Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005231.1 Hibiscus syriacus cultivar Beakdansim tig00011841_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 121699
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Found at i:1073 original size:3 final size:3
Alignment explanation
Indices: 1067--1108 Score: 52
Period size: 3 Copynumber: 14.0 Consensus size: 3
1057 TAATATTTTT
1067 TAA TAA TAA TAA TAAA TAA T-A TAA TAAA TAA TAA TAA -AA TAA
1 TAA TAA TAA TAA T-AA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
1109 AATGAAATGA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
2 4 0.11
3 25 0.71
4 6 0.17
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:1422 original size:38 final size:39
Alignment explanation
Indices: 1345--1438 Score: 129
Period size: 38 Copynumber: 2.4 Consensus size: 39
1335 GTTGAACAAA
* *
1345 TTCTTCTTATTATGAACTTCTTCTCCTTCTTCAAGTGAG
1 TTCTTCTTATTATGAACTCCTTCTCATTCTTCAAGTGAG
*
1384 TTCTTCTTACTATGAACTCCTT-TCATTCTTC-AGATGAG
1 TTCTTCTTATTATGAACTCCTTCTCATTCTTCAAG-TGAG
*
1422 TTCTTCTAATTATGAAC
1 TTCTTCTTATTATGAAC
1439 ACTTCTGGAA
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
37 2 0.04
38 27 0.55
39 20 0.41
ACGTcount: A:0.21, C:0.22, G:0.10, T:0.47
Consensus pattern (39 bp):
TTCTTCTTATTATGAACTCCTTCTCATTCTTCAAGTGAG
Found at i:1603 original size:123 final size:120
Alignment explanation
Indices: 1410--1811 Score: 522
Period size: 123 Copynumber: 3.4 Consensus size: 120
1400 CTCCTTTCAT
* * * *
1410 TCTTCAGATGAGTTCTTCTAATTATGAACACTTCTGGAAATGTTGATGATGATCTATCTCATTCT
1 TCTTCAGATGAGTTCTTCTCATTATGAACTCTTCTGGAAATGTT-AAGTTGATCTATCTC-TTCT
* * *
1475 ATGATAGAATCGAGAAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTTC
64 GTGATAGAATCGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCC
1532 TCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTGGAAATGTTAAAGTTGATCTATCTCTTTC
1 TCTTCAGATGAGTTCTTCTCATTATGAAC-TCTTCTGGAAATGTT-AAGTTGATCTATCTC-TTC
1597 TGTGATAGAATCGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCC
63 TGTGATAGAATCGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCC
* **
1655 TCTTCAGATGA-TTCTTCTCATTATGAACTTCTTCTGGAAA---T--GTTGATCCA--TC--GAG
1 TCTTCAGATGAGTTCTTCTCATTATGAAC-TCTTCTGGAAATGTTAAGTTGATCTATCTCTTCTG
* * *
1710 TGAT-GAATTCGAGCAAAAGGTTGAGCAAGTTCTTCTCATTATG-ACTTCTTCTTCC
65 TGATAGAA-TCGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCC
*
1765 TTCTTCAGATGAGTTCTTCTCATTATGAACTCTTCCGGAAATGTTAA
1 -TCTTCAGATGAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTAA
1812 TCCATTGAAT
Statistics
Matches: 255, Mismatches: 16, Indels: 24
0.86 0.05 0.08
Matches are distributed among these distances:
110 14 0.05
111 59 0.23
112 17 0.07
114 3 0.01
116 8 0.03
119 1 0.00
122 57 0.22
123 96 0.38
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.40
Consensus pattern (120 bp):
TCTTCAGATGAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTAAGTTGATCTATCTCTTCTGT
GATAGAATCGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCC
Found at i:1726 original size:111 final size:111
Alignment explanation
Indices: 1598--1830 Score: 346
Period size: 111 Copynumber: 2.1 Consensus size: 111
1588 ATCTCTTTCT
*
1598 GTGATAGAA-TCGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCC-TCTTCA
1 GTGAT-GAATTCGAGCAAAAGGTTGAACAAATTCTTCTCATTATG-ACTTCTTCTTCCTTCTTCA
* *
1661 GATGA-TTCTTCTCATTATGAACTTCTTCTGGAAATGTTGATCCATCGA
64 GATGAGTTCTTCTCATTATGAAC-TCTTCCGGAAATGTTAATCCATCGA
* *
1709 GTGATGAATTCGAGCAAAAGGTTGAGCAAGTTCTTCTCATTATGACTTCTTCTTCCTTCTTCAGA
1 GTGATGAATTCGAGCAAAAGGTTGAACAAATTCTTCTCATTATGACTTCTTCTTCCTTCTTCAGA
*
1774 TGAGTTCTTCTCATTATGAACTCTTCCGGAAATGTTAATCCATTGA
66 TGAGTTCTTCTCATTATGAACTCTTCCGGAAATGTTAATCCATCGA
* *
1820 ATGATGGATTC
1 GTGATGAATTC
1831 AAATCTTTGA
Statistics
Matches: 111, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
110 14 0.13
111 80 0.72
112 17 0.15
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.38
Consensus pattern (111 bp):
GTGATGAATTCGAGCAAAAGGTTGAACAAATTCTTCTCATTATGACTTCTTCTTCCTTCTTCAGA
TGAGTTCTTCTCATTATGAACTCTTCCGGAAATGTTAATCCATCGA
Found at i:2115 original size:22 final size:22
Alignment explanation
Indices: 2090--2153 Score: 85
Period size: 22 Copynumber: 2.9 Consensus size: 22
2080 AAATCCATTA
* *
2090 AATCTTTCTTCTTTGAA-AAGAG
1 AATCTATCATCTTTGAAGAA-AG
*
2112 AATCTATCATCTTCGAAGAAAG
1 AATCTATCATCTTTGAAGAAAG
2134 AATCTATCATCTTTGAAGAA
1 AATCTATCATCTTTGAAGAA
2154 TGTAGATGTA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
22 35 0.95
23 2 0.05
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (22 bp):
AATCTATCATCTTTGAAGAAAG
Found at i:2798 original size:17 final size:18
Alignment explanation
Indices: 2765--2801 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
2755 ATAAAAGAAT
2765 AAATTGAATTTCAAAAAG
1 AAATTGAATTTCAAAAAG
2783 AAATTG-ATTTGCAAAAAG
1 AAATTGAATTT-CAAAAAG
2801 A
1 A
2802 TAAACTTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.54, C:0.05, G:0.14, T:0.27
Consensus pattern (18 bp):
AAATTGAATTTCAAAAAG
Found at i:3168 original size:15 final size:16
Alignment explanation
Indices: 3151--3223 Score: 100
Period size: 15 Copynumber: 4.8 Consensus size: 16
3141 TCTTTGTTTT
*
3151 TATTTTTT-TTAATTT
1 TATTTTTTCTTAATTA
3166 TATTTTTTTCTT-ATTA
1 TA-TTTTTTCTTAATTA
3182 TATTTTTTCTT-ATTA
1 TATTTTTTCTTAATTA
3197 TATTTTTTCTTAA-TA
1 TATTTTTTCTTAATTA
3212 TATTTTTTCTTA
1 TATTTTTTCTTA
3224 TTCAAGCATA
Statistics
Matches: 54, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
15 40 0.74
16 12 0.22
17 2 0.04
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (16 bp):
TATTTTTTCTTAATTA
Found at i:14748 original size:17 final size:15
Alignment explanation
Indices: 14710--14738 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14700 TATTTTTCTT
14710 TAAAA-TAATTTATA
1 TAAAATTAATTTATA
14724 TAAAATTAATTTATA
1 TAAAATTAATTTATA
14739 AATAAGATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TAAAATTAATTTATA
Found at i:14852 original size:15 final size:15
Alignment explanation
Indices: 14832--14868 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
14822 CAATAATAAT
14832 TAAATATATTAAAAA
1 TAAATATATTAAAAA
*
14847 TAAATATA-TAAAAT
1 TAAATATATTAAAAA
14861 TAAA-ATAT
1 TAAATATAT
14869 AACTAAACAG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 3 0.15
14 9 0.45
15 8 0.40
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
TAAATATATTAAAAA
Found at i:14869 original size:15 final size:14
Alignment explanation
Indices: 14824--14870 Score: 60
Period size: 15 Copynumber: 3.3 Consensus size: 14
14814 GATAATAACA
14824 ATAATAATTAAATAT
1 ATAA-AATTAAATAT
*
14839 ATTAAAAATAAATAT
1 A-TAAAATTAAATAT
14854 ATAAAATTAAA-AT
1 ATAAAATTAAATAT
14867 ATAA
1 ATAA
14871 CTAAACAGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 6 0.21
14 9 0.31
15 11 0.38
16 3 0.10
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
ATAAAATTAAATAT
Found at i:15539 original size:21 final size:21
Alignment explanation
Indices: 15513--15555 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
15503 CGGTCACCGA
15513 CCGGTAGTCGTCTGCCGCCGC
1 CCGGTAGTCGTCTGCCGCCGC
*
15534 CCGGTAGTCGTCTGCCGTCGC
1 CCGGTAGTCGTCTGCCGCCGC
15555 C
1 C
15556 AACTCCGCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.05, C:0.42, G:0.33, T:0.21
Consensus pattern (21 bp):
CCGGTAGTCGTCTGCCGCCGC
Found at i:16276 original size:7 final size:7
Alignment explanation
Indices: 16264--16297 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
16254 TATTAAGAAT
16264 AATAATA
1 AATAATA
16271 AATAATA
1 AATAATA
16278 AATAAT-
1 AATAATA
16284 -ATAATA
1 AATAATA
16290 AATAATA
1 AATAATA
16297 A
1 A
16298 TAAAATGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 5 0.20
7 20 0.80
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
AATAATA
Found at i:19884 original size:25 final size:25
Alignment explanation
Indices: 19850--19931 Score: 164
Period size: 25 Copynumber: 3.3 Consensus size: 25
19840 AGTGTGGAAA
19850 ATGTAAGTCAATGGCTATAGTTAAC
1 ATGTAAGTCAATGGCTATAGTTAAC
19875 ATGTAAGTCAATGGCTATAGTTAAC
1 ATGTAAGTCAATGGCTATAGTTAAC
19900 ATGTAAGTCAATGGCTATAGTTAAC
1 ATGTAAGTCAATGGCTATAGTTAAC
19925 ATGTAAG
1 ATGTAAG
19932 AAGCAAAATA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 57 1.00
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.32
Consensus pattern (25 bp):
ATGTAAGTCAATGGCTATAGTTAAC
Found at i:21246 original size:21 final size:21
Alignment explanation
Indices: 21194--21248 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
21184 TCATAATTTA
*
21194 AATAATAATAAAAACAACAAC
1 AATAATAATATAAACAACAAC
* *
21215 AA-GATCTATATAAACAACAAC
1 AATAAT-AATATAAACAACAAC
21236 AATAATAATATAA
1 AATAATAATATAA
21249 TTCAAATCAA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
20 2 0.07
21 23 0.85
22 2 0.07
ACGTcount: A:0.65, C:0.13, G:0.02, T:0.20
Consensus pattern (21 bp):
AATAATAATATAAACAACAAC
Found at i:24567 original size:23 final size:23
Alignment explanation
Indices: 24541--24607 Score: 107
Period size: 23 Copynumber: 2.9 Consensus size: 23
24531 ATGTTTGCAA
*
24541 ATGTAAAATGAGCATGCTCATCG
1 ATGTTAAATGAGCATGCTCATCG
24564 ATGTTAAATGAGCATGCTCATCG
1 ATGTTAAATGAGCATGCTCATCG
* *
24587 ATGTTAAATGAACATGTTCAT
1 ATGTTAAATGAGCATGCTCAT
24608 AAAAGTTAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.31
Consensus pattern (23 bp):
ATGTTAAATGAGCATGCTCATCG
Found at i:24615 original size:23 final size:23
Alignment explanation
Indices: 24546--24618 Score: 65
Period size: 23 Copynumber: 3.2 Consensus size: 23
24536 TGCAAATGTA
* ** *
24546 AAATGAGCATGCTCATCGATGTT
1 AAATGAACATGCTCATAAAAGTT
* ** *
24569 AAATGAGCATGCTCATCGATGTT
1 AAATGAACATGCTCATAAAAGTT
*
24592 AAATGAACATGTTCATAAAAGTT
1 AAATGAACATGCTCATAAAAGTT
24615 AAAT
1 AAAT
24619 AAACGAATAC
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (23 bp):
AAATGAACATGCTCATAAAAGTT
Found at i:24685 original size:34 final size:34
Alignment explanation
Indices: 24635--24717 Score: 97
Period size: 30 Copynumber: 2.6 Consensus size: 34
24625 ATACGAACAT
*
24635 CTTAAAAA-ATAAATAAACGAACACGAATATAATA
1 CTTAAAAATTTAAATAAAC-AACACGAATATAATA
*
24669 -TTAAAAATTTAAAT--A-AACACGAATATGATA
1 CTTAAAAATTTAAATAAACAACACGAATATAATA
24699 CTT-AAAATTTAAATAAACA
1 CTTAAAAATTTAAATAAACA
24718 CAAACCATAC
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
30 25 0.60
31 2 0.05
32 2 0.05
33 8 0.19
34 5 0.12
ACGTcount: A:0.59, C:0.10, G:0.05, T:0.27
Consensus pattern (34 bp):
CTTAAAAATTTAAATAAACAACACGAATATAATA
Found at i:24688 original size:30 final size:30
Alignment explanation
Indices: 24654--24718 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 30
24644 TAAATAAACG
24654 AACACGAATATAATA-TTAAAAATTTAAATA
1 AACACGAATATAATACTT-AAAATTTAAATA
*
24684 AACACGAATATGATACTTAAAATTTAAATA
1 AACACGAATATAATACTTAAAATTTAAATA
24714 AACAC
1 AACAC
24719 AAACCATACA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
30 31 0.94
31 2 0.06
ACGTcount: A:0.57, C:0.11, G:0.05, T:0.28
Consensus pattern (30 bp):
AACACGAATATAATACTTAAAATTTAAATA
Found at i:25671 original size:21 final size:20
Alignment explanation
Indices: 25604--25742 Score: 82
Period size: 21 Copynumber: 6.8 Consensus size: 20
25594 AAATGACCAA
***
25604 CAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
25624 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
25644 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
25665 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
25686 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
25706 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
25727 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
25743 ACACATAAAT
Statistics
Matches: 90, Mismatches: 24, Indels: 10
0.73 0.19 0.08
Matches are distributed among these distances:
19 1 0.01
20 42 0.47
21 47 0.52
ACGTcount: A:0.37, C:0.26, G:0.17, T:0.20
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:25758 original size:40 final size:40
Alignment explanation
Indices: 25709--25882 Score: 163
Period size: 40 Copynumber: 4.3 Consensus size: 40
25699 CGATTTTCCA
* ** *
25709 AAATCGCAACGCGAATATGAAAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGTAAC-CAT
* * * *
25749 AAATCGCAACGTGTATCCGTAAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGTAACCAT
** * * *
25789 AAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGTAACCAT
* * *
25829 ATATCGCAACGCGTATCCGTAAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGTAA-CCAT
25869 AAAATCGCAACGCG
1 -AAATCGCAACGCG
25883 ATATTTAAAG
Statistics
Matches: 109, Mismatches: 22, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
39 2 0.02
40 93 0.85
41 14 0.13
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.20
Consensus pattern (40 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGTAACCAT
Found at i:25771 original size:20 final size:20
Alignment explanation
Indices: 25709--25859 Score: 178
Period size: 20 Copynumber: 7.5 Consensus size: 20
25699 CGATTTTCCA
* ** *
25709 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
25729 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
*
25749 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
25769 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
25789 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
25809 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
25829 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
25849 AAATCGCAACG
1 AAATCGCAACG
25860 ATAATACATA
Statistics
Matches: 112, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
19 1 0.01
20 109 0.97
21 2 0.02
ACGTcount: A:0.34, C:0.25, G:0.21, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:25793 original size:60 final size:60
Alignment explanation
Indices: 25709--25882 Score: 204
Period size: 60 Copynumber: 2.9 Consensus size: 60
25699 CGATTTTCCA
* ** * * *
25709 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * *** *
25769 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* **
25829 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCG
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCG
25883 ATATTTAAAG
Statistics
Matches: 92, Mismatches: 21, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
60 80 0.87
61 12 0.13
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.20
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:27777 original size:14 final size:14
Alignment explanation
Indices: 27758--27793 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
27748 ATTGTTTAAT
27758 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
27772 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
27786 TGATTTGT
1 TGATTTGT
27794 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:27916 original size:19 final size:19
Alignment explanation
Indices: 27900--27997 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
27890 AAAAATGACT
27900 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
27919 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
27938 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
27952 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
27971 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
27991 ATCGCAA
1 ATCGCAA
27998 CGAGAGAATC
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 39 0.55
20 16 0.23
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:27978 original size:52 final size:53
Alignment explanation
Indices: 27900--28016 Score: 227
Period size: 53 Copynumber: 2.2 Consensus size: 53
27890 AAAAATGACT
27900 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
27952 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
28005 ATCGCAATGCGA
1 ATCGCAATGCGA
28017 TTTAATTTCG
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 29 0.45
53 35 0.55
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.14
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:28085 original size:52 final size:52
Alignment explanation
Indices: 28006--28127 Score: 210
Period size: 52 Copynumber: 2.3 Consensus size: 52
27996 AACGAGAGAA
* *
28006 TCGCAATGCGA-TTTAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
28057 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
28109 TCCGCATTGCGATTTTCAT
1 T-CGCATTGCGATTTTCAT
28128 GTTGGGATTT
Statistics
Matches: 67, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
51 10 0.15
52 40 0.60
53 17 0.25
ACGTcount: A:0.16, C:0.23, G:0.17, T:0.44
Consensus pattern (52 bp):
TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:28177 original size:33 final size:33
Alignment explanation
Indices: 28062--28169 Score: 173
Period size: 33 Copynumber: 3.2 Consensus size: 33
28052 TCATTTCGCA
28062 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
28095 TTGCGATTTTCATTTCCGCATTGCGATTTTCAT-G
1 TTGCGATTTTCATTT-CGCATTGCGATTCTC-TCG
*
28129 TTGGGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
28162 TTGCGATT
1 TTGCGATT
28170 GTAATTTCCG
Statistics
Matches: 68, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
32 1 0.01
33 37 0.54
34 29 0.43
35 1 0.01
ACGTcount: A:0.13, C:0.21, G:0.19, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:30665 original size:24 final size:24
Alignment explanation
Indices: 30631--30677 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
30621 CTGAAACATC
30631 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
30655 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
30678 GACCAAATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:31384 original size:20 final size:20
Alignment explanation
Indices: 31356--31585 Score: 228
Period size: 20 Copynumber: 11.5 Consensus size: 20
31346 AAATTTCAGT
* * *
31356 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
31376 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
31396 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
31416 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
31436 GTTGCGATTTACTGATACGC
1 GTTGCGATTTACGGATTCGC
* *
31456 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* ** *
31476 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATTCGC
* *
31496 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
*
31516 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
31536 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
31556 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
31576 GTTGCGATTT
1 GTTGCGATTT
31586 TGGAAAATCG
Statistics
Matches: 180, Mismatches: 28, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
20 179 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:31602 original size:21 final size:20
Alignment explanation
Indices: 31552--31654 Score: 80
Period size: 21 Copynumber: 5.0 Consensus size: 20
31542 ATTTATGTGT
* * * *
31552 TCGCGTTGCGATTTTCATAT
1 TCGCATTGCGATTTTGAAAA
*
31572 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTT-GAAAA
* * **
31593 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTG-AAAA
*
31614 TCGCATTGCGATTTTCAAGAA
1 TCGCATTGCGATTTTGAA-AA
*
31635 TCGCGTTGCGATTTTGAAAA
1 TCGCATTGCGATTTTGAAAA
31655 CTGATTTGCG
Statistics
Matches: 65, Mismatches: 15, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
20 19 0.29
21 46 0.71
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.36
Consensus pattern (20 bp):
TCGCATTGCGATTTTGAAAA
Found at i:31645 original size:42 final size:43
Alignment explanation
Indices: 31552--31650 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
31542 ATTTATGTGT
* *
31552 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
31593 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
31635 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
31651 AAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:32070 original size:21 final size:20
Alignment explanation
Indices: 32046--32225 Score: 222
Period size: 21 Copynumber: 8.8 Consensus size: 20
32036 CATATTCGCA
32046 TTGCGATAG-TCCAAGTTCGCG
1 TTGCGATAGCTCCAAGTT--CG
**
32067 TTGCGAT-TTTCCAAGTTCG
1 TTGCGATAGCTCCAAGTTCG
*
32086 TTGCGATAGTCTCCAAGTGCG
1 TTGCGATAG-CTCCAAGTTCG
32107 TTGCGATAGTCTCCAAGTTCG
1 TTGCGATAG-CTCCAAGTTCG
32128 TTGCGATAGTCTCCAAGTTCG
1 TTGCGATAG-CTCCAAGTTCG
*
32149 TTGCGATAGTCTCCAAATTCG
1 TTGCGATAG-CTCCAAGTTCG
32170 TTGCGATAGTCTCCAAGTTCG
1 TTGCGATAG-CTCCAAGTTCG
*
32191 TTGCGATAGTCTCCAAATTCG
1 TTGCGATAG-CTCCAAGTTCG
32212 TTGCGATAG-TCCAA
1 TTGCGATAGCTCCAA
32226 AATCGCAACG
Statistics
Matches: 148, Mismatches: 8, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.09
21 134 0.91
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.33
Consensus pattern (20 bp):
TTGCGATAGCTCCAAGTTCG
Found at i:32122 original size:42 final size:42
Alignment explanation
Indices: 32046--32222 Score: 263
Period size: 42 Copynumber: 4.3 Consensus size: 42
32036 CATATTCGCA
* *
32046 TTGCGATAG--TCCAAGTTCGCGTTGCGAT--TTTCCAAGTTCG
1 TTGCGATAGTCTCCAAG-T-GCGTTGCGATAGTCTCCAAATTCG
*
32086 TTGCGATAGTCTCCAAGTGCGTTGCGATAGTCTCCAAGTTCG
1 TTGCGATAGTCTCCAAGTGCGTTGCGATAGTCTCCAAATTCG
*
32128 TTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAATTCG
1 TTGCGATAGTCTCCAAGTGCGTTGCGATAGTCTCCAAATTCG
*
32170 TTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAATTCG
1 TTGCGATAGTCTCCAAGTGCGTTGCGATAGTCTCCAAATTCG
32212 TTGCGATAGTC
1 TTGCGATAGTC
32223 CAAAATCGCA
Statistics
Matches: 130, Mismatches: 3, Indels: 6
0.94 0.02 0.04
Matches are distributed among these distances:
40 19 0.15
41 1 0.01
42 110 0.85
ACGTcount: A:0.20, C:0.23, G:0.24, T:0.33
Consensus pattern (42 bp):
TTGCGATAGTCTCCAAGTGCGTTGCGATAGTCTCCAAATTCG
Found at i:32148 original size:63 final size:63
Alignment explanation
Indices: 32046--32222 Score: 272
Period size: 63 Copynumber: 2.8 Consensus size: 63
32036 CATATTCGCA
* *
32046 TTGCGATAG--TCCAAGTTCGCGTTGCGAT--TTTCCAAGTTCGTTGCGATAGTCTCCAAGTGCG
1 TTGCGATAGTCTCCAAGTT--CGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAATGCG
*
32107 TTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAATTCG
1 TTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAATGCG
*
32170 TTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAATTCGTTGCGATAGTC
1 TTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTC
32223 CAAAATCGCA
Statistics
Matches: 108, Mismatches: 4, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
61 18 0.17
63 90 0.83
ACGTcount: A:0.20, C:0.23, G:0.24, T:0.33
Consensus pattern (63 bp):
TTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAATGCG
Found at i:32933 original size:21 final size:21
Alignment explanation
Indices: 32909--33288 Score: 552
Period size: 21 Copynumber: 18.2 Consensus size: 21
32899 CAAATGCAAT
*
32909 AACGAAGTTGGAGACTATCGC
1 AACGAACTTGGAGACTATCGC
*
32930 AACGAAGTTGGAGACTATCGC
1 AACGAACTTGGAGACTATCGC
*
32951 AACGAATTTGGAGACTATCGC
1 AACGAACTTGGAGACTATCGC
32972 AACGAACTTGGAGACTATCGC
1 AACGAACTTGGAGACTATCGC
* *
32993 AACGAACTTGAAGACTATCAC
1 AACGAACTTGGAGACTATCGC
* *
33014 AATGAAGTTGGAGACTATCGC
1 AACGAACTTGGAGACTATCGC
*
33035 AACGAAGTTGGAGACTATCGC
1 AACGAACTTGGAGACTATCGC
*
33056 AACGAAGTTGGAGACTATCGC
1 AACGAACTTGGAGACTATCGC
33077 AACGAACTTGGAGACTATCGC
1 AACGAACTTGGAGACTATCGC
33098 AACGAACTTGGAGACTATCGC
1 AACGAACTTGGAGACTATCGC
*
33119 AATGAACTTGGAGACTATCGC
1 AACGAACTTGGAGACTATCGC
* *
33140 AACGAACTTAGAGACTATTGC
1 AACGAACTTGGAGACTATCGC
*
33161 AACGCACTTGGAGACTATCGC
1 AACGAACTTGGAGACTATCGC
* *
33182 AACTAATTTGGAGACTATCGC
1 AACGAACTTGGAGACTATCGC
*
33203 AACGAAATTGGAGACTATCGC
1 AACGAACTTGGAGACTATCGC
33224 AACGAACTTGGAGACTATCGC
1 AACGAACTTGGAGACTATCGC
* *
33245 AACGAACTTGGA-A-AATTGC
1 AACGAACTTGGAGACTATCGC
33264 AACGCGAACTT-G-GACTATCGC
1 AA--CGAACTTGGAGACTATCGC
33285 AACG
1 AACG
33289 CGAATATGTA
Statistics
Matches: 328, Mismatches: 27, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
19 8 0.02
20 3 0.01
21 317 0.97
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (21 bp):
AACGAACTTGGAGACTATCGC
Found at i:33333 original size:21 final size:21
Alignment explanation
Indices: 33307--33353 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
33297 TAAATCGCAA
33307 TGCGATAGTCGAAGTTCGAGT
1 TGCGATAGTCGAAGTTCGAGT
* *
33328 TGCGATAGTTGAAGTTCGCGT
1 TGCGATAGTCGAAGTTCGAGT
33349 TGCGA
1 TGCGA
33354 ATCTGGAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.21, C:0.15, G:0.34, T:0.30
Consensus pattern (21 bp):
TGCGATAGTCGAAGTTCGAGT
Found at i:33957 original size:37 final size:37
Alignment explanation
Indices: 33914--34025 Score: 179
Period size: 37 Copynumber: 3.0 Consensus size: 37
33904 AACATAGCGT
33914 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATATGA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATATGA
* *
33951 TGGAGTTTTACTAGGATTCAAACTCCTAAAAATAGGA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATATGA
* * *
33988 TAAAGTTCTACTATGATTCAAACTCCTAAAAATATGA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATATGA
34025 T
1 T
34026 CCAGAAGTAT
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.32
Consensus pattern (37 bp):
TAGAGTTTTACTAGGATTCAAACTCCTAAAAATATGA
Found at i:34607 original size:18 final size:18
Alignment explanation
Indices: 34584--34646 Score: 67
Period size: 18 Copynumber: 3.4 Consensus size: 18
34574 TCTATATATA
34584 TATATATATTATCACTAT
1 TATATATATTATCACTAT
*
34602 TATATATTTTAT-A-TAT
1 TATATATATTATCACTAT
*
34618 TACTATATTTTTATCACTAT
1 TA-TATA-TATTATCACTAT
34638 GTATATATA
1 -TATATATA
34647 CTTTTGATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
16 5 0.13
17 5 0.13
18 17 0.45
19 2 0.05
20 7 0.18
21 2 0.05
ACGTcount: A:0.37, C:0.08, G:0.02, T:0.54
Consensus pattern (18 bp):
TATATATATTATCACTAT
Found at i:34625 original size:33 final size:35
Alignment explanation
Indices: 34576--34645 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 35
34566 CATTTTAATC
34576 TATATATATATATATATTATCACTAT-TATATATTT
1 TATATATATATATAT-TTATCACTATGTATATATTT
*
34611 TATATATTACTATATTTTTATCACTATGTATATAT
1 TATATA-TA-TATATATTTATCACTATGTATATAT
34646 ACTTTTGATA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
35 6 0.19
36 12 0.39
37 13 0.42
ACGTcount: A:0.37, C:0.07, G:0.01, T:0.54
Consensus pattern (35 bp):
TATATATATATATATTTATCACTATGTATATATTT
Found at i:34625 original size:35 final size:37
Alignment explanation
Indices: 34576--34645 Score: 101
Period size: 35 Copynumber: 1.9 Consensus size: 37
34566 CATTTTAATC
34576 TATATATATATATA-TATTATCACTAT-TATATATTT
1 TATATATATATATATTATTATCACTATGTATATATTT
*
34611 TATATAT-TACTATATTTTTATCACTATGTATATAT
1 TATATATATA-TATATTATTATCACTATGTATATAT
34646 ACTTTTGATA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
34 2 0.06
35 11 0.35
36 11 0.35
37 7 0.23
ACGTcount: A:0.37, C:0.07, G:0.01, T:0.54
Consensus pattern (37 bp):
TATATATATATATATTATTATCACTATGTATATATTT
Found at i:34743 original size:17 final size:17
Alignment explanation
Indices: 34712--34758 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
34702 ATATATGTAT
*
34712 ATTTTT-CTTTTTTTCC
1 ATTTTTACTTTATTTCC
34728 -TTTTCTACTTTATTTCC
1 ATTTT-TACTTTATTTCC
34745 ATTTTTA-TTTATTT
1 ATTTTTACTTTATTT
34759 TATATTTTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 4 0.15
16 8 0.30
17 11 0.41
18 4 0.15
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.72
Consensus pattern (17 bp):
ATTTTTACTTTATTTCC
Found at i:34864 original size:12 final size:12
Alignment explanation
Indices: 34835--34890 Score: 58
Period size: 12 Copynumber: 4.7 Consensus size: 12
34825 ATTCTATCTA
34835 TTTTTTATTTAT
1 TTTTTTATTTAT
* * *
34847 TATTTTCTTCAT
1 TTTTTTATTTAT
34859 TTTTTTATTTAT
1 TTTTTTATTTAT
* * *
34871 TATTTTCTTAAT
1 TTTTTTATTTAT
34883 TTTTTTAT
1 TTTTTTAT
34891 CTTCATGTTG
Statistics
Matches: 33, Mismatches: 11, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTTTATTTAT
Found at i:34867 original size:24 final size:24
Alignment explanation
Indices: 34835--34890 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
34825 ATTCTATCTA
*
34835 TTTTTTATTTATTATTTTCTTCAT
1 TTTTTTATTTATTATTTTCTTAAT
34859 TTTTTTATTTATTATTTTCTTAAT
1 TTTTTTATTTATTATTTTCTTAAT
34883 TTTTTTAT
1 TTTTTTAT
34891 CTTCATGTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (24 bp):
TTTTTTATTTATTATTTTCTTAAT
Found at i:37980 original size:7 final size:7
Alignment explanation
Indices: 37968--38046 Score: 58
Period size: 7 Copynumber: 11.1 Consensus size: 7
37958 TCAGAATAAA
37968 AAAAAAG
1 AAAAAAG
37975 AAAAAAG
1 AAAAAAG
37982 ---AAAG
1 AAAAAAG
*
37986 TAAAAAG
1 AAAAAAG
*
37993 CAAAAAG
1 AAAAAAG
*
38000 AAAACA-
1 AAAAAAG
38006 AAAAAAG
1 AAAAAAG
38013 AAAAAAG
1 AAAAAAG
38020 CAAAAACAAAG
1 ---AAA-AAAG
38031 AAAAAAG
1 AAAAAAG
38038 AAAACAAG
1 AAAA-AAG
38046 A
1 A
38047 CGCATATGCA
Statistics
Matches: 59, Mismatches: 4, Indels: 17
0.74 0.05 0.21
Matches are distributed among these distances:
4 4 0.07
6 5 0.08
7 36 0.61
8 7 0.12
10 3 0.05
11 4 0.07
ACGTcount: A:0.80, C:0.06, G:0.13, T:0.01
Consensus pattern (7 bp):
AAAAAAG
Found at i:37992 original size:18 final size:17
Alignment explanation
Indices: 37965--38041 Score: 82
Period size: 18 Copynumber: 4.2 Consensus size: 17
37955 CAATCAGAAT
37965 AAAAAAAAAGAAAAAAG
1 AAAAAAAAAGAAAAAAG
* *
37982 AAAGTAAAAAGCAAAAAGAA
1 AAA-AAAAAAG-AAAAA-AG
38002 AACAAAAAAAGAAAAAAG
1 AA-AAAAAAAGAAAAAAG
*
38020 CAAAAACAAAGAAAAAAG
1 -AAAAAAAAAGAAAAAAG
38038 AAAA
1 AAAA
38042 CAAGACGCAT
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
17 7 0.14
18 21 0.42
19 12 0.24
20 9 0.18
21 1 0.02
ACGTcount: A:0.82, C:0.05, G:0.12, T:0.01
Consensus pattern (17 bp):
AAAAAAAAAGAAAAAAG
Found at i:38012 original size:27 final size:25
Alignment explanation
Indices: 37969--38041 Score: 92
Period size: 27 Copynumber: 2.8 Consensus size: 25
37959 CAGAATAAAA
* *
37969 AAAAAGAAAAAAGAAAGTAAAAAGC
1 AAAAAGAAAAAAAAAAGAAAAAAGC
37994 AAAAAGAAAACAAAAAAAGAAAAAAGC
1 AAAAAG-AAA-AAAAAAAGAAAAAAGC
* *
38021 AAAAACAAAGAAAAAAGAAAA
1 AAAAAGAAAAAAAAAAGAAAA
38042 CAAGACGCAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
25 17 0.40
26 6 0.14
27 19 0.45
ACGTcount: A:0.81, C:0.05, G:0.12, T:0.01
Consensus pattern (25 bp):
AAAAAGAAAAAAAAAAGAAAAAAGC
Found at i:38018 original size:38 final size:38
Alignment explanation
Indices: 37967--38044 Score: 115
Period size: 38 Copynumber: 2.1 Consensus size: 38
37957 ATCAGAATAA
*
37967 AAAAAAAGAAAAAAG-AAAGTAA-AAAGCAAAAAGAAAAC
1 AAAAAAAGAAAAAAGCAAA--AACAAAGAAAAAAGAAAAC
38005 AAAAAAAGAAAAAAGCAAAAACAAAGAAAAAAGAAAAC
1 AAAAAAAGAAAAAAGCAAAAACAAAGAAAAAAGAAAAC
38043 AA
1 AA
38045 GACGCATATG
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
37 2 0.05
38 32 0.86
39 3 0.08
ACGTcount: A:0.81, C:0.06, G:0.12, T:0.01
Consensus pattern (38 bp):
AAAAAAAGAAAAAAGCAAAAACAAAGAAAAAAGAAAAC
Found at i:39185 original size:32 final size:32
Alignment explanation
Indices: 39095--39189 Score: 127
Period size: 32 Copynumber: 2.9 Consensus size: 32
39085 TGAGGGCATC
* **
39095 TTTGAAGATTCAACATCAAATGCTGGGATATTT
1 TTTG-AGATTCAACATCAAATGTTGGGGCATTT
*
39128 TTTGAGATTTAACATCAAATGTTGGGGCATTT
1 TTTGAGATTCAACATCAAATGTTGGGGCATTT
* *
39160 TTTGAGATTCAACATCGAATATTGGGGCAT
1 TTTGAGATTCAACATCAAATGTTGGGGCAT
39190 ATTTGGGAAT
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
32 51 0.93
33 4 0.07
ACGTcount: A:0.31, C:0.12, G:0.21, T:0.37
Consensus pattern (32 bp):
TTTGAGATTCAACATCAAATGTTGGGGCATTT
Found at i:39202 original size:32 final size:32
Alignment explanation
Indices: 39100--39203 Score: 93
Period size: 32 Copynumber: 3.2 Consensus size: 32
39090 GCATCTTTGA
** ** **
39100 AGATTCAACATCAAATGCTGGGATATTTTTTG
1 AGATTCAACATCAAATATTGGGGCATTTTGGG
* * **
39132 AGATTTAACATCAAATGTTGGGGCATTTTTTG
1 AGATTCAACATCAAATATTGGGGCATTTTGGG
*
39164 AGATTCAACATCGAATATTGGGGCATATTTGGG
1 AGATTCAACATCAAATATTGGGGCAT-TTTGGG
39197 A-ATTCAA
1 AGATTCAA
39204 TATCCTGATG
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
32 57 0.92
33 5 0.08
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.36
Consensus pattern (32 bp):
AGATTCAACATCAAATATTGGGGCATTTTGGG
Found at i:40304 original size:36 final size:36
Alignment explanation
Indices: 40210--40326 Score: 155
Period size: 36 Copynumber: 3.2 Consensus size: 36
40200 TATATTTTCC
* *
40210 TTGAAACAAATTTCGTCTCTTTTGAGACAGTTTCTT
1 TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTT
* *
40246 TT-AGAACTAAGTTTTGTCTCTCTTGAGACAATTTCTT
1 TTGA-AAC-AAATTTTGTCTCTCTTGAGACAGTTTCTT
* *
40283 TTGAAACAAATTTTGTCTCTCTTAAGACAGTTTCTC
1 TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTT
40319 TTGAAACA
1 TTGAAACA
40327 CAAAAAAAAC
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
35 1 0.01
36 38 0.54
37 30 0.43
38 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.43
Consensus pattern (36 bp):
TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTT
Found at i:40528 original size:83 final size:84
Alignment explanation
Indices: 40388--40627 Score: 281
Period size: 83 Copynumber: 2.9 Consensus size: 84
40378 CTCTTGAAAC
* * * *
40388 ACAAAG-CCTTGGAGTTCGATTATGCTCAACTTCGAGGGCACATCATTTGCAGCATAACTCAAGG
1 ACAAAGACCTTCGAGTTCGACTATGCTCAACTTCCAAGGCACATCATTTGCAGCATAACTCAAGG
* *
40452 CTAGAAGGGTTATCTGTCA
66 CAAGAAGGGTTATCAGTCA
* *
40471 ACAAAGACCTTCGAGTTCGACTATGCTCAGC-TCCAAGGCACATCATTTGCAGTATAACTCAAGG
1 ACAAAGACCTTCGAGTTCGACTATGCTCAACTTCCAAGGCACATCATTTGCAGCATAACTCAAGG
*
40535 CAATAAGGGTTATCAGTCA
66 CAAGAAGGGTTATCAGTCA
* * *** * *
40554 TCAAAGACCTTCGAGTTCGATTACATTCAA-TT-CAGAGGCAAATCAAATTTGCAGCATAGCTCA
1 ACAAAGACCTTCGAGTTCGACTATGCTCAACTTCCA-AGGCACATC--ATTTGCAGCATAACTCA
40617 AGGCAAGAAGG
63 AGGCAAGAAGG
40628 ACTATCTGCC
Statistics
Matches: 133, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
82 2 0.02
83 85 0.64
84 21 0.16
85 25 0.19
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.25
Consensus pattern (84 bp):
ACAAAGACCTTCGAGTTCGACTATGCTCAACTTCCAAGGCACATCATTTGCAGCATAACTCAAGG
CAAGAAGGGTTATCAGTCA
Found at i:41160 original size:35 final size:36
Alignment explanation
Indices: 41117--41223 Score: 171
Period size: 35 Copynumber: 3.0 Consensus size: 36
41107 ACAGCGTTAG
*
41117 AGTTTTACTAGGATTCAAACTCCTAAAAATATGAT-
1 AGTTTTACTAGGATTCAAACTCCTAAAAATAGGATA
41152 AGTTTTACTAGGATTCAAACTCCTAAAAATAGGATAA
1 AGTTTTACTAGGATTCAAACTCCTAAAAATAGGAT-A
* *
41189 AGTTCTACTATGATTCAAACTCCTAAAAATAGGAT
1 AGTTTTACTAGGATTCAAACTCCTAAAAATAGGAT
41224 CCAGAAGCAT
Statistics
Matches: 67, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
35 34 0.51
37 33 0.49
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.32
Consensus pattern (36 bp):
AGTTTTACTAGGATTCAAACTCCTAAAAATAGGATA
Found at i:41186 original size:21 final size:21
Alignment explanation
Indices: 41160--41223 Score: 57
Period size: 21 Copynumber: 3.3 Consensus size: 21
41150 ATAGTTTTAC
41160 TAGGATTCAAACTCCTAAAAA
1 TAGGATTCAAACTCCTAAAAA
* * *
41181 TAGGA-T-AAAGTTCT---AC
1 TAGGATTCAAACTCCTAAAAA
*
41197 TATGATTCAAACTCCTAAAAA
1 TAGGATTCAAACTCCTAAAAA
41218 TAGGAT
1 TAGGAT
41224 CCAGAAGCAT
Statistics
Matches: 30, Mismatches: 8, Indels: 10
0.62 0.17 0.21
Matches are distributed among these distances:
16 5 0.17
17 1 0.03
18 6 0.20
19 6 0.20
20 1 0.03
21 11 0.37
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (21 bp):
TAGGATTCAAACTCCTAAAAA
Found at i:41681 original size:3 final size:3
Alignment explanation
Indices: 41673--41748 Score: 50
Period size: 3 Copynumber: 24.7 Consensus size: 3
41663 AACAGTATAT
* *
41673 TTA TTA TTA -TA TATA TT- TAA TTA TATA TTT TTA TTA TCTA TTA TCTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA T-TA TTA TTA TTA T-TA TTA T-TA
* *
41720 TTA TTA TTT TTA CTT- TTT TTA TTA TTA TT
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TT
41749 TATTCTTTCG
Statistics
Matches: 58, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
2 5 0.09
3 39 0.67
4 14 0.24
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:41722 original size:27 final size:27
Alignment explanation
Indices: 41668--41731 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
41658 ATTCCAACAG
*
41668 TATATTTATTATTATATATATTTAATTA
1 TATATTT-TTATTATATATATCTAATTA
*
41696 TATATTTTTATTATCTATTATCT-ATTA
1 TATATTTTTATTATATA-TATCTAATTA
41723 T-TATTTTTA
1 TATATTTTTA
41732 CTTTTTTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
26 8 0.24
27 14 0.42
28 11 0.33
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (27 bp):
TATATTTTTATTATATATATCTAATTA
Found at i:41750 original size:10 final size:10
Alignment explanation
Indices: 41670--41752 Score: 58
Period size: 10 Copynumber: 8.8 Consensus size: 10
41660 TCCAACAGTA
41670 TATTTATTAT
1 TATTTATTAT
41680 TA--TA-TA-
1 TATTTATTAT
41686 TATTTAATTAT
1 TATTT-ATTAT
41697 ATATTT-TTAT
1 -TATTTATTAT
*
41707 TATCTATTAT
1 TATTTATTAT
41717 CTA-TTATTAT
1 -TATTTATTAT
41727 T-TTTACTT-T
1 TATTTA-TTAT
41736 T-TTTATTAT
1 TATTTATTAT
41745 TATTTATT
1 TATTTATT
41753 CTTTCGTCAT
Statistics
Matches: 59, Mismatches: 2, Indels: 24
0.69 0.02 0.28
Matches are distributed among these distances:
6 2 0.03
7 2 0.03
8 5 0.08
9 17 0.29
10 26 0.44
11 2 0.03
12 5 0.08
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (10 bp):
TATTTATTAT
Found at i:41751 original size:7 final size:7
Alignment explanation
Indices: 41670--41752 Score: 61
Period size: 7 Copynumber: 12.1 Consensus size: 7
41660 TCCAACAGTA
41670 TATTTAT
1 TATTTAT
41677 TATTATAT
1 TATT-TAT
41685 ATATTTAAT
1 -TATTT-AT
*
41694 TATATAT
1 TATTTAT
41701 T-TTTAT
1 TATTTAT
*
41707 TATCTAT
1 TATTTAT
*
41714 TATCTAT
1 TATTTAT
41721 TA-TTAT
1 TATTTAT
41727 T-TTTACT
1 TATTTA-T
41734 T-TTT-T
1 TATTTAT
41739 TA-TTAT
1 TATTTAT
41745 TATTTAT
1 TATTTAT
41752 T
1 T
41753 CTTTCGTCAT
Statistics
Matches: 63, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
5 4 0.06
6 15 0.24
7 30 0.48
8 8 0.13
9 6 0.10
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (7 bp):
TATTTAT
Found at i:41797 original size:18 final size:19
Alignment explanation
Indices: 41769--41836 Score: 63
Period size: 18 Copynumber: 3.7 Consensus size: 19
41759 TCATTTTAAT
41769 CTATATATATATATTATCA
1 CTATATATATATATTATCA
*
41788 CTAT-TATATATTTTAT-A
1 CTATATATATATATTATCA
*
41805 -TAT-TACTATATTTTTATCA
1 CTATATA-TATA-TATTATCA
*
41824 CTATGTATATATA
1 CTATATATATATA
41837 CTTTTGATAT
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
16 5 0.12
17 5 0.12
18 17 0.40
19 6 0.14
20 7 0.17
21 2 0.05
ACGTcount: A:0.37, C:0.09, G:0.01, T:0.53
Consensus pattern (19 bp):
CTATATATATATATTATCA
Found at i:42042 original size:24 final size:24
Alignment explanation
Indices: 42025--42081 Score: 98
Period size: 24 Copynumber: 2.4 Consensus size: 24
42015 TATTCTATCT
*
42025 ATTTTTTTATTTATTATTTTCTTC
1 ATTTATTTATTTATTATTTTCTTC
42049 ATTTATTTATTTATTATTTTCTTC
1 ATTTATTTATTTATTATTTTCTTC
42073 ATTT-TTTAT
1 ATTTATTTAT
42082 CTTCATGTTG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
23 5 0.16
24 27 0.84
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.74
Consensus pattern (24 bp):
ATTTATTTATTTATTATTTTCTTC
Found at i:44799 original size:27 final size:27
Alignment explanation
Indices: 44761--44827 Score: 98
Period size: 27 Copynumber: 2.5 Consensus size: 27
44751 GATAATGGCT
* *
44761 CTGAATGATTCAGAATGTACTACTGTG
1 CTGAATCATTCAGAATATACTACTGTG
*
44788 CTGAATCATTCAGAATATACTTCTGTG
1 CTGAATCATTCAGAATATACTACTGTG
*
44815 CTGAATCAGTCAG
1 CTGAATCATTCAG
44828 CACTAAATCA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (27 bp):
CTGAATCATTCAGAATATACTACTGTG
Found at i:54163 original size:2 final size:2
Alignment explanation
Indices: 54158--54197 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
54148 TGTGCGTGTG
* *
54158 TA TA TA TA TA TA TA TA TA TA TA CA TA TA CA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
54198 CTAGAAAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:61195 original size:19 final size:19
Alignment explanation
Indices: 61171--61208 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
61161 TTTTTAATTT
61171 TCTGTTATTTGTTTCACAA
1 TCTGTTATTTGTTTCACAA
*
61190 TCTGTTATTTGTTTTACAA
1 TCTGTTATTTGTTTCACAA
61209 GATTATGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.21, C:0.13, G:0.11, T:0.55
Consensus pattern (19 bp):
TCTGTTATTTGTTTCACAA
Found at i:61639 original size:29 final size:29
Alignment explanation
Indices: 61597--61722 Score: 243
Period size: 29 Copynumber: 4.3 Consensus size: 29
61587 ATACAAGAAG
61597 AGTGATTATGTCACTGAAGATCATGATTA
1 AGTGATTATGTCACTGAAGATCATGATTA
61626 AGTGATTATGTCACTGAAGATCATGATTA
1 AGTGATTATGTCACTGAAGATCATGATTA
61655 AGTGATTATGTCACTGAAGATCATGATTA
1 AGTGATTATGTCACTGAAGATCATGATTA
61684 AGTGATTATGTCACTGAAGATCATGATTA
1 AGTGATTATGTCACTGAAGATCATGATTA
*
61713 AGTGAATATG
1 AGTGATTATG
61723 CACGTAGCAG
Statistics
Matches: 96, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
29 96 1.00
ACGTcount: A:0.35, C:0.10, G:0.21, T:0.34
Consensus pattern (29 bp):
AGTGATTATGTCACTGAAGATCATGATTA
Found at i:63827 original size:56 final size:59
Alignment explanation
Indices: 63689--63827 Score: 158
Period size: 60 Copynumber: 2.4 Consensus size: 59
63679 TTCTTAATTT
* * * * *
63689 TTAAATGTTACAAAATGGTCCCTTAGTTATAAGACATTGTTTTGCTAAATCTTTCGACTA
1 TTAAAAGTTACAAAATGGTCACTTAATTATAAGACATTGATTTGCTAAATCTCTC-ACTA
* * * *
63749 TTAGAAGTTACAAAATGATCACTTAATTATAAGACATTGATTTGTTAAGTC-CTC-C-A
1 TTAAAAGTTACAAAATGGTCACTTAATTATAAGACATTGATTTGCTAAATCTCTCACTA
*
63805 TTAAAAGTTAAAAAATGGTCACT
1 TTAAAAGTTACAAAATGGTCACT
63828 CAACTAATCA
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
56 21 0.31
57 1 0.01
59 2 0.03
60 43 0.64
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.37
Consensus pattern (59 bp):
TTAAAAGTTACAAAATGGTCACTTAATTATAAGACATTGATTTGCTAAATCTCTCACTA
Found at i:64013 original size:28 final size:28
Alignment explanation
Indices: 63972--64029 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
63962 CTCTCCATTT
63972 ATATTATGTCGTCGAGACAATACTTAAA
1 ATATTATGTCGTCGAGACAATACTTAAA
* * * *
64000 ATATTATGTTGTCGAGTCAGTGCTTAAA
1 ATATTATGTCGTCGAGACAATACTTAAA
64028 AT
1 AT
64030 CAATAGTGGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.36
Consensus pattern (28 bp):
ATATTATGTCGTCGAGACAATACTTAAA
Found at i:64480 original size:29 final size:30
Alignment explanation
Indices: 64447--64503 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
64437 TCATTTTTCC
64447 AGTTTAGTGCCTAACGTTT-TTTTCGTTTG
1 AGTTTAGTGCCTAACGTTTATTTTCGTTTG
* *
64476 AGTTTGGTGCTTAACGTTTATTTTCGTT
1 AGTTTAGTGCCTAACGTTTATTTTCGTT
64504 ACTCAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 17 0.68
30 8 0.32
ACGTcount: A:0.14, C:0.12, G:0.21, T:0.53
Consensus pattern (30 bp):
AGTTTAGTGCCTAACGTTTATTTTCGTTTG
Found at i:65595 original size:42 final size:42
Alignment explanation
Indices: 65532--65650 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
65522 TTCCCCGAAA
* *
65532 TCCCGTGTTTGTTTCATGTAATTCGTTTTCCGGAAAATGTTT
1 TCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATATTT
65574 TCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATATTT
1 TCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATATTT
* * *
65616 TCCCGTCTTTGTTTCACGTAGTTCATTTTCCGGAA
1 TCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAA
65651 TGTAATTCAT
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 72 1.00
ACGTcount: A:0.17, C:0.20, G:0.18, T:0.45
Consensus pattern (42 bp):
TCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATATTT
Found at i:65934 original size:28 final size:27
Alignment explanation
Indices: 65864--65956 Score: 95
Period size: 28 Copynumber: 3.5 Consensus size: 27
65854 TTATTGATAT
65864 TTATAATAATATAATATAAT-ATT-T-
1 TTATAATAATATAATATAATAATTATA
* *
65888 TTA-ATATTATATAAAATAATCAATTATA
1 TTATA-ATAATATAATATAAT-AATTATA
*
65916 TTATAATAATATAATATAAGATATTATA
1 TTATAATAATATAATATAATA-ATTATA
*
65944 TTTTAATAATATA
1 TTATAATAATATA
65957 GAATACTTTT
Statistics
Matches: 56, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
23 1 0.02
24 16 0.29
26 3 0.05
27 2 0.04
28 33 0.59
29 1 0.02
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (27 bp):
TTATAATAATATAATATAATAATTATA
Found at i:65990 original size:29 final size:28
Alignment explanation
Indices: 65912--66013 Score: 93
Period size: 28 Copynumber: 3.5 Consensus size: 28
65902 AATAATCAAT
**
65912 TATATTATAATAATATA-ATATAAGATATTA
1 TATATT-TAATAATATAGA-ATATTAT-TTA
*
65942 TAT-TTTAATAATATAGAATACTTTTTTA
1 TATATTTAATAATATAGAATA-TTATTTA
*
65970 TATATTTAATAATGA-ATAATATTATTTA
1 TATATTTAATAAT-ATAGAATATTATTTA
65998 TATATTTAAATAATAT
1 TATATTT-AATAATAT
66014 TTTAGTAAAT
Statistics
Matches: 61, Mismatches: 5, Indels: 13
0.77 0.06 0.16
Matches are distributed among these distances:
28 33 0.54
29 24 0.39
30 4 0.07
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (28 bp):
TATATTTAATAATATAGAATATTATTTA
Found at i:66202 original size:49 final size:50
Alignment explanation
Indices: 66148--66246 Score: 114
Period size: 49 Copynumber: 2.0 Consensus size: 50
66138 ATTTTATTAA
*
66148 TAAAATTATAAAACTAA-TATTTAATAATAAATAA-ATTATTT-TAATATTT
1 TAAAATAATAAAACTAAGT-TTT-ATAATAAATAATATTATTTATAATATTT
* * * *
66197 TAAAATAATAATATTAAGTTTTATGATAAATAATATTATTTATTATATTT
1 TAAAATAATAAAACTAAGTTTTATAATAAATAATATTATTTATAATATTT
66247 AATAATTGTA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
48 10 0.24
49 24 0.57
50 8 0.19
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.47
Consensus pattern (50 bp):
TAAAATAATAAAACTAAGTTTTATAATAAATAATATTATTTATAATATTT
Found at i:66378 original size:29 final size:30
Alignment explanation
Indices: 66346--66427 Score: 112
Period size: 30 Copynumber: 2.8 Consensus size: 30
66336 CCAGAAATGT
66346 GTAATTCATTTTCCAG-AATTCAAATTCCA
1 GTAATTCATTTTCCAGTAATTCAAATTCCA
* *
66375 GTAATTTATTTTCCAGTAATTCAAATTGCA
1 GTAATTCATTTTCCAGTAATTCAAATTCCA
** *
66405 GTAATTCAAATTGCAGTAATTCA
1 GTAATTCATTTTCCAGTAATTCA
66428 TTTTCCGGAA
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
29 15 0.33
30 31 0.67
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (30 bp):
GTAATTCATTTTCCAGTAATTCAAATTCCA
Found at i:66388 original size:15 final size:15
Alignment explanation
Indices: 66346--66433 Score: 88
Period size: 15 Copynumber: 5.9 Consensus size: 15
66336 CCAGAAATGT
66346 GTAATTCATTTTCCA
1 GTAATTCATTTTCCA
**
66361 G-AATTCAAATTCCA
1 GTAATTCATTTTCCA
*
66375 GTAATTTATTTTCCA
1 GTAATTCATTTTCCA
** *
66390 GTAATTCAAATTGCA
1 GTAATTCATTTTCCA
** *
66405 GTAATTCAAATTGCA
1 GTAATTCATTTTCCA
66420 GTAATTCATTTTCC
1 GTAATTCATTTTCC
66434 GGAAAACTAA
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
14 12 0.20
15 48 0.80
ACGTcount: A:0.33, C:0.17, G:0.09, T:0.41
Consensus pattern (15 bp):
GTAATTCATTTTCCA
Found at i:67214 original size:24 final size:24
Alignment explanation
Indices: 67185--67230 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
67175 GAAATAAAAC
67185 ATTATACACCAAACTAAAACAATT
1 ATTATACACCAAACTAAAACAATT
*
67209 ATTATACACTAAACTAAAACAA
1 ATTATACACCAAACTAAAACAA
67231 ACACACATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.57, C:0.20, G:0.00, T:0.24
Consensus pattern (24 bp):
ATTATACACCAAACTAAAACAATT
Found at i:70728 original size:28 final size:28
Alignment explanation
Indices: 70697--70754 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
70687 TTTTTTTTTT
70697 ATTTGAAAATCTTTGAATGTTTTGATTC
1 ATTTGAAAATCTTTGAATGTTTTGATTC
*
70725 ATTTGAAAATGTTTGAATGTTTTGATTC
1 ATTTGAAAATCTTTGAATGTTTTGATTC
70753 AT
1 AT
70755 AAAGCTTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.29, C:0.05, G:0.16, T:0.50
Consensus pattern (28 bp):
ATTTGAAAATCTTTGAATGTTTTGATTC
Found at i:73967 original size:33 final size:33
Alignment explanation
Indices: 73924--74006 Score: 121
Period size: 33 Copynumber: 2.5 Consensus size: 33
73914 CACTTTTAAT
* * *
73924 GTTTCGATCATCTTCGATTGGTGCACCTCCAAG
1 GTTTCAATCATCTTCAATTAGTGCACCTCCAAG
* *
73957 GTTTCAATCATCTTCAATTAGTGCACCTCTAGG
1 GTTTCAATCATCTTCAATTAGTGCACCTCCAAG
73990 GTTTCAATCATCTTCAA
1 GTTTCAATCATCTTCAA
74007 CTAACAAAGT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (33 bp):
GTTTCAATCATCTTCAATTAGTGCACCTCCAAG
Found at i:74386 original size:22 final size:23
Alignment explanation
Indices: 74356--74419 Score: 114
Period size: 22 Copynumber: 2.9 Consensus size: 23
74346 TAAGGCTTAG
74356 TGGTCATTTTTTTGTATATGGCT
1 TGGTCATTTTTTTGTATATGGCT
74379 TGGT-ATTTTTTTGTATATGGCT
1 TGGTCATTTTTTTGTATATGGCT
74401 TGGTCA-TTTTTTGTATATG
1 TGGTCATTTTTTTGTATATG
74420 CCTTAGTGGT
Statistics
Matches: 40, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
22 35 0.88
23 5 0.12
ACGTcount: A:0.14, C:0.06, G:0.22, T:0.58
Consensus pattern (23 bp):
TGGTCATTTTTTTGTATATGGCT
Found at i:74442 original size:24 final size:25
Alignment explanation
Indices: 74401--74452 Score: 79
Period size: 24 Copynumber: 2.1 Consensus size: 25
74391 GTATATGGCT
*
74401 TGGTCATTTTTTGTATATGCCTTAG
1 TGGTCATTTATTGTATATGCCTTAG
*
74426 TGGTCA-TTATTGTATATGGCTTAG
1 TGGTCATTTATTGTATATGCCTTAG
74450 TGG
1 TGG
74453 CTTAGTCAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 19 0.76
25 6 0.24
ACGTcount: A:0.17, C:0.10, G:0.25, T:0.48
Consensus pattern (25 bp):
TGGTCATTTATTGTATATGCCTTAG
Found at i:87166 original size:20 final size:20
Alignment explanation
Indices: 87143--87181 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
87133 AATCGAACCG
87143 AATCGAATTAATCATAATCA
1 AATCGAATTAATCATAATCA
*
87163 AATCGAATTAATTATAATC
1 AATCGAATTAATCATAATC
87182 GAATTAATCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.13, G:0.05, T:0.33
Consensus pattern (20 bp):
AATCGAATTAATCATAATCA
Found at i:87616 original size:183 final size:184
Alignment explanation
Indices: 87306--87692 Score: 629
Period size: 183 Copynumber: 2.1 Consensus size: 184
87296 TTTTCTAATT
* * *
87306 TATATAA-AAATTAAATGTTTTTTAATTCAAAAAAAGTTTATAATTAATTTAAATAATATATAAT
1 TATATAATATATTAAATATTTTTTAATTCAAAAAAAGTTTACAATTAATTTAAATAATATATAAT
87370 TATAAAATAAAAATTTCAGATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATT
66 TATAAAATAAAAATTTCAGATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATT
* * *
87435 -AGATCTTAAATTATTAATTAAGTTTTAAATGGTTTGGGCTTAGCCCATATGTTA
131 GA-ATATTAAATTATTAATTAAGTTTTAAATGGTTTAGGCTGAGCCCATATGTTA
*
87489 TATATAATATATTTAATATTTTTTAATT-AAAAAACAGTTTACAATTAATTTAAATAATATATAA
1 TATATAATATATTAAATATTTTTTAATTCAAAAAA-AGTTTACAATTAATTTAAATAATATATAA
* *
87553 TTATAAAATAAAAATTTTATAT-AATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTAT
65 TTATAAAATAAAAATTTCAGATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTAT
*
87617 TGAATATTAAATTATTAATTGAGTTTTAAATGGTTTAGGCTGAGCCCATATGTTA
130 TGAATATTAAATTATTAATTAAGTTTTAAATGGTTTAGGCTGAGCCCATATGTTA
*
87672 TATATAATATATTGAATATTT
1 TATATAATATATTAAATATTT
87693 AAAATTTAAT
Statistics
Matches: 190, Mismatches: 11, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
183 124 0.65
184 66 0.35
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.45
Consensus pattern (184 bp):
TATATAATATATTAAATATTTTTTAATTCAAAAAAAGTTTACAATTAATTTAAATAATATATAAT
TATAAAATAAAAATTTCAGATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATT
GAATATTAAATTATTAATTAAGTTTTAAATGGTTTAGGCTGAGCCCATATGTTA
Found at i:87799 original size:17 final size:17
Alignment explanation
Indices: 87777--87823 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 17
87767 CCGTTAACCG
87777 ATCGAACTAATTCGGTA
1 ATCGAACTAATTCGGTA
*
87794 ATCGAACTAAAT---TA
1 ATCGAACTAATTCGGTA
*
87808 ACCGAACTAATTCGGT
1 ATCGAACTAATTCGGT
87824 TCGATCGGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 6
0.73 0.09 0.18
Matches are distributed among these distances:
14 12 0.50
17 12 0.50
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (17 bp):
ATCGAACTAATTCGGTA
Found at i:88587 original size:10 final size:10
Alignment explanation
Indices: 88572--88668 Score: 72
Period size: 10 Copynumber: 9.2 Consensus size: 10
88562 ACAAGAGAAG
*
88572 AATGAACAAA
1 AATGAAAAAA
*
88582 AATGAAAAAC
1 AATGAAAAAA
88592 AATGAAAAAA
1 AATGAAAAAA
88602 AACT-AAAAAA
1 AA-TGAAAAAA
88612 GAAT-AAAAAA
1 -AATGAAAAAA
88622 AATGAACAAGAGAAA
1 AATG---AA-A-AAA
**
88637 AATGAACGAA
1 AATGAAAAAA
*
88647 AATGAAAAAC
1 AATGAAAAAA
88657 AATGAAAAAA
1 AATGAAAAAA
88667 AA
1 AA
88669 ATTAAAAAGG
Statistics
Matches: 70, Mismatches: 9, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
9 3 0.04
10 52 0.74
11 3 0.04
12 2 0.03
13 2 0.03
14 1 0.01
15 7 0.10
ACGTcount: A:0.73, C:0.06, G:0.11, T:0.09
Consensus pattern (10 bp):
AATGAAAAAA
Found at i:88641 original size:65 final size:66
Alignment explanation
Indices: 88500--88695 Score: 231
Period size: 66 Copynumber: 2.9 Consensus size: 66
88490 AACAAACCTA
* * *
88500 AGAAAAATGAAAGAAAAATGAAAACCAATG-AAAAAAATAAAAACGAACAGAAGAAATGAAGAAC
1 AGAAAAATG-AACAAAAATGAAAAACAATGAAAAAAAATAAAAAAGAACAGAAGAAA-GAAGAAC
88564 AAG
64 AAG
* *
88567 AGAAGAATGAACAAAAATGAAAAACAATGAAAAAAAACTAAAAAAGAATA-AA-AAA-AATGAAC
1 AGAAAAATGAACAAAAATGAAAAACAATGAAAAAAAA-TAAAAAAGAACAGAAGAAAGAA-GAAC
88629 AAG
64 AAG
* *
88632 AGAAAAATGAACGAAAATGAAAAACAATGAAAAAAAAATTAAAAAGGAACAG-AGAAATGAAGAA
1 AGAAAAATGAACAAAAATGAAAAACAATG-AAAAAAAA-TAAAAAAGAACAGAAGAAA-GAAGAA
88696 GCGGCAGAAG
Statistics
Matches: 111, Mismatches: 10, Indels: 15
0.82 0.07 0.11
Matches are distributed among these distances:
64 2 0.02
65 34 0.31
66 40 0.36
67 20 0.18
68 13 0.12
69 2 0.02
ACGTcount: A:0.70, C:0.06, G:0.15, T:0.09
Consensus pattern (66 bp):
AGAAAAATGAACAAAAATGAAAAACAATGAAAAAAAATAAAAAAGAACAGAAGAAAGAAGAACAA
G
Found at i:89614 original size:64 final size:66
Alignment explanation
Indices: 89542--89671 Score: 219
Period size: 64 Copynumber: 2.0 Consensus size: 66
89532 CCTAAAATTG
* *
89542 TTCTTTTAAAAGAATTTTTAAGAAAACTTCAGTTAAAAGATAAACTGGTCTGCG-TTTAA-AAAA
1 TTCTTTTAAAAGAATTTTTAAGAAAACTTCAGTTAAAAAATAAACTGGTATGCGTTTTAACAAAA
89605 A
66 A
*
89606 TTCTTTTAAAAGAGTTTTTAAGAAAACTTCAGTTAAAAAATAAACTGGTATGCGTTTTAACAAAA
1 TTCTTTTAAAAGAATTTTTAAGAAAACTTCAGTTAAAAAATAAACTGGTATGCGTTTTAACAAAA
89671 A
66 A
89672 AATTCGTTCT
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
64 51 0.84
65 5 0.08
66 5 0.08
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.35
Consensus pattern (66 bp):
TTCTTTTAAAAGAATTTTTAAGAAAACTTCAGTTAAAAAATAAACTGGTATGCGTTTTAACAAAA
A
Found at i:89960 original size:10 final size:10
Alignment explanation
Indices: 89930--89972 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
89920 CTCTTTTCTT
89930 AATATATAAAA
1 AATA-ATAAAA
*
89941 AATAAATAAAT
1 AAT-AATAAAA
*
89952 ATTAATAAAA
1 AATAATAAAA
89962 AATAATAAAA
1 AATAATAAAA
89972 A
1 A
89973 TAGATTAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
10 16 0.59
11 10 0.37
12 1 0.04
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (10 bp):
AATAATAAAA
Found at i:90248 original size:2 final size:2
Alignment explanation
Indices: 90241--90287 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
90231 AATTAAACAA
90241 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
90283 AT AT A
1 AT AT A
90288 CTAATATAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:90428 original size:29 final size:30
Alignment explanation
Indices: 90374--90432 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
90364 ATTGCAATTA
90374 AATAGTGACTAAAACATATAAAATTAAAAT
1 AATAGTGACTAAAACATATAAAATTAAAAT
* *
90404 AATAG-GATTAAAATATA-AAATATTAAAAT
1 AATAGTGACTAAAACATATAAA-ATTAAAAT
90433 TTACATCCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 3 0.12
29 18 0.69
30 5 0.19
ACGTcount: A:0.61, C:0.03, G:0.07, T:0.29
Consensus pattern (30 bp):
AATAGTGACTAAAACATATAAAATTAAAAT
Found at i:91814 original size:15 final size:16
Alignment explanation
Indices: 91796--91833 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
91786 TTAATTTTTT
91796 TAATAATA-ATACATA
1 TAATAATATATACATA
*
91811 TAATATATATATATATA
1 TAATA-ATATATACATA
91828 TAATAA
1 TAATAA
91834 AAGTAATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 5 0.25
16 4 0.20
17 11 0.55
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (16 bp):
TAATAATATATACATA
Found at i:92151 original size:77 final size:77
Alignment explanation
Indices: 92019--92217 Score: 292
Period size: 77 Copynumber: 2.6 Consensus size: 77
92009 GAAGTATTAT
* * * ** *
92019 CATCTTGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAAAAACATCAAAAAGCTCCTGAAG
1 CATCCTGCACTGTAGGGCTTACGGATGAATCGGAGGCTTTAAAAAACATCAAAAAGCTCATGAAG
*
92084 GTTTTTTAAAAA
66 GCTTTTTAAAAA
92096 CATCCTGCACTGTAGGGCTTACGGATGAATCGGAGGCTTTAAAAAACATCAAAAAGCTCATGAAG
1 CATCCTGCACTGTAGGGCTTACGGATGAATCGGAGGCTTTAAAAAACATCAAAAAGCTCATGAAG
*
92161 GCTTTTTGAAAA
66 GCTTTTTAAAAA
* *
92173 CATACTGCACTGTAGGGCTTACGGATG-ATCCGGAGGTTTTAAAAA
1 CATCCTGCACTGTAGGGCTTACGGATGAAT-CGGAGGCTTTAAAAA
92218 CATAATGCAC
Statistics
Matches: 111, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
76 2 0.02
77 109 0.98
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.26
Consensus pattern (77 bp):
CATCCTGCACTGTAGGGCTTACGGATGAATCGGAGGCTTTAAAAAACATCAAAAAGCTCATGAAG
GCTTTTTAAAAA
Found at i:92235 original size:45 final size:45
Alignment explanation
Indices: 92164--92516 Score: 582
Period size: 45 Copynumber: 7.8 Consensus size: 45
92154 CATGAAGGCT
* * * *
92164 TTTTGAAAACAT-ACTGCACTGTAGGGCTTACGGATGATCCGGAGG
1 TTTTGAAAACATCA-TGCACTGAAGGGCTTACAGATGACCCGAAGG
* *
92209 TTTTAAAAACATAATGCACTGAAGGGCTTACAGATGACCCGAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
*
92254 CTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
92299 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
92344 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
*
92389 TTTTGAAAACATCATGCACTGAAGGGCTTACAAATGACCCGAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
*
92434 TTTTTGAAAACATCAAGCACTGAAGGGCTTACAGATGACCCGAAGG
1 -TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
*
92480 TTTTTGAAAACATCATGCACTAAAGGGCTTACAGATG
1 -TTTTGAAAACATCATGCACTGAAGGGCTTACAGATG
92517 TGGGAAACAA
Statistics
Matches: 292, Mismatches: 14, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
45 213 0.73
46 79 0.27
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.23
Consensus pattern (45 bp):
TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
Found at i:97907 original size:6 final size:7
Alignment explanation
Indices: 97890--97915 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
97880 TGATTTAATT
97890 TTTTTCC
1 TTTTTCC
97897 TTTTTCC
1 TTTTTCC
97904 TTTTTCC
1 TTTTTCC
97911 TTTTT
1 TTTTT
97916 TTTGAATGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTTCC
Found at i:98386 original size:16 final size:15
Alignment explanation
Indices: 98351--98389 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
98341 TGCATGGTAT
*
98351 ATTTTTTCTAAATCA
1 ATTTTTTCCAAATCA
98366 ATTTTTTCCAAATCA
1 ATTTTTTCCAAATCA
98381 ATTTTTTCC
1 ATTTTTTCC
98390 CTTCTTCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.28, C:0.18, G:0.00, T:0.54
Consensus pattern (15 bp):
ATTTTTTCCAAATCA
Found at i:102665 original size:28 final size:27
Alignment explanation
Indices: 102614--102667 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 27
102604 ATATTAATAA
*
102614 AATAATATATATAAATATTATGAAAAT
1 AATAATATATATAAAAATTATGAAAAT
*
102641 AATAAGTATATATAAAAATTTTGAAAA
1 AATAA-TATATATAAAAATTATGAAAA
102668 GAAAGAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 5 0.21
28 19 0.79
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (27 bp):
AATAATATATATAAAAATTATGAAAAT
Found at i:103700 original size:29 final size:30
Alignment explanation
Indices: 103646--103704 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
103636 ATTGCAATTA
103646 AATAGTGACTAAAACATATAAAATTAAAAT
1 AATAGTGACTAAAACATATAAAATTAAAAT
* *
103676 AATAG-GATTAAAATATA-AAATATTAAAAT
1 AATAGTGACTAAAACATATAAA-ATTAAAAT
103705 TTACAGCCCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 3 0.12
29 18 0.69
30 5 0.19
ACGTcount: A:0.61, C:0.03, G:0.07, T:0.29
Consensus pattern (30 bp):
AATAGTGACTAAAACATATAAAATTAAAAT
Found at i:105085 original size:3 final size:3
Alignment explanation
Indices: 105061--105134 Score: 107
Period size: 3 Copynumber: 24.3 Consensus size: 3
105051 TATTTTTTAG
105061 TAA TAA TACA T-A TAA TATA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TA-A TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
105107 TAA TAA TAA TAA TAA TAA -AA GTAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA -TAA TAA T
105135 TAAAGTAAAA
Statistics
Matches: 66, Mismatches: 0, Indels: 10
0.87 0.00 0.13
Matches are distributed among these distances:
2 4 0.06
3 55 0.83
4 7 0.11
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:105139 original size:12 final size:12
Alignment explanation
Indices: 105080--105149 Score: 76
Period size: 12 Copynumber: 5.9 Consensus size: 12
105070 ATATAATATA
105080 TAATAATAATAA-
1 TAATAATAA-AAG
105092 TAATAATAATAA-
1 TAATAATAA-AAG
105104 TAATAATAATAA-
1 TAATAATAA-AAG
105116 TAATAATAAAAG
1 TAATAATAAAAG
*
105128 TAATAATTAAAG
1 TAATAATAAAAG
105140 TAA-AATAAAA
1 TAATAATAAAA
105150 AATTAGTGTT
Statistics
Matches: 55, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
11 8 0.15
12 47 0.85
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (12 bp):
TAATAATAAAAG
Found at i:110095 original size:24 final size:21
Alignment explanation
Indices: 110060--110118 Score: 57
Period size: 24 Copynumber: 2.7 Consensus size: 21
110050 ATCTGTGCAC
110060 TTCTTCTTCTTCCTCCCATCTCAT
1 TTCTT-TTCTTCCTCCCAT-T-AT
*
110084 TTCTTTTCCTTCGT-CCATTAT
1 TTCTTTT-CTTCCTCCCATTAT
*
110105 TTCTCTTCTTCCTC
1 TTCTTTTCTTCCTC
110119 TGCACATGGG
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
20 5 0.17
21 8 0.27
22 1 0.03
23 6 0.20
24 10 0.33
ACGTcount: A:0.07, C:0.37, G:0.02, T:0.54
Consensus pattern (21 bp):
TTCTTTTCTTCCTCCCATTAT
Found at i:110300 original size:3 final size:3
Alignment explanation
Indices: 110279--110345 Score: 64
Period size: 3 Copynumber: 22.7 Consensus size: 3
110269 TCCATGTGTC
* * * * *
110279 TCT TCT TCG TCG TCG TCT TCT TTT TCT TCT TCT TCT TCT TCT TGT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
* *
110327 TC- TCC TCC TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TC
110346 CCCAATTTTG
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
2 2 0.04
3 54 0.96
ACGTcount: A:0.00, C:0.34, G:0.06, T:0.60
Consensus pattern (3 bp):
TCT
Found at i:120136 original size:16 final size:16
Alignment explanation
Indices: 120112--120148 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
120102 GCGTTTGTTG
*
120112 TGCTTGCTCTTCGGAC
1 TGCTCGCTCTTCGGAC
120128 TGCTCGCTCTTCGGAC
1 TGCTCGCTCTTCGGAC
120144 TGCTC
1 TGCTC
120149 CTCGGGCTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.05, C:0.35, G:0.24, T:0.35
Consensus pattern (16 bp):
TGCTCGCTCTTCGGAC
Done.