTAACATAT
* *
111183488 ATTTAA-ATAT-AAATA-AATATATGGTAATATAT
1 ATTTAATATATAAAATATAATATAAGGTAACATAT
*
111183520 -TTTGATAT
1 ATTTAATAT
111183528 CGTCGTTATA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
31 4 0.11
32 16 0.46
33 5 0.14
34 4 0.11
35 6 0.17
ACGTcount: A:0.49, C:0.01, G:0.07, T:0.43
Consensus pattern (35 bp):
ATTTAATATATAAAATATAATATAAGGTAACATAT
Found at i:111189981 original size:131 final size:130
Alignment explanation
Indices: 111189665--111190022 Score: 328
Period size: 131 Copynumber: 2.7 Consensus size: 130
111189655 AACTATTAAG
* * * *
111189665 AATCCTTTAAAACGAAGGCGATATTCGATATTTGGTAATTCGTGGAATCGTGCCCTAACGTGTTG
1 AATCCCTTAAAACGAAGGCGATACTCGAT-TTTGGCAATTCG-GGAATCGTGCCCTAACGTGCTG
* * * * * * * *
111189730 AGTTGTAATTTCTCGTTTGCTCAAAGTAATCGAAGGTCCCTTTAAAATTTTATCCATGTCTTTTA
64 GGTTGCAACTTCTCGTTTGCTCAAAATAATCAAAGGTCCCTTCAAAATTTCATCCATGTCTTCTA
111189795 AA
129 AA
* * *
111189797 AATCCCTTAAAA-GAAGGTGAT-GTGCGATTATTGGCAATT-GGCAGAAACGTGCCCTAACGTGC
1 AATCCCTTAAAACGAAGGCGATACT-CGATT-TTGGCAATTCGG--GAATCGTGCCCTAACGTGC
* * * * **
111189859 TGGGTTGCGACTTCTTGTTTGTTTAAAATAATCAAATTTCCCTTCAAAATTTCA-CTCATGTCTT
62 TGGGTTGCAACTTCTCGTTTGCTCAAAATAATCAAAGGTCCCTTCAAAATTTCATC-CATGTCTT
111189923 CTAAA
126 CTAAA
* * * * *
111189928 AATCCCTTAAAACGAAGGCAATACTCGGTGTTTGACAATTCGGGAATCATGCCCTATCGTGCTGG
1 AATCCCTTAAAACGAAGGCGATACTCGAT-TTTGGCAATTCGGGAATCGTGCCCTAACGTGCTGG
*** * * *
111189993 GTTATGATTTCTCATTTGCTCAAAACAATC
65 GTTGCAACTTCTCGTTTGCTCAAAATAATC
111190023 GAATATTCCT
Statistics
Matches: 181, Mismatches: 36, Indels: 19
0.77 0.15 0.08
Matches are distributed among these distances:
129 1 0.01
130 4 0.02
131 143 0.79
132 29 0.16
133 4 0.02
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.34
Consensus pattern (130 bp):
AATCCCTTAAAACGAAGGCGATACTCGATTTTGGCAATTCGGGAATCGTGCCCTAACGTGCTGGG
TTGCAACTTCTCGTTTGCTCAAAATAATCAAAGGTCCCTTCAAAATTTCATCCATGTCTTCTAAA
Found at i:111190535 original size:2 final size:2
Alignment explanation
Indices: 111190530--111190559 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
111190520 ATTTTAATAG
111190530 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
111190560 TCAAATTCAA
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:111191123 original size:10 final size:10
Alignment explanation
Indices: 111191108--111191135 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
111191098 TTTGAAATAT
111191108 TTTAATATAA
1 TTTAATATAA
111191118 TTTAATATAA
1 TTTAATATAA
111191128 TTTAATAT
1 TTTAATAT
111191136 GAAATATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (10 bp):
TTTAATATAA
Found at i:111191200 original size:25 final size:26
Alignment explanation
Indices: 111191153--111191205 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
111191143 TTAATTTCAA
111191153 AATATAATTTAAAATAAAATATT-TT
1 AATATAATTTAAAATAAAATATTATT
* *
111191178 AATATAA-TTATATTAAAACTATTATT
1 AATATAATTTAAAATAAAA-TATTATT
111191204 AA
1 AA
111191206 AATATGATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 9 0.38
25 11 0.46
26 4 0.17
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (26 bp):
AATATAATTTAAAATAAAATATTATT
Found at i:111193318 original size:18 final size:18
Alignment explanation
Indices: 111193295--111193329 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
111193285 ACCATTTACG
111193295 ACACTATTCACGTATACA
1 ACACTATTCACGTATACA
*
111193313 ACACTATTCATGTATAC
1 ACACTATTCACGTATAC
111193330 GGTACTGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (18 bp):
ACACTATTCACGTATACA
Found at i:111199155 original size:81 final size:81
Alignment explanation
Indices: 111199020--111199181 Score: 324
Period size: 81 Copynumber: 2.0 Consensus size: 81
111199010 TCACCAATTC
111199020 TTTTATTTAGATATGATCGGATCACCTAATAATTCAATTATTTTACAAATATTTAAATTTATTAA
1 TTTTATTTAGATATGATCGGATCACCTAATAATTCAATTATTTTACAAATATTTAAATTTATTAA
111199085 AATGATGATTTTTGGT
66 AATGATGATTTTTGGT
111199101 TTTTATTTAGATATGATCGGATCACCTAATAATTCAATTATTTTACAAATATTTAAATTTATTAA
1 TTTTATTTAGATATGATCGGATCACCTAATAATTCAATTATTTTACAAATATTTAAATTTATTAA
111199166 AATGATGATTTTTGGT
66 AATGATGATTTTTGGT
111199182 CTACAAAATC
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 81 1.00
ACGTcount: A:0.36, C:0.07, G:0.10, T:0.47
Consensus pattern (81 bp):
TTTTATTTAGATATGATCGGATCACCTAATAATTCAATTATTTTACAAATATTTAAATTTATTAA
AATGATGATTTTTGGT
Found at i:111199751 original size:26 final size:26
Alignment explanation
Indices: 111199722--111199771 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
111199712 GATAGTAAAA
*
111199722 TGTAAAAATAAATTGTTATGTCAAAC
1 TGTAAAAATAAATTGCTATGTCAAAC
111199748 TGTAAAAATAAATTGCTATGTCAA
1 TGTAAAAATAAATTGCTATGTCAA
111199772 TATGAGTGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.34
Consensus pattern (26 bp):
TGTAAAAATAAATTGCTATGTCAAAC
Found at i:111199949 original size:3 final size:3
Alignment explanation
Indices: 111199941--111200130 Score: 199
Period size: 3 Copynumber: 63.7 Consensus size: 3
111199931 ATAAACAAGA
111199941 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
111199989 AAT AAT AAT TAT AAT AAT AAT AAT AAT AGT AA- ATAC AAT AAT AAC
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT
* * * * *
111200034 AAT AGT AAT AAT AAT AAT AGAA AAT AAT AGT AAT AGT AAA AAT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
* * ** *
111200080 AAT AAT AGT AAT AAT AA- ATT AATT AAT TTT AAT AAT AA- AAT AGT
1 AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT
111200124 AA- AAT AA
1 AAT AAT AA
111200131 AAAAACGCTA
Statistics
Matches: 153, Mismatches: 27, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
2 6 0.04
3 141 0.92
4 6 0.04
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:111201641 original size:44 final size:44
Alignment explanation
Indices: 111201585--111201851 Score: 150
Period size: 44 Copynumber: 6.0 Consensus size: 44
111201575 ATCCTGCTCT
* * *
111201585 ACTGCAACTTCAGAGAGATAAGGATTGTGGCTTCGATCTGCTCC
1 ACTGTAACTTCAGAGAGATAAGGATTGTAGCTTCGATCTACTCC
* * *
111201629 AATGTAATTTCAG-G-GAGAAGAGATATGTAGCTTCGATCTACTCC
1 ACTGTAACTTCAGAGAGATAAG-GAT-TGTAGCTTCGATCTACTCC
* * * * * ** * * *
111201673 GCTGGAACTTCAAAGAGGTAAGAATTGGTAATTTCAACCTGCTCC
1 ACTGTAACTTCAGAGAGATAAGGATT-GTAGCTTCGATCTACTCC
* * * ** * *
111201718 ACTGCAACTTCA-AGGAGATAAGGTTTGT-GTATTTTTATCCTGCTCT
1 ACTGTAACTTCAGA-GAGATAAGGATTGTAG--CTTCGAT-CTACTCC
* * *
111201764 ACTGTAACTTCAGAGAGATAAGAATTGTGGCTTCTATCTACTCC
1 ACTGTAACTTCAGAGAGATAAGGATTGTAGCTTCGATCTACTCC
* * *
111201808 AATGTAATTTCAG-G-GAGAAGAGATTTGTAGCTTCGATCTACTCC
1 ACTGTAACTTCAGAGAGATAAG-GA-TTGTAGCTTCGATCTACTCC
111201852 GCTAGAACTT
Statistics
Matches: 168, Mismatches: 42, Indels: 26
0.71 0.18 0.11
Matches are distributed among these distances:
42 10 0.06
43 6 0.04
44 73 0.43
45 44 0.26
46 33 0.20
47 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (44 bp):
ACTGTAACTTCAGAGAGATAAGGATTGTAGCTTCGATCTACTCC
Found at i:111201797 original size:179 final size:179
Alignment explanation
Indices: 111201410--111201923 Score: 745
Period size: 179 Copynumber: 2.9 Consensus size: 179
111201400 GTTCCAATCC
* * * * *
111201410 ACTGCATCTTCAGAG-GTATAAGAATTG-GTGCTTCGATAC-GCTCTAATGTAATTTTAGAGAAA
1 ACTGCAACTTCAGAGAG-ATAAGAATTGTG-GCTTCGAT-CTGCTCCAATGTAATTTCAGGGAGA
* * *
111201472 AGAGTTTTGTAGCTTCGATCTACTCCGCTGAAACTTCAAGGAGATAAGAATTGGTAATTTCAACT
63 AGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGGTAAGAATTGGTAATTTCAACT
* * * *
111201537 TGCCCCATTG----TTGAGGGAAATAAGGTTTGTGTATTTTTATCCTGCTCT
128 TGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGTATTTTTATCCTGCTCT
*
111201585 ACTGCAACTTCAGAGAGATAAGGATTGTGGCTTCGATCTGCTCCAATGTAATTTCAGGGAGAAGA
1 ACTGCAACTTCAGAGAGATAAGAATTGTGGCTTCGATCTGCTCCAATGTAATTTCAGGGAGAAGA
* * *
111201650 GATATGTAGCTTCGATCTACTCCGCTGGAACTTCAAAGAGGTAAGAATTGGTAATTTCAACCTGC
66 GATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGGTAAGAATTGGTAATTTCAACTTGC
*
111201715 TCCACTGCAACTTCAAGGAGATAAGGTTTGTGTATTTTTATCCTGCTCT
131 TCCACTGCAACTTCAGGGAGATAAGGTTTGTGTATTTTTATCCTGCTCT
* * *
111201764 ACTGTAACTTCAGAGAGATAAGAATTGTGGCTTCTATCTACTCCAATGTAATTTCAGGGAGAAGA
1 ACTGCAACTTCAGAGAGATAAGAATTGTGGCTTCGATCTGCTCCAATGTAATTTCAGGGAGAAGA
* *
111201829 GATTTGTAGCTTCGATCTACTCCGCTAGAACTTCAAGGAGGTAAGAACTGGTAATTTCAACTTGC
66 GATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGGTAAGAATTGGTAATTTCAACTTGC
*
111201894 TCCACTACAACTTCAGGGAGATAAGGTTTG
131 TCCACTGCAACTTCAGGGAGATAAGGTTTG
111201924 CGGCTTGTAG
Statistics
Matches: 304, Mismatches: 28, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
174 1 0.00
175 117 0.38
176 2 0.01
179 184 0.61
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.32
Consensus pattern (179 bp):
ACTGCAACTTCAGAGAGATAAGAATTGTGGCTTCGATCTGCTCCAATGTAATTTCAGGGAGAAGA
GATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGGTAAGAATTGGTAATTTCAACTTGC
TCCACTGCAACTTCAGGGAGATAAGGTTTGTGTATTTTTATCCTGCTCT
Found at i:111202690 original size:46 final size:46
Alignment explanation
Indices: 111202640--111202783 Score: 200
Period size: 46 Copynumber: 3.1 Consensus size: 46
111202630 GGTTTCTTTC
* * *
111202640 ATCCA-CCCTACTGCAACTCAAGGCTATAGGATTTGTATCACCTTCA
1 ATCCATCCC-ACTGCAACTCAGGGATATAGGATTTGTATCATCTTCA
*
111202686 ATCCATCCCACTGCAACTCAGGGATATGGGATTTGTATCATCTTCA
1 ATCCATCCCACTGCAACTCAGGGATATAGGATTTGTATCATCTTCA
* * * *
111202732 ATTCATCCCACTGCAACTCAGGGGTACAGGATTTGTATCTTCTTCA
1 ATCCATCCCACTGCAACTCAGGGATATAGGATTTGTATCATCTTCA
111202778 ATCCAT
1 ATCCAT
111202784 TGATCTGGGT
Statistics
Matches: 87, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
46 84 0.97
47 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.31
Consensus pattern (46 bp):
ATCCATCCCACTGCAACTCAGGGATATAGGATTTGTATCATCTTCA
Found at i:111209118 original size:3 final size:3
Alignment explanation
Indices: 111209112--111209214 Score: 93
Period size: 3 Copynumber: 34.7 Consensus size: 3
111209102 ATAAACAAGA
* * *
111209112 AAT AAT AAT AGT AA- AA- AAT AAT AAT AAT AAT AAT GAT AGT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
111209158 AAT AGT AAT AAT AGAA AAT AAT AGT AAT AGT AAA AAT AAC AAT AAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
111209204 AGT AAT AAT AA
1 AAT AAT AAT AA
111209215 ATTAATAAAT
Statistics
Matches: 78, Mismatches: 20, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
2 4 0.05
3 72 0.92
4 2 0.03
ACGTcount: A:0.63, C:0.01, G:0.08, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:111223206 original size:13 final size:13
Alignment explanation
Indices: 111223169--111223207 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
111223159 TCTGCTTAAC
111223169 TTTGAATTTTGATT
1 TTTGAATTTT-ATT
*
111223183 TTAGAATTTTATT
1 TTTGAATTTTATT
*
111223196 TTTGAAATTTAT
1 TTTGAATTTTAT
111223208 GATTCTTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (13 bp):
TTTGAATTTTATT
Found at i:111227175 original size:211 final size:211
Alignment explanation
Indices: 111226811--111227235 Score: 841
Period size: 211 Copynumber: 2.0 Consensus size: 211
111226801 GGAAATATAT
111226811 TTTGCTTTATACTCCAAGCATGTGAAGAGCTCTTCTTGCAATTTCACTTTGATTGATTTAAAAAC
1 TTTGCTTTATACTCCAAGCATGTGAAGAGCTCTTCTTGCAATTTCACTTTGATTGATTTAAAAAC
111226876 AAAAAACTACAATCTAGTCATTGTTGTTTCATAATTACACATCAGGCATTGCATTATGTTGATTA
66 AAAAAACTACAATCTAGTCATTGTTGTTTCATAATTACACATCAGGCATTGCATTATGTTGATTA
111226941 AGTCAATTAATTATGCTTGAGTAGAAAATTTGTTTCTTGCAAGATAAAGACTTTTAAATCGAATG
131 AGTCAATTAATTATGCTTGAGTAGAAAATTTGTTTCTTGCAAGATAAAGACTTTTAAATCGAATG
111227006 ATTGGTAGATAAACTG
196 ATTGGTAGATAAACTG
111227022 TTTGCTTTATACTCCAAGCATGTGAAGAGCTCTTCTTGCAATTTCACTTTGATTGATTTAAAAAC
1 TTTGCTTTATACTCCAAGCATGTGAAGAGCTCTTCTTGCAATTTCACTTTGATTGATTTAAAAAC
*
111227087 AAAAAACTACAATCTAGTCATTGTTGTTTCATAATTACACATCAGGCATTGTATTATGTTGATTA
66 AAAAAACTACAATCTAGTCATTGTTGTTTCATAATTACACATCAGGCATTGCATTATGTTGATTA
111227152 AGTCAATTAATTATGCTTGAGTAGAAAATTTGTTTCTTGCAAGATAAAGACTTTTAAATCGAATG
131 AGTCAATTAATTATGCTTGAGTAGAAAATTTGTTTCTTGCAAGATAAAGACTTTTAAATCGAATG
111227217 ATTGGTAGATAAACTG
196 ATTGGTAGATAAACTG
111227233 TTT
1 TTT
111227236 CCATGCTCCT
Statistics
Matches: 213, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
211 213 1.00
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.38
Consensus pattern (211 bp):
TTTGCTTTATACTCCAAGCATGTGAAGAGCTCTTCTTGCAATTTCACTTTGATTGATTTAAAAAC
AAAAAACTACAATCTAGTCATTGTTGTTTCATAATTACACATCAGGCATTGCATTATGTTGATTA
AGTCAATTAATTATGCTTGAGTAGAAAATTTGTTTCTTGCAAGATAAAGACTTTTAAATCGAATG
ATTGGTAGATAAACTG
Found at i:111230285 original size:42 final size:43
Alignment explanation
Indices: 111230226--111230316 Score: 148
Period size: 42 Copynumber: 2.1 Consensus size: 43
111230216 TCTAATTGGG
*
111230226 AAAATAGCTCCCTTATTCTAATAAACTACTAAAATATAAAA-A
1 AAAATAGCTCCCTTATTCTAATAAACTACTAAAAGATAAAATA
* *
111230268 AAAATAGTTTCCTTATTCTAATAAACTACTAAAAGATAAAATA
1 AAAATAGCTCCCTTATTCTAATAAACTACTAAAAGATAAAATA
111230311 AAAATA
1 AAAATA
111230317 TTCTTAGAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
42 38 0.84
43 7 0.16
ACGTcount: A:0.54, C:0.13, G:0.03, T:0.30
Consensus pattern (43 bp):
AAAATAGCTCCCTTATTCTAATAAACTACTAAAAGATAAAATA
Found at i:111230360 original size:19 final size:18
Alignment explanation
Indices: 111230338--111230377 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
111230328 TGAATAAAAC
111230338 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
111230357 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
111230375 TTA
1 TTA
111230378 AAATATATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:111234242 original size:42 final size:42
Alignment explanation
Indices: 111234183--111234270 Score: 149
Period size: 42 Copynumber: 2.1 Consensus size: 42
111234173 CCTAATTGGT
* *
111234183 AAAATAGTTCCCTTATTCTAATAAACTACTCAAATATAAAAG
1 AAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAAG
*
111234225 AAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAAT
1 AAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAAG
111234267 AAAA
1 AAAA
111234271 ATATTCTTAG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.51, C:0.15, G:0.05, T:0.30
Consensus pattern (42 bp):
AAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAAG
Found at i:111234317 original size:19 final size:19
Alignment explanation
Indices: 111234295--111234353 Score: 111
Period size: 19 Copynumber: 3.2 Consensus size: 19
111234285 TGAATAAAAC
111234295 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAAGAT
111234314 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAAGAT
111234333 TTATCTACCTAAATAA-AT
1 TTATCTACCTAAATAAGAT
111234351 TTA
1 TTA
111234354 AAATATATAC
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
18 5 0.12
19 35 0.88
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.39
Consensus pattern (19 bp):
TTATCTACCTAAATAAGAT
Found at i:111240596 original size:53 final size:53
Alignment explanation
Indices: 111240515--111240616 Score: 179
Period size: 53 Copynumber: 1.9 Consensus size: 53
111240505 ATCGACATTT
111240515 CATCAAAGAAAAGTTAACTGCCCGCATCTTAGGCTTAAGTCATGTAGCCACTG
1 CATCAAAGAAAAGTTAACTGCCCGCATCTTAGGCTTAAGTCATGTAGCCACTG
*
111240568 CATCAAAGAAAAGTTAACTG-CCGACATCTTGGGCTTAAGTCATGTAGCC
1 CATCAAAGAAAAGTTAACTGCCCG-CATCTTAGGCTTAAGTCATGTAGCC
111240617 TCTGACAAGC
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
52 3 0.06
53 44 0.94
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.25
Consensus pattern (53 bp):
CATCAAAGAAAAGTTAACTGCCCGCATCTTAGGCTTAAGTCATGTAGCCACTG
Found at i:111241190 original size:22 final size:22
Alignment explanation
Indices: 111241162--111241206 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
111241152 ACCCCGAAAC
*
111241162 TCTTAAGTGTTACTTTTAGTAA
1 TCTTAAGTGCTACTTTTAGTAA
111241184 TCTTAAGTGCTACTTTTAGTAA
1 TCTTAAGTGCTACTTTTAGTAA
111241206 T
1 T
111241207 AATAAGAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.11, G:0.13, T:0.49
Consensus pattern (22 bp):
TCTTAAGTGCTACTTTTAGTAA
Found at i:111241212 original size:22 final size:22
Alignment explanation
Indices: 111241165--111241212 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
111241155 CCGAAACTCT
* **
111241165 TAAGTGTTACTTTTAGTAATCT
1 TAAGTGCTACTTTTAGTAATAA
111241187 TAAGTGCTACTTTTAGTAATAA
1 TAAGTGCTACTTTTAGTAATAA
111241209 TAAG
1 TAAG
111241213 AAAGAATGCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.44
Consensus pattern (22 bp):
TAAGTGCTACTTTTAGTAATAA
Found at i:111245097 original size:14 final size:14
Alignment explanation
Indices: 111245078--111245107 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
111245068 AAGATTGTAT
111245078 TATTCAAACGGATA
1 TATTCAAACGGATA
111245092 TATTCAAACGGATA
1 TATTCAAACGGATA
111245106 TA
1 TA
111245108 AAGCCAGGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.30
Consensus pattern (14 bp):
TATTCAAACGGATA
Found at i:111245956 original size:19 final size:19
Alignment explanation
Indices: 111245932--111245970 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
111245922 TTTTGGATTG
111245932 ATTCTAATTAAATCCTCTT
1 ATTCTAATTAAATCCTCTT
111245951 ATTCTAATTAAATCCTCTT
1 ATTCTAATTAAATCCTCTT
111245970 A
1 A
111245971 GTTCATAGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.21, G:0.00, T:0.46
Consensus pattern (19 bp):
ATTCTAATTAAATCCTCTT
Found at i:111246934 original size:26 final size:24
Alignment explanation
Indices: 111246904--111246953 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
111246894 AAATAAAAAA
*
111246904 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
111246930 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
111246954 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:111246960 original size:12 final size:12
Alignment explanation
Indices: 111246943--111246985 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
111246933 TAAAAACATA
111246943 AAAACAAATATT
1 AAAACAAATATT
**
111246955 AAAACAAATAAA
1 AAAACAAATATT
* *
111246967 AAAACAATTCTT
1 AAAACAAATATT
111246979 AAAACAA
1 AAAACAA
111246986 TACACAAATT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.70, C:0.12, G:0.00, T:0.19
Consensus pattern (12 bp):
AAAACAAATATT
Found at i:111247050 original size:15 final size:16
Alignment explanation
Indices: 111247020--111247052 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
111247010 AAATGGTTAT
111247020 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
111247037 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
111247052 A
1 A
111247053 AAATATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:111248143 original size:131 final size:130
Alignment explanation
Indices: 111247952--111248424 Score: 427
Period size: 131 Copynumber: 3.6 Consensus size: 130
111247942 GTTTCACAAT
* * * * * * * *
111247952 TTTTAAGAATCCTTTAAAACGAAGGTGATATTCGA-TACATGGTAAGTCGAGGAATAGTGCCCTA
1 TTTTAAAAATCCCTTAAAACGAAGGCGAT-GTCGATTA-TTGGCAATTCG-GGAATCGTGCCCTA
* * * * ** *
111248016 ACGTGTTGGGTTGCAATTTCTCGTTCGCTCAAAGTAATCGAAGGTCCCTTTAGAATTTCACCCAT
63 ACGTGCTGGGTTGCAACTTCTCGTTTGCTCAAAATAATCGAATATCCCTTTAGAATTTCACTCAT
111248081 GTC
128 GTC
111248084 TTTTAAAAATCCCTT-AAACGAAGGCGATGTGCGATTATTGGCAATTCGCGGAATCGTGCCCTAA
1 TTTTAAAAATCCCTTAAAACGAAGGCGATGT-CGATTATTGGCAATTCG-GGAATCGTGCCCTAA
* * * * *
111248148 CGTGCTGGGTTGCAACTTCTCGTTTGCTTAAAATAATCAAATATCCCTTCAAAATCTCACTCATG
64 CGTGCTGGGTTGCAACTTCTCGTTTGCTCAAAATAATCGAATATCCCTTTAGAATTTCACTCATG
111248213 TC
129 TC
* * * * * * * *
111248215 TTCTAAAAATCCTTTAAAACGAAGGCAATACTCG-GTATTTGACAATTCGGGAATCATG-CCTAT
1 TTTTAAAAATCCCTTAAAACGAAGGCGAT-GTCGATTA-TTGGCAATTCGGGAATCGTGCCCTAA
** * * * **
111248278 CGTGCTGGGTTGTGACTTCTCGTTTGTTCAAAACAATCGAATATTCCTTTAGGTTTTCACTCATG
64 CGTGCTGGGTTGCAACTTCTCGTTTGCTCAAAATAATCGAATATCCCTTTAGAATTTCACTCATG
*
111248343 TTT
129 -TC
* * *
111248346 TTTTAAGGAAA-CCCTTTAAAACAAAGGCGACGTTCGATGT-TTGGCAATTCGAGAATCGTGCCC
1 TTTTAA--AAATCCC-TTAAAACGAAGGCGATG-TCGAT-TATTGGCAATTCGGGAATCGTGCCC
*
111248409 TATCGTGCTGGGTTGC
61 TAACGTGCTGGGTTGC
111248425 GCTTTTTCAC
Statistics
Matches: 275, Mismatches: 53, Indels: 24
0.78 0.15 0.07
Matches are distributed among these distances:
130 58 0.21
131 121 0.44
132 41 0.15
133 37 0.13
134 17 0.06
135 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (130 bp):
TTTTAAAAATCCCTTAAAACGAAGGCGATGTCGATTATTGGCAATTCGGGAATCGTGCCCTAACG
TGCTGGGTTGCAACTTCTCGTTTGCTCAAAATAATCGAATATCCCTTTAGAATTTCACTCATGTC
Found at i:111248474 original size:134 final size:136
Alignment explanation
Indices: 111248121--111248560 Score: 307
Period size: 130 Copynumber: 3.3 Consensus size: 136
111248111 TGTGCGATTA
* * * ** *
111248121 TTGGCAATTCGCGGAATCGTGCCCTAACGTGCTGGGTTGCAACTTCTCGTTTGCTT-AAAATAAT
1 TTGGCAATTCG-AGAATCGTGCCCTATCGTGCTGGGTTGCGACTTCTCACTTG-TTCAAAACAAT
* * *** * * * * *
111248185 CAAATATCCCTTCAAAATCTCACTCATGTCTTCT-----AAAAATCCTTTAAAACGAAGGCAATA
64 CGAAGATCCCTTCAGGTTTTCACTCACGTTTTCTAAAAAAAAAACCCTTTAAAACGAAAG-AA-A
* *
111248245 C--TCGGTAT
127 CGTTCGATGT
* * * * **
111248253 TTGACAATTCGGGAATCATG-CCTATCGTGCTGGGTTGTGACTTCTCGTTTGTTCAAAACAATCG
1 TTGGCAATTCGAGAATCGTGCCCTATCGTGCTGGGTTGCGACTTCTCACTTGTTCAAAACAATCG
* * * * ** ** **
111248317 AATATTCCTTTAGGTTTTCACTCATGTTTT-T-TTAAGGAAACCCTTTAAAAC-AAAGGCGACGT
66 AAGATCCCTTCAGGTTTTCACTCACGTTTTCTAAAAAAAAAACCCTTTAAAACGAAA-GAAACGT
111248379 TCGATGT
130 TCGATGT
* * *
111248386 TTGGCAATTCGAGAATCGTGCCCTATCGTGCTGGGTTGCG-CTTTTTCACTTGTTCAGAACGATC
1 TTGGCAATTCGAGAATCGTGCCCTATCGTGCTGGGTTGCGAC-TTCTCACTTGTTCAAAACAATC
* * *
111248450 GAAGATCCCTTCGGGATTTT-ACTCACGTTTTCTAAAAAAAAAAACTCTTTAAAACGAAAGAAAT
65 GAAGATCCCTTCAGG-TTTTCACTCACGTTTTCT-AAAAAAAAAACCCTTTAAAACGAAAGAAAC
111248514 GTTCGATGT
128 GTTCGATGT
* *
111248523 TTGGAAACTCGAGGAATCGTGCCCTA-CTGTGCTGGGTT
1 TTGGCAATTCGA-GAATCGTGCCCTATC-GTGCTGGGTT
111248561 TTGATTTTTC
Statistics
Matches: 245, Mismatches: 46, Indels: 28
0.77 0.14 0.09
Matches are distributed among these distances:
129 3 0.01
130 59 0.24
131 10 0.04
132 12 0.05
133 37 0.15
134 56 0.23
135 5 0.02
137 37 0.15
138 26 0.11
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.33
Consensus pattern (136 bp):
TTGGCAATTCGAGAATCGTGCCCTATCGTGCTGGGTTGCGACTTCTCACTTGTTCAAAACAATCG
AAGATCCCTTCAGGTTTTCACTCACGTTTTCTAAAAAAAAAACCCTTTAAAACGAAAGAAACGTT
CGATGT
Found at i:111249668 original size:39 final size:40
Alignment explanation
Indices: 111249613--111249692 Score: 108
Period size: 39 Copynumber: 2.0 Consensus size: 40
111249603 TCAAATACAT
111249613 TTAAAACAAATATTAAAACAAGAAACAAA-TAAAAATATA
1 TTAAAACAAATATTAAAACAAGAAACAAATTAAAAATATA
* * * * *
111249652 TTAAAACAATTCTTAAAACAATACACAAATTGAAAATATA
1 TTAAAACAAATATTAAAACAAGAAACAAATTAAAAATATA
111249692 T
1 T
111249693 AATAAAAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
39 25 0.71
40 10 0.29
ACGTcount: A:0.62, C:0.10, G:0.03, T:0.25
Consensus pattern (40 bp):
TTAAAACAAATATTAAAACAAGAAACAAATTAAAAATATA
Found at i:111249749 original size:29 final size:28
Alignment explanation
Indices: 111249679--111249750 Score: 74
Period size: 29 Copynumber: 2.5 Consensus size: 28
111249669 ACAATACACA
* *
111249679 AATTGAAAATATATAATAAAAATTAATTAT
1 AATT-AAAA-ATAAAATAAAAATTAAATAT
* *
111249709 -ATTAAAACTAAAATTAAAATATAAATAT
1 AATTAAAAATAAAATAAAAAT-TAAATAT
111249737 AATTAAAAATAAAA
1 AATTAAAAATAAAA
111249751 AATATATATT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
27 10 0.29
28 10 0.29
29 15 0.43
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (28 bp):
AATTAAAAATAAAATAAAAATTAAATAT
Found at i:111254163 original size:3 final size:3
Alignment explanation
Indices: 111254141--111254210 Score: 63
Period size: 3 Copynumber: 23.0 Consensus size: 3
111254131 GTACAATTTG
111254141 TAA TAA -AA TATA TAAA TAA TAA TAA TAA TAA TAGA TAA -AA TAA TAA
1 TAA TAA TAA TA-A T-AA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA
* * * *
111254187 TAG GAA TAG TAA TAG TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA
111254211 GAACAATATA
Statistics
Matches: 54, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
2 4 0.07
3 42 0.78
4 7 0.13
5 1 0.02
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:111254303 original size:3 final size:3
Alignment explanation
Indices: 111254290--111254340 Score: 70
Period size: 3 Copynumber: 17.0 Consensus size: 3
111254280 CAAATAGATG
111254290 AAT AGAT AAT AAT AA- AAT AAT AAT AGAT AAT AA- AAT AAT AAT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT
111254335 AAT AAT
1 AAT AAT
111254341 GGCATAAATA
Statistics
Matches: 44, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
2 4 0.09
3 34 0.77
4 6 0.14
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:111254311 original size:18 final size:17
Alignment explanation
Indices: 111254290--111254339 Score: 82
Period size: 18 Copynumber: 2.8 Consensus size: 17
111254280 CAAATAGATG
111254290 AATAGATAATAATAAAAT
1 AATA-ATAATAATAAAAT
111254308 AATAATAGATAATAAAAT
1 AATAATA-ATAATAAAAT
111254326 AATAATAATAATAA
1 AATAATAATAATAA
111254340 TGGCATAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
17 10 0.32
18 21 0.68
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (17 bp):
AATAATAATAATAAAAT
Found at i:111254351 original size:21 final size:21
Alignment explanation
Indices: 111254281--111254340 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 21
111254271 GGTAATAGAC
*
111254281 AAATAGATGAATAGATAATAATA-
1 AAATA-AT-AATA-ATAATAAAAT
111254304 AAATAATAATAGATAATAAAAT
1 AAATAATAATA-ATAATAAAAT
111254326 -AATAATAATAATAAT
1 AAATAATAATAATAAT
111254341 GGCATAAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
20 5 0.14
21 23 0.66
22 2 0.06
23 5 0.14
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (21 bp):
AAATAATAATAATAATAAAAT
Found at i:111256751 original size:17 final size:16
Alignment explanation
Indices: 111256720--111256769 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
111256710 CATCGCCTGC
111256720 AAAGAAGAAAAAACAA
1 AAAGAAGAAAAAACAA
*
111256736 AAAGAAGCAGAAAACAA
1 AAAGAAG-AAAAAACAA
* *
111256753 AACGAAAAAAAAACAA
1 AAAGAAGAAAAAACAA
111256769 A
1 A
111256770 GAACGAATCT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
16 16 0.55
17 13 0.45
ACGTcount: A:0.78, C:0.10, G:0.12, T:0.00
Consensus pattern (16 bp):
AAAGAAGAAAAAACAA
Found at i:111257819 original size:26 final size:25
Alignment explanation
Indices: 111257770--111258115 Score: 116
Period size: 26 Copynumber: 13.2 Consensus size: 25
111257760 AAAACTGCTA
* * *
111257770 ATATTATTCATTTTAAGTTTTTTTAT
1 ATATTATTTATTTTAA-ATATTTTAT
111257796 ATATTATTTATTTTAAATCATTTTATT
1 ATATTATTTATTTTAAAT-ATTTTA-T
** *
111257823 ATTACTTATTCTAATCCTTT-TCTATTTTAAA
1 A-TA-TTATT-T-AT--TTTAAATATTTT-AT
* *
111257854 ATATTATCTATTTTAAATATGTTACAT
1 ATATTATTTATTTTAAATAT-TT-TAT
* *
111257881 ATATTATTTATTTTAAACTATTATAC
1 ATATTATTTATTTTAAA-TATTTTAT
* *
111257907 ATATTACTTATTTTAAAT-TTTTTT
1 ATATTATTTATTTTAAATATTTTAT
*
111257931 ATCTT-TTTATTTTAAAATATTTTAT
1 ATATTATTTATTTT-AAATATTTTAT
**
111257956 ATATAATAGGTATTTTAAA-ATTTCTTAT
1 ATAT--TATTTATTTTAAATA-TT-TTAT
* * * *
111257984 ATGTTATTTA-GTTATACTAGTTTAT
1 ATATTATTTATTTTA-AATATTTTAT
** * *
111258009 AGGTTAATTATTTTAAAT-TTCTTTT
1 ATATTATTTATTTTAAATATT-TTAT
* * **
111258034 ATTGTTATTTATTTTGAACT-TTCCAT
1 A-TATTATTTATTTT-AAATATTTTAT
* * *
111258060 ATATCACTTATTTTAAAATATTTTTT
1 ATATTATTTATTTT-AAATATTTTAT
*
111258086 ATA-TACTCCTTATTTTAAA-CTTTTAT
1 ATATTA-T--TTATTTTAAATATTTTAT
111258112 ATAT
1 ATAT
111258116 GTATATGTTA
Statistics
Matches: 234, Mismatches: 55, Indels: 61
0.67 0.16 0.17
Matches are distributed among these distances:
23 7 0.03
24 12 0.05
25 48 0.21
26 77 0.33
27 39 0.17
28 26 0.11
29 9 0.04
30 3 0.01
31 8 0.03
32 2 0.01
33 3 0.01
ACGTcount: A:0.32, C:0.07, G:0.03, T:0.58
Consensus pattern (25 bp):
ATATTATTTATTTTAAATATTTTAT
Found at i:111257884 original size:27 final size:28
Alignment explanation
Indices: 111257854--111257910 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 28
111257844 CTATTTTAAA
111257854 ATATTATCTATTTTAAA-TATGT-TACAT
1 ATATTATCTATTTTAAACTAT-TATACAT
*
111257881 ATATTATTTATTTTAAACTATTATACAT
1 ATATTATCTATTTTAAACTATTATACAT
111257909 AT
1 AT
111257911 TACTTATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 17 0.63
28 10 0.37
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.53
Consensus pattern (28 bp):
ATATTATCTATTTTAAACTATTATACAT
Found at i:111261948 original size:19 final size:19
Alignment explanation
Indices: 111261926--111261963 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
111261916 ACATTAGATT
111261926 TTTAA-AATATATAAATATA
1 TTTAATAATATA-AAATATA
111261945 TTTAATAATATAAAATATA
1 TTTAATAATATAAAATATA
111261964 AAAATTAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TTTAATAATATAAAATATA
Found at i:111263094 original size:19 final size:17
Alignment explanation
Indices: 111263053--111263101 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 17
111263043 ATACATAAGT
111263053 AAATAAATAAATAAATAA
1 AAATAAATAAA-AAATAA
*
111263071 AAATAAATAAAACATGACA
1 AAATAAATAAAAAAT-A-A
*
111263090 AAATAAAGAAAA
1 AAATAAATAAAA
111263102 TGATAATGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 3 0.11
18 12 0.44
19 12 0.44
ACGTcount: A:0.76, C:0.04, G:0.04, T:0.16
Consensus pattern (17 bp):
AAATAAATAAAAAATAA
Found at i:111263118 original size:18 final size:18
Alignment explanation
Indices: 111263091--111263131 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
111263081 AACATGACAA
*
111263091 AATAAAGAAAATGATAAT
1 AATAAAGAAAACGATAAT
* *
111263109 GATAACGAAAACGATAAT
1 AATAAAGAAAACGATAAT
111263127 AATAA
1 AATAA
111263132 TAATAATAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.63, C:0.05, G:0.12, T:0.20
Consensus pattern (18 bp):
AATAAAGAAAACGATAAT
Found at i:111263130 original size:3 final size:3
Alignment explanation
Indices: 111263122--111263156 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
111263112 AACGAAAACG
111263122 ATA ATA ATA ATA ATA ATA AT- ATAA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA AT
111263157 GGTAACAATG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 26 0.87
4 2 0.07
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:111263281 original size:20 final size:19
Alignment explanation
Indices: 111263256--111263299 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 19
111263246 TACACGTAAT
111263256 ATATACACAATATATATAAA
1 ATATACACAATATAT-TAAA
*
111263276 ATATACATAATATATTAAA
1 ATATACACAATATATTAAA
111263295 ATATA
1 ATATA
111263300 GACATAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (19 bp):
ATATACACAATATATTAAA
Found at i:111266078 original size:17 final size:17
Alignment explanation
Indices: 111266056--111266092 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
111266046 TAAGAAAGAA
111266056 TAATTAAAAATTTTAAT
1 TAATTAAAAATTTTAAT
**
111266073 TAATTAAATTTTTTAAT
1 TAATTAAAAATTTTAAT
111266090 TAA
1 TAA
111266093 AAATCTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TAATTAAAAATTTTAAT
Found at i:111276320 original size:18 final size:18
Alignment explanation
Indices: 111276297--111276331 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
111276287 ATTATGCGTC
111276297 TTTTTTTTAAAATATTTA
1 TTTTTTTTAAAATATTTA
*
111276315 TTTTTTTTTAAATATTT
1 TTTTTTTTAAAATATTT
111276332 TACTATTTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTTTTTAAAATATTTA
Found at i:111281940 original size:21 final size:20
Alignment explanation
Indices: 111281911--111281950 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
111281901 CCTTGAAACA
*
111281911 GGGCACACGCCGGTGTGGAG
1 GGGCACACGCCCGTGTGGAG
111281931 GGGCAACACGCCCGTGTGGA
1 GGGC-ACACGCCCGTGTGGA
111281951 ACTTGTACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.17, C:0.28, G:0.45, T:0.10
Consensus pattern (20 bp):
GGGCACACGCCCGTGTGGAG
Found at i:111283210 original size:48 final size:49
Alignment explanation
Indices: 111283091--111283257 Score: 241
Period size: 48 Copynumber: 3.4 Consensus size: 49
111283081 TGCTGACGCT
* * * * * *
111283091 ATGTCCCAGACATGGTCTTACACTGGCTTTCATATAGCGAGT-TTGATGCC
1 ATGTCCCAGACA-GGTCTTACATTGGCTCTCATCTATCG-GTGTCGATGTC
111283141 ATGTCCCAGACAGGTCTTACATTGGCTCTCATCTATCGGTGTCGATGTC
1 ATGTCCCAGACAGGTCTTACATTGGCTCTCATCTATCGGTGTCGATGTC
111283190 ATGT-CCAGACAGGTCTTACATTGGCTCTCATCTATCGGTGTCGATGTC
1 ATGTCCCAGACAGGTCTTACATTGGCTCTCATCTATCGGTGTCGATGTC
111283238 ATGT-CCAGACAGGTCTTACA
1 ATGTCCCAGACAGGTCTTACA
111283258 CTGACACATA
Statistics
Matches: 110, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
48 66 0.60
49 32 0.29
50 12 0.11
ACGTcount: A:0.21, C:0.25, G:0.22, T:0.32
Consensus pattern (49 bp):
ATGTCCCAGACAGGTCTTACATTGGCTCTCATCTATCGGTGTCGATGTC
Found at i:111283347 original size:48 final size:46
Alignment explanation
Indices: 111283280--111283494 Score: 218
Period size: 46 Copynumber: 4.6 Consensus size: 46
111283270 AAGCTGACGC
* * * *
111283280 CATGTCTCAGATAGGTCTTACACTAGCTTGTATATTGCGAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTT-TATACT-CGAGGCTGATG
* * **
111283328 CATGTCCCAGACATGTCTTACACTAGCTTTCGT-CTCAATACTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTT-ATACTCGAGGCTGATG
** * **
111283374 CATGTAACAGACATGTCTTACACTGGCGTAAATATCTCGAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGC-TTTATA-CTCGAGGCTGATG
* * *
111283422 CATGTCCCAGACATGTCTTACACTGGCTCTCATACT-GTGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCT-TTATACTCGAGGCTGATG
111283468 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
111283495 ACAAAAATGA
Statistics
Matches: 139, Mismatches: 23, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
46 68 0.49
47 6 0.04
48 65 0.47
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.30
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTTTATACTCGAGGCTGATG
Found at i:111283466 original size:94 final size:93
Alignment explanation
Indices: 111283317--111283491 Score: 253
Period size: 94 Copynumber: 1.9 Consensus size: 93
111283307 TTGTATATTG
* *
111283317 CGAGGCTGATGCATGTCCCAGACATGTCTTACACTAGCTTTCGTCTCAATACTGATGCATGTAAC
1 CGAGGCTGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCT-AATACTGATGCATGTAAC
111283382 AGACATGTCTTACACTGGCGTAAATATCT
65 AGACATGTCTTACACTGGCGTAAATATCT
* * * **
111283411 CGAGGCTGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATACT-GTGGCTGATGCATGTCC
1 CGAGGCTGATGCATGTCCCAGACATGTCTTACACTAGCTCTCAT-CTAAT-ACTGATGCATGTAA
111283475 CAGACATGTCTTACACT
64 CAGACATGTCTTACACT
111283492 AGCACAAAAA
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
93 1 0.01
94 69 0.96
95 2 0.03
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (93 bp):
CGAGGCTGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTAATACTGATGCATGTAACA
GACATGTCTTACACTGGCGTAAATATCT
Found at i:111286109 original size:22 final size:21
Alignment explanation
Indices: 111286084--111286139 Score: 53
Period size: 20 Copynumber: 2.7 Consensus size: 21
111286074 TTGAGTTTTA
*
111286084 TCTCAAGACATATGTTGCTTTG
1 TCTCAAGACATATGTT-CATTG
* *
111286106 TCTCAGGAAATA-GTTCATTG
1 TCTCAAGACATATGTTCATTG
*
111286126 TCTTAAGAC-TATGT
1 TCTCAAGACATATGT
111286140 ATTGAGACAA
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
19 2 0.07
20 12 0.44
21 3 0.11
22 10 0.37
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (21 bp):
TCTCAAGACATATGTTCATTG
Found at i:111288427 original size:23 final size:23
Alignment explanation
Indices: 111288397--111288440 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
111288387 GACGGGCTCC
*
111288397 ATTGGTTGCCATAGTCGAACTCT
1 ATTGGTTGCCATAGCCGAACTCT
*
111288420 ATTGGTTGCTATAGCCGAACT
1 ATTGGTTGCCATAGCCGAACT
111288441 ATGGTCTTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (23 bp):
ATTGGTTGCCATAGCCGAACTCT
Found at i:111288800 original size:45 final size:45
Alignment explanation
Indices: 111288734--111288849 Score: 151
Period size: 45 Copynumber: 2.6 Consensus size: 45
111288724 TGCTATAATG
* *
111288734 TCTTTCAGCTATGGTCGTACTCATTTCTATCATGATGTCATAACA
1 TCTTTCAGCTATGGTCTTACTCATTTCTATCATGATGCCATAACA
* * * * *
111288779 TCTTTCAGCTATGATCTTACTCGTTTTTATCATGATGCCATAGCG
1 TCTTTCAGCTATGGTCTTACTCATTTCTATCATGATGCCATAACA
* *
111288824 TCTTTCAGGTTTGGTCTTACTCATTT
1 TCTTTCAGCTATGGTCTTACTCATTT
111288850 TAGGCATTTA
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 60 1.00
ACGTcount: A:0.20, C:0.22, G:0.15, T:0.44
Consensus pattern (45 bp):
TCTTTCAGCTATGGTCTTACTCATTTCTATCATGATGCCATAACA
Found at i:111290186 original size:3 final size:3
Alignment explanation
Indices: 111290178--111290238 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
111290168 TGAGACCAAT
111290178 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
111290226 TGA TGA TGA TGA T
1 TGA TGA TGA TGA T
111290239 AATAATAATA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.34
Consensus pattern (3 bp):
TGA
Found at i:111290243 original size:3 final size:3
Alignment explanation
Indices: 111290237--111290267 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
111290227 GATGATGATG
111290237 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
111290268 GTCATGAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:111302221 original size:6 final size:6
Alignment explanation
Indices: 111302194--111302240 Score: 51
Period size: 6 Copynumber: 8.0 Consensus size: 6
111302184 TATGTCTTTC
* * * *
111302194 AAAAGA AAAAT- AAAATT GAAATG AAAATA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
111302241 TAGGAGGATT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
5 5 0.14
6 30 0.86
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:111309480 original size:18 final size:18
Alignment explanation
Indices: 111309446--111309487 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
111309436 CTCATTTGAG
*
111309446 AGCTCATCTGAAGCTACA
1 AGCTCATCTGAACCTACA
*
111309464 AGCTCATCT-ACACCTACG
1 AGCTCATCTGA-ACCTACA
111309482 AGCTCA
1 AGCTCA
111309488 CTTAAAGCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 1 0.05
18 20 0.95
ACGTcount: A:0.31, C:0.33, G:0.14, T:0.21
Consensus pattern (18 bp):
AGCTCATCTGAACCTACA
Found at i:111312826 original size:27 final size:27
Alignment explanation
Indices: 111312778--111312936 Score: 166
Period size: 27 Copynumber: 5.9 Consensus size: 27
111312768 GCGAGGCTGC
* *
111312778 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
111312805 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
111312831 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
111312858 CAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
* *
111312885 CAGATATATGTGGTAGAGCCACTAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
111312912 CAGATAATTATGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
111312937 GACGCTTCCT
Statistics
Matches: 112, Mismatches: 12, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
26 10 0.09
27 97 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:111312937 original size:54 final size:54
Alignment explanation
Indices: 111312796--111312939 Score: 227
Period size: 54 Copynumber: 2.7 Consensus size: 54
111312786 GTGACGAAGT
* *
111312796 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
*
111312850 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGTAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
* *
111312904 CACTAGATCAGATAATTATGGCATAGCCACCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
111312940 GCTTCCTCCA
Statistics
Matches: 84, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
53 5 0.06
54 79 0.94
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
Found at i:111313342 original size:8 final size:8
Alignment explanation
Indices: 111313326--111313355 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
111313316 CTCAAAATAC
111313326 CGGCTTTT
1 CGGCTTTT
*
111313334 CGGCATTT
1 CGGCTTTT
111313342 CGGCTTTT
1 CGGCTTTT
111313350 CGGCTT
1 CGGCTT
111313356 GTGCCGATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.03, C:0.27, G:0.27, T:0.43
Consensus pattern (8 bp):
CGGCTTTT
Found at i:111314565 original size:26 final size:26
Alignment explanation
Indices: 111314534--111314641 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
111314524 TGAAATGCCC
*
111314534 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
111314560 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
111314586 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
111314612 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
111314638 ATCA
1 ATCA
111314642 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:111316423 original size:11 final size:11
Alignment explanation
Indices: 111316409--111316453 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
111316399 AGATAAATAT
111316409 TATTTTATTAA
1 TATTTTATTAA
*
111316420 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
111316433 TATTTTATTAT
1 TATTTTATTAA
111316444 TATTTTATTA
1 TATTTTATTA
111316454 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:111317728 original size:385 final size:385
Alignment explanation
Indices: 111317018--111317791 Score: 1503
Period size: 385 Copynumber: 2.0 Consensus size: 385
111317008 ATATGGAATT
111317018 AAATCTTATTGAGTCTAGTTTCTCATAGAATAAATAGTGTAGAAATGGATTTGTAAATTTTGAGA
1 AAATCTTATTGAGTCTAGTTTCTCATAGAATAAATAGTGTAGAAATGGATTTGTAAATTTTGAGA
*
111317083 TATAATTAATTTTGTGAGACAAGGTCAGAATGAATTCGGATTCCCCTGTTTTGATTTTGAAAAAT
66 TATAATTAATTTTGTGAGACAAGGTCAGAATGAATTCGGATTCCCCTGTTCTGATTTTGAAAAAT
111317148 CATAAAAAATTGAATAAAAATAATTATGGGCTTAAATTTATATATCTGAAATTATGAATGAGTCT
131 CATAAAAAATTGAATAAAAATAATTATGGGCTTAAATTTATATATCTGAAATTATGAATGAGTCT
*
111317213 ATTTTTAATAGAAACAAACAAGAGCATCATTGAATCCTGTATAAGGAGATAATTAATTTTTCATG
196 ATTTTTAAGAGAAACAAACAAGAGCATCATTGAATCCTGTATAAGGAGATAATTAATTTTTCATG
111317278 AAGAAGGGTCAAAACTGTCAGACAGCAGAATAGGGGTAACTTTAAAGAATAAACTGTACTTATTA
261 AAGAAGGGTCAAAACTGTCAGACAGCAGAATAGGGGTAACTTTAAAGAATAAACTGTACTTATTA
111317343 GCTAGACAAAAAATTATGAAATTTTTATGGTAAGAATATATATGAGTCTAGATTCAGGGA
326 GCTAGACAAAAAATTATGAAATTTTTATGGTAAGAATATATATGAGTCTAGATTCAGGGA
111317403 AAATCTTATTGAGTCTAGTTTCTCATAGAATAAATAGTGTAGAAATGGATTTGTAAATTTTGAGA
1 AAATCTTATTGAGTCTAGTTTCTCATAGAATAAATAGTGTAGAAATGGATTTGTAAATTTTGAGA
111317468 TATAATTAATTTTGTGAGACAAGGTCAGAATGAATTCGGATTCCCCTGTTCTGATTTTGAAAAAT
66 TATAATTAATTTTGTGAGACAAGGTCAGAATGAATTCGGATTCCCCTGTTCTGATTTTGAAAAAT
*
111317533 CATAAAAAATTGAATAAAAATAATTATGGGCTTAAATTTATATGTCTGAAATTATGAATGAGTCT
131 CATAAAAAATTGAATAAAAATAATTATGGGCTTAAATTTATATATCTGAAATTATGAATGAGTCT
*
111317598 ATTTTTAAGAGAAACAAACAAGAGCATCATTGAATCCTGTATAAGGAGATAATTAATTTTTCGTG
196 ATTTTTAAGAGAAACAAACAAGAGCATCATTGAATCCTGTATAAGGAGATAATTAATTTTTCATG
*
111317663 AAGAAGGGTCAGAACTGTCAGACAGCAGAATAGGGGTAACTTTAAAGAATAAACTGTACTTATTA
261 AAGAAGGGTCAAAACTGTCAGACAGCAGAATAGGGGTAACTTTAAAGAATAAACTGTACTTATTA
111317728 GCTAGACAAAAAATTATGAAATTTTTATGGTAAGAATATATATGAGTCTAGATTCAGGGA
326 GCTAGACAAAAAATTATGAAATTTTTATGGTAAGAATATATATGAGTCTAGATTCAGGGA
111317788 AAAT
1 AAAT
111317792 TATTAGATAT
Statistics
Matches: 384, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
385 384 1.00
ACGTcount: A:0.40, C:0.09, G:0.18, T:0.33
Consensus pattern (385 bp):
AAATCTTATTGAGTCTAGTTTCTCATAGAATAAATAGTGTAGAAATGGATTTGTAAATTTTGAGA
TATAATTAATTTTGTGAGACAAGGTCAGAATGAATTCGGATTCCCCTGTTCTGATTTTGAAAAAT
CATAAAAAATTGAATAAAAATAATTATGGGCTTAAATTTATATATCTGAAATTATGAATGAGTCT
ATTTTTAAGAGAAACAAACAAGAGCATCATTGAATCCTGTATAAGGAGATAATTAATTTTTCATG
AAGAAGGGTCAAAACTGTCAGACAGCAGAATAGGGGTAACTTTAAAGAATAAACTGTACTTATTA
GCTAGACAAAAAATTATGAAATTTTTATGGTAAGAATATATATGAGTCTAGATTCAGGGA
Found at i:111319075 original size:46 final size:46
Alignment explanation
Indices: 111319008--111319224 Score: 310
Period size: 46 Copynumber: 4.7 Consensus size: 46
111318998 TGGCAACCTG
*
111319008 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
* *
111319054 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
*
111319100 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
* ** *
111319146 AGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG-AAA
* * * *
111319192 TGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
111319225 TCACGTCAAA
Statistics
Matches: 157, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 1 0.01
46 156 0.99
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
Found at i:111319203 original size:138 final size:130
Alignment explanation
Indices: 111318959--111319224 Score: 363
Period size: 138 Copynumber: 2.0 Consensus size: 130
111318949 AGTGTGCTCT
*
111318959 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGAGTAAGACCATGGT
* * * * *
111319024 TGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAACATGACATGAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
* *
111319089 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG---TG---AG--TAAG
111319154 ACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACAC
58 ACCATGGTTGAAAGATACCATGGCAACATGACATG-AAATGAGTAAGACCATAGTTGAAAGACAC
*
111319218 TATGGCA
122 CATGGCA
111319225 TCACGTCAAA
Statistics
Matches: 118, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
130 47 0.40
133 2 0.02
136 1 0.01
137 1 0.01
138 67 0.57
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.22
Consensus pattern (130 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGAGTAAGACCATGGT
TGAAAGATACCATGGCAACATGACATGAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
Found at i:111320883 original size:30 final size:30
Alignment explanation
Indices: 111320840--111320896 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
111320830 AAAGGCAAGA
* *
111320840 CACATGGGCGTGTGGC-CAACTCGTGTGTCT
1 CACACGGGCGTGT-GCTCAACCCGTGTGTCT
*
111320870 CACACGGGTGTGTGCTCAACCCGTGTG
1 CACACGGGCGTGTGCTCAACCCGTGTG
111320897 ACAATGCACA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 2 0.09
30 21 0.91
ACGTcount: A:0.14, C:0.28, G:0.33, T:0.25
Consensus pattern (30 bp):
CACACGGGCGTGTGCTCAACCCGTGTGTCT
Found at i:111321543 original size:17 final size:18
Alignment explanation
Indices: 111321523--111321556 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
111321513 CTTAAAACCA
111321523 AAAACAAAA-AAAAAAAC
1 AAAACAAAACAAAAAAAC
111321540 AAAACAAAACAAAAAAA
1 AAAACAAAACAAAAAAA
111321557 AATGAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (18 bp):
AAAACAAAACAAAAAAAC
Found at i:111322841 original size:19 final size:17
Alignment explanation
Indices: 111322814--111322861 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 17
111322804 TAAATTCAAT
*
111322814 TTTAATCATTTTTTGATA
1 TTTATTCATTTTTT-ATA
111322832 TTTGATTCA-TTTTTATA
1 TTT-ATTCATTTTTTATA
111322849 TTTATT-ATTTTTT
1 TTTATTCATTTTTT
111322862 TAATAAATGT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 1 0.04
16 8 0.30
17 6 0.22
18 8 0.30
19 4 0.15
ACGTcount: A:0.23, C:0.04, G:0.04, T:0.69
Consensus pattern (17 bp):
TTTATTCATTTTTTATA
Found at i:111322849 original size:17 final size:16
Alignment explanation
Indices: 111322823--111322860 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 16
111322813 TTTTAATCAT
111322823 TTTTTGATATTTGATTCA
1 TTTTTGATATTT-ATT-A
111322841 TTTTT-ATATTTATTA
1 TTTTTGATATTTATTA
111322856 TTTTT
1 TTTTT
111322861 TTAATAAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 6 0.30
16 3 0.15
17 6 0.30
18 5 0.25
ACGTcount: A:0.21, C:0.03, G:0.05, T:0.71
Consensus pattern (16 bp):
TTTTTGATATTTATTA
Found at i:111322935 original size:20 final size:18
Alignment explanation
Indices: 111322918--111323061 Score: 59
Period size: 18 Copynumber: 7.7 Consensus size: 18
111322908 TATTTTATAA
111322918 ATTTTTATTATATGTTAT
1 ATTTTTATTATATGTTAT
* *
111322936 GTTTTTATTATA---TAC
1 ATTTTTATTATATGTTAT
111322951 ATTATTTATTCTATTATGTTCA-
1 ATT-TTTA-T-TA-TATGTT-AT
*
111322973 AATTTTATTATATGTTAT
1 ATTTTTATTATATGTTAT
* *
111322991 ACATTTTTTACTATATATTAT
1 --A-TTTTTATTATATGTTAT
* *
111323012 TTATTTTATTATATTTTACT
1 AT-TTTTATTATATGTTA-T
*
111323032 -TATTTTATTAT-TTTTATT
1 AT-TTTTATTATATGTTA-T
111323050 ATTTTTA-TATAT
1 ATTTTTATTATAT
111323062 TATTTATCAT
Statistics
Matches: 99, Mismatches: 11, Indels: 32
0.70 0.08 0.23
Matches are distributed among these distances:
15 4 0.04
16 4 0.04
17 5 0.05
18 32 0.32
19 29 0.29
20 3 0.03
21 18 0.18
22 3 0.03
23 1 0.01
ACGTcount: A:0.28, C:0.04, G:0.03, T:0.65
Consensus pattern (18 bp):
ATTTTTATTATATGTTAT
Found at i:111323024 original size:17 final size:17
Alignment explanation
Indices: 111323004--111323068 Score: 62
Period size: 17 Copynumber: 3.7 Consensus size: 17
111322994 TTTTTTACTA
111323004 TATATTATTTATTTTAT
1 TATATTATTTATTTTAT
*
111323021 TATATTTTACTTATTTTAT
1 TATA--TTATTTATTTTAT
*
111323040 TAT-TTTTATTATTTT-T
1 TATATTAT-TTATTTTAT
111323056 ATATATTATTTAT
1 -TATATTATTTAT
111323069 CATATAGTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
16 3 0.08
17 18 0.46
18 3 0.08
19 15 0.38
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.71
Consensus pattern (17 bp):
TATATTATTTATTTTAT
Found at i:111323024 original size:19 final size:19
Alignment explanation
Indices: 111322920--111323068 Score: 91
Period size: 19 Copynumber: 8.1 Consensus size: 19
111322910 TTTTATAAAT
* *
111322920 TTTTATTATATGTTATGT-
1 TTTTATTATATATTATTTA
111322938 TTTTATTATATACATTATTTA
1 TTTTATTATAT--ATTATTTA
* * * *
111322959 TTCTATTATGT-TCA--AA
1 TTTTATTATATATTATTTA
*
111322975 TTTTATTATATGTTATACATT-
1 TTTTATTATATATTAT---TTA
*
111322996 TTTTACTATATATTATTTA
1 TTTTATTATATATTATTTA
* *
111323015 TTTTATTATATTTTACTTA
1 TTTTATTATATATTATTTA
*
111323034 TTTTATTAT-TTTTA-TTA
1 TTTTATTATATATTATTTA
111323051 -TTT-TTATATATTATTTA
1 TTTTATTATATATTATTTA
111323068 T
1 T
111323069 CATATAGTTT
Statistics
Matches: 102, Mismatches: 16, Indels: 26
0.71 0.11 0.18
Matches are distributed among these distances:
15 4 0.04
16 17 0.17
17 8 0.08
18 20 0.20
19 25 0.25
20 5 0.05
21 23 0.23
ACGTcount: A:0.28, C:0.04, G:0.03, T:0.65
Consensus pattern (19 bp):
TTTTATTATATATTATTTA
Found at i:111323048 original size:28 final size:28
Alignment explanation
Indices: 111322995--111323068 Score: 86
Period size: 28 Copynumber: 2.8 Consensus size: 28
111322985 TGTTATACAT
111322995 TTTTTACTATATATTATTTATTTTATTA
1 TTTTTACTATATATTATTTATTTTATTA
*
111323023 TATTTTACT-TATTTTA-TTATTTTTATTA
1 T-TTTTACTATATATTATTTA-TTTTATTA
111323051 -TTTT--TATATATTATTTAT
1 TTTTTACTATATATTATTTAT
111323069 CATATAGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
24 1 0.03
25 7 0.17
26 7 0.17
27 3 0.08
28 15 0.38
29 7 0.17
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (28 bp):
TTTTTACTATATATTATTTATTTTATTA
Found at i:111323055 original size:9 final size:9
Alignment explanation
Indices: 111323015--111323068 Score: 65
Period size: 9 Copynumber: 5.7 Consensus size: 9
111323005 ATATTATTTA
111323015 TTTTATTAT
1 TTTTATTAT
111323024 ATTTTACTTA-
1 -TTTTA-TTAT
111323034 TTTTATTAT
1 TTTTATTAT
111323043 TTTTATTAT
1 TTTTATTAT
111323052 TTTTATATAT
1 TTTTAT-TAT
111323062 TATTTAT
1 T-TTTAT
111323069 CATATAGTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
8 3 0.08
9 20 0.50
10 9 0.22
11 8 0.20
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (9 bp):
TTTTATTAT
Found at i:111335157 original size:44 final size:44
Alignment explanation
Indices: 111335094--111335412 Score: 476
Period size: 44 Copynumber: 7.2 Consensus size: 44
111335084 AGGCTAAAGC
111335094 ATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAG
1 ATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAG
* * *
111335138 ATAGCAGATTTGGCATCTCTGTATTGTTAGAGAGCAGACCAAAG
1 ATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAG
111335182 ATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAG
1 ATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAG
* *
111335226 ATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGTAGATCGAGG
1 ATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAG
* * *
111335270 ATAGCAAATTTGGCATCTCTGTATTGTCAGGGGGCAGATCGAAG
1 ATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAG
* *
111335314 ATAGCAGTTTTGGCATCTCTGTTTTGTCAGAGAGCAGATCGAAG
1 ATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAG
* * * * * *
111335358 ATAGCGGATTTGGCGTCTCTGTATCGACGGGGAGCAGATCGAAG
1 ATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAG
111335402 ACATAGCAGAT
1 --ATAGCAGAT
111335413 CTAACCTTCG
Statistics
Matches: 246, Mismatches: 27, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
44 238 0.97
46 8 0.03
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.27
Consensus pattern (44 bp):
ATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAG
Found at i:111335518 original size:90 final size:87
Alignment explanation
Indices: 111335388--111335551 Score: 213
Period size: 90 Copynumber: 1.9 Consensus size: 87
111335378 GTATCGACGG
** **
111335388 GGAGCAGATCGAAGACATAGCAGATCTAACCTTCGGATGTTTTTGGCATAGAAGC-AGATCTAAG
1 GGAGCAGATCGAAGACATAGCAGATCTAACCTTCACATG-TTTACGC-TA-AAGCGA-ATCTAAG
111335452 ATGATTTGACATCCTTGGGTTTACAA
62 ATGATTTGACATCCTTGGGTTTACAA
* ** *
111335478 GGAGCAGATCGAAGACATAGCAGATTTGGCTTTCACATGTTTACGCTAAAGCGAATCTAAGATGA
1 GGAGCAGATCGAAGACATAGCAGATCTAACCTTCACATGTTTACGCTAAAGCGAATCTAAGATGA
111335543 TTTGACATC
66 TTTGACATC
111335552 TCTGTATTGC
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
87 24 0.37
88 3 0.05
89 5 0.08
90 33 0.51
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (87 bp):
GGAGCAGATCGAAGACATAGCAGATCTAACCTTCACATGTTTACGCTAAAGCGAATCTAAGATGA
TTTGACATCCTTGGGTTTACAA
Found at i:111337127 original size:15 final size:17
Alignment explanation
Indices: 111337096--111337127 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
111337086 TCCTTTTTGG
111337096 ATATTTGATTCATTTTT
1 ATATTTGATTCATTTTT
111337113 ATATTT-ATT-ATTTTT
1 ATATTTGATTCATTTTT
111337128 TTTATAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 3 0.20
17 6 0.40
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.69
Consensus pattern (17 bp):
ATATTTGATTCATTTTT
Found at i:111337291 original size:17 final size:17
Alignment explanation
Indices: 111337271--111337335 Score: 62
Period size: 17 Copynumber: 3.7 Consensus size: 17
111337261 TTTTTTACTA
111337271 TATATTATTTATTTTAT
1 TATATTATTTATTTTAT
*
111337288 TATATTTTACTTATTTTAT
1 TATA--TTATTTATTTTAT
*
111337307 TATCTT-TATTATTTT-T
1 TATATTAT-TTATTTTAT
111337323 ATATATTATTTAT
1 -TATATTATTTAT
111337336 CATATAGTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
16 1 0.03
17 22 0.56
18 1 0.03
19 15 0.38
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (17 bp):
TATATTATTTATTTTAT
Found at i:111337291 original size:19 final size:19
Alignment explanation
Indices: 111337187--111337335 Score: 91
Period size: 19 Copynumber: 8.1 Consensus size: 19
111337177 TTTTATAAAT
* *
111337187 TTTTATTATATGTTATGT-
1 TTTTATTATATATTATTTA
111337205 TTTTATTATATACATTATTTA
1 TTTTATTATAT--ATTATTTA
* * * *
111337226 TTCTGTTATGT-TCA--TA
1 TTTTATTATATATTATTTA
*
111337242 TTTTATTATATGTTATACATT-
1 TTTTATTATATATTAT---TTA
*
111337263 TTTTACTATATATTATTTA
1 TTTTATTATATATTATTTA
* *
111337282 TTTTATTATATTTTACTTA
1 TTTTATTATATATTATTTA
*
111337301 TTTTATTATCT-TTA-TTA
1 TTTTATTATATATTATTTA
111337318 -TTT-TTATATATTATTTA
1 TTTTATTATATATTATTTA
111337335 T
1 T
111337336 CATATAGTTT
Statistics
Matches: 101, Mismatches: 17, Indels: 26
0.70 0.12 0.18
Matches are distributed among these distances:
15 5 0.05
16 16 0.16
17 8 0.08
18 18 0.18
19 26 0.26
20 5 0.05
21 22 0.22
22 1 0.01
ACGTcount: A:0.27, C:0.05, G:0.03, T:0.65
Consensus pattern (19 bp):
TTTTATTATATATTATTTA
Found at i:111337304 original size:40 final size:40
Alignment explanation
Indices: 111337240--111337320 Score: 98
Period size: 40 Copynumber: 2.0 Consensus size: 40
111337230 GTTATGTTCA
111337240 TATTTTATTATATGTTATACATTTT-TTA-CTATATATTATT
1 TATTTTATTATATGTTATACATTTTATTATCT-T-TATTATT
111337280 TATTTTATTATAT-TT-TACTTATTTTATTATCTTTATTATT
1 TATTTTATTATATGTTATAC--ATTTTATTATCTTTATTATT
111337320 T
1 T
111337321 TTATATATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
38 3 0.08
39 2 0.05
40 26 0.70
41 4 0.11
42 2 0.05
ACGTcount: A:0.27, C:0.05, G:0.01, T:0.67
Consensus pattern (40 bp):
TATTTTATTATATGTTATACATTTTATTATCTTTATTATT
Found at i:111337323 original size:9 final size:9
Alignment explanation
Indices: 111337282--111337335 Score: 56
Period size: 9 Copynumber: 5.7 Consensus size: 9
111337272 ATATTATTTA
111337282 TTTTATTAT
1 TTTTATTAT
111337291 ATTTTACTTA-
1 -TTTTA-TTAT
111337301 TTTTATTAT
1 TTTTATTAT
*
111337310 CTTTATTAT
1 TTTTATTAT
111337319 TTTTATATAT
1 TTTTAT-TAT
111337329 TATTTAT
1 T-TTTAT
111337336 CATATAGTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
8 3 0.08
9 18 0.47
10 9 0.24
11 8 0.21
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (9 bp):
TTTTATTAT
Found at i:111338815 original size:17 final size:17
Alignment explanation
Indices: 111338793--111338826 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
111338783 AAATATAAAC
*
111338793 ATGTATGTAAATTTTTT
1 ATGTATATAAATTTTTT
*
111338810 ATGTATATATATTTTTT
1 ATGTATATAAATTTTTT
111338827 GAGATCAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.62
Consensus pattern (17 bp):
ATGTATATAAATTTTTT
Found at i:111340746 original size:3 final size:3
Alignment explanation
Indices: 111340738--111341002 Score: 159
Period size: 3 Copynumber: 87.0 Consensus size: 3
111340728 GATTGCTATG
*
111340738 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AGTA GAGCA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA -A-TA
* * * * * * *
111340786 ACGA ATA ATA ATA ATA CGTTA ATA AAA ATA ATA AGA AT- ATG TTA GTA
1 A-TA ATA ATA ATA ATA --ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
111340833 ATA A-A TTA ATGGA CTA ATA ATA A-A ATGA ATAA ATAA ATA A-A CACA
1 ATA ATA ATA AT--A ATA ATA ATA ATA AT-A AT-A AT-A ATA ATA -ATA
* * * ** * * * *
111340878 AAA ATA A-A GT- ATA ATT ATA ATA GCA ATA TTA ACA A-A A-A AGA ATC
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
111340922 ATA ATA ATA ATA ACA ATA ATG ATA ACA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
111340970 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
111341003 GTGATAACAA
Statistics
Matches: 206, Mismatches: 41, Indels: 30
0.74 0.15 0.11
Matches are distributed among these distances:
2 12 0.06
3 171 0.83
4 16 0.08
5 7 0.03
ACGTcount: A:0.62, C:0.04, G:0.06, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:111341792 original size:20 final size:21
Alignment explanation
Indices: 111341759--111341803 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
111341749 TTTAGTTTTG
111341759 AAAAGAAAGAAAAA-ATAATAA
1 AAAAGAAAGAAAAAGA-AATAA
*
111341780 AAAAGGAAG-AAAAGAAATAA
1 AAAAGAAAGAAAAAGAAATAA
111341800 AAAA
1 AAAA
111341804 ACAATAAACC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.80, C:0.00, G:0.13, T:0.07
Consensus pattern (21 bp):
AAAAGAAAGAAAAAGAAATAA
Found at i:111341804 original size:21 final size:21
Alignment explanation
Indices: 111341759--111341803 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
111341749 TTTAGTTTTG
111341759 AAAAGAAAGAAAAAATAATAA
1 AAAAGAAAGAAAAAATAATAA
* *
111341780 AAAAGGAAGAAAAGA-AATAA
1 AAAAGAAAGAAAAAATAATAA
111341800 AAAA
1 AAAA
111341804 ACAATAAACC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.80, C:0.00, G:0.13, T:0.07
Consensus pattern (21 bp):
AAAAGAAAGAAAAAATAATAA
Found at i:111342560 original size:45 final size:45
Alignment explanation
Indices: 111342500--111342626 Score: 191
Period size: 45 Copynumber: 2.8 Consensus size: 45
111342490 TGTAATTTAG
* * * * * *
111342500 CTTCAATCTGTTCCACTGCAACTTCAGTGAAATAAGATTTGCTAT
1 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCAT
111342545 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCAT
1 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCAT
*
111342590 CTTCAGTCTGCTCCACTGTAACTTCAGGGAGATAAGA
1 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA
111342627 CTTGTAGTTT
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 75 1.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (45 bp):
CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCAT
Found at i:111342625 original size:90 final size:89
Alignment explanation
Indices: 111342500--111342666 Score: 210
Period size: 90 Copynumber: 1.9 Consensus size: 89
111342490 TGTAATTTAG
* * * * *
111342500 CTTCAATCTGTTCCACTGCAACTTCAGTGAAATAAGATTTGCTA-TCTTCAGTCTGCTCCACTGC
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGACTTG-TAGT-TTCAATCTGCTCCACTGA
*
111342564 AACTTCAGGGAGATAAGATTCGCCAT
64 AACTTCAAGGAGATAAGATTCGCCAT
* * * * *
111342590 CTTCAGTCTGCTCCACTGTAACTTCAGGGAGATAAGACTTGTAGTTTCAATCTTCTCCGCTGAAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGACTTGTAGTTTCAATCTGCTCCACTGAAA
111342655 CTTCAAGGAGAT
66 CTTCAAGGAGAT
111342667 TTGTTATGGT
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
89 29 0.45
90 36 0.55
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (89 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGACTTGTAGTTTCAATCTGCTCCACTGAAA
CTTCAAGGAGATAAGATTCGCCAT
Found at i:111342789 original size:44 final size:44
Alignment explanation
Indices: 111342726--111343277 Score: 272
Period size: 44 Copynumber: 12.7 Consensus size: 44
111342716 GATTTTCAGC
*
111342726 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATCATCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGACCCATCATCTTCGAT
* * ** * ** ** *
111342770 CTGTTGCCCTACTACTTAGGGATTTAAGATCTGT-AAATTC-AG
1 CTGTTACCCTACTGCTTAGGGGGTTAAGACCCATCATCTTCGAT
*
111342812 CTTGTTACCCTACTGCTTAGGGGGTTAA-ATCCCATCATCTTTGAT
1 C-TGTTACCCTACTGCTTAGGGGGTTAAGA-CCCATCATCTTCGAT
** * * * ** ** *
111342857 CTACT-CCACTACTGCTTAGGGAGATAAGATCTGT-AAATTCGGT
1 CTGTTACC-CTACTGCTTAGGGGGTTAAGACCCATCATCTTCGAT
* * * * *
111342900 CTGTTACCCTACTACTTAGGGGTTTAAGACCCTTCGTCTTTGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGACCCATCATCTTCGAT
* * ** * *
111342944 CTGTTTCCCTACTACTTAGGGGGTTAAGATCTGGA-AATCTTC-AGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGA-C-CCATCATCTTCGA-T
* * * **
111342989 CTGTTACCCTACTGCTTAGGGGTTTAAGGCCCTTTGTCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGACCCATCATCTTCGAT
* * * * * *
111343033 CTGCT-CCACTACTGCTTAGGGAGATAATA-TC-TGCA-ATTCGAT
1 CTGTTACC-CTACTGCTTAGGGGGTTAAGACCCAT-CATCTTCGAT
* * * * *
111343075 CTGTTACCTTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCAAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGACCCATCATCTTCGAT
* * ** ** *
111343119 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGT-AAATTC-AGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGACCCATCATCTTCGA-T
* ** * ** *
111343162 CTGTTACCCTACTGCTTAGGGGTTTAAGGTCTAT-AAATTC-AG
1 CTGTTACCCTACTGCTTAGGGGGTTAAGACCCATCATCTTCGAT
* *
111343204 CTTGTTACCCTACTGCTTAGGGGGTTAA-AGCTCATCACCTTCGAT
1 C-TGTTACCCTACTGCTTAGGGGGTTAAGA-CCCATCATCTTCGAT
* * **
111343249 CTATTTCCCTACTATTTAGGGGGTTAAGA
1 CTGTTACCCTACTGCTTAGGGGGTTAAGA
111343278 TCTGTAAATT
Statistics
Matches: 370, Mismatches: 113, Indels: 49
0.70 0.21 0.09
Matches are distributed among these distances:
42 32 0.09
43 131 0.35
44 170 0.46
45 37 0.10
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.35
Consensus pattern (44 bp):
CTGTTACCCTACTGCTTAGGGGGTTAAGACCCATCATCTTCGAT
Found at i:111342869 original size:87 final size:85
Alignment explanation
Indices: 111342720--111343188 Score: 528
Period size: 87 Copynumber: 5.4 Consensus size: 85
111342710 ATATTTGATT
* * * * *
111342720 TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATCATCTTCGATCTGTTGCCCTACTAC
1 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAA-ACCCTTCGTCTTCGATCTGTT-CCCTACTGC
*
111342785 TTAGGGATTTAAGATCTGTAAA
64 TTAGGGAGTTAAGATCTGTAAA
* * * * * **
111342807 TTCAGCTTGTTACCCTACTGCTTAGGGGGTTAAATCCCATCATCTTTGATCTACTCCACTACTGC
1 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAA-CCCTTCGTCTTCGATCTGTTCC-CTACTGC
*
111342872 TTAGGGAGATAAGATCTGTAAA
64 TTAGGGAGTTAAGATCTGTAAA
* * * * *
111342894 TTCGGTCTGTTACCCTACTACTTAGGGGTTTAAGACCCTTCGTCTTTGATCTGTTTCCCTACTAC
1 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAA-ACCCTTCGTCTTCGATCTG-TTCCCTACTGC
* *
111342959 TTAGGGGGTTAAGATCTGGAAA
64 TTAGGGAGTTAAGATCTGTAAA
* * *
111342981 TCTTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCTTTGTCTTCGATCTGCTCCACTACT
1 --TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAA-ACCCTTCGTCTTCGATCTGTTCC-CTACT
* * *
111343046 GCTTAGGGAGATAATATCTG-CAA
62 GCTTAGGGAGTTAAGATCTGTAAA
* * *
111343069 TTC-GATCTGTTACCTTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCAATCTGTTTCCCTACTG
1 TTCAG-CCTGTTACCCTACTGCTTAGGGGTTTAA-ACCCTTCGTCTTCGATCTG-TTCCCTACTG
*
111343133 CTTAGGGGGTTAAGATCTGTAAA
63 CTTAGGGAGTTAAGATCTGTAAA
111343156 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAA
1 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAA
111343189 GGTCTATAAA
Statistics
Matches: 326, Mismatches: 45, Indels: 22
0.83 0.11 0.06
Matches are distributed among these distances:
85 1 0.00
86 70 0.21
87 177 0.54
88 10 0.03
89 68 0.21
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.35
Consensus pattern (85 bp):
TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAACCCTTCGTCTTCGATCTGTTCCCTACTGCTT
AGGGAGTTAAGATCTGTAAA
Found at i:111343436 original size:66 final size:66
Alignment explanation
Indices: 111343339--111343470 Score: 228
Period size: 66 Copynumber: 2.0 Consensus size: 66
111343329 TTTATGCTTA
*
111343339 TGTCAAATGATTAGGATGCTATAATCAAAATGAATCAAATGCTCCTAACTAGATGTGTTATGAAT
1 TGTCAAATAATTAGGATGCTATAATCAAAATGAATCAAATGCTCCTAACTAGATGTGTTATGAAT
111343404 G
66 G
* * *
111343405 TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAATTAGATGTGTTATGAAT
1 TGTCAAATAATTAGGATGCTATAATCAAAATGAATCAAATGCTCCTAACTAGATGTGTTATGAAT
111343470 G
66 G
111343471 ATATATGAAC
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 62 1.00
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (66 bp):
TGTCAAATAATTAGGATGCTATAATCAAAATGAATCAAATGCTCCTAACTAGATGTGTTATGAAT
G
Found at i:111345174 original size:3 final size:3
Alignment explanation
Indices: 111345166--111345238 Score: 146
Period size: 3 Copynumber: 24.3 Consensus size: 3
111345156 TTTTCCATGA
111345166 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
111345214 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
111345239 TTAGGATTTG
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 70 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:111350223 original size:35 final size:35
Alignment explanation
Indices: 111350179--111350345 Score: 201
Period size: 35 Copynumber: 4.6 Consensus size: 35
111350169 TCCTCATTGA
** *
111350179 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
111350214 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
111350254 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
111350289 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
111350324 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
111350346 CTTTGCCATG
Statistics
Matches: 117, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
35 87 0.74
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:111350264 original size:75 final size:73
Alignment explanation
Indices: 111350174--111350345 Score: 226
Period size: 75 Copynumber: 2.4 Consensus size: 73
111350164 GGTTTTCCTC
** * * **
111350174 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
111350238 TCAGTATGG
65 TCAGTATGG
*
111350247 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
111350312 CTCAGTATGG
64 CTCAGTATGG
111350322 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
111350346 CTTTGCCATG
Statistics
Matches: 89, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 58 0.65
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:111357693 original size:35 final size:35
Alignment explanation
Indices: 111357649--111357815 Score: 201
Period size: 35 Copynumber: 4.6 Consensus size: 35
111357639 TCCTCATTGA
** *
111357649 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
111357684 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
111357724 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
111357759 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
111357794 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
111357816 CTTTGCCATG
Statistics
Matches: 117, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
35 87 0.74
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Done.