Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003936.1 Hibiscus syriacus cultivar Beakdansim tig00008506_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: 166361
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:1448 original size:43 final size:43
Alignment explanation
Indices: 1387--1508 Score: 201
Period size: 43 Copynumber: 2.8 Consensus size: 43
1377 CTCAAATGGC
* *
1387 ACGATATCCTCCGTCGTGGAGTTAAAATCGTGGATGTATGGGT
1 ACGATATCCTCCTTCGTGGAGTTGAAATCGTGGATGTATGGGT
*
1430 ACGATATCCTCCTTCGTGGAGTTGAAATCGTGGATTTATGGGT
1 ACGATATCCTCCTTCGTGGAGTTGAAATCGTGGATGTATGGGT
1473 ACGATATCCT-CTATCGTGGAGTTGAAATCGTGGATG
1 ACGATATCCTCCT-TCGTGGAGTTGAAATCGTGGATG
1509 GCCCCTTCAT
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
42 2 0.03
43 72 0.97
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (43 bp):
ACGATATCCTCCTTCGTGGAGTTGAAATCGTGGATGTATGGGT
Found at i:2550 original size:11 final size:11
Alignment explanation
Indices: 2511--2549 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
2501 ACCCACCTTA
2511 TTTTTCTTTTC
1 TTTTTCTTTTC
*
2522 TTTTTCTTTTG
1 TTTTTCTTTTC
*
2533 TTCTTTTTTTTC
1 TT-TTTCTTTTC
2545 TTTTT
1 TTTTT
2550 TCAATTTTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 15 0.62
12 9 0.38
ACGTcount: A:0.00, C:0.13, G:0.03, T:0.85
Consensus pattern (11 bp):
TTTTTCTTTTC
Found at i:2550 original size:19 final size:19
Alignment explanation
Indices: 2514--2548 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
2504 CACCTTATTT
2514 TTCTTTTCTTTTTCTTTTG
1 TTCTTTTCTTTTTCTTTTG
2533 TTC-TTT-TTTTTCTTTT
1 TTCTTTTCTTTTTCTTTT
2549 TTCAATTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.62
18 3 0.19
19 3 0.19
ACGTcount: A:0.00, C:0.14, G:0.03, T:0.83
Consensus pattern (19 bp):
TTCTTTTCTTTTTCTTTTG
Found at i:6125 original size:23 final size:22
Alignment explanation
Indices: 6091--6153 Score: 90
Period size: 23 Copynumber: 2.8 Consensus size: 22
6081 CATCTTATAT
6091 GGCACTTCGGTGCATTTCTACGC
1 GGCACTTCGGTGCATTT-TACGC
* *
6114 GGCACTTAGGTGCAATTTTACGT
1 GGCACTTCGGTGC-ATTTTACGC
6137 GGCACTTCGGTGCATTT
1 GGCACTTCGGTGCATTT
6154 ATATGAGCTG
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
22 4 0.11
23 28 0.78
24 4 0.11
ACGTcount: A:0.16, C:0.24, G:0.27, T:0.33
Consensus pattern (22 bp):
GGCACTTCGGTGCATTTTACGC
Found at i:11635 original size:2 final size:2
Alignment explanation
Indices: 11617--11662 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
11607 TTGTGAAACA
* *
11617 AT AT GT AT AT GT 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
11659 AT AT
1 AT AT
11663 GCGTTTATGT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18990 original size:21 final size:21
Alignment explanation
Indices: 18966--19005 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
18956 CCAGAACCCC
*
18966 AGGGGGTATCGATTCCCCTGT
1 AGGGGGAATCGATTCCCCTGT
*
18987 AGGGGGAATCGGTTCCCCT
1 AGGGGGAATCGATTCCCCT
19006 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.25, G:0.35, T:0.25
Consensus pattern (21 bp):
AGGGGGAATCGATTCCCCTGT
Found at i:29800 original size:30 final size:30
Alignment explanation
Indices: 29739--29807 Score: 74
Period size: 30 Copynumber: 2.4 Consensus size: 30
29729 CATAACATGT
* *
29739 AATAATAGTAATAAAGAAAATATATATATA
1 AATAATAATAATAAAGAAAAGATATATATA
29769 AATAATAATAATAAAGGCAAAAGA-ATA-ATA
1 AATAATAATAATAAA-G-AAAAGATATATATA
29799 AA-AA-AATAA
1 AATAATAATAA
29808 AACTAGTATG
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
28 5 0.14
29 2 0.06
30 19 0.54
31 4 0.11
32 5 0.14
ACGTcount: A:0.68, C:0.01, G:0.07, T:0.23
Consensus pattern (30 bp):
AATAATAATAATAAAGAAAAGATATATATA
Found at i:29862 original size:2 final size:2
Alignment explanation
Indices: 29857--29893 Score: 65
Period size: 2 Copynumber: 18.0 Consensus size: 2
29847 TAGAAAAAAC
29857 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
29894 GGTACTTAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 32 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:29966 original size:15 final size:13
Alignment explanation
Indices: 29943--30003 Score: 54
Period size: 13 Copynumber: 4.5 Consensus size: 13
29933 AACTATACAA
*
29943 ATATTAATAATAAGT
1 ATATAAATAA-AA-T
29958 ATATAAATAAAAT
1 ATATAAATAAAAT
*
29971 ATATATAA-AACAT
1 ATATA-AATAAAAT
29984 ATATAATATAAAAT
1 ATATAA-ATAAAAT
29998 A-ATAAA
1 ATATAAA
30004 AATACTAATA
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
12 2 0.05
13 20 0.50
14 9 0.22
15 9 0.22
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (13 bp):
ATATAAATAAAAT
Found at i:29972 original size:26 final size:27
Alignment explanation
Indices: 29936--30007 Score: 69
Period size: 26 Copynumber: 2.6 Consensus size: 27
29926 AATTAAAAAC
*
29936 TATACAAATATTAATAATAA-GTATATAA
1 TATA-AAATA-TAATAATAACATATATAA
29964 -ATAAAATATATATAA-AACATATATAA
1 TATAAAATATA-ATAATAACATATATAA
*
29990 TATAAAATAATAAAAATA
1 TATAAAAT-ATAATAATA
30008 CTAATATAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
25 4 0.11
26 16 0.43
27 13 0.35
28 4 0.11
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (27 bp):
TATAAAATATAATAATAACATATATAA
Found at i:33252 original size:2 final size:2
Alignment explanation
Indices: 33245--33278 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
33235 GAGTTAAAAG
33245 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
33279 TTATGGATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:36324 original size:14 final size:14
Alignment explanation
Indices: 36305--36339 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
36295 GGTGGGTTTT
36305 CGGCGAAATGATTC
1 CGGCGAAATGATTC
36319 CGGCGAAATGATTC
1 CGGCGAAATGATTC
36333 CGGCGAA
1 CGGCGAA
36340 CGGCGACGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.29, C:0.23, G:0.31, T:0.17
Consensus pattern (14 bp):
CGGCGAAATGATTC
Found at i:42459 original size:20 final size:20
Alignment explanation
Indices: 42434--42475 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
42424 AATGACCAAT
*
42434 AAAATCGCAACGTTAAAAAG
1 AAAATCGCAACGGTAAAAAG
*
42454 AAAATCGCAACGGTCAAAAG
1 AAAATCGCAACGGTAAAAAG
42474 AA
1 AA
42476 TAGTTAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.55, C:0.17, G:0.17, T:0.12
Consensus pattern (20 bp):
AAAATCGCAACGGTAAAAAG
Found at i:42517 original size:6 final size:6
Alignment explanation
Indices: 42499--42554 Score: 103
Period size: 6 Copynumber: 9.3 Consensus size: 6
42489 GGTAATACGT
*
42499 GTCGTG GTTGTG GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG
1 GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG
42547 GTCGTG GT
1 GTCGTG GT
42555 AATACGTGTC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 48 1.00
ACGTcount: A:0.00, C:0.14, G:0.50, T:0.36
Consensus pattern (6 bp):
GTCGTG
Found at i:42657 original size:20 final size:20
Alignment explanation
Indices: 42632--42675 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
42622 TTTTTAACTA
* *
42632 TTCTTTTGACCGTTGCGATT
1 TTCTTTTGAACATTGCGATT
*
42652 TTCTTTTTAACATTGCGATT
1 TTCTTTTGAACATTGCGATT
42672 TTCT
1 TTCT
42676 AAATCGCGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.18, G:0.14, T:0.55
Consensus pattern (20 bp):
TTCTTTTGAACATTGCGATT
Found at i:42687 original size:20 final size:20
Alignment explanation
Indices: 42664--42959 Score: 157
Period size: 20 Copynumber: 14.5 Consensus size: 20
42654 CTTTTTAACA
42664 TTGCGATTTTCTAAATCGCG
1 TTGCGATTTTCTAAATCGCG
* * *
42684 TTGCGATTCTCTCAATCGCA
1 TTGCGATTTTCTAAATCGCG
* * * *
42704 TTGCGATTCTCTCAGTCGCA
1 TTGCGATTTTCTAAATCGCG
* * * *
42724 TTGCGATTCTCTCAGTCGCA
1 TTGCGATTTTCTAAATCGCG
42744 TTGCGATTTTCTTCTAAATCGCG
1 TTGCGA--TT-TTCTAAATCGCG
* * * *
42767 TTGCGACTCTCTCAATCGCA
1 TTGCGATTTTCTAAATCGCG
* * *
42787 TTGCGATTCTATAAATCGCA
1 TTGCGATTTTCTAAATCGCG
*** * *
42807 TTGCGATTCAATCAATCGCA
1 TTGCGATTTTCTAAATCGCG
42827 TTGCGATTTTCTTCTAAATCGCG
1 TTGCGA--TT-TTCTAAATCGCG
** ** *
42850 TTGCGAACTTGGAAGCTCGCG
1 TTGCGATTTTCTAA-ATCGCG
* *
42871 TTGCGATTTTCT--TTTGACCG
1 TTGCGATTTTCTAAATCG--CG
*** **
42891 TTGCGATTTTCTTTTTAACG
1 TTGCGATTTTCTAAATCGCG
42911 TTGCGATTTTCTAAATCGCG
1 TTGCGATTTTCTAAATCGCG
* *
42931 TTGCGATTTT-GATATCGCG
1 TTGCGATTTTCTAAATCGCG
42950 TTGCGATTTT
1 TTGCGATTTT
42960 ATTGGTCATT
Statistics
Matches: 223, Mismatches: 42, Indels: 23
0.77 0.15 0.08
Matches are distributed among these distances:
18 2 0.01
19 17 0.08
20 157 0.70
21 14 0.06
22 6 0.03
23 27 0.12
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.39
Consensus pattern (20 bp):
TTGCGATTTTCTAAATCGCG
Found at i:42706 original size:40 final size:40
Alignment explanation
Indices: 42662--42855 Score: 235
Period size: 40 Copynumber: 4.7 Consensus size: 40
42652 TTCTTTTTAA
42662 CATTGCGATTTTCTAAATCGCGTTGCGATTCTCTCAATCG
1 CATTGCGATTTTCTAAATCGCGTTGCGATTCTCTCAATCG
* * * * *
42702 CATTGCGATTCTCTCAGTCGCATTGCGATTCTCTCAGTCG
1 CATTGCGATTTTCTAAATCGCGTTGCGATTCTCTCAATCG
*
42742 CATTGCGATTTTCTTCTAAATCGCGTTGCGACTCTCTCAATCG
1 CATTGCGA--TT-TTCTAAATCGCGTTGCGATTCTCTCAATCG
* * * **
42785 CATTGCGATTCTATAAATCGCATTGCGATTCAATCAATCG
1 CATTGCGATTTTCTAAATCGCGTTGCGATTCTCTCAATCG
42825 CATTGCGATTTTCTTCTAAATCGCGTTGCGA
1 CATTGCGA--TT-TTCTAAATCGCGTTGCGA
42856 ACTTGGAAGC
Statistics
Matches: 128, Mismatches: 20, Indels: 9
0.82 0.13 0.06
Matches are distributed among these distances:
40 75 0.59
41 2 0.02
42 4 0.03
43 47 0.37
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.36
Consensus pattern (40 bp):
CATTGCGATTTTCTAAATCGCGTTGCGATTCTCTCAATCG
Found at i:42780 original size:83 final size:83
Alignment explanation
Indices: 42672--42855 Score: 305
Period size: 83 Copynumber: 2.2 Consensus size: 83
42662 CATTGCGATT
* * * * **
42672 TTCTAAATCGCGTTGCGATTCTCTCAATCGCATTGCGATTCTCTCAGTCGCATTGCGATTCTCTC
1 TTCTAAATCGCGTTGCGACTCTCTCAATCGCATTGCGATTCTATAAATCGCATTGCGATTCAATC
*
42737 AGTCGCATTGCGATTTTC
66 AATCGCATTGCGATTTTC
42755 TTCTAAATCGCGTTGCGACTCTCTCAATCGCATTGCGATTCTATAAATCGCATTGCGATTCAATC
1 TTCTAAATCGCGTTGCGACTCTCTCAATCGCATTGCGATTCTATAAATCGCATTGCGATTCAATC
42820 AATCGCATTGCGATTTTC
66 AATCGCATTGCGATTTTC
42838 TTCTAAATCGCGTTGCGA
1 TTCTAAATCGCGTTGCGA
42856 ACTTGGAAGC
Statistics
Matches: 94, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
83 94 1.00
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.36
Consensus pattern (83 bp):
TTCTAAATCGCGTTGCGACTCTCTCAATCGCATTGCGATTCTATAAATCGCATTGCGATTCAATC
AATCGCATTGCGATTTTC
Found at i:42949 original size:19 final size:20
Alignment explanation
Indices: 42909--42959 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
42899 TTCTTTTTAA
*
42909 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCGAAATCG
*
42929 CGTTGCGATTTT-GATATCG
1 CGTTGCGATTTTCGAAATCG
42948 CGTTGCGATTTT
1 CGTTGCGATTTT
42960 ATTGGTCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.16, C:0.18, G:0.24, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTTTCGAAATCG
Found at i:46152 original size:23 final size:23
Alignment explanation
Indices: 46122--46168 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
46112 TGTTATAGCA
*
46122 TAACTAATATTCCTATCTTTGAT
1 TAACTAATATTCCTATCCTTGAT
46145 TAACTAATATTCCTATCCTTGAT
1 TAACTAATATTCCTATCCTTGAT
46168 T
1 T
46169 TTTTTTATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.19, G:0.04, T:0.47
Consensus pattern (23 bp):
TAACTAATATTCCTATCCTTGAT
Found at i:55825 original size:4 final size:4
Alignment explanation
Indices: 55818--55930 Score: 226
Period size: 4 Copynumber: 28.2 Consensus size: 4
55808 TATATATATA
55818 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
55866 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
55914 TATG TATG TATG TATG T
1 TATG TATG TATG TATG T
55931 TAAGTACAAA
Statistics
Matches: 109, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 109 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:56713 original size:39 final size:39
Alignment explanation
Indices: 56669--56752 Score: 98
Period size: 39 Copynumber: 2.2 Consensus size: 39
56659 GATGGTGAAG
* * *
56669 TAGGGAGTGAGATGCGA-AGGAGAAATGAAAAAGGGGAAT
1 TAGGGAGTGAGAGGCAAGAGGA-AAATGAAAAAGGGAAAT
* * *
56708 TAGGGATTGAGGGGCAAGAGGAAAATGAAAATGGGAAAT
1 TAGGGAGTGAGAGGCAAGAGGAAAATGAAAAAGGGAAAT
56747 TAGGGA
1 TAGGGA
56753 TTATGGCAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
39 34 0.89
40 4 0.11
ACGTcount: A:0.43, C:0.02, G:0.40, T:0.14
Consensus pattern (39 bp):
TAGGGAGTGAGAGGCAAGAGGAAAATGAAAAAGGGAAAT
Found at i:65846 original size:21 final size:21
Alignment explanation
Indices: 65820--65859 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
65810 GACTATCGCA
65820 TTGCGATTTTCCAAATTCGTG
1 TTGCGATTTTCCAAATTCGTG
*
65841 TTGCGATTTTCCGAATTCG
1 TTGCGATTTTCCAAATTCG
65860 CAATGCGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.20, G:0.20, T:0.42
Consensus pattern (21 bp):
TTGCGATTTTCCAAATTCGTG
Found at i:65866 original size:21 final size:21
Alignment explanation
Indices: 65815--65867 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
65805 ATTCTGACTA
65815 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
** *
65836 TCGTGTTGCGATTTTCCGAAT
1 TCGCATTGCGATTTTCCAAAT
*
65857 TCGCAATGCGA
1 TCGCATTGCGA
65868 ATAAGTAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:65912 original size:20 final size:20
Alignment explanation
Indices: 65857--65912 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
65847 TTTTCCGAAT
*
65857 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATATGTAAA
65877 TCGCAATGCGAATATGTAAA
1 TCGCAATGCGAATATGTAAA
*
65897 TCGCAATGCGATTATG
1 TCGCAATGCGAATATG
65913 ACTATCGCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (20 bp):
TCGCAATGCGAATATGTAAA
Found at i:65920 original size:40 final size:40
Alignment explanation
Indices: 65876--65967 Score: 105
Period size: 40 Copynumber: 2.3 Consensus size: 40
65866 GAATAAGTAA
* * *
65876 ATCGCAATGCGAATATGTA-AATCGCAATGCGATTATGACT
1 ATCGCAACGCGAATATG-ACAATCGCAACGAGATTATGACT
* * * *
65916 ATCGCAACGCGATTCTGACTATCGCAACGAGATTCTGACT
1 ATCGCAACGCGAATATGACAATCGCAACGAGATTATGACT
65956 ATCGCAACGCGA
1 ATCGCAACGCGA
65968 TGCTGACTAT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
39 1 0.02
40 43 0.98
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.24
Consensus pattern (40 bp):
ATCGCAACGCGAATATGACAATCGCAACGAGATTATGACT
Found at i:65988 original size:20 final size:20
Alignment explanation
Indices: 65896--65982 Score: 138
Period size: 20 Copynumber: 4.3 Consensus size: 20
65886 GAATATGTAA
* *
65896 ATCGCAATGCGATTATGACT
1 ATCGCAACGCGATTCTGACT
65916 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
65936 ATCGCAACGAGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
65956 ATCGCAACGCGATGCTGACT
1 ATCGCAACGCGATTCTGACT
65976 ATCGCAA
1 ATCGCAA
65983 TACGATTTTC
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 62 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:66187 original size:22 final size:22
Alignment explanation
Indices: 66162--66206 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
66152 CACTCTCTAA
* *
66162 GACGACATCCGTCCCCATCTCC
1 GACGAAATCAGTCCCCATCTCC
66184 GACGAAATCAGTCCCCATCTCC
1 GACGAAATCAGTCCCCATCTCC
66206 G
1 G
66207 GCAAAATCCG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.22, C:0.44, G:0.16, T:0.18
Consensus pattern (22 bp):
GACGAAATCAGTCCCCATCTCC
Found at i:66213 original size:22 final size:22
Alignment explanation
Indices: 66172--66214 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
66162 GACGACATCC
*
66172 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACAAAATCA
*
66194 GTCCCCATCTCCGGCAAAATC
1 GTCCCCATCTCCGACAAAATC
66215 CGTCTATCTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.26, C:0.42, G:0.14, T:0.19
Consensus pattern (22 bp):
GTCCCCATCTCCGACAAAATCA
Found at i:66625 original size:19 final size:20
Alignment explanation
Indices: 66603--66713 Score: 109
Period size: 20 Copynumber: 5.7 Consensus size: 20
66593 ATCGCAATGT
66603 GATTTT-AGTTTCGCGTTGC
1 GATTTTCAGTTTCGCGTTGC
66622 GATTTTCA-TTTCGCGTTGC
1 GATTTTCAGTTTCGCGTTGC
** **
66641 GATAGTCAAATTCGCGTTGC
1 GATTTTCAGTTTCGCGTTGC
** * *
66661 GATAGTCATTTTCGTGTTGC
1 GATTTTCAGTTTCGCGTTGC
* *
66681 GATTTTCATTTTCGTGTTGC
1 GATTTTCAGTTTCGCGTTGC
*
66701 GATTTTAAGTTTC
1 GATTTTCAGTTTC
66714 AGAAACTATT
Statistics
Matches: 80, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
19 23 0.29
20 57 0.71
ACGTcount: A:0.15, C:0.16, G:0.23, T:0.46
Consensus pattern (20 bp):
GATTTTCAGTTTCGCGTTGC
Found at i:66704 original size:20 final size:20
Alignment explanation
Indices: 66611--66706 Score: 113
Period size: 20 Copynumber: 4.8 Consensus size: 20
66601 GTGATTTTAG
66611 TTTCGCGTTGCGATTTTCA-
1 TTTCGCGTTGCGATTTTCAT
** *
66630 TTTCGCGTTGCGATAGTCAA
1 TTTCGCGTTGCGATTTTCAT
* **
66650 ATTCGCGTTGCGATAGTCAT
1 TTTCGCGTTGCGATTTTCAT
*
66670 TTTCGTGTTGCGATTTTCAT
1 TTTCGCGTTGCGATTTTCAT
*
66690 TTTCGTGTTGCGATTTT
1 TTTCGCGTTGCGATTTT
66707 AAGTTTCAGA
Statistics
Matches: 68, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
19 17 0.25
20 51 0.75
ACGTcount: A:0.14, C:0.18, G:0.23, T:0.46
Consensus pattern (20 bp):
TTTCGCGTTGCGATTTTCAT
Found at i:68455 original size:18 final size:18
Alignment explanation
Indices: 68432--68481 Score: 91
Period size: 18 Copynumber: 2.8 Consensus size: 18
68422 TTTACTCGTA
*
68432 ATTTCAATTAGATTAACC
1 ATTTCACTTAGATTAACC
68450 ATTTCACTTAGATTAACC
1 ATTTCACTTAGATTAACC
68468 ATTTCACTTAGATT
1 ATTTCACTTAGATT
68482 GCTTAGTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.34, C:0.18, G:0.06, T:0.42
Consensus pattern (18 bp):
ATTTCACTTAGATTAACC
Found at i:68654 original size:20 final size:20
Alignment explanation
Indices: 68629--68676 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
68619 TAGTTTACTT
68629 TCGCAACGCGAAAATGACTA
1 TCGCAACGCGAAAATGACTA
* **
68649 TCGCAACACGAATTTGACTA
1 TCGCAACGCGAAAATGACTA
68669 TCGCAACG
1 TCGCAACG
68677 AAAGAATCGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.19
Consensus pattern (20 bp):
TCGCAACGCGAAAATGACTA
Found at i:68773 original size:20 final size:20
Alignment explanation
Indices: 68719--68774 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
68709 GCGATTCTCT
**
68719 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
68739 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
68759 CGTTGCGATAGTCATT
1 CGTTGCGATAGTCATT
68775 CATGTTACGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.36
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:69366 original size:21 final size:21
Alignment explanation
Indices: 69275--69379 Score: 95
Period size: 21 Copynumber: 5.0 Consensus size: 21
69265 GACTCAGCTG
*
69275 TCATCGTTCAAGAGGCCTCCCC
1 TCATCGTTCAAGAGGCC-CCTC
*
69297 T-ATCGTTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGGCCCCTC
** *
69317 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAGGCCCCTC
* * * *
69338 CCACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCCCCTC
* *
69359 TCATCGTTGAAGAGGTCCCTC
1 TCATCGTTCAAGAGGCCCCTC
69380 CCAATATTTT
Statistics
Matches: 63, Mismatches: 19, Indels: 3
0.74 0.22 0.04
Matches are distributed among these distances:
20 3 0.05
21 59 0.94
22 1 0.02
ACGTcount: A:0.21, C:0.37, G:0.19, T:0.23
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:69372 original size:42 final size:42
Alignment explanation
Indices: 69272--69382 Score: 118
Period size: 42 Copynumber: 2.6 Consensus size: 42
69262 CCCGACTCAG
* * * *
69272 CTGTCATCGTTCAAGAGGCCTCC-CCTATCGTTCAAGAGGCCC
1 CTGTCATCGTTCAAGAGTCC-CCTCCCACCGTTCAAGAGGCCA
* **
69314 CTATCATCCCTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCA
1 CTGTCATCGTTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCA
*
69356 CTGTCATCGTTGAAGAGGT-CCCTCCCA
1 CTGTCATCGTTCAAGA-GTCCCCTCCCA
69383 ATATTTTAGA
Statistics
Matches: 56, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
41 2 0.04
42 52 0.93
43 2 0.04
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.23
Consensus pattern (42 bp):
CTGTCATCGTTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCA
Found at i:70560 original size:20 final size:20
Alignment explanation
Indices: 70535--70629 Score: 94
Period size: 20 Copynumber: 5.0 Consensus size: 20
70525 TGTTGTTAAG
70535 TTCGCGTTGCGATAGTCAAA
1 TTCGCGTTGCGATAGTCAAA
70555 TTCGCGTTGCGAT--T----
1 TTCGCGTTGCGATAGTCAAA
* * * *
70569 TTTGAGTTACGATAATCAAA
1 TTCGCGTTGCGATAGTCAAA
*
70589 TTCGTGTTGCGATAGTCAAA
1 TTCGCGTTGCGATAGTCAAA
*
70609 TTCGCGTTGCGATATTCAAA
1 TTCGCGTTGCGATAGTCAAA
70629 T
1 T
70630 GAATGTGTAA
Statistics
Matches: 60, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
14 10 0.17
16 1 0.02
18 1 0.02
20 48 0.80
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.36
Consensus pattern (20 bp):
TTCGCGTTGCGATAGTCAAA
Found at i:70823 original size:18 final size:18
Alignment explanation
Indices: 70800--70834 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
70790 AAGCCGGTTG
*
70800 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
70818 TGATTGCGATTTTGATT
1 TGATTGCGATTTTGATT
70835 GCCTTTTTCT
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:0.17, C:0.03, G:0.26, T:0.54
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:73125 original size:24 final size:24
Alignment explanation
Indices: 73098--73164 Score: 116
Period size: 24 Copynumber: 2.8 Consensus size: 24
73088 ACAAAATCTA
73098 AGTATTGACCAAGACCAAAGTCCG
1 AGTATTGACCAAGACCAAAGTCCG
*
73122 AGTATTGACAAAGACCAAAGTCCG
1 AGTATTGACCAAGACCAAAGTCCG
*
73146 AGTATTGACCAAGATCAAA
1 AGTATTGACCAAGACCAAA
73165 TTTCGAATAC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.42, C:0.21, G:0.19, T:0.18
Consensus pattern (24 bp):
AGTATTGACCAAGACCAAAGTCCG
Found at i:74092 original size:20 final size:20
Alignment explanation
Indices: 73985--74083 Score: 135
Period size: 20 Copynumber: 5.0 Consensus size: 20
73975 GAAATTCAGT
*
73985 GTTGCGACAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCGC
* *
74005 GTTACGATAGTCAGAATCTC
1 GTTGCGATAGTCAGAATCGC
*
74025 GTTGCGATAATCAGAATCGC
1 GTTGCGATAGTCAGAATCGC
*
74045 GTTGCGATAGTCAGAATCAC
1 GTTGCGATAGTCAGAATCGC
* *
74065 ATTGCGATAGTCATAATCG
1 GTTGCGATAGTCAGAATCG
74084 TATTGCGATT
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 68 1.00
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.26
Consensus pattern (20 bp):
GTTGCGATAGTCAGAATCGC
Found at i:74099 original size:20 final size:20
Alignment explanation
Indices: 74085--74151 Score: 134
Period size: 20 Copynumber: 3.4 Consensus size: 20
74075 TCATAATCGT
74085 ATTGCGATTTACATATTCGC
1 ATTGCGATTTACATATTCGC
74105 ATTGCGATTTACATATTCGC
1 ATTGCGATTTACATATTCGC
74125 ATTGCGATTTACATATTCGC
1 ATTGCGATTTACATATTCGC
74145 ATTGCGA
1 ATTGCGA
74152 ATTCGGAAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.25, C:0.19, G:0.16, T:0.39
Consensus pattern (20 bp):
ATTGCGATTTACATATTCGC
Found at i:74108 original size:40 final size:40
Alignment explanation
Indices: 74064--74151 Score: 133
Period size: 40 Copynumber: 2.2 Consensus size: 40
74054 GTCAGAATCA
*
74064 CATTGCGATAGT-CATAATCGTATTGCGATTTACATATTCG
1 CATTGCGAT-GTACATAATCGCATTGCGATTTACATATTCG
* *
74104 CATTGCGATTTACATATTCGCATTGCGATTTACATATTCG
1 CATTGCGATGTACATAATCGCATTGCGATTTACATATTCG
74144 CATTGCGA
1 CATTGCGA
74152 ATTCGGAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
39 1 0.02
40 43 0.98
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.38
Consensus pattern (40 bp):
CATTGCGATGTACATAATCGCATTGCGATTTACATATTCG
Found at i:74172 original size:21 final size:21
Alignment explanation
Indices: 74148--74193 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
74138 TATTCGCATT
74148 GCGAATTCGGAAAATCGCAAC
1 GCGAATTCGGAAAATCGCAAC
* *
74169 GCGAATTTGGAAAATCGCAAT
1 GCGAATTCGGAAAATCGCAAC
74190 GCGA
1 GCGA
74194 TAGTCAGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.37, C:0.20, G:0.26, T:0.17
Consensus pattern (21 bp):
GCGAATTCGGAAAATCGCAAC
Found at i:74721 original size:27 final size:28
Alignment explanation
Indices: 74661--74722 Score: 78
Period size: 27 Copynumber: 2.3 Consensus size: 28
74651 AATTCTAGGT
74661 AATTTAAAGATTTTATGTTTGTTTATAA
1 AATTTAAAGATTTTATGTTTGTTTATAA
74689 AA-TTAACA-ATTTTA-GTTT-TTTAATAA
1 AATTTAA-AGATTTTATGTTTGTTT-ATAA
74715 AATTTAAA
1 AATTTAAA
74723 AAAAAAAACA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
25 3 0.10
26 11 0.35
27 14 0.45
28 3 0.10
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (28 bp):
AATTTAAAGATTTTATGTTTGTTTATAA
Found at i:75043 original size:3 final size:3
Alignment explanation
Indices: 75035--75182 Score: 244
Period size: 3 Copynumber: 49.7 Consensus size: 3
75025 TTTTTATCCA
* *
75035 TAT TAT TAT TAT TAT TAA TAT TAT TAT TAT TAT TAT TAC TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
75083 TAT TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TAC TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
75131 TAT TAT TAT T-T TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
75178 TAT TA
1 TAT TA
75183 AATATATATT
Statistics
Matches: 134, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
2 2 0.01
3 132 0.99
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:76653 original size:18 final size:18
Alignment explanation
Indices: 76630--76668 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
76620 GTTTTAGTAG
76630 TATTTTTATATT-ATTAAA
1 TATTTTTATATTCA-TAAA
76648 TATTTTTATATTCATAAA
1 TATTTTTATATTCATAAA
76666 TAT
1 TAT
76669 ATAATAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 19 0.95
19 1 0.05
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (18 bp):
TATTTTTATATTCATAAA
Found at i:78903 original size:15 final size:14
Alignment explanation
Indices: 78851--78890 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
78841 TTTACGTTTG
* *
78851 TATTTATATTTACA
1 TATTTACATTTGCA
*
78865 TTTTTACATTTGCA
1 TATTTACATTTGCA
78879 TATTTACATTTG
1 TATTTACATTTG
78891 GCATCTTTGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.28, C:0.10, G:0.05, T:0.57
Consensus pattern (14 bp):
TATTTACATTTGCA
Found at i:83924 original size:83 final size:83
Alignment explanation
Indices: 83776--83957 Score: 303
Period size: 83 Copynumber: 2.2 Consensus size: 83
83766 AATGGAACAA
* *
83776 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
1 ATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTTGGCAAAACC
83841 AATCATTGAATTTAGAAG
66 AATCATTGAATTTAGAAG
* *
83859 ATGAATTTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGG-TTGGACAGAAC
1 ATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTTGG-CAAAAC
*
83923 CAATCATTGAATTTGGAAG
65 CAATCATTGAATTTAGAAG
83942 ATGAATTTGCTCATAG
1 ATGAATTTGCTCATAG
83958 TAGAAATAAG
Statistics
Matches: 92, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
82 4 0.04
83 88 0.96
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (83 bp):
ATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTTGGCAAAACC
AATCATTGAATTTAGAAG
Found at i:86584 original size:22 final size:22
Alignment explanation
Indices: 86553--86607 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
86543 ATCTACACTC
*
86553 TTCAAAGATGATAGATTCCCTT
1 TTCAAAGATGACAGATTCCCTT
* *
86575 TTTAAAGATGACAGATTCTCTT
1 TTCAAAGATGACAGATTCCCTT
86597 TTCAAAGATGA
1 TTCAAAGATGA
86608 AAGCTTTATC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.36
Consensus pattern (22 bp):
TTCAAAGATGACAGATTCCCTT
Found at i:87232 original size:113 final size:113
Alignment explanation
Indices: 87014--87794 Score: 1167
Period size: 113 Copynumber: 6.9 Consensus size: 113
87004 AGTTCAAATC
** ** *
87014 CATCATTCAATGGATCAACA-TTCCAGATCAAGTTCATAATGAGAAGAACTCATATGAAGAAGGA
1 CATCATTTGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
87078 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTGAA-T
66 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTGAATT
* * *
87125 CTATTATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGG
1 C-ATCATTTGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
87190 AAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTGAA-T
65 AAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTGAATT
* * * *
87238 CTATTATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAAG
1 C-ATCATTTGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
* * **
87303 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTGAATT
65 AAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTGAATT
* *
87352 CATCATTTGATGGATCAACATTGCCA-AGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
1 CATCATTTGATGGATCAACATTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
*
87416 AAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTA-TCTGAATT
65 AAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACT-TGAATT
* * * **
87465 CATCACTGGATGGATTATATTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
1 CATCATTTGATGGATCA-ACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
*
87530 AAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATT
65 AAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTGAATT
* * * *
87579 CATCAATTGATGAATCAGCCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTTGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
87644 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATT
66 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTGAATT
* * *
87692 CATCAATTGATGAATCAACCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTTGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
**
87757 AGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTT
66 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTT
87795 GTTTGATGCT
Statistics
Matches: 620, Mismatches: 42, Indels: 14
0.92 0.06 0.02
Matches are distributed among these distances:
111 1 0.00
112 18 0.03
113 498 0.80
114 101 0.16
115 2 0.00
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (113 bp):
CATCATTTGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTGAATT
Found at i:87663 original size:340 final size:337
Alignment explanation
Indices: 87014--87794 Score: 1176
Period size: 340 Copynumber: 2.3 Consensus size: 337
87004 AGTTCAAATC
** *
87014 CATCATTCAATGGATCAACATTCC-AGATCAAGTTCATAATGAGAAGAACTCATATGAAGAAGGA
1 CATCATTTGATGGATCAACATTCCAAG-T-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* * *
87078 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTGAATCTATTATTTGATGGATCA
64 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTGAATCTATCACTGGATGGATCA
*
87143 TCATTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATG
129 TCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
* * * * *
87208 AGAAGAATTTGTTCAACCTTTTACTTGAATCTATTATTTGATGGATCATCATTTCCAGAGAAAGT
194 AGAAGAATTTGTTCAACCTTTTACCTGAATCTATCAATTGATGAATCAGCATTTCCAGAGAAAGT
*
87273 TCATAATGAGAAGAACTTATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC
259 TCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC
* ***
87338 TTTTTGTTTGAATT
324 CTTTTACCTGAATT
87352 CATCATTTGATGGATCAACATTGCCAAGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTTGATGGATCAACATT-CCAAGTA-AGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
87417 AGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTA-TCTGAAT-TCATCACTGGATGGAT
64 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACT-TGAATCT-ATCACTGGATGGAT
*
87480 TAT-ATTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
127 CATCA--TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
*
87544 AATGAGAAGAATTTGTTCAACCTTTTACCTGAAT-TCATCAATTGATGAATCAGCCTTTCCAGAG
190 AATGAGAAGAATTTGTTCAACCTTTTACCTGAATCT-ATCAATTGATGAATCAGCATTTCCAGAG
* *
87608 AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGT
254 AAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGT
87673 TCAACCTTTTACCTGAATT
319 TCAACCTTTTACCTGAATT
* * * *
87692 CATCAATTGATGAATCAACCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTTGATGGATCAA-CATTCCA-AGTAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
**
87757 AGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTT
64 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTT
87795 GTTTGATGCT
Statistics
Matches: 404, Mismatches: 29, Indels: 18
0.90 0.06 0.04
Matches are distributed among these distances:
338 24 0.06
339 94 0.23
340 280 0.69
341 6 0.01
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (337 bp):
CATCATTTGATGGATCAACATTCCAAGTAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
AAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTGAATCTATCACTGGATGGATCATC
ATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAG
AAGAATTTGTTCAACCTTTTACCTGAATCTATCAATTGATGAATCAGCATTTCCAGAGAAAGTTC
ATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCT
TTTACCTGAATT
Found at i:88120 original size:3 final size:3
Alignment explanation
Indices: 88112--88263 Score: 250
Period size: 3 Copynumber: 50.7 Consensus size: 3
88102 TTTTTATCCA
* *
88112 TAT TAT TAT TAT TAT TAA TAT TAT TAT TAT TAT TAT TAT TAC TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
88160 TAT TAT TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT TAC TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
88208 TAT TAT TAT TTT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
88256 TAT TAT TA
1 TAT TAT TA
88264 AATATATATT
Statistics
Matches: 137, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 137 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:89733 original size:18 final size:18
Alignment explanation
Indices: 89710--89748 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
89700 GTTTTAGTAG
89710 TATTTTTATATT-ATTAAA
1 TATTTTTATATTCA-TAAA
89728 TATTTTTATATTCATAAA
1 TATTTTTATATTCATAAA
89746 TAT
1 TAT
89749 ATAATAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 19 0.95
19 1 0.05
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (18 bp):
TATTTTTATATTCATAAA
Found at i:90602 original size:35 final size:35
Alignment explanation
Indices: 90556--90646 Score: 173
Period size: 35 Copynumber: 2.6 Consensus size: 35
90546 AATTAAGTTG
*
90556 TATCTTTTCTTCAATTAATTAGAGGCTAACTATGC
1 TATCTTTTCTTCAATTAATTAGAGGCTAAATATGC
90591 TATCTTTTCTTCAATTAATTAGAGGCTAAATATGC
1 TATCTTTTCTTCAATTAATTAGAGGCTAAATATGC
90626 TATCTTTTCTTCAATTAATTA
1 TATCTTTTCTTCAATTAATTA
90647 CCTCGTTATT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 55 1.00
ACGTcount: A:0.30, C:0.15, G:0.09, T:0.46
Consensus pattern (35 bp):
TATCTTTTCTTCAATTAATTAGAGGCTAAATATGC
Found at i:97762 original size:15 final size:15
Alignment explanation
Indices: 97744--97775 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
97734 TTTAAAACTT
*
97744 AATATTTTTTTTAAA
1 AATATGTTTTTTAAA
97759 AATATGTTTTTTAAA
1 AATATGTTTTTTAAA
97774 AA
1 AA
97776 GTATAAATGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (15 bp):
AATATGTTTTTTAAA
Found at i:98363 original size:36 final size:35
Alignment explanation
Indices: 98288--98367 Score: 101
Period size: 35 Copynumber: 2.3 Consensus size: 35
98278 ACACAATCAT
*
98288 CAATTACATTATAAACCCTAAATTCCAAAATACTT
1 CAATTACATTATAAACCCTAAATTCCAAAATACTC
*
98323 CAATTACATTCTAAA-CCTCAAATTCCAAAAATA-TGC
1 CAATTACATTATAAACCCT-AAATTCC-AAAATACT-C
98359 CAATTACAT
1 CAATTACAT
98368 AACCAACCCC
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
34 3 0.08
35 22 0.55
36 15 0.38
ACGTcount: A:0.45, C:0.24, G:0.01, T:0.30
Consensus pattern (35 bp):
CAATTACATTATAAACCCTAAATTCCAAAATACTC
Found at i:98642 original size:35 final size:35
Alignment explanation
Indices: 98603--98698 Score: 122
Period size: 35 Copynumber: 2.7 Consensus size: 35
98593 AATGGATTGT
*
98603 GAATTT-AGGGTTGGACATATAATTGAAGTATTTTG
1 GAATTTGAGGGTTAGA-ATATAATTGAAGTATTTTG
*
98638 GAATTTGAGGTTTAGAATATAATTGAAGTATTTTG
1 GAATTTGAGGGTTAGAATATAATTGAAGTATTTTG
* * * *
98673 GATTTTGTGGTTTAGAATGTAATTGA
1 GAATTTGAGGGTTAGAATATAATTGA
98699 TTAACGTGTT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
35 48 0.87
36 7 0.13
ACGTcount: A:0.31, C:0.01, G:0.25, T:0.43
Consensus pattern (35 bp):
GAATTTGAGGGTTAGAATATAATTGAAGTATTTTG
Found at i:101325 original size:23 final size:22
Alignment explanation
Indices: 101267--101336 Score: 70
Period size: 23 Copynumber: 3.1 Consensus size: 22
101257 CTCAAATGAA
*
101267 AATTAAATAAAAACATTAAAAACT
1 AATTAAAT-AAAATATTAAAAA-T
* *
101291 AAAT-AATAAAATAATAAAAAT
1 AATTAAATAAAATATTAAAAAT
*
101312 AATTAAATAGAAATATTAAATAT
1 AATTAAATA-AAATATTAAAAAT
101335 AA
1 AA
101337 ACGTTACAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
21 4 0.11
22 15 0.39
23 16 0.42
24 3 0.08
ACGTcount: A:0.69, C:0.03, G:0.01, T:0.27
Consensus pattern (22 bp):
AATTAAATAAAATATTAAAAAT
Found at i:101409 original size:44 final size:44
Alignment explanation
Indices: 101361--101479 Score: 215
Period size: 44 Copynumber: 2.8 Consensus size: 44
101351 ATAATTAAAT
*
101361 AATAAAAATATTAAGAAACAAAATAAATAAAAAGTCCATAATTA
1 AATAAAAACATTAAGAAACAAAATAAATAAAAAGTCCATAATTA
101405 AATAAAAACATTAAGAAACAAAATAAAT-AAAAGTCCATAATTA
1 AATAAAAACATTAAGAAACAAAATAAATAAAAAGTCCATAATTA
101448 AAT-AAAACATTAAGAAACAAAATAAATAAAAA
1 AATAAAAACATTAAGAAACAAAATAAATAAAAA
101480 CATATCTATC
Statistics
Matches: 73, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
42 24 0.33
43 22 0.30
44 27 0.37
ACGTcount: A:0.68, C:0.08, G:0.04, T:0.20
Consensus pattern (44 bp):
AATAAAAACATTAAGAAACAAAATAAATAAAAAGTCCATAATTA
Found at i:101468 original size:42 final size:43
Alignment explanation
Indices: 101361--101478 Score: 211
Period size: 42 Copynumber: 2.7 Consensus size: 43
101351 ATAATTAAAT
*
101361 AATAAAAATATTAAGAAACAAAATAAATAAAAAGTCCATAATTA
1 AATAAAAACATTAAGAAACAAAATAAAT-AAAAGTCCATAATTA
101405 AATAAAAACATTAAGAAACAAAATAAATAAAAGTCCATAATTA
1 AATAAAAACATTAAGAAACAAAATAAATAAAAGTCCATAATTA
101448 AAT-AAAACATTAAGAAACAAAATAAATAAAA
1 AATAAAAACATTAAGAAACAAAATAAATAAAA
101479 ACATATCTAT
Statistics
Matches: 73, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
42 28 0.38
43 18 0.25
44 27 0.37
ACGTcount: A:0.68, C:0.08, G:0.04, T:0.20
Consensus pattern (43 bp):
AATAAAAACATTAAGAAACAAAATAAATAAAAGTCCATAATTA
Found at i:104422 original size:20 final size:20
Alignment explanation
Indices: 104397--104448 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
104387 AACAAGAAAA
*
104397 AAATGACAAAACCGGTTTAT
1 AAATGACAAAACCGGTCTAT
104417 AAATGACAAAACCGGTCTAT
1 AAATGACAAAACCGGTCTAT
104437 AAATGACAAAAC
1 AAATGACAAAAC
104449 TGGTAAAGCG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.50, C:0.17, G:0.13, T:0.19
Consensus pattern (20 bp):
AAATGACAAAACCGGTCTAT
Found at i:104719 original size:113 final size:112
Alignment explanation
Indices: 104417--104714 Score: 485
Period size: 113 Copynumber: 2.7 Consensus size: 112
104407 ACCGGTTTAT
*
104417 AAATGACAAAACCGGTCTATAAATGACAAAACTGGTAAAGCGCTACCGGATATATTGAAAGTGTC
1 AAATGACAAAACCGGTCTATAAATGACAAAACTGGTAAAGCGCTACCGAATATATTGAAAGTGTC
104482 GATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAA
66 GATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGT-AAAA
* *
104530 AAAAGACAAAACCGGTCTATAAATGACAAAACAGGTAAAGCGCTACC-AGATATATTGAAAGTGT
1 AAATGACAAAACCGGTCTATAAATGACAAAACTGGTAAAGCGCTACCGA-ATATATTGAAAGTGT
*
104594 CGATACTTTATAAAAATGTATCGATCCATAATAATATAACAGGT-AAA
65 CGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAA
* * *
104641 AAATGACGAAACCGGTCTATAAATGACAAAACTGGTAAA-CGCTACCGAATATGTTGATAGTGTC
1 AAATGACAAAACCGGTCTATAAATGACAAAACTGGTAAAGCGCTACCGAATATATTGAAAGTGTC
*
104705 GATATTTTAT
66 GATACTTTAT
104715 TATAAGTATC
Statistics
Matches: 173, Mismatches: 10, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
110 30 0.17
111 40 0.23
113 103 0.60
ACGTcount: A:0.44, C:0.15, G:0.16, T:0.25
Consensus pattern (112 bp):
AAATGACAAAACCGGTCTATAAATGACAAAACTGGTAAAGCGCTACCGAATATATTGAAAGTGTC
GATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAA
Found at i:104941 original size:181 final size:180
Alignment explanation
Indices: 104587--105033 Score: 711
Period size: 181 Copynumber: 2.5 Consensus size: 180
104577 AGATATATTG
* *
104587 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAATAATATAACAGGTAAAAA-ATGACGAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
** * * * * *
104651 ACCGGTCTATAAATGACAAAACTGGTAAACGCTACCGAATATGTTGATAGTGTCGATATTTTATT
66 ACC-GTCTCGAAATGACAAAACCGGTAAAAGCAACCGAATATGTTGAAAGTGTCGATACTTTATT
** *
104716 ATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCG-CTAAT
130 ATAAGTATCGACACTTTTAAAATTTAAAAGAAAAGAAGTTATAGCGTC-AAT
104767 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
104832 ACCGTCTCGAAATGACAAAACCGGTAAAAAGCAACC-AGATATGTTGAAAGTGTCGATACTTTAT
66 ACCGTCTCGAAATGACAAAACCGGT-AAAAGCAACCGA-ATATGTTGAAAGTGTCGATACTTTAT
104896 TATAAGTATCGACACTTTTAAAATTTAAAAGAAAAGAAGTTATAGCGTCAAT
129 TATAAGTATCGACACTTTTAAAATTTAAAAGAAAAGAAGTTATAGCGTCAAT
104948 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
*
105013 ATCGATCTCGAAATGACAAAA
66 ACCG-TCTCGAAATGACAAAA
105034 TCGATAGTAA
Statistics
Matches: 249, Mismatches: 13, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
180 75 0.30
181 157 0.63
182 17 0.07
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.27
Consensus pattern (180 bp):
AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
ACCGTCTCGAAATGACAAAACCGGTAAAAGCAACCGAATATGTTGAAAGTGTCGATACTTTATTA
TAAGTATCGACACTTTTAAAATTTAAAAGAAAAGAAGTTATAGCGTCAAT
Found at i:105500 original size:23 final size:23
Alignment explanation
Indices: 105471--105518 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
105461 AAATAAGTCA
*
105471 ATATAAACGCTACCTATTACATT
1 ATATAAACGCTACCTAATACATT
*
105494 ATATAAACGCTACCTAATATATT
1 ATATAAACGCTACCTAATACATT
105517 AT
1 AT
105519 TGTACTTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.42, C:0.19, G:0.04, T:0.35
Consensus pattern (23 bp):
ATATAAACGCTACCTAATACATT
Found at i:108810 original size:72 final size:72
Alignment explanation
Indices: 108693--108836 Score: 288
Period size: 72 Copynumber: 2.0 Consensus size: 72
108683 CACTAGCCTT
108693 TTGTTGTAGGACCGGGCATCGGCATTCTCGTCCTCCAAACATCATCGATCAAAGGGTTTAAGTCT
1 TTGTTGTAGGACCGGGCATCGGCATTCTCGTCCTCCAAACATCATCGATCAAAGGGTTTAAGTCT
108758 TTCCGTA
66 TTCCGTA
108765 TTGTTGTAGGACCGGGCATCGGCATTCTCGTCCTCCAAACATCATCGATCAAAGGGTTTAAGTCT
1 TTGTTGTAGGACCGGGCATCGGCATTCTCGTCCTCCAAACATCATCGATCAAAGGGTTTAAGTCT
108830 TTCCGTA
66 TTCCGTA
108837 ATTAGGACCG
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 72 1.00
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.31
Consensus pattern (72 bp):
TTGTTGTAGGACCGGGCATCGGCATTCTCGTCCTCCAAACATCATCGATCAAAGGGTTTAAGTCT
TTCCGTA
Found at i:113406 original size:13 final size:13
Alignment explanation
Indices: 113388--113470 Score: 66
Period size: 12 Copynumber: 6.7 Consensus size: 13
113378 AATTGGCCTG
*
113388 TAAAAATGATTAA
1 TAAAAATAATTAA
113401 TAAAAATAATTAA
1 TAAAAATAATTAA
**
113414 TAAACCTAA-TAA
1 TAAAAATAATTAA
*
113426 TAATAATAA-TAA
1 TAAAAATAATTAA
* *
113438 TAATAA-AATTTA
1 TAAAAATAATTAA
*
113450 TATAAATAA-TAA
1 TAAAAATAATTAA
*
113462 TAATAATAA
1 TAAAAATAA
113471 AAAAGACCCG
Statistics
Matches: 56, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
11 2 0.04
12 33 0.59
13 21 0.38
ACGTcount: A:0.64, C:0.02, G:0.01, T:0.33
Consensus pattern (13 bp):
TAAAAATAATTAA
Found at i:113428 original size:3 final size:3
Alignment explanation
Indices: 113398--113470 Score: 62
Period size: 3 Copynumber: 24.0 Consensus size: 3
113388 TAAAAATGAT
* *
113398 TAA TAA AAA TAA TTAA TAA -ACC TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA -TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
*
113444 -AA T-T TATA TAAA TAA TAA TAA TAA TAA
1 TAA TAA TA-A T-AA TAA TAA TAA TAA TAA
113471 AAAAGACCCG
Statistics
Matches: 57, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
2 4 0.07
3 45 0.79
4 7 0.12
5 1 0.02
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:113721 original size:40 final size:40
Alignment explanation
Indices: 113661--113765 Score: 138
Period size: 40 Copynumber: 2.6 Consensus size: 40
113651 CGTCTAAAGG
* * * *
113661 TGACACGGCTCCTACGTGATGAGGAAATCTAGTCAAGGGA
1 TGACACTGCTCATACATGATGAAGAAATCTAGTCAAGGGA
** * *
113701 TGACACTGCTCATACATGATGAAGAGTTTTGGTCAAGGGA
1 TGACACTGCTCATACATGATGAAGAAATCTAGTCAAGGGA
113741 TGACACTGCTCATACATGATGAAGA
1 TGACACTGCTCATACATGATGAAGA
113766 GTTCTGGTCA
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 57 1.00
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (40 bp):
TGACACTGCTCATACATGATGAAGAAATCTAGTCAAGGGA
Found at i:113766 original size:40 final size:40
Alignment explanation
Indices: 113692--113775 Score: 159
Period size: 40 Copynumber: 2.1 Consensus size: 40
113682 AGGAAATCTA
*
113692 GTCAAGGGATGACACTGCTCATACATGATGAAGAGTTTTG
1 GTCAAGGGATGACACTGCTCATACATGATGAAGAGTTCTG
113732 GTCAAGGGATGACACTGCTCATACATGATGAAGAGTTCTG
1 GTCAAGGGATGACACTGCTCATACATGATGAAGAGTTCTG
113772 GTCA
1 GTCA
113776 TATTTAGGAG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (40 bp):
GTCAAGGGATGACACTGCTCATACATGATGAAGAGTTCTG
Found at i:113890 original size:40 final size:40
Alignment explanation
Indices: 113831--113908 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
113821 TGGTTATCTA
* *
113831 GGATGACACGGCTCCTACGTGATGAGGAGGTCTGGTCAGG
1 GGATGACACGGCTCATACGTGATGAAGAGGTCTGGTCAGG
* * *
113871 GGATGGCACTGCTCATACGTGATGAAGAGTTCTGGTCA
1 GGATGACACGGCTCATACGTGATGAAGAGGTCTGGTCA
113909 TCTTTAGGTA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.22, C:0.19, G:0.36, T:0.23
Consensus pattern (40 bp):
GGATGACACGGCTCATACGTGATGAAGAGGTCTGGTCAGG
Found at i:113899 original size:133 final size:134
Alignment explanation
Indices: 113698--114012 Score: 481
Period size: 133 Copynumber: 2.4 Consensus size: 134
113688 TCTAGTCAAG
* * * * * * *
113698 GGATGACACTGCTCATACATGATGAAGAGTTTTGGTCAAGGGATGACACTGCTCATACATGATGA
1 GGATGACACGGCTCCTACGTGATGAGGAGATCTGGTCAGGGGATGACACTGCTCATACATGATGA
* *
113763 AGAGTTCTGGTCATATTTAGG-AGGAGTGATAACACGATTCCTACGTGATGAGGACGGCTGGTTA
66 AGAGTTCTGGTCATATTTAGGTAGG-GCGATAACACGATTCCTACGTGATGAGGACGACTGGTTA
113827 TCTA-
130 TCTAT
* * *
113831 GGATGACACGGCTCCTACGTGATGAGGAGGTCTGGTCAGGGGATGGCACTGCTCATACGTGATGA
1 GGATGACACGGCTCCTACGTGATGAGGAGATCTGGTCAGGGGATGACACTGCTCATACATGATGA
*
113896 AGAGTTCTGGTCATCTTTAGGTAGGGCGATAACACGATTCCTACGTGATGAGGACGACTGGTTAT
66 AGAGTTCTGGTCATATTTAGGTAGGGCGATAACACGATTCCTACGTGATGAGGACGACTGGTTAT
113961 CTAT
131 CTAT
*
113965 GGTTGACACGGCTCCTACGTGATGAGGAGATCTGGTCAGGGGATGACA
1 GGATGACACGGCTCCTACGTGATGAGGAGATCTGGTCAGGGGATGACA
114013 TGATTCCTAC
Statistics
Matches: 165, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
133 117 0.71
134 48 0.29
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.26
Consensus pattern (134 bp):
GGATGACACGGCTCCTACGTGATGAGGAGATCTGGTCAGGGGATGACACTGCTCATACATGATGA
AGAGTTCTGGTCATATTTAGGTAGGGCGATAACACGATTCCTACGTGATGAGGACGACTGGTTAT
CTAT
Found at i:113988 original size:43 final size:43
Alignment explanation
Indices: 113934--114083 Score: 186
Period size: 43 Copynumber: 3.6 Consensus size: 43
113924 ATAACACGAT
113934 TCCTACGTGATGAGGACGA-CTGGTTATCTATGGTTGACACGGC
1 TCCTACGTGATGAGGA-GATCTGGTTATCTATGGTTGACACGGC
* * * **
113977 TCCTACGTGATGAGGAGATCTGG---TC-AGGGGATGACATGAT
1 TCCTACGTGATGAGGAGATCTGGTTATCTA-TGGTTGACACGGC
114017 TCCTACGTGATGAGGACGA-CTGGTTATCTATGGTTGACACGGC
1 TCCTACGTGATGAGGA-GATCTGGTTATCTATGGTTGACACGGC
114060 TCCTACGTGATGAGGAGATCTGGT
1 TCCTACGTGATGAGGAGATCTGGT
114084 CAGGGGATGA
Statistics
Matches: 89, Mismatches: 10, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
39 1 0.01
40 30 0.34
41 2 0.02
42 4 0.04
43 51 0.57
44 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.32, T:0.27
Consensus pattern (43 bp):
TCCTACGTGATGAGGAGATCTGGTTATCTATGGTTGACACGGC
Found at i:114023 original size:40 final size:40
Alignment explanation
Indices: 113977--114115 Score: 174
Period size: 40 Copynumber: 3.4 Consensus size: 40
113967 TTGACACGGC
113977 TCCTACGTGATGAGGAGATCTGGTCAGGGGATGACATGAT
1 TCCTACGTGATGAGGAGATCTGGTCAGGGGATGACATGAT
* * * **
114017 TCCTACGTGATGAGGACGA-CTGGTTATCTA-TGGTTGACACGGC
1 TCCTACGTGATGAGGA-GATCTGG---TC-AGGGGATGACATGAT
114060 TCCTACGTGATGAGGAGATCTGGTCAGGGGATGACATGAT
1 TCCTACGTGATGAGGAGATCTGGTCAGGGGATGACATGAT
114100 TCCTACGTGATGAGGA
1 TCCTACGTGATGAGGA
114116 CGACTGGCCA
Statistics
Matches: 82, Mismatches: 10, Indels: 14
0.77 0.09 0.13
Matches are distributed among these distances:
39 1 0.01
40 46 0.56
41 2 0.02
42 2 0.02
43 30 0.37
44 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.26
Consensus pattern (40 bp):
TCCTACGTGATGAGGAGATCTGGTCAGGGGATGACATGAT
Found at i:114070 original size:83 final size:83
Alignment explanation
Indices: 113931--114122 Score: 384
Period size: 83 Copynumber: 2.3 Consensus size: 83
113921 GCGATAACAC
113931 GATTCCTACGTGATGAGGACGACTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAGGAGAT
1 GATTCCTACGTGATGAGGACGACTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAGGAGAT
113996 CTGGTCAGGGGATGACAT
66 CTGGTCAGGGGATGACAT
114014 GATTCCTACGTGATGAGGACGACTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAGGAGAT
1 GATTCCTACGTGATGAGGACGACTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAGGAGAT
114079 CTGGTCAGGGGATGACAT
66 CTGGTCAGGGGATGACAT
114097 GATTCCTACGTGATGAGGACGACTGG
1 GATTCCTACGTGATGAGGACGACTGG
114123 CCATCTCTAG
Statistics
Matches: 109, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 109 1.00
ACGTcount: A:0.23, C:0.18, G:0.33, T:0.26
Consensus pattern (83 bp):
GATTCCTACGTGATGAGGACGACTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAGGAGAT
CTGGTCAGGGGATGACAT
Found at i:114274 original size:35 final size:35
Alignment explanation
Indices: 114234--114307 Score: 123
Period size: 35 Copynumber: 2.1 Consensus size: 35
114224 GACAAAATTC
*
114234 GTTTCAAGGGAAAC-GATCTCAAAGATATTTGCTTT
1 GTTTCAAGGGAAACAAAT-TCAAAGATATTTGCTTT
114269 GTTTCAAGGGAAACAAATTCAAAGATATTTGCTTT
1 GTTTCAAGGGAAACAAATTCAAAGATATTTGCTTT
114304 GTTT
1 GTTT
114308 TTCAGAAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
35 35 0.95
36 2 0.05
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.36
Consensus pattern (35 bp):
GTTTCAAGGGAAACAAATTCAAAGATATTTGCTTT
Found at i:115094 original size:52 final size:52
Alignment explanation
Indices: 115032--115267 Score: 178
Period size: 52 Copynumber: 4.8 Consensus size: 52
115022 TAAGATTTTT
*
115032 TTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGACTCAAAGATTC
1 TTCACGAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGACTCAAAGATTC
* * ***
115084 TTCACGAAATTGTCTTAAGAGAGACAAAACTTTGTTTCAAAAGAAATAGA--C
1 TTCACGAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGACTCAA-AGATTC
* ** * * * ** *
115135 -TCAAAGATTTTTGTTTCAA-A-AGA-AACAA-----TCTCA-A---AGATTTTT
1 TTC-ACGA-AATTGTCTCAAGAGAGACAA-AACTTTGTTTCAGACTCAAAGATTC
*
115177 TTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGACTCAAAGATTC
1 TTCACGAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGACTCAAAGATTC
*
115229 TTCACGAAATTGTCTTAAGAGAGACAAAACTTTGTTTCA
1 TTCACGAAATTGTCTCAAGAGAGACAAAACTTTGTTTCA
115268 AAAGAAATAG
Statistics
Matches: 137, Mismatches: 28, Indels: 38
0.67 0.14 0.19
Matches are distributed among these distances:
40 1 0.01
41 9 0.07
42 3 0.02
43 7 0.05
44 3 0.02
45 4 0.03
48 4 0.03
49 3 0.02
50 7 0.05
51 5 0.04
52 88 0.64
53 3 0.02
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (52 bp):
TTCACGAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGACTCAAAGATTC
Found at i:115148 original size:30 final size:30
Alignment explanation
Indices: 115114--115176 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
115104 GAGACAAAAC
*
115114 TTTGTTTCAAAAGAAATAGA-CTCAAAGATT
1 TTTGTTTCAAAAGAAACA-ATCTCAAAGATT
115144 TTTGTTTCAAAAGAAACAATCTCAAAGATT
1 TTTGTTTCAAAAGAAACAATCTCAAAGATT
115174 TTT
1 TTT
115177 TTCACAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 1 0.03
30 30 0.97
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.37
Consensus pattern (30 bp):
TTTGTTTCAAAAGAAACAATCTCAAAGATT
Found at i:115185 original size:30 final size:30
Alignment explanation
Indices: 115114--115185 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 30
115104 GAGACAAAAC
* *
115114 TTTGTTTCAAAAGAAATAGACTCAAAGATT
1 TTTGTTACAAAAGAAACAGACTCAAAGATT
*
115144 TTTGTTTCAAAAGAAACA-ATCTCAAAGATT
1 TTTGTTACAAAAGAAACAGA-CTCAAAGATT
115174 TTT-TTCACAAAA
1 TTTGTT-ACAAAA
115186 TTGTCTCAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
29 3 0.08
30 35 0.92
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.35
Consensus pattern (30 bp):
TTTGTTACAAAAGAAACAGACTCAAAGATT
Found at i:115331 original size:31 final size:30
Alignment explanation
Indices: 115259--115326 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
115249 GAGACAAAAC
* *
115259 TTTGTTTCAAAAGAAATAGACTCAAATATT
1 TTTGTTTCAAAAGAAACAGACTCAAAGATT
115289 TTTGTTTCAAAAGAAACA-ATCTCAAAGATT
1 TTTGTTTCAAAAGAAACAGA-CTCAAAGATT
115319 TTT-TTTCA
1 TTTGTTTCA
115327 CAAAATTGTC
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
29 6 0.17
30 29 0.83
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.40
Consensus pattern (30 bp):
TTTGTTTCAAAAGAAACAGACTCAAAGATT
Found at i:115461 original size:146 final size:145
Alignment explanation
Indices: 114953--115418 Score: 828
Period size: 145 Copynumber: 3.2 Consensus size: 145
114943 AAAGAAAATA
* * * *
114953 TCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACA-ACTCAAAGATTTTTGTTTCAAAAGAAAT
1 TCTTAAGAGAGACAAAACTTTGTTTCAAAAGAAATAGACTCAAAGATTTTTGTTTCAAAAGAAAC
* *
115017 TATCT-TAAGATTTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGACTCAAAGA
66 AATCTCAAAGATTTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGACTCAAAGA
115081 TTCTTCACGAAATTG
131 TTCTTCACGAAATTG
115096 TCTTAAGAGAGACAAAACTTTGTTTCAAAAGAAATAGACTCAAAGATTTTTGTTTCAAAAGAAAC
1 TCTTAAGAGAGACAAAACTTTGTTTCAAAAGAAATAGACTCAAAGATTTTTGTTTCAAAAGAAAC
115161 AATCTCAAAGATTTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGACTCAAAGA
66 AATCTCAAAGATTTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGACTCAAAGA
115226 TTCTTCACGAAATTG
131 TTCTTCACGAAATTG
*
115241 TCTTAAGAGAGACAAAACTTTGTTTCAAAAGAAATAGACTCAAATATTTTTGTTTCAAAAGAAAC
1 TCTTAAGAGAGACAAAACTTTGTTTCAAAAGAAATAGACTCAAAGATTTTTGTTTCAAAAGAAAC
*
115306 AATCTCAAAGATTTTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGACTTAAAG
66 AATCTCAAAGA-TTTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGACTCAAAG
115371 ATTCTTCACGAAATTG
130 ATTCTTCACGAAATTG
*
115387 TCTTAAGAGAGACAAAACTTTGTTTTAAAAGA
1 TCTTAAGAGAGACAAAACTTTGTTTCAAAAGA
115419 TTCAAAGATT
Statistics
Matches: 311, Mismatches: 9, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
143 33 0.11
144 31 0.10
145 148 0.48
146 99 0.32
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.32
Consensus pattern (145 bp):
TCTTAAGAGAGACAAAACTTTGTTTCAAAAGAAATAGACTCAAAGATTTTTGTTTCAAAAGAAAC
AATCTCAAAGATTTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGACTCAAAGA
TTCTTCACGAAATTG
Found at i:115708 original size:36 final size:36
Alignment explanation
Indices: 115624--115727 Score: 133
Period size: 36 Copynumber: 3.0 Consensus size: 36
115614 GAGAAAATGA
* *
115624 TGTCTCAAGCGAGACAAAATTTG-CTTTA-AGATAT
1 TGTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAAT
* **
115658 AGTCTCAAATGAGACAAAATTTGTTTTTAGAGAAAT
1 TGTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAAT
*
115694 TGTCTCAAGCGAGACAAAGTTTGTTTTT-GAGAAA
1 TGTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAA
115728 ACGATCTCAA
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
34 20 0.34
35 10 0.17
36 29 0.49
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.33
Consensus pattern (36 bp):
TGTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAAT
Found at i:115755 original size:36 final size:36
Alignment explanation
Indices: 115625--115743 Score: 120
Period size: 36 Copynumber: 3.4 Consensus size: 36
115615 AGAAAATGAT
* * *
115625 GTCTCAAGCGAGACAAAATTTG-CTTTA-AGATATA-
1 GTCTCAAGTGAGACAAAATTTGTTTTTAGAGA-AAAC
* **
115659 GTCTCAAATGAGACAAAATTTGTTTTTAGAGAAATT
1 GTCTCAAGTGAGACAAAATTTGTTTTTAGAGAAAAC
* *
115695 GTCTCAAGCGAGACAAAGTTTGTTTTT-GAGAAAAC
1 GTCTCAAGTGAGACAAAATTTGTTTTTAGAGAAAAC
115730 GATCTCAAGTGAGA
1 G-TCTCAAGTGAGA
115744 TCAACTTTGT
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
34 20 0.29
35 12 0.17
36 38 0.54
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (36 bp):
GTCTCAAGTGAGACAAAATTTGTTTTTAGAGAAAAC
Found at i:115874 original size:105 final size:101
Alignment explanation
Indices: 115695--115927 Score: 276
Period size: 105 Copynumber: 2.3 Consensus size: 101
115685 TAGAGAAATT
*
115695 GTCTCAAGCGAGAC-AAAGTTTGTTTTTGAGAAAACGATCTCAAGTGAGATCAACTTTGTTTAAT
1 GTCTCAAGCGAGACGAAA-TTTG-TTTTGAGAAAACAATCTCAAGTGAGATCAACTTTGTTTAAT
* *
115759 GTGAAACAAATTCGAAA-TTTGGATCTCCAAGGGAAAAG
64 GTGAAACAAATTC-AAATTTTGGATCTCAAAGGAAAAAG
* *
115797 GTCTCAAGCGAGACGAAATTTGTTTTGAAAGAAACAACAATCT-AAGGTGAGATTAATTTTGTTT
1 GTCTCAAGCGAGACGAAATTTGTTTTG--AG-AA-AACAATCTCAA-GTGAGATCAACTTTG-TT
* * *
115861 TAA-GTGAATCAAATTCAAATTTTGTATCTCAAAGGAAAAAT
60 TAATGTGAAACAAATTCAAATTTTGGATCTCAAAGGAAAAAG
*
115902 GTCTCAAGCGAGACGCAATTTGTTTT
1 GTCTCAAGCGAGACGAAATTTGTTTT
115928 AAAATTCTCA
Statistics
Matches: 114, Mismatches: 9, Indels: 13
0.84 0.07 0.10
Matches are distributed among these distances:
101 5 0.04
102 18 0.16
103 5 0.04
104 7 0.06
105 74 0.65
106 5 0.04
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (101 bp):
GTCTCAAGCGAGACGAAATTTGTTTTGAGAAAACAATCTCAAGTGAGATCAACTTTGTTTAATGT
GAAACAAATTCAAATTTTGGATCTCAAAGGAAAAAG
Found at i:119704 original size:31 final size:32
Alignment explanation
Indices: 119648--119709 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
119638 TGACAAAATG
119648 ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
1 ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
119680 ACACAAACAAAAGAGAA-AAATAAGTTAGTA
1 ACACAAACAAAAGAGAAGAAATAAGTTAGTA
119710 CATGTAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.43
32 17 0.57
ACGTcount: A:0.61, C:0.10, G:0.15, T:0.15
Consensus pattern (32 bp):
ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
Found at i:123565 original size:13 final size:13
Alignment explanation
Indices: 123547--123632 Score: 63
Period size: 13 Copynumber: 6.5 Consensus size: 13
123537 AATTGGCCTG
*
123547 TAAAAATGATTAA
1 TAAAAATAATTAA
123560 TAAAAATAATTAA
1 TAAAAATAATTAA
123573 TAAACCTAATAA-TAA
1 TAAA---AATAATTAA
*
123588 TAATAATAA-TAA
1 TAAAAATAATTAA
*
123600 TAATAAA-ATTTATA
1 TAA-AAATAATTA-A
123614 TAAATAATAA-TAA
1 TAAA-AATAATTAA
123627 TAAAAA
1 TAAAAA
123633 AGACCCGGAC
Statistics
Matches: 60, Mismatches: 5, Indels: 17
0.73 0.06 0.21
Matches are distributed among these distances:
12 14 0.23
13 26 0.43
14 8 0.13
15 7 0.12
16 5 0.08
ACGTcount: A:0.65, C:0.02, G:0.01, T:0.31
Consensus pattern (13 bp):
TAAAAATAATTAA
Found at i:123587 original size:3 final size:3
Alignment explanation
Indices: 123557--123629 Score: 62
Period size: 3 Copynumber: 24.0 Consensus size: 3
123547 TAAAAATGAT
* *
123557 TAA TAA AAA TAA TTAA TAA -ACC TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA -TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
*
123603 TAA -AA T-T TATA TAAA TAA TAA TAA TAA
1 TAA TAA TAA TA-A T-AA TAA TAA TAA TAA
123630 AAAAGACCCG
Statistics
Matches: 57, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
2 4 0.07
3 45 0.79
4 7 0.12
5 1 0.02
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:124446 original size:15 final size:16
Alignment explanation
Indices: 124415--124470 Score: 57
Period size: 15 Copynumber: 3.7 Consensus size: 16
124405 ACAACTAAGT
*
124415 ATATATAATATTTATAC
1 ATATATAA-ATATATAC
124432 ATATATAAATA-ATAC
1 ATATATAAATATATAC
*
124447 A-A-ATAAATATCTA-
1 ATATATAAATATATAC
124460 ATATATAAATA
1 ATATATAAATA
124471 GTAGCTAAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
13 8 0.24
14 4 0.12
15 12 0.35
16 2 0.06
17 8 0.24
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (16 bp):
ATATATAAATATATAC
Found at i:126276 original size:24 final size:24
Alignment explanation
Indices: 126249--126306 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
126239 TCAATATTGG
* *
126249 TATCCATACTTGCATCAATACTAC
1 TATCAATACTTGCATCAATACTAA
* *
126273 TATCAATACCTGCATCTATACTAA
1 TATCAATACTTGCATCAATACTAA
126297 TATCAATACT
1 TATCAATACT
126307 GTCCAATACC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.36, C:0.26, G:0.03, T:0.34
Consensus pattern (24 bp):
TATCAATACTTGCATCAATACTAA
Found at i:129582 original size:35 final size:35
Alignment explanation
Indices: 129543--129615 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
129533 ATATAAATCG
129543 AATAAATTTTAGTTTATATACATATATCTTACTGT
1 AATAAATTTTAGTTTATATACATATATCTTACTGT
*
129578 AATAAATTTTAGTTTATATACATATATCTTATTGT
1 AATAAATTTTAGTTTATATACATATATCTTACTGT
129613 AAT
1 AAT
129616 GAATAAAATA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.38, C:0.07, G:0.05, T:0.49
Consensus pattern (35 bp):
AATAAATTTTAGTTTATATACATATATCTTACTGT
Found at i:136056 original size:23 final size:23
Alignment explanation
Indices: 135988--136075 Score: 99
Period size: 23 Copynumber: 3.8 Consensus size: 23
135978 AGCTCATATA
*
135988 AATTACACCGAAGTGCCACGTAG
1 AATTGCACCGAAGTGCCACGTAG
*
136011 AATTTGTC-CCGAAG-GACCGCGTAG
1 AA-TTG-CACCGAAGTG-CCACGTAG
*
136035 AAATGCACCGAAGTGCCACGTAG
1 AATTGCACCGAAGTGCCACGTAG
*
136058 AATTGCACCGTAGTGCCA
1 AATTGCACCGAAGTGCCA
136076 TATAAGATTG
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
22 1 0.02
23 34 0.63
24 18 0.33
25 1 0.02
ACGTcount: A:0.31, C:0.26, G:0.25, T:0.18
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCACGTAG
Found at i:140902 original size:23 final size:23
Alignment explanation
Indices: 140876--140919 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
140866 TTGTGTTCGT
* *
140876 TTGAAGGGGTATCGGTTCCCCCC
1 TTGAAGGGGTACCGATTCCCCCC
*
140899 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
140920 TAGCCCAGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.16, C:0.30, G:0.27, T:0.27
Consensus pattern (23 bp):
TTGAAGGGGTACCGATTCCCCCC
Found at i:141901 original size:14 final size:14
Alignment explanation
Indices: 141884--141917 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
141874 TGAACAGTAA
*
141884 AATATGGTATGAAC
1 AATATCGTATGAAC
141898 AATATCGTATGAAC
1 AATATCGTATGAAC
*
141912 ATTATC
1 AATATC
141918 TGCTACAGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (14 bp):
AATATCGTATGAAC
Found at i:142630 original size:23 final size:23
Alignment explanation
Indices: 142593--142649 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
142583 AGAATTTGTC
* *
142593 CCGAAGGGCCGCGTAGAAATGCA
1 CCGAAGTGCCACGTAGAAATGCA
*
142616 CCGAAGTGCCACGTAGAATTGCA
1 CCGAAGTGCCACGTAGAAATGCA
*
142639 CCGTAGTGCCA
1 CCGAAGTGCCA
142650 TATAAGATTG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.28, C:0.28, G:0.30, T:0.14
Consensus pattern (23 bp):
CCGAAGTGCCACGTAGAAATGCA
Found at i:143708 original size:35 final size:36
Alignment explanation
Indices: 143662--143732 Score: 135
Period size: 35 Copynumber: 2.0 Consensus size: 36
143652 TTTTATTTAG
143662 GGGGAATCGATACCCCCCA-GGGGGAATCTGTTCCC
1 GGGGAATCGATACCCCCCAGGGGGGAATCTGTTCCC
143697 GGGGAATCGATACCCCCCAGGGGGGAATCTGTTCCC
1 GGGGAATCGATACCCCCCAGGGGGGAATCTGTTCCC
143733 CCTGCACAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 19 0.54
36 16 0.46
ACGTcount: A:0.20, C:0.31, G:0.32, T:0.17
Consensus pattern (36 bp):
GGGGAATCGATACCCCCCAGGGGGGAATCTGTTCCC
Found at i:144016 original size:12 final size:12
Alignment explanation
Indices: 143999--144024 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
143989 AGATGACAAG
143999 TAAAATTCAACT
1 TAAAATTCAACT
144011 TAAAATTCAACT
1 TAAAATTCAACT
144023 TA
1 TA
144025 TCAATTCTAT
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:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (12 bp):
TAAAATTCAACT
Found at i:146665 original size:32 final size:32
Alignment explanation
Indices: 146627--146702 Score: 127
Period size: 32 Copynumber: 2.4 Consensus size: 32
146617 AGTAACTTTA
*
146627 GAAGACTCCAAGTTAACATGGAGA-CTTTAGTT
1 GAAGACTCCAAGTTAACATAGA-ATCTTTAGTT
146659 GAAGACTCCAAGTTAACATAGAATCTTTAGTT
1 GAAGACTCCAAGTTAACATAGAATCTTTAGTT
146691 GAAGACTCCAAG
1 GAAGACTCCAAG
146703 ATTACTATAC
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
31 1 0.02
32 41 0.98
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (32 bp):
GAAGACTCCAAGTTAACATAGAATCTTTAGTT
Found at i:153219 original size:24 final size:25
Alignment explanation
Indices: 153169--153229 Score: 90
Period size: 25 Copynumber: 2.5 Consensus size: 25
153159 AATTTAAAAA
153169 ATATTATTT-TAAAAAAATAAATAAT
1 ATATT-TTTATAAAAAAATAAATAAT
153194 ATATTTTTATAAAAAAATAAAT-AT
1 ATATTTTTATAAAAAAATAAATAAT
*
153218 ATACTTTTATAA
1 ATATTTTTATAA
153230 TATTATAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
24 16 0.47
25 18 0.53
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (25 bp):
ATATTTTTATAAAAAAATAAATAAT
Found at i:153242 original size:24 final size:24
Alignment explanation
Indices: 153178--153229 Score: 86
Period size: 24 Copynumber: 2.1 Consensus size: 24
153168 AATATTATTT
*
153178 TAAAAAAATAAATAATATATTTTTA
1 TAAAAAAATAAAT-ATATACTTTTA
153203 TAAAAAAATAAATATATACTTTTA
1 TAAAAAAATAAATATATACTTTTA
153227 TAA
1 TAA
153230 TATTATAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (24 bp):
TAAAAAAATAAATATATACTTTTA
Found at i:158005 original size:21 final size:21
Alignment explanation
Indices: 157979--158021 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
157969 GGGCTTCGTC
157979 AATGAGATCCGCTCTCCCCTT
1 AATGAGATCCGCTCTCCCCTT
*
158000 AATGAGATCCGCTCTCCTCTT
1 AATGAGATCCGCTCTCCCCTT
158021 A
1 A
158022 CTTGTTCATT
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:0.21, C:0.35, G:0.14, T:0.30
Consensus pattern (21 bp):
AATGAGATCCGCTCTCCCCTT
Found at i:160896 original size:183 final size:186
Alignment explanation
Indices: 160649--161037 Score: 601
Period size: 183 Copynumber: 2.1 Consensus size: 186
160639 AACCGAAATT
* * *
160649 AAATTTTAAATATATTATATATAATATATGGGCTTAGCCCAAACCATTTAAAACCCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGGGCTAAGCCCAAACCATTTAAAACCCAATTAATAA
*
160714 TTTAAGATTCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTATATAA-AATTT
66 TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTATATAATAATTT
* *
160778 TTATTTTATAA-T-TATA-TATTTAAATTAATTGT-AAACTGTTTTTTTGAATTAAAA
131 TTATTTTATAATTATATATTATTTAAATTAATTATAAAAGT-TTTTTTTGAATT-AAA
*
160832 AAATATTAAATATATTATATATAACATGTGGGCTAAGCCCAAACCATTTAAAACCCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGGGCTAAGCCCAAACCATTTAAAACCCAATTAATAA
* * **
160897 TTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAATTTATATAATTTTTT
66 TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTATATAATAATTT
160962 TTATTTTATAATTATATATTATTTAAATTAATTATAAAAGTTTTTTTTGAATTAAA
131 TTATTTTATAATTATATATTATTTAAATTAATTATAAAAGTTTTTTTTGAATTAAA
* *
161018 AAATATTTAAT-TTTTATATA
1 AAATATTAAATATATTATATA
161038 AATTCGAAAT
Statistics
Matches: 188, Mismatches: 13, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
183 117 0.62
184 14 0.07
185 9 0.05
186 17 0.09
187 27 0.14
188 4 0.02
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43
Consensus pattern (186 bp):
AAATATTAAATATATTATATATAACATATGGGCTAAGCCCAAACCATTTAAAACCCAATTAATAA
TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTATATAATAATTT
TTATTTTATAATTATATATTATTTAAATTAATTATAAAAGTTTTTTTTGAATTAAA
Done.