Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1467
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: 113544
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Found at i:587 original size:13 final size:13
Alignment explanation
Indices: 571--595 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
561 TGTTTTGTTT
571 TTTTTTTTTTTGC
1 TTTTTTTTTTTGC
584 TTTTTTTTTTTG
1 TTTTTTTTTTTG
596 AAGAGAAGGT
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:0.00, C:0.04, G:0.08, T:0.88
Consensus pattern (13 bp):
TTTTTTTTTTTGC
Found at i:590 original size:16 final size:16
Alignment explanation
Indices: 552--594 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 16
542 TCTTTTCTCT
* *
552 CTTTTTCTTTGTTTTG
1 CTTTTTTTTTTTTTTG
568 -TTTTTTTTTTTTTTG
1 CTTTTTTTTTTTTTTG
583 CTTTTTTTTTTT
1 CTTTTTTTTTTT
595 GAAGAGAAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 13 0.54
16 11 0.46
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.86
Consensus pattern (16 bp):
CTTTTTTTTTTTTTTG
Found at i:13065 original size:79 final size:77
Alignment explanation
Indices: 12845--13077 Score: 243
Period size: 79 Copynumber: 2.9 Consensus size: 77
12835 ATATTTCCCG
* * * * * *
12845 ATGAGAAATTTAATATTTTGGAGATAATAACGGGGTTGGAGTGTCCCCTTGAAAATGACGGGGCT
1 ATGAGAAA-TCAATATTTTGGA-ATAA-AACGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTT
**
12910 GGAGTATCCCCGGTT
63 GGAGTATCCCCAATT
* * * * * * *
12925 GTGAGAAATCGATGA-TTAGGAAAAAAATCGGGATTAGAGTATCCCCTCAGAAATAACGGGGTTG
1 ATGAGAAATCAAT-ATTTTGGAATAAAA-CGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTG
12989 GAGTATCCCCAATT
64 GAGTATCCCCAATT
**
13003 ATGAGAAATCAATATTTTGGGAATAAAACCGGGGTTGGAGTATCCCCTCGGAGGTAACGGGGTTG
1 ATGAGAAATCAATATTTT-GGAATAAAA-CGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTG
13068 GAGTATCCCC
64 GAGTATCCCC
13078 GATGAAATAA
Statistics
Matches: 124, Mismatches: 25, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
77 3 0.02
78 56 0.45
79 57 0.46
80 8 0.06
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.25
Consensus pattern (77 bp):
ATGAGAAATCAATATTTTGGAATAAAACGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGA
GTATCCCCAATT
Found at i:13088 original size:28 final size:28
Alignment explanation
Indices: 13032--13108 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 28
13022 GGAATAAAAC
*** **
13032 CGGGGTTGGAGTATCCCCTCGGAGGTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
13060 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
* *
13088 CGAGGTTGGAGTATCCTCGAT
1 CGGGGTTGGAGTATCCCCGAT
13109 TGTGAAAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.22, C:0.19, G:0.35, T:0.23
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:13214 original size:52 final size:53
Alignment explanation
Indices: 13115--13215 Score: 123
Period size: 52 Copynumber: 1.9 Consensus size: 53
13105 CGATTGTGAA
** * **
13115 AAAATTGGTGTTTTTGGAAATAAAATCGAAGCTGGAGTATCTTCGATTAAAGG
1 AAAATTGGTGTTTTTAAAAATAAAACCGAAGCTGGAGTATCCCCGATTAAAGG
** *
13168 AAAATTGGTG-TTTTAAAAATAAAACCGGGGTTGGAGTATCCCCGATTA
1 AAAATTGGTGTTTTTAAAAATAAAACCGAAGCTGGAGTATCCCCGATTA
13216 TGAGAAATCA
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
52 30 0.75
53 10 0.25
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.31
Consensus pattern (53 bp):
AAAATTGGTGTTTTTAAAAATAAAACCGAAGCTGGAGTATCCCCGATTAAAGG
Found at i:13241 original size:212 final size:210
Alignment explanation
Indices: 12981--13424 Score: 642
Period size: 212 Copynumber: 2.1 Consensus size: 210
12971 TCAGAAATAA
* ** *
12981 CGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAAGAATAAAACAGGGGTTGGAGTAT
**
13046 CCCCTCGGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAAC-GAGGTTGGAGTAT-CCTCGAT
66 CCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATG-AATAACAG-GGTTGGAGTATCCCT-GAT
* **
13109 TGTGAAAAAATTGGT-GTTTTTGGAAATAAAATCGAAGCTGGAGTATCTTCGATTAAAGGAAAAT
128 TGTG-AAAAATTGGTACTTTTTGGAAATAAAATCGAAGCTGGAGTATCCCCGATTAAA-GAAAAT
*
13173 TGGTGTTTTAAAAATAAAAC
191 TAGTGTTTTAAAAATAAAAC
*
13193 CGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAAGAATAAAGCAGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAAGAATAAAACAGGGGTTGGAGTAT
*
13258 CCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGATTAACAGGGTTGGAGTATCCCTGATTGT
66 CCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAATAACAGGGTTGGAGTATCCCTGATTGT
* * *
13323 GAAAAATTGGTACTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTATAGAAAATTAGTG
131 GAAAAATTGGTACTTTTTGGAAATAAAATCGAAGCTGGAGTATCCCCGATTAAAGAAAATTAGTG
* *
13388 TTTTGAAAATAAAAT
196 TTTTAAAAATAAAAC
* * *
13403 CGGAGATGGAATATCCCCGATT
1 CGGGGTTGGAGTATCCCCGATT
13425 GCGGAGAATT
Statistics
Matches: 209, Mismatches: 20, Indels: 8
0.88 0.08 0.03
Matches are distributed among these distances:
210 52 0.25
211 59 0.28
212 98 0.47
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.28
Consensus pattern (210 bp):
CGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAAGAATAAAACAGGGGTTGGAGTAT
CCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAATAACAGGGTTGGAGTATCCCTGATTGT
GAAAAATTGGTACTTTTTGGAAATAAAATCGAAGCTGGAGTATCCCCGATTAAAGAAAATTAGTG
TTTTAAAAATAAAAC
Found at i:13307 original size:27 final size:28
Alignment explanation
Indices: 13246--13315 Score: 88
Period size: 27 Copynumber: 2.5 Consensus size: 28
13236 AATAAAGCAG
** *
13246 GGGTTGGAGTATCCCCTCGGAAATAACG
1 GGGTTGGAGTATCCCCGAGGAAATAACA
* *
13274 GGGTTGGAGTATCCCCGATG-ATTAACA
1 GGGTTGGAGTATCCCCGAGGAAATAACA
13301 GGGTTGGAGTATCCC
1 GGGTTGGAGTATCCC
13316 TGATTGTGAA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 20 0.54
28 17 0.46
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (28 bp):
GGGTTGGAGTATCCCCGAGGAAATAACA
Found at i:13383 original size:53 final size:51
Alignment explanation
Indices: 13303--13424 Score: 147
Period size: 51 Copynumber: 2.4 Consensus size: 51
13293 GATTAACAGG
* * * * *
13303 GTTGGAGTATCCCTGATTGTGAAAAATTGGTACTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTAGT--GTTTTGAAAATAAAATCGGA
13356 GTTGGAGTATCCCCGATTAT-AGAAAATTAGTGTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGA-AAAATTAGTGTTTTGAAAATAAAATCGGA
* *
13407 GATGGAATATCCCCGATT
1 GTTGGAGTATCCCCGATT
13425 GCGGAGAATT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
51 34 0.56
52 1 0.02
53 26 0.43
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGAAAATAAAATCGGA
Found at i:15803 original size:13 final size:13
Alignment explanation
Indices: 15785--15810 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15775 ACAAAGATCC
15785 ATGTATCGATACA
1 ATGTATCGATACA
15798 ATGTATCGATACA
1 ATGTATCGATACA
15811 CAGAAAAATG
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:15809 original size:33 final size:33
Alignment explanation
Indices: 15767--15830 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
15757 ATTCCCAAAA
***
15767 GTATCGATACAAAGATCCATGTATCGATACAAT
1 GTATCGATACAAAGAAAAATGTATCGATACAAT
*
15800 GTATCGATACACAGAAAAATGTATCGATACA
1 GTATCGATACAAAGAAAAATGTATCGATACA
15831 TTTCCTTGGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.42, C:0.17, G:0.16, T:0.25
Consensus pattern (33 bp):
GTATCGATACAAAGAAAAATGTATCGATACAAT
Found at i:15896 original size:32 final size:32
Alignment explanation
Indices: 15854--15924 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
15844 AGCTTCCTAG
15854 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
* *
15886 TGATACATTGTATCGATACAATACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
15918 CGATACA
1 CGATACA
15925 AATCGCTGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:15918 original size:19 final size:18
Alignment explanation
Indices: 15862--15926 Score: 68
Period size: 19 Copynumber: 3.8 Consensus size: 18
15852 AGCGATACAT
15862 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
*
15881 TGTATTGATAC--A--T-
1 TGTATCGATACAAACTTA
15894 TGTATCGATACAATACTTA
1 TGTATCGATACAA-ACTTA
15913 TGTATCGATACAAA
1 TGTATCGATACAAA
15927 TCGCTGAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 13
0.72 0.04 0.25
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
16 2 0.05
18 2 0.05
19 23 0.61
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.35
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:15988 original size:21 final size:21
Alignment explanation
Indices: 15962--16038 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
15952 GTTGGGACCT
* *
15962 TGTATCGATACATTTGTA-TAA
1 TGTATCGATACA-TTCTACAAA
*
15983 TGTATCGATACATTCCACAAA
1 TGTATCGATACATTCTACAAA
16004 TGTATCGATACATTCTACAAA
1 TGTATCGATACATTCTACAAA
16025 TGTATCGATACATT
1 TGTATCGATACATT
16039 TGGATAAATT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 3 0.06
21 48 0.94
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTCTACAAA
Found at i:20588 original size:19 final size:19
Alignment explanation
Indices: 20564--20619 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 19
20554 TTACACCAAA
*
20564 AAAAACAAAA-AAACAAAAT
1 AAAAACAAAACAAA-AAAAC
20583 AAAAACAAAACAAAAAAAC
1 AAAAACAAAACAAAAAAAC
20602 AAAAA-AAAACAAGAAAAA
1 AAAAACAAAACAA-AAAAA
20620 ATAGCAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
18 7 0.21
19 24 0.71
20 3 0.09
ACGTcount: A:0.86, C:0.11, G:0.02, T:0.02
Consensus pattern (19 bp):
AAAAACAAAACAAAAAAAC
Found at i:20611 original size:23 final size:23
Alignment explanation
Indices: 20561--20632 Score: 94
Period size: 23 Copynumber: 3.1 Consensus size: 23
20551 CCTTTACACC
20561 AAAA-AAAACAAAAAAACAAAATA
1 AAAACAAAACAAAAAAACAAAA-A
20584 AAAACAAAACAAAAAAACAAAAA
1 AAAACAAAACAAAAAAACAAAAA
* *
20607 AAAACAAGAA-AAAATAGCAAAAA
1 AAAACAA-AACAAAAAAACAAAAA
20630 AAA
1 AAA
20633 GAAAGGGGTT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
23 26 0.58
24 19 0.42
ACGTcount: A:0.85, C:0.10, G:0.03, T:0.03
Consensus pattern (23 bp):
AAAACAAAACAAAAAAACAAAAA
Found at i:20618 original size:8 final size:8
Alignment explanation
Indices: 20562--20608 Score: 69
Period size: 8 Copynumber: 5.9 Consensus size: 8
20552 CTTTACACCA
20562 AAAAAAAC
1 AAAAAAAC
20570 AAAAAAAC
1 AAAAAAAC
20578 AAAATAAA-
1 AAAA-AAAC
*
20586 AACAAAAC
1 AAAAAAAC
20594 AAAAAAAC
1 AAAAAAAC
20602 AAAAAAA
1 AAAAAAA
20609 AACAAGAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
7 3 0.09
8 29 0.83
9 3 0.09
ACGTcount: A:0.87, C:0.11, G:0.00, T:0.02
Consensus pattern (8 bp):
AAAAAAAC
Found at i:20618 original size:13 final size:11
Alignment explanation
Indices: 20561--20632 Score: 67
Period size: 11 Copynumber: 6.4 Consensus size: 11
20551 CCTTTACACC
*
20561 AAAAAA-AACA
1 AAAAAACAAAA
20571 AAAAAACAAAA
1 AAAAAACAAAA
*
20582 TAAAAACAAAA
1 AAAAAACAAAA
20593 CAAAAAA-ACAAA
1 -AAAAAACA-AAA
20605 AAAAAACAAGAA
1 AAAAAACAA-AA
*
20617 AAAATAGCAAAA
1 AAAA-AACAAAA
20629 AAAA
1 AAAA
20633 GAAAGGGGTT
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
10 6 0.12
11 21 0.40
12 21 0.40
13 4 0.08
ACGTcount: A:0.85, C:0.10, G:0.03, T:0.03
Consensus pattern (11 bp):
AAAAAACAAAA
Found at i:21834 original size:13 final size:13
Alignment explanation
Indices: 21816--21841 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21806 TACACCAAGT
21816 ATGTATCGATACA
1 ATGTATCGATACA
21829 ATGTATCGATACA
1 ATGTATCGATACA
21842 CTAAAAAATT
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:24099 original size:22 final size:21
Alignment explanation
Indices: 24072--24123 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
24062 TTGCAAGTTG
24072 AAATAAAAAATTTAGCTAATG-A
1 AAATAAAAAA-TTAGCTAA-GAA
**
24094 AAATAATGAATTAGCTAAGAA
1 AAATAAAAAATTAGCTAAGAA
24115 AAATAAAAA
1 AAATAAAAA
24124 CTTGCATGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
20 1 0.04
21 16 0.64
22 8 0.32
ACGTcount: A:0.63, C:0.04, G:0.10, T:0.23
Consensus pattern (21 bp):
AAATAAAAAATTAGCTAAGAA
Found at i:28187 original size:20 final size:20
Alignment explanation
Indices: 28144--28190 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
28134 AAATCTTTTG
28144 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
28165 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
28185 CAAAAT
1 CAAAAT
28191 CAGCCTCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 6 0.26
21 9 0.39
22 8 0.35
ACGTcount: A:0.32, C:0.19, G:0.04, T:0.45
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:30599 original size:34 final size:32
Alignment explanation
Indices: 30537--30599 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
30527 TAGCCAAACT
**
30537 TGTATCGATACACCAAGTATGTATCGATATAA
1 TGTATCGATACACCAAAAATGTATCGATATAA
30569 TGTATCGATACACCAAAAAATTGTATCGATA
1 TGTATCGATACACC-AAAAA-TGTATCGATA
30600 CATTGGCTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
32 14 0.52
33 3 0.11
34 10 0.37
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (32 bp):
TGTATCGATACACCAAAAATGTATCGATATAA
Found at i:31785 original size:29 final size:29
Alignment explanation
Indices: 31745--32120 Score: 515
Period size: 29 Copynumber: 12.9 Consensus size: 29
31735 TGTTCATCCC
*
31745 TTTCAAAGCCCACAATTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
31774 TTTCAAAGCCCACAAGTCAGTGGTAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
31802 TTTCAAAGCCCACAATTCAATGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
31831 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* * *
31859 TTTCAAAGCCTACAAGTTAGTGGCATTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* * *
31888 TTTCAAAGCCCACAAATTACTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
31917 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
31946 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
31975 TTTCAAAGCCCACAAATCAGTGACACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
32004 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
32032 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* **
32061 TTTCAAAGCCCACACGAATTGGTGGCAACTCT
1 TTTCAAAGCCCACA--AGTCAGTGGC-ACTCT
*
32093 TTTCAAAGCCCACACAAGTTAGTGGCAC
1 TTTCAAAG-CC-CACAAGTCAGTGGCAC
32121 CATTTTTTAA
Statistics
Matches: 307, Mismatches: 32, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
28 75 0.24
29 196 0.64
31 9 0.03
32 21 0.07
33 2 0.01
34 4 0.01
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.24
Consensus pattern (29 bp):
TTTCAAAGCCCACAAGTCAGTGGCACTCT
Found at i:31830 original size:57 final size:57
Alignment explanation
Indices: 31742--32074 Score: 515
Period size: 57 Copynumber: 5.8 Consensus size: 57
31732 GAATGTTCAT
*
31742 CCCTTTCAAAGCCCACAATTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGTA
1 CCCTTTCAAAGCCCACAATTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
*
31799 CCCTTTCAAAGCCCACAATTCAATGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAATTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
* * * * *
31856 CCCTTTCAAAGCCTACAAGTT-AGTGGCATTCTTTTCAAAGCCCACAAATTACTGGCA
1 CCCTTTCAAAGCCCACAA-TTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
31913 CTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
1 C-CCTTTCAAAGCCCACAATTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
* * *
31971 CTCTTTTCAAAGCCCACAAATCAGTGACACTCTTTTCAAAGCCCACAAGTCAGTGGCA
1 C-CCTTTCAAAGCCCACAATTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
*
32029 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACA
1 CCCTTTCAAAGCCCACAATTCAGTGGCACTCTTTTCAAAGCCCACA
32075 CGAATTGGTG
Statistics
Matches: 253, Mismatches: 20, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
57 147 0.58
58 106 0.42
ACGTcount: A:0.29, C:0.32, G:0.15, T:0.24
Consensus pattern (57 bp):
CCCTTTCAAAGCCCACAATTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
Found at i:31892 original size:86 final size:86
Alignment explanation
Indices: 31745--32121 Score: 542
Period size: 86 Copynumber: 4.3 Consensus size: 86
31735 TGTTCATCCC
* * * *
31745 TTTCAAAGCCCACAATTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGTAC-CCTTTCAAA
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAA
*
31809 GCCCAC-AATTCAATGGCACTCT
65 GCCCACAAATT-AGTGGCACTCT
* * *
31831 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCTACAAGTTAGTGGCATTCTTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAG
*
31896 CCCACAAATTACTGGCACTCT
66 CCCACAAATTAGTGGCACTCT
*
31917 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAA
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAA
* *
31982 GCCCACAAATCAGTGACACTCT
65 GCCCACAAATTAGTGGCACTCT
32004 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAG
*
32069 CCCACACGAATTGGTGGCAACTCT
66 CCCACA--AATTAGTGGC-ACTCT
*
32093 TTTCAAAGCCCACACAAGTTAGTGGCACC
1 TTTCAAAG-CC-CACAAGTCAGTGGCACC
32122 ATTTTTTAAA
Statistics
Matches: 263, Mismatches: 20, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
85 23 0.09
86 119 0.45
87 83 0.32
88 7 0.03
89 13 0.05
90 2 0.01
91 16 0.06
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.24
Consensus pattern (86 bp):
TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAG
CCCACAAATTAGTGGCACTCT
Found at i:32745 original size:40 final size:39
Alignment explanation
Indices: 32684--32762 Score: 97
Period size: 40 Copynumber: 2.0 Consensus size: 39
32674 TTTTTACCCA
* *
32684 AATGTATCGATACATTTTTCAAT-ATAGCGATACATGTATG
1 AATGTATCAATACATTCTTCAATGA-AGCGATACAT-TATG
* *
32724 AATGTATCAATATATTCTTCAATGAATCGATACATTATG
1 AATGTATCAATACATTCTTCAATGAAGCGATACATTATG
32763 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
39 4 0.12
40 29 0.85
41 1 0.03
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.38
Consensus pattern (39 bp):
AATGTATCAATACATTCTTCAATGAAGCGATACATTATG
Found at i:35112 original size:97 final size:96
Alignment explanation
Indices: 34955--35300 Score: 602
Period size: 97 Copynumber: 3.6 Consensus size: 96
34945 AAAATTTTAT
*
34955 TCATCGGGGATACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCCCGCTTTTAAACTTGTCA
1 TCATCGGGGACACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCCCGCTTTTAAACTTGTCA
35020 AGACTCCAATCTTATTCTCGCTTAAATTATCA
66 AGA-TCCAATCTTATTCTCGCTTAAATTATCA
* * *
35052 TCATCGGGGACACTCCAACCCCATTCCTCTGAGGGGATACTCTAACCTCGCTTTTAAACTTGTCA
1 TCATCGGGGACACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCCCGCTTTTAAACTTGTCA
35117 AGATCCAAATCTTATTCTCGCTTAAATTATCA
66 AGATCC-AATCTTATTCTCGCTTAAATTATCA
35149 TCATCGGGGACACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCCCGCTTTTAAACTTGTCA
1 TCATCGGGGACACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCCCGCTTTTAAACTTGTCA
* *
35214 AGATTCAAATCTTATTCTCGCTTAAATTGTCA
66 AGA-TCCAATCTTATTCTCGCTTAAATTATCA
*
35246 TCATCGGGGACACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCCCGTTTTT
1 TCATCGGGGACACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCCCGCTTTT
35301 TTTTCAATCA
Statistics
Matches: 237, Mismatches: 10, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
96 3 0.01
97 232 0.98
98 2 0.01
ACGTcount: A:0.25, C:0.32, G:0.14, T:0.29
Consensus pattern (96 bp):
TCATCGGGGACACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCCCGCTTTTAAACTTGTCA
AGATCCAATCTTATTCTCGCTTAAATTATCA
Found at i:38697 original size:20 final size:20
Alignment explanation
Indices: 38672--38840 Score: 126
Period size: 20 Copynumber: 8.8 Consensus size: 20
38662 GAAAAAAGAC
38672 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
*
38692 AGAATGTATCGATACATTCA
1 AGAATGTATCGATACATTGA
* *
38712 TA-CATGTATCGATAAATTGA
1 -AGAATGTATCGATACATTGA
* * *
38732 AAAATGTATTGATAAATCTG-
1 AGAATGTATCGATACAT-TGA
* * * *
38752 -G---GTA--AAAAAAAT-A
1 AGAATGTATCGATACATTGA
38765 A-AATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
*
38784 AGAATGTATCGATACATTCA
1 AGAATGTATCGATACATTGA
*
38804 TA-CATGTATCGATACATTGA
1 -AGAATGTATCGATACATTGA
38824 AGAATGTATCGATACAT
1 AGAATGTATCGATACAT
38841 CTGGGTAAAA
Statistics
Matches: 117, Mismatches: 18, Indels: 28
0.72 0.11 0.17
Matches are distributed among these distances:
13 1 0.01
14 4 0.03
16 6 0.05
18 4 0.03
19 4 0.03
20 94 0.80
21 4 0.03
ACGTcount: A:0.43, C:0.11, G:0.16, T:0.31
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:38796 original size:92 final size:92
Alignment explanation
Indices: 38624--38851 Score: 377
Period size: 92 Copynumber: 2.5 Consensus size: 92
38614 TTTTAACTAG
* * *
38624 ATGTATCGATACATTGAAAAATGTATCAATACATCTGGG-AAAAAAGACAGAATGTATCGATACA
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAAAACAAAATGTATCGATACA
38688 TTGAAGAATGTATCGATACATTCATAC
66 TTGAAGAATGTATCGATACATTCATAC
* * * *
38715 ATGTATCGATAAATTGAAAAATGTATTGATAAATCTGGGTAAAAAAAATAAAATGTATCGATACA
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAAAACAAAATGTATCGATACA
38780 TTGAAGAATGTATCGATACATTCATAC
66 TTGAAGAATGTATCGATACATTCATAC
*
38807 ATGTATCGATACATTGAAGAATGTATCGATACATCTGGGTAAAAA
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAA
38852 TGTGACTTTT
Statistics
Matches: 125, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
91 35 0.28
92 90 0.72
ACGTcount: A:0.43, C:0.11, G:0.17, T:0.29
Consensus pattern (92 bp):
ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAAAACAAAATGTATCGATACA
TTGAAGAATGTATCGATACATTCATAC
Found at i:40289 original size:110 final size:109
Alignment explanation
Indices: 40117--40314 Score: 254
Period size: 110 Copynumber: 1.8 Consensus size: 109
40107 GATTATTGTC
* * * * * *
40117 TAGAGTCGTAAAGTGGTGTACGAACGCTTTTTATATAGGATAATTCATTTTTTGCGTAAATTACA
1 TAGAGTCATAAAATAGTGTACGAACGCCTTTTATATAAGATAATTCATTTTTTGCATAAATTACA
* *
40182 TAG-TATTAGTGCACCAAGAGATTAGCCCCAAAATATAACATTATT
66 TGGAT-TTAG-GCACCAAAAGATTAGCCCCAAAATATAACATTATT
* * * * *
40227 TAGAGTCATAAAATAGTGTACGAATGCCTTTTATATAAGATGATTTATTTTTTGCATTAATTAGA
1 TAGAGTCATAAAATAGTGTACGAACGCCTTTTATATAAGATAATTCATTTTTTGCATAAATTACA
40292 TGGATTTAGGCACCAAAAGATTA
66 TGGATTTAGGCACCAAAAGATTA
40315 ACCGCGAAAT
Statistics
Matches: 74, Mismatches: 13, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
109 13 0.18
110 60 0.81
111 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (109 bp):
TAGAGTCATAAAATAGTGTACGAACGCCTTTTATATAAGATAATTCATTTTTTGCATAAATTACA
TGGATTTAGGCACCAAAAGATTAGCCCCAAAATATAACATTATT
Found at i:40744 original size:27 final size:27
Alignment explanation
Indices: 40711--40765 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
40701 TAAAAATTCT
40711 TAGATTTTTTTCTCCAACTATTAATTA
1 TAGATTTTTTTCTCCAACTATTAATTA
40738 TAGATTTTTTTCTCCAACTATTAATTA
1 TAGATTTTTTTCTCCAACTATTAATTA
40765 T
1 T
40766 TTTACTCTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.15, G:0.04, T:0.53
Consensus pattern (27 bp):
TAGATTTTTTTCTCCAACTATTAATTA
Found at i:40821 original size:12 final size:14
Alignment explanation
Indices: 40793--40824 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
40783 TTTTTTTAAA
40793 AAAATAATAATAAT
1 AAAATAATAATAAT
40807 AAAATAA-AA-AAT
1 AAAATAATAATAAT
40819 AAAATA
1 AAAATA
40825 CTTTTTCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 9 0.50
13 2 0.11
14 7 0.39
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (14 bp):
AAAATAATAATAAT
Found at i:42407 original size:20 final size:21
Alignment explanation
Indices: 42382--42427 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
42372 TGAATCGTTA
* *
42382 AAATTTTTA-TTTACATTTTT
1 AAATTTTAATTTTAAATTTTT
42402 AAA-TTTAATTTTAAATTTTT
1 AAATTTTAATTTTAAATTTTT
42422 AAATTT
1 AAATTT
42428 ATAAAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 4 0.18
20 16 0.73
21 2 0.09
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
AAATTTTAATTTTAAATTTTT
Found at i:42428 original size:20 final size:20
Alignment explanation
Indices: 42391--42428 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
42381 AAAATTTTTA
*
42391 TTTACATTTTTAAATTTAAT
1 TTTAAATTTTTAAATTTAAT
42411 TTTAAATTTTTAAATTTA
1 TTTAAATTTTTAAATTTA
42429 TAAAAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTAAATTTTTAAATTTAAT
Found at i:43246 original size:269 final size:271
Alignment explanation
Indices: 42753--43298 Score: 839
Period size: 269 Copynumber: 2.0 Consensus size: 271
42743 GCTATCTTTC
* *
42753 TATTTTCGTTGCGCACAAATTGCTGCAATTTTAAAGTAGAAGTTAAATCACGAAGGGTGAAGGAA
1 TATTTTCGTTGCGCACAAATTGCTGCAATTTTAAAGTAGAAGTCAAATCACGAAGGGCGAAGGAA
*
42818 AATAACTGGCCCACTATGGGACTTGGAAGATTCCACCTTTTGTTGATCAGTAGCTGGCTCAAGCT
66 AATAA-----CCAC-ATGGGACTTGGAAGATTCCACCTTTTGTTGATCAGCAGCTGGCTCAAGCT
* *
42883 GCCCTGTCAACACAAACTCCTGTGTCCTTACGTACGTGTGAGCCTTTTAGACCTAAACAATCAAA
125 GCCCTGTCAACACAAACGCCTGTGTCCTTACGTACGTGTGAACCTTTTAGACCTAAACAATCAAA
* *
42948 CTGTTACGTATGTAGGTTGCATGTTATATAACAATGTCAGTTTATTTTAACACGTATGATAATAA
190 CTGTTACGTATGTAGGTTGCATATTATATAACAATGTCAGTTGATTTTAACACGTATGATAATAA
43013 ACAAAATTATATAATTT
255 ACAAAATTATATAATTT
** * * *
43030 TATTTTCGTTGCGTGCAAATTGGTGCAATTTTAAAGTAGAAGTCAAATCAGGAAGGGCGGAGGAA
1 TATTTTCGTTGCGCACAAATTGCTGCAATTTTAAAGTAGAAGTCAAATCACGAAGGGCGAAGGAA
* **
43095 AATAA-CA-A-GCGGATTTGGGGGATTCCACCTTTTGTTGATCAGCAGCTGGCTCAAGCTG-CCT
66 AATAACCACATG-GGACTTGGAAGATTCCACCTTTTGTTGATCAGCAGCTGGCTCAAGCTGCCCT
*
43156 AGTCAACACAAACGCCTGTGTCCTTTCGTACGTGTGAACCTTTTAGACCTAAACAATCAAACTGT
130 -GTCAACACAAACGCCTGTGTCCTTACGTACGTGTGAACCTTTTAGACCTAAACAATCAAACTGT
*
43221 TACGTATGTAGGTTGCTTATTATATAACAATGTCAGTTGATTTTAACACGTATGATAATAAACAA
194 TACGTATGTAGGTTGCATATTATATAACAATGTCAGTTGATTTTAACACGTATGATAATAAACAA
43286 AATTATATAATTT
259 AATTATATAATTT
43299 AAAAATTCAA
Statistics
Matches: 250, Mismatches: 17, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
268 4 0.02
269 181 0.72
271 2 0.01
277 63 0.25
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (271 bp):
TATTTTCGTTGCGCACAAATTGCTGCAATTTTAAAGTAGAAGTCAAATCACGAAGGGCGAAGGAA
AATAACCACATGGGACTTGGAAGATTCCACCTTTTGTTGATCAGCAGCTGGCTCAAGCTGCCCTG
TCAACACAAACGCCTGTGTCCTTACGTACGTGTGAACCTTTTAGACCTAAACAATCAAACTGTTA
CGTATGTAGGTTGCATATTATATAACAATGTCAGTTGATTTTAACACGTATGATAATAAACAAAA
TTATATAATTT
Found at i:44557 original size:18 final size:18
Alignment explanation
Indices: 44536--44617 Score: 54
Period size: 18 Copynumber: 4.9 Consensus size: 18
44526 AGAGAAAAAA
44536 AATTTAAAATTAATTTTT
1 AATTTAAAATTAATTTTT
** *
44554 AATTT-ATTTTAA--TAT
1 AATTTAAAATTAATTTTT
44569 -A-T-AAAATTAATTTTT
1 AATTTAAAATTAATTTTT
44584 AATTTATAAA-TAA-TTTT
1 AATTTA-AAATTAATTTTT
*
44601 ATATTTTAAATTAATTT
1 A-ATTTAAAATTAATTT
44618 ATTATAAAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 19
0.64 0.10 0.26
Matches are distributed among these distances:
13 6 0.13
14 1 0.02
15 4 0.09
16 1 0.02
17 14 0.30
18 16 0.34
19 5 0.11
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
AATTTAAAATTAATTTTT
Found at i:44610 original size:17 final size:18
Alignment explanation
Indices: 44545--44617 Score: 71
Period size: 17 Copynumber: 4.1 Consensus size: 18
44535 AAATTTAAAA
* *
44545 TTAATTT-TTAATTTATT
1 TTAATTTATAAATTAATT
*
44562 TTAATATATAAAATTAATTT
1 TTAATTTAT-AAATTAA-TT
44582 TTAATTTATAAA-TAATT
1 TTAATTTATAAATTAATT
44599 TTATATTT-TAAATTAATT
1 TTA-ATTTATAAATTAATT
44617 T
1 T
44618 ATTATAAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
17 15 0.32
18 14 0.30
19 8 0.17
20 10 0.21
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TTAATTTATAAATTAATT
Found at i:45601 original size:10 final size:10
Alignment explanation
Indices: 45585--45629 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
45575 TTCAAATTCT
45585 ATTAAAAAAA
1 ATTAAAAAAA
*
45595 GTTAAAATAAA
1 ATTAAAA-AAA
45606 ATTAAAAAAA
1 ATTAAAAAAA
*
45616 ATT-AATAAA
1 ATTAAAAAAA
45625 ATTAA
1 ATTAA
45630 TATATGATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
9 8 0.27
10 13 0.43
11 9 0.30
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (10 bp):
ATTAAAAAAA
Found at i:45622 original size:19 final size:20
Alignment explanation
Indices: 45585--45629 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
45575 TTCAAATTCT
*
45585 ATTAAAAAAAGTTAAAATAAA
1 ATTAAAAAAAATT-AAATAAA
45606 ATTAAAAAAAATT-AATAAA
1 ATTAAAAAAAATTAAATAAA
45625 ATTAA
1 ATTAA
45630 TATATGATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.48
21 12 0.52
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (20 bp):
ATTAAAAAAAATTAAATAAA
Found at i:46410 original size:145 final size:144
Alignment explanation
Indices: 46136--46429 Score: 378
Period size: 145 Copynumber: 2.0 Consensus size: 144
46126 TTTAAATAAC
* * *
46136 TATCAATTTAAATTATTAGAAATGCAATCTTGCAATAGGAATTTGTGATTGTTGAGTCTTAAACC
1 TATCAATCTAAATTATTAGAAATGCAATCTTGCAATAGAAATTTATGATTGTTGAGTCTTAAACC
* * *
46201 CTTAATTTAAGACCTTGGTTCAAGAGTAATCAATGTTAAGATTTACACTTAATAAATTTATATAT
66 CTTAATTTAAGACCTTCGTTCAAAAGTAATCAATGCTAAGATTTACACTTAATAAATTTATATAT
46266 TTATTAATTAATAT
131 TTATTAATTAATAT
* * *
46280 TATCAATCTAAATTATTAAGTAATGCAATTTTGCAATAGAAATTTATGATTGTTGAGAT-TTAAG
1 TATCAATCTAAATTATT-AGAAATGCAATCTTGCAATAGAAATTTATGATTGTTGAG-TCTTAAA
* * ** * *
46344 CCCTTAGTTTAGGATTTTCGTTCAAAAGTTTAATCAGTGCTAAGATTTGA-A-TTCAATGAATTT
64 CCCTTAATTTAAGACCTTCGTTCAAAAG--TAATCAATGCTAAGATTT-ACACTT-AATAAATTT
46407 ATATATTTATTAATTAATAT
125 ATATATTTATTAATTAATAT
46427 TAT
1 TAT
46430 GAAATTTAGA
Statistics
Matches: 129, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
144 16 0.12
145 61 0.47
146 3 0.02
147 48 0.37
148 1 0.01
ACGTcount: A:0.37, C:0.09, G:0.12, T:0.42
Consensus pattern (144 bp):
TATCAATCTAAATTATTAGAAATGCAATCTTGCAATAGAAATTTATGATTGTTGAGTCTTAAACC
CTTAATTTAAGACCTTCGTTCAAAAGTAATCAATGCTAAGATTTACACTTAATAAATTTATATAT
TTATTAATTAATAT
Found at i:47944 original size:5 final size:5
Alignment explanation
Indices: 47934--47964 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
47924 TATCACTACT
*
47934 TATAA TATAA TATAA TATAA TATGA TATAA T
1 TATAA TATAA TATAA TATAA TATAA TATAA T
47965 TTTACATTAC
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):
TATAA
Found at i:48436 original size:72 final size:73
Alignment explanation
Indices: 48285--48446 Score: 166
Period size: 72 Copynumber: 2.2 Consensus size: 73
48275 CTTGTTTTAT
* * * * * **
48285 TTATTACTAAATAAATTCATTTAATCAAAGTCTTTTAATAGAATTAAAATTATTATTTACAAATG
1 TTATTA-TAAA-AAAATCACTTAACCAAAATCTTTTAATAGAATAAAAATTATTATCAACAAATG
*
48350 TGATATATTC
64 TGATATAGTC
* * *
48360 -TATTATAAAAAAATCACTTAACCAAAATCTTTTAATAGAATAAAAATTCTTATCAATAAATGTT
1 TTATTATAAAAAAATCACTTAACCAAAATCTTTTAATAGAATAAAAATTATTATCAACAAATGTG
*
48424 CTA-AGTC
66 ATATAGTC
*
48431 TTATTAATAATAAAAT
1 TTATT-ATAAAAAAAT
48447 ATATAAAAAT
Statistics
Matches: 72, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
71 3 0.04
72 51 0.71
73 13 0.18
74 5 0.07
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.40
Consensus pattern (73 bp):
TTATTATAAAAAAATCACTTAACCAAAATCTTTTAATAGAATAAAAATTATTATCAACAAATGTG
ATATAGTC
Found at i:49325 original size:16 final size:16
Alignment explanation
Indices: 49304--49337 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
49294 TAAACATATA
49304 AAAAAATTAAATAAAT
1 AAAAAATTAAATAAAT
49320 AAAAAATTAAATAAAT
1 AAAAAATTAAATAAAT
49336 AA
1 AA
49338 TTCATTCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAAAATTAAATAAAT
Found at i:49842 original size:30 final size:28
Alignment explanation
Indices: 49788--49843 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
49778 AATTTATAAA
*
49788 AAAATAACAAATTTAAGTTAAAAAATTT
1 AAAATAACAAATTTAAATTAAAAAATTT
*
49816 AAAATAACAATGATTTAAATTTAAAAAT
1 AAAATAACAA--ATTTAAATTAAAAAAT
49844 AATTTTATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 10 0.42
30 14 0.58
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.32
Consensus pattern (28 bp):
AAAATAACAAATTTAAATTAAAAAATTT
Found at i:56207 original size:19 final size:19
Alignment explanation
Indices: 56164--56219 Score: 94
Period size: 19 Copynumber: 2.9 Consensus size: 19
56154 CTGCCAGTTT
56164 CATGTATCGATACAATTGAG
1 CATGTATCGATACAA-TGAG
*
56184 TATGTATCGATACAATGAG
1 CATGTATCGATACAATGAG
56203 CATGTATCGATACAATG
1 CATGTATCGATACAATG
56220 TATCGATACT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 20 0.59
20 14 0.41
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAG
Found at i:56222 original size:13 final size:13
Alignment explanation
Indices: 56204--56228 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56194 TACAATGAGC
56204 ATGTATCGATACA
1 ATGTATCGATACA
56217 ATGTATCGATAC
1 ATGTATCGATAC
56229 TAGGCATAAT
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:56883 original size:54 final size:55
Alignment explanation
Indices: 56788--56892 Score: 176
Period size: 55 Copynumber: 1.9 Consensus size: 55
56778 AAATTTTTAT
*
56788 TTTAAAACTCCCCCTAAATAATTGCTCTCTCTTTTTGTTATTAAAAAGAAACGGA
1 TTTAAAACTCCCCCTAAATAATTGCTCTCCCTTTTTGTTATTAAAAAGAAACGGA
* *
56843 TTTAAAACTCCCTCTAAATAATTGCTC-CCCTTTTTTTTATTAAAAAGAAA
1 TTTAAAACTCCCCCTAAATAATTGCTCTCCCTTTTTGTTATTAAAAAGAAA
56893 TAGATTTTTA
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
54 21 0.45
55 26 0.55
ACGTcount: A:0.35, C:0.20, G:0.07, T:0.38
Consensus pattern (55 bp):
TTTAAAACTCCCCCTAAATAATTGCTCTCCCTTTTTGTTATTAAAAAGAAACGGA
Found at i:61692 original size:48 final size:48
Alignment explanation
Indices: 61630--61808 Score: 243
Period size: 48 Copynumber: 3.8 Consensus size: 48
61620 AGAGGAGTGC
** ** **
61630 CAATGTGCCAATTCAAGGCTAATGACATCAAGCTAAGGGAAAAGTGGA
1 CAATGTGCTGATTCAAGGCTAGCGACATTGAGCTAAGGGAAAAGTGGA
*
61678 CAATGTGCTGATTCAAGGCTAGCGACATTGAGCTAAAGGAAAA-TGGA
1 CAATGTGCTGATTCAAGGCTAGCGACATTGAGCTAAGGGAAAAGTGGA
* **
61725 CAATGTGCTGATTCAAGGCTAGCAACATTGAGCTAAGGGAAAAGCAGA
1 CAATGTGCTGATTCAAGGCTAGCGACATTGAGCTAAGGGAAAAGTGGA
* *
61773 TAATGTGTTGATTCAAGGCTAGCGACATTGAGCTAA
1 CAATGTGCTGATTCAAGGCTAGCGACATTGAGCTAA
61809 TAAAGGTGCC
Statistics
Matches: 116, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
47 45 0.39
48 71 0.61
ACGTcount: A:0.36, C:0.16, G:0.26, T:0.22
Consensus pattern (48 bp):
CAATGTGCTGATTCAAGGCTAGCGACATTGAGCTAAGGGAAAAGTGGA
Found at i:62009 original size:56 final size:56
Alignment explanation
Indices: 61916--62709 Score: 724
Period size: 56 Copynumber: 13.9 Consensus size: 56
61906 TTTTTAAAAA
* * *
61916 AAAAGGTGCCACTAACTTCTGTGGACTTTG-AAGAGATGCCACTGACTTGTGGGCTTTG
1 AAAAGATGCCACTGAC-T-TGTGGGCTTTGAAAG-GATGCCACTGACTTGTGGGCTTTG
* * **
61974 AAAGGATGCCACTGACTTGTGGGCTTTGGAAA-GATGCCACTGACTCGTGACCTTTG
1 AAAAGATGCCACTGACTTGTGGGCTTT-GAAAGGATGCCACTGACTTGTGGGCTTTG
* * * *
62030 AAAAGTTGCCACTGACTCGTGGGCTTTG-AAGAGTTGCCACTGACTTGTGGGCTTGG
1 AAAAGATGCCACTGACTTGTGGGCTTTGAAAG-GATGCCACTGACTTGTGGGCTTTG
* * * * *
62086 AAAAGATGCCATTGACTTGTGGGCTTTGAAAAGATGCCACCGACTTGTGGACATTG
1 AAAAGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG
* * *
62142 AAAAGATGCCACTGACTTATGGGCTTTGAAAGGGTGCCACTGACTTGTGGGTTTTG
1 AAAAGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG
* * **
62198 AAAAGATGCCACCGACATGTGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTG
1 AAAAGATGCCACTGAC-T-TGTGGGCTTTGAAA--GGATGCCACTGAC-T-TGTGGGCTTTG
* ** *
62260 AAATAGGTTGCCACCAACTTGTGTGAGCTTTGAAAGGATGCCACTGACTCGTGGGCTTTG
1 AAA-A-GATGCCACTGACTTGTG-G-GCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG
* * * * *
62320 AAAAGTTGCCACTGACTCGTGGGCTTTGAAAAGTTGCCACTGACTCGTGGGCTTTG
1 AAAAGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG
* * * *
62376 AAAAGTTGTCACTGACTTGTGGGCTTAGAAA-GATGCCACTAACTTGTGGGCTTTG
1 AAAAGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG
* *
62431 AAATGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCATTGACTTGTGGGCTTTG
1 AAAAGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG
* * * * * **
62487 AAATGATGCCACTCACTTGTAGGCTTTAAAATGGGTTGCCACCAACTTGTGTGGGCTTTG
1 AAAAGATGCCACTGACTTGTGGGCTTTGAAA--GGATGCCACTGAC-T-TGTGGGCTTTG
* ** *
62547 AAATAGGTTGCCACCAACTTGTGTGGGCTTTGAAAGGATGCCACTGACTTGTAGGCTTTG
1 AAA-A-GATGCCACTGAC-T-TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG
* * ** * * * *
62607 -AAAGGTGCCAC-GAAGTTGTGTAC-TTAAAAGGATGCCACGGAGTTGT-GGATTTG
1 AAAAGATGCCACTG-ACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG
* * * * * * *
62660 AAAAGAGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGG
1 AAAAGA-TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGG
62710 ACTTAAAAGG
Statistics
Matches: 617, Mismatches: 90, Indels: 60
0.80 0.12 0.08
Matches are distributed among these distances:
53 6 0.01
54 26 0.04
55 91 0.15
56 293 0.47
57 14 0.02
58 52 0.08
59 4 0.01
60 47 0.08
61 3 0.00
62 46 0.07
63 4 0.01
64 31 0.05
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.28
Consensus pattern (56 bp):
AAAAGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG
Found at i:62251 original size:32 final size:28
Alignment explanation
Indices: 61917--62617 Score: 640
Period size: 28 Copynumber: 24.4 Consensus size: 28
61907 TTTTAAAAAA
* *
61917 AAAGG-TGCCACTAACTTCTGTGGACTTTG
1 AAAGGTTGCCACTGAC-T-TGTGGGCTTTG
*
61946 -AAGAGATGCCACTGACTTGTGGGCTTTG
1 AAAG-GTTGCCACTGACTTGTGGGCTTTG
*
61974 AAAGGATGCCACTGACTTGTGGGCTTTGG
1 AAAGGTTGCCACTGACTTGTGGGCTTT-G
* * **
62003 AAA-GATGCCACTGACTCGTGACCTTTG
1 AAAGGTTGCCACTGACTTGTGGGCTTTG
* *
62030 AAAAGTTGCCACTGACTCGTGGGCTTTG
1 AAAGGTTGCCACTGACTTGTGGGCTTTG
*
62058 -AAGAGTTGCCACTGACTTGTGGGCTTGG
1 AAAG-GTTGCCACTGACTTGTGGGCTTTG
* * *
62086 AAAAGATGCCATTGACTTGTGGGCTTTG
1 AAAGGTTGCCACTGACTTGTGGGCTTTG
* * * * *
62114 AAAAGATGCCACCGACTTGTGGACATTG
1 AAAGGTTGCCACTGACTTGTGGGCTTTG
* * *
62142 AAAAGATGCCACTGACTTATGGGCTTTG
1 AAAGGTTGCCACTGACTTGTGGGCTTTG
* *
62170 AAAGGGTGCCACTGACTTGTGGGTTTTG
1 AAAGGTTGCCACTGACTTGTGGGCTTTG
* * *
62198 AAAAGATGCCACCGACATGTGTGGGCTTTG
1 AAAGGTTGCCACTGAC-T-TGTGGGCTTTG
**
62228 AAATGGGTTGCCACCAACTTGTGTGGGCTTTG
1 AAA--GGTTGCCACTGAC-T-TGTGGGCTTTG
**
62260 AAATAGGTTGCCACCAACTTGTGTGAGCTTTG
1 -AA-AGGTTGCCACTGACTTGTG-G-GCTTTG
* *
62292 AAAGGATGCCACTGACTCGTGGGCTTTG
1 AAAGGTTGCCACTGACTTGTGGGCTTTG
* *
62320 AAAAGTTGCCACTGACTCGTGGGCTTTG
1 AAAGGTTGCCACTGACTTGTGGGCTTTG
* *
62348 AAAAGTTGCCACTGACTCGTGGGCTTTG
1 AAAGGTTGCCACTGACTTGTGGGCTTTG
* * *
62376 AAAAGTTGTCACTGACTTGTGGGCTTAG
1 AAAGGTTGCCACTGACTTGTGGGCTTTG
* *
62404 AAA-GATGCCACTAACTTGTGGGCTTTG
1 AAAGGTTGCCACTGACTTGTGGGCTTTG
* *
62431 AAATGATGCCACTGACTTGTGGGCTTTG
1 AAAGGTTGCCACTGACTTGTGGGCTTTG
* *
62459 AAAGGATGCCATTGACTTGTGGGCTTTG
1 AAAGGTTGCCACTGACTTGTGGGCTTTG
* * * * *
62487 AAATGATGCCACTCACTTGTAGGCTTTA
1 AAAGGTTGCCACTGACTTGTGGGCTTTG
**
62515 AAATGGGTTGCCACCAACTTGTGTGGGCTTTG
1 AAA--GGTTGCCACTGAC-T-TGTGGGCTTTG
**
62547 AAATAGGTTGCCACCAACTTGTGTGGGCTTTG
1 -AA-AGGTTGCCACTGAC-T-TGTGGGCTTTG
* *
62579 AAAGGATGCCACTGACTTGTAGGCTTTG
1 AAAGGTTGCCACTGACTTGTGGGCTTTG
62607 AAAGG-TGCCAC
1 AAAGGTTGCCAC
62618 GAAGTTGTGT
Statistics
Matches: 584, Mismatches: 66, Indels: 46
0.84 0.09 0.07
Matches are distributed among these distances:
27 35 0.06
28 383 0.66
29 14 0.02
30 61 0.10
31 7 0.01
32 78 0.13
33 4 0.01
34 2 0.00
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (28 bp):
AAAGGTTGCCACTGACTTGTGGGCTTTG
Found at i:62535 original size:30 final size:30
Alignment explanation
Indices: 62493--62568 Score: 91
Period size: 32 Copynumber: 2.5 Consensus size: 30
62483 TTTGAAATGA
*
62493 TGCCACTC-ACTTGTAGGCTTTAAAATGGGT
1 TGCCAC-CAACTTGTAGGCTTTAAAATAGGT
* *
62523 TGCCACCAACTTGTGTGGGCTTTGAAATAGGT
1 TGCCACCAAC-T-TGTAGGCTTTAAAATAGGT
62555 TGCCACCAACTTGT
1 TGCCACCAACTTGT
62569 GTGGGCTTTG
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
29 1 0.03
30 11 0.28
31 2 0.05
32 26 0.65
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (30 bp):
TGCCACCAACTTGTAGGCTTTAAAATAGGT
Found at i:62625 original size:27 final size:27
Alignment explanation
Indices: 61917--62877 Score: 259
Period size: 28 Copynumber: 34.0 Consensus size: 27
61907 TTTTAAAAAA
* * *
61917 AAAGGTGCCACTAACTTCTGTGGACTTTG
1 AAAGGTGCCACGAA-GT-TGTGGGCTTTG
* *
61946 AAGAGATGCCACTG-ACTTGTGGGCTTTG
1 AA-AGGTGCCAC-GAAGTTGTGGGCTTTG
*
61974 AAAGGATGCCACTG-ACTTGTGGGCTTTGG
1 AAAGG-TGCCAC-GAAGTTGTGGGCTTT-G
* * * **
62003 AAAGATGCCACTG-ACTCGTGACCTTTG
1 AAAGGTGCCAC-GAAGTTGTGGGCTTTG
* * *
62030 AAAAGTTGCCACTG-ACTCGTGGGCTTTG
1 -AAAGGTGCCAC-GAAGTTGTGGGCTTTG
* * *
62058 AAGAGTTGCCACTG-ACTTGTGGGCTTGG
1 AA-AGGTGCCAC-GAAGTTGTGGGCTTTG
* * *
62086 AAAAGATGCCATTG-ACTTGTGGGCTTTG
1 -AAAGGTGCCA-CGAAGTTGTGGGCTTTG
* * * *
62114 AAAAGATGCCACCG-ACTTGTGGACATTG
1 -AAAGGTGCCA-CGAAGTTGTGGGCTTTG
* * *
62142 AAAAGATGCCACTG-ACTTATGGGCTTTG
1 -AAAGGTGCCAC-GAAGTTGTGGGCTTTG
* *
62170 AAAGGGTGCCACTG-ACTTGTGGGTTTTG
1 AAA-GGTGCCAC-GAAGTTGTGGGCTTTG
*
62198 AAAAGATGCCACCGACA-TGTGTGGGCTTTG
1 -AAAGGTGCCA-CGA-AGT-TGTGGGCTTTG
* *
62228 AAATGGGTTGCCACCAACTTGTGTGGGCTTTG
1 AAA--GG-TGCCACGAA-GT-TGTGGGCTTTG
* *
62260 AAATAGGTTGCCACCAACTTGTGTGAGCTTTG
1 -AA-AGG-TGCCACGAAGTTGTG-G-GCTTTG
* *
62292 AAAGGATGCCACTG-ACTCGTGGGCTTTG
1 AAAGG-TGCCAC-GAAGTTGTGGGCTTTG
* * *
62320 AAAAGTTGCCACTG-ACTCGTGGGCTTTG
1 -AAAGGTGCCAC-GAAGTTGTGGGCTTTG
* * *
62348 AAAAGTTGCCACTG-ACTCGTGGGCTTTG
1 -AAAGGTGCCAC-GAAGTTGTGGGCTTTG
* * * *
62376 AAAAGTTGTCACTG-ACTTGTGGGCTTAG
1 -AAAGGTGCCAC-GAAGTTGTGGGCTTTG
* * *
62404 AAAGATGCCACTAACTTGTGGGCTTTG
1 AAAGGTGCCACGAAGTTGTGGGCTTTG
* *
62431 AAATGATGCCACTG-ACTTGTGGGCTTTG
1 AAA-GGTGCCAC-GAAGTTGTGGGCTTTG
* *
62459 AAAGGATGCCATTG-ACTTGTGGGCTTTG
1 AAAGG-TGCCA-CGAAGTTGTGGGCTTTG
* ** * * *
62487 AAATGATGCCACTCACTTGTAGGCTTTA
1 AAA-GGTGCCACGAAGTTGTGGGCTTTG
* *
62515 AAATGGGTTGCCACCAACTTGTGTGGGCTTTG
1 AAA--GG-TGCCACGAA-GT-TGTGGGCTTTG
* *
62547 AAATAGGTTGCCACCAACTTGTGTGGGCTTTG
1 -AA-AGG-TGCCACGAA-GT-TGTGGGCTTTG
* *
62579 AAAGGATGCCACTG-ACTTGTAGGCTTTG
1 AAAGG-TGCCAC-GAAGTTGTGGGCTTTG
** *
62607 AAAGGTGCCACGAAGTTGTGTAC-TTA
1 AAAGGTGCCACGAAGTTGTGGGCTTTG
* *
62633 AAAGGATGCCACGGAGTTGT-GGATTTG
1 AAAGG-TGCCACGAAGTTGTGGGCTTTG
* * *
62660 AAAAGAGTGCCACGGAGTTGTGGAC-TTA
1 -AAAG-GTGCCACGAAGTTGTGGGCTTTG
* * *
62688 AAAGGGTGCCACGGAGTTGTGGAC-TTA
1 AAA-GGTGCCACGAAGTTGTGGGCTTTG
** * *
62715 AAAGGGTGCCACGGGGTTGTGGAC-TTA
1 AAA-GGTGCCACGAAGTTGTGGGCTTTG
* *
62742 AAAGGGTGCCACGAAGTTGTGGAC-TTA
1 AAA-GGTGCCACGAAGTTGTGGGCTTTG
* * *
62769 AAAGGGTACCAC-AGAGTTGTGGAC-TTA
1 AAA-GGTGCCACGA-AGTTGTGGGCTTTG
*
62796 AAAGGGTGCCAC-AGAGTTGTGGACTTT-
1 AAA-GGTGCCACGA-AGTTGTGGGCTTTG
* * * *
62823 AAAGGGTGCCATGGAGTTGTGGACTTTA
1 AAA-GGTGCCACGAAGTTGTGGGCTTTG
*
62851 AAAGGATGCCAC-AGAGTTGTGGACTTT
1 AAAGG-TGCCACGA-AGTTGTGGGCTTT
62878 AAAAAAAAAT
Statistics
Matches: 795, Mismatches: 84, Indels: 107
0.81 0.09 0.11
Matches are distributed among these distances:
26 9 0.01
27 211 0.27
28 402 0.51
29 28 0.04
30 57 0.07
31 10 0.01
32 72 0.09
33 4 0.01
34 2 0.00
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (27 bp):
AAAGGTGCCACGAAGTTGTGGGCTTTG
Found at i:62644 original size:54 final size:55
Alignment explanation
Indices: 62579--62881 Score: 393
Period size: 54 Copynumber: 5.6 Consensus size: 55
62569 GTGGGCTTTG
* * * * *
62579 AAAGGATGCCACTGACTTGTAGG-CTTTGAAA-GGTGCCACGAAGTTGTGTACTTA
1 AAAGGATGCCACGGAGTTGT-GGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTA
*
62633 AAAGGATGCCACGGAGTTGTGGA-TTTGAAAAGAGTGCCACGGAGTTGTGGACTTA
1 AAAGGATGCCACGGAGTTGTGGACTTT-AAAAGGGTGCCACGGAGTTGTGGACTTA
* *
62688 AAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGGGTTGTGGACTTA
1 AAAGGATGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTA
* * * *
62742 AAAGGGTGCCACGAAGTTGTGGAC-TTAAAAGGGTACCACAGAGTTGTGGACTTA
1 AAAGGATGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTA
* * *
62796 AAAGGGTGCCACAGAGTTGTGGACTTT-AAAGGGTGCCATGGAGTTGTGGACTTTA
1 AAAGGATGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGAC-TTA
*
62851 AAAGGATGCCACAGAGTTGTGGACTTTAAAA
1 AAAGGATGCCACGGAGTTGTGGACTTTAAAA
62882 AAAAATACCA
Statistics
Matches: 223, Mismatches: 19, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
53 5 0.02
54 140 0.63
55 75 0.34
56 3 0.01
ACGTcount: A:0.29, C:0.14, G:0.33, T:0.24
Consensus pattern (55 bp):
AAAGGATGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTA
Found at i:62766 original size:81 final size:81
Alignment explanation
Indices: 62610--62881 Score: 393
Period size: 81 Copynumber: 3.3 Consensus size: 81
62600 GGCTTTGAAA
* * * *
62610 GGTGCCAC-GAAGTTGTGTACTTAAAAGGATGCCACGGAGTTGTGGATTTGAAAAGAGTGCCACG
1 GGTGCCACAG-AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT-AAAAGGGTGCCACG
62674 GAGTTGTGGACTTAAAAG
64 GAGTTGTGGACTTAAAAG
* * *
62692 GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGGGTTGTGGACTTAAAAGGGTGCCACGAA
1 GGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGA
62757 GTTGTGGACTTAAAAG
66 GTTGTGGACTTAAAAG
* * * *
62773 GGTACCACAGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTTAAAGGGTGCCATGGA
1 GGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGA
62838 GTTGTGGACTTTAAAAG
66 GTTGTGGAC-TTAAAAG
*
62855 GATGCCACAGAGTTGTGGACTTTAAAA
1 GGTGCCACAGAGTTGTGGAC-TTAAAA
62882 AAAAATACCA
Statistics
Matches: 172, Mismatches: 15, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
81 97 0.56
82 68 0.40
83 7 0.04
ACGTcount: A:0.28, C:0.14, G:0.33, T:0.24
Consensus pattern (81 bp):
GGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGA
GTTGTGGACTTAAAAG
Found at i:72265 original size:13 final size:13
Alignment explanation
Indices: 72247--72271 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
72237 TAGTAACCCA
72247 TGTATCGATACAT
1 TGTATCGATACAT
72260 TGTATCGATACA
1 TGTATCGATACA
72272 AAGAACATTG
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:74680 original size:26 final size:26
Alignment explanation
Indices: 74649--74702 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
74639 AAACAAAACA
74649 TTTGCATCCAAATGGTTGAAAATAGC
1 TTTGCATCCAAATGGTTGAAAATAGC
74675 TTTGCATCCAAATGGTTGAAAATAGC
1 TTTGCATCCAAATGGTTGAAAATAGC
74701 TT
1 TT
74703 ATGTTAGGCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (26 bp):
TTTGCATCCAAATGGTTGAAAATAGC
Found at i:78418 original size:20 final size:20
Alignment explanation
Indices: 78393--78445 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
78383 GTTGGGCATA
* *
78393 ATGTATCAATACAAT-TCTTC
1 ATGTATCGATACAATGTC-CC
78413 ATGTATCGATACAATGTCCC
1 ATGTATCGATACAATGTCCC
78433 ATGTATCGATACA
1 ATGTATCGATACA
78446 TTTCACTTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 28 0.93
21 2 0.07
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACAATGTCCC
Found at i:78517 original size:19 final size:19
Alignment explanation
Indices: 78474--78529 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
78464 CTGCCAGTTT
*
78474 CATGTATCAATACAATTGAG
1 CATGTATCGATACAA-TGAG
*
78494 TATGTATCGATACAATGAG
1 CATGTATCGATACAATGAG
78513 CATGTATCGATACAATG
1 CATGTATCGATACAATG
78530 TATTGATACT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 20 0.61
20 13 0.39
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAG
Found at i:78819 original size:20 final size:21
Alignment explanation
Indices: 78763--78822 Score: 95
Period size: 21 Copynumber: 2.9 Consensus size: 21
78753 GGAGTAGAAT
*
78763 AAAACTTGTTTATGGTTTTTC
1 AAAACTTATTTATGGTTTTTC
78784 AAAACTTATTTATGGTTTTTC
1 AAAACTTATTTATGGTTTTTC
*
78805 AAAACTTA-TTCTGGTTTT
1 AAAACTTATTTATGGTTTT
78823 ATCCATACTT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
20 9 0.24
21 28 0.76
ACGTcount: A:0.27, C:0.10, G:0.12, T:0.52
Consensus pattern (21 bp):
AAAACTTATTTATGGTTTTTC
Found at i:79577 original size:11 final size:11
Alignment explanation
Indices: 79561--79599 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
79551 CAGCAAGGAG
79561 AAAAAGAGAGA
1 AAAAAGAGAGA
*
79572 AAAAAGTGAGA
1 AAAAAGAGAGA
79583 AAAAAGAAGAGA
1 AAAAAG-AGAGA
79595 AAAAA
1 AAAAA
79600 ATAAAATTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 16 0.64
12 9 0.36
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.03
Consensus pattern (11 bp):
AAAAAGAGAGA
Found at i:80709 original size:161 final size:161
Alignment explanation
Indices: 80528--81102 Score: 784
Period size: 161 Copynumber: 3.5 Consensus size: 161
80518 GGTATCATTG
* *
80528 GGGTATAGAAAG-TTTCAAAAACTTTTCGTATATTTTCGGGTATCCATTAAGGTACGAAATAATT
1 GGGTATA-AAAGATTTCAAAAACTTTTCGTATCTTTTCGGGTATCCATTAAGGTACGAAATGATT
*
80592 TTTTTTCAAAAATGAATAAATAATATTAAATTTACTCATTAATTACAAAAAATATTAATCATTTT
65 TTTTTTCAAAAATAAATAAATAATATTAAATTTACTCATTAATTACAAAAAATATTAATCATTTT
80657 TAAATCTTTTATATTCCTATGGGTATCCGTAA
130 TAAATCTTTTATATTCCTATGGGTATCCGTAA
* *
80689 GGGTATAAAAGATTTCAAAAACTTTTCATATCTTTTCAGGTATCCATTTAA-GTACGAAATGATT
1 GGGTATAAAAGATTTCAAAAACTTTTCGTATCTTTTCGGGTATCCA-TTAAGGTACGAAATGATT
*
80753 TTTTTTCAAAAATAAATAAATAATATTAAATTTACTCATCGTTAATTACAACAAATATTAATCAT
65 TTTTTTCAAAAATAAATAAATAATATTAAATTTACTCA---TTAATTACAAAAAATATTAATCAT
* * * * *
80818 TTGTAAATTTTTTATATTCCTATCGGTATCTG-GA
127 TTTTAAATCTTTTATATTCCTATGGGTATCCGTAA
* *
80852 GGGTATAAAAGAATTCAAAAAATTTTCGTATCTTTTCGGGTATCCATTAAGGTACGAAATGA-TT
1 GGGTATAAAAGATTTCAAAAACTTTTCGTATCTTTTCGGGTATCCATTAAGGTACGAAATGATTT
* * * *
80916 TTTTTCAAAAATAAATAGATAAATAATATTAAATTCAATCTTCGTTAATTACAATAAACATTAAT
66 TTTTTCAAAAAT--A-A-ATAAATAATATTAAATT-TA-C-TCATTAATTACAAAAAATATTAAT
* * *
80981 --TTTTTTAATCTTTTATATTCTTATGGGTATCCGTAG
124 CATTTTTAAATCTTTTATATTCCTATGGGTATCCGTAA
* * *
81017 GGGTATAAAAGATTTAAAAAACTTTTTGCATCTTTTCGGGTATCCATTAAGGTACGAAATGATTT
1 GGGTATAAAAGATTTCAAAAACTTTTCGTATCTTTTCGGGTATCCATTAAGGTACGAAATGATTT
*
81082 TTTTTCAAATATAAATAAATA
66 TTTTTCAAAAATAAATAAATA
81103 TCAATTATTT
Statistics
Matches: 366, Mismatches: 33, Indels: 29
0.86 0.08 0.07
Matches are distributed among these distances:
160 4 0.01
161 87 0.24
162 29 0.08
163 55 0.15
164 80 0.22
165 58 0.16
166 49 0.13
167 1 0.00
168 1 0.00
169 2 0.01
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.40
Consensus pattern (161 bp):
GGGTATAAAAGATTTCAAAAACTTTTCGTATCTTTTCGGGTATCCATTAAGGTACGAAATGATTT
TTTTTCAAAAATAAATAAATAATATTAAATTTACTCATTAATTACAAAAAATATTAATCATTTTT
AAATCTTTTATATTCCTATGGGTATCCGTAA
Found at i:81128 original size:129 final size:127
Alignment explanation
Indices: 80968--81215 Score: 343
Period size: 129 Copynumber: 1.9 Consensus size: 127
80958 CGTTAATTAC
* * * ** *
80968 AATAAACATTAATTTTTTTAATCTTTTATATTCTTATGGGTATCCGTAGGGGTATAAAAGATTTA
1 AATAAACATCAATTTTTTCAATCTTTTATATTCATATCAGTATCCGTAGGGGCATAAAAGATTTA
* *
81033 AAAAACTTTTTGCATCTTTTCGGGTATCCATTAAGGTACGAAATGATTTTTTTTCAAATATA
66 AAAAACTTTTTGAATCTTTTCGGGTATCCATTAAGGTACAAAATGATTTTTTTTCAAATATA
*
81095 AATAAATATCAATTATTTTCAAGTCTTTTATATTCATATCAGTATCCGTAGGGGCATAAAAGATT
1 AATAAACATCAATT-TTTTCAA-TCTTTTATATTCATATCAGTATCCGTAGGGGCATAAAAGATT
* *** * *
81160 TCAAATTTTTTTTTAATCTTTTTGGGTATCCATTAAGGTACAAAATGATTTTTTTT
64 TAAAAAACTTTTTGAATCTTTTCGGGTATCCATTAAGGTACAAAATGATTTTTTTT
81216 ATAAATAATT
Statistics
Matches: 104, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
127 12 0.12
128 6 0.06
129 86 0.83
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.44
Consensus pattern (127 bp):
AATAAACATCAATTTTTTCAATCTTTTATATTCATATCAGTATCCGTAGGGGCATAAAAGATTTA
AAAAACTTTTTGAATCTTTTCGGGTATCCATTAAGGTACAAAATGATTTTTTTTCAAATATA
Found at i:82425 original size:157 final size:157
Alignment explanation
Indices: 81872--82437 Score: 549
Period size: 158 Copynumber: 3.6 Consensus size: 157
81862 TTTATTACGA
* * * *
81872 AACCAACTCTTAAGTCGTCACTAGGTCCGCTTTTATGCTGAAGGTGGGCATTTAGGATAGGTTCA
1 AACCAACTCCTAAGTCATCACTGGGTCCGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCA
* * * * * **
81937 TC-TCATCTCTAGTCTTTTTAAGTCTTTTAAGGTTG-CTGGGATACTTTTACGTCAAAGGTATAC
66 TCACCATTTCTAGTCTTTTTAAGTCCTTTAGGGTTGTC-AGGATACTTTTACGTTGAAGGTATAC
* *
82000 CCATAAGGGCATTTTCATAA-TTTTTAG
130 CCCTAGGGGCATTTTCATAATTTTTTAG
*** * * * * * ** * ** *
82027 AATTGAGTCCTAGGTTATCACCGGCTATGCTTTTACGTTGAATGTGGGCATTTAGGATAGGTTC-
1 AACCAACTCCTAAGTCATCACTGGGTCCGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCA
* * *
82091 GCACCATTTCTAGTGCTTTTTAGGTCCTTTAGGG--GTACAGGGATACTTTCACGTTGAAGGTAT
66 TCACCATTTCTAGT-CTTTTTAAGTCCTTTAGGGTTGT-CA-GGATACTTTTACGTTGAAGGTAT
82154 -CCCCTAGGGGCATTTTCATAATTTTTTCTAG
128 ACCCCTAGGGGCATTTTCATAA-TTTTT-TAG
* * * ** * *** * * *
82185 AACCAAGTCTTAGGTTGTCA-TCGAGTTTACTTTTATGCCGAAAGTGGGCATTTAAGATAGGTTT
1 AACCAACTCCTAAGTCATCACT-GGGTCCGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTC
* *
82249 ATCATCATTTCTAGTCTTTTTAAGTCCTTTAGGGTTGTCAGGATACTTTTACGTTGAAGCTATAC
65 ATCACCATTTCTAGTCTTTTTAAGTCCTTTAGGGTTGTCAGGATACTTTTACGTTGAAGGTATAC
* **
82314 CCCTTGGGGCATTTTGGTAATTTTTTAG
130 CCCTAGGGGCATTTTCATAATTTTTTAG
82342 AACCAACTCCTAAGTCATCACTGGGTCCGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCA
1 AACCAACTCCTAAGTCATCACTGGGTCCGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCA
*
82407 TC-CCTTTTAC-AGTCCTTTTTAAGTCCTTTAG
66 TCACCATTT-CTAGT-CTTTTTAAGTCCTTTAG
82438 AGGTATTAGG
Statistics
Matches: 329, Mismatches: 66, Indels: 30
0.77 0.16 0.07
Matches are distributed among these distances:
154 2 0.01
155 76 0.23
156 44 0.13
157 78 0.24
158 95 0.29
159 32 0.10
160 2 0.01
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (157 bp):
AACCAACTCCTAAGTCATCACTGGGTCCGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCA
TCACCATTTCTAGTCTTTTTAAGTCCTTTAGGGTTGTCAGGATACTTTTACGTTGAAGGTATACC
CCTAGGGGCATTTTCATAATTTTTTAG
Found at i:82481 original size:314 final size:313
Alignment explanation
Indices: 81901--82493 Score: 683
Period size: 314 Copynumber: 1.9 Consensus size: 313
81891 ACTAGGTCCG
* * * *
81901 CTTTTATGCTGAAGGTGGGCATTTAGGATAGGTTCATCTCATCTCTAGTCTTTTTAAGTCTTTTA
1 CTTTTATGCCGAAAGTGGGCATTTAAGATAGGTTCATCTCATCTCTAGTCTTTTTAAGTCCTTTA
* * **
81966 AGGTTGCTGGGATACTTTTACGTCAAAGGTATACCCATAAGGGCATTTTCATAATTTTTAGAATT
66 AGGTTGCTAGGATACTTTTACGTCAAAGCTATACCCATAAGGGCATTTTCATAATTTTTAGAACC
* * * * * ** *
82031 GAGTCCTAGGTTATCACCGGCTATGCTTTTACGTTGAATGTGGGCATTTAGGATAGGTTCGCACC
131 AACTCCTAAGTCATCACCGGCTACGCTTTTACGCCGAAGGTGGGCATTTAGGATAGGTTCGCACC
* * * * * *
82096 ATTTCTAGTGCTTTTTAGGTCCTTTAGGGGTACAGGGATACTTTCACGTTGAAGGTATCCCCTAG
196 ATTTCTAGTCCTTTTTAAGTCCTTTAGAGGTACAGGGATACTTTCACGTCGAAGGCATCCCCTAA
82161 GGGCATTTTCATAATTTTTTCTAGAACCAAGTCTTAGGTTGTCATCGAGTTTA
261 GGGCATTTTCATAATTTTTTCTAGAACCAAGTCTTAGGTTGTCATCGAGTTTA
* *
82214 CTTTTATGCCGAAAGTGGGCATTTAAGATAGGTTTATCATCATTTCTAGTCTTTTTAAGTCCTTT
1 CTTTTATGCCGAAAGTGGGCATTTAAGATAGGTTCATC-TCATCTCTAGTCTTTTTAAGTCCTTT
* ** * ** **
82279 AGGGTTG-TCAGGATACTTTTACGTTGAAGCTATACCCCTTGGGGCATTTTGGTAATTTTTTAGA
65 AAGGTTGCT-AGGATACTTTTACGTCAAAGCTATACCCATAAGGGCATTTTCATAA-TTTTTAGA
* * * * *
82343 ACCAACTCCTAAGTCATCACTGGGTCCGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCAT
128 ACCAACTCCTAAGTCATCACCGGCTACGCTTTTACGCCGAAGGTGGGCATTTAGGATAGGTTC-G
* * * * * *
82408 C-CCTTTTAC-AGTCCTTTTTAAGTCCTTTAGAGGTATTA-GG-TGCTTTTAGGTCGAAGGCATT
192 CACCATTT-CTAGTCCTTTTTAAGTCCTTTAGAGGTA-CAGGGATACTTTCACGTCGAAGGCATC
** *
82469 CTTTAAGGGCATTTTCGTAATTTTT
255 CCCTAAGGGCATTTTCATAATTTTT
82494 CTTGAACTTA
Statistics
Matches: 228, Mismatches: 46, Indels: 11
0.80 0.16 0.04
Matches are distributed among these distances:
313 35 0.15
314 103 0.45
315 87 0.38
316 3 0.01
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.39
Consensus pattern (313 bp):
CTTTTATGCCGAAAGTGGGCATTTAAGATAGGTTCATCTCATCTCTAGTCTTTTTAAGTCCTTTA
AGGTTGCTAGGATACTTTTACGTCAAAGCTATACCCATAAGGGCATTTTCATAATTTTTAGAACC
AACTCCTAAGTCATCACCGGCTACGCTTTTACGCCGAAGGTGGGCATTTAGGATAGGTTCGCACC
ATTTCTAGTCCTTTTTAAGTCCTTTAGAGGTACAGGGATACTTTCACGTCGAAGGCATCCCCTAA
GGGCATTTTCATAATTTTTTCTAGAACCAAGTCTTAGGTTGTCATCGAGTTTA
Found at i:85555 original size:13 final size:13
Alignment explanation
Indices: 85537--85562 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
85527 CAATTTTTTG
85537 TGTATCGATACAT
1 TGTATCGATACAT
85550 TGTATCGATACAT
1 TGTATCGATACAT
85563 ATTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:85573 original size:32 final size:33
Alignment explanation
Indices: 85517--85580 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
85507 TACAAGCCAA
*
85517 TGTATCAATACAATTTTTTGTGTATCGATACAT
1 TGTATCAATACAATATTTTGTGTATCGATACAT
*
85550 TGTATCGATAC-ATATTTTGTGTATCGATACA
1 TGTATCAATACAATATTTTGTGTATCGATACA
85581 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 19 0.66
33 10 0.34
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.44
Consensus pattern (33 bp):
TGTATCAATACAATATTTTGTGTATCGATACAT
Found at i:85657 original size:20 final size:20
Alignment explanation
Indices: 85611--85684 Score: 78
Period size: 20 Copynumber: 3.6 Consensus size: 20
85601 ATCCCAATGA
***
85611 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGAAT
85632 CATGTATCGATACATTGCAA-
1 CATGTATCGATACATTG-AAT
*
85652 CATGTATCGATACTTTGAAT
1 CATGTATCGATACATTGAAT
*
85672 TATGTATCGATAC
1 CATGTATCGATAC
85685 TTTTAAGGGT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
19 2 0.04
20 29 0.63
21 15 0.33
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.39
Consensus pattern (20 bp):
CATGTATCGATACATTGAAT
Found at i:86215 original size:34 final size:35
Alignment explanation
Indices: 86177--86243 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
86167 CCTTACAACA
86177 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
86211 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
86244 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:86719 original size:13 final size:13
Alignment explanation
Indices: 86701--86726 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
86691 CAATTTTTTG
86701 TGTATCGATACAT
1 TGTATCGATACAT
86714 TGTATCGATACAT
1 TGTATCGATACAT
86727 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:86741 original size:32 final size:33
Alignment explanation
Indices: 86681--86744 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
86671 TACAAGCCAA
** *
86681 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
86714 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
86745 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:87115 original size:35 final size:35
Alignment explanation
Indices: 87074--87143 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
87064 CGGTTTTATT
87074 CAATCCTTTGTTATATCAAAACCAAGATCCTAACA
1 CAATCCTTTGTTATATCAAAACCAAGATCCTAACA
87109 CAATCCTTTGTTATATCAAAACCAAGATCCTAACA
1 CAATCCTTTGTTATATCAAAACCAAGATCCTAACA
87144 ATCTCCCCCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.40, C:0.26, G:0.06, T:0.29
Consensus pattern (35 bp):
CAATCCTTTGTTATATCAAAACCAAGATCCTAACA
Found at i:88546 original size:13 final size:13
Alignment explanation
Indices: 88528--88552 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
88518 ACTGAAGCAA
88528 TGTATCGATACAT
1 TGTATCGATACAT
88541 TGTATCGATACA
1 TGTATCGATACA
88553 ATCTGGAAAA
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:91786 original size:34 final size:35
Alignment explanation
Indices: 91748--91814 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
91738 CCTTACAACA
91748 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
91782 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
91815 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:92290 original size:13 final size:13
Alignment explanation
Indices: 92272--92329 Score: 62
Period size: 13 Copynumber: 4.0 Consensus size: 13
92262 CAATTTTTTG
92272 TGTATCGATACAT
1 TGTATCGATACAT
92285 TGTATCGATACATACTT
1 TGTATCGATAC--A--T
92302 GGTGTATCGATACAT
1 --TGTATCGATACAT
92317 TGTATCGATACAT
1 TGTATCGATACAT
92330 ACTTGGTGTA
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 24 0.62
15 2 0.05
17 2 0.05
19 11 0.28
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:92312 original size:32 final size:32
Alignment explanation
Indices: 92252--92347 Score: 156
Period size: 32 Copynumber: 3.0 Consensus size: 32
92242 TACAAGCCAA
** *
92252 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATAC-ATACTTGGTGTATCGATACAT
92285 TGTATCGATACATACTTGGTGTATCGATACAT
1 TGTATCGATACATACTTGGTGTATCGATACAT
92317 TGTATCGATACATACTTGGTGTATCGATACA
1 TGTATCGATACATACTTGGTGTATCGATACA
92348 AGTTTGGCTA
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
32 49 0.82
33 11 0.18
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.40
Consensus pattern (32 bp):
TGTATCGATACATACTTGGTGTATCGATACAT
Found at i:92354 original size:19 final size:19
Alignment explanation
Indices: 92285--92347 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
92275 ATCGATACAT
92285 TGTATCGATACATACTTGG
1 TGTATCGATACATACTTGG
92304 TGTATCGATAC--A--T--
1 TGTATCGATACATACTTGG
92317 TGTATCGATACATACTTGG
1 TGTATCGATACATACTTGG
92336 TGTATCGATACA
1 TGTATCGATACA
92348 AGTTTGGCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
15 2 0.05
17 2 0.05
19 23 0.61
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.37
Consensus pattern (19 bp):
TGTATCGATACATACTTGG
Found at i:92718 original size:35 final size:35
Alignment explanation
Indices: 92677--92746 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
92667 CGGTTTTATT
92677 CAATCCTTTGTTATATCAAAACCAAGATCCTAACA
1 CAATCCTTTGTTATATCAAAACCAAGATCCTAACA
92712 CAATCCTTTGTTATATCAAAACCAAGATCCTAACA
1 CAATCCTTTGTTATATCAAAACCAAGATCCTAACA
92747 ATCTCTCCCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.40, C:0.26, G:0.06, T:0.29
Consensus pattern (35 bp):
CAATCCTTTGTTATATCAAAACCAAGATCCTAACA
Found at i:94454 original size:21 final size:20
Alignment explanation
Indices: 94425--94467 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
94415 GACTAGTGTG
* *
94425 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCGCGACCT
*
94446 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
94466 GG
1 GG
94468 TGGTGCTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.09, C:0.28, G:0.44, T:0.19
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:94916 original size:13 final size:13
Alignment explanation
Indices: 94898--94948 Score: 93
Period size: 13 Copynumber: 3.9 Consensus size: 13
94888 ATAATCCCCC
94898 TGTATCGATACAG
1 TGTATCGATACAG
94911 TGTATCGATACAG
1 TGTATCGATACAG
*
94924 TGTATCGATACAT
1 TGTATCGATACAG
94937 TGTATCGATACA
1 TGTATCGATACA
94949 AAGAAAAATA
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:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:96904 original size:15 final size:15
Alignment explanation
Indices: 96884--96914 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
96874 ATTTCGTTTG
*
96884 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
96899 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
96914 G
1 G
96915 GACATTTTTA
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:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:102266 original size:14 final size:13
Alignment explanation
Indices: 102247--102292 Score: 62
Period size: 10 Copynumber: 3.7 Consensus size: 13
102237 TTTCTTTGTC
102247 ATCGATACACATGT
1 ATCGATACAC-TGT
102261 ATCGATACACTGT
1 ATCGATACACTGT
102274 ATCG---CACTGT
1 ATCGATACACTGT
102284 ATCGATACA
1 ATCGATACA
102293 GGGGGATTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 10 0.34
13 9 0.31
14 10 0.34
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (13 bp):
ATCGATACACTGT
Found at i:104465 original size:34 final size:35
Alignment explanation
Indices: 104426--104494 Score: 131
Period size: 34 Copynumber: 2.0 Consensus size: 35
104416 AGGGAGAGAT
104426 TGTTAGGATCTTGGTTTTGATATAAC-AAGGATTG
1 TGTTAGGATCTTGGTTTTGATATAACAAAGGATTG
104460 TGTTAGGATCTTGGTTTTGATATAACAAAGGATTG
1 TGTTAGGATCTTGGTTTTGATATAACAAAGGATTG
104495 AATTAAAACC
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 26 0.76
35 8 0.24
ACGTcount: A:0.28, C:0.06, G:0.26, T:0.41
Consensus pattern (35 bp):
TGTTAGGATCTTGGTTTTGATATAACAAAGGATTG
Found at i:104864 original size:31 final size:31
Alignment explanation
Indices: 104829--104905 Score: 90
Period size: 31 Copynumber: 2.5 Consensus size: 31
104819 TAGCCAAACT
104829 TGTATCGATACACATAAT-GGATCG-ATGACAA
1 TGTATCGATACACA-AATCGGATCGTAT-ACAA
*
104860 TGTATCG-TACACCAAGTCGGATCGTATACAA
1 TGTATCGATACA-CAAATCGGATCGTATACAA
104891 TG-ATCGATACACAAA
1 TGTATCGATACACAAA
104906 AAAATTGTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
30 13 0.32
31 25 0.62
32 2 0.05
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (31 bp):
TGTATCGATACACAAATCGGATCGTATACAA
Found at i:105409 original size:34 final size:35
Alignment explanation
Indices: 105346--105412 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
105336 CTAAGTGATT
105346 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
105382 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
105413 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:108632 original size:13 final size:13
Alignment explanation
Indices: 108614--108638 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
108604 TTTTCCAGAT
108614 TGTATCGATACAA
1 TGTATCGATACAA
108627 TGTATCGATACA
1 TGTATCGATACA
108639 TTGCTTCAGT
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:110090 original size:35 final size:36
Alignment explanation
Indices: 110022--110092 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
110012 GGGGGGAGAT
*
110022 TGTTCGGATCTTGGTTTTGATAATAACAAAGGATTG
1 TGTTAGGATCTTGGTTTTGATAATAACAAAGGATTG
110058 TGTTAGGATCTTGGTTTTGAT-ATAACAAAGGATTG
1 TGTTAGGATCTTGGTTTTGATAATAACAAAGGATTG
110093 AATAAAACCG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 14 0.41
36 20 0.59
ACGTcount: A:0.28, C:0.07, G:0.25, T:0.39
Consensus pattern (36 bp):
TGTTAGGATCTTGGTTTTGATAATAACAAAGGATTG
Found at i:110456 original size:13 final size:13
Alignment explanation
Indices: 110438--110463 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
110428 TACACCAAGT
110438 ATGTATCGATACA
1 ATGTATCGATACA
110451 ATGTATCGATACA
1 ATGTATCGATACA
110464 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:110461 original size:32 final size:33
Alignment explanation
Indices: 110420--110483 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
110410 AGCCAAACCT
* **
110420 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
110452 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
110484 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Done.