Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold10
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: 3842500
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.31
Warning! 348197 characters in sequence are not A, C, G, or T
File 3 of 25
Found at i:280997 original size:33 final size:32
Alignment explanation
Indices: 280955--281022 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 32
280945 CGTTACAAGC
280955 CAATGTATCGATACAT-TTGGTCATGTATCGATA
1 CAATGTATCGATACATCTT-GT-ATGTATCGATA
280988 CAATGTATCGATACATCTTGTATGTATCGATA
1 CAATGTATCGATACATCTTGTATGTATCGATA
281020 CAA
1 CAA
281023 ACAGTTAAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
32 14 0.41
33 18 0.53
34 2 0.06
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (32 bp):
CAATGTATCGATACATCTTGTATGTATCGATA
Found at i:281108 original size:13 final size:13
Alignment explanation
Indices: 281090--281114 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
281080 TACAGTGGTC
281090 ATGTATCGATACA
1 ATGTATCGATACA
281103 ATGTATCGATAC
1 ATGTATCGATAC
281115 TGTGCATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:281132 original size:33 final size:32
Alignment explanation
Indices: 281073--281135 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
281063 AATTTTGCAA
*
281073 GTATCGATACAGTGGTCATGTATCGATACAAT
1 GTATCGATACAGTGATCATGTATCGATACAAT
* *
281105 GTATCGATACTGTGCATTATGTATCGATACA
1 GTATCGATACAGTG-ATCATGTATCGATACA
281136 TCTGAAGGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 13 0.48
33 14 0.52
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (32 bp):
GTATCGATACAGTGATCATGTATCGATACAAT
Found at i:283670 original size:20 final size:20
Alignment explanation
Indices: 283645--283699 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
283635 AGTTTTCCAG
*
283645 ATGTATTGATACATTATAAC
1 ATGTATCGATACATTATAAC
*
283665 ATGTATCGATACATTGTAAC
1 ATGTATCGATACATTATAAC
283685 ATGTATCGATACATT
1 ATGTATCGATACATT
283700 CTGAAATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTATAAC
Found at i:288085 original size:13 final size:13
Alignment explanation
Indices: 288067--288097 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
288057 ACATTTTTTC
288067 ATGTATCGATACA
1 ATGTATCGATACA
288080 ATGTATCGATACA
1 ATGTATCGATACA
*
288093 TTGTA
1 ATGTA
288098 CCATATATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:288085 original size:33 final size:33
Alignment explanation
Indices: 288047--288113 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
288037 GTTACAAGCT
* ** *
288047 ATGTATCGATACATTTTTTCATGTATCGATACA
1 ATGTATCGATACATTGTACCATATATCGATACA
288080 ATGTATCGATACATTGTACCATATATCGATACA
1 ATGTATCGATACATTGTACCATATATCGATACA
288113 A
1 A
288114 AAAGTGATAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.37
Consensus pattern (33 bp):
ATGTATCGATACATTGTACCATATATCGATACA
Found at i:288191 original size:19 final size:20
Alignment explanation
Indices: 288142--288195 Score: 65
Period size: 19 Copynumber: 2.7 Consensus size: 20
288132 CTGCCAACTT
**
288142 CATGTATCGATACAATTTGTC
1 CATGTATCGATAC-ATTTGAA
*
288163 CATATATCGATACA-TTGAA
1 CATGTATCGATACATTTGAA
288182 CATGTATCGATACA
1 CATGTATCGATACA
288196 ATGTATCGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 16 0.55
20 1 0.03
21 12 0.41
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACATTTGAA
Found at i:288201 original size:13 final size:13
Alignment explanation
Indices: 288183--288209 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
288173 TACATTGAAC
288183 ATGTATCGATACA
1 ATGTATCGATACA
288196 ATGTATCGATACA
1 ATGTATCGATACA
288209 A
1 A
288210 AGCAGCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:288768 original size:15 final size:17
Alignment explanation
Indices: 288748--288781 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
288738 GTTTTCGTTT
288748 TTCT-CCCCTTAAA-AA
1 TTCTCCCCCTTAAACAA
288763 TTCTCCCCCTTAAACAA
1 TTCTCCCCCTTAAACAA
288780 TT
1 TT
288782 ATCTTCTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 9 0.53
17 4 0.24
ACGTcount: A:0.29, C:0.35, G:0.00, T:0.35
Consensus pattern (17 bp):
TTCTCCCCCTTAAACAA
Found at i:297118 original size:13 final size:13
Alignment explanation
Indices: 297100--297125 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
297090 CAATTTTTTG
297100 TGTATCGATACAT
1 TGTATCGATACAT
297113 TGTATCGATACAT
1 TGTATCGATACAT
297126 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:297724 original size:21 final size:21
Alignment explanation
Indices: 297661--297724 Score: 87
Period size: 20 Copynumber: 3.1 Consensus size: 21
297651 CTCCCCTTTA
* *
297661 TCTCCCCCGTTTATTAA-TAAT
1 TCTCCCCC-TTAATCAAGTAAT
297682 TCTCCCCCTTAATCAAGT-AT
1 TCTCCCCCTTAATCAAGTAAT
297702 TCTCCCCCTTAATCAAGTAAT
1 TCTCCCCCTTAATCAAGTAAT
297723 TC
1 TC
297725 ATATAAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
20 26 0.67
21 13 0.33
ACGTcount: A:0.25, C:0.33, G:0.05, T:0.38
Consensus pattern (21 bp):
TCTCCCCCTTAATCAAGTAAT
Found at i:299545 original size:13 final size:13
Alignment explanation
Indices: 299527--299551 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
299517 ATAATCACCC
299527 TGTATCGATACAA
1 TGTATCGATACAA
299540 TGTATCGATACA
1 TGTATCGATACA
299552 TTGAATTTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:303461 original size:21 final size:21
Alignment explanation
Indices: 303432--303476 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
303422 AAGTTTTTAT
*
303432 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
303452 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
303474 TTT
1 TTT
303477 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:305678 original size:13 final size:13
Alignment explanation
Indices: 305660--305685 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
305650 TAATTTTTTG
305660 TGTATCGATACAT
1 TGTATCGATACAT
305673 TGTATCGATACAT
1 TGTATCGATACAT
305686 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:306620 original size:21 final size:21
Alignment explanation
Indices: 306594--306649 Score: 71
Period size: 19 Copynumber: 2.8 Consensus size: 21
306584 CTGCCAGTTT
**
306594 CATGTATCGATACAATTTGTC
1 CATGTATCGATACAATTTGAA
306615 CATGTATCGATAC-A-TTGAA
1 CATGTATCGATACAATTTGAA
*
306634 CATGTATCAATACAAT
1 CATGTATCGATACAAT
306650 CTATCGATAC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 15 0.50
20 2 0.07
21 13 0.43
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (21 bp):
CATGTATCGATACAATTTGAA
Found at i:309493 original size:33 final size:32
Alignment explanation
Indices: 309451--309514 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 32
309441 GTTACAAGCC
309451 AATGTATCGATACAT-TTGGTCATGTATCGATAT
1 AATGTATCGATACATCTT-GT-ATGTATCGATAT
309484 AATGTATCGATACATCTTGTATGTATCGATA
1 AATGTATCGATACATCTTGTATGTATCGATA
309515 CAAACAATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
32 11 0.37
33 17 0.57
34 2 0.07
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.39
Consensus pattern (32 bp):
AATGTATCGATACATCTTGTATGTATCGATAT
Found at i:318878 original size:13 final size:13
Alignment explanation
Indices: 318860--318884 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
318850 CCATATAAAG
318860 AAAAAAATGCATT
1 AAAAAAATGCATT
318873 AAAAAAATGCAT
1 AAAAAAATGCAT
318885 GAATATAAGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.08, G:0.08, T:0.20
Consensus pattern (13 bp):
AAAAAAATGCATT
Found at i:321634 original size:22 final size:21
Alignment explanation
Indices: 321594--321644 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
321584 AATAATAATT
321594 ATTTAATATAATTTAATTTAA
1 ATTTAATATAATTTAATTTAA
321615 ATTT-ATATAATTATTAATTT-A
1 ATTTAATATAA-T-TTAATTTAA
*
321636 ATTAAATAT
1 ATTTAATAT
321645 TTATAAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 6 0.23
21 9 0.35
22 11 0.42
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
ATTTAATATAATTTAATTTAA
Found at i:321649 original size:26 final size:27
Alignment explanation
Indices: 321598--321657 Score: 81
Period size: 26 Copynumber: 2.3 Consensus size: 27
321588 ATAATTATTT
321598 AATA-TAATTTAATTTAAATTTATATA
1 AATATTAATTTAATTTAAATTTATATA
*
321624 ATTATTAATTTAA-TTAAATATT-TATA
1 AATATTAATTTAATTTAAAT-TTATATA
321650 AATATTAA
1 AATATTAA
321658 AAATCTCTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 20 0.67
27 10 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (27 bp):
AATATTAATTTAATTTAAATTTATATA
Found at i:324453 original size:12 final size:12
Alignment explanation
Indices: 324438--324473 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
324428 TACGTACGCC
*
324438 AGAGTCTGAGTT
1 AGAGTCAGAGTT
*
324450 AGAGTCGGAGTT
1 AGAGTCAGAGTT
324462 AGAGTCAGAGTT
1 AGAGTCAGAGTT
324474 TGCATATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.28, C:0.08, G:0.36, T:0.28
Consensus pattern (12 bp):
AGAGTCAGAGTT
Found at i:326535 original size:2 final size:2
Alignment explanation
Indices: 326523--326561 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
326513 GTTGTGTTGT
*
326523 TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
326562 TTTGACCTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:327060 original size:16 final size:16
Alignment explanation
Indices: 327039--327074 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
327029 GATAAAAAAG
*
327039 TAAAAAAAACCATATC
1 TAAAAAAAACCAAATC
*
327055 TAAAAAAAATCAAATC
1 TAAAAAAAACCAAATC
327071 TAAA
1 TAAA
327075 TTGACTCTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.67, C:0.14, G:0.00, T:0.19
Consensus pattern (16 bp):
TAAAAAAAACCAAATC
Found at i:334624 original size:19 final size:20
Alignment explanation
Indices: 334600--334650 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
334590 TAGCTAAACT
**
334600 TGTATCGATACA-CATAGTA
1 TGTATCGATACACCATAAAA
334619 TGTATCGATACACCATAAAA
1 TGTATCGATACACCATAAAA
334639 TGTATCGATACA
1 TGTATCGATACA
334651 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (20 bp):
TGTATCGATACACCATAAAA
Found at i:340594 original size:8 final size:8
Alignment explanation
Indices: 340577--340608 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
340567 ATTTGATTAA
340577 ATTTTGTG
1 ATTTTGTG
*
340585 ATTTTATG
1 ATTTTGTG
340593 ATTTTGTG
1 ATTTTGTG
340601 ATTTTGTG
1 ATTTTGTG
340609 TTGAATGATG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.16, C:0.00, G:0.22, T:0.62
Consensus pattern (8 bp):
ATTTTGTG
Found at i:340830 original size:13 final size:13
Alignment explanation
Indices: 340812--340837 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
340802 ACATAATTCT
340812 TTGTATCGATACA
1 TTGTATCGATACA
340825 TTGTATCGATACA
1 TTGTATCGATACA
340838 GGGGGATTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:343392 original size:33 final size:32
Alignment explanation
Indices: 343327--343394 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 32
343317 GTAGCTAAAC
** *
343327 TTGTATCGATACACATAGTATGTATCGCTACA
1 TTGTATCGATACACATAAAATGTATCGATACA
*
343359 TTGTATCGATACACCATAAAATGTATGGATACA
1 TTGTATCGATACA-CATAAAATGTATCGATACA
343392 TTG
1 TTG
343395 GCTTGTAACG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 13 0.42
33 18 0.58
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (32 bp):
TTGTATCGATACACATAAAATGTATCGATACA
Found at i:346897 original size:18 final size:18
Alignment explanation
Indices: 346874--346909 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
346864 AAGATAATTG
*
346874 GTGATCCAAATACTTGTA
1 GTGATCCAAATACGTGTA
346892 GTGATCCAAATACGTGTA
1 GTGATCCAAATACGTGTA
346910 ATTATGTAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (18 bp):
GTGATCCAAATACGTGTA
Found at i:349635 original size:20 final size:20
Alignment explanation
Indices: 349607--349658 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
349597 GTTAGGCTCA
* *
349607 ATGTATCGATACATTTTACC
1 ATGTATCGATACAATTCACC
* *
349627 ATTTATCGATACAATTCATC
1 ATGTATCGATACAATTCACC
349647 ATGTATCGATAC
1 ATGTATCGATAC
349659 TGAGTGAGTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACAATTCACC
Found at i:350803 original size:14 final size:14
Alignment explanation
Indices: 350753--350804 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
350743 ACATAATTTC
350753 ATTCATCAAAGCAT
1 ATTCATCAAAGCAT
*
350767 ATTCAAT-ATAAGCAC
1 ATTC-ATCA-AAGCAT
* *
350782 AATAATCAAAGCAT
1 ATTCATCAAAGCAT
350796 ATTCATCAA
1 ATTCATCAA
350805 GGGAAATATA
Statistics
Matches: 29, Mismatches: 6, Indels: 6
0.71 0.15 0.15
Matches are distributed among these distances:
14 19 0.66
15 10 0.34
ACGTcount: A:0.48, C:0.19, G:0.06, T:0.27
Consensus pattern (14 bp):
ATTCATCAAAGCAT
Found at i:350825 original size:188 final size:188
Alignment explanation
Indices: 350612--350976 Score: 730
Period size: 188 Copynumber: 1.9 Consensus size: 188
350602 CAAAAACGAG
350612 ATCAAGGGAAATATAAAAAAAATGATACGAATCAATAAAATACTTTTCCTATGCATTCATAAAGG
1 ATCAAGGGAAATATAAAAAAAATGATACGAATCAATAAAATACTTTTCCTATGCATTCATAAAGG
350677 ATAATATCAAGACAAATGTTAATCACATTCATGAATAAGTAGCACGACAAACATTCATGAAAGCA
66 ATAATATCAAGACAAATGTTAATCACATTCATGAATAAGTAGCACGACAAACATTCATGAAAGCA
350742 AACATAATTTCATTCATCAAAGCATATTCAATATAAGCACAATAATCAAAGCATATTC
131 AACATAATTTCATTCATCAAAGCATATTCAATATAAGCACAATAATCAAAGCATATTC
350800 ATCAAGGGAAATATAAAAAAAATGATACGAATCAATAAAATACTTTTCCTATGCATTCATAAAGG
1 ATCAAGGGAAATATAAAAAAAATGATACGAATCAATAAAATACTTTTCCTATGCATTCATAAAGG
350865 ATAATATCAAGACAAATGTTAATCACATTCATGAATAAGTAGCACGACAAACATTCATGAAAGCA
66 ATAATATCAAGACAAATGTTAATCACATTCATGAATAAGTAGCACGACAAACATTCATGAAAGCA
350930 AACATAATTTCATTCATCAAAGCATATTCAATATAAGCACAATAATC
131 AACATAATTTCATTCATCAAAGCATATTCAATATAAGCACAATAATC
350977 CAAGTATAAA
Statistics
Matches: 177, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
188 177 1.00
ACGTcount: A:0.48, C:0.16, G:0.10, T:0.26
Consensus pattern (188 bp):
ATCAAGGGAAATATAAAAAAAATGATACGAATCAATAAAATACTTTTCCTATGCATTCATAAAGG
ATAATATCAAGACAAATGTTAATCACATTCATGAATAAGTAGCACGACAAACATTCATGAAAGCA
AACATAATTTCATTCATCAAAGCATATTCAATATAAGCACAATAATCAAAGCATATTC
Found at i:352677 original size:20 final size:21
Alignment explanation
Indices: 352647--352686 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
352637 ATCCAGGTTT
352647 TTCAGATATATTAATACATTA
1 TTCAGATATATTAATACATTA
*
352668 TTCA-ATATATTGATACATT
1 TTCAGATATATTAATACATT
352687 CTGAAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.40, C:0.10, G:0.05, T:0.45
Consensus pattern (21 bp):
TTCAGATATATTAATACATTA
Found at i:354804 original size:12 final size:11
Alignment explanation
Indices: 354782--354857 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
354772 AGAGAAAGAA
*
354782 GAGAGAGGAGG
1 GAGATAGGAGG
354793 GATGATAGGAGG
1 GA-GATAGGAGG
*
354805 AGAGACAGGA--
1 -GAGATAGGAGG
*
354815 GAGATAGTA--
1 GAGATAGGAGG
354824 GAGATAGGAGG
1 GAGATAGGAGG
354835 GATGATAGGAGG
1 GA-GATAGGAGG
*
354847 AGAGACAGGAG
1 -GAGATAGGAG
354858 AGATAATAGA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 4 0.08
12 30 0.57
13 4 0.08
ACGTcount: A:0.39, C:0.03, G:0.49, T:0.09
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:354814 original size:24 final size:24
Alignment explanation
Indices: 354781--354866 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
354771 AAGAGAAAGA
*
354781 AGAGAGAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
*
354805 AGAGACAGGA--GA-GAT---AGT
1 AGAGACAGGAGGGATGATAGGAGG
*
354823 AGAGATAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
* *
354847 AGAGACAGGAGAGATAATAG
1 AGAGACAGGAGGGATGATAG
354867 AGAGAGGAGG
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 11 0.22
20 2 0.04
21 6 0.12
22 2 0.04
24 28 0.57
ACGTcount: A:0.42, C:0.02, G:0.45, T:0.10
Consensus pattern (24 bp):
AGAGACAGGAGGGATGATAGGAGG
Found at i:354833 original size:42 final size:42
Alignment explanation
Indices: 354772--354890 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
354762 TAGCCCTCAA
* *
354772 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
354814 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* *
354856 AGAGATAATAGAGAGAGGAGGGATGACAGGAGGAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAG
354891 GAGAGAAGAA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.43, C:0.03, G:0.46, T:0.08
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:365376 original size:20 final size:20
Alignment explanation
Indices: 365351--365405 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
365341 GTTGGGCTTA
* * *
365351 ATGTATCGATACATTTTACC
1 ATGTATTGATACAATTCACC
*
365371 ATGTATTGATACAATTCATC
1 ATGTATTGATACAATTCACC
365391 ATGTATTGATACAAT
1 ATGTATTGATACAAT
365406 GTATTGATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.40
Consensus pattern (20 bp):
ATGTATTGATACAATTCACC
Found at i:365919 original size:20 final size:20
Alignment explanation
Indices: 365894--365931 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
365884 CATTACCTTT
365894 CACAAAAATCATCAAATTAC
1 CACAAAAATCATCAAATTAC
**
365914 CACAAATTTCATCAAATT
1 CACAAAAATCATCAAATT
365932 CTTCCTCCCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (20 bp):
CACAAAAATCATCAAATTAC
Found at i:373752 original size:16 final size:16
Alignment explanation
Indices: 373731--373764 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
373721 TCAACTATTT
373731 AATTGATTGAAAAGAA
1 AATTGATTGAAAAGAA
*
373747 AATTGATTGGAAAGAA
1 AATTGATTGAAAAGAA
373763 AA
1 AA
373765 AAAGAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.21, T:0.24
Consensus pattern (16 bp):
AATTGATTGAAAAGAA
Found at i:377187 original size:13 final size:13
Alignment explanation
Indices: 377169--377194 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
377159 ACATTTTAGG
377169 ATGTATCGATACA
1 ATGTATCGATACA
377182 ATGTATCGATACA
1 ATGTATCGATACA
377195 TATTATGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:377189 original size:33 final size:32
Alignment explanation
Indices: 377147--377214 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 32
377137 CGTTACAAGC
*
377147 CAATGTATCGATACATTTTAGGATGTATCGATA
1 CAATGTATCGATACATATTAGG-TGTATCGATA
*
377180 CAATGTATCGATACATATTATGTGTATCGATA
1 CAATGTATCGATACATATTAGGTGTATCGATA
377212 CAA
1 CAA
377215 ATTTGGCTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (32 bp):
CAATGTATCGATACATATTAGGTGTATCGATA
Found at i:380960 original size:26 final size:26
Alignment explanation
Indices: 380918--380976 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 26
380908 TCTATAAAGA
*
380918 TAGGATTGATAAGGTTTAACTTTATC
1 TAGGATTGATAAAGTTTAACTTTATC
* *
380944 TATGATTGATAAAGTTTAACTTTGTC
1 TAGGATTGATAAAGTTTAACTTTATC
380970 TAGGATT
1 TAGGATT
380977 TTCATAAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.31, C:0.07, G:0.19, T:0.44
Consensus pattern (26 bp):
TAGGATTGATAAAGTTTAACTTTATC
Found at i:383046 original size:23 final size:24
Alignment explanation
Indices: 383017--383063 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
383007 ATGAAATTAA
* *
383017 ATTATTTT-ATTCTTTTTAAAGAT
1 ATTATTTTAATTATTGTTAAAGAT
383040 ATTATTTTAATTATTGTTAAAGAT
1 ATTATTTTAATTATTGTTAAAGAT
383064 GAAAGCAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.57
Consensus pattern (24 bp):
ATTATTTTAATTATTGTTAAAGAT
Found at i:383511 original size:19 final size:18
Alignment explanation
Indices: 383447--383511 Score: 69
Period size: 19 Copynumber: 3.4 Consensus size: 18
383437 TATATCATAT
383447 TTTTATTATTTT-ATATTA
1 TTTTA-TATTTTCATATTA
* *
383465 TATTATATTTTACATAATA
1 TTTTATATTTT-CATATTA
383484 TTTTAATATTTTCATATTA
1 TTTT-ATATTTTCATATTA
383503 TGTTTATAT
1 T-TTTATAT
383512 CTTATAATCA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
17 6 0.15
18 4 0.10
19 19 0.49
20 10 0.26
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTTATATTTTCATATTA
Found at i:383519 original size:37 final size:36
Alignment explanation
Indices: 383447--383519 Score: 85
Period size: 37 Copynumber: 2.0 Consensus size: 36
383437 TATATCATAT
* *
383447 TTTTATTATTTTATATTATATTATATTTTACATAATA
1 TTTTAATATTTTATATTATATTATATCTTA-ATAATA
*
383484 TTTTAATATTTTCATATTATGTTTATATCTT-ATAAT
1 TTTTAATATTTT-ATATTAT-ATTATATCTTAATAAT
383520 CATCGTCTCC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
37 16 0.52
38 7 0.23
39 8 0.26
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (36 bp):
TTTTAATATTTTATATTATATTATATCTTAATAATA
Found at i:384427 original size:21 final size:22
Alignment explanation
Indices: 384401--384442 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
384391 AATATCAAAT
384401 AAAAAAT-AAATATTCAAGTAA
1 AAAAAATCAAATATTCAAGTAA
* *
384422 AAAAAATCAACTTTTCAAGTA
1 AAAAAATCAAATATTCAAGTA
384443 TTTTCTCGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.60, C:0.10, G:0.05, T:0.26
Consensus pattern (22 bp):
AAAAAATCAAATATTCAAGTAA
Found at i:384644 original size:16 final size:16
Alignment explanation
Indices: 384623--384677 Score: 69
Period size: 16 Copynumber: 3.6 Consensus size: 16
384613 GATTCGAATT
384623 TAAAATAATTTAAAAC
1 TAAAATAATTTAAAAC
*
384639 TAAAATAACTTAAAAC
1 TAAAATAATTTAAAAC
* *
384655 CAAAATAATCTAAAA-
1 TAAAATAATTTAAAAC
384670 T-AAATAAT
1 TAAAATAAT
384678 CTGAACTTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
14 7 0.21
16 27 0.79
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.27
Consensus pattern (16 bp):
TAAAATAATTTAAAAC
Found at i:385743 original size:21 final size:21
Alignment explanation
Indices: 385685--385745 Score: 59
Period size: 23 Copynumber: 2.8 Consensus size: 21
385675 TTTAAAAATT
* ** *
385685 ATTTTTATATTATTATTATAT
1 ATTTTTTTATTATTAAAATAA
*
385706 ATTTTTTAATTAAATTAAAATAA
1 ATTTTTTTATT--ATTAAAATAA
385729 ATTTTTTTATTATTAAA
1 ATTTTTTTATTATTAAA
385746 TAATAATTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
21 15 0.47
23 17 0.53
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
ATTTTTTTATTATTAAAATAA
Found at i:388496 original size:22 final size:22
Alignment explanation
Indices: 388466--388518 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
388456 ATTATTTTAA
* *
388466 TAATA-AAAAATATTTAATTA-
1 TAATATAAAAATATATAAATAT
388486 TAATTATAAAAATATATAAATAT
1 TAA-TATAAAAATATATAAATAT
388509 TAATATAAAA
1 TAATATAAAA
388519 TAATCTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 3 0.11
21 2 0.07
22 20 0.71
23 3 0.11
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
TAATATAAAAATATATAAATAT
Found at i:388499 original size:29 final size:29
Alignment explanation
Indices: 388452--388516 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
388442 ATCAAATCTA
* * *
388452 AATTATTATTTTAATAATA-AAAAATATTT
1 AATTATAATTATAAAAATATAAAAATA-TT
*
388481 AATTATAATTATAAAAATATATAAATATT
1 AATTATAATTATAAAAATATAAAAATATT
388510 AA-TATAA
1 AATTATAA
388517 AATAATCTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
28 5 0.16
29 20 0.65
30 6 0.19
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (29 bp):
AATTATAATTATAAAAATATAAAAATATT
Found at i:389497 original size:10 final size:9
Alignment explanation
Indices: 389483--389512 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
389473 TTTAAATATA
389483 TAAAAATTT
1 TAAAAATTT
389492 TAAAAATTT
1 TAAAAATTT
389501 TAAAAATATT
1 TAAAAAT-TT
389511 TA
1 TA
389513 TATCAAATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 16 0.80
10 4 0.20
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (9 bp):
TAAAAATTT
Found at i:391232 original size:2 final size:2
Alignment explanation
Indices: 391225--391249 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
391215 GATGTCCTCA
391225 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
391250 ATGACATCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:394293 original size:27 final size:29
Alignment explanation
Indices: 394257--394313 Score: 91
Period size: 28 Copynumber: 2.0 Consensus size: 29
394247 ATATATTTTA
*
394257 TTATAATTTTA-CTTTTTAAGTAAAATTT
1 TTATAATTTTATATTTTTAAGTAAAATTT
394285 TTAT-ATTTTATATTTTTAAGTAAAATTT
1 TTATAATTTTATATTTTTAAGTAAAATTT
394313 T
1 T
394314 AAGTGAGTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 6 0.22
28 21 0.78
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.60
Consensus pattern (29 bp):
TTATAATTTTATATTTTTAAGTAAAATTT
Found at i:394692 original size:15 final size:15
Alignment explanation
Indices: 394663--394704 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
394653 AATTAATTAG
*
394663 TTAATTTAT-ATATAA
1 TTAATTTTTAATA-AA
394678 TTAATATTTTAATAAA
1 TTAAT-TTTTAATAAA
394694 TTAATTTTTAA
1 TTAATTTTTAA
394705 ATTTAATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 11 0.46
16 10 0.42
17 3 0.12
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TTAATTTTTAATAAA
Found at i:397619 original size:13 final size:14
Alignment explanation
Indices: 397593--397620 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
397583 TTTTTATGTG
397593 TTAAAATTATTTTT
1 TTAAAATTATTTTT
397607 TTAAAATTATTTTT
1 TTAAAATTATTTTT
397621 AATTATAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
TTAAAATTATTTTT
Found at i:398842 original size:10 final size:10
Alignment explanation
Indices: 398827--398873 Score: 78
Period size: 10 Copynumber: 4.8 Consensus size: 10
398817 TTAAATCAAA
398827 TAATTAAAAT
1 TAATTAAAAT
398837 TAATTAAAAT
1 TAATTAAAAT
398847 TAATTAAAAT
1 TAATTAAAAT
*
398857 GAA-TAAAAT
1 TAATTAAAAT
398866 TAATTAAA
1 TAATTAAA
398874 TATAAAGTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
9 8 0.24
10 26 0.76
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (10 bp):
TAATTAAAAT
Found at i:399270 original size:11 final size:11
Alignment explanation
Indices: 399254--399303 Score: 54
Period size: 9 Copynumber: 4.8 Consensus size: 11
399244 TTTAAAAATA
399254 TATATTTATTT
1 TATATTTATTT
399265 TATATTATATTT
1 TATATT-TATTT
399277 TA-A-TTATTT
1 TATATTTATTT
*
399286 TATATGTA--T
1 TATATTTATTT
399295 TATATTTAT
1 TATATTTAT
399304 AAATTATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
9 15 0.45
10 2 0.06
11 9 0.27
12 7 0.21
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (11 bp):
TATATTTATTT
Found at i:399320 original size:25 final size:25
Alignment explanation
Indices: 399265--399322 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
399255 ATATTTATTT
*
399265 TATATTATATTTTAATTATTTTATA
1 TATATTATATTTTAATTATTATATA
*
399290 TGTATTATATTTATAA--ATTATATA
1 TATATTATATTT-TAATTATTATATA
399314 TAATATTAT
1 T-ATATTAT
399323 TAAGTCTGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
24 8 0.29
25 17 0.61
26 3 0.11
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (25 bp):
TATATTATATTTTAATTATTATATA
Found at i:400006 original size:8 final size:8
Alignment explanation
Indices: 399990--400022 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
399980 ATAGTTTTAT
399990 AATTAAAAA
1 AATT-AAAA
399999 AATTAAAA
1 AATTAAAA
400007 AATT-AAA
1 AATTAAAA
400014 AATTAAAA
1 AATTAAAA
400022 A
1 A
400023 TATAATTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
7 7 0.30
8 12 0.52
9 4 0.17
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATTAAAA
Found at i:400200 original size:10 final size:12
Alignment explanation
Indices: 400169--400193 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
400159 TAATAAAAAT
400169 TTAATTTTTATA
1 TTAATTTTTATA
400181 TTAATTTTTATA
1 TTAATTTTTATA
400193 T
1 T
400194 ATTTTTAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTAATTTTTATA
Found at i:400415 original size:22 final size:22
Alignment explanation
Indices: 400372--400416 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
400362 TAATAAATTT
* *
400372 TTATTTAAATTTAATTATAAAA
1 TTATATAAATTTAATTAAAAAA
400394 TTATATAAATATTAA-TAAAAAA
1 TTATATAAAT-TTAATTAAAAAA
400416 T
1 T
400417 AATTTTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
TTATATAAATTTAATTAAAAAA
Found at i:400566 original size:14 final size:14
Alignment explanation
Indices: 400547--400573 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
400537 TTTTAACAAT
400547 AAAAATTTTAATTA
1 AAAAATTTTAATTA
400561 AAAAATTTTAATT
1 AAAAATTTTAATT
400574 TCTTTAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
AAAAATTTTAATTA
Found at i:400858 original size:19 final size:19
Alignment explanation
Indices: 400834--400893 Score: 54
Period size: 23 Copynumber: 3.1 Consensus size: 19
400824 TGATAGTAAA
400834 TAAAAATATTTAATATTAT
1 TAAAAATATTTAATATTAT
*
400853 TAAAAAAATTATTTTAATATTAA
1 T--AAAAA-TA-TTTAATATTAT
400876 T-AAAATA-TTAATA-TAT
1 TAAAAATATTTAATATTAT
400892 TA
1 TA
400894 TATGATATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
16 3 0.09
17 6 0.18
19 3 0.09
20 4 0.12
21 5 0.15
22 2 0.06
23 11 0.32
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TAAAAATATTTAATATTAT
Found at i:400868 original size:23 final size:21
Alignment explanation
Indices: 400835--400880 Score: 65
Period size: 23 Copynumber: 2.1 Consensus size: 21
400825 GATAGTAAAT
*
400835 AAAAATATTTAATATTATTAA
1 AAAAATATTTAATATTAATAA
400856 AAAAATTATTTTAATATTAATAA
1 AAAAA-TA-TTTAATATTAATAA
400879 AA
1 AA
400881 TATTAATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.23
22 2 0.09
23 15 0.68
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
AAAAATATTTAATATTAATAA
Found at i:400923 original size:20 final size:19
Alignment explanation
Indices: 400898--400960 Score: 58
Period size: 20 Copynumber: 3.3 Consensus size: 19
400888 ATATTATATG
400898 ATATAAAATTTTAAAAATTT
1 ATATAAAA-TTTAAAAATTT
* **
400918 ATATAAAAATTGAAATTTTT
1 ATAT-AAAATTTAAAAATTT
*
400938 TTATAAAATTT--AAATTT
1 ATATAAAATTTAAAAATTT
400955 ATATAA
1 ATATAA
400961 TATGATATGT
Statistics
Matches: 34, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
17 9 0.26
19 6 0.18
20 15 0.44
21 4 0.12
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (19 bp):
ATATAAAATTTAAAAATTT
Found at i:401032 original size:12 final size:14
Alignment explanation
Indices: 400999--401031 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
400989 TAAATAATTT
400999 TTTTATTATTATATA
1 TTTT-TTATTATATA
401014 TTTTTTATTATA-A
1 TTTTTTATTATATA
401027 TTTTT
1 TTTTT
401032 AAAATATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.33
14 8 0.44
15 4 0.22
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTTTTATTATATA
Found at i:401547 original size:25 final size:27
Alignment explanation
Indices: 401519--401578 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 27
401509 TAGTATAGTT
*
401519 TTTAATTTTTAAATAT-ATTTT-ATTA
1 TTTAATTTTTAAATATAATTTTGATAA
*
401544 TTTAA--TATAAATATAATTTTGATAA
1 TTTAATTTTTAAATATAATTTTGATAA
401569 TTT-ATTTTTA
1 TTTAATTTTTA
401579 TATAAATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
23 8 0.29
24 6 0.21
25 11 0.39
26 3 0.11
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (27 bp):
TTTAATTTTTAAATATAATTTTGATAA
Found at i:401562 original size:36 final size:35
Alignment explanation
Indices: 401525--401630 Score: 116
Period size: 36 Copynumber: 3.1 Consensus size: 35
401515 AGTTTTTAAT
401525 TTTTAAATATATTTTATTATTTAATATAAATATAA
1 TTTTAAATATATTTTATTATTTAATATAAATATAA
*
401560 TTTT-GATA-A-TTTATT-TTT-ATATAAATATAA
1 TTTTAAATATATTTTATTATTTAATATAAATATAA
* * *
401590 ATTAATAAT-TTTTATTATTATTTAATATAAATATAA
1 TTTTA-AATATATT-TTATTATTTAATATAAATATAA
401626 TTTTA
1 TTTTA
401631 TTATTTAATA
Statistics
Matches: 57, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
30 14 0.25
31 3 0.05
32 8 0.14
33 2 0.04
34 8 0.14
35 7 0.12
36 15 0.26
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (35 bp):
TTTTAAATATATTTTATTATTTAATATAAATATAA
Found at i:401617 original size:30 final size:30
Alignment explanation
Indices: 401569--401764 Score: 94
Period size: 30 Copynumber: 6.6 Consensus size: 30
401559 ATTTTGATAA
* *
401569 TTTATTTTTATATAAATATAAATTAATAATT
1 TTTATTATTAT-TTAATATAAATTAATAATT
401600 TTTATTATTATTTAATATAAA-T-ATAA--
1 TTTATTATTATTTAATATAAATTAATAATT
*
401626 -TT-TTATTATTTAATATATAATCCTAATAAAT
1 TTTATTATTATTTAATATA-AAT--TAATAATT
* * * *
401657 TTTA--AATA-TAAACATAATTTAATAATT
1 TTTATTATTATTTAATATAAATTAATAATT
* * * *
401684 TATAATTATTATTTCACATAAATATAATTTTATT
1 T-TTATTATTATTTAATATAAAT-TAA--TAATT
*
401718 TATATTTTATTATTTAATATAAA-T-ATAATT
1 T-T-TATTATTATTTAATATAAATTAATAATT
*
401748 TTTA--ATTATTTATTATA
1 TTTATTATTATTTAATATA
401765 TAAACACATT
Statistics
Matches: 128, Mismatches: 20, Indels: 39
0.68 0.11 0.21
Matches are distributed among these distances:
24 15 0.12
25 4 0.03
26 12 0.09
27 8 0.06
28 8 0.06
29 8 0.06
30 23 0.18
31 21 0.16
32 6 0.05
33 1 0.01
34 7 0.05
35 15 0.12
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (30 bp):
TTTATTATTATTTAATATAAATTAATAATT
Found at i:401712 original size:29 final size:29
Alignment explanation
Indices: 401678--401757 Score: 79
Period size: 35 Copynumber: 2.6 Consensus size: 29
401668 ACATAATTTA
*
401678 ATAATTTATAATTATTATTTCACATAAAT
1 ATAATTTATAATTATTATTTAACATAAAT
*
401707 ATAATTTTATTTATATTTTATTATTTAATATAAAT
1 ATAA-TTTA--TA-A--TTATTATTTAACATAAAT
*
401742 ATAATTTTTAATTATT
1 ATAATTTATAATTATT
401758 TATTATATAA
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
29 9 0.21
30 4 0.10
31 1 0.02
32 4 0.10
33 1 0.02
34 3 0.07
35 20 0.48
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (29 bp):
ATAATTTATAATTATTATTTAACATAAAT
Found at i:401749 original size:35 final size:35
Alignment explanation
Indices: 401538--401630 Score: 90
Period size: 30 Copynumber: 2.8 Consensus size: 35
401528 TAAATATATT
* *
401538 TTATTATTTAATATAAATATAATTTTGA--TA-AT
1 TTATTATTTAATATAAATATAATTTTAATTTATAA
* *
401570 TTATT-TTT-ATATAAATATAAATTAATAATTT-TTA
1 TTATTATTTAATATAAATAT-AATT-TTAATTTATAA
401604 TTATTATTTAATATAAATATAATTTTA
1 TTATTATTTAATATAAATATAATTTTA
401631 TTATTTAATA
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
30 10 0.20
31 7 0.14
32 7 0.14
34 8 0.16
35 7 0.14
36 10 0.20
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (35 bp):
TTATTATTTAATATAAATATAATTTTAATTTATAA
Found at i:404018 original size:24 final size:24
Alignment explanation
Indices: 403991--404051 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 24
403981 TTAACATTTT
403991 TTATTTCTTTTAATTTTTAA-ATAA
1 TTATTTCTTTTAATTTTTAACAT-A
* *
404015 TTATTTACTGTT-ATTTTTAACATT
1 TTATTT-CTTTTAATTTTTAACATA
*
404039 TTATTTTTTTTAA
1 TTATTTCTTTTAA
404052 AATACAATTC
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
23 3 0.10
24 21 0.70
25 6 0.20
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.66
Consensus pattern (24 bp):
TTATTTCTTTTAATTTTTAACATA
Found at i:404507 original size:22 final size:22
Alignment explanation
Indices: 404482--404530 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
404472 TGCTTGTGAG
404482 CAAATTTTCTAAGAACATGCTA
1 CAAATTTTCTAAGAACATGCTA
404504 CAAATTTTCTAAGAACATGCTA
1 CAAATTTTCTAAGAACATGCTA
404526 CAAAT
1 CAAAT
404531 CTATAGTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.31
Consensus pattern (22 bp):
CAAATTTTCTAAGAACATGCTA
Found at i:406839 original size:15 final size:15
Alignment explanation
Indices: 406815--406870 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 15
406805 ACCTTTTAGG
406815 GTTGATGGATTTTAT
1 GTTGATGGATTTTAT
*
406830 GTTGACGGA-TTTAT
1 GTTGATGGATTTTAT
* *
406844 ATTAATGGATTTT-T
1 GTTGATGGATTTTAT
*
406858 GTTGATGTATTTT
1 GTTGATGGATTTT
406871 TTTTACAATT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
14 22 0.67
15 11 0.33
ACGTcount: A:0.21, C:0.02, G:0.23, T:0.54
Consensus pattern (15 bp):
GTTGATGGATTTTAT
Found at i:409387 original size:183 final size:186
Alignment explanation
Indices: 409054--409449 Score: 467
Period size: 183 Copynumber: 2.1 Consensus size: 186
409044 TCAGTTGGAC
* * *
409054 AAATAATGACCAATTTCAACTAGAATTAGTGTAACTATGTTTACAAATTAATCAAATTGGATAAT
1 AAATAATCACCAATTTCAACTAGAATTAGTGTAACTATGTTTACAAATTAATCAAATTGGACAAC
* * * * * *
409119 TGTTAACCAATTTAAAGTAGAACTAGTGAAACTAGATATACAAATTCATCAATAAAACAAATAGT
66 TATTAACCAATTTAAAGTAAAACTAATGAAAATAGATATAAAAATTCATCAATAAAACAAATAAT
409184 CACCAATTTCAACTATAATTACATCAACTAAATGTGCAAGTTTATGAAATGGACTA
131 CACCAATTTCAACTATAATTACATCAACTAAATGTGCAAGTTTATGAAATGGACTA
* * * *
409240 AAATAATCACC-ATTTCAACT-GGATTAGTGTAATTAT-TTCTACAAATTGAT-TAATTGGACAA
1 AAATAATCACCAATTTCAACTAGAATTAGTGTAACTATGTT-TACAAATTAATCAAATTGGACAA
** * ** *
409301 CTATTAAGTAATTTAAAGTAAAATTAATGAAAATAGATATAAAAATTCATCAATTGAACTAATAA
65 CTATTAACCAATTTAAAGTAAAACTAATGAAAATAGATATAAAAATTCATCAATAAAACAAATAA
** * * * * * *
409366 TCACCAATTTCAACTATAATTATGTCAACTAAATATACAAATTTATCAATTGAACTA
130 TCACCAATTTCAACTATAATTACATCAACTAAATGTGCAAGTTTATGAAATGGACTA
* * * * *
409423 AACTAACCACTAATTTAAAGTAGAATT
1 AAATAATCACCAATTTCAACTAGAATT
409450 CTATAACTAC
Statistics
Matches: 174, Mismatches: 33, Indels: 7
0.81 0.15 0.03
Matches are distributed among these distances:
183 120 0.69
184 31 0.18
185 13 0.07
186 10 0.06
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.32
Consensus pattern (186 bp):
AAATAATCACCAATTTCAACTAGAATTAGTGTAACTATGTTTACAAATTAATCAAATTGGACAAC
TATTAACCAATTTAAAGTAAAACTAATGAAAATAGATATAAAAATTCATCAATAAAACAAATAAT
CACCAATTTCAACTATAATTACATCAACTAAATGTGCAAGTTTATGAAATGGACTA
Found at i:410279 original size:13 final size:13
Alignment explanation
Indices: 410261--410288 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
410251 CATTATTCAA
410261 TGTATCGATACAT
1 TGTATCGATACAT
410274 TGTATCGATACAT
1 TGTATCGATACAT
410287 TG
1 TG
410289 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:410283 original size:33 final size:33
Alignment explanation
Indices: 410241--410306 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
410231 GCCAAGGAAA
410241 TGTATCGATACATT-ATTCAATGTATCGATACAT
1 TGTATCGATACATTGA-TCAATGTATCGATACAT
**
410274 TGTATCGATACATTGATCTTTGTATCGATACAT
1 TGTATCGATACATTGATCAATGTATCGATACAT
410307 CTAGGAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.41
Consensus pattern (33 bp):
TGTATCGATACATTGATCAATGTATCGATACAT
Found at i:418697 original size:28 final size:28
Alignment explanation
Indices: 418615--418685 Score: 79
Period size: 32 Copynumber: 2.4 Consensus size: 28
418605 ATCTCTATTC
* *
418615 TCAAAGTTCACGACTCAGTGGCATTTTTTTCT
1 TCAAAGTCCACGACTCAGTGGCA----TATCT
*
418647 TCAAAGTTCACGACTCAGTGGCATATCT
1 TCAAAGTCCACGACTCAGTGGCATATCT
418675 TCAAAGTCCAC
1 TCAAAGTCCAC
418686 AGCTCTATGG
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
28 14 0.38
32 23 0.62
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.32
Consensus pattern (28 bp):
TCAAAGTCCACGACTCAGTGGCATATCT
Found at i:418717 original size:34 final size:34
Alignment explanation
Indices: 418674--418875 Score: 152
Period size: 34 Copynumber: 6.1 Consensus size: 34
418664 GTGGCATATC
* *
418674 TTCAAAGTCCACAGCTCTATGGCACCTTTTTCTT
1 TTCAAAGCCCACAGCTCTGTGGCACCTTTTTCTT
* * * * *
418708 TTCAAAGTCCATAACTTTGTGGCACC-----GTT
1 TTCAAAGCCCACAGCTCTGTGGCACCTTTTTCTT
* * *
418737 TT--AAGTCCACAGCTCCGTGGCACCTTGTTCTT
1 TTCAAAGCCCACAGCTCTGTGGCACCTTTTTCTT
* * *
418769 TT-TAAGCCCACAGCTGTGTGGCATTCCTTTTCCTT
1 TTCAAAGCCCACAGCTCTGTGGCA--CCTTTTTCTT
*
418804 TTCAAAGCCCACAACTCTGTGGCACCTTTTTCTT
1 TTCAAAGCCCACAGCTCTGTGGCACCTTTTTCTT
* *
418838 TTTAAAGCCCACAACT-TCGTGGCACTCTTTTTCCTT
1 TTCAAAGCCCACAGCTCT-GTGGCAC-CTTTTT-CTT
418874 TT
1 TT
418876 AAGTTCAAAA
Statistics
Matches: 136, Mismatches: 20, Indels: 22
0.76 0.11 0.12
Matches are distributed among these distances:
27 18 0.13
29 4 0.03
32 4 0.03
33 18 0.13
34 53 0.39
35 16 0.12
36 23 0.17
ACGTcount: A:0.19, C:0.29, G:0.14, T:0.38
Consensus pattern (34 bp):
TTCAAAGCCCACAGCTCTGTGGCACCTTTTTCTT
Found at i:418868 original size:69 final size:68
Alignment explanation
Indices: 418735--419030 Score: 211
Period size: 61 Copynumber: 4.5 Consensus size: 68
418725 TGTGGCACCG
* * * * * *
418735 TTTTAAGTCCACAGCTCCGTGGCACCTTGTTCTTTTTAAGCCCACAGCTGTGTGGCATTCC-TTT
1 TTTTAAGCCCACAACTCTGTGGCACCTTTTTCTTTTTAAGCCCACAACTGTGTGGCACTCCTTTT
418799 TCC
66 TCC
418802 TTTTCAAAGCCCACAACTCTGTGGCACCTTTTTCTTTTTAAAGCCCACAACT-TCGTGGCACT-C
1 TTTT--AAGCCCACAACTCTGTGGCACCTTTTTCTTTTT-AAGCCCACAACTGT-GTGGCACTCC
418865 TTTTTCC
62 TTTTTCC
** * * *** *
418872 TTTTAAGTTCAAAACTCTGTGGCACC-----C-TTTTAAGTCCACAACTCCATGGCA-TCCTTGT
1 TTTTAAGCCCACAACTCTGTGGCACCTTTTTCTTTTTAAGCCCACAACTGTGTGGCACTCCTTTT
418930 TCC
66 TCC
* * *** * * * *** *
418933 TTTTAAGTCCACAACTCCGTGGCACCTTCACCCTTTTAAGTCTACAACTCCATGGCA-T-CTTTC
1 TTTTAAGCCCACAACTCTGTGGCACCTTTTTCTTTTTAAGCCCACAACTGTGTGGCACTCCTTTT
418996 TCC
66 TCC
* * *
418999 TTTTAAGCCCACAAGTCAGTGGCACCCTTTTC
1 TTTTAAGCCCACAACTCTGTGGCACCTTTTTC
419031 AAAAACTCAC
Statistics
Matches: 190, Mismatches: 26, Indels: 27
0.78 0.11 0.11
Matches are distributed among these distances:
60 1 0.01
61 46 0.24
62 4 0.02
63 1 0.01
66 32 0.17
67 28 0.15
68 19 0.10
69 31 0.16
70 28 0.15
ACGTcount: A:0.20, C:0.31, G:0.14, T:0.35
Consensus pattern (68 bp):
TTTTAAGCCCACAACTCTGTGGCACCTTTTTCTTTTTAAGCCCACAACTGTGTGGCACTCCTTTT
TCC
Found at i:418894 original size:34 final size:34
Alignment explanation
Indices: 418753--418902 Score: 128
Period size: 34 Copynumber: 4.4 Consensus size: 34
418743 CCACAGCTCC
* * * * *
418753 GTGGCACCTTGTT-CTTTTTAAGCCCACAGCTGT
1 GTGGCACCTTTTTCCTTTTAAAGCCCAAAACTCT
*
418786 GTGGCATTCC-TTTTCCTTTTCAAAGCCCACAACTCT
1 GTGGCA--CCTTTTTCCTTTT-AAAGCCCAAAACTCT
* *
418822 GTGGCACCTTTTTCTTTTTAAAGCCCACAACT-T
1 GTGGCACCTTTTTCCTTTTAAAGCCCAAAACTCT
**
418855 CGTGGCACTCTTTTTCCTTTT-AAGTTCAAAACTCT
1 -GTGGCAC-CTTTTTCCTTTTAAAGCCCAAAACTCT
*
418890 GTGGCACCCTTTT
1 GTGGCACCTTTTT
418903 AAGTCCACAA
Statistics
Matches: 99, Mismatches: 10, Indels: 16
0.79 0.08 0.13
Matches are distributed among these distances:
33 12 0.12
34 41 0.41
35 28 0.28
36 18 0.18
ACGTcount: A:0.18, C:0.29, G:0.15, T:0.39
Consensus pattern (34 bp):
GTGGCACCTTTTTCCTTTTAAAGCCCAAAACTCT
Found at i:418921 original size:27 final size:27
Alignment explanation
Indices: 418870--418927 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
418860 CACTCTTTTT
* **
418870 CCTTTTAAGTTCAAAACTCTGTGGCAC
1 CCTTTTAAGTCCAAAACTCCATGGCAC
* *
418897 CCTTTTAAGTCCACAACTCCATGGCAT
1 CCTTTTAAGTCCAAAACTCCATGGCAC
418924 CCTT
1 CCTT
418928 GTTCCTTTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.24, C:0.31, G:0.12, T:0.33
Consensus pattern (27 bp):
CCTTTTAAGTCCAAAACTCCATGGCAC
Found at i:418935 original size:34 final size:33
Alignment explanation
Indices: 418735--419030 Score: 173
Period size: 33 Copynumber: 9.0 Consensus size: 33
418725 TGTGGCACCG
* * *
418735 TTTTAAGTCCACAGCTCCGTGGCA-CCTTGTTCT
1 TTTTAAGTCCACAACTCCATGGCATCCTT-TTCC
* * ***
418768 TTTTAAGCCCACAGCTGTGTGGCATTCCTTTTCC
1 TTTTAAGTCCACAACTCCATGGCA-TCCTTTTCC
* ** *
418802 TTTTCAAAGCCCACAACTCTGTGGCA-CCTTTTTCT
1 TTTT--AAGTCCACAACTCCATGGCATCC-TTTTCC
* * * *
418837 TTTTAAAGCCCACAACTTCGTGGCACTCTTTTTCC
1 TTTT-AAGTCCACAACTCCATGGCA-TCCTTTTCC
* * **
418872 TTTTAAGTTCAAAACTCTGTGGCA--C----CC
1 TTTTAAGTCCACAACTCCATGGCATCCTTTTCC
418899 TTTTAAGTCCACAACTCCATGGCATCCTTGTTCC
1 TTTTAAGTCCACAACTCCATGGCATCCTT-TTCC
* **
418933 TTTTAAGTCCACAACTCCGTGGCA-CCTTCACCC
1 TTTTAAGTCCACAACTCCATGGCATCCTT-TTCC
*
418966 TTTTAAGTCTACAACTCCATGGCAT-CTTTCTCC
1 TTTTAAGTCCACAACTCCATGGCATCCTTT-TCC
* * *
418999 TTTTAAGCCCACAAGT-CAGTGGCACCCTTTTC
1 TTTTAAGTCCACAACTCCA-TGGCATCCTTTTC
419031 AAAAACTCAC
Statistics
Matches: 212, Mismatches: 33, Indels: 36
0.75 0.12 0.13
Matches are distributed among these distances:
27 22 0.10
29 1 0.00
32 2 0.01
33 74 0.35
34 72 0.34
35 22 0.10
36 19 0.09
ACGTcount: A:0.20, C:0.31, G:0.14, T:0.35
Consensus pattern (33 bp):
TTTTAAGTCCACAACTCCATGGCATCCTTTTCC
Found at i:419276 original size:87 final size:87
Alignment explanation
Indices: 419125--419420 Score: 459
Period size: 87 Copynumber: 3.4 Consensus size: 87
419115 TTTTCTAAGT
* *
419125 CCAATATCGCTGGCCTTGAATCAACATATTGGTACCTTGTCTTTAAGACCAATGTCACTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCACTGGCC-T
*
419190 TAAATCA-CACATTGGCACAAGC
65 TGAATCAGCACATTGGCACAAGC
* * *
419212 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTAGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCACTGGCCTT
*
419277 GACTCAGCACATTGGCACAAGC
66 GAATCAGCACATTGGCACAAGC
* *
419299 CCAATATCGCTGGCCTTGAATCAGTATATTGGCACCTTGTCTTTAAGACCAATGTCCCTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCACTGGCCTT
*
419364 GAATCAGCACATTGGCACAAGA
66 GAATCAGCACATTGGCACAAGC
* * *
419386 CCAATGTCACTGGCCTTGAATCAGCACATTGGCAC
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
419421 AAGCCCAATA
Statistics
Matches: 191, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
86 6 0.03
87 185 0.97
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (87 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCACTGGCCTT
GAATCAGCACATTGGCACAAGC
Found at i:419412 original size:126 final size:126
Alignment explanation
Indices: 419256--419908 Score: 649
Period size: 126 Copynumber: 5.0 Consensus size: 126
419246 CCTTATCTTT
* *
419256 AAGACCAATGTCGCTAGCCTTGACTCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGAATC
1 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGAATC
* *
419321 AGTATATTGGCACCTTGTCTTTAAGACCAATGTCCCTGGCCTTGAATCAGCACATTGGCAC
66 AGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
* *
419382 AAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGTTGGCCTTGAATC
1 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGAATC
419447 AGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
66 AGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
* * * * *
419508 AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATGTTTAAGACCAATGTCGCTGG
1 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-C--------AAGCCCAATATCGCTGG
* * * * * *
419573 CCTTGAATCAGTACATTGGCA------C---AAGCCCAATATCGCTAGCCTTGAATCAGCATATT
57 CCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATT
419629 GGCACCTTATC
122 GG---C--A-C
* *
419640 TTTAAGACCAATGTTGCTGGCCTTGAATTAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGA
1 ---AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGA
* *
419705 ATCAGCATATTGGCACCTTGTCTTTAAGACTAATGTCGCTGGCCTTAAATCAGCACATTGGCAC
63 ATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
* * * * * * * *
419769 AAGTCCAATATCGCTAGCCTTAAATCAACATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTCG
1 AAGACCAATGTCGCTGGCCTTGAATCAGCACATT---G-----G-CA-C---AAGCCCAATATCG
* * * *
419834 CTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGC
53 CTGGCCTTGAATCAGCATATTGGCACCTT-GTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGC
*
419899 ATATTGGCAC
117 ACATTGGCAC
419909 CTTCGTCATC
Statistics
Matches: 435, Mismatches: 51, Indels: 68
0.79 0.09 0.12
Matches are distributed among these distances:
126 246 0.57
127 1 0.00
129 4 0.01
130 1 0.00
131 1 0.00
132 3 0.01
134 2 0.00
135 98 0.23
136 1 0.00
139 39 0.09
140 39 0.09
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (126 bp):
AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGAATC
AGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:419473 original size:87 final size:87
Alignment explanation
Indices: 419382--419957 Score: 828
Period size: 87 Copynumber: 6.4 Consensus size: 87
419372 ACATTGGCAC
* *
419382 AAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGTTGGCCTTGAATC
1 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGAATC
419447 AGCATATTGGCACCTTGTCTTT
66 AGCATATTGGCACCTTGTCTTT
419469 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGAATC
1 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGAATC
* *
419534 AGCATATTGGCACCTTATGTTT
66 AGCATATTGGCACCTTGTCTTT
* *
419556 AAGACCAATGTCGCTGGCCTTGAATCAGTACATTGGCACAAGCCCAATATCGCTAGCCTTGAATC
1 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGAATC
*
419621 AGCATATTGGCACCTTATCTTT
66 AGCATATTGGCACCTTGTCTTT
* *
419643 AAGACCAATGTTGCTGGCCTTGAATTAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGAATC
1 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGAATC
419708 AGCATATTGGCACCTTGTCTTT
66 AGCATATTGGCACCTTGTCTTT
* * * * *
419730 AAGACTAATGTCGCTGGCCTTAAATCAGCACATTGGCACAAGTCCAATATCGCTAGCCTTAAATC
1 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGAATC
* *
419795 AACATATTGGCGCCTTTGTCATCTTT
66 AGCATATTGGCACC-TTG---TCTTT
* *
419821 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTG
1 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG------CA-C---AAGCCCAATATCGCTG
419886 GCCTTGAATCAGCATATTGGCACCTTCGTCATCTTT
56 GCCTTGAATCAGCATATTGGCACCTT-G---TCTTT
419922 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG
1 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG
419958 TACCTTCATC
Statistics
Matches: 445, Mismatches: 29, Indels: 16
0.91 0.06 0.03
Matches are distributed among these distances:
87 319 0.72
88 3 0.01
91 38 0.09
97 2 0.00
98 1 0.00
100 2 0.00
101 80 0.18
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.28
Consensus pattern (87 bp):
AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGAATC
AGCATATTGGCACCTTGTCTTT
Found at i:419485 original size:174 final size:174
Alignment explanation
Indices: 419120--419908 Score: 716
Period size: 174 Copynumber: 4.5 Consensus size: 174
419110 CGTCTTTTTC
* * * * * * *
419120 TAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGTACCTTGTCTTTAAGACCAATGTCACTG
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT-TCTTTAAGACCAATATCGCTG
* * * * *
419185 GCCTTTAAATCA-CACATTGGCAC-AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC
65 GCC-TTGAATCAGCATATTGGCACTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG---C
* * * *
419248 TTATCTTTAAGACCAATGTCGCTAGCCTTGACTCAGCACATTGGCA------C--
126 --A-C---AAGCCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTGTCTT
* * * * * *
419295 -AAGCCCAATATCGCTGGCCTTGAATCAGTATATTGGCACCTTGTCTTTAAGACCAATGTCCCTG
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT-TCTTTAAGACCAATATCGCTG
* *
419359 GCCTTGAATCAGCACATTGGCAC-AAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCACAA
65 GCCTTGAATCAGCATATTGGCACTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAA
* *
419423 GCCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTGTCTT
130 GCCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTGTCTT
*
419468 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-----C---AAGCCCAATATCGCTGG
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTCTTTAAGACCAATATCGCTGG
*
419525 CCTTGAATCAGCATATTGGCACCTTATGTTTAAGACCAATGTCGCTGGCCTTGAATCAGTACATT
66 CCTTGAATCAGCATATTGGCA-C-------TAAGACCAATGTCGCTGGCCTTGAATCAGCACATT
*
419590 GGCACAAGCCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTATCTT
123 GGCACAAGCCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTGTCTT
* * *
419642 TAAGACCAATGTTGCTGGCCTTGAATTAGCACATTGGCA-----C---AAGCCCAATATCGCTGG
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTCTTTAAGACCAATATCGCTGG
* *
419699 CCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACTAATGTCGCTGGCCTTAAATCAGCACATT
66 CCTTGAATCAGCATATTGGCA------C--TAAGACCAATGTCGCTGGCCTTGAATCAGCACATT
* * * *
419764 GGCACAAGTCCAATATCGCTAGCCTTAAATCAACATATTGGCGCCTTTGTCATCTT
123 GGCACAAGCCCAATATCGCTAGCCTTGAATCAGCATATTGGCACC-TTG---TCTT
* *
419820 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT--TCTTTAAGACCAATATCGCT
419885 GGCCTTGAATCAGCATATTGGCAC
64 GGCCTTGAATCAGCATATTGGCAC
419909 CTTCGTCATC
Statistics
Matches: 532, Mismatches: 44, Indels: 69
0.82 0.07 0.11
Matches are distributed among these distances:
165 66 0.12
166 1 0.00
168 2 0.00
169 1 0.00
171 2 0.00
173 7 0.01
174 371 0.70
175 2 0.00
178 40 0.08
179 1 0.00
182 1 0.00
185 1 0.00
188 37 0.07
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (174 bp):
TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTCTTTAAGACCAATATCGCTGG
CCTTGAATCAGCATATTGGCACTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAG
CCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTGTCTT
Found at i:419543 original size:213 final size:213
Alignment explanation
Indices: 419169--419633 Score: 779
Period size: 213 Copynumber: 2.2 Consensus size: 213
419159 CCTTGTCTTT
*
419169 AAGACCAATGTCACTGGCCTTTAAATCA-CACATTGGCACAAGCCCAATATCGCTGGCCTTGAAT
1 AAGACCAATGTCACTGGCC-TTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGAAT
*
419233 CAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTAGCCTTGACTCAGCACATTGGCACAAG
65 CAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTAGCCTTGAATCAGCACATTGGCACAAG
* *
419298 CCCAATATCGCTGGCCTTGAATCAGTATATTGGCACCTTGTCTTTAAGACCAATGTCCCTGGCCT
130 CCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCCCTGGCCT
419363 TGAATCAGCACATTGGCAC
195 TGAATCAGCACATTGGCAC
*
419382 AAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGTTGGCCTTGAATC
1 AAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGAATC
* *
419447 AGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGC
66 AGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTAGCCTTGAATCAGCACATTGGCACAAGC
* *
419512 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATGTTTAAGACCAATGTCGCTGGCCTT
131 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCCCTGGCCTT
*
419577 GAATCAGTACATTGGCAC
196 GAATCAGCACATTGGCAC
* * * * *
419595 AAGCCCAATATCGCTAGCCTTGAATCAGCATATTGGCAC
1 AAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCAC
419634 CTTATCTTTA
Statistics
Matches: 236, Mismatches: 15, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
212 7 0.03
213 229 0.97
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.26
Consensus pattern (213 bp):
AAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGAATC
AGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTAGCCTTGAATCAGCACATTGGCACAAGC
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCCCTGGCCTT
GAATCAGCACATTGGCAC
Found at i:419615 original size:39 final size:39
Alignment explanation
Indices: 419560--419805 Score: 168
Period size: 39 Copynumber: 5.8 Consensus size: 39
419550 ATGTTTAAGA
* *
419560 CCAATGTCGCTGGCCTTGAATCAGTACATTGGCACAAGC
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACAAGC
* * *
419599 CCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGA
1 CCAATATCGCTGGCCTTGAATCAGCACATTGG---C--A-C---AAGC
* * *
419647 CCAATGTTGCTGGCCTTGAATTAGCACATTGGCACAAGC
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACAAGC
* *
419686 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGA
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCA------C---AAGC
* * * *
419734 CTAATGTCGCTGGCCTTAAATCAGCACATTGGCACAAGT
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACAAGC
* * * *
419773 CCAATATCGCTAGCCTTAAATCAACATATTGGC
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGC
419806 GCCTTTGTCA
Statistics
Matches: 163, Mismatches: 26, Indels: 36
0.72 0.12 0.16
Matches are distributed among these distances:
39 92 0.56
42 3 0.02
43 1 0.01
44 1 0.01
45 3 0.02
48 63 0.39
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.28
Consensus pattern (39 bp):
CCAATATCGCTGGCCTTGAATCAGCACATTGGCACAAGC
Found at i:419667 original size:300 final size:300
Alignment explanation
Indices: 419125--419720 Score: 1005
Period size: 300 Copynumber: 2.0 Consensus size: 300
419115 TTTTCTAAGT
*
419125 CCAATATCGCTGGCCTTGAATCAACATATTGGTACCTTGTCTTTAAGACCAATGTCACTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTGTCTTTAAGACCAATGTCACTGGCCTT
419190 TAAATCACACATTGGCACAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTT
66 TAAATCACACATTGGCACAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTT
* *
419255 TAAGACCAATGTCGCTAGCCTTGACTCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGAAT
131 TAAGACCAATGTCGCTAGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTAGCCTTGAAT
* *
419320 CAGTATATTGGCACCTTGTCTTTAAGACCAATGTCCCTGGCCTTGAATCAGCACATTGGCACAAG
196 CAGCATATTGGCACCTTATCTTTAAGACCAATGTCCCTGGCCTTGAATCAGCACATTGGCACAAG
*
419385 ACCAATGTCACTGGCCTTGAATCAGCACATTGGCACAAGC
261 ACCAATATCACTGGCCTTGAATCAGCACATTGGCACAAGC
* * *
419425 CCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCC-T
1 CCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTGTCTTTAAGACCAATGTCACTGGCCTT
* *
419489 TGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATGT
66 TAAATCA-CACATTGGCACAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCT
* *
419554 TTAAGACCAATGTCGCTGGCCTTGAATCAGTACATTGGCACAAGCCCAATATCGCTAGCCTTGAA
130 TTAAGACCAATGTCGCTAGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTAGCCTTGAA
** *
419619 TCAGCATATTGGCACCTTATCTTTAAGACCAATGTTGCTGGCCTTGAATTAGCACATTGGCACAA
195 TCAGCATATTGGCACCTTATCTTTAAGACCAATGTCCCTGGCCTTGAATCAGCACATTGGCACAA
* * *
419684 GCCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
260 GACCAATATCACTGGCCTTGAATCAGCACATTGGCAC
419721 CTTGTCTTTA
Statistics
Matches: 276, Mismatches: 19, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
299 7 0.03
300 269 0.97
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (300 bp):
CCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTGTCTTTAAGACCAATGTCACTGGCCTT
TAAATCACACATTGGCACAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTT
TAAGACCAATGTCGCTAGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTAGCCTTGAAT
CAGCATATTGGCACCTTATCTTTAAGACCAATGTCCCTGGCCTTGAATCAGCACATTGGCACAAG
ACCAATATCACTGGCCTTGAATCAGCACATTGGCACAAGC
Found at i:419884 original size:49 final size:49
Alignment explanation
Indices: 419769--420104 Score: 345
Period size: 52 Copynumber: 6.7 Consensus size: 49
419759 ACATTGGCAC
* * * * *
419769 AAGTCCAATATCGCTAGCCTTAAATCAACATATTGGCGCCTTTGTCATCTTT
1 AAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACC--T-TCATCTTT
*
419821 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTT
1 AAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTT
*
419870 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTT
1 AAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACC-T--TCATCTTT
* * *
419922 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGTACCTTCATCTTT
1 AAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTT
* * * * *
419971 AAGTCCAATATCGTTGGCCTCGAATCAGCGTATTGGCATCTTTAACAT-TCTT
1 AAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCA-CCTT--CATCT-TT
* * ** * * *
420023 AAGCCCAATGTCGTTGGCCTTGTCTCAGCACATTGGCA--TTCTTCTTC
1 AAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTT
* *
420070 AAGTCTAATGTCGCTGGCCATGAATCAGCATATTG
1 AAGTCCAATGTCGCTGGCCTTGAATCAGCATATTG
420105 TCATTCTTCG
Statistics
Matches: 240, Mismatches: 36, Indels: 21
0.81 0.12 0.07
Matches are distributed among these distances:
47 31 0.13
48 1 0.00
49 87 0.36
50 5 0.02
51 2 0.01
52 114 0.47
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (49 bp):
AAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTT
Found at i:419944 original size:101 final size:101
Alignment explanation
Indices: 419769--420104 Score: 444
Period size: 101 Copynumber: 3.3 Consensus size: 101
419759 ACATTGGCAC
* * * * *
419769 AAGTCCAATATCGCTAGCCTTAAATCAACATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTCG
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGACCAATGTCG
419834 CTGGCCTTGAATCAGCACATTGGCACCTTCATCTTT
66 CTGGCCTTGAATCAGCACATTGGCACCTTCATCTTT
*
419870 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAGACCAATGTCG
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGACCAATGTCG
*
419935 CTGGCCTTGAATCAGCACATTGGTACCTTCATCTTT
66 CTGGCCTTGAATCAGCACATTGGCACCTTCATCTTT
* * * * ** *
419971 AAGTCCAATATCGTTGGCCTCGAATCAGCGTATTGGCATCTTTAACAT-TCTTAAGCCCAATGTC
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCT-TTAAGACCAATGTC
* ** * *
420035 GTTGGCCTTGTCTCAGCACATTGGCA--TTCTTCTTC
65 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTT
* * *
420070 AAGTCTAATGTCGCTGGCCATGAATCAGCATATTG
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTG
420105 TCATTCTTCG
Statistics
Matches: 207, Mismatches: 27, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
99 36 0.17
100 1 0.00
101 170 0.82
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (101 bp):
AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGACCAATGTCG
CTGGCCTTGAATCAGCACATTGGCACCTTCATCTTT
Found at i:420920 original size:19 final size:19
Alignment explanation
Indices: 420896--420959 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 19
420886 CAAACAGTAA
420896 TTGTATCGATACACAAGTG
1 TTGTATCGATACACAAGTG
420915 TTGTATCGAT--ACAA---
1 TTGTATCGATACACAAGTG
*
420929 -TGTATCGATACATAAGTG
1 TTGTATCGATACACAAGTG
*
420947 TTGTATTGATACA
1 TTGTATCGATACA
420960 ATGTATCGCT
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
13 9 0.24
15 3 0.08
17 4 0.11
19 21 0.57
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (19 bp):
TTGTATCGATACACAAGTG
Found at i:420934 original size:13 final size:13
Alignment explanation
Indices: 420916--420940 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
420906 ACACAAGTGT
420916 TGTATCGATACAA
1 TGTATCGATACAA
420929 TGTATCGATACA
1 TGTATCGATACA
420941 TAAGTGTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:420938 original size:32 final size:32
Alignment explanation
Indices: 420897--420972 Score: 125
Period size: 32 Copynumber: 2.4 Consensus size: 32
420887 AAACAGTAAT
420897 TGTATCGATACACAAGTGTTGTATCGATACAA
1 TGTATCGATACACAAGTGTTGTATCGATACAA
* *
420929 TGTATCGATACATAAGTGTTGTATTGATACAA
1 TGTATCGATACACAAGTGTTGTATCGATACAA
*
420961 TGTATCGCTACA
1 TGTATCGATACA
420973 AAGCTACTGC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.34
Consensus pattern (32 bp):
TGTATCGATACACAAGTGTTGTATCGATACAA
Found at i:421037 original size:33 final size:33
Alignment explanation
Indices: 420991--421056 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
420981 GCCAAGGAAA
*
420991 TGTATCGATACATT-ATTCAATGTATCGATACAT
1 TGTATCGAGACATTGA-TCAATGTATCGATACAT
**
421024 TGTATCGAGACATTGATCTTTGTATCGATACAT
1 TGTATCGAGACATTGATCAATGTATCGATACAT
421057 CTGGGAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.39
Consensus pattern (33 bp):
TGTATCGAGACATTGATCAATGTATCGATACAT
Found at i:421901 original size:9 final size:9
Alignment explanation
Indices: 421887--421912 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
421877 GTAGTTTTAG
421887 GATGATTTT
1 GATGATTTT
421896 GATGATTTT
1 GATGATTTT
421905 GATGATTT
1 GATGATTT
421913 GAAGTCATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.54
Consensus pattern (9 bp):
GATGATTTT
Found at i:424292 original size:13 final size:13
Alignment explanation
Indices: 424274--424298 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
424264 ATATTGCTTA
424274 GTATCGATACATT
1 GTATCGATACATT
424287 GTATCGATACAT
1 GTATCGATACAT
424299 GTTCATTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:424295 original size:33 final size:32
Alignment explanation
Indices: 424253--424316 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
424243 CACACACAGA
424253 TGTATCGATACATATTGC-TTAGTATCGATACAT
1 TGTATCGATACATATT-CATT-GTATCGATACAT
*
424286 TGTATCGATACATGTTCATTGTATCGATACA
1 TGTATCGATACATATTCATTGTATCGATACA
424317 CCTTGAAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATATTCATTGTATCGATACAT
Found at i:425458 original size:90 final size:90
Alignment explanation
Indices: 425305--425487 Score: 323
Period size: 90 Copynumber: 2.0 Consensus size: 90
425295 ATTCAAGAAA
425305 TATATAGCCCAAGAGTTACTTTCACCAATACACCCTTTTTGGTAAGTTTATTAAATTGGCATGTT
1 TATATAGCCCAAGAGTTACTTTCACCAATACACCCTTTTTGGTAAGTTTATTAAATTGGCATGTT
*
425370 TAAATGC-AAATAACACTATGACATT
66 TAAATGCGAAA-AACACTACGACATT
* *
425395 TATATAGCCCAAGAGTTACTTTCACCAATACATCCTTTTTGGTAAGTTTATTAAGTTGGCATGTT
1 TATATAGCCCAAGAGTTACTTTCACCAATACACCCTTTTTGGTAAGTTTATTAAATTGGCATGTT
425460 TAAATGCGAAAAACACTACGACATT
66 TAAATGCGAAAAACACTACGACATT
425485 TAT
1 TAT
425488 TTTAGTTCTT
Statistics
Matches: 89, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
90 86 0.97
91 3 0.03
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (90 bp):
TATATAGCCCAAGAGTTACTTTCACCAATACACCCTTTTTGGTAAGTTTATTAAATTGGCATGTT
TAAATGCGAAAAACACTACGACATT
Found at i:426079 original size:17 final size:16
Alignment explanation
Indices: 426057--426090 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
426047 GTGAAAAAAT
426057 AAATT-TTT-TTTAAA
1 AAATTATTTGTTTAAA
426071 AAATTATTTGTTTAAA
1 AAATTATTTGTTTAAA
426087 AAAT
1 AAAT
426091 AAAAAGTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.28
15 3 0.17
16 10 0.56
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (16 bp):
AAATTATTTGTTTAAA
Found at i:426100 original size:15 final size:15
Alignment explanation
Indices: 426082--426111 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
426072 AATTATTTGT
426082 TTAAAAAATAAAAAG
1 TTAAAAAATAAAAAG
*
426097 TTAAAAAATGAAAAG
1 TTAAAAAATAAAAAG
426112 GTAGTTTATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.10, T:0.20
Consensus pattern (15 bp):
TTAAAAAATAAAAAG
Found at i:426731 original size:39 final size:37
Alignment explanation
Indices: 426676--427109 Score: 200
Period size: 38 Copynumber: 11.7 Consensus size: 37
426666 TTAAATTAGA
*
426676 ATATTTATA-TATAATAAATAATAAAAATATTAAAATT
1 ATATTTATATTAAAAT-AATAATAAAAATATTAAAATT
* *
426713 ATATTTACATTGAAAATAATTAATCAAAAGTCATTAAAATT
1 ATATTTATATT-AAAATAA-TAAT-AAAAAT-ATTAAAATT
* ***
426754 ATA-TTATATT-AAATACTAA-AATCTGTATTAAAATT
1 ATATTTATATTAAAATAATAATAA-AAATATTAAAATT
* *
426789 ATATTTATGTT-AAATAATAATTAAAAATTATTTAAATT
1 ATATTTATATTAAAATAATAA-TAAAAA-TATTAAAATT
* *
426827 ATATTTATATTACAAAATAA-ATTAATAAA-A-TCAAA-T
1 ATATTTATATT--AAAATAATAATAA-AAATATTAAAATT
* * * **
426863 A-ATTAAT-TTAAAATGATAGTTAAGGATATT-AAATT
1 ATATTTATATTAAAATAATA-ATAAAAATATTAAAATT
*
426898 AGAATATTTATA-TATAATAAATAATAAAAATATTAAAATT
1 ---ATATTTATATTAAAAT-AATAATAAAAATATTAAAATT
* * *
426938 ATATTTACATT----GAA-AAT--AACTA--AAAATT
1 ATATTTATATTAAAATAATAATAAAAATATTAAAATT
* *
426966 ATATTTACATTGAAAATAATTAATCAAAAGTCATTAAAATT
1 ATATTTATATT-AAAATAA-TAAT-AAAAAT-ATTAAAATT
* ***
427007 ATA-TCATATT-AAATAATAA-AATCTGTATTAAAATT
1 ATATTTATATTAAAATAATAATAA-AAATATTAAAATT
*
427042 ATATTTATATT-AAATAATAATTAAAAATTATTTAAATT
1 ATATTTATATTAAAATAATAA-TAAAAA-TATTAAAATT
427080 ATATTTATATTACAAAATAAATTAATAAAA
1 ATATTTATATT--AAAAT-AA-TAATAAAA
427110 TCAAATAATT
Statistics
Matches: 307, Mismatches: 40, Indels: 95
0.69 0.09 0.21
Matches are distributed among these distances:
28 17 0.06
30 4 0.01
32 9 0.03
33 6 0.02
34 10 0.03
35 38 0.12
36 35 0.11
37 26 0.08
38 63 0.21
39 30 0.10
40 28 0.09
41 31 0.10
42 7 0.02
43 3 0.01
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (37 bp):
ATATTTATATTAAAATAATAATAAAAATATTAAAATT
Found at i:426810 original size:22 final size:21
Alignment explanation
Indices: 426785--426837 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
426775 TCTGTATTAA
426785 AATTATATTTATGTTAAATAAT
1 AATTATATTTAT-TTAAATAAT
* * *
426807 AATTAAAAATTATTTAAATTAT
1 AATT-ATATTTATTTAAATAAT
*
426829 ATTTATATT
1 AATTATATT
426838 ACAAAATAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 3
0.73 0.18 0.09
Matches are distributed among these distances:
21 3 0.12
22 15 0.62
23 6 0.25
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
AATTATATTTATTTAAATAAT
Found at i:426919 original size:116 final size:116
Alignment explanation
Indices: 426646--426956 Score: 309
Period size: 114 Copynumber: 2.8 Consensus size: 116
426636 TAGTGGGAAG
426646 TAAAATGATAGTTAAGGATATTAAATTAGAATATTTATATATAAT--A-AATAATAAAAATATTA
1 TAAAATGATAGTTAAGGATATTAAATTAGAATATTTATATATAATAAATAATAATAAAAATATTA
*
426708 AAATTATATTTACATTGAAAATAATTAATCAAAAGTCATTAAAATTATATTA
66 AAATTATATTTACATTCAAAATAATTAATCAAAAGTCA-TAAAATTATATTA
* * ** * **
426760 TATTAA--ATA-CTAA--A-ATCTGTATTA-AA-ATTATATTTATGTTAAATAATAATTAAAAAT
1 TA-AAATGATAGTTAAGGATAT-TAAATTAGAATATT-TATATATAATAAATAATAA-TAAAAA-
* *
426817 TATTTAAATTATATTTATATTACAAAATAAATTAAT-AAAA-TCA-AATAATTA-ATT-
61 TATTAAAATTATATTTACATT-CAAAAT-AATTAATCAAAAGTCATAA-AATTATATTA
426871 TAAAATGATAGTTAAGGATATTAAATTAGAATATTTATATATAAT--A-AATAATAAAAATATTA
1 TAAAATGATAGTTAAGGATATTAAATTAGAATATTTATATATAATAAATAATAATAAAAATATTA
*
426933 AAATTATATTTACATTGAAAATAA
66 AAATTATATTTACATTCAAAATAA
426957 CTAAAAATTA
Statistics
Matches: 158, Mismatches: 20, Indels: 43
0.71 0.09 0.19
Matches are distributed among these distances:
108 3 0.02
109 13 0.08
110 13 0.08
111 22 0.14
112 22 0.14
113 22 0.14
114 25 0.16
115 17 0.11
116 18 0.11
117 3 0.02
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.39
Consensus pattern (116 bp):
TAAAATGATAGTTAAGGATATTAAATTAGAATATTTATATATAATAAATAATAATAAAAATATTA
AAATTATATTTACATTCAAAATAATTAATCAAAAGTCATAAAATTATATTA
Found at i:426953 original size:26 final size:27
Alignment explanation
Indices: 426924--426988 Score: 105
Period size: 28 Copynumber: 2.4 Consensus size: 27
426914 ATAAATAATA
426924 AAAAT-ATTAAAATTATATTTACATTG
1 AAAATAATTAAAATTATATTTACATTG
*
426950 AAAATAACTAAAAATTATATTTACATTG
1 AAAATAA-TTAAAATTATATTTACATTG
426978 AAAATAATTAA
1 AAAATAATTAA
426989 TCAAAAGTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
26 5 0.14
27 4 0.11
28 26 0.74
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (27 bp):
AAAATAATTAAAATTATATTTACATTG
Found at i:426965 original size:116 final size:112
Alignment explanation
Indices: 426646--426966 Score: 303
Period size: 112 Copynumber: 2.8 Consensus size: 112
426636 TAGTGGGAAG
426646 TAAAATGATAGTTAAGGATATTAAATTAGAATATTTATATATAATAAATAATAAAAATATTAAAA
1 TAAAATGATAGTTAAGGATATTAAATTAGAATATTTATATATAATAAATAATAAAAATATTAAAA
* * *
426711 TTATATTTACATTGAAAATAATTAATCAAAAGTCATTAAAATTATATTATAT
66 TTATATTTACATTGAAAATAA-T-A--AAAA-TTAATAAAATAATATTATAT
* * *
426763 T-AAAT-ACTA--AAATCTG-TATTAAAATT---ATATTTATGT-TAA-ATAATAATTAAAAATT
1 TAAAATGA-TAGTTAA--GGATATT-AAATTAGAATATTTATATATAATA-AATAA-TAAAAA-T
* * *
426818 ATTTAAATTATATTTATATT-ACAA-AAT--AAATTAATAAAATCAAATAATTA-ATT
59 ATTAAAATTATATTTACATTGAAAATAATAAAAATTAATAAAAT--AAT-ATTATA-T
426871 TAAAATGATAGTTAAGGATATTAAATTAGAATATTTATATATAATAAATAATAAAAATATTAAAA
1 TAAAATGATAGTTAAGGATATTAAATTAGAATATTTATATATAATAAATAATAAAAATATTAAAA
426936 TTATATTTACATTGAAAATAACTAAAAATTA
66 TTATATTTACATTGAAAATAA-TAAAAATTA
426967 TATTTACATT
Statistics
Matches: 163, Mismatches: 15, Indels: 53
0.71 0.06 0.23
Matches are distributed among these distances:
105 8 0.05
106 3 0.02
107 3 0.02
108 6 0.04
109 12 0.07
110 5 0.03
111 23 0.14
112 28 0.17
113 28 0.17
114 23 0.14
115 5 0.03
116 18 0.11
117 1 0.01
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.39
Consensus pattern (112 bp):
TAAAATGATAGTTAAGGATATTAAATTAGAATATTTATATATAATAAATAATAAAAATATTAAAA
TTATATTTACATTGAAAATAATAAAAATTAATAAAATAATATTATAT
Found at i:427077 original size:74 final size:75
Alignment explanation
Indices: 426960--427100 Score: 173
Period size: 74 Copynumber: 1.9 Consensus size: 75
426950 AAAATAACTA
*
426960 AAAATTATATTTACATTGAAAATAATTAATCAAAAGTCATTAAAATTATA-TCATATTA-AATAA
1 AAAATTATATTTACATT-AAAATAATTAATCAAAAATCATT-AAATTATATTCATATTACAA-AA
427023 TAAAATCTGTATT
63 TAAAATCTGTATT
* * * *
427036 AAAATTATATTTATATT-AAATAA-TAATTAAAAATTATTTAAATTATATTTATATTACAAAATA
1 AAAATTATATTTACATTAAAATAATTAATCAAAAATCA-TTAAATTATATTCATATTACAAAATA
427099 AA
65 AA
427101 TTAATAAAAT
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
73 18 0.32
74 21 0.37
75 2 0.04
76 16 0.28
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (75 bp):
AAAATTATATTTACATTAAAATAATTAATCAAAAATCATTAAATTATATTCATATTACAAAATAA
AATCTGTATT
Found at i:433062 original size:35 final size:36
Alignment explanation
Indices: 433018--433085 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
433008 AGATAGAAAC
**
433018 CTCCCTATC-TTTTCACGGGCTAAGATAGAATCTCT
1 CTCCCTATCTTTTTCAAAGGCTAAGATAGAATCTCT
433053 CTCCCTATCTTTTTCAAAGGCTAAGATAGAATC
1 CTCCCTATCTTTTTCAAAGGCTAAGATAGAATC
433086 CCTCAATCAC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 9 0.30
36 21 0.70
ACGTcount: A:0.26, C:0.26, G:0.13, T:0.34
Consensus pattern (36 bp):
CTCCCTATCTTTTTCAAAGGCTAAGATAGAATCTCT
Found at i:433615 original size:13 final size:13
Alignment explanation
Indices: 433597--433659 Score: 59
Period size: 13 Copynumber: 5.2 Consensus size: 13
433587 TGACAGTTTT
433597 ATGTATCGATACA
1 ATGTATCGATACA
433610 ATGTATCGATACTA
1 ATGTATCGATAC-A
433624 A-G---C-A-A-A
1 ATGTATCGATACA
433630 ATGTATCGATACA
1 ATGTATCGATACA
433643 ATGTATCGATACTA
1 ATGTATCGATAC-A
433657 ATG
1 ATG
433660 GATATGTATC
Statistics
Matches: 41, Mismatches: 0, Indels: 17
0.71 0.00 0.29
Matches are distributed among these distances:
6 2 0.05
7 1 0.02
8 1 0.02
9 1 0.02
10 2 0.05
11 1 0.02
12 1 0.02
13 26 0.63
14 6 0.15
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:433639 original size:33 final size:33
Alignment explanation
Indices: 433597--433677 Score: 128
Period size: 33 Copynumber: 2.5 Consensus size: 33
433587 TGACAGTTTT
433597 ATGTATCGATACAATGTATCGATACTAA-GCAAA
1 ATGTATCGATACAATGTATCGATACTAATG-AAA
* *
433630 ATGTATCGATACAATGTATCGATACTAATGGAT
1 ATGTATCGATACAATGTATCGATACTAATGAAA
433663 ATGTATCGATACAAT
1 ATGTATCGATACAAT
433678 TAAGGGTTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
33 44 0.98
34 1 0.02
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.31
Consensus pattern (33 bp):
ATGTATCGATACAATGTATCGATACTAATGAAA
Found at i:434284 original size:20 final size:20
Alignment explanation
Indices: 434259--434297 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
434249 ATAATAATTT
**
434259 CAACAAAATTTAGCATCATG
1 CAACAAAATCAAGCATCATG
434279 CAACAAAATCAAGCATCAT
1 CAACAAAATCAAGCATCAT
434298 ACCTCTATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.23, G:0.08, T:0.21
Consensus pattern (20 bp):
CAACAAAATCAAGCATCATG
Found at i:434613 original size:20 final size:21
Alignment explanation
Indices: 434574--434617 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
434564 ATTGCTGTTA
434574 TTTTGTTTCTGTCTTGTTTCT
1 TTTTGTTTCTGTCTTGTTTCT
434595 TTTTGTTTCTG-C-TGTTTTCT
1 TTTTGTTTCTGTCTTG-TTTCT
434615 TTT
1 TTT
434618 ATTTTTTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 2 0.09
20 9 0.41
21 11 0.50
ACGTcount: A:0.00, C:0.14, G:0.14, T:0.73
Consensus pattern (21 bp):
TTTTGTTTCTGTCTTGTTTCT
Found at i:434765 original size:19 final size:19
Alignment explanation
Indices: 434727--434773 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
434717 GATTGCTTTC
*
434727 TCTTTTCTTCCTTTTTCTCT
1 TCTTTT-TTCCTTCTTCTCT
*
434747 TCTTTTTTTCTTCTTCTCT
1 TCTTTTTTCCTTCTTCTCT
434766 TCTCTTTT
1 TCT-TTTT
434774 AATTGCTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (19 bp):
TCTTTTTTCCTTCTTCTCT
Found at i:435558 original size:62 final size:62
Alignment explanation
Indices: 435465--435586 Score: 217
Period size: 62 Copynumber: 2.0 Consensus size: 62
435455 GCATGCATGA
435465 AATGCAATGCAATGCAATGACACCTAAAAAGCTTAGGTGGCAGCAAATTAAACATGAAATGC
1 AATGCAATGCAATGCAATGACACCTAAAAAGCTTAGGTGGCAGCAAATTAAACATGAAATGC
* * *
435527 AATGTAATGCAATGCAATGACACCTAGAAAGCTTAGGTGGCAGCAAATTAAGCATGAAAT
1 AATGCAATGCAATGCAATGACACCTAAAAAGCTTAGGTGGCAGCAAATTAAACATGAAAT
435587 CCACCAAATT
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 57 1.00
ACGTcount: A:0.43, C:0.16, G:0.20, T:0.20
Consensus pattern (62 bp):
AATGCAATGCAATGCAATGACACCTAAAAAGCTTAGGTGGCAGCAAATTAAACATGAAATGC
Found at i:437467 original size:21 final size:21
Alignment explanation
Indices: 437420--437475 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
437410 GCATGGTGGC
437420 TTTGTATCGATACATTTTAGG
1 TTTGTATCGATACATTTTAGG
** *
437441 CATGTATCGATACA-TTTACTG
1 TTTGTATCGATACATTTTA-GG
*
437462 TTTGTATCAATACA
1 TTTGTATCGATACA
437476 AATTGTAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
20 4 0.14
21 24 0.86
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (21 bp):
TTTGTATCGATACATTTTAGG
Found at i:438166 original size:59 final size:59
Alignment explanation
Indices: 438020--438486 Score: 375
Period size: 59 Copynumber: 7.9 Consensus size: 59
438010 AAGGAGAGTG
* * * * * * **
438020 AGGCATCCTGCTTTTTGAGGAATAGAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGA
1 AGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTATGTGGGCTTTAAAAAAA
** * * ** * * *
438079 A-GTTTTCTACTCTTTGAGGACTAAAAGGTGTGACCAACTTGTATCGGCTTTAAAAAAA
1 AGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTATGTGGGCTTTAAAAAAA
* *
438137 AGGCGTCTTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTATGTGGGCTTTAAAGAAA
1 AGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTATGTGGGCTTTAAAAAAA
* * * * * * *
438196 A-GTGTCCTGCTCTTTGAAGACTAGAAAGGTGCTACCGACTTGTGTAGACTTTAAAAGAAAA
1 AGGCGTCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTTATGTGGGCTTT-AAA-AAAA
* * * * * * *
438257 AGGCATCCCGCTTTTTGAGGACTAGAAGGTGCCACCCACTCATGTGGGCTTTAAAAGGAA
1 AGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTATGTGGGCTTTAAAA-AAA
* * * ** * **
438317 A-GTG-CCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTAAGCTTTGAAAGGA
1 AGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTATGTGGGCTTTAAAAAAA
* * * * * *
438374 ACGTGTCTTGCTTTTTGAGGACTAAAAGGTGCCACCAACTCATATGGGCTTTAAAAGGAAA
1 AGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTATGTGGGCTTTAAAA--AAA
* * * * * *
438435 GGGCATCCTGCTCTTTAAGGACTGAAAGGTGCCACAAACTTGTGTGGGCTTT
1 AGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTATGTGGGCTTT
438487 GAAAGGAGAA
Statistics
Matches: 315, Mismatches: 83, Indels: 18
0.76 0.20 0.04
Matches are distributed among these distances:
57 3 0.01
58 106 0.34
59 114 0.36
60 9 0.03
61 66 0.21
62 17 0.05
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (59 bp):
AGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTATGTGGGCTTTAAAAAAA
Found at i:438346 original size:178 final size:179
Alignment explanation
Indices: 438145--438522 Score: 440
Period size: 178 Copynumber: 2.1 Consensus size: 179
438135 AAAGGCGTCT
* **
438145 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTATGTGGGCTTT-AAAGAAAAGTGTCCTGCTCT
1 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTATGTAAGCTTTGAAAGAAAAGTGTCCTGCTCT
* * ** * * *
438209 TTGAAGACTAGAAAGGTGCTACCGACTTGTGTAGACTTTAAAAGAAAAAGGCATCCCGCTTTTTG
66 TTGAAGACTA-AAAGGTGCCACCAACTCATATAGACTTTAAAAGAAAAAGGCATCCCGCTCTTTA
**
438274 AGGACT-AGAAGGTGCCACCCACTCATGTGGGCTTTAAAAGGA-AA-GTGCC
130 AGGACTGA-AAGGTGCCACAAACTCATGTGGGCTTTAAAAGGAGAATGT-CC
* * * * *
438323 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTAAGCTTTGAAAGGAACGTGTCTTGCTTT
1 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTATGTAAGCTTTGAAAGAAAAGTGTCCTGCTCT
* * * * * *
438388 TTGAGGACTAAAAGGTGCCACCAACTCATATGGGCTTTAAAAGGAAAGGGCATCCTGCTCTTTAA
66 TTGAAGACTAAAAGGTGCCACCAACTCATATAGACTTTAAAAGAAAAAGGCATCCCGCTCTTTAA
** * *
438453 GGACTGAAAGGTGCCACAAACTTGTGTGGGCTTTGAAAGGAGAATGTCT
131 GGACTGAAAGGTGCCACAAACTCATGTGGGCTTTAAAAGGAGAATGTCC
* *
438502 TACTCTTTAAGGACTGAAAGG
1 TGCTCTTTGAGGACTGAAAGG
438523 ATAAAAGGTT
Statistics
Matches: 167, Mismatches: 29, Indels: 7
0.82 0.14 0.03
Matches are distributed among these distances:
178 117 0.70
179 48 0.29
180 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.27
Consensus pattern (179 bp):
TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTATGTAAGCTTTGAAAGAAAAGTGTCCTGCTCT
TTGAAGACTAAAAGGTGCCACCAACTCATATAGACTTTAAAAGAAAAAGGCATCCCGCTCTTTAA
GGACTGAAAGGTGCCACAAACTCATGTGGGCTTTAAAAGGAGAATGTCC
Found at i:438501 original size:120 final size:117
Alignment explanation
Indices: 438028--438522 Score: 478
Period size: 120 Copynumber: 4.2 Consensus size: 117
438018 TGAGGCATCC
* * * * ** * * *
438028 TGCTTTTTGAGGAATAGAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGG-AAGTTTTCTACTCT
1 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTCATGTGGGCTTTAAAAGGAAAGTGTCCTGCTCT
* * ** * * ** *
438092 TTGAGGACTAAAAGGTGTGACCAACTTGTATCGGCTTT-AAAAAAAAGGCGTCT
66 TTAAGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTTGAAAGGAAA--TGTCT
* *
438145 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTATGTGGGCTTT-AAAGAAAAGTGTCCTGCTCT
1 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTCATGTGGGCTTTAAAAGGAAAGTGTCCTGCTCT
* * * * * * *
438209 TTGAA-GACTAGAAAGGTGCTACCGACTTGTGTAGACTTTAAAAGAAAAAGGCATCC
66 TT-AAGGACT-GAAAGGTGCCACCAACTTGTGTAGGCTTTGAAAG-GAAATG--TCT
* * * *
438265 CGCTTTTTGAGGACTAGAAGGTGCCACCCACTCATGTGGGCTTTAAAAGGAAAGTG-CCTGCTCT
1 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTCATGTGGGCTTTAAAAGGAAAGTGTCCTGCTCT
* * *
438329 TTGAGGACTGAAAGGTGCCACCAACTTGTGTAAGCTTTGAAAGGAACGTGTCT
66 TTAAGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTTGAAAGGAA-ATGTCT
* * *
438382 TGCTTTTTGAGGACTAAAAGGTGCCACCAACTCATATGGGCTTTAAAAGGAAAGGGCATCCTGCT
1 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTCATGTGGGCTTTAAAAGGAAAGTG--TCCTGCT
* *
438447 CTTTAAGGACTGAAAGGTGCCACAAACTTGTGTGGGCTTTGAAAGGAGAATGTCT
64 CTTTAAGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTTGAAAGGA-AATGTCT
* * *
438502 TACTCTTTAAGGACTGAAAGG
1 TGCTCTTTGAGGACTAAAAGG
438523 ATAAAAGGTT
Statistics
Matches: 314, Mismatches: 50, Indels: 25
0.81 0.13 0.06
Matches are distributed among these distances:
116 4 0.01
117 109 0.35
118 26 0.08
119 34 0.11
120 130 0.41
121 11 0.04
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.28
Consensus pattern (117 bp):
TGCTCTTTGAGGACTAAAAGGTGCCACCAACTCATGTGGGCTTTAAAAGGAAAGTGTCCTGCTCT
TTAAGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTTGAAAGGAAATGTCT
Found at i:443914 original size:23 final size:23
Alignment explanation
Indices: 443853--443915 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
443843 TAATAAGGTA
* * *
443853 ATTTGCACACATATCAAAAATTT
1 ATTTGCACATACATCTAAAATTT
443876 ATTTGCACATACATCTAAAATTT
1 ATTTGCACATACATCTAAAATTT
443899 ATTTGCACATACATCTA
1 ATTTGCACATACATCTA
443916 TTCTCTCCCC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.40, C:0.19, G:0.05, T:0.37
Consensus pattern (23 bp):
ATTTGCACATACATCTAAAATTT
Found at i:445237 original size:21 final size:20
Alignment explanation
Indices: 445208--445250 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
445198 GGCTAGTATG
*
445208 GGGACTGCCCGGTTGCGACCT
1 GGGACTG-CCGGTCGCGACCT
*
445229 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
445249 GG
1 GG
445251 TGGTGCTGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.09, C:0.30, G:0.44, T:0.16
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:445709 original size:13 final size:13
Alignment explanation
Indices: 445691--445729 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
445681 ATAATCCCCC
*
445691 TGTATCGATACAG
1 TGTATCGATACAA
445704 TGTATCGATACAA
1 TGTATCGATACAA
445717 TGTATCGATACAA
1 TGTATCGATACAA
445730 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Done.