Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold780
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: 177408
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33
Found at i:3326 original size:8 final size:8
Alignment explanation
Indices: 3313--3338 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
3303 ATTTGATTAA
3313 ATTTTGTG
1 ATTTTGTG
3321 ATTTTGTG
1 ATTTTGTG
3329 ATTTTGTG
1 ATTTTGTG
3337 AT
1 AT
3339 GAATGATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.23, T:0.62
Consensus pattern (8 bp):
ATTTTGTG
Found at i:3724 original size:20 final size:20
Alignment explanation
Indices: 3689--3729 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
3679 CAAATTTCTT
3689 GTTTTTCACTTCAAAATACATC
1 GTTTTTCAC-TCAAAAT-CATC
3711 GTTTTTCA-TCAAAATCATC
1 GTTTTTCACTCAAAATCATC
3730 AACAAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 7 0.37
22 8 0.42
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (20 bp):
GTTTTTCACTCAAAATCATC
Found at i:5906 original size:20 final size:20
Alignment explanation
Indices: 5881--5931 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
5871 ACCCTAAAAA
*
5881 GTATCGATACACATTTAAAT
1 GTATCGATACACATTGAAAT
* * *
5901 GTATCGATACAGATTGCATT
1 GTATCGATACACATTGAAAT
5921 GTATCGATACA
1 GTATCGATACA
5932 TTCTATCGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (20 bp):
GTATCGATACACATTGAAAT
Found at i:5960 original size:20 final size:21
Alignment explanation
Indices: 5935--5985 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
5925 CGATACATTC
**
5935 TATCGATACATGACCA-AATG
1 TATCGATACATGAAAATAATG
*
5955 TATCGATACTTGAAAATAATG
1 TATCGATACATGAAAATAATG
5976 TATCGATACA
1 TATCGATACA
5986 AGTCATTGGC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 13 0.50
21 13 0.50
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.29
Consensus pattern (21 bp):
TATCGATACATGAAAATAATG
Found at i:10271 original size:13 final size:13
Alignment explanation
Indices: 10253--10277 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10243 TACTATGAAC
10253 ATGTATCGATACA
1 ATGTATCGATACA
10266 ATGTATCGATAC
1 ATGTATCGATAC
10278 TAAGCAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:10271 original size:32 final size:33
Alignment explanation
Indices: 10235--10298 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
10225 CTTTTCAAGG
* *
10235 TGTATCGATACTATG-AACATGTATCGATACAA
1 TGTATCGATACTAAGCAACATATATCGATACAA
*
10267 TGTATCGATACTAAGCAATATATATCGATACA
1 TGTATCGATACTAAGCAACATATATCGATACA
10299 TCTTGGTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.50
33 14 0.50
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (33 bp):
TGTATCGATACTAAGCAACATATATCGATACAA
Found at i:17914 original size:21 final size:22
Alignment explanation
Indices: 17889--17935 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
17879 GATACTTTGG
*
17889 ATTATTTTTA-CTTGAAAACAT
1 ATTATTTATAGCTTGAAAACAT
17910 ATTATTTATAGCTTGAAAACAT
1 ATTATTTATAGCTTGAAAACAT
17932 -TTAT
1 ATTAT
17936 ACTTAACTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 13 0.54
22 11 0.46
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (22 bp):
ATTATTTATAGCTTGAAAACAT
Found at i:19554 original size:33 final size:33
Alignment explanation
Indices: 19517--19583 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
19507 TTCAATGATT
19517 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
19550 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
19583 T
1 T
19584 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:19555 original size:13 final size:13
Alignment explanation
Indices: 19537--19561 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19527 CATAAAATGT
19537 TGTATCGATACAA
1 TGTATCGATACAA
19550 TGTATCGATACA
1 TGTATCGATACA
19562 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:19643 original size:13 final size:13
Alignment explanation
Indices: 19625--19649 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19615 ATTACTCAAA
19625 TGTATCGATACAT
1 TGTATCGATACAT
19638 TGTATCGATACA
1 TGTATCGATACA
19650 CCGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:19714 original size:52 final size:52
Alignment explanation
Indices: 19658--19778 Score: 215
Period size: 52 Copynumber: 2.3 Consensus size: 52
19648 CACCGATCTT
*
19658 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
19710 TGTATCGATACATGCAAGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
19762 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
19779 ATAAATTTTC
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:23070 original size:8 final size:8
Alignment explanation
Indices: 23057--23086 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
23047 GAAAATAGAT
*
23057 TATATGTG
1 TATATGTA
23065 TATATGTA
1 TATATGTA
23073 TATATGTA
1 TATATGTA
23081 TATATG
1 TATATG
23087 AAAATATTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (8 bp):
TATATGTA
Found at i:24293 original size:19 final size:19
Alignment explanation
Indices: 24246--24293 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
24236 AATTAATCAT
*
24246 ACAAATTAAAAAATATAAC
1 ACAATTTAAAAAATATAAC
* *
24265 ACAATATAAAAAATATTAAT
1 ACAATTTAAAAAATA-TAAC
24285 A-AATTTAAA
1 ACAATTTAAA
24294 TATATTAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 20 0.83
20 4 0.17
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (19 bp):
ACAATTTAAAAAATATAAC
Found at i:26139 original size:51 final size:51
Alignment explanation
Indices: 26082--26184 Score: 188
Period size: 51 Copynumber: 2.0 Consensus size: 51
26072 CATAAAGAAA
26082 AGTTTAAAATTTAAAAAAAATTCAAAAAGAATAGGATTGAAGTGTCCCTTG
1 AGTTTAAAATTTAAAAAAAATTCAAAAAGAATAGGATTGAAGTGTCCCTTG
* *
26133 AGTTTAAAATTTAAAAAAAATTCAAAAAGAATAGGGTTGAAGTGTCTCTTG
1 AGTTTAAAATTTAAAAAAAATTCAAAAAGAATAGGATTGAAGTGTCCCTTG
26184 A
1 A
26185 AATACGAGGT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.47, C:0.07, G:0.17, T:0.30
Consensus pattern (51 bp):
AGTTTAAAATTTAAAAAAAATTCAAAAAGAATAGGATTGAAGTGTCCCTTG
Found at i:26395 original size:80 final size:79
Alignment explanation
Indices: 26290--26520 Score: 216
Period size: 80 Copynumber: 2.9 Consensus size: 79
26280 TGAAAATTGG
* *
26290 GGTTGGAGTATC-CCTTC-GAAGATGATGGTGTTGGAGTATCCTCGATGGTGAAAAATTCGATAT
1 GGTTGGAGTATCTCC-TCAGAA-ATGATGG-GTTGGAGTATCCCCGATGATGAAAAATTCGATAT
* **
26353 TTTGGAAGTAAAAATGA
63 TTTGGAAATAAAAAACA
** * *
26370 GGTTGGAGTATCTCCTCAGAAATGATAGGGTTAAAGTATCCCCGATGATGAAAAA-TCAAAATTT
1 GGTTGGAGTATCTCCTCAGAAATGAT-GGGTTGGAGTATCCCCGATGATGAAAAATTCGATATTT
*
26434 TGAAAATAAAAAACA
65 TGGAAATAAAAAACA
* * * ** * * *
26449 GGATTAGAGTATTTCTTCAGAAATGGCGGGGTTGGAGTATCCCCAAAGATGGAAAATTCGATATT
1 GG-TTGGAGTATCTCCTCAGAAAT-GATGGGTTGGAGTATCCCCGATGATGAAAAATTCGATA-T
26514 TTTGGAA
63 TTTGGAA
26521 TGAAATAATA
Statistics
Matches: 121, Mismatches: 23, Indels: 12
0.78 0.15 0.08
Matches are distributed among these distances:
79 20 0.17
80 82 0.68
81 12 0.10
82 7 0.06
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.29
Consensus pattern (79 bp):
GGTTGGAGTATCTCCTCAGAAATGATGGGTTGGAGTATCCCCGATGATGAAAAATTCGATATTTT
GGAAATAAAAAACA
Found at i:28891 original size:51 final size:52
Alignment explanation
Indices: 28773--28908 Score: 184
Period size: 51 Copynumber: 2.6 Consensus size: 52
28763 AATAGCCTAC
** * *
28773 ATGTATCGATACGTTGAAGAATGTATCGATATATTTGGGTCAAAAATCTAGA
1 ATGTATCGATACAATGAAGAATGTATCGATACATTTAGGTCAAAAATCTAGA
* * *
28825 ATGTATCAATACAATGAAGAATGCATCGATACATTTAGGTC-AAAATTTAGA
1 ATGTATCGATACAATGAAGAATGTATCGATACATTTAGGTCAAAAATCTAGA
* *
28876 ATGTATTGATACAATGAAAAATGTATCGATACA
1 ATGTATCGATACAATGAAGAATGTATCGATACA
28909 ATTTCTTTCC
Statistics
Matches: 73, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
51 38 0.52
52 35 0.48
ACGTcount: A:0.41, C:0.10, G:0.18, T:0.31
Consensus pattern (52 bp):
ATGTATCGATACAATGAAGAATGTATCGATACATTTAGGTCAAAAATCTAGA
Found at i:29353 original size:16 final size:15
Alignment explanation
Indices: 29318--29374 Score: 51
Period size: 16 Copynumber: 3.6 Consensus size: 15
29308 TCATAGCCAA
* *
29318 TGTTCAAAACAATTGT
1 TGTTCAAAACAACT-C
29334 TGTTCAAAACAACTAC
1 TGTTCAAAACAACT-C
* *
29350 TGTTCAGAATAACTC
1 TGTTCAAAACAACTC
29365 TAGTTCAAAA
1 T-GTTCAAAA
29375 TAGCTTTTGT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
15 2 0.06
16 32 0.94
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.32
Consensus pattern (15 bp):
TGTTCAAAACAACTC
Found at i:29376 original size:16 final size:16
Alignment explanation
Indices: 29334--29376 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
29324 AAACAATTGT
*
29334 TGTTCAAAACAACTAC
1 TGTTCAAAATAACTAC
*
29350 TGTTCAGAATAACT-C
1 TGTTCAAAATAACTAC
29365 TAGTTCAAAATA
1 T-GTTCAAAATA
29377 GCTTTTGTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 2 0.09
16 21 0.91
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.30
Consensus pattern (16 bp):
TGTTCAAAATAACTAC
Found at i:29433 original size:32 final size:32
Alignment explanation
Indices: 29397--29478 Score: 94
Period size: 32 Copynumber: 2.6 Consensus size: 32
29387 AGTATAAGTC
* * * *
29397 TTGTTCAGAACAGTTGTTACTT-AGAACAGTTT
1 TTGTTCAGAACAATTATTA-TTCAGAACAGCTA
* *
29429 TTGTTTAGAATAATTATTATTCAGAACAGCTA
1 TTGTTCAGAACAATTATTATTCAGAACAGCTA
29461 TTGTTCAGAACAATTATT
1 TTGTTCAGAACAATTATT
29479 GTTTAGAATA
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 2 0.05
32 39 0.95
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (32 bp):
TTGTTCAGAACAATTATTATTCAGAACAGCTA
Found at i:29436 original size:16 final size:16
Alignment explanation
Indices: 29397--29491 Score: 75
Period size: 16 Copynumber: 5.9 Consensus size: 16
29387 AGTATAAGTC
*
29397 TTGTTCAGAACAGTTG
1 TTGTTCAGAACAGTTA
* *
29413 TTACTT-AGAACAGTTT
1 TT-GTTCAGAACAGTTA
* * *
29429 TTGTTTAGAATAATTA
1 TTGTTCAGAACAGTTA
* *
29445 TTATTCAGAACAGCTA
1 TTGTTCAGAACAGTTA
*
29461 TTGTTCAGAACAATTA
1 TTGTTCAGAACAGTTA
* *
29477 TTGTTTAGAATAGTT
1 TTGTTCAGAACAGTT
29492 GTTATTTAAA
Statistics
Matches: 60, Mismatches: 17, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
15 2 0.03
16 56 0.93
17 2 0.03
ACGTcount: A:0.33, C:0.09, G:0.16, T:0.42
Consensus pattern (16 bp):
TTGTTCAGAACAGTTA
Found at i:29471 original size:48 final size:48
Alignment explanation
Indices: 29379--29521 Score: 135
Period size: 48 Copynumber: 3.0 Consensus size: 48
29369 TCAAAATAGC
* * * * * * *
29379 TTTTGTTTAGTATAAGTCTTGTTCAGAACAGTTGTTACTT-AGAACAGT
1 TTTTGTTTAGAATAATTATTATTCAGAACAGCTATTA-TTCAGAACAAT
*
29427 TTTTGTTTAGAATAATTATTATTCAGAACAGCTATTGTTCAGAACAAT
1 TTTTGTTTAGAATAATTATTATTCAGAACAGCTATTATTCAGAACAAT
* * * * * * *
29475 TATTGTTTAGAATAGTTGTTATTTAAAATAGCTCTTATTCAGAACAA
1 TTTTGTTTAGAATAATTATTATTCAGAACAGCTATTATTCAGAACAA
29522 CTCCTATTCA
Statistics
Matches: 78, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
47 2 0.03
48 76 0.97
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.43
Consensus pattern (48 bp):
TTTTGTTTAGAATAATTATTATTCAGAACAGCTATTATTCAGAACAAT
Found at i:38029 original size:79 final size:79
Alignment explanation
Indices: 37924--38098 Score: 228
Period size: 79 Copynumber: 2.2 Consensus size: 79
37914 AAGAAATAGA
* ***
37924 GTTGGAGTATCCCTGATTATAGAAAATCGGTATTTT-GAAAATAAAATCGGGGTTGGAGTATCCC
1 GTTGGAGTATCCCCGATTATAGAAAATCGGTATTTTAG-AAATAAAATCAAAGTTGGAGTATCCC
*
37988 CGCAAAAATAGCGGG
65 CGCAAAAATAACGGG
* *
38003 GTTGGAGTATCCCCGATTGT-GAAAAATTGGTATTTTAGAAATAAAATCAAAGTTGGAGTATCCC
1 GTTGGAGTATCCCCGATTATAG-AAAATCGGTATTTTAGAAATAAAATCAAAGTTGGAGTATCCC
* *
38067 CTCGAAAATAACGGG
65 CGCAAAAATAACGGG
*
38082 ATTGGAGTATCCCCGAT
1 GTTGGAGTATCCCCGAT
38099 GAAATAACAG
Statistics
Matches: 84, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
78 1 0.01
79 82 0.98
80 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (79 bp):
GTTGGAGTATCCCCGATTATAGAAAATCGGTATTTTAGAAATAAAATCAAAGTTGGAGTATCCCC
GCAAAAATAACGGG
Found at i:38103 original size:28 final size:30
Alignment explanation
Indices: 38054--38126 Score: 93
Period size: 28 Copynumber: 2.6 Consensus size: 30
38044 TAAAATCAAA
38054 GTTGGAGTATCCCC--TCGAAAATAAC-GG
1 GTTGGAGTATCCCCGATCGAAAATAACAGG
38081 GATTGGAGTATCCCCGAT-G-AAATAACAGG
1 G-TTGGAGTATCCCCGATCGAAAATAACAGG
*
38110 GTTGGAGTACCCCCGAT
1 GTTGGAGTATCCCCGAT
38127 TATGAAAAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
27 1 0.02
28 35 0.85
29 4 0.10
30 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.22
Consensus pattern (30 bp):
GTTGGAGTATCCCCGATCGAAAATAACAGG
Found at i:40662 original size:13 final size:13
Alignment explanation
Indices: 40644--40669 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
40634 ACAAAGATCG
40644 ATGTATCGATACA
1 ATGTATCGATACA
40657 ATGTATCGATACA
1 ATGTATCGATACA
40670 CTTCCTTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:40680 original size:21 final size:21
Alignment explanation
Indices: 40656--40697 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
40646 GTATCGATAC
40656 AATGTATCGATACACTTCCTT
1 AATGTATCGATACACTTCCTT
*
40677 AATGTATCGATACATTTCCTT
1 AATGTATCGATACACTTCCTT
40698 GGCAGTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (21 bp):
AATGTATCGATACACTTCCTT
Found at i:40746 original size:19 final size:18
Alignment explanation
Indices: 40722--40784 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
40712 AGTGATACAT
40722 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
40741 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
40754 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
40773 TGTATCGATACA
1 TGTATCGATACA
40785 TTTACTATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
16 2 0.05
18 1 0.03
19 23 0.61
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:40756 original size:32 final size:32
Alignment explanation
Indices: 40715--40786 Score: 135
Period size: 32 Copynumber: 2.2 Consensus size: 32
40705 GCTTCATAGT
40715 GATACATTGTATCGATACAAAACTTATGTATC
1 GATACATTGTATCGATACAAAACTTATGTATC
*
40747 GATACATTGTATCGATACAACACTTATGTATC
1 GATACATTGTATCGATACAAAACTTATGTATC
40779 GATACATT
1 GATACATT
40787 TACTATTTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (32 bp):
GATACATTGTATCGATACAAAACTTATGTATC
Found at i:40759 original size:13 final size:13
Alignment explanation
Indices: 40741--40765 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
40731 ACAAAACTTA
40741 TGTATCGATACAT
1 TGTATCGATACAT
40754 TGTATCGATACA
1 TGTATCGATACA
40766 ACACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:40869 original size:21 final size:20
Alignment explanation
Indices: 40844--40882 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
40834 GTTGGGACCT
*
40844 TGTATTGATACATTCTGGAAA
1 TGTATCGATACATT-TGGAAA
40865 TGTATCGATACATTTGGA
1 TGTATCGATACATTTGGA
40883 TAAAAATGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATTTGGAAA
Found at i:41639 original size:35 final size:35
Alignment explanation
Indices: 41598--41664 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 35
41588 GCTAATGATA
41598 TTGATCTTGCCAAGCTTAGACCATTGAAATTAATG
1 TTGATCTTGCCAAGCTTAGACCATTGAAATTAATG
* * *
41633 TTGATCTTGCCATGCTTCGACGATTGAAATTA
1 TTGATCTTGCCAAGCTTAGACCATTGAAATTA
41665 TGTGCTTGCA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (35 bp):
TTGATCTTGCCAAGCTTAGACCATTGAAATTAATG
Found at i:45613 original size:13 final size:13
Alignment explanation
Indices: 45595--45633 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
45585 ATAATCCCCC
* *
45595 TGTATCGATATAG
1 TGTATCGATACAA
45608 TGTATCGATACAA
1 TGTATCGATACAA
45621 TGTATCGATACAA
1 TGTATCGATACAA
45634 AGAAAAATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:46394 original size:795 final size:795
Alignment explanation
Indices: 44864--47125 Score: 4380
Period size: 795 Copynumber: 2.8 Consensus size: 795
44854 GTAAATGAAG
* *
44864 TCGAATGACTTGAAATACTTCATGTCGACAGCGCGACATGGTCGGATAGCCAACCGAGAAAAGGT
1 TCGAATGACCTGAGATACTTCATGTCGACAGCGCGACATGGTCGGATAGCCAACCGAGAAAAGGT
*
44929 TCGATTGAAATGGTCAAGGTTGGCTTGAGTGCGAAAACAACCTTCGAAGAAGGTTTGGTTTTGCG
66 TCGATTGAAATGGTCAAGGTTGGCTTGAGTGCGAAAACAACCTTCGAAGAAGGTTTGGTTTTACG
* *
44994 GATTCGAGGTGGAGGCACCTCGAGGACATTTCTGAGCTGTTGATTTCATCCGAGGGGCCATCGGA
131 AATTCGAGGTGGAGGCACCTCGAGGACGTTTCTGAGCTGTTGATTTCATCCGAGGGGCCATCGGA
*
45059 ATGAATCGAAAATGTTTTGGCGTTAAACCGAGGTTTTTCGGATGAACTAGGTGGCTAGTGTGGGT
196 ATGAATCGAAAATGTTTTGGCGTTAAACCGAGGTTTTTCGGATGAACTAGGCGGCTAGTGTGGGT
45124 ACTGCCCGGTTGTGACCTGGGAGTGCCGGTCACGACCTGGTGGTGCTGCCTAGGGGGTTGCTGGT
261 ACTGCCCGGTTGTGACCTGGGAGTGCCGGTCACGACCTGGTGGTGCTGCCTAGGGGGTTGCTGGT
*
45189 TCAGGCTTTTTGCCGAACAGGTGGTGGTCACTACTTTGGAGGTTTAGATTTTCAAAATGGGACGA
326 TCAGGCTTTTTGCCGAACAGGTGGTGGTCACTACTTTGGAGGTTTAGATTTTGAAAATGGGACGA
45254 TTTTGATGCAAACCAAGACCACAAACCTAAAGATTAAGTGTTTGGAAAAGGATTTATGAAAAAAT
391 TTTTGATGCAAACCAAGACCACAAACCTAAAGATTAAGTGTTTGGAAAAGGATTTATGAAAAAAT
45319 TTGGTTCAAAAACATTTTCTAAAAAGGATTTTCGAAGGGTTTAAAAAGATACAAAACTGTGGGTT
456 TTGGTTCAAAAACATTTTCTAAAAAGGATTTTCGAAGGGTTTAAAAAGATACAAAACTGTGGGTT
45384 TTGACAGTTTTGTAGGAGTGATTTGATGGATTAAAAACTTGTTTTTGATGCTGGTTTTGATGAAA
521 TTGACAGTTTTGTAGGAGTGATTTGATGGATTAAAAACTTGTTTTTGATGCTGGTTTTGATGAAA
45449 AACGAAGTAATTTGAAGTGAAAAACAAGTATTTTGCAAAAGATTTGAAAAATTTTGAAGTTTGGA
586 AACGAAGTAATTTGAAGTGAAAAACAAGTATTTTGCAAAAGATTTGAAAAATTTTGAAGTTTGGA
45514 AGATAGGGTTTGAGAGAAATTTGGGTATGAAAGTATCGATAGAAAGAAGGAGGAAGGTTCGAACT
651 AGATAGGGTTTGAGAGAAATTTGGGTATGAAAGTATCGATAGAAAGAAGGAGGAAGGTTCGAACT
45579 GTTCATATAATCCCCCTGTATCGATATAGTGTATCGATACAATGTATCGATACAAAGAAAAATGT
716 GTTCATATAATCCCCCTGTATCGATATAGTGTATCGATACAATGTATCGATACAAAGAAAAATGT
45644 ATCGAAAAATTTTTA
781 ATCGAAAAATTTTTA
45659 TCGAATGACCTGAGATACTTCATGTCGACAGCGCGACATGGTCGGATAGCCAACCGAGAAAAGGT
1 TCGAATGACCTGAGATACTTCATGTCGACAGCGCGACATGGTCGGATAGCCAACCGAGAAAAGGT
45724 TCGATTGAAATGGTCAAGGTTGGCTTGAGTGCGAAAACAACCTTCGAAGAAGGTTTGGTTTTACG
66 TCGATTGAAATGGTCAAGGTTGGCTTGAGTGCGAAAACAACCTTCGAAGAAGGTTTGGTTTTACG
45789 AATTCGAGGTGGAGGCACCTCGAGGACGTTTCTGAGCTGTTGATTTCATCCGAGGGGCCATCGGA
131 AATTCGAGGTGGAGGCACCTCGAGGACGTTTCTGAGCTGTTGATTTCATCCGAGGGGCCATCGGA
45854 ATGAATCGAAAATGTTTTGGCGTTAAACCGAGGTTTTTCGGATGAACTAGGCGGCTAGTGTGGGT
196 ATGAATCGAAAATGTTTTGGCGTTAAACCGAGGTTTTTCGGATGAACTAGGCGGCTAGTGTGGGT
45919 ACTGCCCGGTTGTGACCTGGGAGTGCCGGTCACGACCTGGTGGTGCTGCCTAGGGGGTTGCTGGT
261 ACTGCCCGGTTGTGACCTGGGAGTGCCGGTCACGACCTGGTGGTGCTGCCTAGGGGGTTGCTGGT
45984 TCAGGCTTTTTGCCGAACAGGTGGTGGTCACTACTTTGGAGGTTTAGATTTTGAAAATGGGACGA
326 TCAGGCTTTTTGCCGAACAGGTGGTGGTCACTACTTTGGAGGTTTAGATTTTGAAAATGGGACGA
46049 TTTTGATGCAAACCAAGACCACAAACCTAAAGATTAAGTGTTTGGAAAAGGATTTATGAAAAAAT
391 TTTTGATGCAAACCAAGACCACAAACCTAAAGATTAAGTGTTTGGAAAAGGATTTATGAAAAAAT
46114 TTGGTTCAAAAACATTTTCTAAAAAGGATTTTCGAAGGGTTTAAAAAGATACAAAACTGTGGGTT
456 TTGGTTCAAAAACATTTTCTAAAAAGGATTTTCGAAGGGTTTAAAAAGATACAAAACTGTGGGTT
46179 TTGACAGTTTTGTAGGAGTGATTTGATGGATTAAAAACTTGTTTTTGATGCTGGTTTTGATGAAA
521 TTGACAGTTTTGTAGGAGTGATTTGATGGATTAAAAACTTGTTTTTGATGCTGGTTTTGATGAAA
46244 AACGAAGTAATTTGAAGTGAAAAACAAGTATTTTGCAAAAGATTTGAAAAATTTTGAAGTTTGGA
586 AACGAAGTAATTTGAAGTGAAAAACAAGTATTTTGCAAAAGATTTGAAAAATTTTGAAGTTTGGA
46309 AGATAGGGTTTGAGAGAAATTTGGGTATGAAAGTATCGATAGAAAGAAGGAGGAAGGTTCGAACT
651 AGATAGGGTTTGAGAGAAATTTGGGTATGAAAGTATCGATAGAAAGAAGGAGGAAGGTTCGAACT
46374 GTTCATATAATCCCCCTGTATCGATATAGTGTATCGATACAATGTATCGATACAAAGAAAAATGT
716 GTTCATATAATCCCCCTGTATCGATATAGTGTATCGATACAATGTATCGATACAAAGAAAAATGT
46439 ATCGAAAAATTTTTA
781 ATCGAAAAATTTTTA
46454 TCGAATGACCTGAGATACTTCATGTCGACAGCGCGACATGGTCGGATAGCCAACCGAGAAAAGGT
1 TCGAATGACCTGAGATACTTCATGTCGACAGCGCGACATGGTCGGATAGCCAACCGAGAAAAGGT
46519 TCGATTGAAATGGTCAAGGTTGGCTTGAGTGCGAAAACAACCTTCGAAGAAGGTTTGGTTTTACG
66 TCGATTGAAATGGTCAAGGTTGGCTTGAGTGCGAAAACAACCTTCGAAGAAGGTTTGGTTTTACG
*
46584 AATTCGAGGTGGAGGCACCTCGAGGACGTTTCTGAGCTGTTGATTTCATCCGAGGGGCCATTGGA
131 AATTCGAGGTGGAGGCACCTCGAGGACGTTTCTGAGCTGTTGATTTCATCCGAGGGGCCATCGGA
*
46649 ATGAATCGAAAATGTTTTGGTGTTAAACCGAGGTTTTTCGGATGAACTAGGCGGCTAGTGTGGGT
196 ATGAATCGAAAATGTTTTGGCGTTAAACCGAGGTTTTTCGGATGAACTAGGCGGCTAGTGTGGGT
46714 ACTGCCCGGTTGTGACCTGGGAGTGCCGGTCACGACCTGGTGGTGCTGCCTAGGGGGTTGCTGGT
261 ACTGCCCGGTTGTGACCTGGGAGTGCCGGTCACGACCTGGTGGTGCTGCCTAGGGGGTTGCTGGT
46779 TCAGGCTTTTTGCCGAACAGGTGGTGGTCACTACTTTGGAGGTTTAGATTTTGAAAATGGGACGA
326 TCAGGCTTTTTGCCGAACAGGTGGTGGTCACTACTTTGGAGGTTTAGATTTTGAAAATGGGACGA
* * * *
46844 TTTTGAGGCAAACCAAGACCACAAACCTAGAGATTAAGTGTTTGGGAAAGGATTTATGCAAAAAT
391 TTTTGATGCAAACCAAGACCACAAACCTAAAGATTAAGTGTTTGGAAAAGGATTTATGAAAAAAT
46909 TTGGTTCAAAAACATTTTCTAAAAAGGATTTTCGAAGGGTTTAAAAAGATACAAAACTGTGGGTT
456 TTGGTTCAAAAACATTTTCTAAAAAGGATTTTCGAAGGGTTTAAAAAGATACAAAACTGTGGGTT
46974 TTGACAGTTTTGTAGGAGTGATTTGATGGATTAAAAACTTGTTTTTGATGCTGGTTTTGATGAAA
521 TTGACAGTTTTGTAGGAGTGATTTGATGGATTAAAAACTTGTTTTTGATGCTGGTTTTGATGAAA
* * *
47039 AATGAAGTAATTTGAAGTGAAAAACAAGTATTTTGCAAAAAATTTGAAAAATTTTGACGTTTGGA
586 AACGAAGTAATTTGAAGTGAAAAACAAGTATTTTGCAAAAGATTTGAAAAATTTTGAAGTTTGGA
47104 AGATAGGGTTTGAGAGAAATTT
651 AGATAGGGTTTGAGAGAAATTT
47126 TTGTTAGGAT
Statistics
Matches: 1451, Mismatches: 16, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
795 1451 1.00
ACGTcount: A:0.30, C:0.13, G:0.27, T:0.29
Consensus pattern (795 bp):
TCGAATGACCTGAGATACTTCATGTCGACAGCGCGACATGGTCGGATAGCCAACCGAGAAAAGGT
TCGATTGAAATGGTCAAGGTTGGCTTGAGTGCGAAAACAACCTTCGAAGAAGGTTTGGTTTTACG
AATTCGAGGTGGAGGCACCTCGAGGACGTTTCTGAGCTGTTGATTTCATCCGAGGGGCCATCGGA
ATGAATCGAAAATGTTTTGGCGTTAAACCGAGGTTTTTCGGATGAACTAGGCGGCTAGTGTGGGT
ACTGCCCGGTTGTGACCTGGGAGTGCCGGTCACGACCTGGTGGTGCTGCCTAGGGGGTTGCTGGT
TCAGGCTTTTTGCCGAACAGGTGGTGGTCACTACTTTGGAGGTTTAGATTTTGAAAATGGGACGA
TTTTGATGCAAACCAAGACCACAAACCTAAAGATTAAGTGTTTGGAAAAGGATTTATGAAAAAAT
TTGGTTCAAAAACATTTTCTAAAAAGGATTTTCGAAGGGTTTAAAAAGATACAAAACTGTGGGTT
TTGACAGTTTTGTAGGAGTGATTTGATGGATTAAAAACTTGTTTTTGATGCTGGTTTTGATGAAA
AACGAAGTAATTTGAAGTGAAAAACAAGTATTTTGCAAAAGATTTGAAAAATTTTGAAGTTTGGA
AGATAGGGTTTGAGAGAAATTTGGGTATGAAAGTATCGATAGAAAGAAGGAGGAAGGTTCGAACT
GTTCATATAATCCCCCTGTATCGATATAGTGTATCGATACAATGTATCGATACAAAGAAAAATGT
ATCGAAAAATTTTTA
Found at i:46408 original size:13 final size:13
Alignment explanation
Indices: 46390--46428 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
46380 ATAATCCCCC
* *
46390 TGTATCGATATAG
1 TGTATCGATACAA
46403 TGTATCGATACAA
1 TGTATCGATACAA
46416 TGTATCGATACAA
1 TGTATCGATACAA
46429 AGAAAAATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:47539 original size:13 final size:13
Alignment explanation
Indices: 47521--47545 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47511 ACAAAAAGTA
47521 TGTATCGATACAT
1 TGTATCGATACAT
47534 TGTATCGATACA
1 TGTATCGATACA
47546 CCATAAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:55649 original size:13 final size:13
Alignment explanation
Indices: 55631--55655 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55621 ACACAAAGTA
55631 TGTATCGATACAT
1 TGTATCGATACAT
55644 TGTATCGATACA
1 TGTATCGATACA
55656 CCATAAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:55652 original size:32 final size:33
Alignment explanation
Indices: 55611--55678 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
55601 GTAGCCAAAC
*
55611 TTGTATCGATACA-CA-AAGTATGTATCGATACA
1 TTGTATCGATACACCATAA-AATGTATCGATACA
55643 TTGTATCGATACACCATAAAATGTATCGATACA
1 TTGTATCGATACACCATAAAATGTATCGATACA
55676 TTG
1 TTG
55679 GCTTGTAATG
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 13 0.39
33 18 0.55
34 2 0.06
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (33 bp):
TTGTATCGATACACCATAAAATGTATCGATACA
Found at i:59986 original size:21 final size:22
Alignment explanation
Indices: 59961--60003 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
59951 AAATTATAAC
*
59961 TTCCCC-TTAATTAAAATTTTT
1 TTCCCCTTTAATAAAAATTTTT
59982 TTCCCCTTTAATAAAAATTTTT
1 TTCCCCTTTAATAAAAATTTTT
60004 CTTTTTCGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.30, C:0.19, G:0.00, T:0.51
Consensus pattern (22 bp):
TTCCCCTTTAATAAAAATTTTT
Found at i:61985 original size:20 final size:21
Alignment explanation
Indices: 61955--61994 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
61945 TCTGGGTTTT
*
61955 TTCAGATGTATTGATACATTA
1 TTCAGATGTATGGATACATTA
61976 TTCA-ATGTATGGATACATT
1 TTCAGATGTATGGATACATT
61995 CTGAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (21 bp):
TTCAGATGTATGGATACATTA
Found at i:66883 original size:15 final size:16
Alignment explanation
Indices: 66853--66885 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
66843 TGATTTTTGA
66853 TTCCTTAACTTGTGTTG
1 TTCCTTAAC-TGTGTTG
66870 TTCCTTAA-TGTGTTG
1 TTCCTTAACTGTGTTG
66885 T
1 T
66886 GGCGAGTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.12, C:0.15, G:0.18, T:0.55
Consensus pattern (16 bp):
TTCCTTAACTGTGTTG
Found at i:77022 original size:64 final size:62
Alignment explanation
Indices: 76947--77148 Score: 203
Period size: 64 Copynumber: 3.1 Consensus size: 62
76937 TAAAATGGGC
* * *
76947 AAGCTTTAGGA-TAGCCATCGAAGTATTGTC-TTTTATAAATTGAACTCATTTCTTCAAATGGGT
1 AAGCTTCAGGATTA-CCATCAAAGTATT-TCTTTTTA-AAATTGAACTCATTT-TTCAAATAGGT
77010 T
62 T
* * *
77011 AAGCTTCAGGATTACCCTCAAAGTATTATCTTTTTAAAATCGAATTCATTTTTTTTCAAATAGGT
1 AAGCTTCAGGATTACCATCAAAGTATT-TCTTTTTAAAATTGAACTCA---TTTTTCAAATAGGT
77076 T
62 T
* * *
77077 AAGCTTCAAGATTATCATCAAAGTATTTCTTTTTTTAAAATTGAACTTATTTTT-AAACTAGGTT
1 AAGCTTCAGGATTACCATCAAAGTATTTC--TTTTTAAAATTGAACTCATTTTTCAAA-TAGGTT
77141 AAGCTTCA
1 AAGCTTCA
77149 AGAATGCTGT
Statistics
Matches: 117, Mismatches: 13, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
63 3 0.03
64 52 0.44
65 9 0.08
66 35 0.30
67 18 0.15
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (62 bp):
AAGCTTCAGGATTACCATCAAAGTATTTCTTTTTAAAATTGAACTCATTTTTCAAATAGGTT
Found at i:77759 original size:24 final size:24
Alignment explanation
Indices: 77732--77777 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
77722 TTATCAAACT
77732 CAAGAGAAAAAGTCAAAATTAGCC
1 CAAGAGAAAAAGTCAAAATTAGCC
**
77756 CAAGTTAAAAAGTCAAAATTAG
1 CAAGAGAAAAAGTCAAAATTAG
77778 AGGCATTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.54, C:0.13, G:0.15, T:0.17
Consensus pattern (24 bp):
CAAGAGAAAAAGTCAAAATTAGCC
Found at i:80764 original size:18 final size:17
Alignment explanation
Indices: 80732--80774 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
80722 AAAACTCTAA
*
80732 GTTTTTTTTTTTTTTGG
1 GTTTTTTTTTGTTTTGG
80749 GTTTTTTCTTTGTTTT-G
1 GTTTTTT-TTTGTTTTGG
*
80766 ATTTTTTTT
1 GTTTTTTTT
80775 CCTTTGCTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 2 0.09
17 14 0.61
18 7 0.30
ACGTcount: A:0.02, C:0.02, G:0.14, T:0.81
Consensus pattern (17 bp):
GTTTTTTTTTGTTTTGG
Found at i:81887 original size:19 final size:20
Alignment explanation
Indices: 81844--81897 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 20
81834 CTGCCAGTTT
81844 CATGTATCGATACAATTGAG
1 CATGTATCGATACAATTGAG
* *
81864 TATGTATCGATATAA-TGAG
1 CATGTATCGATACAATTGAG
81883 CATGTATCGATACAA
1 CATGTATCGATACAA
81898 AGCATAATGT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 17 0.57
20 13 0.43
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.31
Consensus pattern (20 bp):
CATGTATCGATACAATTGAG
Found at i:82528 original size:21 final size:20
Alignment explanation
Indices: 82502--82548 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
82492 AGAGATTTCA
82502 AAAATACAATTCCCCCTTAAT
1 AAAATA-AATTCCCCCTTAAT
*
82523 AAAAT-AATTCCCCCTTGAT
1 AAAATAAATTCCCCCTTAAT
82542 AAAATAA
1 AAAATAA
82549 CTAAAGCTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 18 0.75
20 1 0.04
21 5 0.21
ACGTcount: A:0.47, C:0.23, G:0.02, T:0.28
Consensus pattern (20 bp):
AAAATAAATTCCCCCTTAAT
Found at i:82533 original size:19 final size:19
Alignment explanation
Indices: 82509--82548 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
82499 TCAAAAATAC
82509 AATTCCCCCTTAATAAAAT
1 AATTCCCCCTTAATAAAAT
*
82528 AATTCCCCCTTGATAAAAT
1 AATTCCCCCTTAATAAAAT
82547 AA
1 AA
82549 CTAAAGCTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.42, C:0.25, G:0.03, T:0.30
Consensus pattern (19 bp):
AATTCCCCCTTAATAAAAT
Found at i:90788 original size:13 final size:13
Alignment explanation
Indices: 90770--90794 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
90760 ATAATGAGCA
90770 TGTATCGATACAT
1 TGTATCGATACAT
90783 TGTATCGATACA
1 TGTATCGATACA
90795 AAGCATAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:91765 original size:33 final size:33
Alignment explanation
Indices: 91703--91767 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
91693 CGTTACAAGC
* **
91703 AATGTATCGATACAATTCATCATTTATCGATAT
1 AATGTATCGATACAATTCACCATGCATCGATAT
91736 AATGTATCGATACAATGT-ACCATGCATCGATA
1 AATGTATCGATACAAT-TCACCATGCATCGATA
91768 CAAACAGTGG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (33 bp):
AATGTATCGATACAATTCACCATGCATCGATAT
Found at i:92427 original size:120 final size:120
Alignment explanation
Indices: 92214--92458 Score: 418
Period size: 120 Copynumber: 2.0 Consensus size: 120
92204 TTGCATTTTT
*
92214 GGGTAGCATTTATAAACTTACCGATTTGTTCAGGCTTGTATACAATTATTTTCTTTGTATCAACA
1 GGGTAGCATTTATAAACTTACCGATTTGTTCAGGCTTGTATACAATCATTTTCTTTGTATCAACA
* ***
92279 TAATTCATAACCTGTAATCTGATACACAACTTCAAGAAATGTATTAGAAAAGTTC
66 TAATTCATAACCTGTAATCTGATACACAACATCAAGAAACACATTAGAAAAGTTC
* *
92334 GGGTAGCATTTATAAACTTACTGATTTGTTCAGGCTTGTATATAATCATTTTCTTTGTATCAACA
1 GGGTAGCATTTATAAACTTACCGATTTGTTCAGGCTTGTATACAATCATTTTCTTTGTATCAACA
92399 TAATTCATAACCTGTAATCTGATACACAACATCAAGAAACACATTAGAAAAGTTC
66 TAATTCATAACCTGTAATCTGATACACAACATCAAGAAACACATTAGAAAAGTTC
*
92454 AGGTA
1 GGGTA
92459 TCAAAGTTTT
Statistics
Matches: 117, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
120 117 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (120 bp):
GGGTAGCATTTATAAACTTACCGATTTGTTCAGGCTTGTATACAATCATTTTCTTTGTATCAACA
TAATTCATAACCTGTAATCTGATACACAACATCAAGAAACACATTAGAAAAGTTC
Found at i:94501 original size:13 final size:13
Alignment explanation
Indices: 94483--94509 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
94473 ATAGTAACCC
94483 ATGTATCGATACA
1 ATGTATCGATACA
94496 ATGTATCGATACA
1 ATGTATCGATACA
94509 A
1 A
94510 AGAATATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:97842 original size:13 final size:13
Alignment explanation
Indices: 97824--97849 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
97814 ACAAAAATCC
97824 ATGTATCGATACA
1 ATGTATCGATACA
97837 ATGTATCGATACA
1 ATGTATCGATACA
97850 TGGAATAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:97909 original size:13 final size:13
Alignment explanation
Indices: 97887--97976 Score: 54
Period size: 13 Copynumber: 6.0 Consensus size: 13
97877 GGTAGTAGCT
*
97887 TTGTAGCGATACA
1 TTGTATCGATACA
97900 TTGTATCGATACAAAA
1 TTGTATCGATAC---A
97916 CTTATGTATCGATACA
1 --T-TGTATCGATACA
*
97932 TTGTATCAATACAACA
1 TTGTATCGAT---ACA
97948 CTTATGTATCGATACA
1 --T-TGTATCGATACA
97964 TTGTATCGATACA
1 TTGTATCGATACA
97977 AATTATTGAA
Statistics
Matches: 62, Mismatches: 3, Indels: 24
0.70 0.03 0.27
Matches are distributed among these distances:
13 31 0.50
14 2 0.03
16 8 0.13
18 2 0.03
19 19 0.31
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:97925 original size:19 final size:18
Alignment explanation
Indices: 97901--97963 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
97891 AGCGATACAT
97901 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
97920 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
*
97933 TGTATCAATACAACACTTA
1 TGTATCGATACAA-ACTTA
97952 TGTATCGATACA
1 TGTATCGATACA
97964 TTGTATCGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 10 0.28
14 1 0.03
16 2 0.06
18 1 0.03
19 22 0.61
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.33
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:97934 original size:32 final size:32
Alignment explanation
Indices: 97805--97978 Score: 158
Period size: 32 Copynumber: 5.4 Consensus size: 32
97795 AATTCCCAAA
* * *
97805 TGTATCGATACAAAAATCCATGTATCGATACAA
1 TGTATCGATACAAAACT-TATGTATCGATACAT
* *
97838 TGTATCGATACATGGAA-TAATGTATCGATACAT
1 TGTATCGATACA--AAACTTATGTATCGATACAT
* * * ** * *
97871 T-TCCTTGGTA-GTAGCTT-TGTAGCGATACAT
1 TGT-ATCGATACAAAACTTATGTATCGATACAT
97901 TGTATCGATACAAAACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
* *
97933 TGTATCAATACAACACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
97965 TGTATCGATACAAA
1 TGTATCGATACAAA
97979 TTATTGAAAT
Statistics
Matches: 112, Mismatches: 22, Indels: 15
0.75 0.15 0.10
Matches are distributed among these distances:
30 18 0.16
31 6 0.05
32 55 0.49
33 30 0.27
34 1 0.01
35 2 0.02
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:98681 original size:39 final size:39
Alignment explanation
Indices: 98627--98879 Score: 130
Period size: 39 Copynumber: 5.9 Consensus size: 39
98617 AGTGATTAAG
98627 GTGCCAATATGCTGATTC-AGGACCAACGATATTGGACTT
1 GTGCCAATATGCTGATTCAAGG-CCAACGATATTGGACTT
* *
98666 GTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT
1 GTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTT
* * * *
98705 AAAGACAAGGTGCCAATACGCTGATTCAAAGCCAGCGATATTGGGCTT
1 ---------GTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTT
* * * * * * *
98753 ATGTCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTTAAAGAT
1 GTGCCAATATGCTGATTCAAGGCCAACGATATTGGAC-T-----T
* *
98798 GCCGGTGCCAATATGCTAATTCAAGGCCAACGATATCGGACTT
1 ----GTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTT
* *
98841 AAAGGTGTCAATATGCTGATTCAAGGCCAGCGATATTGG
1 ----GTGCCAATATGCTGATTCAAGGCCAACGATATTGG
98880 GTTTTAAAGA
Statistics
Matches: 164, Mismatches: 30, Indels: 36
0.71 0.13 0.16
Matches are distributed among these distances:
39 62 0.38
40 4 0.02
43 33 0.20
45 1 0.01
48 36 0.22
49 28 0.17
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (39 bp):
GTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTT
Found at i:98917 original size:93 final size:90
Alignment explanation
Indices: 98625--99027 Score: 467
Period size: 93 Copynumber: 4.5 Consensus size: 90
98615 AGAGTGATTA
* *
98625 AGGTGCCAATATGCTGATTC-AGGACCAACGATATTGGACTT--GTGCCAATGTGCTGATTCAAG
1 AGGTGCCAATATGCTGATTCAAGG-CCAACGATATTGGACTTAAGTGTCAATATGCTGATTCAAG
* *
98687 GCCAGCGATATTGGACTTAAAGACA-
65 GCCAGCGATATTGGTCTTAAAGATAC
* * * * *
98712 AGGTGCCAATACGCTGATTCAAAGCCAGCGATATTGGGCTT-A-TGTCAATGTGCTGATTCAAGG
1 AGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAGTGTCAATATGCTGATTCAAGG
* * *
98775 CCAGCAACATTGGTCTTAAAGATGC
66 CCAGCGATATTGGTCTTAAAGATAC
* * *
98800 CGGTGCCAATATGCTAATTCAAGGCCAACGATATCGGACTTAAAGGTGTCAATATGCTGATTCAA
1 AGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTT-AA-GTGTCAATATGCTGATTCAA
*
98865 GGCCAGCGATATTGGGTTTTAAAGATAC
64 GGCCAGCGATATT-GGTCTTAAAGATAC
* * * **
98893 AGGTGCCAATATGCTGGTTCAAGGCTAGCGATATCAGACTTAAAGGTGTCAATATGCTGATTCAA
1 AGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTT-AA-GTGTCAATATGCTGATTCAA
* *
98958 GGCCAGTGATATTGGGTTTTAAAGATAC
64 GGCCAGCGATATT-GGTCTTAAAGATAC
* * *
98986 AGGTGCCAATATGTTGGTTCAAAGCCAACGATATTGGACTTA
1 AGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTA
99028 GAAGAAGACG
Statistics
Matches: 273, Mismatches: 35, Indels: 11
0.86 0.11 0.03
Matches are distributed among these distances:
87 73 0.27
88 36 0.13
90 1 0.00
92 30 0.11
93 133 0.49
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (90 bp):
AGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAGTGTCAATATGCTGATTCAAGG
CCAGCGATATTGGTCTTAAAGATAC
Found at i:98923 original size:50 final size:50
Alignment explanation
Indices: 98843--99022 Score: 194
Period size: 50 Copynumber: 3.7 Consensus size: 50
98833 TCGGACTTAA
*
98843 AGGTGTCAATATGCTGATTCAAGGCCAGCGATATTGGGTTTTAAAGATAC
1 AGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGTTTTAAAGATAC
* * ** **
98893 AGGTGCCAATATGCTGGTTCAAGGCTAGCGATA-TCAGACTT----A-A-
1 AGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGTTTTAAAGATAC
* *
98936 AGGTGTCAATATGCTGATTCAAGGCCAGTGATATTGGGTTTTAAAGATAC
1 AGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGTTTTAAAGATAC
* * * *
98986 AGGTGCCAATATGTTGGTTCAAAGCCAACGATATTGG
1 AGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGG
99023 ACTTAGAAGA
Statistics
Matches: 102, Mismatches: 21, Indels: 14
0.74 0.15 0.10
Matches are distributed among these distances:
43 29 0.28
44 5 0.05
45 1 0.01
48 1 0.01
49 5 0.05
50 61 0.60
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (50 bp):
AGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGTTTTAAAGATAC
Found at i:99115 original size:28 final size:29
Alignment explanation
Indices: 99049--99375 Score: 363
Period size: 28 Copynumber: 11.5 Consensus size: 29
99039 CACCAACTTG
* *
99049 TGTGGGCTTTTGAAAGGGTTG-CA-TCAACT
1 TGTGGGCTTTTGAAA-GGATGCCACT-GACT
* * *
99078 CGTGTGCTTTTG-AAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAGGATGCCACTGACT
*
99106 TGTGGGC-TTTGAAAGGATACCACTGACT
1 TGTGGGCTTTTGAAAGGATGCCACTGACT
* *
99134 TGTGGG--TTTGAAAGGGGTGCCACTAACT
1 TGTGGGCTTTTGAAA-GGATGCCACTGACT
*
99162 TGTGCGCTTTTG-AA-GATTGCCACTGACT
1 TGTGGGCTTTTGAAAGGA-TGCCACTGACT
* *
99190 TGTGGGCTTTGGAAAAGATGCCACTGACT
1 TGTGGGCTTTTGAAAGGATGCCACTGACT
*
99219 TGTGGGCTTTT-AAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAGGATGCCACTGACT
*
99247 TGTGGGC-TTTGGAAGAGATGCCACTGACT
1 TGTGGGCTTTTGAAAG-GATGCCACTGACT
* *
99276 TGTGGGCTTTGGAAAAGATGCCACTGACT
1 TGTGGGCTTTTGAAAGGATGCCACTGACT
*
99305 TGTGGGCTTTTG-AAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAGGATGCCACTGACT
* *
99333 TGTGGGCTTTGGAAAAGATGCCACTGACT
1 TGTGGGCTTTTGAAAGGATGCCACTGACT
99362 TGTGGGC-TTTGAAA
1 TGTGGGCTTTTGAAA
99376 AGGTGAGGAA
Statistics
Matches: 255, Mismatches: 30, Indels: 27
0.82 0.10 0.09
Matches are distributed among these distances:
27 20 0.08
28 124 0.49
29 100 0.39
30 11 0.04
ACGTcount: A:0.20, C:0.17, G:0.31, T:0.31
Consensus pattern (29 bp):
TGTGGGCTTTTGAAAGGATGCCACTGACT
Found at i:99220 original size:57 final size:56
Alignment explanation
Indices: 99095--99377 Score: 351
Period size: 57 Copynumber: 5.0 Consensus size: 56
99085 TTTTGAAGGT
* * *
99095 TGCCACTGACTTGTGGGC-TTTGAAAGGATACCACTGACTTGTGGG-TTTGAAAGGGG
1 TGCCACTGACTTGTGGGCTTTTGAAA-GATGCCACTGACTTGTGGGCTTTGAAA-AGA
* *
99151 TGCCACTAACTTGTGCGCTTTTG-AAGATTGCCACTGACTTGTGGGCTTTGGAAAAGA
1 TGCCACTGACTTGTGGGCTTTTGAAAGA-TGCCACTGACTTGTGGGCTTT-GAAAAGA
* *
99208 TGCCACTGACTTGTGGGCTTTT-AAAGGTTGCCACTGACTTGTGGGCTTTGGAAGAGA
1 TGCCACTGACTTGTGGGCTTTTGAAA-GATGCCACTGACTTGTGGGCTTT-GAAAAGA
* * *
99265 TGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTTG-AAGGT
1 TGCCACTGACTTGTGGGCTTTTG-AAAGATGCCACTGACTTGTGGGC-TTTGAAAAGA
*
99322 TGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAG
1 TGCCACTGACTTGTGGGCTTTTG-AAAGATGCCACTGACTTGTGGGCTTTGAAAAG
99378 GTGAGGAATG
Statistics
Matches: 202, Mismatches: 15, Indels: 19
0.86 0.06 0.08
Matches are distributed among these distances:
55 2 0.01
56 38 0.19
57 131 0.65
58 25 0.12
59 6 0.03
ACGTcount: A:0.21, C:0.18, G:0.31, T:0.30
Consensus pattern (56 bp):
TGCCACTGACTTGTGGGCTTTTGAAAGATGCCACTGACTTGTGGGCTTTGAAAAGA
Found at i:99291 original size:86 final size:85
Alignment explanation
Indices: 99095--99377 Score: 435
Period size: 86 Copynumber: 3.3 Consensus size: 85
99085 TTTTGAAGGT
* * * * *
99095 TGCCACTGACTTGTGGGCTTTGAAAGGATACCACTGACTTGTGGG-TTTGAAAGGGGTGCCACTA
1 TGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTTAAA-GGTTGCCACTG
* * *
99159 ACTTGTGCGCTTTTGAAGA-T
65 ACTTGTGGGCTTTGGAAGAGA
99179 TGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTTAAAGGTTGCCACTG
1 TGCCACTGACTTGTGGGCTTT-GAAAAGATGCCACTGACTTGTGGGCTTTTAAAGGTTGCCACTG
99244 ACTTGTGGGCTTTGGAAGAGA
65 ACTTGTGGGCTTTGGAAGAGA
*
99265 TGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTG
1 TGCCACTGACTTGTGGGCTTT-GAAAAGATGCCACTGACTTGTGGGCTTTTAAAGGTTGCCACTG
*
99330 ACTTGTGGGCTTTGGAAAAGA
65 ACTTGTGGGCTTTGGAAGAGA
99351 TGCCACTGACTTGTGGGCTTTGAAAAG
1 TGCCACTGACTTGTGGGCTTTGAAAAG
99378 GTGAGGAATG
Statistics
Matches: 186, Mismatches: 10, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
84 21 0.11
85 54 0.29
86 111 0.60
ACGTcount: A:0.21, C:0.18, G:0.31, T:0.30
Consensus pattern (85 bp):
TGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTTAAAGGTTGCCACTGA
CTTGTGGGCTTTGGAAGAGA
Found at i:100824 original size:1 final size:1
Alignment explanation
Indices: 100810--100915 Score: 59
Period size: 1 Copynumber: 106.0 Consensus size: 1
100800 CATCCGGACC
* * * * * * * * * *
100810 TTTTTTGTTGTTTTTTTTTTGTTTGTTTTTTTTTGTCTTTTTTTTCTTCTTTTTTTTTGTTTGTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * * *
100875 TTTTTTCTTCTTTTTTTTCTTCTTTCTTCTTCTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
100916 GTGGAGGATG
Statistics
Matches: 71, Mismatches: 34, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
1 71 1.00
ACGTcount: A:0.00, C:0.09, G:0.07, T:0.84
Consensus pattern (1 bp):
T
Found at i:100827 original size:14 final size:13
Alignment explanation
Indices: 100810--100917 Score: 90
Period size: 14 Copynumber: 7.6 Consensus size: 13
100800 CATCCGGACC
100810 TTTTTTGTTGTTTT
1 TTTTTTGTT-TTTT
100824 TTTTTTGTTTGTTT
1 TTTTTTGTTT-TTT
100838 TTTTTTGTCTTTTT
1 TTTTTTGT-TTTTT
* *
100852 TTTCTTCTTTTTT
1 TTTTTTGTTTTTT
100865 TTTGTTTGTTTTTT
1 TTT-TTTGTTTTTT
*
100879 TTCTTCTTTTTTTTCT
1 TT-TT-TTGTTTTT-T
* *
100895 TCTTTCTTCTTCTTT
1 T-TTT-TTGTTTTTT
100910 TTTTTTGT
1 TTTTTTGT
100918 GGAGGATGCC
Statistics
Matches: 79, Mismatches: 8, Indels: 15
0.77 0.08 0.15
Matches are distributed among these distances:
13 12 0.15
14 43 0.54
15 12 0.15
16 11 0.14
17 1 0.01
ACGTcount: A:0.00, C:0.09, G:0.07, T:0.83
Consensus pattern (13 bp):
TTTTTTGTTTTTT
Found at i:100842 original size:28 final size:26
Alignment explanation
Indices: 100810--100892 Score: 105
Period size: 28 Copynumber: 3.1 Consensus size: 26
100800 CATCCGGACC
* *
100810 TTTTTTGTTGTTTTTTTTTTGTTTGTTT
1 TTTTTTGTT-TTTTTTTCTTCTTT-TTT
100838 TTTTTTGTCTTTTTTTTCTTCTTTTTT
1 TTTTTTGT-TTTTTTTTCTTCTTTTTT
100865 TTTGTTTG-TTTTTTTTCTTCTTTTTT
1 TTT-TTTGTTTTTTTTTCTTCTTTTTT
100891 TT
1 TT
100893 CTTCTTTCTT
Statistics
Matches: 51, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
26 20 0.39
27 6 0.12
28 24 0.47
29 1 0.02
ACGTcount: A:0.00, C:0.06, G:0.08, T:0.86
Consensus pattern (26 bp):
TTTTTTGTTTTTTTTTCTTCTTTTTT
Found at i:100863 original size:38 final size:38
Alignment explanation
Indices: 100821--100899 Score: 142
Period size: 38 Copynumber: 2.1 Consensus size: 38
100811 TTTTTGTTGT
100821 TTTTTTTTTGTTTGTTTTTTTT-TGTCTTTTTTTTCTTC
1 TTTTTTTTTGTTTGTTTTTTTTCT-TCTTTTTTTTCTTC
100859 TTTTTTTTTGTTTGTTTTTTTTCTTCTTTTTTTTCTTC
1 TTTTTTTTTGTTTGTTTTTTTTCTTCTTTTTTTTCTTC
100897 TTT
1 TTT
100900 CTTCTTCTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
38 39 0.98
39 1 0.03
ACGTcount: A:0.00, C:0.09, G:0.06, T:0.85
Consensus pattern (38 bp):
TTTTTTTTTGTTTGTTTTTTTTCTTCTTTTTTTTCTTC
Found at i:100881 original size:26 final size:26
Alignment explanation
Indices: 100810--100892 Score: 109
Period size: 26 Copynumber: 3.2 Consensus size: 26
100800 CATCCGGACC
*
100810 TTTTTTG-TTGTTTTTTTT-TTGTTT
1 TTTTTTGTTTGTTTTTTTTCTTCTTT
100834 GTTTTTT-TTTGTCTTTTTTTTCTTCTTT
1 -TTTTTTGTTTG--TTTTTTTTCTTCTTT
100862 TTTTTTGTTTGTTTTTTTTCTTCTTT
1 TTTTTTGTTTGTTTTTTTTCTTCTTT
100888 TTTTT
1 TTTTT
100893 CTTCTTTCTT
Statistics
Matches: 52, Mismatches: 1, Indels: 9
0.84 0.02 0.15
Matches are distributed among these distances:
25 9 0.17
26 20 0.38
27 14 0.27
28 9 0.17
ACGTcount: A:0.00, C:0.06, G:0.08, T:0.86
Consensus pattern (26 bp):
TTTTTTGTTTGTTTTTTTTCTTCTTT
Found at i:100915 original size:38 final size:37
Alignment explanation
Indices: 100835--100915 Score: 110
Period size: 38 Copynumber: 2.2 Consensus size: 37
100825 TTTTTGTTTG
* * *
100835 TTTTTTTTTGTCTTTTTTTTCTTCTTTTTTTTTGTTT
1 TTTTTTTTTGTCTTTTTTTTCTTCTTTCTTCTTCTTT
100872 GTTTTTTTTCT-TCTTTTTTTTCTTCTTTCTTCTTCTTT
1 -TTTTTTTT-TGTCTTTTTTTTCTTCTTTCTTCTTCTTT
100910 TTTTTT
1 TTTTTT
100916 GTGGAGGATG
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
37 6 0.15
38 32 0.82
39 1 0.03
ACGTcount: A:0.00, C:0.12, G:0.04, T:0.84
Consensus pattern (37 bp):
TTTTTTTTTGTCTTTTTTTTCTTCTTTCTTCTTCTTT
Found at i:108251 original size:34 final size:35
Alignment explanation
Indices: 108213--108279 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
108203 CCTTACAACA
108213 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
108247 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
108280 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:108734 original size:13 final size:13
Alignment explanation
Indices: 108716--108743 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
108706 CGTTACAAGC
108716 CAATGTATCGATA
1 CAATGTATCGATA
108729 CAATGTATCGATA
1 CAATGTATCGATA
108742 CA
1 CA
108744 TTTTATGGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:108775 original size:19 final size:20
Alignment explanation
Indices: 108732--108782 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
108722 ATCGATACAA
**
108732 TGTATCGATACATTTTATGG
1 TGTATCGATACATACTATGG
*
108752 TGTATCGATACATACTGT-G
1 TGTATCGATACATACTATGG
108771 TGTATCGATACA
1 TGTATCGATACA
108783 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATACTATGG
Found at i:109465 original size:20 final size:21
Alignment explanation
Indices: 109442--109494 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
109432 ACAATTCAAA
** *
109442 GTATCGATACATGTTACA-AT
1 GTATCGATACATGAAAAAGAT
109462 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGAAAAAGAT
109483 GTATCGATACAT
1 GTATCGATACAT
109495 TTCTTGGCAG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 15 0.52
21 14 0.48
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (21 bp):
GTATCGATACATGAAAAAGAT
Found at i:109551 original size:13 final size:13
Alignment explanation
Indices: 109533--109558 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
109523 TACAGCAAGT
109533 ATGTATCGATACA
1 ATGTATCGATACA
109546 ATGTATCGATACA
1 ATGTATCGATACA
109559 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:111815 original size:21 final size:21
Alignment explanation
Indices: 111777--111821 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
111767 TTGCAAGTTG
*
111777 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
111799 AAATAATGAA-TTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
111819 AAA
1 AAA
111822 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 7 0.33
22 9 0.43
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:113644 original size:15 final size:15
Alignment explanation
Indices: 113624--113654 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
113614 TAAAAAGGTC
*
113624 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
113639 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
113654 C
1 C
113655 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:115748 original size:20 final size:20
Alignment explanation
Indices: 115669--115748 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
115659 AATGTCCAAA
*
115669 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATTTTTCT
* *
115689 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACAT-T----TTTCT
115714 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
115734 TTGTATCGATACATT
1 ATGTATCGATACATT
115749 GTATCGATAC
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
20 31 0.63
24 1 0.02
25 17 0.35
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:115752 original size:13 final size:13
Alignment explanation
Indices: 115734--115772 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
115724 ACATTTTTCT
115734 TTGTATCGATACA
1 TTGTATCGATACA
115747 TTGTATCGATACA
1 TTGTATCGATACA
*
115760 CTGTATCGATACA
1 TTGTATCGATACA
115773 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:115917 original size:21 final size:21
Alignment explanation
Indices: 115893--115939 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
115883 AAATCTTTTG
115893 CAAAAT-ACTT-GTTTTTCACTT
1 CAAAATAACTTCGTTTTTCA--T
115914 C-AAATAACTTCGTTTTTCAT
1 CAAAATAACTTCGTTTTTCAT
115934 CAAAAT
1 CAAAAT
115940 CAGCATTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
20 6 0.26
21 9 0.39
22 8 0.35
ACGTcount: A:0.34, C:0.19, G:0.04, T:0.43
Consensus pattern (21 bp):
CAAAATAACTTCGTTTTTCAT
Found at i:115936 original size:20 final size:19
Alignment explanation
Indices: 115895--115937 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
115885 ATCTTTTGCA
115895 AAATACTTGTTTTTCACTTC
1 AAATACTTGTTTTTCAC-TC
115915 AAATAACTTCGTTTTTCA-TC
1 AAAT-ACTT-GTTTTTCACTC
115935 AAA
1 AAA
115938 ATCAGCATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 9 0.43
21 4 0.19
22 8 0.38
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.44
Consensus pattern (19 bp):
AAATACTTGTTTTTCACTC
Found at i:118313 original size:13 final size:13
Alignment explanation
Indices: 118295--118320 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
118285 TACAGCAAGT
118295 ATGTATCGATACA
1 ATGTATCGATACA
118308 ATGTATCGATACA
1 ATGTATCGATACA
118321 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:123342 original size:34 final size:35
Alignment explanation
Indices: 123304--123370 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 35
123294 CCTTACAACA
123304 CTATC-TTTC-AAGGCCAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCCAAGATAG-AACCTCTCTCT
*
123338 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCCAAGATAGAACCTCTC
123371 AATCACTTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.41
37 12 0.41
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.31
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCCAAGATAGAACCTCTCTCT
Found at i:123848 original size:13 final size:13
Alignment explanation
Indices: 123830--123886 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
123820 CATTTTATGG
123830 TGTATCGATACAA
1 TGTATCGATACAA
123843 TGTATCGATACATA
1 TGTATCGATACA-A
123857 CTGTGTGTATCGATACAA
1 -----TGTATCGATACAA
123875 TGTATCGATACA
1 TGTATCGATACA
123887 TATTGTGTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 24 0.63
14 1 0.03
18 1 0.03
19 12 0.32
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:123867 original size:19 final size:19
Alignment explanation
Indices: 123843--123924 Score: 104
Period size: 19 Copynumber: 4.6 Consensus size: 19
123833 ATCGATACAA
123843 TGTATCGATACATACTGTG
1 TGTATCGATACATACTGTG
123862 TGTATCGATACA-A-----
1 TGTATCGATACATACTGTG
*
123875 TGTATCGATACATATTGTG
1 TGTATCGATACATACTGTG
*
123894 TGTATCGATATATACTGTG
1 TGTATCGATACATACTGTG
123913 TGTATCGATACA
1 TGTATCGATACA
123925 AGTTTGGCTA
Statistics
Matches: 54, Mismatches: 3, Indels: 12
0.78 0.04 0.17
Matches are distributed among these distances:
13 12 0.22
14 1 0.02
18 1 0.02
19 40 0.74
ACGTcount: A:0.29, C:0.13, G:0.20, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATACTGTG
Found at i:123870 original size:32 final size:32
Alignment explanation
Indices: 123807--123903 Score: 158
Period size: 32 Copynumber: 3.0 Consensus size: 32
123797 CGTTACAAGC
* *
123807 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATATTGT-GTGTATCGATA
*
123840 CAATGTATCGATACATACTGTGTGTATCGATA
1 CAATGTATCGATACATATTGTGTGTATCGATA
123872 CAATGTATCGATACATATTGTGTGTATCGATA
1 CAATGTATCGATACATATTGTGTGTATCGATA
123904 TATACTGTGT
Statistics
Matches: 60, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
32 42 0.70
33 18 0.30
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (32 bp):
CAATGTATCGATACATATTGTGTGTATCGATA
Found at i:126778 original size:16 final size:16
Alignment explanation
Indices: 126757--126795 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
126747 AACTGATGGA
*
126757 TCGACTTGATGGATGC
1 TCGACTCGATGGATGC
126773 TCGACTCGATGGATGC
1 TCGACTCGATGGATGC
126789 TCGACTC
1 TCGACTC
126796 TCCAAACTCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.18, C:0.26, G:0.28, T:0.28
Consensus pattern (16 bp):
TCGACTCGATGGATGC
Found at i:127787 original size:13 final size:13
Alignment explanation
Indices: 127769--127793 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
127759 CATTACGCTT
127769 TGTATCGATACAA
1 TGTATCGATACAA
127782 TGTATCGATACA
1 TGTATCGATACA
127794 TGTTTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:127886 original size:33 final size:33
Alignment explanation
Indices: 127844--127906 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
127834 TACCACTGTT
127844 TGTATCGATATATGA-CACATTGTATCGATACAA
1 TGTATCGATATATGATCA-ATTGTATCGATACAA
*
127877 TGTATCGATATATGATGAATTGTATCGATA
1 TGTATCGATATATGATCAATTGTATCGATA
127907 TATTGCTTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.37
Consensus pattern (33 bp):
TGTATCGATATATGATCAATTGTATCGATACAA
Found at i:135863 original size:53 final size:52
Alignment explanation
Indices: 135773--136374 Score: 511
Period size: 53 Copynumber: 11.4 Consensus size: 52
135763 AATTAAACCC
* *
135773 TTTACATATAAAATATTTTTTAGTTTTTATTATTTTTAAATAGTAATTTGAGG
1 TTTA-ATATAAAATATTTTTAAATTTTTATTATTTTTAAATAGTAATTTGAGG
* * *
135826 TTTACTCTAAAATATTTTTTAATTTTTATTACTTTTTAAATAGTAATTTG-GG
1 TTTAATATAAAATATTTTTAAATTTTTATTA-TTTTTAAATAGTAATTTGAGG
* *
135878 ATTTAATATAAAATATGATTTTAAAATTTTTATTATTTTTAAATAATAATTTGAGA
1 -TTTAATATAAAATAT--TTTT-AAATTTTTATTATTTTTAAATAGTAATTTGAGG
* *
135934 TTTTATATAAAATATATTTTTAAATTTTTATTATTTTTAAATAGTAATTTG-GA
1 TTTAATAT-AAA-ATATTTTTAAATTTTTATTATTTTTAAATAGTAATTTGAGG
* * **
135987 TCTTAATATAAAATA----T---TTTTTATT-TTTCTAATTAGTAATTTGATA
1 T-TTAATATAAAATATTTTTAAATTTTTATTATTTTTAAATAGTAATTTGAGG
* * *
136032 TTTTATATAAAATATATTTTTTAAATTTTATATTATTTTTAAATAATAA-TTCAGG
1 TTTAATAT-AAA-ATA-TTTTTAAATTTT-TATTATTTTTAAATAGTAATTTGAGG
* *
136087 ATTTAATATATAATA-TTTTAAATTTTATTATTATTTTTAAATATTAATTT-AGG
1 -TTTAATATAAAATATTTTTAAA-TTT-TTATTATTTTTAAATAGTAATTTGAGG
* * *
136140 ATTTAATAT-AAATATTTTTAAATTTATTATTATTTTTTTAATAGTAATTCGAGA
1 -TTTAATATAAAATATTTTTAAATTT-TTATTA-TTTTTAAATAGTAATTTGAGG
* ** **
136194 TTTAATATAAAATATTTTTAAAATTTTTATTATTTTTTAAATATTAATTCAAAA
1 TTTAATATAAAATATTTTT-AAATTTTTATTA-TTTTTAAATAGTAATTTGAGG
* * *
136248 TTTAATATAAAATGTTTTAAAATTTTTATTATTTTTTAAATAGTAATTCAT-A-A
1 TTTAATATAAAATATTTTTAAATTTTTATTA-TTTTTAAATAGTAATT--TGAGG
* * * **
136301 TTTAA-ATTAACAATTTTATTTAATTTTTTATTA-TTTTAAATCGTAATTTTTGG
1 TTTAATA-TAA-AATATT-TTTAAATTTTTATTATTTTTAAATAGTAATTTGAGG
*
136354 ATTTAATATAAATTATTTTTA
1 -TTTAATATAAAATATTTTTA
136375 TTTATTTTTT
Statistics
Matches: 464, Mismatches: 45, Indels: 81
0.79 0.08 0.14
Matches are distributed among these distances:
44 22 0.05
45 13 0.03
46 3 0.01
48 1 0.00
51 2 0.00
52 55 0.12
53 158 0.34
54 112 0.24
55 61 0.13
56 33 0.07
57 4 0.01
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (52 bp):
TTTAATATAAAATATTTTTAAATTTTTATTATTTTTAAATAGTAATTTGAGG
Found at i:136023 original size:44 final size:46
Alignment explanation
Indices: 135957--136052 Score: 126
Period size: 44 Copynumber: 2.1 Consensus size: 46
135947 ATATTTTTAA
*
135957 ATTTTTATTATTTTTAAATAGTAATTTGGAT-CTTAATATAAAATAT
1 ATTTTTATTATTTCTAAATAGTAATTT-GATACTTAATATAAAATAT
* * *
136003 -TTTTTATT-TTTCTAATTAGTAATTTGATATTTTATATAAAATAT
1 ATTTTTATTATTTCTAAATAGTAATTTGATACTTAATATAAAATAT
136047 ATTTTT
1 ATTTTT
136053 TAAATTTTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
43 3 0.07
44 28 0.64
45 13 0.30
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.57
Consensus pattern (46 bp):
ATTTTTATTATTTCTAAATAGTAATTTGATACTTAATATAAAATAT
Found at i:136040 original size:153 final size:153
Alignment explanation
Indices: 135773--136562 Score: 570
Period size: 160 Copynumber: 5.1 Consensus size: 153
135763 AATTAAACCC
* * * *
135773 TTTACATATAAAATATTTTTTAGTTTTTATTATTTTTAAATAGTAATTTGAGG-TTTACTCTAAA
1 TTTA-ATATAAAATATTTTTAAATTTTTATTATTTTTAAATAGTAATTT-AGGATTTAATAT-AA
* * *
135837 ATATTTTTTAATTTTTATTACTTTTTAAATAGTAATTTGGGATTTAATATAAAATATGATTTTAA
63 ATA----TTAATTTTT-TTATTTTTTTAATAGTAATTTGAGATTTAATATAAAATAT-ATTTTAA
*
135902 AATTTTTATTATTTTTAAATAATAATTTGAGA
122 AATTTTTATTATTTTTAAATAATAATTTAAGA
*
135934 TTTTATATAAAATATATTTTTAAATTTTTATTATTTTTAAATAGTAATTT-GGATCTTAATATAA
1 TTTAATAT-AAA-ATATTTTTAAATTTTTATTATTTTTAAATAGTAATTTAGGAT-TTAATATAA
* * * *
135998 A-A-T-A-TTTTTTATTTTTCTAATTAGTAATTTGATATTTTATATAAAATATATTTTTTAAATT
63 ATATTAATTTTTTTATTTTTTTAA-TAGTAATTTGAGATTTAATATAAAATATA-TTTTAAAATT
* *
136059 TTATATTATTTTTAAATAATAATTCAGGA
126 TT-TATTATTTTTAAATAATAATTTAAGA
* *
136088 TTTAATATATAATA-TTTTAAATTTTATTATTATTTTTAAATATTAATTTAGGATTTAATATAAA
1 TTTAATATAAAATATTTTTAAA-TTT-TTATTATTTTTAAATAGTAATTTAGGATTTAATATAAA
*
136152 TATTTTTAAATTTATTATTATTTTTTTAATAGTAATTCGAGATTTAATATAAAATAT-TTTTAAA
64 TA---TT-AATTT-TT-TTATTTTTTTAATAGTAATTTGAGATTTAATATAAAATATATTTTAAA
* * *
136216 ATTTTTATTATTTTTTAAATATTAATTCAAAA
123 ATTTTTATTA-TTTTTAAATAATAATTTAAGA
* * * **
136248 TTTAATATAAAATGTTTTAAAATTTTTATTATTTTTTAAATAGTAATTCATAATTTAA-ATTAAC
1 TTTAATATAAAATATTTTTAAATTTTTATTA-TTTTTAAATAGTAATTTAGGATTTAATA-T-A-
* *
136312 AATTTTATTTAA-TTTTTTATTATTTTAAATCGTAATTTTTG-GATTTAATAT-AAAT-TATTTT
62 AA---TA-TTAATTTTTTTATT-TTTTTAATAGTAA--TTTGAGATTTAATATAAAATATATTTT
* * *
136373 ----TATTTA-T-TTTTTAAATAATAACTCAA-A
120 AAAATTTTTATTATTTTTAAATAATAATTTAAGA
* ** * * *
136400 ATT--TAT---ATA-TTTGCAATATTTTATTATTTTTTAAA-AATAACTTAAGATTTAATATAAA
1 TTTAATATAAAATATTTTTAAAT-TTTTATTA-TTTTTAAATAGTAATTTAGGATTTAATATAAA
* * * * * * *
136458 TTTTTTAA-GTTTTTGTTTTTTAAATAATTATTTGAGA-TTAATAT-AAAT-TATTTT-TAA-TT
64 --TATTAATTTTTTTATTTTTTTAATAGTAATTTGAGATTTAATATAAAATATATTTTAAAATTT
* *
136517 TTATT-TTTTAAAATAATAGTTT-AGA
127 TTATTATTTTTAAATAATAATTTAAGA
136542 TTTAATATAAAATATTTTTAA
1 TTTAATATAAAATATTTTTAA
136563 TAGAAAATTA
Statistics
Matches: 520, Mismatches: 62, Indels: 107
0.75 0.09 0.16
Matches are distributed among these distances:
139 21 0.04
140 2 0.00
141 15 0.03
142 28 0.05
143 3 0.01
144 5 0.01
145 1 0.00
146 19 0.04
147 23 0.04
148 4 0.01
150 3 0.01
151 7 0.01
152 19 0.04
153 91 0.17
154 36 0.07
155 2 0.00
156 5 0.01
158 1 0.00
159 18 0.03
160 96 0.18
161 31 0.06
162 74 0.14
163 14 0.03
165 2 0.00
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.55
Consensus pattern (153 bp):
TTTAATATAAAATATTTTTAAATTTTTATTATTTTTAAATAGTAATTTAGGATTTAATATAAATA
TTAATTTTTTTATTTTTTTAATAGTAATTTGAGATTTAATATAAAATATATTTTAAAATTTTTAT
TATTTTTAAATAATAATTTAAGA
Found at i:136105 original size:100 final size:99
Alignment explanation
Indices: 135904--136212 Score: 326
Period size: 98 Copynumber: 3.0 Consensus size: 99
135894 GATTTTAAAA
*
135904 TTTTTATTATTTTTAAATAATAATTTGAGATTTTATATAAAATATATTTTTAAATTTTTATTATT
1 TTTTTATTATTTCTAAATAATAATTTGAGATTTTATATAAAATATATTTTTAAATTTTTATTATT
* *
135969 TTTAAATAGTAATTTGGATCTTAATATAAAATAT
66 TTTAAATAATAATTAGGATCTTAATATAAAATAT
* * *
136003 TTTTTATT-TTTCTAATTAGTAATTTGATATTTTATATAAAATATATTTTTTAAATTTTATATTA
1 TTTTTATTATTTCTAAATAATAATTTGAGATTTTATATAAAATATA-TTTTTAAATTTT-TATTA
136067 TTTTTAAATAATAATTCAGGAT-TTAATATATAATATTTTAAAT
64 TTTTTAAATAATAATT-AGGATCTTAATATA-AA-A---T--AT
* * *
136110 TTTATTATTATTTTTAAATATTAATTT-AGGA-TTTA-ATATAA-ATATTTTTAAATTTATTATT
1 TTT-TTATTATTTCTAAATAATAATTTGA-GATTTTATATAAAATATATTTTTAAATTT-TTATT
* * *
136171 ATTTTTTTAATAGTAATTCGAGAT-TTAATATAAAATAT
63 A-TTTTTAAATAATAATTAG-GATCTTAATATAAAATAT
136209 TTTT
1 TTTT
136213 AAAATTTTTA
Statistics
Matches: 180, Mismatches: 14, Indels: 33
0.79 0.06 0.15
Matches are distributed among these distances:
98 34 0.19
99 25 0.14
100 28 0.16
101 7 0.04
102 1 0.01
104 1 0.01
105 20 0.11
106 29 0.16
107 10 0.06
108 10 0.06
109 15 0.08
ACGTcount: A:0.39, C:0.01, G:0.05, T:0.56
Consensus pattern (99 bp):
TTTTTATTATTTCTAAATAATAATTTGAGATTTTATATAAAATATATTTTTAAATTTTTATTATT
TTTAAATAATAATTAGGATCTTAATATAAAATAT
Found at i:136358 original size:107 final size:104
Alignment explanation
Indices: 135773--136374 Score: 451
Period size: 107 Copynumber: 5.7 Consensus size: 104
135763 AATTAAACCC
* * * * * *
135773 TTTACATATAAAATATTT-TTTAGTTTTTATTATTTTTAAATAGTAATTTGAGG-TTTACTCTAA
1 TTTAAATATAAAAT-TTTATTAATTTTTTATTATTTTTAAATATTAATTT-AGGATTTAATAT-A
* * **
135836 AATATTTTTTAATTTTTATTACTTTTTAAATAGTAATTTGGGA
63 AATATTTTTAAATTTTTATTATTTTTTAAATAGTAA-TTCAGA
* *
135879 TTT-AATATAAAATATGATT-TTAAAATTTTTATTATTTTTAAATAATAATTT-GAGATTTTATA
1 TTTAAATATAAAAT-T--TTATT-AATTTTTTATTATTTTTAAATATTAATTTAG-GA-TTTA-A
* **
135941 TAAAATATATTTTTAAATTTTTATTA-TTTTTAAATAGTAATTTGGA
59 TATAA-ATATTTTTAAATTTTTATTATTTTTTAAATAGTAATTCAGA
* * * * *
135987 TCTT-AATAT-AAA----A-T-ATTTTTTATT-TTTCTAATTAGTAATTT-GATATTTTATATAA
1 T-TTAAATATAAAATTTTATTAATTTTTTATTATTTTTAAATATTAATTTAG-GA-TTTA-ATAT
*
136042 AATATATTTTTTAAATTTTATATTA-TTTTTAAATAATAATTCAGGA
62 AA-ATA-TTTTTAAATTTT-TATTATTTTTTAAATAGTAATTCA-GA
*
136088 TTTAATATATAATATTTTA--AATTTTATTATTATTTTTAAATATTAATTTAGGATTTAATATAA
1 TTTAA-ATATAAAATTTTATTAATTTT-TTATTATTTTTAAATATTAATTTAGGATTTAATATAA
*
136151 ATATTTTTAAATTTATTATTATTTTTTTAATAGTAATTCGAGA
64 ATATTTTTAAATTT-TTATTATTTTTTAAATAGTAATTC-AGA
* * **
136194 TTT-AATATAAAATATTT-TTAAAATTTTTATTATTTTTTAAATATTAATTCAAAATTTAATATA
1 TTTAAATATAAAAT-TTTATT-AATTTTTTATTA-TTTTTAAATATTAATTTAGGATTTAATATA
*
136257 AA-ATGTTTTAAAATTTTTATTATTTTTTAAATAGTAATTCATAA
63 AATAT-TTTT-AAATTTTTATTATTTTTTAAATAGTAATTCA-GA
** *
136301 TTTAAAT-TAACAATTTTATTTAATTTTTTATTA-TTTTAAATCGTAATTTTTGGATTTAATATA
1 TTTAAATATAA-AATTTTA-TTAATTTTTTATTATTTTTAAATATTAA-TTTAGGATTTAATATA
136364 AATTATTTTTA
63 AA-TATTTTTA
136375 TTTATTTTTT
Statistics
Matches: 415, Mismatches: 39, Indels: 83
0.77 0.07 0.15
Matches are distributed among these distances:
98 33 0.08
99 21 0.05
100 22 0.05
101 5 0.01
102 4 0.01
103 2 0.00
104 8 0.02
105 31 0.07
106 48 0.12
107 103 0.25
108 71 0.17
109 46 0.11
110 21 0.05
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (104 bp):
TTTAAATATAAAATTTTATTAATTTTTTATTATTTTTAAATATTAATTTAGGATTTAATATAAAT
ATTTTTAAATTTTTATTATTTTTTAAATAGTAATTCAGA
Found at i:136477 original size:47 final size:46
Alignment explanation
Indices: 136353--136563 Score: 161
Period size: 47 Copynumber: 4.5 Consensus size: 46
136343 GTAATTTTTG
*
136353 GATTTAATATAAATTATTTTT-A-TTTATTTTTTAAATAATAACTCAA
1 GATTTAATATAAA-TATTTTTAATTTTATTTTTTAAA-AATAACTTAA
* *
136399 AATTTATATATTTGCAATA-TTTT-A--TTATTTTTTAAAAATAACTTAA
1 GATTTA-ATA--T-AAATATTTTTAATTTTATTTTTTAAAAATAACTTAA
* * * *
136445 GATTTAATATAAAT-TTTTTAAGTTTTTGTTTTTTAAATAATTATTTGA
1 GATTTAATATAAATATTTTTAA--TTTTATTTTTTAAA-AATAACTTAA
* *
136493 GA-TTAATATAAATTATTTTTAATTTTATTTTTT-AAAATAATAGTTTA
1 GATTTAATATAAA-TATTTTTAATTTTATTTTTTAAAAAT-A-ACTTAA
136540 GATTTAATATAAAATATTTTTAAT
1 GATTTAATAT-AAATATTTTTAAT
136564 AGAAAATTAG
Statistics
Matches: 135, Mismatches: 13, Indels: 32
0.75 0.07 0.18
Matches are distributed among these distances:
42 7 0.05
43 2 0.01
45 6 0.04
46 21 0.16
47 52 0.39
48 32 0.24
49 13 0.10
50 2 0.01
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (46 bp):
GATTTAATATAAATATTTTTAATTTTATTTTTTAAAAATAACTTAA
Found at i:138089 original size:2 final size:2
Alignment explanation
Indices: 138082--138119 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
138072 TATTCTGTGA
138082 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
138120 CTTAGATGCC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:138396 original size:13 final size:14
Alignment explanation
Indices: 138374--138406 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
138364 TAAAATGAGA
138374 ATAAAAATAATTAT
1 ATAAAAATAATTAT
*
138388 -TAAAGATAATTAT
1 ATAAAAATAATTAT
138401 ATAAAA
1 ATAAAA
138407 TACATATCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 2
0.80 0.10 0.10
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (14 bp):
ATAAAAATAATTAT
Found at i:138566 original size:17 final size:17
Alignment explanation
Indices: 138546--138592 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
138536 TATTTTATTT
138546 AATATTATAATTAATTA
1 AATATTATAATTAATTA
138563 AATATTAT--TTAAATTA
1 AATATTATAATT-AATTA
*
138579 AAAATTA-AATTAAT
1 AATATTATAATTAAT
138593 AAAAATAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
15 2 0.08
16 14 0.54
17 10 0.38
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AATATTATAATTAATTA
Found at i:144537 original size:13 final size:13
Alignment explanation
Indices: 144519--144546 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
144509 TAAAGATCAG
144519 TGTATCGATACAA
1 TGTATCGATACAA
144532 TGTATCGATACAA
1 TGTATCGATACAA
144545 TG
1 TG
144547 AGTAATGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:144608 original size:19 final size:19
Alignment explanation
Indices: 144584--144649 Score: 90
Period size: 19 Copynumber: 3.8 Consensus size: 19
144574 AGTAGCTTCA
144584 TATGTATCGATACAACACT
1 TATGTATCGATACAACACT
144603 TATGTATCGAT---ACA--
1 TATGTATCGATACAACACT
144617 T-TGTATCGATACAACACT
1 TATGTATCGATACAACACT
144635 TATGTATCGATACAA
1 TATGTATCGATACAA
144650 ATCGTTGACA
Statistics
Matches: 41, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
13 9 0.22
14 1 0.02
16 6 0.15
18 1 0.02
19 24 0.59
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.33
Consensus pattern (19 bp):
TATGTATCGATACAACACT
Found at i:144623 original size:13 final size:13
Alignment explanation
Indices: 144605--144629 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
144595 ACAACACTTA
144605 TGTATCGATACAT
1 TGTATCGATACAT
144618 TGTATCGATACA
1 TGTATCGATACA
144630 ACACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:144627 original size:32 final size:32
Alignment explanation
Indices: 144586--144648 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
144576 TAGCTTCATA
144586 TGTATCGATACAACACTTATGTATCGATACAT
1 TGTATCGATACAACACTTATGTATCGATACAT
144618 TGTATCGATACAACACTTATGTATCGATACA
1 TGTATCGATACAACACTTATGTATCGATACA
144649 AATCGTTGAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (32 bp):
TGTATCGATACAACACTTATGTATCGATACAT
Found at i:145229 original size:97 final size:96
Alignment explanation
Indices: 145063--145297 Score: 265
Period size: 97 Copynumber: 2.4 Consensus size: 96
145053 TTATTTATCA
* ** * *
145063 AGGATACTCCAACCCTATTCCTCCGAAAGGATGCTCCAATCCCGCTTTTAAACCCATCAAACTTT
1 AGGATACTCCAACCCCATTCCTCCGAGGGGATACTCCAA-CCCGCTTTTAAACCCATCAAACTTC
* * * *
145128 AAATCTTCTTTTTGCTTAAATTGTCATCATCG
65 AAATCTTATTCTCGCTTAAATCGTCATCATCG
* * ***
145160 AGGATACTCCAACCCCATTCCTCTGAGGGGATATTCCAACCCTGCTTTTAAACTTGTCAAGA-TT
1 AGGATACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCC-GCTTTTAAACCCATCAA-ACTT
*
145224 CAAATCTTATTCTCGCTTAAATCGTCATCATTG
64 CAAATCTTATTCTCGCTTAAATCGTCATCATCG
* * * *
145257 GGGACACTTCAACCCCATTCCTCCGAGGGAATACTCCAACC
1 AGGATACTCCAACCCCATTCCTCCGAGGGGATACTCCAACC
145298 TCATTTTTTT
Statistics
Matches: 115, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
96 3 0.03
97 111 0.97
98 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.13, T:0.30
Consensus pattern (96 bp):
AGGATACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCCGCTTTTAAACCCATCAAACTTCA
AATCTTATTCTCGCTTAAATCGTCATCATCG
Found at i:150271 original size:20 final size:20
Alignment explanation
Indices: 150227--150296 Score: 77
Period size: 20 Copynumber: 3.4 Consensus size: 20
150217 CATGGCTTGG
**
150227 TATCGATACATTTCAAATATA
1 TATCGATACA-TTCACTTATA
*
150248 TATCGATACATTCACTTATG
1 TATCGATACATTCACTTATA
* *
150268 TATCGATATATTAACTTATTA
1 TATCGATACATTCACTTA-TA
150289 TATCGATA
1 TATCGATA
150297 TAAATTGTAA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 23 0.55
21 19 0.45
ACGTcount: A:0.37, C:0.14, G:0.07, T:0.41
Consensus pattern (20 bp):
TATCGATACATTCACTTATA
Found at i:152130 original size:17 final size:17
Alignment explanation
Indices: 152110--152143 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
152100 ATTTTGATTG
152110 TTTTGAATCTAA-AATTT
1 TTTTGAAT-TAATAATTT
152127 TTTTGAATTAATAATTT
1 TTTTGAATTAATAATTT
152144 GAAGATATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.19
17 13 0.81
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (17 bp):
TTTTGAATTAATAATTT
Found at i:152884 original size:2 final size:2
Alignment explanation
Indices: 152877--152913 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
152867 AGTTTATTAA
152877 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
152914 AACTTGAAGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:152993 original size:2 final size:2
Alignment explanation
Indices: 152986--153024 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
152976 TAATACTTTC
152986 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
153025 AAAGCTAAAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:154701 original size:16 final size:17
Alignment explanation
Indices: 154682--154727 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
154672 CTCAAATCTT
* *
154682 AAAACAATCAAAATTGA
1 AAAATAATCAAAATTCA
*
154699 AAAATAATTAAAATTC-
1 AAAATAATCAAAATTCA
154715 AAAATAATCAAAA
1 AAAATAATCAAAA
154728 CATAAAATGA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
16 12 0.48
17 13 0.52
ACGTcount: A:0.67, C:0.09, G:0.02, T:0.22
Consensus pattern (17 bp):
AAAATAATCAAAATTCA
Found at i:162745 original size:2 final size:2
Alignment explanation
Indices: 162738--162768 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
162728 TAATATACAT
162738 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
162769 CAGAAATGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:167756 original size:5 final size:5
Alignment explanation
Indices: 167739--167769 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
167729 TCCCCAGTTA
*
167739 TAAAT TAAGT TAAAT TAAAT TAAAT TAAAT T
1 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT T
167770 GGAAGAATGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (5 bp):
TAAAT
Found at i:168122 original size:21 final size:20
Alignment explanation
Indices: 168075--168130 Score: 62
Period size: 21 Copynumber: 2.9 Consensus size: 20
168065 TTATAATACT
168075 TTTAAATT-TTTAATTAAAA
1 TTTAAATTATTTAATTAAAA
* * *
168094 TTTTAATTAATTTAATTTAAG
1 TTTAAATT-ATTTAATTAAAA
168115 TTTAAATTA-TTAATTA
1 TTTAAATTATTTAATTA
168131 TTTTATATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
19 13 0.43
20 1 0.03
21 16 0.53
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (20 bp):
TTTAAATTATTTAATTAAAA
Found at i:168153 original size:25 final size:26
Alignment explanation
Indices: 168115--168164 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
168105 TTAATTTAAG
*
168115 TTTAAATTATTAAT-TATTTTATATT
1 TTTAAATTAATAATATATTTTATATT
*
168140 TTTATATTAATAATAATATTTTATA
1 TTTAAATTAATAAT-ATATTTTATA
168165 ATTAAATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 12 0.57
27 9 0.43
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (26 bp):
TTTAAATTAATAATATATTTTATATT
Found at i:169941 original size:12 final size:13
Alignment explanation
Indices: 169880--169941 Score: 51
Period size: 12 Copynumber: 4.8 Consensus size: 13
169870 TTTTTTTGAG
169880 ATTTATCTTGTTA
1 ATTTATCTTGTTA
169893 AGTTTATCTT-TGT-
1 A-TTTATCTTGT-TA
*
169906 ATTTATCTT-TTC
1 ATTTATCTTGTTA
*
169918 ATCTTTTCTTGTT-
1 AT-TTATCTTGTTA
169931 ATTTATCTTGT
1 ATTTATCTTGT
169942 ACTTAGATTG
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
11 1 0.02
12 19 0.45
13 11 0.26
14 11 0.26
ACGTcount: A:0.16, C:0.11, G:0.08, T:0.65
Consensus pattern (13 bp):
ATTTATCTTGTTA
Found at i:171056 original size:20 final size:19
Alignment explanation
Indices: 171002--171057 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
170992 AAAACCCTTA
*
171002 AAAGTATCGATACACAGTTC
1 AAAGTATCGATACA-TGTTC
171022 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATGTT-C
*
171042 AATGTATCGATACATG
1 AAAGTATCGATACATG
171058 AAAAAGATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 3 0.09
20 30 0.91
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.29
Consensus pattern (19 bp):
AAAGTATCGATACATGTTC
Found at i:171150 original size:32 final size:33
Alignment explanation
Indices: 171109--171173 Score: 105
Period size: 34 Copynumber: 2.0 Consensus size: 33
171099 TAGCCAAACT
171109 TGTATCGATACAC-AAAATATGAATCGATACAA
1 TGTATCGATACACAAAAATATGAATCGATACAA
*
171141 TGTATCGATACACAAAAAATATGTATCGATACA
1 TGTATCGATACAC-AAAAATATGAATCGATACA
171174 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 13 0.43
34 17 0.57
ACGTcount: A:0.46, C:0.15, G:0.12, T:0.26
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATGAATCGATACAA
Found at i:175241 original size:15 final size:15
Alignment explanation
Indices: 175221--175251 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
175211 TAAAAATGTC
*
175221 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
175236 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
175251 C
1 C
175252 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:177349 original size:13 final size:13
Alignment explanation
Indices: 177331--177381 Score: 93
Period size: 13 Copynumber: 3.9 Consensus size: 13
177321 ATTTTTTCTT
177331 TGTATCGATACAA
1 TGTATCGATACAA
177344 TGTATCGATACAA
1 TGTATCGATACAA
*
177357 TGTATCGATACAC
1 TGTATCGATACAA
177370 TGTATCGATACA
1 TGTATCGATACA
177382 GGGGGATTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 37 1.00
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Done.