Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 25 of 199
Found at i:10285959 original size:26 final size:28
Alignment explanation
Indices: 10285930--10285992 Score: 94
Period size: 26 Copynumber: 2.3 Consensus size: 28
10285920 GTTTTTTTGT
10285930 ATATTTTGATAAAT-AAAAAAA-TTATA
1 ATATTTTGATAAATAAAAAAAAGTTATA
*
10285956 ATATTTTGGTAAATAAAAAAAAAGTTATA
1 ATATTTTGATAAAT-AAAAAAAAGTTATA
10285985 ATATTTTG
1 ATATTTTG
10285993 GTTATTTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
26 13 0.39
28 7 0.21
29 13 0.39
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (28 bp):
ATATTTTGATAAATAAAAAAAAGTTATA
Found at i:10285986 original size:29 final size:26
Alignment explanation
Indices: 10285930--10285994 Score: 94
Period size: 29 Copynumber: 2.4 Consensus size: 26
10285920 GTTTTTTTGT
*
10285930 ATATTTTGATAAATAAAAAAATTATA
1 ATATTTTGGTAAATAAAAAAATTATA
10285956 ATATTTTGGTAAATAAAAAAAAAGTTATA
1 ATATTTTGGTAAAT--AAAAAAA-TTATA
10285985 ATATTTTGGT
1 ATATTTTGGT
10285995 TATTTTTTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
26 13 0.37
28 7 0.20
29 15 0.43
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (26 bp):
ATATTTTGGTAAATAAAAAAATTATA
Found at i:10293337 original size:46 final size:46
Alignment explanation
Indices: 10293284--10293373 Score: 153
Period size: 46 Copynumber: 2.0 Consensus size: 46
10293274 ATAAGAAATA
10293284 GCAAAACCACATCGTTTTGATAAATGTTTACCCATTAAGTTAAAAG
1 GCAAAACCACATCGTTTTGATAAATGTTTACCCATTAAGTTAAAAG
** *
10293330 GCAAAACCATGTCGTTTTGATAAATGTTTACTCATTAAGTTAAA
1 GCAAAACCACATCGTTTTGATAAATGTTTACCCATTAAGTTAAA
10293374 TTATCTTCTA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (46 bp):
GCAAAACCACATCGTTTTGATAAATGTTTACCCATTAAGTTAAAAG
Found at i:10293707 original size:30 final size:32
Alignment explanation
Indices: 10293668--10293746 Score: 83
Period size: 30 Copynumber: 2.5 Consensus size: 32
10293658 TTAAATAAAT
*
10293668 AAATGATAAAATTATAG-TTTGTT-CTTTCAA
1 AAATAATAAAATTATAGATTTGTTCCTTTCAA
* *
10293698 AAATAATAAAATT-TTGATTTGTTCCTTTTAA
1 AAATAATAAAATTATAGATTTGTTCCTTTCAA
*
10293729 AAATTAAAAAAATATATA
1 AAA-TAATAAAAT-TATA
10293747 CAAATACAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
29 2 0.05
30 18 0.46
31 9 0.23
32 8 0.21
33 1 0.03
34 1 0.03
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.42
Consensus pattern (32 bp):
AAATAATAAAATTATAGATTTGTTCCTTTCAA
Found at i:10309894 original size:23 final size:23
Alignment explanation
Indices: 10309868--10309911 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
10309858 CAAAAGAAAA
10309868 ACAAAATTGTTCAAAAAAAATTG
1 ACAAAATTGTTCAAAAAAAATTG
**
10309891 ACAAAATTGTTTTAAAAAAAT
1 ACAAAATTGTTCAAAAAAAAT
10309912 AACTAACAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.30
Consensus pattern (23 bp):
ACAAAATTGTTCAAAAAAAATTG
Found at i:10310572 original size:27 final size:27
Alignment explanation
Indices: 10310542--10310639 Score: 133
Period size: 27 Copynumber: 3.6 Consensus size: 27
10310532 CCTATGGGAA
* *
10310542 AGGCGTGATCGGTGCCGCCTCTTTCCT
1 AGGCGTGACCGGTGCCGCCTCTTCCCT
*
10310569 AGGCGTGACCGGTGCCGCCCCTTCCCT
1 AGGCGTGACCGGTGCCGCCTCTTCCCT
* **
10310596 AGGAGTGACCGGTGCCATCTCTTCCCT
1 AGGCGTGACCGGTGCCGCCTCTTCCCT
*
10310623 AGGCGTGACTGGTGCCG
1 AGGCGTGACCGGTGCCG
10310640 TGCTATCCCA
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 61 1.00
ACGTcount: A:0.10, C:0.35, G:0.32, T:0.23
Consensus pattern (27 bp):
AGGCGTGACCGGTGCCGCCTCTTCCCT
Found at i:10310675 original size:16 final size:16
Alignment explanation
Indices: 10310672--10310733 Score: 70
Period size: 16 Copynumber: 3.7 Consensus size: 16
10310662 CATCAGTTTT
*
10310672 GTTTTTTTTTTCATCA
1 GTTTTGTTTTTCATCA
*
10310688 GCTTTGTTTTTCATCA
1 GTTTTGTTTTTCATCA
*
10310704 GTTTTGTTTTTTTTTATCA
1 GTTTTG---TTTTTCATCA
10310723 GTTTTGTTTTT
1 GTTTTGTTTTT
10310734 GTTTTAGTGT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
16 24 0.62
19 15 0.38
ACGTcount: A:0.10, C:0.10, G:0.11, T:0.69
Consensus pattern (16 bp):
GTTTTGTTTTTCATCA
Found at i:10310696 original size:37 final size:35
Alignment explanation
Indices: 10310654--10310733 Score: 133
Period size: 37 Copynumber: 2.2 Consensus size: 35
10310644 ATCCCATCAC
10310654 TTGTTTTTCATCAGTTTTGTTTTTTTTTTCATCAGCT
1 TTGTTTTTCATCAGTTTTG-TTTTTTTTT-ATCAGCT
*
10310691 TTGTTTTTCATCAGTTTTGTTTTTTTTTATCAGTT
1 TTGTTTTTCATCAGTTTTGTTTTTTTTTATCAGCT
10310726 TTGTTTTT
1 TTGTTTTT
10310734 GTTTTAGTGT
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
35 14 0.33
36 9 0.21
37 19 0.45
ACGTcount: A:0.10, C:0.10, G:0.11, T:0.69
Consensus pattern (35 bp):
TTGTTTTTCATCAGTTTTGTTTTTTTTTATCAGCT
Found at i:10310697 original size:19 final size:19
Alignment explanation
Indices: 10310657--10310733 Score: 97
Period size: 19 Copynumber: 4.1 Consensus size: 19
10310647 CCATCACTTG
10310657 TTTTTCATCAGTTTTGTTTTT
1 TTTTTCATCAGTTTTG--TTT
*
10310678 TTTTTCATCAGCTTTG---
1 TTTTTCATCAGTTTTGTTT
10310694 TTTTTCATCAGTTTTGTTT
1 TTTTTCATCAGTTTTGTTT
*
10310713 TTTTTTATCAGTTTTGTTT
1 TTTTTCATCAGTTTTGTTT
10310732 TT
1 TT
10310734 GTTTTAGTGT
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
16 15 0.30
19 20 0.40
21 15 0.30
ACGTcount: A:0.10, C:0.10, G:0.10, T:0.69
Consensus pattern (19 bp):
TTTTTCATCAGTTTTGTTT
Found at i:10311192 original size:12 final size:12
Alignment explanation
Indices: 10311175--10311199 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10311165 ATTTAATTCG
10311175 AATTTAATTTTT
1 AATTTAATTTTT
10311187 AATTTAATTTTT
1 AATTTAATTTTT
10311199 A
1 A
10311200 TAAGGTATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
AATTTAATTTTT
Found at i:10311461 original size:7 final size:7
Alignment explanation
Indices: 10311449--10311476 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
10311439 CATGTCAAGC
10311449 ATATTAT
1 ATATTAT
10311456 ATATTAT
1 ATATTAT
10311463 ATATTAT
1 ATATTAT
10311470 ATATTAT
1 ATATTAT
10311477 GATTACACTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
ATATTAT
Found at i:10313838 original size:22 final size:24
Alignment explanation
Indices: 10313811--10313916 Score: 126
Period size: 25 Copynumber: 4.4 Consensus size: 24
10313801 CACTAATGGA
*
10313811 CAGAGAGCACTAAAGTGCT-ATA-
1 CAGAGAGCACTAACGTGCTAATAT
* *
10313833 CAGAGAGCACTGACGTGCTAAAAT
1 CAGAGAGCACTAACGTGCTAATAT
* * *
10313857 CAGAGAGCACCAACTTGCTAGTAGT
1 CAGAGAGCACTAACGTGCTAATA-T
10313882 CAGAGAGCACTAACGTGCTAATAAT
1 CAGAGAGCACTAACGTGCTAAT-AT
10313907 CAGAGAGCAC
1 CAGAGAGCAC
10313917 GCTAAAGTTC
Statistics
Matches: 69, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
22 17 0.25
23 2 0.03
24 18 0.26
25 31 0.45
26 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.17
Consensus pattern (24 bp):
CAGAGAGCACTAACGTGCTAATAT
Found at i:10314378 original size:36 final size:33
Alignment explanation
Indices: 10314338--10314403 Score: 78
Period size: 33 Copynumber: 1.9 Consensus size: 33
10314328 CTTCCTTCAC
*
10314338 TCCTTAGCCTTCTATTTTCCTTTTTCTTCAATTAGG
1 TCCTT-GCCTT-TATTTT-CTTTATCTTCAATTAGG
* *
10314374 TCCTTTCCTTTCTTTTCTTTATCTTCAATT
1 TCCTTGCCTTTATTTTCTTTATCTTCAATT
10314404 TCATATAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 13 0.48
34 5 0.19
35 4 0.15
36 5 0.19
ACGTcount: A:0.12, C:0.26, G:0.05, T:0.58
Consensus pattern (33 bp):
TCCTTGCCTTTATTTTCTTTATCTTCAATTAGG
Found at i:10315077 original size:33 final size:31
Alignment explanation
Indices: 10315019--10315084 Score: 80
Period size: 33 Copynumber: 2.1 Consensus size: 31
10315009 TTATATATAT
* *
10315019 AATAATATAATATAATAACTTACTTATTAATTA
1 AATAACATAATATAATAACTAACTTA--AATTA
10315052 AATAACATAATATAATATA-TAACTTAAATTA
1 AATAACATAATATAATA-ACTAACTTAAATTA
10315083 AA
1 AA
10315085 AAATATCTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
31 7 0.23
33 22 0.73
34 1 0.03
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (31 bp):
AATAACATAATATAATAACTAACTTAAATTA
Found at i:10315689 original size:14 final size:14
Alignment explanation
Indices: 10315670--10315705 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
10315660 CTTTTTTTTC
*
10315670 TTCTAATGATACTA
1 TTCTAACGATACTA
10315684 TTCTAACGATACTA
1 TTCTAACGATACTA
10315698 TTCTAACG
1 TTCTAACG
10315706 TATAATTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.19, G:0.08, T:0.39
Consensus pattern (14 bp):
TTCTAACGATACTA
Found at i:10320561 original size:113 final size:113
Alignment explanation
Indices: 10320438--10320661 Score: 439
Period size: 113 Copynumber: 2.0 Consensus size: 113
10320428 TTGTTCACAT
10320438 TGAATTTTTTTCATAATTAAAACTAAATTTTGGGACACCTATAAAACACAACTAGCCTTGTAATA
1 TGAATTTTTTTCATAATTAAAACTAAATTTTGGGACACCTATAAAACACAACTAGCCTTGTAATA
10320503 AAATAACATCATATACAAATAATATTTCTACAAATTAACACTTATCTG
66 AAATAACATCATATACAAATAATATTTCTACAAATTAACACTTATCTG
*
10320551 TGAATTTTTTTCATAATTAAAACTAAATTTTGGGACACCTATAAAACACAACTAGCCTTTTAATA
1 TGAATTTTTTTCATAATTAAAACTAAATTTTGGGACACCTATAAAACACAACTAGCCTTGTAATA
10320616 AAATAACATCATATACAAATAATATTTCTACAAATTAACACTTATC
66 AAATAACATCATATACAAATAATATTTCTACAAATTAACACTTATC
10320662 AAAAATTACA
Statistics
Matches: 110, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
113 110 1.00
ACGTcount: A:0.44, C:0.16, G:0.05, T:0.35
Consensus pattern (113 bp):
TGAATTTTTTTCATAATTAAAACTAAATTTTGGGACACCTATAAAACACAACTAGCCTTGTAATA
AAATAACATCATATACAAATAATATTTCTACAAATTAACACTTATCTG
Found at i:10325199 original size:24 final size:24
Alignment explanation
Indices: 10325144--10325202 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 24
10325134 TCAATCCCCA
* * * *
10325144 CCACCACCACCTCCACCATTAGTG
1 CCACCACCACCACCACCATCAATC
**
10325168 CCTTCACCACCACCACCATCAATC
1 CCACCACCACCACCACCATCAATC
10325192 CCACCACCACC
1 CCACCACCACC
10325203 GCTAGTTTTT
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.27, C:0.56, G:0.03, T:0.14
Consensus pattern (24 bp):
CCACCACCACCACCACCATCAATC
Found at i:10334684 original size:7 final size:7
Alignment explanation
Indices: 10334672--10334700 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
10334662 CAGTACATAT
10334672 AAAACAA
1 AAAACAA
10334679 AAAACAA
1 AAAACAA
10334686 AAAACAA
1 AAAACAA
10334693 AAAACAA
1 AAAACAA
10334700 A
1 A
10334701 CTAGAAGTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAACAA
Found at i:10335996 original size:19 final size:20
Alignment explanation
Indices: 10335969--10336006 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
10335959 TTGATAAATT
*
10335969 AAAATTTAATAATATTTTGA
1 AAAATTAAATAATATTTTGA
*
10335989 AAAATTAAATATTATTTT
1 AAAATTAAATAATATTTT
10336007 TTAAAAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (20 bp):
AAAATTAAATAATATTTTGA
Found at i:10336012 original size:20 final size:20
Alignment explanation
Indices: 10335967--10336012 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
10335957 ATTTGATAAA
*
10335967 TTAAAATTTAATAATATTTT
1 TTAAAATTAAATAATATTTT
** *
10335987 GAAAAATTAAATATTATTTT
1 TTAAAATTAAATAATATTTT
10336007 TTAAAA
1 TTAAAA
10336013 AATAAGTATG
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (20 bp):
TTAAAATTAAATAATATTTT
Found at i:10348305 original size:120 final size:120
Alignment explanation
Indices: 10348087--10348332 Score: 447
Period size: 120 Copynumber: 2.0 Consensus size: 120
10348077 AGCAGCAGAC
* *
10348087 AATACTTACCTTTCAATTTTCACATACGTTTACACGCACCAAACCCATCATTACTCGTTTTCCCT
1 AATA-TTACCTTTCAAATTTCACATACGTTTACACGCACCAAACCCATCATTACTCATTTTCCCT
*
10348152 CCAATATTATTGGACTTCATTTATTTTCATTGAAAAATTAAGAGCAACATAACTCT
65 CCAATATTATTGGACTTCATTTACTTTCATTGAAAAATTAAGAGCAACATAACTCT
10348208 AATATTACCTTTCAAATTTCACATACGTTTACACGCACCAAACCCATCATTACTCATTTTCCCTC
1 AATATTACCTTTCAAATTTCACATACGTTTACACGCACCAAACCCATCATTACTCATTTTCCCTC
*
10348273 CAATATTCTTGGACTTCATTTACTTTCATTGAAAAATTAAGAGCAACATAACTCT
66 CAATATTATTGGACTTCATTTACTTTCATTGAAAAATTAAGAGCAACATAACTCT
10348328 AATAT
1 AATAT
10348333 ATATACATTT
Statistics
Matches: 121, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
120 117 0.97
121 4 0.03
ACGTcount: A:0.33, C:0.25, G:0.06, T:0.36
Consensus pattern (120 bp):
AATATTACCTTTCAAATTTCACATACGTTTACACGCACCAAACCCATCATTACTCATTTTCCCTC
CAATATTATTGGACTTCATTTACTTTCATTGAAAAATTAAGAGCAACATAACTCT
Found at i:10353054 original size:33 final size:37
Alignment explanation
Indices: 10353017--10353084 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 37
10353007 ATTTAATAAC
*
10353017 TATAAAACG-TT-AT-TTAAAA-AATATATTAAAATT
1 TATAAAACGTTTCATATTAAAATAATATAATAAAATT
*
10353050 TATAAAATGTTTCATATTAAAATAATATAATAAAA
1 TATAAAACGTTTCATATTAAAATAATATAATAAAA
10353085 CCTTCGTTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 8 0.28
34 2 0.07
35 2 0.07
36 6 0.21
37 11 0.38
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (37 bp):
TATAAAACGTTTCATATTAAAATAATATAATAAAATT
Found at i:10354438 original size:31 final size:32
Alignment explanation
Indices: 10354401--10354462 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 32
10354391 ATAATTTTAC
*
10354401 ATTAATAAGTGATATGTGAAAAATA-AATTAA
1 ATTAATAAGTGAAATGTGAAAAATATAATTAA
10354432 ATTAATAAGTGAAATGTGAAAAATATAATTA
1 ATTAATAAGTGAAATGTGAAAAATATAATTA
10354463 CTTTTTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 24 0.83
32 5 0.17
ACGTcount: A:0.55, C:0.00, G:0.13, T:0.32
Consensus pattern (32 bp):
ATTAATAAGTGAAATGTGAAAAATATAATTAA
Found at i:10355644 original size:21 final size:21
Alignment explanation
Indices: 10355609--10355648 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
10355599 AATGTAGTAT
10355609 ACAAATTAAACATGAATCTGAA
1 ACAAATTAAACATG-ATCTGAA
*
10355631 ACAAA-TAAATATGATCTG
1 ACAAATTAAACATGATCTG
10355649 TTTATTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 7 0.41
22 5 0.29
ACGTcount: A:0.53, C:0.12, G:0.10, T:0.25
Consensus pattern (21 bp):
ACAAATTAAACATGATCTGAA
Found at i:10356840 original size:19 final size:19
Alignment explanation
Indices: 10356816--10356855 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
10356806 TTTAAAATAT
*
10356816 ATAATTTTTAT-AGTTTTTA
1 ATAATTTTAATGA-TTTTTA
10356835 ATAATTTTAATGATTTTTA
1 ATAATTTTAATGATTTTTA
10356854 AT
1 AT
10356856 TTTAAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 18 0.95
20 1 0.05
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (19 bp):
ATAATTTTAATGATTTTTA
Found at i:10381964 original size:27 final size:27
Alignment explanation
Indices: 10381934--10381989 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
10381924 ATCAGATTAT
* *
10381934 GCAGCAGAAGCATCAA-CTAATGCAACA
1 GCAGCAGAAGCAGCAAGC-AAAGCAACA
*
10381961 GCAGCAGCAGCAGCAAGCAAAGCAACA
1 GCAGCAGAAGCAGCAAGCAAAGCAACA
10381988 GC
1 GC
10381990 TGCCCACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 24 0.96
28 1 0.04
ACGTcount: A:0.43, C:0.29, G:0.23, T:0.05
Consensus pattern (27 bp):
GCAGCAGAAGCAGCAAGCAAAGCAACA
Found at i:10391210 original size:2 final size:2
Alignment explanation
Indices: 10391203--10391227 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10391193 TATCGGAGTC
10391203 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 A
10391228 ATACGAGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10396036 original size:5 final size:5
Alignment explanation
Indices: 10396028--10396052 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
10396018 ACATCACAAG
10396028 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
10396053 GGTATTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:10396905 original size:46 final size:45
Alignment explanation
Indices: 10396805--10397176 Score: 451
Period size: 46 Copynumber: 8.6 Consensus size: 45
10396795 TACATATGAT
* * *
10396805 CACTTATC-CCTTGTC-CCTGATCAGATAAGTGTAGCTAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTAC
*
10396848 CACTTATCACTTTGTCACTTGATCAGATAAGAGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAA-GCTAC
* *
10396894 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAAGCTAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTAC
10396940 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--T-AG----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTAC
* *
10396976 CACTTATCGCTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTAC
*
10397022 CACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-A---A-
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTAC
*
10397058 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAATGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAA-GCTAC
*
10397104 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAATGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAA-GCTAC
*
10397150 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
10397177 AGTACTCAAA
Statistics
Matches: 288, Mismatches: 17, Indels: 45
0.82 0.05 0.13
Matches are distributed among these distances:
36 56 0.19
37 1 0.00
38 5 0.02
39 1 0.00
40 5 0.02
41 1 0.00
42 4 0.01
43 9 0.03
44 11 0.04
45 21 0.07
46 172 0.60
47 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (45 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTAC
Found at i:10396981 original size:36 final size:36
Alignment explanation
Indices: 10396940--10397094 Score: 157
Period size: 36 Copynumber: 4.0 Consensus size: 36
10396930 CTAAAGCTAA
10396940 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
* *
10396976 CACTTATCGCTTTTTCACTTGATCAGATAAGTGTAGCTAAAG
1 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--T--AG
* * *
10397018 CTACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAA
1 ----CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
* *
10397058 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
10397094 C
1 C
10397095 TAATGCTACC
Statistics
Matches: 99, Mismatches: 10, Indels: 20
0.77 0.08 0.16
Matches are distributed among these distances:
36 62 0.63
38 3 0.03
40 2 0.02
42 3 0.03
44 2 0.02
46 27 0.27
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
Found at i:10397003 original size:128 final size:123
Alignment explanation
Indices: 10396847--10397176 Score: 400
Period size: 128 Copynumber: 2.6 Consensus size: 123
10396837 AGCTAGGCTA
* * * *
10396847 CCACTTATCACTTTGTCACTTGATCAGATAAGAGTAGCTAAGGCTACCACTTATCACTTTCTCAC
1 CCACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCAC
10396912 TTGATCAGATAAGTGTAGCTAAAGCTAACACTTATCACTTTGTCACTTGATCAGATAA-GTA-T-
66 TTGATCAGAT-A----AG-T---G-TAACACTTATCACTTTGTCACTTGATCAGATAAGGTACTA
10396974 A-G
121 ATG
* * * *
10396976 -CACTTATCGCTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTC
1 CCACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCAC
*
10397040 TTGATCAGATAAGTGTAACACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAATG
66 TTGATCAGATAAGTGTAACACTTATCACTTTGTCACTTGATCAGATAAG-GTA-CTAATG
*
10397100 CTACCACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAATGCTACCACTTATCACTTTAT
1 ---CCACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTAT
10397165 CACTTGATCAGA
63 CACTTGATCAGA
10397177 AGTACTCAAA
Statistics
Matches: 179, Mismatches: 12, Indels: 21
0.84 0.06 0.10
Matches are distributed among these distances:
118 32 0.18
119 1 0.01
120 3 0.02
122 2 0.01
123 3 0.02
124 1 0.01
127 1 0.01
128 136 0.76
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (123 bp):
CCACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCAC
TTGATCAGATAAGTGTAACACTTATCACTTTGTCACTTGATCAGATAAGGTACTAATG
Found at i:10397031 original size:82 final size:82
Alignment explanation
Indices: 10396894--10397140 Score: 422
Period size: 82 Copynumber: 3.0 Consensus size: 82
10396884 CTAAGGCTAC
* *
10396894 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAAGCTAACACTTATCACTTTGTCACT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
*
10396959 TGATCAGATAAGTATAG
66 TGATCAGATAAGTGTAG
* *
10396976 CACTTATCGCTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
*
10397041 TGATCAGATAAGTGTAA
66 TGATCAGATAAGTGTAG
* *
10397058 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAATGCTACCACTTATCACTTTCTCACT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
10397123 TGATCAGATAAGTGTAG
66 TGATCAGATAAGTGTAG
10397140 C
1 C
10397141 TAATGCTACC
Statistics
Matches: 154, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
82 154 1.00
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (82 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
TGATCAGATAAGTGTAG
Found at i:10410803 original size:190 final size:190
Alignment explanation
Indices: 10410480--10410859 Score: 742
Period size: 190 Copynumber: 2.0 Consensus size: 190
10410470 GTGAATGTCA
10410480 ACTTAAGTAAGCTTTTTGTTATATTGTGGTGCAAGTCTCGATAGATTTGTTTGGCTCAATAATTC
1 ACTTAAGTAAGCTTTTTGTTATATTGTGGTGCAAGTCTCGATAGATTTGTTTGGCTCAATAATTC
10410545 ACTTATCGTGAGAGGTGGTAGGTTCGTCACAAAATGAATAGCATGGACATGTATAAAGACTCATT
66 ACTTATCGTGAGAGGTGGTAGGTTCGTCACAAAATGAATAGCATGGACATGTATAAAGACTCATT
*
10410610 GTGGAGGTATAACCAAGATTTAAAAAAACAAATAGAAAAACATTTTAAAAAGTTTTGTAC
131 GTGGAGGTATAACCAAAATTTAAAAAAACAAATAGAAAAACATTTTAAAAAGTTTTGTAC
10410670 ACTTAAGTAAGCTTTTTGTTATATTGTGGTGCAAGTCTCGATAGATTTGTTTGGCTCAATAATTC
1 ACTTAAGTAAGCTTTTTGTTATATTGTGGTGCAAGTCTCGATAGATTTGTTTGGCTCAATAATTC
*
10410735 ACTTATCGTGAGAGGTGGTAGGTTCGTCACAAAATGAATCGCATGGACATGTATAAAGACTCATT
66 ACTTATCGTGAGAGGTGGTAGGTTCGTCACAAAATGAATAGCATGGACATGTATAAAGACTCATT
10410800 GTGGAGGTATAACCAAAATTTAAAAAAACAAATAGAAAAACATTTTAAAAAGTTTTGTAC
131 GTGGAGGTATAACCAAAATTTAAAAAAACAAATAGAAAAACATTTTAAAAAGTTTTGTAC
10410860 CAAAAGTGAC
Statistics
Matches: 188, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
190 188 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.33
Consensus pattern (190 bp):
ACTTAAGTAAGCTTTTTGTTATATTGTGGTGCAAGTCTCGATAGATTTGTTTGGCTCAATAATTC
ACTTATCGTGAGAGGTGGTAGGTTCGTCACAAAATGAATAGCATGGACATGTATAAAGACTCATT
GTGGAGGTATAACCAAAATTTAAAAAAACAAATAGAAAAACATTTTAAAAAGTTTTGTAC
Found at i:10411835 original size:21 final size:21
Alignment explanation
Indices: 10411809--10411854 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
10411799 TGGTCGATGA
* *
10411809 AAAAAAGTAAATATAAATTGT
1 AAAAAAGTAAAAATAAATTAT
*
10411830 AAAAAAGTAAAAATATATTAT
1 AAAAAAGTAAAAATAAATTAT
10411851 AAAA
1 AAAA
10411855 CTTTAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (21 bp):
AAAAAAGTAAAAATAAATTAT
Found at i:10427134 original size:18 final size:19
Alignment explanation
Indices: 10427103--10427140 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
10427093 GCTTTTGGTA
**
10427103 ACACCATCTTCAA-TTAGT
1 ACACCATCGCCAATTTAGT
10427121 ACACCATCGCCAATTTAGT
1 ACACCATCGCCAATTTAGT
10427140 A
1 A
10427141 TGCATTGACT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.34, C:0.29, G:0.08, T:0.29
Consensus pattern (19 bp):
ACACCATCGCCAATTTAGT
Found at i:10434939 original size:27 final size:27
Alignment explanation
Indices: 10434901--10434973 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 27
10434891 GGACATGATG
*
10434901 CCTATTTGATAGGCGGCACCAGTGACC
1 CCTATTTGATAGGTGGCACCAGTGACC
** ***
10434928 CCTATTTGATAGGTGGCATTAGTGGTG
1 CCTATTTGATAGGTGGCACCAGTGACC
10434955 CCTATTTGATAGGTGGCAC
1 CCTATTTGATAGGTGGCAC
10434974 AACTAGTATT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.30
Consensus pattern (27 bp):
CCTATTTGATAGGTGGCACCAGTGACC
Found at i:10435755 original size:58 final size:58
Alignment explanation
Indices: 10435687--10435817 Score: 209
Period size: 53 Copynumber: 2.3 Consensus size: 58
10435677 CAAATAAATT
*
10435687 ACATAAAAAATAAAATATTATTTGCACATAACATAAATAGACTTTTTTACTTCAATAA
1 ACATTAAAAATAAAATATTATTTGCACATAACATAAATAGACTTTTTTACTTCAATAA
10435745 ACATT----A-AAAATATTATTTGCACATAACATAAATAGACTTTTTTACTTCAATAA
1 ACATTAAAAATAAAATATTATTTGCACATAACATAAATAGACTTTTTTACTTCAATAA
*
10435798 ACATTAAAAATAAATTATTA
1 ACATTAAAAATAAAATATTA
10435818 ATAAATAAAA
Statistics
Matches: 66, Mismatches: 2, Indels: 10
0.85 0.03 0.13
Matches are distributed among these distances:
53 52 0.79
54 1 0.02
57 1 0.02
58 12 0.18
ACGTcount: A:0.50, C:0.11, G:0.03, T:0.36
Consensus pattern (58 bp):
ACATTAAAAATAAAATATTATTTGCACATAACATAAATAGACTTTTTTACTTCAATAA
Found at i:10435768 original size:53 final size:53
Alignment explanation
Indices: 10435698--10435809 Score: 224
Period size: 53 Copynumber: 2.1 Consensus size: 53
10435688 CATAAAAAAT
10435698 AAAATATTATTTGCACATAACATAAATAGACTTTTTTACTTCAATAAACATTA
1 AAAATATTATTTGCACATAACATAAATAGACTTTTTTACTTCAATAAACATTA
10435751 AAAATATTATTTGCACATAACATAAATAGACTTTTTTACTTCAATAAACATTA
1 AAAATATTATTTGCACATAACATAAATAGACTTTTTTACTTCAATAAACATTA
10435804 AAAATA
1 AAAATA
10435810 AATTATTAAT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 59 1.00
ACGTcount: A:0.47, C:0.12, G:0.04, T:0.37
Consensus pattern (53 bp):
AAAATATTATTTGCACATAACATAAATAGACTTTTTTACTTCAATAAACATTA
Found at i:10435801 original size:28 final size:28
Alignment explanation
Indices: 10435716--10435801 Score: 90
Period size: 28 Copynumber: 3.2 Consensus size: 28
10435706 ATTTGCACAT
10435716 AACATAAATAGACTTTTTTACTTCAATA
1 AACATAAATAGACTTTTTTACTTCAATA
* * * * *
10435744 AACATTAAAAATA-TTATTTGC-AC-AT-
1 AACA-TAAATAGACTTTTTTACTTCAATA
10435769 AACATAAATAGACTTTTTTACTTCAATA
1 AACATAAATAGACTTTTTTACTTCAATA
10435797 AACAT
1 AACAT
10435802 TAAAAATAAA
Statistics
Matches: 43, Mismatches: 10, Indels: 10
0.68 0.16 0.16
Matches are distributed among these distances:
24 6 0.14
25 10 0.23
26 3 0.07
27 3 0.07
28 15 0.35
29 6 0.14
ACGTcount: A:0.45, C:0.14, G:0.03, T:0.37
Consensus pattern (28 bp):
AACATAAATAGACTTTTTTACTTCAATA
Found at i:10435837 original size:17 final size:17
Alignment explanation
Indices: 10435817--10435851 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
10435807 ATAAATTATT
*
10435817 AATAAATAAAAATATAA
1 AATAAATAAAAACATAA
*
10435834 AATAAATACAAACATAA
1 AATAAATAAAAACATAA
10435851 A
1 A
10435852 TTAATAGCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.20
Consensus pattern (17 bp):
AATAAATAAAAACATAA
Found at i:10442765 original size:32 final size:32
Alignment explanation
Indices: 10442717--10442800 Score: 89
Period size: 32 Copynumber: 2.5 Consensus size: 32
10442707 TTATAATTAA
10442717 TATAATTTATTATTTTAATAAAACCA-TCTAATAT
1 TATAA-TT-TTATTTTAATAAAA-CATTCTAATAT
* *
10442751 TATAATTTTATTTTAATAATACATTTTAATAT
1 TATAATTTTATTTTAATAAAACATTCTAATAT
*
10442783 TAATAATTTAAATTTTAA
1 T-ATAATTT-TATTTTAA
10442801 ATATTTTTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
31 2 0.05
32 21 0.48
33 9 0.20
34 12 0.27
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (32 bp):
TATAATTTTATTTTAATAAAACATTCTAATAT
Found at i:10446045 original size:21 final size:21
Alignment explanation
Indices: 10446019--10446077 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 21
10446009 TAAGATGTTT
10446019 AAAAATCAAATAAATTGATTA
1 AAAAATCAAATAAATTGATTA
*
10446040 AAAAAT-AAATCTAATTGA--A
1 AAAAATCAAAT-AAATTGATTA
*
10446059 AATAA-C-AATAAATTGATTA
1 AAAAATCAAATAAATTGATTA
10446078 TAAATTAAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 10
0.70 0.07 0.23
Matches are distributed among these distances:
17 6 0.19
18 3 0.10
19 6 0.19
20 4 0.13
21 12 0.39
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.29
Consensus pattern (21 bp):
AAAAATCAAATAAATTGATTA
Found at i:10459146 original size:112 final size:111
Alignment explanation
Indices: 10458949--10459177 Score: 361
Period size: 112 Copynumber: 2.0 Consensus size: 111
10458939 AATATTTGAG
10458949 TATACAATTATAGATGGACCATAAGGAACCATACATATTGACTAATAAAAACATTGCATGTTTTG
1 TATACAATTATAGATGGACCATAAGGAACCATACA-ATTGACTAATAAAAACATTGCATGTTTTG
* * * *
10459014 AAGATAAATTAGACCACACTTTAGAGCTTATTGTATGTCTTTTGCTT
65 AAGATAAACTAAACCACACTTTAGAGCTTATTATATGTCTTATGCTT
10459061 TATACATATATATAGATGGACCATAAGGAACCATAC-ATTGACTAATAAAAACATTGCATGTTTT
1 TATACA-AT-TATAGATGGACCATAAGGAACCATACAATTGACTAATAAAAACATTGCATGTTTT
* * *
10459125 GTAGATAAACTAAACCACACTTTGGAGTTTATTATATGTCTTATGCTT
64 GAAGATAAACTAAACCACACTTTAGAGCTTATTATATGTCTTATGCTT
10459173 TATAC
1 TATAC
10459178 TGCAGTTTAC
Statistics
Matches: 108, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
112 80 0.74
113 2 0.02
114 26 0.24
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (111 bp):
TATACAATTATAGATGGACCATAAGGAACCATACAATTGACTAATAAAAACATTGCATGTTTTGA
AGATAAACTAAACCACACTTTAGAGCTTATTATATGTCTTATGCTT
Found at i:10461947 original size:12 final size:12
Alignment explanation
Indices: 10461931--10461960 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
10461921 TAACAATAAA
10461931 ATTAATAAAAAT
1 ATTAATAAAAAT
*
10461943 TTTAATAAAAAT
1 ATTAATAAAAAT
10461955 ATTAAT
1 ATTAAT
10461961 TTACTTTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
ATTAATAAAAAT
Found at i:10462692 original size:21 final size:19
Alignment explanation
Indices: 10462643--10462696 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 19
10462633 TAAATTTTGA
* *
10462643 AAAAATATAAAAATATTGT
1 AAAATTATAAAAATATTAT
10462662 AAAATTTTATAAAAATCATATAT
1 AAAA--TTATAAAAAT-AT-TAT
10462685 AAAATTATAAAA
1 AAAATTATAAAA
10462697 TGCATCAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
19 4 0.14
21 17 0.59
22 2 0.07
23 6 0.21
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (19 bp):
AAAATTATAAAAATATTAT
Found at i:10462847 original size:11 final size:9
Alignment explanation
Indices: 10462810--10462852 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
10462800 ACATGTGGTG
10462810 AAAAATGAT-
1 AAAAAT-ATA
10462819 AAAAATATA
1 AAAAATATA
10462828 AAAAATATA
1 AAAAATATA
*
10462837 AAAAATTTA
1 AAAAATATA
*
10462846 TAAAATA
1 AAAAATA
10462853 CTTCTGTTGG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
8 2 0.07
9 28 0.93
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (9 bp):
AAAAATATA
Found at i:10463187 original size:18 final size:18
Alignment explanation
Indices: 10463164--10463199 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
10463154 TTAGTGTAAA
*
10463164 AAAATAGGGCTTTAATTG
1 AAAATAGGGCCTTAATTG
10463182 AAAATAGGGCCTTAATTG
1 AAAATAGGGCCTTAATTG
10463200 TTTTTTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.31
Consensus pattern (18 bp):
AAAATAGGGCCTTAATTG
Found at i:10471157 original size:31 final size:31
Alignment explanation
Indices: 10471122--10471182 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
10471112 GCCCAGTGAT
*
10471122 TTAAAT-AAAAATTTCCGAATAATTTAATGAC
1 TTAAATGAAAAATTT-CAAATAATTTAATGAC
*
10471153 TTAAATGAAAACTTTCAAATAATTTAATGA
1 TTAAATGAAAAATTTCAAATAATTTAATGA
10471183 TCAAATTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 20 0.74
32 7 0.26
ACGTcount: A:0.49, C:0.08, G:0.07, T:0.36
Consensus pattern (31 bp):
TTAAATGAAAAATTTCAAATAATTTAATGAC
Found at i:10473930 original size:46 final size:46
Alignment explanation
Indices: 10473874--10473965 Score: 132
Period size: 46 Copynumber: 2.0 Consensus size: 46
10473864 AAAATATTCT
*
10473874 CTATGAACTATAAAATAAATATGAAAG-TCACCTTCATTCTAAAGAA
1 CTATGAACTATAAAATAAATATAAAAGAT-ACCTTCATTCTAAAGAA
* * *
10473920 CTATGGACTATAAAATAGATATAAAAGATACCTTTATTCTAAAGAA
1 CTATGAACTATAAAATAAATATAAAAGATACCTTCATTCTAAAGAA
10473966 ATTTGATGAA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
46 40 0.98
47 1 0.02
ACGTcount: A:0.48, C:0.13, G:0.10, T:0.29
Consensus pattern (46 bp):
CTATGAACTATAAAATAAATATAAAAGATACCTTCATTCTAAAGAA
Found at i:10478186 original size:183 final size:183
Alignment explanation
Indices: 10477866--10478235 Score: 551
Period size: 183 Copynumber: 2.0 Consensus size: 183
10477856 CAAATGGCGC
*
10477866 AAATTGTCCCATAAACCCATTCTGTCTTCTAAGGGGATCTTTGGCTGATTTGAAGTCTCAACTAC
1 AAATTGTCCCATAAACCCATTCTGTCTTCTAAGGGGACCTTTGGCTGATTTGAAGTCTCAACTAC
* * * * *
10477931 ATCCTGAGACCTGACAGACTGAGTAACAGGCCCCTTTCGCAACGCTTGCTGCTCTTCGAACTCAC
66 ATCCTGAAACCTGACAGACTGAGTAACAGACCCCTTTCGCAACCCTTGCAGCTCTTCAAACTCAC
* *
10477996 AGAGGGCATATTGAATTCCTTGGCCATGTTCCAAACTATCACTAGTCTTTGAT
131 AGAGGGCATATTGAATTCCTTGGCCATATTCCAAACTATCACTAGTCTTTAAT
* *** *
10478049 AAATTGTCCCATGAACTGGTTCTGTCTTCTAAGGGGACCTTTGGTTGATTTGAAGTCTCAACTAC
1 AAATTGTCCCATAAACCCATTCTGTCTTCTAAGGGGACCTTTGGCTGATTTGAAGTCTCAACTAC
* * * *
10478114 ATCTTGAAACCTGGCAGACTGAGTAACAGACCCCTTTTGCAACCCTTGCAGCTCTTCAAACTCGC
66 ATCCTGAAACCTGACAGACTGAGTAACAGACCCCTTTCGCAACCCTTGCAGCTCTTCAAACTCAC
* ** *
10478179 TGAGGGCATATTGAATTCCTTGGCCATATTCTGAGCTATCACTAGTCTTTAAT
131 AGAGGGCATATTGAATTCCTTGGCCATATTCCAAACTATCACTAGTCTTTAAT
10478232 AAAT
1 AAAT
10478236 GACTGATTCT
Statistics
Matches: 166, Mismatches: 21, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
183 166 1.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (183 bp):
AAATTGTCCCATAAACCCATTCTGTCTTCTAAGGGGACCTTTGGCTGATTTGAAGTCTCAACTAC
ATCCTGAAACCTGACAGACTGAGTAACAGACCCCTTTCGCAACCCTTGCAGCTCTTCAAACTCAC
AGAGGGCATATTGAATTCCTTGGCCATATTCCAAACTATCACTAGTCTTTAAT
Found at i:10482974 original size:2 final size:2
Alignment explanation
Indices: 10482967--10483010 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
10482957 TAAAGAAAAC
10482967 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
10483009 GA
1 GA
10483011 AAATAGTAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:10487420 original size:5 final size:5
Alignment explanation
Indices: 10487410--10487478 Score: 90
Period size: 5 Copynumber: 13.8 Consensus size: 5
10487400 AATTATGTTT
10487410 TTATA TTATA TTATTA TTA-A -TATA TATATA TTATA TTATA TTTATA
1 TTATA TTATA TTA-TA TTATA TTATA T-TATA TTATA TTATA -TTATA
10487456 TTATA TTATA -TATA TTATA TTAT
1 TTATA TTATA TTATA TTATA TTAT
10487479 TATATATATG
Statistics
Matches: 58, Mismatches: 0, Indels: 12
0.83 0.00 0.17
Matches are distributed among these distances:
3 2 0.03
4 6 0.10
5 35 0.60
6 15 0.26
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TTATA
Found at i:10487440 original size:25 final size:24
Alignment explanation
Indices: 10487411--10487487 Score: 102
Period size: 25 Copynumber: 3.1 Consensus size: 24
10487401 ATTATGTTTT
10487411 TATATTATATTATTATTAATATATA
1 TATATTATATTA-TATTAATATATA
*
10487436 TATATTATATTATATTTATAT-TA
1 TATATTATATTATATTAATATATA
*
10487459 TATTATATATATTATATTATTATATA
1 TA-TAT-TATATTATATTAATATATA
10487485 TAT
1 TAT
10487488 GACAAAGAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
23 4 0.09
24 11 0.24
25 27 0.59
26 4 0.09
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (24 bp):
TATATTATATTATATTAATATATA
Found at i:10487444 original size:30 final size:30
Alignment explanation
Indices: 10487410--10487487 Score: 106
Period size: 30 Copynumber: 2.6 Consensus size: 30
10487400 AATTATGTTT
10487410 TTATATTATA-TTATTATTA-ATATATATATA
1 TTATATTATATTTA-TATTATAT-TATATATA
10487440 TTATATTATATTTATATTATATTATATATA
1 TTATATTATATTTATATTATATTATATATA
*
10487470 TTATATTATTATATATAT
1 TTATATTA-TATTTATAT
10487488 GACAAAGAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
30 31 0.70
31 13 0.30
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (30 bp):
TTATATTATATTTATATTATATTATATATA
Found at i:10487552 original size:40 final size:40
Alignment explanation
Indices: 10487496--10487590 Score: 145
Period size: 40 Copynumber: 2.4 Consensus size: 40
10487486 ATGACAAAGA
*
10487496 AAGAAAAAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
1 AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
* *
10487536 GAGAAAGAAAGAAACAGAGAGCAAAACGAAACAGAGAAGG
1 AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
*
10487576 AAGGAAGGAAAGAAA
1 AA-GAAAGAAAGAAA
10487591 GAAAGAAAAG
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
40 38 0.78
41 11 0.22
ACGTcount: A:0.64, C:0.08, G:0.27, T:0.00
Consensus pattern (40 bp):
AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
Found at i:10488356 original size:29 final size:30
Alignment explanation
Indices: 10488298--10488354 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
10488288 TCCAAGCCTT
*
10488298 GGGCAAAAATGTAATTATGTAAAAGTTTAG
1 GGGCAAAAATGTAATTATGAAAAAGTTTAG
* *
10488328 GGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGCAAAAATGTAATTATGAAAAAGTT
10488355 AGAGTCGAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.42, C:0.04, G:0.23, T:0.32
Consensus pattern (30 bp):
GGGCAAAAATGTAATTATGAAAAAGTTTAG
Found at i:10488584 original size:13 final size:13
Alignment explanation
Indices: 10488566--10488592 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10488556 TTTCCAGCAA
10488566 TTATGAATTTATT
1 TTATGAATTTATT
10488579 TTATGAATTTATT
1 TTATGAATTTATT
10488592 T
1 T
10488593 GATAATGATC
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:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:10488805 original size:50 final size:50
Alignment explanation
Indices: 10488692--10488933 Score: 306
Period size: 50 Copynumber: 4.7 Consensus size: 50
10488682 ATTTGGGTAA
* * *
10488692 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
10488748 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* *
10488798 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
10488848 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
10488898 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
10488934 TTTGGCATGT
Statistics
Matches: 168, Mismatches: 16, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
49 1 0.01
50 93 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:10488876 original size:100 final size:103
Alignment explanation
Indices: 10488692--10488941 Score: 373
Period size: 100 Copynumber: 2.4 Consensus size: 103
10488682 ATTTGGGTAA
10488692 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
10488757 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* *
10488798 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
10488860 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
10488898 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
10488942 GTTATTATCA
Statistics
Matches: 134, Mismatches: 7, Indels: 10
0.89 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.01
106 41 0.31
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:10490633 original size:64 final size:64
Alignment explanation
Indices: 10490532--10490656 Score: 205
Period size: 64 Copynumber: 2.0 Consensus size: 64
10490522 CATCCCGATT
* * * **
10490532 GGTATTGATCCTGCATGTGTTGCGGACATACCGCAGCTCTTTGTGAGTGTCTTGATATATGATC
1 GGTATTGATCCTGCATGTATTGCGGACATACCGCAGCTCTTTATGAGCGTCCCGATATATGATC
10490596 GGTATTGATCCTGCATGTATTGCGGACATACCGCAGCTCTTTATGAGCGTCCCGATATATG
1 GGTATTGATCCTGCATGTATTGCGGACATACCGCAGCTCTTTATGAGCGTCCCGATATATG
10490657 GCTCTTCATG
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 56 1.00
ACGTcount: A:0.20, C:0.21, G:0.26, T:0.34
Consensus pattern (64 bp):
GGTATTGATCCTGCATGTATTGCGGACATACCGCAGCTCTTTATGAGCGTCCCGATATATGATC
Found at i:10493149 original size:25 final size:23
Alignment explanation
Indices: 10493104--10493162 Score: 73
Period size: 25 Copynumber: 2.5 Consensus size: 23
10493094 TCTTACGAGT
*
10493104 TTCCTGTTATAGCCCAGATAAGC
1 TTCCTGTTATAGCCCACATAAGC
*
10493127 TTCCTGTTACATAGCTCACATAAGC
1 TTCCTGTT--ATAGCCCACATAAGC
*
10493152 TTCCTATTATA
1 TTCCTGTTATA
10493163 TGGCTCGAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
23 11 0.35
25 20 0.65
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.36
Consensus pattern (23 bp):
TTCCTGTTATAGCCCACATAAGC
Found at i:10495415 original size:24 final size:24
Alignment explanation
Indices: 10495371--10495440 Score: 61
Period size: 24 Copynumber: 2.9 Consensus size: 24
10495361 TATAACGGGA
*
10495371 AGCTCACAAAGAGCCTA-TAACAAGT
1 AGCTC-CAAAGAG-CAACTAACAAGT
* * *
10495396 AGCTCCAAAGAGTAATTAACGAGT
1 AGCTCCAAAGAGCAACTAACAAGT
* *
10495420 AGTTCCGAAGAGCAACTAACA
1 AGCTCCAAAGAGCAACTAACA
10495441 GGAAGCACCG
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
23 1 0.03
24 30 0.83
25 5 0.14
ACGTcount: A:0.43, C:0.21, G:0.19, T:0.17
Consensus pattern (24 bp):
AGCTCCAAAGAGCAACTAACAAGT
Found at i:10496042 original size:21 final size:21
Alignment explanation
Indices: 10496008--10496048 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
10495998 AATTTAACAC
* *
10496008 CAATTTAATACAAGTTACATT
1 CAATTCAATACAAGTCACATT
*
10496029 CAATTCAATCCAAGTCACAT
1 CAATTCAATACAAGTCACAT
10496049 CTTAGGCAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.41, C:0.22, G:0.05, T:0.32
Consensus pattern (21 bp):
CAATTCAATACAAGTCACATT
Found at i:10504271 original size:29 final size:29
Alignment explanation
Indices: 10504237--10504301 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 29
10504227 ACTAAATTTA
*
10504237 AAAAATATAAATA-ATAAATATTTAAGTT
1 AAAAATATAAAGACATAAATATTTAAGTT
*
10504265 AAGAAATA-AGAGACATAAATATTTAAGTT
1 AA-AAATATAAAGACATAAATATTTAAGTT
10504294 AAAAATAT
1 AAAAATAT
10504302 GATTCTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 10 0.31
29 22 0.69
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.31
Consensus pattern (29 bp):
AAAAATATAAAGACATAAATATTTAAGTT
Found at i:10504641 original size:24 final size:23
Alignment explanation
Indices: 10504614--10504658 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
10504604 TAATAAAATT
10504614 TATTTATATTAT-TTTTAGAAAAAA
1 TATTT-TATTATGTTTTA-AAAAAA
*
10504638 TATTTTTTTATGTTTTAAAAA
1 TATTTTATTATGTTTTAAAAA
10504659 TAGGAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (23 bp):
TATTTTATTATGTTTTAAAAAAA
Found at i:10543161 original size:38 final size:39
Alignment explanation
Indices: 10543083--10543162 Score: 92
Period size: 39 Copynumber: 2.1 Consensus size: 39
10543073 TGATCTTAAA
** *
10543083 TTAAAAATATATAAAAATACATAAATATTTTGAATAATT
1 TTAAAAATATATAAAAATACATAAATATCATAAATAATT
*
10543122 TTAAAATATATATAAAAATA-A-AAATATGCATAAATATTT
1 TTAAAA-ATATATAAAAATACATAAATAT-CATAAATAATT
10543161 TT
1 TT
10543163 GTTATAACTG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
38 6 0.17
39 16 0.46
40 13 0.37
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.39
Consensus pattern (39 bp):
TTAAAAATATATAAAAATACATAAATATCATAAATAATT
Found at i:10543733 original size:24 final size:26
Alignment explanation
Indices: 10543696--10543754 Score: 95
Period size: 25 Copynumber: 2.3 Consensus size: 26
10543686 AATAAATATT
10543696 TATTTTTTATTTTTTAATTTT-AAAA
1 TATTTTTTATTTTTTAATTTTAAAAA
10543721 TATTTTTTATTTTTT-ATTTTAAAAA
1 TATTTTTTATTTTTTAATTTTAAAAA
10543746 TAATTTTTT
1 T-ATTTTTT
10543755 GGTGTTTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
24 5 0.16
25 20 0.62
26 7 0.22
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (26 bp):
TATTTTTTATTTTTTAATTTTAAAAA
Found at i:10543762 original size:26 final size:26
Alignment explanation
Indices: 10543697--10543772 Score: 68
Period size: 25 Copynumber: 3.0 Consensus size: 26
10543687 ATAAATATTT
* *
10543697 ATTTTTTATTTTTTAATTTT-AAAAT-
1 ATTTTTTAGTGTTT-ATTTTAAAAATA
* *
10543722 ATTTTTTATTTTTTATTTTAAAAATA
1 ATTTTTTAGTGTTTATTTTAAAAATA
* *
10543748 ATTTTTTGGTGTTTA-TTAAAAAATA
1 ATTTTTTAGTGTTTATTTTAAAAATA
10543773 GGCCAGACCG
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
24 5 0.11
25 28 0.62
26 12 0.27
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (26 bp):
ATTTTTTAGTGTTTATTTTAAAAATA
Found at i:10554491 original size:29 final size:30
Alignment explanation
Indices: 10554432--10554489 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
10554422 TCCGAGCCTT
*
10554432 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
10554462 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
10554490 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:10554719 original size:13 final size:13
Alignment explanation
Indices: 10554701--10554732 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
10554691 TTTCCAGCAA
10554701 TTATGAATTTATT
1 TTATGAATTTATT
10554714 TTATGAATTTATT
1 TTATGAATTTATT
*
10554727 TGATGA
1 TTATGA
10554733 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:10554940 original size:50 final size:50
Alignment explanation
Indices: 10554827--10555067 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
10554817 ATTTGGGTAA
* * *
10554827 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
10554883 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
10554933 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* *
10554983 AGAGGTCCC-TATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
10555032 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
10555068 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 16, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
48 1 0.01
49 35 0.21
50 61 0.37
51 24 0.14
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:10555033 original size:99 final size:103
Alignment explanation
Indices: 10554827--10555075 Score: 355
Period size: 100 Copynumber: 2.4 Consensus size: 103
10554817 ATTTGGGTAA
10554827 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
10554892 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACCGACACG
* * *
10554933 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGT-CCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
10554994 TAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCGA-CACG
* *
10555032 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
10555076 GTTATTATCA
Statistics
Matches: 132, Mismatches: 8, Indels: 11
0.87 0.05 0.07
Matches are distributed among these distances:
98 1 0.01
99 41 0.31
100 46 0.35
101 2 0.02
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCGACACG
Found at i:10557600 original size:57 final size:57
Alignment explanation
Indices: 10557518--10557626 Score: 157
Period size: 57 Copynumber: 1.9 Consensus size: 57
10557508 GGGTGATCCT
* *
10557518 ATCTTGATATAGCCTTCCTGAAGAATACGTGTGAAAA-AGATCTAGCCCGGACAGGTG
1 ATCTTGATATAGCCCTCCCGAAGAATACGTG-GAAAATAGATCTAGCCCGGACAGGTG
* * *
10557575 ATCTTGATATAGCCCTCCCGAAGAATATGTGGAAAATGGATTTAGCCCGGAC
1 ATCTTGATATAGCCCTCCCGAAGAATACGTGGAAAATAGATCTAGCCCGGAC
10557627 GGTAATCGGA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
56 5 0.11
57 41 0.89
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (57 bp):
ATCTTGATATAGCCCTCCCGAAGAATACGTGGAAAATAGATCTAGCCCGGACAGGTG
Found at i:10557864 original size:67 final size:67
Alignment explanation
Indices: 10557756--10557887 Score: 228
Period size: 67 Copynumber: 2.0 Consensus size: 67
10557746 GTTTATATTA
* * *
10557756 CAGGGGATTTAGCCTAGACTGGTAATCCCGCTGTAAGAAATGAGGTTCGTGGGAGTGTGCTCTCT
1 CAGGGGATTTAGCCTAGACTGGTAATCCCGCTGTAAGAAATGAGGTTCGCGAGAGTGCGCTCTCT
10557821 TG
66 TG
*
10557823 CAGGGGATTTAGCCTGGACTGGTAATCCCGCTGTAAGAAATGAGGTTCGCGAGAGTGCGCTCTCT
1 CAGGGGATTTAGCCTAGACTGGTAATCCCGCTGTAAGAAATGAGGTTCGCGAGAGTGCGCTCTCT
10557888 GAATTGAAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 61 1.00
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.27
Consensus pattern (67 bp):
CAGGGGATTTAGCCTAGACTGGTAATCCCGCTGTAAGAAATGAGGTTCGCGAGAGTGCGCTCTCT
TG
Found at i:10571601 original size:13 final size:13
Alignment explanation
Indices: 10571580--10571627 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
10571570 ACACTCAAAT
10571580 TTTTCAAAAACAC
1 TTTTCAAAAACAC
* *
10571593 TTCTCAAAAATAC
1 TTTTCAAAAACAC
* *
10571606 TTTTCCACAACAC
1 TTTTCAAAAACAC
10571619 TTTTCAAAA
1 TTTTCAAAA
10571628 GCAATGACCC
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.42, C:0.25, G:0.00, T:0.33
Consensus pattern (13 bp):
TTTTCAAAAACAC
Found at i:10584398 original size:20 final size:18
Alignment explanation
Indices: 10584349--10584400 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
10584339 TCTTCTGACC
*
10584349 AAAATAGAAAATATATAAA
1 AAAATAAAAAATATAT-AA
*
10584368 AAAACTAAAAAGTATAATAA
1 AAAA-TAAAAAATAT-ATAA
10584388 AAAATAAAAAATA
1 AAAATAAAAAATA
10584401 AAAAATTTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 12 0.43
20 14 0.50
21 2 0.07
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.19
Consensus pattern (18 bp):
AAAATAAAAAATATATAA
Found at i:10584667 original size:32 final size:32
Alignment explanation
Indices: 10584629--10584692 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
10584619 AATTAATCAA
10584629 CATGAGTTG-TCAAATTAAATTAATT-AATTTAT
1 CATGAGTTGCT-AAATTAAATT-ATTCAATTTAT
*
10584661 CATGAGTTGCTAAATTCAATTATTCAATTTAT
1 CATGAGTTGCTAAATTAAATTATTCAATTTAT
10584693 AAGTTTATGA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
31 3 0.10
32 25 0.86
33 1 0.03
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.44
Consensus pattern (32 bp):
CATGAGTTGCTAAATTAAATTATTCAATTTAT
Found at i:10585782 original size:21 final size:21
Alignment explanation
Indices: 10585754--10585817 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
10585744 AATCTTACTA
* *
10585754 CTACAGTATCCAATCTCATTG
1 CTACAGTAACCAATCTCATCG
* *
10585775 CTATAGTAACTAATCTCATCG
1 CTACAGTAACCAATCTCATCG
* *
10585796 CTACAGTAACTAATCTTATCG
1 CTACAGTAACCAATCTCATCG
10585817 C
1 C
10585818 CACCACTATT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.31, C:0.27, G:0.09, T:0.33
Consensus pattern (21 bp):
CTACAGTAACCAATCTCATCG
Found at i:10586175 original size:20 final size:20
Alignment explanation
Indices: 10586132--10586176 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
10586122 CCTTAAATTG
** * *
10586132 TTTTATTTATAAGGTTGTTG
1 TTTTATTTATAAAATTATTA
10586152 TTTTATTTATAAAATTATTA
1 TTTTATTTATAAAATTATTA
10586172 TTTTA
1 TTTTA
10586177 ATAAATAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.62
Consensus pattern (20 bp):
TTTTATTTATAAAATTATTA
Found at i:10589500 original size:18 final size:18
Alignment explanation
Indices: 10589457--10589491 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
10589447 AATCCTTATG
*
10589457 ATTGAA-TTTGTTAATTA
1 ATTGAAGTTAGTTAATTA
10589474 ATTGAAGTTAGTTAATTA
1 ATTGAAGTTAGTTAATTA
10589492 GTTTGAGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (18 bp):
ATTGAAGTTAGTTAATTA
Found at i:10591619 original size:21 final size:22
Alignment explanation
Indices: 10591585--10591632 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 22
10591575 ATAGTTTTTT
10591585 TAAAAGTTACAAA-TATTGA-AA
1 TAAAAGTTACAAATTATT-ACAA
10591606 TAAAA-TTACTAAATTATTACAA
1 TAAAAGTTAC-AAATTATTACAA
10591628 TAAAA
1 TAAAA
10591633 AAAAGTTGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
20 4 0.17
21 9 0.38
22 11 0.46
ACGTcount: A:0.58, C:0.06, G:0.04, T:0.31
Consensus pattern (22 bp):
TAAAAGTTACAAATTATTACAA
Found at i:10598646 original size:3 final size:3
Alignment explanation
Indices: 10598640--10598673 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
10598630 TCATTATCAC
*
10598640 AAT AAT ACT AAT AAT AAT AAT AA- AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
10598674 ATGAATAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:10598680 original size:11 final size:10
Alignment explanation
Indices: 10598643--10598689 Score: 51
Period size: 11 Copynumber: 4.5 Consensus size: 10
10598633 TTATCACAAT
*
10598643 AATACTAAT-
1 AATAATAATA
10598652 AATAATAATAA
1 AATAATAAT-A
10598663 AATAATAATA
1 AATAATAATA
10598673 AATGAATAAATA
1 AAT-AAT-AATA
10598685 AATAA
1 AATAA
10598690 AAACAAGTGA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
9 8 0.24
10 4 0.12
11 14 0.42
12 7 0.21
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (10 bp):
AATAATAATA
Found at i:10609249 original size:20 final size:20
Alignment explanation
Indices: 10609224--10609265 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
10609214 AGTATCTTTC
*
10609224 TTTT-AAAATCAAAATATTAT
1 TTTTAAAAAT-AAAATATAAT
10609244 TTTTAAAAATAAAATATAAT
1 TTTTAAAAATAAAATATAAT
10609264 TT
1 TT
10609266 CATAATAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (20 bp):
TTTTAAAAATAAAATATAAT
Found at i:10613873 original size:20 final size:21
Alignment explanation
Indices: 10613835--10613874 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
10613825 TCTTCAGTAT
* *
10613835 CCATGATGGTAAAGCATAGGC
1 CCATGAAGGTAAAGAATAGGC
10613856 CCATGAAGG-AAAGAATAGG
1 CCATGAAGGTAAAGAATAGG
10613875 AGGTCTCTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.40, C:0.15, G:0.30, T:0.15
Consensus pattern (21 bp):
CCATGAAGGTAAAGAATAGGC
Found at i:10616520 original size:3 final size:3
Alignment explanation
Indices: 10616514--10616543 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
10616504 AACCAATAAT
10616514 AAC AAC AAC AAC AAC AAC AAC AAC ATAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC A-AC AA
10616544 AAGAATCTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.67, C:0.30, G:0.00, T:0.03
Consensus pattern (3 bp):
AAC
Found at i:10616857 original size:15 final size:15
Alignment explanation
Indices: 10616833--10616867 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
10616823 TATCGAAGAG
*
10616833 CTTCCGGCTCTTAAA
1 CTTCCGGCTCGTAAA
*
10616848 CTTCCTGCTCGTAAA
1 CTTCCGGCTCGTAAA
10616863 CTTCC
1 CTTCC
10616868 CCGTAAACTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.17, C:0.37, G:0.11, T:0.34
Consensus pattern (15 bp):
CTTCCGGCTCGTAAA
Found at i:10621735 original size:50 final size:51
Alignment explanation
Indices: 10621660--10621773 Score: 167
Period size: 50 Copynumber: 2.3 Consensus size: 51
10621650 CTTACGTATG
* * *
10621660 ATCACTTATCACTTGTCCCTGATCAGATAAGTGCAG-TTAAGCTACCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGCAGCTAAAGCTACCACTT
* * *
10621710 ATCACTTGCCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACTACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGCAGCTAAAGCTACCACTT
10621761 ATCACTTGTCACT
1 ATCACTTGTCACT
10621774 GATCAGAAGT
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
50 32 0.57
51 24 0.43
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.32
Consensus pattern (51 bp):
ATCACTTGTCACTTGTCACTGATCAGATAAGTGCAGCTAAAGCTACCACTT
Found at i:10641607 original size:15 final size:17
Alignment explanation
Indices: 10641586--10641626 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
10641576 TAATTTTTGA
10641586 AAAATTATAAAAAT-AT
1 AAAATTATAAAAATAAT
*
10641602 -AAATTATTAAAATAAT
1 AAAATTATAAAAATAAT
10641618 AAAATTATA
1 AAAATTATA
10641627 TTTTTATCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 12 0.57
16 2 0.10
17 7 0.33
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAATTATAAAAATAAT
Found at i:10643198 original size:19 final size:22
Alignment explanation
Indices: 10643169--10643208 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
10643159 ATATTGCATC
10643169 AAAAATAAATA-TTT-ATATTA
1 AAAAATAAATACTTTAATATTA
10643189 AAAAAT-AATACTTTAATATT
1 AAAAATAAATACTTTAATATT
10643209 TGTTTATACA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 9 0.50
21 5 0.28
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (22 bp):
AAAAATAAATACTTTAATATTA
Found at i:10645904 original size:18 final size:17
Alignment explanation
Indices: 10645882--10645916 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
10645872 TTATTATTAA
*
10645882 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
10645900 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
10645917 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:10646008 original size:14 final size:15
Alignment explanation
Indices: 10645981--10646031 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 15
10645971 ATAAAATATA
10645981 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
10645996 -ATTAAATATATTAT
1 AATTAAATATATTAT
10646010 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
10646023 AATTTAATA
1 AATTAAATA
10646032 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
13 12 0.38
14 14 0.44
15 6 0.19
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:10646173 original size:120 final size:120
Alignment explanation
Indices: 10645868--10646276 Score: 705
Period size: 120 Copynumber: 3.4 Consensus size: 120
10645858 ATATTTAAAT
10645868 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
* * * *
10645933 TCTGATATGAATTTACTCAAATAATAATATATGATACTATAAAATATAAATTAAC
66 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTAAC
*
10645988 ATAATTA-TATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
*
10646052 TCTTATATGAATTTACTCAAATCATAATATATGGTACTATAAAAGATAATTTAAC
66 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTAAC
*
10646107 ATAATTATTATTAAATATATCTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
*
10646172 TCTTATATGAATTTACTCAAATCATAATATATTATACTATAAAAGATAATTTGAA-
66 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTT-AAC
* *
10646227 ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
10646277 TAAAATAATT
Statistics
Matches: 274, Mismatches: 13, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
119 113 0.41
120 159 0.58
121 2 0.01
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (120 bp):
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTAAC
Found at i:10646389 original size:39 final size:40
Alignment explanation
Indices: 10646315--10646399 Score: 154
Period size: 39 Copynumber: 2.1 Consensus size: 40
10646305 TAAGTGAGTA
10646315 AGAATTGAACTCTAAAAATAAAAAAAAAACATAACCATAT
1 AGAATTGAACTCTAAAAATAAAAAAAAAACATAACCATAT
10646355 AGAATTGAACTCTAAAAAT-AAAAAAAAACATAACCATAT
1 AGAATTGAACTCTAAAAATAAAAAAAAAACATAACCATAT
*
10646394 TGAATT
1 AGAATT
10646400 ATCATCAACA
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
39 25 0.57
40 19 0.43
ACGTcount: A:0.60, C:0.12, G:0.06, T:0.22
Consensus pattern (40 bp):
AGAATTGAACTCTAAAAATAAAAAAAAAACATAACCATAT
Found at i:10658511 original size:20 final size:21
Alignment explanation
Indices: 10658482--10658521 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
10658472 TTTGTTTTCT
*
10658482 AAAATTTTAAATAT-ATTAAA
1 AAAATGTTAAATATAATTAAA
*
10658502 AAAATGTTAAGTATAATTAA
1 AAAATGTTAAATATAATTAA
10658522 TTTTAAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (21 bp):
AAAATGTTAAATATAATTAAA
Found at i:10658708 original size:24 final size:23
Alignment explanation
Indices: 10658664--10658712 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
10658654 TTAAAATTTT
* *
10658664 AATATATTAAATATATTTTTTAA
1 AATATATTAAATACATCTTTTAA
*
10658687 AATATATTTTAATACATCTTTTAA
1 AATATA-TTAAATACATCTTTTAA
10658711 AA
1 AA
10658713 CGTAAAGAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 6 0.27
24 16 0.73
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (23 bp):
AATATATTAAATACATCTTTTAA
Found at i:10658754 original size:17 final size:17
Alignment explanation
Indices: 10658732--10658795 Score: 51
Period size: 17 Copynumber: 3.8 Consensus size: 17
10658722 AAAAAAGATT
10658732 TTTTAATATATTTAAAA
1 TTTTAATATATTTAAAA
* * *
10658749 TTTTAAAAAACTTCAAAGA
1 TTTTAATATA-TTTAAA-A
* *
10658768 TTTAAATATA-TTAATA
1 TTTTAATATATTTAAAA
10658784 TTTTAA-ATATTT
1 TTTTAATATATTT
10658796 TAAAGAAAAT
Statistics
Matches: 35, Mismatches: 9, Indels: 7
0.69 0.18 0.14
Matches are distributed among these distances:
15 3 0.09
16 8 0.23
17 11 0.31
18 5 0.14
19 8 0.23
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (17 bp):
TTTTAATATATTTAAAA
Found at i:10658837 original size:61 final size:60
Alignment explanation
Indices: 10658767--10658917 Score: 189
Period size: 60 Copynumber: 2.5 Consensus size: 60
10658757 AACTTCAAAG
* * * *
10658767 ATTTAAATATATTAATATTTTAAATATTTTAAAGAAAATGTTGAGTATAACCAATTTTAAA
1 ATTTTAATATATTAAAATTTTAAATATTTTAAAAAAAAT-TTAAGTATAACCAATTTTAAA
* *
10658828 ATTTTAATATATTAAAATTTTGAACT-TATTAAAAAAAATTTAAGTATAACCAATTTTAAA
1 ATTTTAATATATTAAAATTTT-AAATATTTTAAAAAAAATTTAAGTATAACCAATTTTAAA
* *
10658888 ATTTTAA-ATTTTAAAATTTCAAATTATTTT
1 ATTTTAATATATTAAAATTTTAAA-TATTTT
10658918 TTAATAGGTG
Statistics
Matches: 77, Mismatches: 10, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
58 2 0.03
59 12 0.16
60 30 0.39
61 30 0.39
62 3 0.04
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (60 bp):
ATTTTAATATATTAAAATTTTAAATATTTTAAAAAAAATTTAAGTATAACCAATTTTAAA
Found at i:10658844 original size:16 final size:17
Alignment explanation
Indices: 10658823--10658861 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
10658813 ATAACCAATT
10658823 TTAAAATTTT-AA-TATA
1 TTAAAATTTTGAACT-TA
10658839 TTAAAATTTTGAACTTA
1 TTAAAATTTTGAACTTA
10658856 TTAAAA
1 TTAAAA
10658862 AAAATTTAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 10 0.48
17 10 0.48
18 1 0.05
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (17 bp):
TTAAAATTTTGAACTTA
Found at i:10658894 original size:60 final size:61
Alignment explanation
Indices: 10658767--10658915 Score: 189
Period size: 61 Copynumber: 2.5 Consensus size: 61
10658757 AACTTCAAAG
* * * * *
10658767 ATTTAAATATATTAATATTTTAAATATTTTAAAGAAAATGTTGAGTATAACCAATTTTAAA
1 ATTTTAATATATTAAAATTTTAAATATATTAAAAAAAATGTTAAGTATAACCAATTTTAAA
*
10658828 ATTTTAATATATTAAAATTTTGAACT-TATTAAAAAAAAT-TTAAGTATAACCAATTTTAAA
1 ATTTTAATATATTAAAATTTT-AAATATATTAAAAAAAATGTTAAGTATAACCAATTTTAAA
* *
10658888 ATTTTAA-ATTTTAAAATTTCAAAT-TATT
1 ATTTTAATATATTAAAATTTTAAATATATT
10658916 TTTTAATAGG
Statistics
Matches: 78, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
58 7 0.09
59 11 0.14
60 27 0.35
61 30 0.38
62 3 0.04
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (61 bp):
ATTTTAATATATTAAAATTTTAAATATATTAAAAAAAATGTTAAGTATAACCAATTTTAAA
Found at i:10658897 original size:15 final size:15
Alignment explanation
Indices: 10658879--10658912 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
10658869 AAGTATAACC
*
10658879 AATTTTAAAATTTTA
1 AATTTTAAAATTTCA
10658894 AATTTTAAAATTTCA
1 AATTTTAAAATTTCA
10658909 AATT
1 AATT
10658913 ATTTTTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (15 bp):
AATTTTAAAATTTCA
Found at i:10661521 original size:18 final size:19
Alignment explanation
Indices: 10661494--10661529 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
10661484 TTCCATTTTA
*
10661494 TTTTCTTTCTTT-CTTTCT
1 TTTTCCTTCTTTCCTTTCT
10661512 TTTTCCTTCTTTCCTTTC
1 TTTTCCTTCTTTCCTTTC
10661530 GCTTTTTCGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTTCCTTCTTTCCTTTCT
Found at i:10662810 original size:29 final size:30
Alignment explanation
Indices: 10662754--10662825 Score: 85
Period size: 30 Copynumber: 2.5 Consensus size: 30
10662744 TTTTTATATG
*
10662754 AATAATATAAAATAAATCAATATATACGAA
1 AATAAGATAAAATAAATCAATATATACGAA
* * * *
10662784 AATAAGATAACATGAAT-AATATTTACGAG
1 AATAAGATAAAATAAATCAATATATACGAA
10662813 AAT-AGATAAAATA
1 AATAAGATAAAATA
10662826 CACAGTAAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
28 8 0.23
29 13 0.37
30 14 0.40
ACGTcount: A:0.60, C:0.06, G:0.08, T:0.26
Consensus pattern (30 bp):
AATAAGATAAAATAAATCAATATATACGAA
Found at i:10663135 original size:39 final size:37
Alignment explanation
Indices: 10663051--10663133 Score: 94
Period size: 39 Copynumber: 2.1 Consensus size: 37
10663041 AATATATATT
* *
10663051 TTTTTAATTTTAAAATATTTTTACATACTTTTTTAAA
1 TTTTTAATTTTAAAATATTTTAAAATACTTTTTTAAA
*
10663088 CTTTTTTAATTTTAAAATATGTTTAAAATGCTTTTTTTTAAA
1 --TTTTTAATTTTAAAATAT-TTTAAAATAC--TTTTTTAAA
10663130 TTTT
1 TTTT
10663134 AAAATATTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
39 18 0.47
40 11 0.29
42 9 0.24
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (37 bp):
TTTTTAATTTTAAAATATTTTAAAATACTTTTTTAAA
Found at i:10663148 original size:9 final size:9
Alignment explanation
Indices: 10663122--10663163 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
10663112 AAAATGCTTT
10663122 TTTTTAA-A
1 TTTTTAATA
*
10663130 TTTTAAAATA
1 TTTT-TAATA
10663140 TTTTTAATA
1 TTTTTAATA
10663149 TTTTTAAT-
1 TTTTTAATA
10663157 TTTTTAA
1 TTTTTAA
10663164 AAATTTTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
8 11 0.37
9 14 0.47
10 5 0.17
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (9 bp):
TTTTTAATA
Found at i:10674065 original size:20 final size:23
Alignment explanation
Indices: 10674019--10674065 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 23
10674009 ACCAAAAAAA
10674019 ATTTAGAAAATTAAAAAAAGTAT
1 ATTTAGAAAATTAAAAAAAGTAT
*
10674042 -TTTA-AAAA-TAAAAATA-TAT
1 ATTTAGAAAATTAAAAAAAGTAT
10674061 ATTTA
1 ATTTA
10674066 TTATATTTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
19 3 0.14
20 11 0.50
21 4 0.18
22 4 0.18
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (23 bp):
ATTTAGAAAATTAAAAAAAGTAT
Found at i:10675800 original size:7 final size:8
Alignment explanation
Indices: 10675784--10675823 Score: 62
Period size: 8 Copynumber: 4.8 Consensus size: 8
10675774 AAATATTTTT
10675784 AAAATAAA
1 AAAATAAA
10675792 AAAATAAA
1 AAAATAAA
10675800 AAAATAAAAA
1 AAAAT--AAA
10675810 AAAATAAA
1 AAAATAAA
10675818 AAAATA
1 AAAATA
10675824 TTTTTAAAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
8 22 0.73
10 8 0.27
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAATAAA
Found at i:10675810 original size:18 final size:18
Alignment explanation
Indices: 10675789--10675823 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
10675779 TTTTTAAAAT
10675789 AAAAAAATAAAAAAATAA
1 AAAAAAATAAAAAAATAA
10675807 AAAAAAATAAAAAAATA
1 AAAAAAATAAAAAAATA
10675824 TTTTTAAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (18 bp):
AAAAAAATAAAAAAATAA
Found at i:10676467 original size:15 final size:15
Alignment explanation
Indices: 10676447--10676476 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
10676437 CTTTCAAAAT
10676447 ATTATATTTTCATTA
1 ATTATATTTTCATTA
10676462 ATTATATTTTCATTA
1 ATTATATTTTCATTA
10676477 TTTCTAGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (15 bp):
ATTATATTTTCATTA
Found at i:10694588 original size:2 final size:2
Alignment explanation
Indices: 10694583--10694615 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
10694573 AATAGTGTGT
*
10694583 GA GA GA GA GA GA GA GA GA GA GA GA GC GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
10694616 GTCTTTTAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.03, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:10701343 original size:3 final size:3
Alignment explanation
Indices: 10701335--10701363 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
10701325 AGGTTATTAA
10701335 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
10701364 AAAGATGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:10725445 original size:5 final size:6
Alignment explanation
Indices: 10725420--10725444 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
10725410 CATTAATAGC
10725420 AATAAA AATAAA AATAAA AATAAA A
1 AATAAA AATAAA AATAAA AATAAA A
10725445 TCTTTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AATAAA
Found at i:10725510 original size:8 final size:8
Alignment explanation
Indices: 10725494--10725543 Score: 68
Period size: 8 Copynumber: 6.2 Consensus size: 8
10725484 TTTTGAAATT
10725494 TTAAT-TA
1 TTAATATA
10725501 TTAATATA
1 TTAATATA
10725509 TTAATATA
1 TTAATATA
10725517 TTTTAAT-TA
1 --TTAATATA
10725526 TTAATATA
1 TTAATATA
10725534 TTAATATA
1 TTAATATA
10725542 TT
1 TT
10725544 TTAATTATGT
Statistics
Matches: 39, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
7 10 0.26
8 22 0.56
9 2 0.05
10 5 0.13
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (8 bp):
TTAATATA
Found at i:10725519 original size:25 final size:25
Alignment explanation
Indices: 10725491--10725551 Score: 122
Period size: 25 Copynumber: 2.4 Consensus size: 25
10725481 ATATTTTGAA
10725491 ATTTTAATTATTAATATATTAATAT
1 ATTTTAATTATTAATATATTAATAT
10725516 ATTTTAATTATTAATATATTAATAT
1 ATTTTAATTATTAATATATTAATAT
10725541 ATTTTAATTAT
1 ATTTTAATTAT
10725552 GTTAACAACT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (25 bp):
ATTTTAATTATTAATATATTAATAT
Found at i:10725529 original size:17 final size:18
Alignment explanation
Indices: 10725501--10725543 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
10725491 ATTTTAATTA
10725501 TTAATATATTAATATATT
1 TTAATATATTAATATATT
10725519 TTAAT-TATTAATATA--
1 TTAATATATTAATATATT
10725534 TTAATATATT
1 TTAATATATT
10725544 TTAATTATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 5 0.21
16 4 0.17
17 10 0.42
18 5 0.21
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTAATATATTAATATATT
Found at i:10725536 original size:33 final size:32
Alignment explanation
Indices: 10725480--10725543 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 32
10725470 GGGTTTTATT
10725480 TATATTTTGAAATTTTAATTATTAATATATTAA
1 TATATTTT-AAATTTTAATTATTAATATATTAA
10725513 TATATTTT-AATTATTAATATATTAATATATT
1 TATATTTTAAATT-TTAAT-TATTAATATATT
10725544 TTAATTATGT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
31 4 0.14
32 5 0.17
33 20 0.69
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (32 bp):
TATATTTTAAATTTTAATTATTAATATATTAA
Found at i:10726052 original size:46 final size:45
Alignment explanation
Indices: 10725974--10726088 Score: 185
Period size: 46 Copynumber: 2.5 Consensus size: 45
10725964 AATTTTTTTA
*
10725974 CTTCAAAATAAAAAATAAAACAATTAAAAAATATAATCTTAATTG
1 CTTCAAAATAAAAAATAAAACAATCAAAAAATATAATCTTAATTG
* * *
10726019 CTTCAAAATAAAATAATAAAACAATCAACAAATATACTCTTATTTG
1 CTTCAAAATAAAA-AATAAAACAATCAAAAAATATAATCTTAATTG
10726065 CTTCAAAATAAAAAATAAAACAAT
1 CTTCAAAATAAAAAATAAAACAAT
10726089 TAAACTAAAT
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
45 24 0.37
46 41 0.63
ACGTcount: A:0.58, C:0.12, G:0.02, T:0.28
Consensus pattern (45 bp):
CTTCAAAATAAAAAATAAAACAATCAAAAAATATAATCTTAATTG
Found at i:10734244 original size:19 final size:18
Alignment explanation
Indices: 10734212--10734250 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
10734202 GTAGATATAC
*
10734212 TTGTATCAAAATCTTGAT
1 TTGTATCAAAATCTAGAT
*
10734230 TTGTGATCAATATCTAGAT
1 TTGT-ATCAAAATCTAGAT
10734249 TT
1 TT
10734251 CAAGTTCTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.46
Consensus pattern (18 bp):
TTGTATCAAAATCTAGAT
Found at i:10734324 original size:18 final size:16
Alignment explanation
Indices: 10734301--10734346 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
10734291 CAATACGAGT
10734301 TAAAAGAAAGAAAAAGTA
1 TAAAAGAAAGAAAAA--A
*
10734319 TAAAAGAAA-ATAAAA
1 TAAAAGAAAGAAAAAA
10734334 TAAAA-AAAGAAAA
1 TAAAAGAAAGAAAA
10734347 GAAAAGAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
14 3 0.12
15 9 0.36
17 4 0.16
18 9 0.36
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (16 bp):
TAAAAGAAAGAAAAAA
Found at i:10743923 original size:23 final size:22
Alignment explanation
Indices: 10743896--10743945 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 22
10743886 GCTAACTACA
10743896 AAATCAAATC-TCTAAGATTTAT
1 AAATCAAATCTTCTAAGA-TTAT
10743918 AGAATCAAATCTTCTAAGATTAT
1 A-AATCAAATCTTCTAAGATTAT
10743941 AAATC
1 AAATC
10743946 CTCTACGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
22 5 0.19
23 14 0.54
24 7 0.27
ACGTcount: A:0.46, C:0.14, G:0.06, T:0.34
Consensus pattern (22 bp):
AAATCAAATCTTCTAAGATTAT
Done.