Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007851.1 Hibiscus syriacus cultivar Beakdansim tig00110210_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: 1608033
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 9
Found at i:1508130 original size:20 final size:20
Alignment explanation
Indices: 1508080--1508130 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
1508070 GCGATATTCT
* *
1508080 CGTTGCGATAACCATTTTCG
1 CGTTGCGATAGCCATTTTCA
1508100 CGTTGCGATAGCCATTTTCA
1 CGTTGCGATAGCCATTTTCA
1508120 CGTTGCGATAG
1 CGTTGCGATAG
1508131 TCAAATGAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.33
Consensus pattern (20 bp):
CGTTGCGATAGCCATTTTCA
Found at i:1508516 original size:14 final size:14
Alignment explanation
Indices: 1508497--1508532 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
1508487 ATTGTTTAAT
1508497 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
1508511 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
1508525 TGATTTGT
1 TGATTTGT
1508533 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:1508674 original size:18 final size:18
Alignment explanation
Indices: 1508651--1508733 Score: 120
Period size: 18 Copynumber: 4.8 Consensus size: 18
1508641 CGCAACGAGA
1508651 AAATCGCAATGCGAAATG
1 AAATCGCAATGCGAAATG
1508669 AAATCGCAATGCGAAATG
1 AAATCGCAATGCGAAATG
1508687 AAATCGCAATGCGAAATG
1 AAATCGCAATGCGAAATG
*
1508705 AAAATCGCAA--CGAGA--
1 -AAATCGCAATGCGAAATG
1508720 AAATCGCAATGCGA
1 AAATCGCAATGCGA
1508734 TTTTCATTTC
Statistics
Matches: 61, Mismatches: 1, Indels: 8
0.87 0.01 0.11
Matches are distributed among these distances:
14 9 0.15
16 3 0.05
17 4 0.07
18 36 0.59
19 9 0.15
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (18 bp):
AAATCGCAATGCGAAATG
Found at i:1508694 original size:36 final size:33
Alignment explanation
Indices: 1508620--1508733 Score: 131
Period size: 33 Copynumber: 3.4 Consensus size: 33
1508610 AAAACAGACT
* *** *
1508620 ATCGCAACGCGAAATGGCTATCGCAACGAGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAAAAA
1508653 ATCGCAATGCGAAATG-AAATCGCAATGCGAAATGAA
1 ATCGCAATGCGAAATGAAAATCGCAA--CGAAA--AA
*
1508689 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAAAAA
1508722 ATCGCAATGCGA
1 ATCGCAATGCGA
1508734 TTTTCATTTC
Statistics
Matches: 71, Mismatches: 5, Indels: 10
0.83 0.06 0.12
Matches are distributed among these distances:
32 7 0.10
33 29 0.41
34 4 0.06
35 4 0.06
36 18 0.25
37 9 0.13
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAAAAA
Found at i:1508809 original size:20 final size:20
Alignment explanation
Indices: 1508759--1508809 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
1508749 GCGATATTCT
* *
1508759 CGTTGCGATAACCATTTTCG
1 CGTTGCGATAGCCATTTTCA
1508779 CGTTGCGATAGCCATTTTCA
1 CGTTGCGATAGCCATTTTCA
1508799 CGTTGCGATAG
1 CGTTGCGATAG
1508810 TCAAATGAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.33
Consensus pattern (20 bp):
CGTTGCGATAGCCATTTTCA
Found at i:1509099 original size:679 final size:676
Alignment explanation
Indices: 1507586--1509342 Score: 3323
Period size: 679 Copynumber: 2.6 Consensus size: 676
1507576 TGGTAAGTCA
1507586 AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT
1 AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT
1507651 TCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT
66 TCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT
1507716 CTGCAGGTTAATCCTTAAGTGAGCTGCGTGAAATGGATGTACGGGGTCACAAAGTTGTTGATTCA
131 CTGCAGGTTAATCCTTAAGTGAGCTGCGTGAAATGGATGTACGGGGTCACAAAGTTGTTGATTCA
1507781 TTGATTCAATAATTGATGAAGAAATAAGAATTATTATTA-TTTTTGATTGTTTAATTGATTTGTA
196 TTGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTTTTTGATTGTTTAATTGATTTGTA
1507845 AAAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGTAATA
261 AAAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGTAATA
*
1507910 GTTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAGACTATCGTAACGCGAAATG
326 GTTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAGACTATCGCAACGCGAAATG
1507975 GCTATCG---C-----AA-CG--A---G-AAAATCGCAATGCGAAATGAAATCGCAATGCGAAAT
391 GCTATCGCAACGAGAAAATCGCAATGCGAAAAATCGCAATGCGAAATGAAATCGCAATGCGAAAT
1508025 GAAAATCGCAACGAGAAAATCGCAATGCGATTTTCATTTCGCGTTGCGATATTCTCGTTGCGATA
456 GAAAATCGCAACGAGAAAATCGCAATGCGATTTTCATTTCGCGTTGCGATATTCTCGTTGCGATA
1508090 ACCATTTTCGCGTTGCGATAGCCATTTTCACGTTGCGATAGTCAAATGAATGTCTAATAAGTGAT
521 ACCATTTTCGCGTTGCGATAGCCATTTTCACGTTGCGATAGTCAAATGAATGTCTAATAAGTGAT
1508155 GACAACTGAACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGC
586 GACAACTGAACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGC
1508220 TAAAAGTGCACACATAAAATACACAT
651 TAAAAGTGCACACATAAAATACACAT
1508246 AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT
1 AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT
1508311 TCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT
66 TCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT
1508376 CTGCAGGTTAATCCTTAAGTGAGCTGCGTGAAATGGATGTACGGGGTCACAAAGTTGTTGATTCA
131 CTGCAGGTTAATCCTTAAGTGAGCTGCGTGAAATGGATGTACGGGGTCACAAAGTTGTTGATTCA
1508441 TTGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTTTTTGATTGTTTAATTGATTTGTA
196 TTGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTTTTTGATTGTTTAATTGATTTGTA
*
1508506 AAAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGAAATA
261 AAAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGTAATA
1508571 GTTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAGACTATCGCAACGCGAAATG
326 GTTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAGACTATCGCAACGCGAAATG
1508636 GCTATCGCAACGAGAAAATCGCAATGCGAAATGAAATCGCAATGCGAAATGAAATCGCAATGCGA
391 GCTATCGCAACGAGAAAATCGCAATGCG-AA--AAATCGCAATGCGAAATGAAATCGCAATGCGA
1508701 AATGAAAATCGCAACGAGAAAATCGCAATGCGATTTTCATTTCGCGTTGCGATATTCTCGTTGCG
453 AATGAAAATCGCAACGAGAAAATCGCAATGCGATTTTCATTTCGCGTTGCGATATTCTCGTTGCG
1508766 ATAACCATTTTCGCGTTGCGATAGCCATTTTCACGTTGCGATAGTCAAATGAATGTCTAATAAGT
518 ATAACCATTTTCGCGTTGCGATAGCCATTTTCACGTTGCGATAGTCAAATGAATGTCTAATAAGT
1508831 GATGACAACTGAACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAA
583 GATGACAACTGAACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAA
*
1508896 TGTTAAAAGTGCACACATAAAATACACAT
648 TGCTAAAAGTGCACACATAAAATACACAT
1508925 AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT
1 AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT
1508990 TCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT
66 TCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT
1509055 CTGCAGGTTAATCCTTAAGTGAGCTGCGTGAAATGGATGTACGGGGTCACAAAGTTGTTGATTC-
131 CTGCAGGTTAATCCTTAAGTGAGCTGCGTGAAATGGATGTACGGGGTCACAAAGTTGTTGATTCA
1509119 TTGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTTTTTGATTGTTTAATTGATTTGTA
196 TTGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTTTTTGATTGTTTAATTGATTTGTA
*
1509184 AAAGTTGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGTAATA
261 AAAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGTAATA
1509249 GTTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAGACTATCGCAACGCGAAATG
326 GTTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAGACTATCGCAACGCGAAATG
*
1509314 GTTATCGCAACGAGAAAATCGCAATGCGA
391 GCTATCGCAACGAGAAAATCGCAATGCGA
1509343 TTTTCATTTC
Statistics
Matches: 1072, Mismatches: 6, Indels: 21
0.98 0.01 0.02
Matches are distributed among these distances:
660 234 0.22
661 160 0.15
664 1 0.00
669 2 0.00
670 2 0.00
672 1 0.00
675 1 0.00
677 2 0.00
678 220 0.21
679 449 0.42
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.36
Consensus pattern (676 bp):
AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT
TCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT
CTGCAGGTTAATCCTTAAGTGAGCTGCGTGAAATGGATGTACGGGGTCACAAAGTTGTTGATTCA
TTGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTTTTTGATTGTTTAATTGATTTGTA
AAAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGTAATA
GTTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAGACTATCGCAACGCGAAATG
GCTATCGCAACGAGAAAATCGCAATGCGAAAAATCGCAATGCGAAATGAAATCGCAATGCGAAAT
GAAAATCGCAACGAGAAAATCGCAATGCGATTTTCATTTCGCGTTGCGATATTCTCGTTGCGATA
ACCATTTTCGCGTTGCGATAGCCATTTTCACGTTGCGATAGTCAAATGAATGTCTAATAAGTGAT
GACAACTGAACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGC
TAAAAGTGCACACATAAAATACACAT
Found at i:1509193 original size:14 final size:14
Alignment explanation
Indices: 1509174--1509210 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
1509164 GATTGTTTAA
1509174 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
*
1509188 TTGATTTGTAAATG
1 TTGATTTGTAAAAG
1509202 TTGATTTGT
1 TTGATTTGT
1509211 TTAATTGATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.51
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:1510505 original size:24 final size:24
Alignment explanation
Indices: 1510449--1510507 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
1510439 AGTCAGTATT
* *
1510449 CGAAATTTGATCTTGGTCAATACC
1 CGAAATTTGATATTGGTCAATACA
* *
1510473 CGGACTTTGATATTGGTCAATACA
1 CGAAATTTGATATTGGTCAATACA
*
1510497 CGAATTTTGAT
1 CGAAATTTGAT
1510508 GATGTTTCAG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (24 bp):
CGAAATTTGATATTGGTCAATACA
Found at i:1510699 original size:12 final size:12
Alignment explanation
Indices: 1510682--1510706 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1510672 ATATAATCCT
1510682 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1510694 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1510706 G
1 G
1510707 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:1513040 original size:14 final size:14
Alignment explanation
Indices: 1513021--1513077 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
1513011 GCGAAATGAA
1513021 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
1513035 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
1513054 AATCGCAACGAGGG
1 AATCGCAACGAGAG
1513068 AATCGCAACG
1 AATCGCAACG
1513078 CGAAATGAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 19 0.54
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.42, C:0.21, G:0.26, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:1513045 original size:33 final size:33
Alignment explanation
Indices: 1513003--1513096 Score: 170
Period size: 33 Copynumber: 2.8 Consensus size: 33
1512993 GGAAATTACT
1513003 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
1513036 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
1513069 ATCGCAACGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
1513097 CGAATTTAAT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.44, C:0.20, G:0.24, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:1513111 original size:19 final size:19
Alignment explanation
Indices: 1512983--1513100 Score: 85
Period size: 19 Copynumber: 6.7 Consensus size: 19
1512973 CTTAATGTCC
* **
1512983 ATCGCAACGCGGAAATTACT
1 ATCGCAACGC-GAAATGAAA
*
1513003 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
1513022 ATCGCAA--CG--A-GAGA
1 ATCGCAACGCGAAATGAAA
*
1513036 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
**
1513055 ATCGCAA--CG--A-GGGA
1 ATCGCAACGCGAAATGAAA
1513069 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
1513088 ATCGCAACGCGAA
1 ATCGCAACGCGAA
1513101 TTTAATTTCG
Statistics
Matches: 78, Mismatches: 10, Indels: 21
0.72 0.09 0.19
Matches are distributed among these distances:
14 19 0.24
15 2 0.03
16 4 0.05
17 4 0.05
18 2 0.03
19 38 0.49
20 9 0.12
ACGTcount: A:0.42, C:0.21, G:0.24, T:0.13
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:1513278 original size:14 final size:14
Alignment explanation
Indices: 1513259--1513295 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
1513249 CATCAATTAA
1513259 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
1513273 ACAAATCACCTTTT
1 ACAAATCAACTTTT
1513287 ACAAATCAA
1 ACAAATCAA
1513296 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:1514719 original size:21 final size:21
Alignment explanation
Indices: 1514653--1514719 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
1514643 GTGAATCGGG
*
1514653 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
1514673 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
1514695 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
1514716 CTCT
1 CTCT
1514720 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:1514738 original size:42 final size:41
Alignment explanation
Indices: 1514653--1514775 Score: 104
Period size: 42 Copynumber: 2.9 Consensus size: 41
1514643 GTGAATCGGG
* * * * *
1514653 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGATAGGGGC
1514695 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGATAGGGGC
* * * * * *
1514737 CTCTTCAACGATAGGAGTGAACTCTTGAGGGATGATAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGATAGG
1514776 CGAGTCGGGC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 4 0.06
42 57 0.85
43 6 0.09
ACGTcount: A:0.24, C:0.18, G:0.36, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGATAGGGGC
Found at i:1516859 original size:33 final size:33
Alignment explanation
Indices: 1516802--1516900 Score: 126
Period size: 33 Copynumber: 3.0 Consensus size: 33
1516792 ATGAGATAAT
* *
1516802 GAGAATCGTAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACCA
* *
1516836 GAGAATCACAACGCGAAATGACTATCGCGACCA
1 GAGAATCGCAACGCGAAATGACTATCGCAACCA
* **
1516869 GACAATCGCAACGCGAAATGAAAATCGCAACC
1 GAGAATCGCAACGCGAAATGACTATCGCAACC
1516901 GCGAAATTAA
Statistics
Matches: 56, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
33 44 0.79
34 12 0.21
ACGTcount: A:0.40, C:0.25, G:0.22, T:0.12
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACCA
Found at i:1516894 original size:19 final size:19
Alignment explanation
Indices: 1516872--1516961 Score: 153
Period size: 19 Copynumber: 4.7 Consensus size: 19
1516862 GCGACCAGAC
1516872 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
1516891 AATCGCAACCGCGAAATTAA
1 AATCGCAA-CGCGAAATGAA
1516911 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
1516930 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
1516949 AATCGCAATGCGA
1 AATCGCAACGCGA
1516962 TTTTGGTTTC
Statistics
Matches: 67, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
19 49 0.73
20 18 0.27
ACGTcount: A:0.46, C:0.22, G:0.20, T:0.12
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:1516915 original size:39 final size:38
Alignment explanation
Indices: 1516872--1516961 Score: 153
Period size: 39 Copynumber: 2.3 Consensus size: 38
1516862 GCGACCAGAC
*
1516872 AATCGCAACGCGAAATGAAAATCGCAACCGCGAAATTAA
1 AATCGCAACGCGAAATGAAAATCGCAA-CGCGAAATGAA
1516911 AATCGCAACGCGAAATGAAAATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAAAATCGCAACGCGAAATGAA
*
1516949 AATCGCAATGCGA
1 AATCGCAACGCGA
1516962 TTTTGGTTTC
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
38 22 0.45
39 27 0.55
ACGTcount: A:0.46, C:0.22, G:0.20, T:0.12
Consensus pattern (38 bp):
AATCGCAACGCGAAATGAAAATCGCAACGCGAAATGAA
Found at i:1516990 original size:19 final size:19
Alignment explanation
Indices: 1516957--1517001 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
1516947 AAAATCGCAA
*
1516957 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGATTTCGCGT
*
1516976 TGCGATTTTTATTTCGCGT
1 TGCGATTTTGATTTCGCGT
1516995 TGCGATT
1 TGCGATT
1517002 ATCTCATTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.09, C:0.16, G:0.27, T:0.49
Consensus pattern (19 bp):
TGCGATTTTGATTTCGCGT
Found at i:1517641 original size:20 final size:20
Alignment explanation
Indices: 1517556--1517649 Score: 80
Period size: 20 Copynumber: 4.7 Consensus size: 20
1517546 CGCTAAGTAA
*
1517556 ATCGCATTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
** * *
1517576 ATCGTGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTCAGT
* * ** * *
1517596 ATCTCGTTGCGATTTTTTATT
1 ATCGCATTGCGA-TAGTCAGT
1517617 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
1517637 ATCGCATTGCGAT
1 ATCGCATTGCGAT
1517650 TTTCCCAATT
Statistics
Matches: 57, Mismatches: 16, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
20 44 0.77
21 13 0.23
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.35
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:1517668 original size:41 final size:41
Alignment explanation
Indices: 1517638--1517733 Score: 147
Period size: 41 Copynumber: 2.3 Consensus size: 41
1517628 ATAGTCAGTA
* * *
1517638 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTCACGTAT
* *
1517679 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTCACGTAT
1517720 TCGCATTGCGAATT
1 TCGCATTGCGAATT
1517734 GGGAAAATCG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTCACGTAT
Found at i:1517682 original size:20 final size:20
Alignment explanation
Indices: 1517638--1517730 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
1517628 ATAGTCAGTA
* **
1517638 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACTTAT
*
1517659 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
* **
1517679 TCGCATTGCGAATTTCCCAAT
1 TCGCATTGCG-ATTTACTTAT
*
1517700 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
1517720 TCGCATTGCGA
1 TCGCATTGCGA
1517731 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.39
Consensus pattern (20 bp):
TCGCATTGCGATTTACTTAT
Found at i:1517978 original size:31 final size:33
Alignment explanation
Indices: 1517933--1517999 Score: 95
Period size: 31 Copynumber: 2.1 Consensus size: 33
1517923 ACTGAGGTTA
*
1517933 TTTTCTCTATTTATTATTA-TTACATATATTATT
1 TTTTCTCTATTTATTATTAGTGA-ATATATTATT
1517966 TTTTC-CTA-TTATTATTAGTGAATATATTATT
1 TTTTCTCTATTTATTATTAGTGAATATATTATT
1517997 TTT
1 TTT
1518000 GTATATTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
31 22 0.69
32 5 0.16
33 5 0.16
ACGTcount: A:0.27, C:0.07, G:0.03, T:0.63
Consensus pattern (33 bp):
TTTTCTCTATTTATTATTAGTGAATATATTATT
Found at i:1519278 original size:17 final size:16
Alignment explanation
Indices: 1519249--1519307 Score: 50
Period size: 17 Copynumber: 3.6 Consensus size: 16
1519239 TTCTCTTTTC
1519249 TTTATTTTACTTTGATT
1 TTTATTTTACTTT-ATT
1519266 TTTATTTGT-CTTTATT
1 TTTATTT-TACTTTATT
**
1519282 TAGTTATTTTA-TTTACC
1 T--TTATTTTACTTTATT
1519299 TTTATTTTA
1 TTTATTTTA
1519308 TTTCTGTCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
15 8 0.22
16 4 0.11
17 17 0.47
18 7 0.19
ACGTcount: A:0.19, C:0.07, G:0.05, T:0.69
Consensus pattern (16 bp):
TTTATTTTACTTTATT
Found at i:1523643 original size:13 final size:15
Alignment explanation
Indices: 1523611--1523644 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
1523601 CTTTGATAGC
1523611 GAATAAGATGGTGAT
1 GAATAAGATGGTGAT
1523626 GAATAAGAT-GTG-T
1 GAATAAGATGGTGAT
1523639 GAATAA
1 GAATAA
1523645 AATGCTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.37
14 3 0.16
15 9 0.47
ACGTcount: A:0.44, C:0.00, G:0.29, T:0.26
Consensus pattern (15 bp):
GAATAAGATGGTGAT
Found at i:1524618 original size:3 final size:3
Alignment explanation
Indices: 1524610--1524648 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
1524600 TACATTAATT
1524610 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1524649 AATGGCGGGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1525204 original size:15 final size:15
Alignment explanation
Indices: 1525184--1525254 Score: 81
Period size: 15 Copynumber: 4.7 Consensus size: 15
1525174 TCGACAGTGA
1525184 TGAATAAGGT-GTGTG
1 TGAATAAGGTGGTG-G
** *
1525199 TGAATAAGACGGTGA
1 TGAATAAGGTGGTGG
1525214 TGAATAAGGTGGTGG
1 TGAATAAGGTGGTGG
*
1525229 TGAATAAGATGGTGG
1 TGAATAAGGTGGTGG
*
1525244 TGGATAAGGTG
1 TGAATAAGGTG
1525255 ACTTATCTTT
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
15 43 0.93
16 3 0.07
ACGTcount: A:0.31, C:0.01, G:0.41, T:0.27
Consensus pattern (15 bp):
TGAATAAGGTGGTGG
Found at i:1525216 original size:30 final size:30
Alignment explanation
Indices: 1525180--1525254 Score: 107
Period size: 30 Copynumber: 2.5 Consensus size: 30
1525170 GGTGTCGACA
1525180 GTGATGAATAAGGT-GTGTGTGAATAAGACG
1 GTGATGAATAAGGTGGTG-GTGAATAAGACG
*
1525210 GTGATGAATAAGGTGGTGGTGAATAAGATG
1 GTGATGAATAAGGTGGTGGTGAATAAGACG
* *
1525240 GTGGTGGATAAGGTG
1 GTGATGAATAAGGTG
1525255 ACTTATCTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
30 38 0.93
31 3 0.07
ACGTcount: A:0.31, C:0.01, G:0.41, T:0.27
Consensus pattern (30 bp):
GTGATGAATAAGGTGGTGGTGAATAAGACG
Found at i:1525336 original size:15 final size:15
Alignment explanation
Indices: 1525310--1525375 Score: 105
Period size: 15 Copynumber: 4.4 Consensus size: 15
1525300 TTTCCTTCTT
*
1525310 TGGTGGTAAATAAGA
1 TGGTGGTGAATAAGA
* *
1525325 TGGTGATGAATAAGG
1 TGGTGGTGAATAAGA
1525340 TGGTGGTGAATAAGA
1 TGGTGGTGAATAAGA
1525355 TGGTGGTGAATAAGA
1 TGGTGGTGAATAAGA
1525370 TGGTGG
1 TGGTGG
1525376 ATAAGGTGAC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 46 1.00
ACGTcount: A:0.32, C:0.00, G:0.41, T:0.27
Consensus pattern (15 bp):
TGGTGGTGAATAAGA
Found at i:1525419 original size:129 final size:129
Alignment explanation
Indices: 1525186--1525592 Score: 456
Period size: 129 Copynumber: 3.0 Consensus size: 129
1525176 GACAGTGATG
* ** *
1525186 AATAAGGTGTGTG-TGAATAAGACGGTGATGAATAAGGTGGTGGTGAATAAGATGGTGGTGGATA
1 AATAAGATG-GTGATGAATAAGGTGGTGGTGAATAAGGTGGTGGTGAATAAGA---TGGTGGATA
*
1525250 AGGTGACTTATCTTTGGGTTTCTCATACTTTGGCGATTTGTATTCATGTTTTTCCTTCTTTGGTG
62 AGGTGACTTATCTTTGGGTTTCTCATACTTTGGTGATTTGTATTCATGTTTTTCCTTCTTTGGTG
1525315 GTA
127 GTA
*
1525318 AATAAGATGGTGATGAATAAGGTGGTGGTGAATAAGATGGTGGTGAATAAGATGGTGGATAAGGT
1 AATAAGATGGTGATGAATAAGGTGGTGGTGAATAAGGTGGTGGTGAATAAGATGGTGGATAAGGT
* * * *
1525383 GACTTCTCTTTGGGTTTCTCATACTTTGGTGATTTGTATTCGTGTTTTTCCTTCTTTGGGGGTG
66 GACTTATCTTTGGGTTTCTCATACTTTGGTGATTTGTATTCATGTTTTTCCTTCTTTGGTGGTA
* * *
1525447 AATAAGATGCTGATGAATAAGGTGTGTATAAATAAGGCGGTGATGAATAAGGTGATGGCGAATAA
1 AATAAGATGGTGATGAATAAGGTG-G------T------G-G-TGAATAAGGTGGTGGTGAATAA
* **
1525512 GATGAAGGTGGATAAGGTGACTTTTCTTTGGGTTTCTCATACTTCCGTGATTTGTATTCATGTTT
51 GAT---GGTGGATAAGGTGACTTATCTTTGGGTTTCTCATACTTTGGTGATTTGTATTCATGTTT
*
1525577 TTCCTTTTTTGGTGGT
113 TTCCTTCTTTGGTGGT
1525593 TTGTATTCGG
Statistics
Matches: 236, Mismatches: 20, Indels: 23
0.85 0.07 0.08
Matches are distributed among these distances:
129 95 0.40
130 1 0.00
131 3 0.01
132 43 0.18
136 1 0.00
142 1 0.00
143 1 0.00
144 22 0.09
147 69 0.29
ACGTcount: A:0.24, C:0.08, G:0.30, T:0.38
Consensus pattern (129 bp):
AATAAGATGGTGATGAATAAGGTGGTGGTGAATAAGGTGGTGGTGAATAAGATGGTGGATAAGGT
GACTTATCTTTGGGTTTCTCATACTTTGGTGATTTGTATTCATGTTTTTCCTTCTTTGGTGGTA
Found at i:1526632 original size:3 final size:3
Alignment explanation
Indices: 1526624--1526668 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
1526614 TACATTAATT
1526624 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1526669 AATGGCGGGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1528048 original size:33 final size:33
Alignment explanation
Indices: 1528009--1528071 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
1527999 AAGATCATTC
1528009 ATAGTAAGGCGGGATTTCC-TCCTTTGGTGGTGG
1 ATAGTAAGGCGGG-TTTCCATCCTTTGGTGGTGG
* *
1528042 ATAGTAAGGTGGGTTTCCATTCTTTGGTGG
1 ATAGTAAGGCGGGTTTCCATCCTTTGGTGG
1528072 AGGTGACCTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
32 5 0.19
33 22 0.81
ACGTcount: A:0.16, C:0.13, G:0.35, T:0.37
Consensus pattern (33 bp):
ATAGTAAGGCGGGTTTCCATCCTTTGGTGGTGG
Found at i:1528256 original size:15 final size:15
Alignment explanation
Indices: 1528189--1528265 Score: 93
Period size: 15 Copynumber: 5.1 Consensus size: 15
1528179 TTTCGTTCTT
1528189 TGGTGGTGAATAAGG
1 TGGTGGTGAATAAGG
*
1528204 T-GTGTCTGAATAAGG
1 TGGTG-GTGAATAAGG
*
1528219 TGGTGATGAATAAGG
1 TGGTGGTGAATAAGG
*
1528234 TGGTGGTGAATAAGA
1 TGGTGGTGAATAAGG
* *
1528249 TGGGGGTGGATAAGG
1 TGGTGGTGAATAAGG
1528264 TG
1 TG
1528266 ACTTCTCTTT
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
14 3 0.06
15 47 0.89
16 3 0.06
ACGTcount: A:0.27, C:0.01, G:0.44, T:0.27
Consensus pattern (15 bp):
TGGTGGTGAATAAGG
Found at i:1528281 original size:132 final size:132
Alignment explanation
Indices: 1528109--1528474 Score: 489
Period size: 147 Copynumber: 2.7 Consensus size: 132
1528099 TTTTGGCGGC
* *
1528109 GAATAAGATGGTGATGAATAAGGTGACTTCTCTTTGGGTTTCTCATACTTTGGCGATTTGTATTC
1 GAATAAGATGGTGGTGGATAAGGTGACTTCTCTTTGGGTTTCTCATACTTTGGCGATTTGTATTC
* * *
1528174 GTGTTTTTCGTTCTTTGGTGGTGAATAAGGTGTGTCTGAATAAGGTGGTGATGAATAAGGTGGTG
66 GTGTTTTTCCTTCTTTGGTGGTGAATAAGGTGTGTCTGAATAAGGCGGTGATGAATAAGGTGATG
1528239 GT
131 GT
* *
1528241 GAATAAGATGGGGGTGGATAAGGTGACTTCTCTTTAGGTTTCTCATACTTTGGCGATTTGTATTC
1 GAATAAGATGGTGGTGGATAAGGTGACTTCTCTTTGGGTTTCTCATACTTTGGCGATTTGTATTC
*
1528306 GTTTTTTTCCTTCTTTGGTGGTGAATAAGATGGTGATGAATAAGGTGTGTCTGAATAAGGCGGTG
66 GTGTTTTTCCTTC--T--T--TG-----G-T-G-G-TGAATAAGGTGTGTCTGAATAAGGCGGTG
1528371 ATGAATAAGGTGATGGT
116 ATGAATAAGGTGATGGT
* * *
1528388 GAATAAGATGGTGGTGGATAAGGTGACTTCTCTTTGGGTTTCTCATACTTCGGTGATTTGTATTT
1 GAATAAGATGGTGGTGGATAAGGTGACTTCTCTTTGGGTTTCTCATACTTTGGCGATTTGTATTC
*
1528453 GTGTTTTTCCTTTTTTGGTGGT
66 GTGTTTTTCCTTCTTTGGTGGT
1528475 TTATATTCGG
Statistics
Matches: 204, Mismatches: 15, Indels: 30
0.82 0.06 0.12
Matches are distributed among these distances:
132 73 0.36
133 1 0.00
134 2 0.01
135 1 0.00
136 2 0.01
138 2 0.01
141 2 0.01
143 2 0.01
144 1 0.00
145 2 0.01
146 1 0.00
147 115 0.56
ACGTcount: A:0.20, C:0.09, G:0.30, T:0.40
Consensus pattern (132 bp):
GAATAAGATGGTGGTGGATAAGGTGACTTCTCTTTGGGTTTCTCATACTTTGGCGATTTGTATTC
GTGTTTTTCCTTCTTTGGTGGTGAATAAGGTGTGTCTGAATAAGGCGGTGATGAATAAGGTGATG
GT
Found at i:1528345 original size:15 final size:15
Alignment explanation
Indices: 1528321--1528412 Score: 87
Period size: 15 Copynumber: 6.1 Consensus size: 15
1528311 TTTCCTTCTT
* *
1528321 TGGTGGTGAATAAGA
1 TGGTGATGAATAAGG
1528336 TGGTGATGAATAAGG
1 TGGTGATGAATAAGG
*
1528351 T-GTGTCTGAATAAGG
1 TGGTG-ATGAATAAGG
*
1528366 CGGTGATGAATAAGG
1 TGGTGATGAATAAGG
* * *
1528381 TGATGGTGAATAAGA
1 TGGTGATGAATAAGG
* *
1528396 TGGTGGTGGATAAGG
1 TGGTGATGAATAAGG
1528411 TG
1 TG
1528413 ACTTCTCTTT
Statistics
Matches: 63, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
14 3 0.05
15 57 0.90
16 3 0.05
ACGTcount: A:0.30, C:0.02, G:0.40, T:0.27
Consensus pattern (15 bp):
TGGTGATGAATAAGG
Found at i:1528361 original size:30 final size:30
Alignment explanation
Indices: 1528327--1528413 Score: 113
Period size: 30 Copynumber: 2.9 Consensus size: 30
1528317 TCTTTGGTGG
1528327 TGAATAAGATGGTGATGAATAAGGTG-TGTC
1 TGAATAAGATGGTGATGAATAAGGTGATG-C
** *
1528357 TGAATAAGGCGGTGATGAATAAGGTGATGG
1 TGAATAAGATGGTGATGAATAAGGTGATGC
* *
1528387 TGAATAAGATGGTGGTGGATAAGGTGA
1 TGAATAAGATGGTGATGAATAAGGTGA
1528414 CTTCTCTTTG
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
30 47 0.96
31 2 0.04
ACGTcount: A:0.33, C:0.02, G:0.38, T:0.26
Consensus pattern (30 bp):
TGAATAAGATGGTGATGAATAAGGTGATGC
Found at i:1530245 original size:15 final size:15
Alignment explanation
Indices: 1530225--1530277 Score: 79
Period size: 15 Copynumber: 3.5 Consensus size: 15
1530215 TTGAGACCTT
1530225 ACCCGCCCCGCATCC
1 ACCCGCCCCGCATCC
*
1530240 ACCCGCCCTGCATCC
1 ACCCGCCCCGCATCC
*
1530255 GCCCGCCCCGCATCC
1 ACCCGCCCCGCATCC
*
1530270 GCCCGCCC
1 ACCCGCCC
1530278 ACTAAATATC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 35 1.00
ACGTcount: A:0.09, C:0.66, G:0.17, T:0.08
Consensus pattern (15 bp):
ACCCGCCCCGCATCC
Found at i:1535045 original size:15 final size:15
Alignment explanation
Indices: 1535035--1535064 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1535025 GTTTTTCATC
1535035 CACAGGTTTTTCCCT
1 CACAGGTTTTTCCCT
1535050 CACAGGTTTTTCCCT
1 CACAGGTTTTTCCCT
1535065 TTAATTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.33, G:0.13, T:0.40
Consensus pattern (15 bp):
CACAGGTTTTTCCCT
Found at i:1535619 original size:18 final size:18
Alignment explanation
Indices: 1535597--1535810 Score: 250
Period size: 18 Copynumber: 11.7 Consensus size: 18
1535587 CTTGTTTGCC
*
1535597 TATTAATAATTCAGCGTC-
1 TATTAATAATTCTGC-TCG
1535615 TATTAATAATAATTCTGCTCG
1 TATT-A-A-TAATTCTGCTCG
* *
1535636 TATTAATAATTCTTCTCC
1 TATTAATAATTCTGCTCG
* *
1535654 TGTTAACAATTCTGCTCG
1 TATTAATAATTCTGCTCG
*
1535672 TATTAATGATTCTGCTCG
1 TATTAATAATTCTGCTCG
* *
1535690 TATTAATAATTCTGCGCC
1 TATTAATAATTCTGCTCG
1535708 TATTAATAATTCTGCTCG
1 TATTAATAATTCTGCTCG
*
1535726 TATTAATAATTTTGCTCG
1 TATTAATAATTCTGCTCG
* * *
1535744 TATTGATGATTCTGCTTG
1 TATTAATAATTCTGCTCG
1535762 TATTAATAATTCTGCTCG
1 TATTAATAATTCTGCTCG
* *
1535780 TGTTAATAATTCTGCTCA
1 TATTAATAATTCTGCTCG
*
1535798 TATTAATGATTCT
1 TATTAATAATTCT
1535811 ACTCATAATT
Statistics
Matches: 165, Mismatches: 27, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
18 147 0.89
19 2 0.01
20 4 0.02
21 12 0.07
ACGTcount: A:0.27, C:0.16, G:0.12, T:0.45
Consensus pattern (18 bp):
TATTAATAATTCTGCTCG
Found at i:1535626 original size:21 final size:21
Alignment explanation
Indices: 1535600--1535645 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
1535590 GTTTGCCTAT
1535600 TAATAATTCAGCGTC-TATTAA
1 TAATAATTCAGC-TCGTATTAA
*
1535621 TAATAATTCTGCTCGTATTAA
1 TAATAATTCAGCTCGTATTAA
1535642 TAAT
1 TAAT
1535646 TCTTCTCCTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.37, C:0.13, G:0.09, T:0.41
Consensus pattern (21 bp):
TAATAATTCAGCTCGTATTAA
Found at i:1535817 original size:18 final size:18
Alignment explanation
Indices: 1535621--1535810 Score: 254
Period size: 18 Copynumber: 10.6 Consensus size: 18
1535611 CGTCTATTAA
1535621 TAATAATTCTGCTCGTAT
1 TAATAATTCTGCTCGTAT
* * *
1535639 TAATAATTCTTCTCCTGT
1 TAATAATTCTGCTCGTAT
*
1535657 TAACAATTCTGCTCGTAT
1 TAATAATTCTGCTCGTAT
*
1535675 TAATGATTCTGCTCGTAT
1 TAATAATTCTGCTCGTAT
* *
1535693 TAATAATTCTGCGCCTAT
1 TAATAATTCTGCTCGTAT
1535711 TAATAATTCTGCTCGTAT
1 TAATAATTCTGCTCGTAT
*
1535729 TAATAATTTTGCTCGTAT
1 TAATAATTCTGCTCGTAT
* * *
1535747 TGATGATTCTGCTTGTAT
1 TAATAATTCTGCTCGTAT
*
1535765 TAATAATTCTGCTCGTGT
1 TAATAATTCTGCTCGTAT
*
1535783 TAATAATTCTGCTCATAT
1 TAATAATTCTGCTCGTAT
*
1535801 TAATGATTCT
1 TAATAATTCT
1535811 ACTCATAATT
Statistics
Matches: 146, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 146 1.00
ACGTcount: A:0.26, C:0.17, G:0.12, T:0.45
Consensus pattern (18 bp):
TAATAATTCTGCTCGTAT
Found at i:1537039 original size:3 final size:3
Alignment explanation
Indices: 1537033--1537079 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
1537023 CCATCATCAT
* *
1537033 CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CTC CAC TAC CAC CA
1 CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CA
1537080 TCATGAGTAG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.32, C:0.64, G:0.00, T:0.04
Consensus pattern (3 bp):
CAC
Found at i:1539328 original size:3 final size:3
Alignment explanation
Indices: 1539320--1539358 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
1539310 TACATTAATT
1539320 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1539359 AAGGGTGAGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1540843 original size:6 final size:7
Alignment explanation
Indices: 1540828--1540852 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
1540818 TATCATTTTC
1540828 TTTTATT
1 TTTTATT
1540835 TTTTATT
1 TTTTATT
1540842 TTTTATT
1 TTTTATT
1540849 TTTT
1 TTTT
1540853 CTTGCTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTATT
Found at i:1542299 original size:3 final size:3
Alignment explanation
Indices: 1542291--1542320 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
1542281 AACATTAATT
*
1542291 TAA TAA TAA TAA TAA TAA TAA CAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1542321 AGGGCGGGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:1542487 original size:58 final size:56
Alignment explanation
Indices: 1542425--1542538 Score: 167
Period size: 56 Copynumber: 2.0 Consensus size: 56
1542415 TAGTTACATA
*
1542425 AAATTTATAGGTTAAAAAAAAT-TAAAAGTATTATCTAAAGTAATAAATATCTAAAAAC
1 AAATTTATAGATT--AAAAAATCT-AAAGTATTATCTAAAGTAATAAATATCTAAAAAC
* *
1542483 AAATTTATAGATTAAAAAATCTGAAGTATTATTTAAAGTAATAAATATCTAAAAAC
1 AAATTTATAGATTAAAAAATCTAAAGTATTATCTAAAGTAATAAATATCTAAAAAC
1542539 GTCAGTTCAT
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
56 39 0.75
57 1 0.02
58 12 0.23
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.32
Consensus pattern (56 bp):
AAATTTATAGATTAAAAAATCTAAAGTATTATCTAAAGTAATAAATATCTAAAAAC
Found at i:1542532 original size:28 final size:27
Alignment explanation
Indices: 1542450--1542534 Score: 66
Period size: 28 Copynumber: 3.1 Consensus size: 27
1542440 AAAAAATTAA
*
1542450 AAGTATTATCTAAAGTAATAAATATCT
1 AAGTATTATTTAAAGTAATAAATATCT
** ** *
1542477 AAAAACAAATTTATAGATTAA-AAA-ATCT
1 AAGTA-TTATTTA-A-AGTAATAAATATCT
1542505 GAAGTATTATTTAAAGTAATAAATATCT
1 -AAGTATTATTTAAAGTAATAAATATCT
1542533 AA
1 AA
1542535 AAACGTCAGT
Statistics
Matches: 41, Mismatches: 11, Indels: 12
0.64 0.17 0.19
Matches are distributed among these distances:
26 4 0.10
27 9 0.22
28 17 0.41
29 7 0.17
30 4 0.10
ACGTcount: A:0.53, C:0.06, G:0.07, T:0.34
Consensus pattern (27 bp):
AAGTATTATTTAAAGTAATAAATATCT
Found at i:1543076 original size:12 final size:12
Alignment explanation
Indices: 1543059--1543088 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
1543049 TAAAATGAAA
1543059 TCTTTGAGTCTT
1 TCTTTGAGTCTT
1543071 TCTTTGAGTCTT
1 TCTTTGAGTCTT
1543083 TCTTTG
1 TCTTTG
1543089 GTTCAATCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.07, C:0.17, G:0.17, T:0.60
Consensus pattern (12 bp):
TCTTTGAGTCTT
Found at i:1543858 original size:15 final size:14
Alignment explanation
Indices: 1543817--1543908 Score: 67
Period size: 15 Copynumber: 6.1 Consensus size: 14
1543807 TCTCATATTT
*
1543817 TGGTGGTGAATAAGA
1 TGGT-GTGAATAAGG
* *
1543832 TGGTTTTAAATAAGG
1 TGG-TGTGAATAAGG
1543847 TGTGTGTGAATAAGG
1 TG-GTGTGAATAAGG
*
1543862 CGGTGATGAATAAGG
1 TGGTG-TGAATAAGG
**
1543877 TGGTGGTGAATAAAA
1 TGGT-GTGAATAAGG
*
1543892 TGGTGGTGTATAAGG
1 TGGT-GTGAATAAGG
1543907 TG
1 TG
1543909 ATTTCTCTTT
Statistics
Matches: 61, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
14 3 0.05
15 55 0.90
16 3 0.05
ACGTcount: A:0.30, C:0.01, G:0.38, T:0.30
Consensus pattern (14 bp):
TGGTGTGAATAAGG
Found at i:1543905 original size:30 final size:30
Alignment explanation
Indices: 1543817--1543908 Score: 96
Period size: 30 Copynumber: 3.1 Consensus size: 30
1543807 TCTCATATTT
** *
1543817 TGGTGGTGAATAAGATGGTTTTAAATAAGG
1 TGGTGGTGAATAAGATGGTGATGAATAAGG
**
1543847 T-GTGTGTGAATAAGGCGGTGATGAATAAGG
1 TGGTG-GTGAATAAGATGGTGATGAATAAGG
* * *
1543877 TGGTGGTGAATAAAATGGTGGTGTATAAGG
1 TGGTGGTGAATAAGATGGTGATGAATAAGG
1543907 TG
1 TG
1543909 ATTTCTCTTT
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
29 3 0.06
30 44 0.88
31 3 0.06
ACGTcount: A:0.30, C:0.01, G:0.38, T:0.30
Consensus pattern (30 bp):
TGGTGGTGAATAAGATGGTGATGAATAAGG
Found at i:1547533 original size:149 final size:148
Alignment explanation
Indices: 1547261--1547539 Score: 321
Period size: 149 Copynumber: 1.9 Consensus size: 148
1547251 TTAGAGGTAT
* *
1547261 CTACCAAGGAGAAGATCCAAACATTTTCTTACTGAGGTAACAAGTTGGACTCGAGACGATTCAAT
1 CTACCAAGGAGAAGATCCAAACATTTTCCTACTGAGGTAACAAGTTGGACTCGAGACAATTCAAT
* * *
1547326 GATGAAGCCAACATTTGAAGATCACGAACCAAGTCAAAAAAAATTTTGAAGTAAGAGATGAAGTA
66 GACGAAGCCAACAGTTGAAGATCACGAACC-AGTCAAAAAAAATTTTGAAATAAGAGATGAAGTA
1547391 GGAGCTAGAGGGAGTCTAC
130 GGAGCTAGAGGGAGTCTAC
* * * * * **
1547410 CTACCAAGGAGACGATCTAGACATTTTCCTGCTGAGGTAACAAGGTT-GACTCGAGATAATTTGA
1 CTACCAAGGAGAAGATCCAAACATTTTCCTACTGAGGTAACAA-GTTGGACTCGAGACAATTCAA
* * * * * * *
1547474 T-ACCGAAGCTAACAGTTGAAGATCATGAGCC-GTCTCAAAAGATTTTTGGAAATAGGAGATGAA
65 TGA-CGAAGCCAACAGTTGAAGATCACGAACCAGTC-AAAAAAAATTTT-GAAATAAGAGATGAA
1547537 GTA
127 GTA
1547540 TAAGCTTTTA
Statistics
Matches: 107, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
147 3 0.03
148 10 0.09
149 91 0.85
150 3 0.03
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.23
Consensus pattern (148 bp):
CTACCAAGGAGAAGATCCAAACATTTTCCTACTGAGGTAACAAGTTGGACTCGAGACAATTCAAT
GACGAAGCCAACAGTTGAAGATCACGAACCAGTCAAAAAAAATTTTGAAATAAGAGATGAAGTAG
GAGCTAGAGGGAGTCTAC
Found at i:1551237 original size:36 final size:36
Alignment explanation
Indices: 1551197--1551313 Score: 110
Period size: 36 Copynumber: 3.1 Consensus size: 36
1551187 CTCAAGATTG
1551197 TTTTTCTTAAAACAAGATTTGTCTCGCTTGAGAAAT
1 TTTTTCTTAAAACAAGATTTGTCTCGCTTGAGAAAT
* * * * ** *
1551233 TTTTTACTCAAAACAAGAAGATTTATTTCACTCAAG-ATT
1 TTTTT-CTTAAAAC---AAGATTTGTCTCGCTTGAGAAAT
1551272 GTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACAAT
1 -TTTTTCTTAAAACAAGATTTGTCTCGCTTGAGA-AAT
1551310 TTTT
1 TTTT
1551314 ACTCGAAAGA
Statistics
Matches: 60, Mismatches: 14, Indels: 13
0.69 0.16 0.15
Matches are distributed among these distances:
36 19 0.32
37 11 0.18
38 2 0.03
39 9 0.15
40 19 0.32
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.42
Consensus pattern (36 bp):
TTTTTCTTAAAACAAGATTTGTCTCGCTTGAGAAAT
Found at i:1551246 original size:37 final size:37
Alignment explanation
Indices: 1551197--1551326 Score: 97
Period size: 37 Copynumber: 3.5 Consensus size: 37
1551187 CTCAAGATTG
*
1551197 TTTTT-CTTAAAACAAGATTTGTCTCGCTTGAGAAAT
1 TTTTTACTCAAAACAAGATTTGTCTCGCTTGAGAAAT
* * * * *
1551233 TTTTTACTCAAAACAAGAAGATTTATTTCAC-TCA-AGAT
1 TTTTTACTCAAAAC---AAGATTTGTCTCGCTTGAGAAAT
* *
1551271 TGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACAA-
1 T-TTTTACTCAAAACAAGATTTGTCTCGCTTGAGA-AAT
* *
1551309 TTTTTACTCGAAAGAAGA
1 TTTTTACTCAAAACAAGA
1551327 CATTTCATTT
Statistics
Matches: 69, Mismatches: 17, Indels: 15
0.68 0.17 0.15
Matches are distributed among these distances:
36 16 0.23
37 22 0.32
38 6 0.09
39 14 0.20
40 11 0.16
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (37 bp):
TTTTTACTCAAAACAAGATTTGTCTCGCTTGAGAAAT
Found at i:1551280 original size:76 final size:75
Alignment explanation
Indices: 1551116--1551353 Score: 345
Period size: 76 Copynumber: 3.1 Consensus size: 75
1551106 ATCTCACTTG
* * * *
1551116 AGATTATTTTTCTTAAAA-AAGACTTTGTCTCACTTGAGACAGTTTTACTCGAAAGAAGACATTT
1 AGATTGTTTTTCTTAAAACAAGA-TTTGTCTCGCTTGAGAAATTTTTACTCGAAAGAAGACATTT
* *
1551180 CATATGACTCA
65 CATTTCACTCA
* * *
1551191 AGATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGAAATTTTTTACTCAAAACAAGAAGATT
1 AGATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGAAA-TTTTTACTCGAAAGAAG-ACATT
1551256 T-ATTTCACTCA
64 TCATTTCACTCA
1551267 AGATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACAATTTTTACTCGAAAGAAGACATTT
1 AGATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGA-AATTTTTACTCGAAAGAAGACATTT
1551332 CATTTCACTCA
65 CATTTCACTCA
1551343 AGATTGTTTTT
1 AGATTGTTTTT
1551354 AAAGAAGAAT
Statistics
Matches: 146, Mismatches: 12, Indels: 9
0.87 0.07 0.05
Matches are distributed among these distances:
75 38 0.26
76 101 0.69
77 7 0.05
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (75 bp):
AGATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGAAATTTTTACTCGAAAGAAGACATTTC
ATTTCACTCA
Found at i:1551417 original size:39 final size:39
Alignment explanation
Indices: 1551358--1551867 Score: 285
Period size: 39 Copynumber: 13.2 Consensus size: 39
1551348 GTTTTTAAAG
* * *
1551358 AAGAATTTATCTCTCTTGAGATAGTTTCCCTTGAAACAA
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
* * * *
1551397 AATATTTTATCTTGTTTGAGATAGTTTCCCTCGAAACAG
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
*
1551436 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAT
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
* * **
1551475 AAGA-TTTGTCTCACTTGAGACATA-TTTTACTCGAAACAA
1 AAGATTTTATCTCGCTTGAG--ATAGTTTCCCTCGAAACAA
* * ** * ** ** *
1551514 GAAGA-TTTATTTCACTAAAGATCGTTTTTCTAAAAAAAAA
1 -AAGATTTTATCTCGCTTGAGATAGTTTCCCT-CGAAACAA
** **
1551554 CAAGA-TTTATCTCGCTTGAGACGGTTTTTACTCGAAACAA
1 -AAGATTTTATCTCGCTTGAGATAG-TTTCCCTCGAAACAA
* * ** ** *
1551594 GAAGA-TTTATTTCACTCAAGATTA-TTTTTCTTGAAAC--
1 -AAGATTTTATCTCGCTTGAGA-TAGTTTCCCTCGAAACAA
* * * ** ** *
1551631 AAGA-TTTGTCTCGTTTGATACGGTTTTTACTCGAAATAA
1 AAGATTTTATCTCGCTTGAGATAG-TTTCCCTCGAAACAA
* * * * * ** * * *
1551670 GATATTTCATTTCACTCAAGATTGTTT---T--TAA-AT
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
* *
1551703 AATATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAT
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
* *
1551742 AAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAACAG
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
* *
1551781 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAATAG
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
* * *
1551820 AAGATTTTGTCTCGCTTGAGATAGTTTCGCTTGAAACAA
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
*
1551859 ATGATTTTA
1 AAGATTTTA
1551868 ATAGACTAAG
Statistics
Matches: 362, Mismatches: 91, Indels: 36
0.74 0.19 0.07
Matches are distributed among these distances:
33 21 0.06
34 2 0.01
36 15 0.04
37 10 0.03
38 17 0.05
39 221 0.61
40 70 0.19
41 6 0.02
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (39 bp):
AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
Found at i:1551529 original size:40 final size:39
Alignment explanation
Indices: 1551426--1551609 Score: 140
Period size: 40 Copynumber: 4.7 Consensus size: 39
1551416 GATAGTTTCC
* * * **
1551426 CTCGAAAC-AGAAGATTTTATCTCGCTTGAGATAGTTTCC
1 CTCGAAACAAGAAGA-TTTATCTCACTTGAGACATTTTTA
* *
1551465 CTCGAAAC-ATAAGATTTGTCTCACTTGAGACATATTTTA
1 CTCGAAACAAGAAGATTTATCTCACTTGAGACAT-TTTTA
* ** *
1551504 CTCGAAACAAGAAGATTTATTTCACTAAAGATCGTTTTT-
1 CTCGAAACAAGAAGATTTATCTCACTTGAGA-CATTTTTA
** * * * *
1551543 CTAAAAAAAAACAAGATTTATCTCGCTTGAGACGGTTTTTA
1 CT-CGAAACAAGAAGATTTATCTCACTTGAGAC-ATTTTTA
*
1551584 CTCGAAACAAGAAGATTTATTTCACT
1 CTCGAAACAAGAAGATTTATCTCACT
1551610 CAAGATTATT
Statistics
Matches: 112, Mismatches: 27, Indels: 11
0.75 0.18 0.07
Matches are distributed among these distances:
38 15 0.13
39 27 0.24
40 66 0.59
41 4 0.04
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (39 bp):
CTCGAAACAAGAAGATTTATCTCACTTGAGACATTTTTA
Found at i:1551622 original size:40 final size:39
Alignment explanation
Indices: 1551499--1551634 Score: 121
Period size: 40 Copynumber: 3.4 Consensus size: 39
1551489 TTGAGACATA
*
1551499 TTTTACTCGAAACAAGAAGATTTATTTCACTAAAGATCG
1 TTTTTCTCGAAACAAGAAGATTTATTTCACTAAAGATCG
** * * * * **
1551538 TTTTTCTAAAAAAAAACAAGATTTATCTCGCTTGAGA-CGG
1 TTTTTCT-CGAAACAAGAAGATTTATTTCACTAAAGATC-G
* **
1551578 TTTTTACTCGAAACAAGAAGATTTATTTCACTCAAGATTA
1 TTTTT-CTCGAAACAAGAAGATTTATTTCACTAAAGATCG
*
1551618 TTTTTCTTGAAACAAGA
1 TTTTTCTCGAAACAAGA
1551635 TTTGTCTCGT
Statistics
Matches: 73, Mismatches: 20, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
39 18 0.25
40 53 0.73
41 2 0.03
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (39 bp):
TTTTTCTCGAAACAAGAAGATTTATTTCACTAAAGATCG
Found at i:1551682 original size:76 final size:76
Alignment explanation
Indices: 1551475--1551698 Score: 254
Period size: 80 Copynumber: 2.9 Consensus size: 76
1551465 CTCGAAACAT
* * * * **
1551475 AAGATTTGTCTCACTTGAGAC-ATATTTTACTCGAAACAAGAAGATTTATTTCACTAAAGATCGT
1 AAGATTTATCTCGCTTGAGACGGT-TTTTACTCGAAACAAGAAGATTTATTTCACTCAAGATTAT
**
1551539 TTTTCTAAAAAAAAAC
65 TTTTCT----TGAAAC
1551555 AAGATTTATCTCGCTTGAGACGGTTTTTACTCGAAACAAGAAGATTTATTTCACTCAAGATTATT
1 AAGATTTATCTCGCTTGAGACGGTTTTTACTCGAAACAAGAAGATTTATTTCACTCAAGATTATT
1551620 TTTCTTGAAAC
66 TTTCTTGAAAC
* * * * * *
1551631 AAGATTTGTCTCGTTTGATACGGTTTTTACTCGAAATAAG-ATATTTCATTTCACTCAAGATTGT
1 AAGATTTATCTCGCTTGAGACGGTTTTTACTCGAAACAAGAAGATTT-ATTTCACTCAAGATTAT
1551695 TTTT
65 TTTT
1551699 AAATAATATT
Statistics
Matches: 128, Mismatches: 14, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
75 5 0.04
76 60 0.47
80 62 0.48
81 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (76 bp):
AAGATTTATCTCGCTTGAGACGGTTTTTACTCGAAACAAGAAGATTTATTTCACTCAAGATTATT
TTTCTTGAAAC
Found at i:1551858 original size:345 final size:344
Alignment explanation
Indices: 1551205--1551858 Score: 1013
Period size: 345 Copynumber: 1.9 Consensus size: 344
1551195 TGTTTTTCTT
* *
1551205 AAAACAAGATTTGTCTCGCTTGAGAAATTTTTTACTCAAAACAAGAAGATTTATTTCACTCAAGA
1 AAAACAAGATTTATCTCGCTTGAGAAAGTTTTTACTCAAAACAAGAAGATTTATTTCACTCAAGA
*
1551270 TTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACAATTTTTACTCGAAAGAAGACATTTCAT
66 TTATTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACAATTTTTACTCGAAAGAAGACATTTCAT
* * *
1551335 TTCACTCAAGATTGTTTTTAAAGAAGAATTTATCTCTCTTGAGATAGTTTCCCTTGAAACAAAAT
131 TTCACTCAAGATTGTTTTTAAAGAAGAATTTATCTCGCTTGAGATAGTTTCCCTCGAAACAAAAG
* *
1551400 ATTTTATCTTGTTTGAGATAGTTTCCCTCGAAACAGAAGATTTTATCTCGCTTGAGATAGTTTCC
196 ATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAGAAGATTTTATCTCGCTTGAGATAGTTTCC
* *
1551465 CTCGAAACATAAGATTTGTCTCACTTGAGACATATTTTACTCGAAACAAGAAGATTTATTTCACT
261 CTCGAAACAGAAGATTTGTCTCACTTGAGA-ATATTTCACTCGAAACAAGAAGATTTATTTCACT
1551530 AAAGATCGTTTTTCTAAAAA
325 AAAGATCGTTTTTCTAAAAA
** *
1551550 AAAACAAGATTTATCTCGCTTGAGACGGTTTTTACTCGAAACAAGAAGATTTATTTCACTCAAGA
1 AAAACAAGATTTATCTCGCTTGAGAAAGTTTTTACTCAAAACAAGAAGATTTATTTCACTCAAGA
* * * ** * *
1551615 TTATTTTTCTTGAAACAAGATTTGTCTCGTTTGATACGGTTTTTACTCGAAATAAGATATTTCAT
66 TTATTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACAATTTTTACTCGAAAGAAGACATTTCAT
* * * *
1551680 TTCACTCAAGATTGTTTTTAAATAATATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACATAAG
131 TTCACTCAAGATTGTTTTTAAAGAAGAATTTATCTCGCTTGAGATAGTTTCCCTCGAAACAAAAG
*
1551745 ATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAACAGAAGATTTTATCTCGCTTGAGATAGTTTCC
196 ATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAGAAGATTTTATCTCGCTTGAGATAGTTTCC
* * * *
1551810 CTCGAAATAGAAGATTTTGTCTCGCTTGAG-ATAGTTTCGCTTGAAACAA
261 CTCGAAACAGAAGA-TTTGTCTCACTTGAGAATA-TTTCACTCGAAACAA
1551859 ATGATTTTAA
Statistics
Matches: 278, Mismatches: 29, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
344 3 0.01
345 261 0.94
346 14 0.05
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (344 bp):
AAAACAAGATTTATCTCGCTTGAGAAAGTTTTTACTCAAAACAAGAAGATTTATTTCACTCAAGA
TTATTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACAATTTTTACTCGAAAGAAGACATTTCAT
TTCACTCAAGATTGTTTTTAAAGAAGAATTTATCTCGCTTGAGATAGTTTCCCTCGAAACAAAAG
ATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAGAAGATTTTATCTCGCTTGAGATAGTTTCC
CTCGAAACAGAAGATTTGTCTCACTTGAGAATATTTCACTCGAAACAAGAAGATTTATTTCACTA
AAGATCGTTTTTCTAAAAA
Found at i:1551971 original size:42 final size:40
Alignment explanation
Indices: 1551909--1552011 Score: 143
Period size: 42 Copynumber: 2.5 Consensus size: 40
1551899 TATGAGTAAG
*
1551909 TCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATTCTTAAA
1 TCCTTCGGGCCATCA-TAAGTCTTTCGAGCAAGA-TCTTAAA
* *
1551951 TCCTTCGAGCCATCTATAAGTCTTTCGAGCAAGATGTTAAA
1 TCCTTCGGGCCATC-ATAAGTCTTTCGAGCAAGATCTTAAA
1551992 TCCTTCGGGCCATCCATAAG
1 TCCTTCGGGCCAT-CATAAG
1552012 ACCTTCGGGC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
41 23 0.42
42 31 0.56
43 1 0.02
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.31
Consensus pattern (40 bp):
TCCTTCGGGCCATCATAAGTCTTTCGAGCAAGATCTTAAA
Found at i:1551979 original size:20 final size:20
Alignment explanation
Indices: 1551905--1551980 Score: 57
Period size: 20 Copynumber: 3.7 Consensus size: 20
1551895 TCTTTATGAG
*
1551905 TAAGTCCTTCGGGCCATC-A
1 TAAGTCCTTCGAGCCATCTA
* *
1551924 GTAAGTCTTTCGAGCATGATTCT-
1 -TAAGTCCTTCGAGC--CA-TCTA
*
1551947 TAAATCCTTCGAGCCATCTA
1 TAAGTCCTTCGAGCCATCTA
*
1551967 TAAGTCTTTCGAGC
1 TAAGTCCTTCGAGC
1551981 AAGATGTTAA
Statistics
Matches: 43, Mismatches: 8, Indels: 10
0.70 0.13 0.16
Matches are distributed among these distances:
19 3 0.07
20 25 0.58
22 13 0.30
23 2 0.05
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (20 bp):
TAAGTCCTTCGAGCCATCTA
Found at i:1552004 original size:41 final size:40
Alignment explanation
Indices: 1551909--1552029 Score: 143
Period size: 41 Copynumber: 2.9 Consensus size: 40
1551899 TATGAGTAAG
* *
1551909 TCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATTCTTAAA
1 TCCTTCGGGCCATCA-TAAGTCTTTCGAGCAAGA-TGTTAAA
*
1551951 TCCTTCGAGCCATCTATAAGTCTTTCGAGCAAGATGTTAAA
1 TCCTTCGGGCCATC-ATAAGTCTTTCGAGCAAGATGTTAAA
* * * *
1551992 TCCTTCGGGCCATCCATAAGACCTTCGGGCAGGATGTT
1 TCCTTCGGGCCAT-CATAAGTCTTTCGAGCAAGATGTT
1552030 TTCAACATTT
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
41 37 0.54
42 31 0.45
43 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.31
Consensus pattern (40 bp):
TCCTTCGGGCCATCATAAGTCTTTCGAGCAAGATGTTAAA
Found at i:1553713 original size:8 final size:8
Alignment explanation
Indices: 1553700--1553764 Score: 53
Period size: 8 Copynumber: 8.0 Consensus size: 8
1553690 AATCTAGTCC
1553700 ATATATTT
1 ATATATTT
1553708 ATATATTT
1 ATATATTT
1553716 ATTATATTTT
1 A-TATA-TTT
* *
1553726 ATTTACTT
1 ATATATTT
*
1553734 ATTTATTT
1 ATATATTT
*
1553742 ACTATTTTT
1 A-TATATTT
1553751 AT-TATTT
1 ATATATTT
1553758 AT-TATTT
1 ATATATTT
1553765 TAATTATTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
7 11 0.23
8 20 0.42
9 13 0.27
10 4 0.08
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (8 bp):
ATATATTT
Found at i:1553755 original size:16 final size:16
Alignment explanation
Indices: 1553736--1553773 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
1553726 ATTTACTTAT
*
1553736 TTATTTACTATTTTTA
1 TTATTTACTATTTTAA
*
1553752 TTATTTATTATTTTAA
1 TTATTTACTATTTTAA
1553768 TTATTT
1 TTATTT
1553774 TTAATTAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (16 bp):
TTATTTACTATTTTAA
Found at i:1553758 original size:7 final size:7
Alignment explanation
Indices: 1553703--1553764 Score: 58
Period size: 7 Copynumber: 8.7 Consensus size: 7
1553693 CTAGTCCATA
1553703 TATTTAT
1 TATTTAT
1553710 ATATTTAT
1 -TATTTAT
1553718 TATATT-T
1 TAT-TTAT
1553725 TATTTACT
1 TATTTA-T
1553733 TATTTAT
1 TATTTAT
*
1553740 T-TACTAT
1 TAT-TTAT
1553747 T-TTTAT
1 TATTTAT
1553753 TATTTAT
1 TATTTAT
1553760 TATTT
1 TATTT
1553765 TAATTATTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 11
0.78 0.03 0.18
Matches are distributed among these distances:
6 7 0.15
7 24 0.51
8 16 0.34
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.69
Consensus pattern (7 bp):
TATTTAT
Found at i:1554484 original size:76 final size:76
Alignment explanation
Indices: 1554324--1554488 Score: 197
Period size: 76 Copynumber: 2.2 Consensus size: 76
1554314 ACTCAGAGGC
* * * *
1554324 TACCGATTTCCCCTGAAAGGTTTTGGATCCGAGAAATAACAGTTTACTCATAGGGTACCGATTCC
1 TACCGATTCCCCCTGAAAGGTTTTAGATCCGAGAAATAACAGATTACTCAGAGGGTACCGATTCC
1554389 CCCAAACAGGG
66 CCCAAACAGGG
* * * * * * *
1554400 AACTGATTCCCCCTGAATGGTTTTAGCTCTGAGAAATAAGAGATTACTCGGAGGGTACCGATT-C
1 TACCGATTCCCCCTGAAAGGTTTTAGATCCGAGAAATAACAGATTACTCAGAGGGTACCGATTCC
**
1554464 CCCAATAGGGGG
66 CCCAA-ACAGGG
1554476 TACCGATTCCCCC
1 TACCGATTCCCCC
1554489 CTGTGTAAAG
Statistics
Matches: 73, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
75 6 0.08
76 67 0.92
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.25
Consensus pattern (76 bp):
TACCGATTCCCCCTGAAAGGTTTTAGATCCGAGAAATAACAGATTACTCAGAGGGTACCGATTCC
CCCAAACAGGG
Found at i:1560287 original size:22 final size:22
Alignment explanation
Indices: 1560250--1560336 Score: 88
Period size: 23 Copynumber: 4.0 Consensus size: 22
1560240 TAAATTTTAG
1560250 TGCAGGAGGAATCGATACCCCCT
1 TGCAGG-GGAATCGATACCCCCT
* *
1560273 TGCAGGGGAACCGATTCCCCCTT
1 TGCAGGGGAATCGATACCCCC-T
* * *
1560296 TGAATGGGAATCGATTCCCCCT
1 TGCAGGGGAATCGATACCCCCT
*
1560318 T-TA-GGGAATCGATACCCCC
1 TGCAGGGGAATCGATACCCCC
1560337 CACGGGGTCT
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
20 15 0.27
21 1 0.02
22 15 0.27
23 25 0.45
ACGTcount: A:0.23, C:0.31, G:0.24, T:0.22
Consensus pattern (22 bp):
TGCAGGGGAATCGATACCCCCT
Found at i:1562979 original size:76 final size:76
Alignment explanation
Indices: 1562844--1562989 Score: 220
Period size: 76 Copynumber: 1.9 Consensus size: 76
1562834 GTTTACTCAG
* * * * *
1562844 AGGGTACCGATTCCCCCTGAAAGGTTTTGGCTCCGAGAAATAACAGTTTACTCATAGGGTATCGA
1 AGGGAACCGATTCCCCCTGAAAGGTTTTGGCTCCAAGAAATAACAGATTACTCAGAGGGTACCGA
1562909 TTCCCTCCAAT
66 TTCCCTCCAAT
* * *
1562920 AGGGAACCGATTCCCCCTTAATGGTTTTGGCTCCAAGAAATAACAGATTACTCGGAGGGTACCGA
1 AGGGAACCGATTCCCCCTGAAAGGTTTTGGCTCCAAGAAATAACAGATTACTCAGAGGGTACCGA
1562985 TTCCC
66 TTCCC
1562990 CCCTGTGTAA
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
76 62 1.00
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.26
Consensus pattern (76 bp):
AGGGAACCGATTCCCCCTGAAAGGTTTTGGCTCCAAGAAATAACAGATTACTCAGAGGGTACCGA
TTCCCTCCAAT
Found at i:1564481 original size:15 final size:15
Alignment explanation
Indices: 1564461--1564531 Score: 81
Period size: 15 Copynumber: 4.7 Consensus size: 15
1564451 TCGACAGTGA
1564461 TGAATAAGGT-GTGTG
1 TGAATAAGGTGGTG-G
** *
1564476 TGAATAAGACGGTGA
1 TGAATAAGGTGGTGG
1564491 TGAATAAGGTGGTGG
1 TGAATAAGGTGGTGG
*
1564506 TGAATAAGATGGTGG
1 TGAATAAGGTGGTGG
*
1564521 TGGATAAGGTG
1 TGAATAAGGTG
1564532 ACTTCTCTTT
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
15 43 0.93
16 3 0.07
ACGTcount: A:0.31, C:0.01, G:0.41, T:0.27
Consensus pattern (15 bp):
TGAATAAGGTGGTGG
Found at i:1564493 original size:30 final size:30
Alignment explanation
Indices: 1564457--1564531 Score: 107
Period size: 30 Copynumber: 2.5 Consensus size: 30
1564447 GGTGTCGACA
1564457 GTGATGAATAAGGT-GTGTGTGAATAAGACG
1 GTGATGAATAAGGTGGTG-GTGAATAAGACG
*
1564487 GTGATGAATAAGGTGGTGGTGAATAAGATG
1 GTGATGAATAAGGTGGTGGTGAATAAGACG
* *
1564517 GTGGTGGATAAGGTG
1 GTGATGAATAAGGTG
1564532 ACTTCTCTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
30 38 0.93
31 3 0.07
ACGTcount: A:0.31, C:0.01, G:0.41, T:0.27
Consensus pattern (30 bp):
GTGATGAATAAGGTGGTGGTGAATAAGACG
Found at i:1564613 original size:15 final size:15
Alignment explanation
Indices: 1564587--1564652 Score: 105
Period size: 15 Copynumber: 4.4 Consensus size: 15
1564577 TTTCCTTATT
*
1564587 TGGTGGTAAATAAGA
1 TGGTGGTGAATAAGA
* *
1564602 TGGTGATGAATAAGG
1 TGGTGGTGAATAAGA
1564617 TGGTGGTGAATAAGA
1 TGGTGGTGAATAAGA
1564632 TGGTGGTGAATAAGA
1 TGGTGGTGAATAAGA
1564647 TGGTGG
1 TGGTGG
1564653 ATAAGGTGAC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 46 1.00
ACGTcount: A:0.32, C:0.00, G:0.41, T:0.27
Consensus pattern (15 bp):
TGGTGGTGAATAAGA
Found at i:1564696 original size:129 final size:130
Alignment explanation
Indices: 1564463--1564774 Score: 425
Period size: 129 Copynumber: 2.4 Consensus size: 130
1564453 GACAGTGATG
* ** *
1564463 AATAAGGTGTGTG-TGAATAAGACGGTGATGAATAAGGTGGTGGTGAATAAGATGGTGGTGGATA
1 AATAAGATG-GTGATGAATAAGGTGGTGGTGAATAAGGTGGTGGTGAATAAGA--GTGGTGGATA
*
1564527 AGGTGACTTCTCTTTGGGTTTCTCATACTTTGGCGATTTGTATTCGTT-TTTTTCCTTATTTGGT
63 AGGTGACTTCTCTTTGGGTTTCTCATACTTTGGCGATTTGTATT-GTTGTTTTTCCTTATTTGGG
1564591 GGTA
127 GGTA
*
1564595 AATAAGATGGTGATGAATAAGGTGGTGGTGAATAAGATGGTGGTGAATAAGA-TGGTGGATAAGG
1 AATAAGATGGTGATGAATAAGGTGGTGGTGAATAAGGTGGTGGTGAATAAGAGTGGTGGATAAGG
* * * *
1564659 TGACTTCTCTTTGGGTTTCTCATACTTTGGTGATTTGTATTTTTGTTTTTCCTTCTTTGGGGGTG
66 TGACTTCTCTTTGGGTTTCTCATACTTTGGCGATTTGTATTGTTGTTTTTCCTTATTTGGGGGTA
* * * *
1564724 AATAAGATGCTGATGAATAAGGT-GTGTGTAAATAAGGCGGTGATGAATAAG
1 AATAAGATGGTGATGAATAAGGTGGTG-GTGAATAAGGTGGTGGTGAATAAG
1564775 GTGATCGCGA
Statistics
Matches: 162, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
128 5 0.03
129 111 0.69
131 3 0.02
132 43 0.27
ACGTcount: A:0.25, C:0.07, G:0.31, T:0.38
Consensus pattern (130 bp):
AATAAGATGGTGATGAATAAGGTGGTGGTGAATAAGGTGGTGGTGAATAAGAGTGGTGGATAAGG
TGACTTCTCTTTGGGTTTCTCATACTTTGGCGATTTGTATTGTTGTTTTTCCTTATTTGGGGGTA
Found at i:1564772 original size:15 final size:16
Alignment explanation
Indices: 1564734--1564775 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
1564724 AATAAGATGC
*
1564734 TGATGAATAAGGTGTG
1 TGATGAATAAGGCGTG
*
1564750 TG-TAAATAAGGCG-G
1 TGATGAATAAGGCGTG
1564764 TGATGAATAAGG
1 TGATGAATAAGG
1564776 TGATCGCGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
14 3 0.14
15 17 0.77
16 2 0.09
ACGTcount: A:0.36, C:0.02, G:0.36, T:0.26
Consensus pattern (16 bp):
TGATGAATAAGGCGTG
Found at i:1565910 original size:3 final size:3
Alignment explanation
Indices: 1565902--1565958 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
1565892 TAAATTAATT
1565902 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1565950 TAA TAA TAA
1 TAA TAA TAA
1565959 AATGGCGGGT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1567519 original size:30 final size:30
Alignment explanation
Indices: 1567479--1567570 Score: 114
Period size: 30 Copynumber: 3.1 Consensus size: 30
1567469 TTTCGTTCTT
*
1567479 TGGTGGTGAATAAGGT-GTGTCTGAATAAGG
1 TGGTGGTGAATAAGGTGGTG-ATGAATAAGG
*
1567509 TGGTGATGAATAAGGTGGTGATGAATAAGG
1 TGGTGGTGAATAAGGTGGTGATGAATAAGG
* * * *
1567539 TGGTGGTGAATAAGATGGGGGTGGATAAGG
1 TGGTGGTGAATAAGGTGGTGATGAATAAGG
1567569 TG
1 TG
1567571 ACTTCTCTTT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
30 51 0.94
31 3 0.06
ACGTcount: A:0.28, C:0.01, G:0.43, T:0.27
Consensus pattern (30 bp):
TGGTGGTGAATAAGGTGGTGATGAATAAGG
Found at i:1567549 original size:45 final size:45
Alignment explanation
Indices: 1567479--1567570 Score: 114
Period size: 45 Copynumber: 2.0 Consensus size: 45
1567469 TTTCGTTCTT
* * *
1567479 TGGTGGTGAATAAGGTGTGTCTGAATAAGGTGGTGATGAATAAGG
1 TGGTGATGAATAAGGTGTGTCTGAATAAGATGGGGATGAATAAGG
* * *
1567524 TGGTGATGAATAAGGTG-GTGGTGAATAAGATGGGGGTGGATAAGG
1 TGGTGATGAATAAGGTGTGT-CTGAATAAGATGGGGATGAATAAGG
1567569 TG
1 TG
1567571 ACTTCTCTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
44 2 0.05
45 38 0.95
ACGTcount: A:0.28, C:0.01, G:0.43, T:0.27
Consensus pattern (45 bp):
TGGTGATGAATAAGGTGTGTCTGAATAAGATGGGGATGAATAAGG
Found at i:1567555 original size:147 final size:147
Alignment explanation
Indices: 1567392--1567776 Score: 560
Period size: 147 Copynumber: 2.6 Consensus size: 147
1567382 TCTCATATTT
* * * *
1567392 TGGTGGCGAATAAGATGGTGATGAACAAGGTGACTTCTCTTTGGGTTTCTCATACTTTGGCGATT
1 TGGTGGTGAATAAGATGGTGGTGGATAAGGTGACTTCTCTTTGGGTTTCTCATACTTTGGCGATT
* * * *
1567457 TGTATTCGTGTTTTTCGTTCTTTGGTGGTGAATAAGGTG-TGTCTGAATAAGGTG-GTGATGAAT
66 TGTATTCGTGTTTTTCCTTTTTTGGTGGTGAATAAGATGCTG-ATGAATAAGGTGTGT-ATGAAT
*
1567520 AAGGTGGTGATGAATAAGG
129 AAGGCGGTGATGAATAAGG
* *
1567539 TGGTGGTGAATAAGATGGGGGTGGATAAGGTGACTTCTCTTTAGGTTTCTCATACTTTGGCGATT
1 TGGTGGTGAATAAGATGGTGGTGGATAAGGTGACTTCTCTTTGGGTTTCTCATACTTTGGCGATT
* *
1567604 TGTATTCGTTTTTTTCCTTTTTTGGTGGTGAATAAGATGCTGATGAATAAGGTGTGTCTGAATAA
66 TGTATTCGTGTTTTTCCTTTTTTGGTGGTGAATAAGATGCTGATGAATAAGGTGTGTATGAATAA
1567669 GGCGGTGATGAATAAGG
131 GGCGGTGATGAATAAGG
* * * *
1567686 TGATGGTGAATAAGATGGTGGTGGATATGGTGACTT-TCCTTTGGGTTTCTCATACTTCGGTGAT
1 TGGTGGTGAATAAGATGGTGGTGGATAAGGTGACTTCT-CTTTGGGTTTCTCATACTTTGGCGAT
*
1567750 TTGTATTTGTGTTTTTCCTTTTTTGGT
65 TTGTATTCGTGTTTTTCCTTTTTTGGT
1567777 TGTTTGTATT
Statistics
Matches: 214, Mismatches: 21, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
146 1 0.00
147 209 0.98
148 4 0.02
ACGTcount: A:0.21, C:0.09, G:0.30, T:0.40
Consensus pattern (147 bp):
TGGTGGTGAATAAGATGGTGGTGGATAAGGTGACTTCTCTTTGGGTTTCTCATACTTTGGCGATT
TGTATTCGTGTTTTTCCTTTTTTGGTGGTGAATAAGATGCTGATGAATAAGGTGTGTATGAATAA
GGCGGTGATGAATAAGG
Found at i:1567561 original size:15 final size:15
Alignment explanation
Indices: 1567479--1567552 Score: 105
Period size: 15 Copynumber: 4.9 Consensus size: 15
1567469 TTTCGTTCTT
*
1567479 TGGTGGTGAATAAGG
1 TGGTGATGAATAAGG
*
1567494 T-GTGTCTGAATAAGG
1 TGGTG-ATGAATAAGG
1567509 TGGTGATGAATAAGG
1 TGGTGATGAATAAGG
1567524 TGGTGATGAATAAGG
1 TGGTGATGAATAAGG
*
1567539 TGGTGGTGAATAAG
1 TGGTGATGAATAAG
1567553 ATGGGGGTGG
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
14 3 0.06
15 48 0.89
16 3 0.06
ACGTcount: A:0.30, C:0.01, G:0.41, T:0.28
Consensus pattern (15 bp):
TGGTGATGAATAAGG
Found at i:1567566 original size:15 final size:15
Alignment explanation
Indices: 1567500--1567567 Score: 55
Period size: 15 Copynumber: 4.5 Consensus size: 15
1567490 AAGGTGTGTC
* * *
1567500 TGAATAAGGTGGTGA
1 TGAATAAGATGGGGG
* * *
1567515 TGAATAAGGTGGTGA
1 TGAATAAGATGGGGG
* *
1567530 TGAATAAGGTGGTGG
1 TGAATAAGATGGGGG
1567545 TGAATAAGATGGGGG
1 TGAATAAGATGGGGG
*
1567560 TGGATAAG
1 TGAATAAG
1567568 GTGACTTCTC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 49 1.00
ACGTcount: A:0.32, C:0.00, G:0.43, T:0.25
Consensus pattern (15 bp):
TGAATAAGATGGGGG
Found at i:1567707 original size:15 final size:15
Alignment explanation
Indices: 1567626--1567708 Score: 78
Period size: 15 Copynumber: 5.5 Consensus size: 15
1567616 TTTCCTTTTT
*
1567626 TGGTGGTGAATAAGA
1 TGGTGGTGAATAAGG
* *
1567641 TGCTGATGAATAAGG
1 TGGTGGTGAATAAGG
*
1567656 T-GTGTCTGAATAAGG
1 TGGTG-GTGAATAAGG
* *
1567671 CGGTGATGAATAAGG
1 TGGTGGTGAATAAGG
* *
1567686 TGATGGTGAATAAGA
1 TGGTGGTGAATAAGG
1567701 TGGTGGTG
1 TGGTGGTG
1567709 GATATGGTGA
Statistics
Matches: 54, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
14 2 0.04
15 49 0.91
16 3 0.06
ACGTcount: A:0.30, C:0.04, G:0.39, T:0.28
Consensus pattern (15 bp):
TGGTGGTGAATAAGG
Found at i:1567718 original size:30 final size:30
Alignment explanation
Indices: 1567629--1567705 Score: 102
Period size: 30 Copynumber: 2.6 Consensus size: 30
1567619 CCTTTTTTGG
*
1567629 TGGTGAATAAGATGCTGATGAATAAGGTG-
1 TGGTGAATAAGATGGTGATGAATAAGGTGA
* **
1567658 TGTCTGAATAAGGCGGTGATGAATAAGGTGA
1 TG-GTGAATAAGATGGTGATGAATAAGGTGA
1567689 TGGTGAATAAGATGGTG
1 TGGTGAATAAGATGGTG
1567706 GTGGATATGG
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
29 2 0.05
30 35 0.90
31 2 0.05
ACGTcount: A:0.32, C:0.04, G:0.36, T:0.27
Consensus pattern (30 bp):
TGGTGAATAAGATGGTGATGAATAAGGTGA
Found at i:1569590 original size:15 final size:15
Alignment explanation
Indices: 1569531--1569597 Score: 98
Period size: 15 Copynumber: 4.5 Consensus size: 15
1569521 TGAGACCTTA
*
1569531 CCCGCCCCGCATCCA
1 CCCGCCCCGCATCCG
*
1569546 CCCGCCCTGCATCCG
1 CCCGCCCCGCATCCG
*
1569561 CCCACCCCGCATCCG
1 CCCGCCCCGCATCCG
1569576 CCCGCCCCGCATCCG
1 CCCGCCCCGCATCCG
*
1569591 TCCGCCC
1 CCCGCCC
1569598 ACTAAATATC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 46 1.00
ACGTcount: A:0.09, C:0.66, G:0.16, T:0.09
Consensus pattern (15 bp):
CCCGCCCCGCATCCG
Found at i:1573234 original size:3 final size:3
Alignment explanation
Indices: 1573226--1573258 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
1573216 TACATTAATT
1573226 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1573259 AAGGGTGAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1575013 original size:6 final size:7
Alignment explanation
Indices: 1574998--1575022 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
1574988 TATCATTTTC
1574998 TTTTATT
1 TTTTATT
1575005 TTTTATT
1 TTTTATT
1575012 TTTTATT
1 TTTTATT
1575019 TTTT
1 TTTT
1575023 CTTGCTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTATT
Found at i:1576470 original size:3 final size:3
Alignment explanation
Indices: 1576462--1576500 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
1576452 AACATTAATT
1576462 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1576501 AGGGCGGGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1576668 original size:58 final size:56
Alignment explanation
Indices: 1576606--1576719 Score: 167
Period size: 56 Copynumber: 2.0 Consensus size: 56
1576596 TAGTTACATA
*
1576606 AAATTTATAGGTTAAAAAAAAT-TAAAAGTATTATCTAAAGTAATAAATATCTAAAAAC
1 AAATTTATAGATT--AAAAAATCT-AAAGTATTATCTAAAGTAATAAATATCTAAAAAC
* *
1576664 AAATTTATAGATTAAAAAATCTGAAGTATTATTTAAAGTAATAAATATCTAAAAAC
1 AAATTTATAGATTAAAAAATCTAAAGTATTATCTAAAGTAATAAATATCTAAAAAC
1576720 GTCAGTTCAT
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
56 39 0.75
57 1 0.02
58 12 0.23
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.32
Consensus pattern (56 bp):
AAATTTATAGATTAAAAAATCTAAAGTATTATCTAAAGTAATAAATATCTAAAAAC
Found at i:1576713 original size:28 final size:27
Alignment explanation
Indices: 1576631--1576715 Score: 66
Period size: 28 Copynumber: 3.1 Consensus size: 27
1576621 AAAAAATTAA
*
1576631 AAGTATTATCTAAAGTAATAAATATCT
1 AAGTATTATTTAAAGTAATAAATATCT
** ** *
1576658 AAAAACAAATTTATAGATTAA-AAA-ATCT
1 AAGTA-TTATTTA-A-AGTAATAAATATCT
1576686 GAAGTATTATTTAAAGTAATAAATATCT
1 -AAGTATTATTTAAAGTAATAAATATCT
1576714 AA
1 AA
1576716 AAACGTCAGT
Statistics
Matches: 41, Mismatches: 11, Indels: 12
0.64 0.17 0.19
Matches are distributed among these distances:
26 4 0.10
27 9 0.22
28 17 0.41
29 7 0.17
30 4 0.10
ACGTcount: A:0.53, C:0.06, G:0.07, T:0.34
Consensus pattern (27 bp):
AAGTATTATTTAAAGTAATAAATATCT
Found at i:1578024 original size:30 final size:30
Alignment explanation
Indices: 1577987--1578064 Score: 86
Period size: 30 Copynumber: 2.6 Consensus size: 30
1577977 TCATATTTTG
**
1577987 GTGGTGAATAAGATGGTTTTAAATAAGG-T
1 GTGGTGAATAAGATGGTGATAAATAAGGTT
** *
1578016 GTGTGTGAATAAGGCGGTGATGAATAAGGTT
1 GTG-GTGAATAAGATGGTGATAAATAAGGTT
*
1578047 GTGGTGAATAAAATGGTG
1 GTGGTGAATAAGATGGTG
1578065 GTGTGTAAGG
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
29 3 0.08
30 32 0.82
31 4 0.10
ACGTcount: A:0.32, C:0.01, G:0.36, T:0.31
Consensus pattern (30 bp):
GTGGTGAATAAGATGGTGATAAATAAGGTT
Found at i:1578026 original size:15 final size:15
Alignment explanation
Indices: 1578008--1578057 Score: 59
Period size: 15 Copynumber: 3.3 Consensus size: 15
1577998 GATGGTTTTA
1578008 AATAAGGTGTGTGTG
1 AATAAGGTGTGTGTG
*
1578023 AATAAGGCG-GTGATG
1 AATAAGGTGTGTG-TG
1578038 AATAAGGT-TGTGGTG
1 AATAAGGTGTGT-GTG
1578053 AATAA
1 AATAA
1578058 AATGGTGGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
14 3 0.10
15 26 0.87
16 1 0.03
ACGTcount: A:0.34, C:0.02, G:0.36, T:0.28
Consensus pattern (15 bp):
AATAAGGTGTGTGTG
Found at i:1581219 original size:149 final size:148
Alignment explanation
Indices: 1580944--1581222 Score: 330
Period size: 149 Copynumber: 1.9 Consensus size: 148
1580934 TTAGAGGTAT
*
1580944 CTACCAAGGAGAAGATCCAAACATTTTCTTACTGAGGTAACAAGTTGGACTCGAGACAATTCAAT
1 CTACCAAGGAGAAGATCCAAACATTTTCCTACTGAGGTAACAAGTTGGACTCGAGACAATTCAAT
* * *
1581009 GATGAAGCCAACATTTGAAGATCACGAACCAAGTCAAAAAAATTTTTGAAGTAAGAGATGAAGTA
66 GACGAAGCCAACAGTTGAAGATCACGAACC-AGTCAAAAAAATTTTTGAAATAAGAGATGAAGTA
1581074 GGAGCTAGAGAGAGTCTAC
130 GGAGCTAGAGAGAGTCTAC
* * * * * **
1581093 CTACCAAGGAGACGATCTAGACATTTTCCTGCTGAGGTAACAAGGTT-GACTCGAGATAATTTGA
1 CTACCAAGGAGAAGATCCAAACATTTTCCTACTGAGGTAACAA-GTTGGACTCGAGACAATTCAA
* * * * * * *
1581157 T-ACCGAAGCTAACAGTTGAAGATCATGAGCC-GTCTCAAAAGATTTTTGGAAATAGGATATGAA
65 TGA-CGAAGCCAACAGTTGAAGATCACGAACCAGTC-AAAAAAATTTTT-GAAATAAGAGATGAA
1581220 GTA
127 GTA
1581223 TAAGCTTTTA
Statistics
Matches: 108, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
147 3 0.03
148 11 0.10
149 91 0.84
150 3 0.03
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (148 bp):
CTACCAAGGAGAAGATCCAAACATTTTCCTACTGAGGTAACAAGTTGGACTCGAGACAATTCAAT
GACGAAGCCAACAGTTGAAGATCACGAACCAGTCAAAAAAATTTTTGAAATAAGAGATGAAGTAG
GAGCTAGAGAGAGTCTAC
Found at i:1584922 original size:36 final size:36
Alignment explanation
Indices: 1584882--1584998 Score: 110
Period size: 36 Copynumber: 3.1 Consensus size: 36
1584872 CTCAAGATTG
1584882 TTTTTCTTAAAACAAGATTTATCTCGCTTGAGACAT
1 TTTTTCTTAAAACAAGATTTATCTCGCTTGAGACAT
* * * ** *
1584918 TTTTTACTCAAAACAAGAAGATTTATTTCACTCAAGA-TT
1 TTTTT-CTTAAAAC---AAGATTTATCTCGCTTGAGACAT
* *
1584957 GTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACAA
1 -TTTTTCTTAAAACAAGATTTATCTCGCTTGAGACAT
1584994 TTTTT
1 TTTTT
1584999 ACTCGAAAGA
Statistics
Matches: 61, Mismatches: 14, Indels: 12
0.70 0.16 0.14
Matches are distributed among these distances:
36 25 0.41
37 7 0.11
39 8 0.13
40 21 0.34
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.42
Consensus pattern (36 bp):
TTTTTCTTAAAACAAGATTTATCTCGCTTGAGACAT
Found at i:1584931 original size:37 final size:37
Alignment explanation
Indices: 1584882--1585011 Score: 104
Period size: 37 Copynumber: 3.5 Consensus size: 37
1584872 CTCAAGATTG
*
1584882 TTTTT-CTTAAAACAAGATTTATCTCGCTTGAGACAT
1 TTTTTACTCAAAACAAGATTTATCTCGCTTGAGACAT
* * * *
1584918 TTTTTACTCAAAACAAGAAGATTTATTTCAC-TCA-AGAT
1 TTTTTACTCAAAAC---AAGATTTATCTCGCTTGAGACAT
* * * *
1584956 TGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACAA
1 T-TTTTACTCAAAACAAGATTTATCTCGCTTGAGACAT
* *
1584994 TTTTTACTCGAAAGAAGA
1 TTTTTACTCAAAACAAGA
1585012 CATTTCATTT
Statistics
Matches: 70, Mismatches: 17, Indels: 13
0.70 0.17 0.13
Matches are distributed among these distances:
36 16 0.23
37 22 0.31
38 7 0.10
39 13 0.19
40 12 0.17
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.38
Consensus pattern (37 bp):
TTTTTACTCAAAACAAGATTTATCTCGCTTGAGACAT
Found at i:1584943 original size:40 final size:39
Alignment explanation
Indices: 1584895--1585660 Score: 146
Period size: 39 Copynumber: 20.0 Consensus size: 39
1584885 TTCTTAAAAC
*
1584895 AAGATTTATCTCGCTTGAGACATTTTTTACTCAAAACAAG
1 AAGATTTATCTCGCTTGAGACA-TTTTTACTCGAAACAAG
* * * * * ** *
1584935 AAGATTTATTTCAC-TCA-AGATTGTTT-TTCTTAA-AAC
1 AAGATTTATCTCGCTTGAGACATT-TTTACTCGAAACAAG
* *
1584971 AAGATTTGTCTCGCTTGAGACAATTTTTACTCGAAAGAAG
1 AAGATTTATCTCGCTTGAGAC-ATTTTTACTCGAAACAAG
* * * * * * *
1585011 -ACATTTCATTTCAC-TCA-AGATTGTTT--T-TAAAGAAG
1 AAGATTT-ATCTCGCTTGAGACATT-TTTACTCGAAACAAG
* * * ** *
1585046 -A-ATTTATCTCTCTTGAGATAGTTTCCCTTGAAACAA-
1 AAGATTTATCTCGCTTGAGACATTTTTACTCGAAACAAG
* * * * * **
1585082 AATATTTTATCTTGTTTGAGATAGTTTCCCTCGAAAC-AG
1 AAGA-TTTATCTCGCTTGAGACATTTTTACTCGAAACAAG
* * ** *
1585121 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAAC-AT
1 AAGA-TTTATCTCGCTTGAGACATTTTTACTCGAAACAAG
* * *
1585160 AAGATTTGTCTCACTTGAGACAGATTTTACTCGAAACAAG
1 AAGATTTATCTCGCTTGAGACA-TTTTTACTCGAAACAAG
* * ** * * * *
1585200 AAGATTTATTTCACTCAAGATCGTTTTT-CTCAAAAAAAAC
1 AAGATTTATCTCGCTTGAGA-CATTTTTACTC-GAAACAAG
*
1585240 AAGATTTATCTCGCTTGAGACGGTTTTTACTCGAAACAAG
1 AAGATTTATCTCGCTTGAGAC-ATTTTTACTCGAAACAAG
* * * * ** ** *
1585280 AAGATTTATTTCTC-TCA-AGATTTTTTTTCTTAA-AAC
1 AAGATTTATCTCGCTTGAGACATTTTTACTCGAAACAAG
* * * *
1585316 AAGATTTGTCTCGCTTGATACGGTTTTTACTCGAAATAAG
1 AAGATTTATCTCGCTTGAGAC-ATTTTTACTCGAAACAAG
* * * * * * *
1585356 -ATATTTCATTTCAC-TCA-AGATTGTTT--T-TAAATAA-
1 AAGATTT-ATCTCGCTTGAGACATT-TTTACTCGAAACAAG
* * * * * ** *
1585390 TA-TTTTATCTCGCTTGAGATAGTATCCCTCGAAAC-AT
1 AAGATTTATCTCGCTTGAGACATTTTTACTCGAAACAAG
* ** * **
1585427 AAGATTTTGTCTCGCTTGAGGTAGTTTCCCTCGAAACAA-
1 AAGA-TTTATCTCGCTTGAGACATTTTTACTCGAAACAAG
* *
1585466 AAGATTTTATCTCGCTTGAG--ATTATTTCCCTTGAAACATA-
1 AAGA-TTTATCTCGCTTGAGACATT-TTT-ACTCGAAACA-AG
* * * **
1585506 AA-ATTTTATCTAGCTTGAGATAGTTTCGCTCGAAACAA-
1 AAGA-TTTATCTCGCTTGAGACATTTTTACTCGAAACAAG
* * * **
1585544 AATATTTTATCTCGCTTGAGAGAGTTTCCCTCGAAAC-AG
1 AAGA-TTTATCTCGCTTGAGACATTTTTACTCGAAACAAG
* * ** *
1585583 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAA-TAG
1 AAGA-TTTATCTCGCTTGAGACATTTTTACTCGAAACAAG
* * **
1585622 AAGATTTTATCTCGCTTGAGATAGTTTCGCTCGAAACAA
1 AAGA-TTTATCTCGCTTGAGACATTTTTACTCGAAACAA
1585661 ATGATTTTAA
Statistics
Matches: 555, Mismatches: 123, Indels: 96
0.72 0.16 0.12
Matches are distributed among these distances:
33 10 0.02
34 14 0.03
35 21 0.04
36 31 0.06
37 36 0.06
38 42 0.08
39 299 0.54
40 96 0.17
41 6 0.01
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.37
Consensus pattern (39 bp):
AAGATTTATCTCGCTTGAGACATTTTTACTCGAAACAAG
Found at i:1584959 original size:76 final size:75
Alignment explanation
Indices: 1584801--1585038 Score: 345
Period size: 76 Copynumber: 3.1 Consensus size: 75
1584791 ATCTCACTTG
* * *
1584801 AGATTATTTTTCTTAAAA-AAGACTTTGTCTCACTTGAGACAGTTTTACTCGAAAGAAGACATTT
1 AGATTGTTTTTCTTAAAACAAGA-TTTGTCTCGCTTGAGACATTTTTACTCGAAAGAAGACATTT
* *
1584865 CATATGACTCA
65 CATTTCACTCA
* * * *
1584876 AGATTGTTTTTCTTAAAACAAGATTTATCTCGCTTGAGACATTTTTTACTCAAAACAAGAAGATT
1 AGATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACA-TTTTTACTCGAAAGAAG-ACATT
1584941 T-ATTTCACTCA
64 TCATTTCACTCA
1584952 AGATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACAATTTTTACTCGAAAGAAGACATTT
1 AGATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGAC-ATTTTTACTCGAAAGAAGACATTT
1585017 CATTTCACTCA
65 CATTTCACTCA
1585028 AGATTGTTTTT
1 AGATTGTTTTT
1585039 AAAGAAGAAT
Statistics
Matches: 145, Mismatches: 13, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
75 38 0.26
76 101 0.70
77 6 0.04
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.39
Consensus pattern (75 bp):
AGATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACATTTTTACTCGAAAGAAGACATTTC
ATTTCACTCA
Found at i:1585102 original size:39 final size:39
Alignment explanation
Indices: 1585043--1585669 Score: 456
Period size: 39 Copynumber: 16.2 Consensus size: 39
1585033 GTTTTTAAAG
* * *
1585043 AAGAATTTATCTCTCTTGAGATAGTTTCCCTTGAAACAA
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
* * * *
1585082 AATATTTTATCTTGTTTGAGATAGTTTCCCTCGAAACAG
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
*
1585121 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAT
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
* * * **
1585160 AAGA-TTTGTCTCACTTGAGACAGATTTTACTCGAAACAA
1 AAGATTTTATCTCGCTTGAGATAG-TTTCCCTCGAAACAA
* * ** * ** * *
1585199 GAAGA-TTTATTTCACTCAAGATCGTTTTTCTCAAAAAAAA
1 -AAGATTTTATCTCGCTTGAGATAGTTTCCCTC-GAAACAA
** **
1585239 CAAGA-TTTATCTCGCTTGAGACGGTTTTTACTCGAAACAA
1 -AAGATTTTATCTCGCTTGAGATAG-TTTCCCTCGAAACAA
* * ** ** ** * *
1585279 GAAGA-TTTATTTCTCTCAAGATTTTTTTTCT-TAAA-AC
1 -AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
* * ** ** *
1585316 AAGA-TTTGTCTCGCTTGATACGGTTTTTACTCGAAATAA
1 AAGATTTTATCTCGCTTGAGATAG-TTTCCCTCGAAACAA
* * * * * ** * * *
1585355 GATATTTCATTTCACTCAAGATTGTTT---T--TAA-AT
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
* * *
1585388 AATATTTTATCTCGCTTGAGATAGTATCCCTCGAAACAT
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
* *
1585427 AAGATTTTGTCTCGCTTGAGGTAGTTTCCCTCGAAACAA
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
*
1585466 AAGATTTTATCTCGCTTGAGATTA-TTTCCCTTGAAACATA
1 AAGATTTTATCTCGCTTGAGA-TAGTTTCCCTCGAAACA-A
* *
1585506 AA-ATTTTATCTAGCTTGAGATAGTTTCGCTCGAAACAA
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
* * *
1585544 AATATTTTATCTCGCTTGAGAGAGTTTCCCTCGAAACAG
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
* *
1585583 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAATAG
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
*
1585622 AAGATTTTATCTCGCTTGAGATAGTTTCGCTCGAAACAA
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
*
1585661 ATGATTTTA
1 AAGATTTTA
1585670 ATAGACTAAG
Statistics
Matches: 467, Mismatches: 103, Indels: 36
0.77 0.17 0.06
Matches are distributed among these distances:
33 20 0.04
34 2 0.00
36 16 0.03
37 7 0.01
38 29 0.06
39 311 0.67
40 75 0.16
41 7 0.01
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (39 bp):
AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
Found at i:1585259 original size:80 final size:77
Alignment explanation
Indices: 1585160--1585383 Score: 290
Period size: 80 Copynumber: 2.9 Consensus size: 77
1585150 CTCGAAACAT
* * *
1585160 AAGATTTGTCTCACTTGAGACAGATTTTACTCGAAACAAGAAGATTTATTTCACTCAAGATCGTT
1 AAGATTTGTCTCGCTTGAGACGGTTTTTACTCGAAACAAGAAGATTTATTTCACTCAAGAT-GTT
1585225 TTTCTCAAAAAAAAC
65 TTTCTC--AAAAAAC
* *
1585240 AAGATTTATCTCGCTTGAGACGGTTTTTACTCGAAACAAGAAGATTTATTTCTCTCAAGAT-TTT
1 AAGATTTGTCTCGCTTGAGACGGTTTTTACTCGAAACAAGAAGATTTATTTCACTCAAGATGTTT
* **
1585304 TTTTCTTAAAAC
66 TTCTCAAAAAAC
* * *
1585316 AAGATTTGTCTCGCTTGATACGGTTTTTACTCGAAATAAG-ATATTTCATTTCACTCAAGATTGT
1 AAGATTTGTCTCGCTTGAGACGGTTTTTACTCGAAACAAGAAGATTT-ATTTCACTCAAGA-TGT
1585380 TTTT
64 TTTT
1585384 AAATAATATT
Statistics
Matches: 128, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
75 5 0.04
76 54 0.42
77 1 0.01
78 12 0.09
80 56 0.44
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (77 bp):
AAGATTTGTCTCGCTTGAGACGGTTTTTACTCGAAACAAGAAGATTTATTTCACTCAAGATGTTT
TTCTCAAAAAAC
Found at i:1585367 original size:76 final size:77
Alignment explanation
Indices: 1585160--1585383 Score: 290
Period size: 76 Copynumber: 2.9 Consensus size: 77
1585150 CTCGAAACAT
* * *
1585160 AAGATTTGTCTCACTTGAGACAGATTTTACTCGAAACAAGAAGATTTATTTCACTCAAGATCGTT
1 AAGATTTGTCTCGCTTGAGACGGTTTTTACTCGAAACAAGAAGATTTATTTCACTCAAGAT--TT
*
1585225 TTTCTCAAAAAAAAC
64 TTTTTC-AAAAAAAC
* *
1585240 AAGATTTATCTCGCTTGAGACGGTTTTTACTCGAAACAAGAAGATTTATTTCTCTCAAGATTTTT
1 AAGATTTGTCTCGCTTGAGACGGTTTTTACTCGAAACAAGAAGATTTATTTCACTCAAGATTTTT
**
1585305 TTTC-TTAAAAC
66 TTTCAAAAAAAC
* * * *
1585316 AAGATTTGTCTCGCTTGATACGGTTTTTACTCGAAATAAG-ATATTTCATTTCACTCAAGATTGT
1 AAGATTTGTCTCGCTTGAGACGGTTTTTACTCGAAACAAGAAGATTT-ATTTCACTCAAGATTTT
1585380 TTTT
65 TTTT
1585384 AAATAATATT
Statistics
Matches: 129, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
75 5 0.04
76 61 0.47
78 7 0.05
80 56 0.43
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (77 bp):
AAGATTTGTCTCGCTTGAGACGGTTTTTACTCGAAACAAGAAGATTTATTTCACTCAAGATTTTT
TTTCAAAAAAAC
Found at i:1585540 original size:345 final size:345
Alignment explanation
Indices: 1584828--1585543 Score: 1009
Period size: 345 Copynumber: 2.1 Consensus size: 345
1584818 AAAGACTTTG
* * * * * *
1584828 TCTCACTTGAGACAG-TTTTACTCGAAAGAAG-ACATTTCATATGACTCAAGATTGTTTTTCT--
1 TCTCACTTGAGACAGATTTCACTCGAAACAAGAAGATTT-ATTTCACTCAAGATCGTTTTTCTCA
* *
1584889 --TAAAACAAGATTTATCTCGCTTGAGACATTTTTTACTCAAAACAAGAAGATTTATTTCACTCA
65 AAAAAAACAAGATTTATCTCGCTTGAGACAGTTTTTACTCAAAACAAGAAGATTTATTTCACTCA
1584952 AGATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACAATTTTTACTCGAAAGAAGACATTT
130 AGATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACAATTTTTACTCGAAAGAAGACATTT
* * *
1585017 CATTTCACTCAAGATTGTTTTTAAAGAAGAATTTATCTCTCTTGAGATAGTTTCCCTTGAAACAA
195 CATTTCACTCAAGATTGTTTTTAAAGAAGAATTTATCTCGCTTGAGATAGTATCCCTCGAAACAA
* * * *
1585082 AATATTTTATCTTGTTTGAGATAGTTTCCCTCGAAACAGAAGATTTTATCTCGCTTGAGATAGTT
260 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAAAAGATTTTATCTCGCTTGAGATAGTT
* *
1585147 TCCCTCGAAACATAAGATTTG
325 TCCCTCGAAACATAAAATTTA
*
1585168 TCTCACTTGAGACAGATTTTACTCGAAACAAGAAGATTTATTTCACTCAAGATCGTTTTTCTCAA
1 TCTCACTTGAGACAGATTTCACTCGAAACAAGAAGATTTATTTCACTCAAGATCGTTTTTCTCAA
* * *
1585233 AAAAAACAAGATTTATCTCGCTTGAGACGGTTTTTACTCGAAACAAGAAGATTTATTTCTCTCAA
66 AAAAAACAAGATTTATCTCGCTTGAGACAGTTTTTACTCAAAACAAGAAGATTTATTTCACTCAA
* * ** * *
1585298 GATTTTTTTTCTTAAAACAAGATTTGTCTCGCTTGATACGGTTTTTACTCGAAATAAGATATTTC
131 GATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACAATTTTTACTCGAAAGAAGACATTTC
* * * *
1585363 ATTTCACTCAAGATTGTTTTTAAATAATATTTTATCTCGCTTGAGATAGTATCCCTCGAAACATA
196 ATTTCACTCAAGATTGTTTTTAAAGAAGAATTTATCTCGCTTGAGATAGTATCCCTCGAAACAAA
* *
1585428 AGATTTTGTCTCGCTTGAGGTAGTTTCCCTCGAAACAAAAGATTTTATCTCGCTTGAGATTA-TT
261 AGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAAAAGATTTTATCTCGCTTGAGA-TAGTT
*
1585492 TCCCTTGAAACATAAAATTTTA
325 TCCCTCGAAACATAAAA-TTTA
* *
1585514 TCT-AGCTTGAGATAG-TTTCGCTCGAAACAA
1 TCTCA-CTTGAGACAGATTTCACTCGAAACAA
1585544 AATATTTTAT
Statistics
Matches: 332, Mismatches: 35, Indels: 13
0.87 0.09 0.03
Matches are distributed among these distances:
340 15 0.05
341 35 0.11
342 5 0.02
345 260 0.78
346 17 0.05
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.38
Consensus pattern (345 bp):
TCTCACTTGAGACAGATTTCACTCGAAACAAGAAGATTTATTTCACTCAAGATCGTTTTTCTCAA
AAAAAACAAGATTTATCTCGCTTGAGACAGTTTTTACTCAAAACAAGAAGATTTATTTCACTCAA
GATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACAATTTTTACTCGAAAGAAGACATTTC
ATTTCACTCAAGATTGTTTTTAAAGAAGAATTTATCTCGCTTGAGATAGTATCCCTCGAAACAAA
AGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAAAAGATTTTATCTCGCTTGAGATAGTTT
CCCTCGAAACATAAAATTTA
Found at i:1585806 original size:41 final size:42
Alignment explanation
Indices: 1585711--1585813 Score: 138
Period size: 42 Copynumber: 2.5 Consensus size: 42
1585701 TATGAGTAAG
* *
1585711 TCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATTCTTAAA
1 TCCTTCGGGCCATCAATAAGTCTTTCGAGCAAGATTCTTAAA
* *
1585753 TCCTTCGAGCCAT-ATATAAGTCTTTCGAGCAAGA-TGTTAAA
1 TCCTTCGGGCCATCA-ATAAGTCTTTCGAGCAAGATTCTTAAA
*
1585794 TCCTTCGGGCCATCCATAAG
1 TCCTTCGGGCCATCAATAAG
1585814 ACCTTCGGGC
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
41 24 0.45
42 29 0.55
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.31
Consensus pattern (42 bp):
TCCTTCGGGCCATCAATAAGTCTTTCGAGCAAGATTCTTAAA
Found at i:1585830 original size:41 final size:40
Alignment explanation
Indices: 1585711--1585831 Score: 134
Period size: 41 Copynumber: 2.9 Consensus size: 40
1585701 TATGAGTAAG
* *
1585711 TCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATTCTTAAA
1 TCCTTCGGGCCATCA-TAAGTCTTTCGAGCAAGA-TGTTAAA
* *
1585753 TCCTTCGAGCCATATATAAGTCTTTCGAGCAAGATGTTAAA
1 TCCTTCGGGCCAT-CATAAGTCTTTCGAGCAAGATGTTAAA
* * * *
1585794 TCCTTCGGGCCATCCATAAGACCTTCGGGCAGGATGTT
1 TCCTTCGGGCCAT-CATAAGTCTTTCGAGCAAGATGTT
1585832 TTCAACATTT
Statistics
Matches: 67, Mismatches: 11, Indels: 3
0.83 0.14 0.04
Matches are distributed among these distances:
41 37 0.55
42 29 0.43
43 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.31
Consensus pattern (40 bp):
TCCTTCGGGCCATCATAAGTCTTTCGAGCAAGATGTTAAA
Found at i:1588283 original size:76 final size:76
Alignment explanation
Indices: 1588123--1588287 Score: 208
Period size: 76 Copynumber: 2.2 Consensus size: 76
1588113 ACTCAGAGGC
* * *
1588123 TACCGATTCCCCCTGAAAGGTTTTGGATCCGAGAAATAACAGTTTACTCATAGGGTACCGATTCC
1 TACCGATTCCCCCTGAAAGGTTTTAGATCCGAGAAATAACAGATTACTCAGAGGGTACCGATTCC
1588188 CTCAAACAGGG
66 CTCAAACAGGG
* * * * * * *
1588199 AACTGATTCCCCCTGAATGGTTTTAGCTCTGAGAAATAAGAGATTACTCGGAGGGTACCGATTCC
1 TACCGATTCCCCCTGAAAGGTTTTAGATCCGAGAAATAACAGATTACTCAGAGGGTACCGATTCC
1588264 C-C-AACAGGGGG
66 CTCAAACA--GGG
1588275 TACCGATTCCCCC
1 TACCGATTCCCCC
1588288 CTGTGTAAAG
Statistics
Matches: 75, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
74 4 0.05
75 1 0.01
76 70 0.93
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.24
Consensus pattern (76 bp):
TACCGATTCCCCCTGAAAGGTTTTAGATCCGAGAAATAACAGATTACTCAGAGGGTACCGATTCC
CTCAAACAGGG
Found at i:1594075 original size:23 final size:23
Alignment explanation
Indices: 1594032--1594077 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 23
1594022 TGAATTTTAG
1594032 TGCAGGAGGAATCGATACCCCCT
1 TGCAGGAGGAATCGATACCCCCT
*
1594055 TGCAGG-GGAATCGATTCCCCCT
1 TGCAGGAGGAATCGATACCCCCT
1594077 T
1 T
1594078 TGAATGGGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.22, C:0.30, G:0.26, T:0.22
Consensus pattern (23 bp):
TGCAGGAGGAATCGATACCCCCT
Found at i:1594086 original size:23 final size:21
Alignment explanation
Indices: 1594039--1594118 Score: 67
Period size: 23 Copynumber: 3.7 Consensus size: 21
1594029 TAGTGCAGGA
1594039 GGAATCGATACCCCC-TTGCAGG
1 GGAATCGATACCCCCTTTG-A-G
*
1594061 GGAATCGATTCCCCCTTTGAATG
1 GGAATCGATACCCCCTTTG-A-G
* *
1594084 GGAA-CTAATTCCCCCTTT-AG
1 GGAATC-GATACCCCCTTTGAG
1594104 GGAATCGATACCCCC
1 GGAATCGATACCCCC
1594119 CACGGGGTCT
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
20 12 0.24
21 2 0.04
22 15 0.31
23 20 0.41
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (21 bp):
GGAATCGATACCCCCTTTGAG
Found at i:1594594 original size:13 final size:13
Alignment explanation
Indices: 1594575--1594609 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
1594565 ACGTATATTG
*
1594575 ATTTTCAAACCTT
1 ATTTTCAAACCTA
*
1594588 GTTTTCAAACCTA
1 ATTTTCAAACCTA
1594601 ATTTTCAAA
1 ATTTTCAAA
1594610 ATTACCCATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.34, C:0.20, G:0.03, T:0.43
Consensus pattern (13 bp):
ATTTTCAAACCTA
Found at i:1596491 original size:19 final size:20
Alignment explanation
Indices: 1596454--1596491 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
1596444 TGTGTTAATG
*
1596454 AATTTTAAGATTTTATATTA
1 AATTTTAAGATTATATATTA
1596474 AATTTTAA-ATTATATATT
1 AATTTTAAGATTATATATT
1596492 CGATTAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (20 bp):
AATTTTAAGATTATATATTA
Found at i:1596711 original size:21 final size:21
Alignment explanation
Indices: 1596685--1596724 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1596675 CAGTTTACTC
* *
1596685 ATAGGGTATCGATTCCCCCCA
1 ATAGGGAACCGATTCCCCCCA
1596706 ATAGGGAACCGATTCCCCC
1 ATAGGGAACCGATTCCCCC
1596725 TTAATGGTTT
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:0.25, C:0.35, G:0.20, T:0.20
Consensus pattern (21 bp):
ATAGGGAACCGATTCCCCCCA
Found at i:1596767 original size:76 final size:76
Alignment explanation
Indices: 1596632--1596779 Score: 206
Period size: 76 Copynumber: 1.9 Consensus size: 76
1596622 GTTTACTCAG
* * * * * *
1596632 AGGGTACCGATTCCCCCTGAAAGGTTTTGGCTCCGAGAAATAACAGTTTACTCATAGGGTATCGA
1 AGGGAACCGATTCCCCCTGAAAGGTTTTGGCTCCAAGAAATAACAGATCACTCAGAGGGTACCGA
1596697 TTCCCCCCAAT
66 TTCCCCCCAAT
* * * *
1596708 AGGGAACCGATTCCCCCTTAATGGTTTTGGCTCCAAGAAATAATAGATCACTCGGAGGGTACCGA
1 AGGGAACCGATTCCCCCTGAAAGGTTTTGGCTCCAAGAAATAACAGATCACTCAGAGGGTACCGA
1596773 TTCCCCC
66 TTCCCCC
1596780 TGTGTAACGG
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
76 62 1.00
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (76 bp):
AGGGAACCGATTCCCCCTGAAAGGTTTTGGCTCCAAGAAATAACAGATCACTCAGAGGGTACCGA
TTCCCCCCAAT
Found at i:1598269 original size:15 final size:15
Alignment explanation
Indices: 1598249--1598319 Score: 81
Period size: 15 Copynumber: 4.7 Consensus size: 15
1598239 TCGACAGTGA
1598249 TGAATAAGGT-GTGTG
1 TGAATAAGGTGGTG-G
** *
1598264 TGAATAAGACGGTGA
1 TGAATAAGGTGGTGG
1598279 TGAATAAGGTGGTGG
1 TGAATAAGGTGGTGG
*
1598294 TGAATAAGATGGTGG
1 TGAATAAGGTGGTGG
*
1598309 TGGATAAGGTG
1 TGAATAAGGTG
1598320 ACTTCTCTTT
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
15 43 0.93
16 3 0.07
ACGTcount: A:0.31, C:0.01, G:0.41, T:0.27
Consensus pattern (15 bp):
TGAATAAGGTGGTGG
Found at i:1598281 original size:30 final size:30
Alignment explanation
Indices: 1598245--1598319 Score: 107
Period size: 30 Copynumber: 2.5 Consensus size: 30
1598235 GGTGTCGACA
1598245 GTGATGAATAAGGT-GTGTGTGAATAAGACG
1 GTGATGAATAAGGTGGTG-GTGAATAAGACG
*
1598275 GTGATGAATAAGGTGGTGGTGAATAAGATG
1 GTGATGAATAAGGTGGTGGTGAATAAGACG
* *
1598305 GTGGTGGATAAGGTG
1 GTGATGAATAAGGTG
1598320 ACTTCTCTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
30 38 0.93
31 3 0.07
ACGTcount: A:0.31, C:0.01, G:0.41, T:0.27
Consensus pattern (30 bp):
GTGATGAATAAGGTGGTGGTGAATAAGACG
Found at i:1598401 original size:15 final size:15
Alignment explanation
Indices: 1598375--1598470 Score: 156
Period size: 15 Copynumber: 6.4 Consensus size: 15
1598365 TTTCCTTATT
*
1598375 TGGTGGTAAATAAGA
1 TGGTGGTGAATAAGA
* *
1598390 TGGTGATGAATAAGG
1 TGGTGGTGAATAAGA
1598405 TGGTGGTGAATAAGA
1 TGGTGGTGAATAAGA
1598420 TGGTGGTGAATAAGA
1 TGGTGGTGAATAAGA
1598435 TGGTGGTGAATAAGA
1 TGGTGGTGAATAAGA
*
1598450 TGGTTGTGAATAAGA
1 TGGTGGTGAATAAGA
1598465 TGGTGG
1 TGGTGG
1598471 ATAAGGTGAC
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 74 1.00
ACGTcount: A:0.32, C:0.00, G:0.40, T:0.28
Consensus pattern (15 bp):
TGGTGGTGAATAAGA
Found at i:1598542 original size:147 final size:145
Alignment explanation
Indices: 1598396--1598683 Score: 366
Period size: 147 Copynumber: 2.0 Consensus size: 145
1598386 AAGATGGTGA
* * * * * * * * *
1598396 TGAATAAGGTGGTGGTGAATAAGATG-GTGGTGAATAAGATGGTGGTGAATAAGATGGTTGTGAA
1 TGAATAAGATGCTGATGAATAAGATGTGT-GTAAATAAGACGGTGATGAATAAGATGATGGAGAA
** **
1598460 TAAGAT-GGTGGATAAGGTGACTTCT-CTTTGGGTTTCTCATACTTTGGTGATTTGTATTTGTGT
65 TAAGATAGGTGGATAAGGTGACTT-TGCTTTGGGTTTCTCATACTTCCGTGATTTGTATTCATGT
1598523 TTTTCCTTCTTTGGGGG
129 TTTTCCTTCTTTGGGGG
* * *
1598540 TGAATAAGATGCTGATGAATAAGGTGTGTGTAAATAAGGCGGTGATGAATAAGGTGATGGAGAAT
1 TGAATAAGATGCTGATGAATAAGATGTGTGTAAATAAGACGGTGATGAATAAGATGATGGAGAAT
1598605 AAGATGAAGGTGGATAAGGTGACTTTGCTTTGGGTTTCTCATACTTCCGTGATTTGTATTCATGT
66 AAGAT--AGGTGGATAAGGTGACTTTGCTTTGGGTTTCTCATACTTCCGTGATTTGTATTCATGT
*
1598670 TTTTCCTTTTTTGG
129 TTTTCCTTCTTTGG
1598684 TGGTTTGTAT
Statistics
Matches: 122, Mismatches: 17, Indels: 7
0.84 0.12 0.05
Matches are distributed among these distances:
144 55 0.45
145 2 0.02
146 1 0.01
147 64 0.52
ACGTcount: A:0.24, C:0.07, G:0.31, T:0.38
Consensus pattern (145 bp):
TGAATAAGATGCTGATGAATAAGATGTGTGTAAATAAGACGGTGATGAATAAGATGATGGAGAAT
AAGATAGGTGGATAAGGTGACTTTGCTTTGGGTTTCTCATACTTCCGTGATTTGTATTCATGTTT
TTCCTTCTTTGGGGG
Found at i:1598546 original size:159 final size:158
Alignment explanation
Indices: 1598249--1598683 Score: 502
Period size: 159 Copynumber: 2.8 Consensus size: 158
1598239 TCGACAGTGA
* * *
1598249 TGAATAAGGT-GTGTGTGAATAAGACGGTGATGAATAAGGTGGTGGTGAATAAGATGGTGGTGGA
1 TGAATAAGGTGGTG-GTGAATAAGATGGTGGTGAATAAGATGGT-GTGAATAAGA---TGGTGGA
* * *
1598313 TAAGGTGACTTCTCTTTGGGTTACTCATACTTTGGCGATTTGTATTCGTGGTTTTCCTTATTTGG
61 TAAGGTGACTTCTCTTTGGGTTTCTCATACTTTGGTGATTTGTATTCGTGTTTTTCCTTATTTGG
* *
1598378 TGGTAAATAAGATGGTGATGAATAAGGTG-GTGG
126 GGGTAAATAAGATGCTGATGAATAAGGTGTGT-G
*
1598411 TGAATAAGATGGTGGTGAATAAGATGGTGGTGAATAAGATGGTTGTGAATAAGATGGTGGATAAG
1 TGAATAAGGTGGTGGTGAATAAGATGGTGGTGAATAAGATGG-TGTGAATAAGATGGTGGATAAG
* *
1598476 GTGACTTCTCTTTGGGTTTCTCATACTTTGGTGATTTGTATTTGTGTTTTTCCTTCTTTGGGGGT
65 GTGACTTCTCTTTGGGTTTCTCATACTTTGGTGATTTGTATTCGTGTTTTTCCTTATTTGGGGGT
*
1598541 GAATAAGATGCTGATGAATAAGGTGTGTG
130 AAATAAGATGCTGATGAATAAGGTGTGTG
* * * * * *
1598570 TAAATAAGGCGGTGATGAATAAGGTGATGGAGAATAAGA-----TG----A-A-GGTGGATAAGG
1 TGAATAAGGTGGTGGTGAATAAGATGGTGGTGAATAAGATGGTGTGAATAAGATGGTGGATAAGG
** * *
1598624 TGACTT-TGCTTTGGGTTTCTCATACTTCCGTGATTTGTATTCATGTTTTTCCTTTTTTGG
66 TGACTTCT-CTTTGGGTTTCTCATACTTTGGTGATTTGTATTCGTGTTTTTCCTTATTTGG
1598684 TGGTTTGTAT
Statistics
Matches: 245, Mismatches: 24, Indels: 23
0.84 0.08 0.08
Matches are distributed among these distances:
146 1 0.00
147 64 0.26
148 1 0.00
149 1 0.00
153 2 0.01
159 126 0.51
160 2 0.01
162 44 0.18
163 4 0.02
ACGTcount: A:0.24, C:0.07, G:0.31, T:0.37
Consensus pattern (158 bp):
TGAATAAGGTGGTGGTGAATAAGATGGTGGTGAATAAGATGGTGTGAATAAGATGGTGGATAAGG
TGACTTCTCTTTGGGTTTCTCATACTTTGGTGATTTGTATTCGTGTTTTTCCTTATTTGGGGGTA
AATAAGATGCTGATGAATAAGGTGTGTG
Found at i:1598590 original size:15 final size:16
Alignment explanation
Indices: 1598552--1598593 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
1598542 AATAAGATGC
*
1598552 TGATGAATAAGGTGTG
1 TGATGAATAAGGCGTG
*
1598568 TG-TAAATAAGGCG-G
1 TGATGAATAAGGCGTG
1598582 TGATGAATAAGG
1 TGATGAATAAGG
1598594 TGATGGAGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
14 3 0.14
15 17 0.77
16 2 0.09
ACGTcount: A:0.36, C:0.02, G:0.36, T:0.26
Consensus pattern (16 bp):
TGATGAATAAGGCGTG
Found at i:1599727 original size:3 final size:3
Alignment explanation
Indices: 1599719--1599757 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
1599709 TACATTAATT
1599719 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1599758 AATGGCGGGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1601338 original size:30 final size:30
Alignment explanation
Indices: 1601298--1601389 Score: 114
Period size: 30 Copynumber: 3.1 Consensus size: 30
1601288 TTTCGTTCTT
*
1601298 TGGTGGTGAATAAGGT-GTGTCTGAATAAGG
1 TGGTGGTGAATAAGGTGGTG-ATGAATAAGG
*
1601328 TGGTGATGAATAAGGTGGTGATGAATAAGG
1 TGGTGGTGAATAAGGTGGTGATGAATAAGG
* * * *
1601358 TGGTGGTGAATAAGATGGGGGTGGATAAGG
1 TGGTGGTGAATAAGGTGGTGATGAATAAGG
1601388 TG
1 TG
1601390 ACTTCTCTTT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
30 51 0.94
31 3 0.06
ACGTcount: A:0.28, C:0.01, G:0.43, T:0.27
Consensus pattern (30 bp):
TGGTGGTGAATAAGGTGGTGATGAATAAGG
Found at i:1601368 original size:45 final size:45
Alignment explanation
Indices: 1601298--1601389 Score: 114
Period size: 45 Copynumber: 2.0 Consensus size: 45
1601288 TTTCGTTCTT
* * *
1601298 TGGTGGTGAATAAGGTGTGTCTGAATAAGGTGGTGATGAATAAGG
1 TGGTGATGAATAAGGTGTGTCTGAATAAGATGGGGATGAATAAGG
* * *
1601343 TGGTGATGAATAAGGTG-GTGGTGAATAAGATGGGGGTGGATAAGG
1 TGGTGATGAATAAGGTGTGT-CTGAATAAGATGGGGATGAATAAGG
1601388 TG
1 TG
1601390 ACTTCTCTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
44 2 0.05
45 38 0.95
ACGTcount: A:0.28, C:0.01, G:0.43, T:0.27
Consensus pattern (45 bp):
TGGTGATGAATAAGGTGTGTCTGAATAAGATGGGGATGAATAAGG
Found at i:1601380 original size:15 final size:15
Alignment explanation
Indices: 1601298--1601371 Score: 105
Period size: 15 Copynumber: 4.9 Consensus size: 15
1601288 TTTCGTTCTT
*
1601298 TGGTGGTGAATAAGG
1 TGGTGATGAATAAGG
*
1601313 T-GTGTCTGAATAAGG
1 TGGTG-ATGAATAAGG
1601328 TGGTGATGAATAAGG
1 TGGTGATGAATAAGG
1601343 TGGTGATGAATAAGG
1 TGGTGATGAATAAGG
*
1601358 TGGTGGTGAATAAG
1 TGGTGATGAATAAG
1601372 ATGGGGGTGG
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
14 3 0.06
15 48 0.89
16 3 0.06
ACGTcount: A:0.30, C:0.01, G:0.41, T:0.28
Consensus pattern (15 bp):
TGGTGATGAATAAGG
Found at i:1601385 original size:15 final size:15
Alignment explanation
Indices: 1601319--1601386 Score: 55
Period size: 15 Copynumber: 4.5 Consensus size: 15
1601309 AAGGTGTGTC
* * *
1601319 TGAATAAGGTGGTGA
1 TGAATAAGATGGGGG
* * *
1601334 TGAATAAGGTGGTGA
1 TGAATAAGATGGGGG
* *
1601349 TGAATAAGGTGGTGG
1 TGAATAAGATGGGGG
1601364 TGAATAAGATGGGGG
1 TGAATAAGATGGGGG
*
1601379 TGGATAAG
1 TGAATAAG
1601387 GTGACTTCTC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 49 1.00
ACGTcount: A:0.32, C:0.00, G:0.43, T:0.25
Consensus pattern (15 bp):
TGAATAAGATGGGGG
Found at i:1601389 original size:147 final size:147
Alignment explanation
Indices: 1601211--1601598 Score: 564
Period size: 147 Copynumber: 2.6 Consensus size: 147
1601201 TCTCATATTT
* * * *
1601211 TGGTGGCGAATAAGATGGTGATGAACAAGGTGACTTCTCTTTGGGTTTCTCATACTTTGGCGATT
1 TGGTGGTGAATAAGATGGTGGTGGATAAGGTGACTTCTCTTTGGGTTTCTCATACTTTGGCGATT
* * *
1601276 TGTATTCGTGTTTTTCGTTCTTTGGTGGTGAATAAGGT-GTGTCTGAATAAGGTG-GTGATGAAT
66 TGTATTCGTGTTTTTCCTTCTTTGGTGGTGAATAAGATGGTG-ATGAATAAGGTGTGT-ATGAAT
*
1601339 AAGGTGGTGATGAATAAGG
129 AAGGCGGTGATGAATAAGG
* *
1601358 TGGTGGTGAATAAGATGGGGGTGGATAAGGTGACTTCTCTTTAGGTTTCTCATACTTTGGCGATT
1 TGGTGGTGAATAAGATGGTGGTGGATAAGGTGACTTCTCTTTGGGTTTCTCATACTTTGGCGATT
* * *
1601423 TGTATTCATTTTTTTCCTTCTTTGGTGGTGAATAAGATGGTGATGAATAAGGTGTGTCTGAATAA
66 TGTATTCGTGTTTTTCCTTCTTTGGTGGTGAATAAGATGGTGATGAATAAGGTGTGTATGAATAA
*
1601488 GGCGGTGGTGAATAAGG
131 GGCGGTGATGAATAAGG
* * * *
1601505 TGATGATGAATAAGATGGTGGTGGATAAGGTGACTTCTCTTTGGGTTTCTCATACTTCGGTGATT
1 TGGTGGTGAATAAGATGGTGGTGGATAAGGTGACTTCTCTTTGGGTTTCTCATACTTTGGCGATT
* *
1601570 TGTATTTGTGTTTTTCCTTTTTTGGTGGT
66 TGTATTCGTGTTTTTCCTTCTTTGGTGGT
1601599 TTGTATTCGG
Statistics
Matches: 215, Mismatches: 24, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
147 210 0.98
148 5 0.02
ACGTcount: A:0.21, C:0.09, G:0.31, T:0.39
Consensus pattern (147 bp):
TGGTGGTGAATAAGATGGTGGTGGATAAGGTGACTTCTCTTTGGGTTTCTCATACTTTGGCGATT
TGTATTCGTGTTTTTCCTTCTTTGGTGGTGAATAAGATGGTGATGAATAAGGTGTGTATGAATAA
GGCGGTGATGAATAAGG
Found at i:1601469 original size:15 final size:15
Alignment explanation
Indices: 1601445--1601536 Score: 87
Period size: 15 Copynumber: 6.1 Consensus size: 15
1601435 TTTCCTTCTT
* *
1601445 TGGTGGTGAATAAGA
1 TGGTGATGAATAAGG
1601460 TGGTGATGAATAAGG
1 TGGTGATGAATAAGG
*
1601475 T-GTGTCTGAATAAGG
1 TGGTG-ATGAATAAGG
* *
1601490 CGGTGGTGAATAAGG
1 TGGTGATGAATAAGG
* *
1601505 TGATGATGAATAAGA
1 TGGTGATGAATAAGG
* *
1601520 TGGTGGTGGATAAGG
1 TGGTGATGAATAAGG
1601535 TG
1 TG
1601537 ACTTCTCTTT
Statistics
Matches: 62, Mismatches: 13, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
14 3 0.05
15 56 0.90
16 3 0.05
ACGTcount: A:0.30, C:0.02, G:0.40, T:0.27
Consensus pattern (15 bp):
TGGTGATGAATAAGG
Done.