Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 12862612
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 46 of 56
Found at i:10480553 original size:24 final size:24
Alignment explanation
Indices: 10480498--10480555 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 24
10480488 AAATCAACAA
10480498 TTTTTTAAAATAAAATTCATAATTG
1 TTTTTTAAAATAAAATT-ATAATTG
*
10480523 -TTTTTAAAATAATATT-TAATTG
1 TTTTTTAAAATAAAATTATAATTG
10480545 TTTTATTAAAA
1 TTTT-TTAAAA
10480556 AATGGTTATG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 6 0.20
23 3 0.10
24 21 0.70
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (24 bp):
TTTTTTAAAATAAAATTATAATTG
Found at i:10481494 original size:27 final size:27
Alignment explanation
Indices: 10481463--10481514 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
10481453 TCTTACTTGT
*
10481463 ACTAACTAATCTCTTTTGTTTGTGTAC
1 ACTAACTAATCTATTTTGTTTGTGTAC
* * *
10481490 ACTAATTTATTTATTTTGTTTGTGT
1 ACTAACTAATCTATTTTGTTTGTGT
10481515 CATTTTTTCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.21, C:0.12, G:0.12, T:0.56
Consensus pattern (27 bp):
ACTAACTAATCTATTTTGTTTGTGTAC
Found at i:10483415 original size:17 final size:17
Alignment explanation
Indices: 10483393--10483425 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
10483383 CAAATCAAAG
10483393 AAAAAACAAAGAGAAAA
1 AAAAAACAAAGAGAAAA
10483410 AAAAAACAAAGAGAAA
1 AAAAAACAAAGAGAAA
10483426 CGTGAAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.82, C:0.06, G:0.12, T:0.00
Consensus pattern (17 bp):
AAAAAACAAAGAGAAAA
Found at i:10484549 original size:31 final size:33
Alignment explanation
Indices: 10484470--10484536 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
10484460 GAATCAGTGC
* *
10484470 TGAAGCAATCAACATCTAATATTGTGGCATCTT
1 TGAAGCAATCAACATCGAACATTGTGGCATCTT
10484503 TGAAGCAATCAACATCGAACATTG-GGCATCTT
1 TGAAGCAATCAACATCGAACATTGTGGCATCTT
10484535 TG
1 TG
10484537 GGGATTCAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 10 0.31
33 22 0.69
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (33 bp):
TGAAGCAATCAACATCGAACATTGTGGCATCTT
Found at i:10484889 original size:36 final size:35
Alignment explanation
Indices: 10484833--10484908 Score: 91
Period size: 36 Copynumber: 2.1 Consensus size: 35
10484823 TTGAGATTGT
*
10484833 TTTCTCAAAAACAAACTTTGTATCACTTGAGAAAA
1 TTTCTCAAAAACAAACTTTGTATCACCTGAGAAAA
* * *
10484868 TTTCTCTAAAAGA-AAATTTTGTATCGCCTGAGACAA
1 TTTCTC-AAAA-ACAAACTTTGTATCACCTGAGAAAA
10484904 TTTCT
1 TTTCT
10484909 ATCAATGCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
35 6 0.17
36 28 0.80
37 1 0.03
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.36
Consensus pattern (35 bp):
TTTCTCAAAAACAAACTTTGTATCACCTGAGAAAA
Found at i:10484921 original size:36 final size:36
Alignment explanation
Indices: 10484839--10484922 Score: 87
Period size: 36 Copynumber: 2.3 Consensus size: 36
10484829 TTGTTTTCTC
* * * *
10484839 AAAAACAAACTTTGTATCACTTGAGAAAATTTCTCT
1 AAAAGCAAATTTTGTATCACCTGAGAAAATTTCTAT
* * *
10484875 AAAAGAAAATTTTGTATCGCCTGAGACAATTTCTAT
1 AAAAGCAAATTTTGTATCACCTGAGAAAATTTCTAT
* *
10484911 CAATGCAAATTT
1 AAAAGCAAATTT
10484923 CGCCTCACTT
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.33
Consensus pattern (36 bp):
AAAAGCAAATTTTGTATCACCTGAGAAAATTTCTAT
Found at i:10485280 original size:92 final size:92
Alignment explanation
Indices: 10485146--10485326 Score: 276
Period size: 92 Copynumber: 2.0 Consensus size: 92
10485136 AAAACAATTT
* *
10485146 TTTTCTCTATTGAGACAGTTTCTTTTGAAGAAAAATCTTTGAGTCGTTTCTTTTTAAACAAAAAT
1 TTTTCTCTATTGAGACAATTTCTTTTGAAGAAAAATCTTTGAGTCGTTTCTTTTGAAACAAAAAT
**
10485211 CTTTGAGTCTATTTCTTTTGAAACAAAG
66 CTTTGAGTAGA-TTCTTTTGAAACAAAG
* *
10485239 TTTTGTCTCTTGAGACAATTT-TTTGTGAA-AAAAATCTTTGAGTCGTTTCTTTTGAAACAAAAA
1 TTTTCTCTATTGAGACAATTTCTTT-TGAAGAAAAATCTTTGAGTCGTTTCTTTTGAAACAAAAA
10485302 TCTTTGAGTAGATTCTTTTGAAACA
65 TCTTTGAGTAGATTCTTTTGAAACA
10485327 CCATCATCTT
Statistics
Matches: 81, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
91 13 0.16
92 46 0.57
93 22 0.27
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.44
Consensus pattern (92 bp):
TTTTCTCTATTGAGACAATTTCTTTTGAAGAAAAATCTTTGAGTCGTTTCTTTTGAAACAAAAAT
CTTTGAGTAGATTCTTTTGAAACAAAG
Found at i:10485325 original size:29 final size:29
Alignment explanation
Indices: 10485165--10485326 Score: 141
Period size: 29 Copynumber: 5.4 Consensus size: 29
10485155 TTGAGACAGT
* *
10485165 TTCTTTTG-AAGAAAAATCTTTGAGTCGT
1 TTCTTTTGAAACAAAAATCTTTGAGTCGA
* *
10485193 TTCTTTTTAAACAAAAATCTTTGAGTCTA
1 TTCTTTTGAAACAAAAATCTTTGAGTCGA
** * *
10485222 TTTCTTTTGAAACAAAGTTTTGTCTCTTGAGACAA
1 -TTCTTTTGAAACAAA----AATCT-TTGAGTCGA
* *
10485257 TT-TTTTGTGAA-AAAAATCTTTGAGTCGT
1 TTCTTTTG-AAACAAAAATCTTTGAGTCGA
*
10485285 TTCTTTTGAAACAAAAATCTTTGAGTAGA
1 TTCTTTTGAAACAAAAATCTTTGAGTCGA
10485314 TTCTTTTGAAACA
1 TTCTTTTGAAACA
10485327 CCATCATCTT
Statistics
Matches: 106, Mismatches: 18, Indels: 19
0.74 0.13 0.13
Matches are distributed among these distances:
28 17 0.16
29 53 0.50
30 14 0.13
33 8 0.08
34 7 0.07
35 7 0.07
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.43
Consensus pattern (29 bp):
TTCTTTTGAAACAAAAATCTTTGAGTCGA
Found at i:10485972 original size:3 final size:3
Alignment explanation
Indices: 10485964--10485996 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
10485954 TCTGGGTCTT
*
10485964 TTA TTA TTA TTA TTA TTA TTA ATA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10485997 ATATATTGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:10485997 original size:12 final size:12
Alignment explanation
Indices: 10485964--10486000 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
10485954 TCTGGGTCTT
*
10485964 TTATTATTATTA
1 TTATTATTAATA
10485976 TTATTATTAATA
1 TTATTATTAATA
10485988 TTATTATTAATA
1 TTATTATTAATA
10486000 T
1 T
10486001 ATTGCATTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TTATTATTAATA
Found at i:10486151 original size:16 final size:18
Alignment explanation
Indices: 10486129--10486174 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 18
10486119 ACCCACCTCG
*
10486129 TGGATCCGAACCG-ATCC
1 TGGATCCGAACCGAAACC
*
10486146 -GGATCCAGACCCGAAACC
1 TGGATCC-GAACCGAAACC
10486164 TGGATCCGAAC
1 TGGATCCGAAC
10486175 TGGCCCAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
16 6 0.26
17 5 0.22
18 6 0.26
19 6 0.26
ACGTcount: A:0.28, C:0.35, G:0.24, T:0.13
Consensus pattern (18 bp):
TGGATCCGAACCGAAACC
Found at i:10487521 original size:28 final size:28
Alignment explanation
Indices: 10487476--10487617 Score: 98
Period size: 27 Copynumber: 5.0 Consensus size: 28
10487466 CTGTATTTGA
*
10487476 ATTTTGGTCCT-TAAGTTTCTATTTTTT
1 ATTTTAGTCCTCTAAGTTTCTATTTTTT
*
10487503 ATTTTAGTCCTCT-AGGTT-TATGTTTTT
1 ATTTTAGTCCTCTAAGTTTCTAT-TTTTT
10487530 ATTGTTTAGTCC-CT-AGTATTCTACTTTTTT
1 A-T-TTTAGTCCTCTAAGT-TTCTA-TTTTTT
* * *
10487560 CCATTTTAATCCTTTAGGTTTCTATTTTATT
1 --ATTTTAGTCCTCTAAGTTTCTATTTT-TT
* * *
10487591 GTTTTAGGCC-CTAAATTTCTATTTTTT
1 ATTTTAGTCCTCTAAGTTTCTATTTTTT
10487618 CTATGTTAGA
Statistics
Matches: 91, Mismatches: 12, Indels: 24
0.72 0.09 0.19
Matches are distributed among these distances:
26 3 0.03
27 22 0.24
28 18 0.20
29 17 0.19
30 18 0.20
31 10 0.11
32 3 0.03
ACGTcount: A:0.17, C:0.14, G:0.11, T:0.58
Consensus pattern (28 bp):
ATTTTAGTCCTCTAAGTTTCTATTTTTT
Found at i:10487597 original size:59 final size:56
Alignment explanation
Indices: 10487492--10487653 Score: 141
Period size: 59 Copynumber: 2.8 Consensus size: 56
10487482 GTCCTTAAGT
* * *
10487492 TTCTATTTTTTATTTTAGTCCTCTAGGTTTATGTTTTTATTGTTTAGTCCCTAGTA
1 TTCTATTTTTTATTTTAATCCTCTAGGTTTATGATTTTATTGTTTAGGCCCTAGTA
* * *
10487548 TTCTACTTTTTTCCATTTTAATCCTTTAGGTTTCT-ATTTTATTGTTTTAGGCCCTA-AA
1 TTCTA-TTTTTT--ATTTTAATCCTCTAGGTTTATGATTTTATTG-TTTAGGCCCTAGTA
* * * *
10487606 TTTCTATTTTTTCTATGTTAGACCCT-TAAGTTTATGTTTTTATTGTTT
1 -TTCTA-TTTTT-TATTTTA-ATCCTCTAGGTTTATGATTTTATTGTTT
10487654 CAACCCTTTA
Statistics
Matches: 86, Mismatches: 12, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
56 5 0.06
57 6 0.07
58 24 0.28
59 50 0.58
60 1 0.01
ACGTcount: A:0.17, C:0.14, G:0.10, T:0.59
Consensus pattern (56 bp):
TTCTATTTTTTATTTTAATCCTCTAGGTTTATGATTTTATTGTTTAGGCCCTAGTA
Found at i:10494723 original size:26 final size:26
Alignment explanation
Indices: 10494687--10494737 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
10494677 GATTGTAAAG
*
10494687 TCAAAGGGTGATGAAATGGGGGGCAA
1 TCAAAAGGTGATGAAATGGGGGGCAA
10494713 TCAAAAGGTGATGAAATGGGGGGCA
1 TCAAAAGGTGATGAAATGGGGGGCA
10494738 CCGCCTAAGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.35, C:0.08, G:0.41, T:0.16
Consensus pattern (26 bp):
TCAAAAGGTGATGAAATGGGGGGCAA
Found at i:10495315 original size:14 final size:14
Alignment explanation
Indices: 10495296--10495325 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
10495286 GCAGGTACCT
10495296 ACAACACTGACGAA
1 ACAACACTGACGAA
10495310 ACAACACTGACGAA
1 ACAACACTGACGAA
10495324 AC
1 AC
10495326 TCAAGAGCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.50, C:0.30, G:0.13, T:0.07
Consensus pattern (14 bp):
ACAACACTGACGAA
Found at i:10501699 original size:28 final size:26
Alignment explanation
Indices: 10501648--10501725 Score: 70
Period size: 26 Copynumber: 2.9 Consensus size: 26
10501638 AAAATTGGAA
*
10501648 TTGAATTA-AAGTTAAATTAATTTA-TT
1 TTGAATTATAA-TT-AATTATTTTAGTT
10501674 TTGAATTTATATGATTAATTATTTTAGTT
1 TTGAA-TTATA--ATTAATTATTTTAGTT
* *
10501703 TTTAATTATAATTGATTATTTTA
1 TTGAATTATAATTAATTATTTTA
10501726 AAGAAATATT
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
26 17 0.39
27 3 0.07
28 15 0.34
29 8 0.18
30 1 0.02
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (26 bp):
TTGAATTATAATTAATTATTTTAGTT
Found at i:10504232 original size:28 final size:28
Alignment explanation
Indices: 10504192--10504252 Score: 95
Period size: 28 Copynumber: 2.2 Consensus size: 28
10504182 AAGCATTCAA
* * *
10504192 GTAATGTAGTTCAACATTTAAGTGAAAT
1 GTAATCTAGTTCAACATTCAAGCGAAAT
10504220 GTAATCTAGTTCAACATTCAAGCGAAAT
1 GTAATCTAGTTCAACATTCAAGCGAAAT
10504248 GTAAT
1 GTAAT
10504253 ATAGGTTAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.33
Consensus pattern (28 bp):
GTAATCTAGTTCAACATTCAAGCGAAAT
Found at i:10519450 original size:22 final size:22
Alignment explanation
Indices: 10519425--10519472 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
10519415 ACCCAAAATA
10519425 ATATTCACAATAAACATCATAT
1 ATATTCACAATAAACATCATAT
**
10519447 ATATTCATGATAAACATCATAT
1 ATATTCACAATAAACATCATAT
10519469 ATAT
1 ATAT
10519473 AACCATTGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.48, C:0.15, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATTCACAATAAACATCATAT
Found at i:10521542 original size:54 final size:54
Alignment explanation
Indices: 10521460--10522083 Score: 618
Period size: 54 Copynumber: 11.6 Consensus size: 54
10521450 ACCAAATAGG
* * * *
10521460 CACTAAGTGTGCAAACCACATAATTCATCATTTATTGATGAATAACCGTTTCGA
1 CACTAAGTGTGCAAATCACAGAATTCATCATATGTTGATGAATAACCGTTTCGA
* * **
10521514 CACTAAGTATACAAATCATGGAATTCATCATATGTTGATGAATAACCGTTTC-A
1 CACTAAGTGTGCAAATCACAGAATTCATCATATGTTGATGAATAACCGTTTCGA
* ** *
10521567 GCACTAAGTGTGCAAATCACAGAATTCATCATATGTGGATGAATAATTGTTTCGG
1 -CACTAAGTGTGCAAATCACAGAATTCATCATATGTTGATGAATAACCGTTTCGA
* * * * *
10521622 CATTAAATGTGCAAAAT-ACA-AAAT--TCATATGTTGATGAATAACTGTTTTGA
1 CACTAAGTGTGC-AAATCACAGAATTCATCATATGTTGATGAATAACCGTTTCGA
* * * *
10521673 CACTAAGTGTGCAAATCACGGAATTCATCATATGTTGATGAATAATCATTTCGG
1 CACTAAGTGTGCAAATCACAGAATTCATCATATGTTGATGAATAACCGTTTCGA
* * * *
10521727 TACTAAGTCTGTAAATCACAGAATTCATCATATGTTGATGAATAATCGTTTCGA
1 CACTAAGTGTGCAAATCACAGAATTCATCATATGTTGATGAATAACCGTTTCGA
* * * ***
10521781 CACTAAGTGTGCAAATCACGGAATTCATCATATGTTGTTAAATAATTATTTCGA
1 CACTAAGTGTGCAAATCACAGAATTCATCATATGTTGATGAATAACCGTTTCGA
* ** *
10521835 CAATAAGTGTGCAAATCACAGAATTCATCATATGTTGATGAATAACTATTTCGG
1 CACTAAGTGTGCAAATCACAGAATTCATCATATGTTGATGAATAACCGTTTCGA
* * * * * *
10521889 TACTAAGTGTGAAAATCAC-GTAATTTATCATATGTTAATCAATAACCGTTTCGG
1 CACTAAGTGTGCAAATCACAG-AATTCATCATATGTTGATGAATAACCGTTTCGA
* * *
10521943 CACTAAGTGTGCAAATCACATAATTCATCATATGTTGATAAATAACCATTTCGA
1 CACTAAGTGTGCAAATCACAGAATTCATCATATGTTGATGAATAACCGTTTCGA
* * * * * * * * *
10521997 CATTGAA-TATACAAAGT-AAAAAATTCATCATATATTGATGAATACCCGTTTAGG
1 CACT-AAGTGTGCAAA-TCACAGAATTCATCATATGTTGATGAATAACCGTTTCGA
* * * *
10522051 CATTATGTGTGCAAACCAC-GAAATTCATAATAT
1 CACTAAGTGTGCAAATCACAG-AATTCATCATAT
10522084 ATTTAAGAAT
Statistics
Matches: 470, Mismatches: 86, Indels: 28
0.80 0.15 0.05
Matches are distributed among these distances:
50 4 0.01
51 35 0.07
52 3 0.01
53 6 0.01
54 415 0.88
55 7 0.01
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.33
Consensus pattern (54 bp):
CACTAAGTGTGCAAATCACAGAATTCATCATATGTTGATGAATAACCGTTTCGA
Found at i:10521891 original size:162 final size:162
Alignment explanation
Indices: 10521458--10521998 Score: 689
Period size: 162 Copynumber: 3.4 Consensus size: 162
10521448 TTACCAAATA
* * * * * *
10521458 GGCACTAAGTGTGCAAACCACATAATTCATCATTTATTGATGAATAACCGTTTCGACACTAAGTA
1 GGCACTAAGTGTGCAAATCACATAATTCATCATATGTTGATAAATAACCATTTCGACACTAAGTG
* * ** * * *
10521523 TACAAATCATGGAATTCATCATATGTTGATGAATAACCGTTTCAGCACTAAGTGTGCAAATCACA
66 TGCAAATCACGGAATTCATCATATGTTGATGAATAACTATTTCGGTACTAAGTGTGAAAATCACA
* *
10521588 GAATTCATCATATGTGGATGAATAATTGTTTC
131 GAATTCATCATATGTTGATGAATAATCGTTTC
* * * * ** *
10521620 GGCATTAAATGTGCAAAAT-ACA-AAAT--TCATATGTTGATGAATAACTGTTTTGACACTAAGT
1 GGCACTAAGTGTGC-AAATCACATAATTCATCATATGTTGATAAATAACCATTTCGACACTAAGT
* *
10521681 GTGCAAATCACGGAATTCATCATATGTTGATGAATAA-TCATTTCGGTACTAAGTCTGTAAATCA
65 GTGCAAATCACGGAATTCATCATATGTTGATGAATAACT-ATTTCGGTACTAAGTGTGAAAATCA
10521745 CAGAATTCATCATATGTTGATGAATAATCGTTTC
129 CAGAATTCATCATATGTTGATGAATAATCGTTTC
* ** * ** *
10521779 GACACTAAGTGTGCAAATCACGGAATTCATCATATGTTGTTAAATAATTATTTCGACAATAAGTG
1 GGCACTAAGTGTGCAAATCACATAATTCATCATATGTTGATAAATAACCATTTCGACACTAAGTG
*
10521844 TGCAAATCACAGAATTCATCATATGTTGATGAATAACTATTTCGGTACTAAGTGTGAAAATCAC-
66 TGCAAATCACGGAATTCATCATATGTTGATGAATAACTATTTCGGTACTAAGTGTGAAAATCACA
* * * *
10521908 GTAATTTATCATATGTTAATCAATAACCGTTTC
131 G-AATTCATCATATGTTGATGAATAATCGTTTC
10521941 GGCACTAAGTGTGCAAATCACATAATTCATCATATGTTGATAAATAACCATTTCGACA
1 GGCACTAAGTGTGCAAATCACATAATTCATCATATGTTGATAAATAACCATTTCGACA
10521999 TTGAATATAC
Statistics
Matches: 328, Mismatches: 43, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
158 4 0.01
159 130 0.40
160 3 0.01
161 4 0.01
162 183 0.56
163 4 0.01
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.33
Consensus pattern (162 bp):
GGCACTAAGTGTGCAAATCACATAATTCATCATATGTTGATAAATAACCATTTCGACACTAAGTG
TGCAAATCACGGAATTCATCATATGTTGATGAATAACTATTTCGGTACTAAGTGTGAAAATCACA
GAATTCATCATATGTTGATGAATAATCGTTTC
Found at i:10537258 original size:20 final size:20
Alignment explanation
Indices: 10537221--10537259 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
10537211 TTATGATAGA
*
10537221 ATTAATCTCTATCACTTTCT
1 ATTAATCTCTACCACTTTCT
* *
10537241 ATTAATTTCTACCGCTTTC
1 ATTAATCTCTACCACTTTC
10537260 AATAAAATTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.26, G:0.03, T:0.49
Consensus pattern (20 bp):
ATTAATCTCTACCACTTTCT
Found at i:10539485 original size:19 final size:20
Alignment explanation
Indices: 10539438--10539486 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
10539428 TTTTATCTTA
*
10539438 TTTTAATTTAGTCCTTATTAG
1 TTTTAATTTAG-CCTTATGAG
* *
10539459 TGTTAATTTAG-CTTCTGAG
1 TTTTAATTTAGCCTTATGAG
10539478 TTTTAATTT
1 TTTTAATTT
10539487 CTTGTATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 14 0.58
21 10 0.42
ACGTcount: A:0.22, C:0.08, G:0.12, T:0.57
Consensus pattern (20 bp):
TTTTAATTTAGCCTTATGAG
Found at i:10551281 original size:28 final size:28
Alignment explanation
Indices: 10551219--10551282 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
10551209 CGTAAGAGGC
*
10551219 CAGCCTAAAACACATTACCTCCCGAAGT
1 CAGCCTGAAACACATTACCTCCCGAAGT
* *
10551247 TAACCTGAAACACATTACCTTCCC-AAGT
1 CAGCCTGAAACACATTACC-TCCCGAAGT
10551275 CAGCCTGA
1 CAGCCTGA
10551283 GCCTTTTATC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
28 26 0.87
29 4 0.13
ACGTcount: A:0.34, C:0.34, G:0.11, T:0.20
Consensus pattern (28 bp):
CAGCCTGAAACACATTACCTCCCGAAGT
Found at i:10552758 original size:42 final size:42
Alignment explanation
Indices: 10552712--10552817 Score: 133
Period size: 42 Copynumber: 2.5 Consensus size: 42
10552702 AAGGGTTTCT
10552712 TGATGAGTAAGTCCTTCGGGCCAGCAATAAGTCTTTCGAGCA
1 TGATGAGTAAGTCCTTCGGGCCAGCAATAAGTCTTTCGAGCA
* * * * ** *
10552754 TGATGCGTAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGTA
1 TGATGAGTAAGTCCTTCGGGCCAGCAATAAGTCTTTCGAGCA
*
10552796 AGATGA-TAAGTCCTTCGGGCCA
1 TGATGAGTAAGTCCTTCGGGCCA
10552818 TCCATAAGAC
Statistics
Matches: 53, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
41 14 0.26
42 39 0.74
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (42 bp):
TGATGAGTAAGTCCTTCGGGCCAGCAATAAGTCTTTCGAGCA
Found at i:10553040 original size:42 final size:42
Alignment explanation
Indices: 10552975--10553056 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
10552965 AAGGGTTTCT
*
10552975 TGATGAGTAAGTACTTCAGGCCA-TTAGTAAGTCTTTCGAGCA
1 TGATGAGTAAGTACTTCAGGCCATTTA-TAAGACTTTCGAGCA
* *
10553017 TGATGCGTAAGTCCTTC-GAGCCATTTATAAGACTTTCGAG
1 TGATGAGTAAGTACTTCAG-GCCATTTATAAGACTTTCGAG
10553057 AAAAATGATA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
41 1 0.03
42 31 0.89
43 3 0.09
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (42 bp):
TGATGAGTAAGTACTTCAGGCCATTTATAAGACTTTCGAGCA
Found at i:10553092 original size:20 final size:20
Alignment explanation
Indices: 10553024--10553093 Score: 59
Period size: 20 Copynumber: 3.5 Consensus size: 20
10553014 GCATGATGCG
* *
10553024 TAAGTCCTTCGAGCCATTTA
1 TAAGACCTTCGAGCCATTCA
* ** * *
10553044 TAAGACTTTCGAGAAAAATGA
1 TAAGACCTTCGAG-CCATTCA
*
10553065 TAAAACCTTCGAGCCATTCA
1 TAAGACCTTCGAGCCATTCA
10553085 TAAGACCTT
1 TAAGACCTT
10553094 TGGGTAGGAT
Statistics
Matches: 36, Mismatches: 13, Indels: 2
0.71 0.25 0.04
Matches are distributed among these distances:
20 22 0.61
21 14 0.39
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (20 bp):
TAAGACCTTCGAGCCATTCA
Found at i:10553111 original size:263 final size:263
Alignment explanation
Indices: 10552644--10553176 Score: 805
Period size: 263 Copynumber: 2.0 Consensus size: 263
10552634 AAGCTTGATA
* * *
10552644 GACCAACGTGATATATAGGGGTTCCTTGATGACAACTAAGAAACTGAGCTTGATTTTCAAGGGTT
1 GACCAACGTGATATATAGGGGCTCCTTAATGACAACTAAGAAACTAAGCTTGATTTTCAAGGGTT
* * *
10552709 TCTTGATGAGTAAGTCCTTCGGGCCAGCAATAAGTCTTTCGAGCATGATGCGTAAATCCTTCGGG
66 TCTTGATGAGTAAGTACTTCAGGCCAGCAATAAGTCTTTCGAGCATGATGCGTAAATCCTTCGAG
* * * * * ** *
10552774 TCATCTGTAAGTCTTTCGAGTAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTTGGATAGG
131 CCATCTATAAGACTTTCGAGAAAAATGATAAAACCTTCGAGCCATCCATAAGACCTTTGGATAGG
* * * * **
10552839 ATGTTTTCAACATTTCCGGCACTTGATTCATCACATATGGAGTTGAATCACCGTCACCTCACTCG
196 ATGTTTTCAACATTTCCAGCACTCGATTCAACACATATGGAGTTGAATCAACAACACCTCACTCG
10552904 AGG
261 AGG
*
10552907 GACCAACGTGATATGTAGGGGCTCCTTAATGACAACTAAGAAACTAAGCTTGATTTTCAAGGGTT
1 GACCAACGTGATATATAGGGGCTCCTTAATGACAACTAAGAAACTAAGCTTGATTTTCAAGGGTT
** * *
10552972 TCTTGATGAGTAAGTACTTCAGGCCATTAGTAAGTCTTTCGAGCATGATGCGTAAGTCCTTCGAG
66 TCTTGATGAGTAAGTACTTCAGGCCAGCAATAAGTCTTTCGAGCATGATGCGTAAATCCTTCGAG
* * *
10553037 CCATTTATAAGACTTTCGAGAAAAATGATAAAACCTTCGAGCCATTCATAAGACCTTTGGGTAGG
131 CCATCTATAAGACTTTCGAGAAAAATGATAAAACCTTCGAGCCATCCATAAGACCTTTGGATAGG
*
10553102 ATGTTTTCAACATTTCCAGTACTCGATTCAACACATATGGAGTTGAATCAACAACACCTCACTCG
196 ATGTTTTCAACATTTCCAGCACTCGATTCAACACATATGGAGTTGAATCAACAACACCTCACTCG
10553167 AGG
261 AGG
10553170 GACCAAC
1 GACCAAC
10553177 ATTGCCAGTT
Statistics
Matches: 241, Mismatches: 29, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
263 241 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (263 bp):
GACCAACGTGATATATAGGGGCTCCTTAATGACAACTAAGAAACTAAGCTTGATTTTCAAGGGTT
TCTTGATGAGTAAGTACTTCAGGCCAGCAATAAGTCTTTCGAGCATGATGCGTAAATCCTTCGAG
CCATCTATAAGACTTTCGAGAAAAATGATAAAACCTTCGAGCCATCCATAAGACCTTTGGATAGG
ATGTTTTCAACATTTCCAGCACTCGATTCAACACATATGGAGTTGAATCAACAACACCTCACTCG
AGG
Found at i:10554374 original size:19 final size:20
Alignment explanation
Indices: 10554327--10554375 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
10554317 TTTTATTTTA
*
10554327 TTTTAATTTAGTCCTTATTAG
1 TTTTAATTTAG-CCTTATCAG
* *
10554348 TCTTAATTTAG-CTTCTCAG
1 TTTTAATTTAGCCTTATCAG
10554367 TTTTAATTT
1 TTTTAATTT
10554376 CTTGTATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 14 0.58
21 10 0.42
ACGTcount: A:0.22, C:0.12, G:0.08, T:0.57
Consensus pattern (20 bp):
TTTTAATTTAGCCTTATCAG
Found at i:10556226 original size:23 final size:24
Alignment explanation
Indices: 10556195--10556246 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
10556185 TTATTAAATA
* * *
10556195 TATATATTTA-CCTTCTAAATTTT
1 TATAAATTTATCCATCTAAAATTT
*
10556218 TATAAATTTATTCATCTAAAATTT
1 TATAAATTTATCCATCTAAAATTT
10556242 TATAA
1 TATAA
10556247 CGTCATTTCT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 9 0.38
24 15 0.62
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.52
Consensus pattern (24 bp):
TATAAATTTATCCATCTAAAATTT
Found at i:10557581 original size:21 final size:22
Alignment explanation
Indices: 10557552--10557604 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
10557542 ATTCTGACTA
10557552 TCGCATTGCGATTTTCC-AAAT
1 TCGCATTGCGATTTTCCGAAAT
*
10557573 TCGCGTTGCGATTTTCCGAAA-
1 TCGCATTGCGATTTTCCGAAAT
*
10557594 TCGCAATGCGA
1 TCGCATTGCGA
10557605 ATATGTAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 25 0.89
22 3 0.11
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.32
Consensus pattern (22 bp):
TCGCATTGCGATTTTCCGAAAT
Found at i:10557616 original size:20 final size:19
Alignment explanation
Indices: 10557590--10557644 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
10557580 GCGATTTTCC
10557590 GAAATCGCAATGCGAATAT
1 GAAATCGCAATGCGAATAT
*
10557609 GTAAATCGCAATGCGATTAT
1 G-AAATCGCAATGCGAATAT
*
10557629 GACTATCGCAATGCGA
1 GA-AATCGCAATGCGA
10557645 TTCTGACTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
19 2 0.06
20 30 0.94
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (19 bp):
GAAATCGCAATGCGAATAT
Found at i:10557645 original size:20 final size:20
Alignment explanation
Indices: 10557613--10557712 Score: 128
Period size: 20 Copynumber: 5.0 Consensus size: 20
10557603 GAATATGTAA
* *
10557613 ATCGCAATGCGATTATGACT
1 ATCGCAACGCGATTCTGACT
*
10557633 ATCGCAATGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
* * *
10557653 ATCCCAACACGATTCTGATT
1 ATCGCAACGCGATTCTGACT
*
10557673 ATCGCAACGAGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
10557693 ATCACAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
10557713 GTCACAACAC
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 69 1.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:10564236 original size:12 final size:12
Alignment explanation
Indices: 10564219--10564243 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10564209 TAGTCTCAAT
10564219 TGTTTGCAAAAA
1 TGTTTGCAAAAA
10564231 TGTTTGCAAAAA
1 TGTTTGCAAAAA
10564243 T
1 T
10564244 TATTAGGTGA
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:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (12 bp):
TGTTTGCAAAAA
Found at i:10564858 original size:26 final size:26
Alignment explanation
Indices: 10564822--10564873 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
10564812 TAATTACCCT
10564822 ATTTGTACCCTAACTATCACTTCCAA
1 ATTTGTACCCTAACTATCACTTCCAA
10564848 ATTTGTACCCTAACTATCACTTCCAA
1 ATTTGTACCCTAACTATCACTTCCAA
10564874 GTTCCCAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.31, G:0.04, T:0.35
Consensus pattern (26 bp):
ATTTGTACCCTAACTATCACTTCCAA
Found at i:10567298 original size:16 final size:18
Alignment explanation
Indices: 10567277--10567319 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
10567267 GTACCTACAA
10567277 ATTTTA-AT-TTTTTTAT
1 ATTTTATATATTTTTTAT
*
10567293 ATTTTATTTATTTTTTAT
1 ATTTTATATATTTTTTAT
*
10567311 ATTGTATAT
1 ATTTTATAT
10567320 TAATTATCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 6 0.27
17 1 0.05
18 15 0.68
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (18 bp):
ATTTTATATATTTTTTAT
Found at i:10578760 original size:41 final size:41
Alignment explanation
Indices: 10578692--10578807 Score: 144
Period size: 41 Copynumber: 2.8 Consensus size: 41
10578682 CTGTAAACTT
* *
10578692 GCGGTGTTTGTAAAAACAAACGCCACTAAAGTATGAGTCTATA
1 GCGGTGTTTGT--ATACAAACGCCACTAAAGTACGAGTCTATA
* *
10578735 GCGGTGTTTGTATACAAATGCCACTAAAGTACGAGTCTTTA
1 GCGGTGTTTGTATACAAACGCCACTAAAGTACGAGTCTATA
* *
10578776 GAGGTGCTTT-TATACAAACGCCACTAATGTAC
1 GCGGTG-TTTGTATACAAACGCCACTAAAGTAC
10578808 TGATAAATTG
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
41 51 0.78
42 3 0.05
43 11 0.17
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (41 bp):
GCGGTGTTTGTATACAAACGCCACTAAAGTACGAGTCTATA
Found at i:10579014 original size:164 final size:164
Alignment explanation
Indices: 10578821--10579127 Score: 422
Period size: 164 Copynumber: 1.9 Consensus size: 164
10578811 TAAATTGCGG
* *
10578821 CGTTTGTTGAGAAAATGCCATTATAGATGAACCCTATTAC-GTCATTTGTATAAAAATA-CCGCT
1 CGTTTGTTGAGAAAATGCCACTATAGATGAACCCTAGTACGGT-ATTTGTATAAAAA-AGCCGCT
* * *
10578884 AAAGTACTACTCTGTTACGGTGTTTATTGAAAAAA-CCATTATAGATGAACCCTATTGCGGTGTT
64 AAAGTACTACTCTGTTACGGCGTTTATTGAAAAAAGCCACTATAGATG-ACCCTATTGCGGCGTT
*
10578948 TGTATAAAAATGCCGCCAAAATACTACTCTATTACGA
128 TGTATAAAAACGCCGCCAAAATACTACTCTATTACGA
* * * *
10578985 CGTTTGTTGAGCAAATGCCACTATAGATGAACCCTAGTGCGGTGTTTGTATAAAAAAGCTGCTAA
1 CGTTTGTTGAGAAAATGCCACTATAGATGAACCCTAGTACGGTATTTGTATAAAAAAGCCGCTAA
* * * * *
10579050 AGTACTACTTTGTTGCGGCGTTTGTTGAAAAAATGCCACTATAGATGACCTTATTGTGGCGTTTG
66 AGTACTACTCTGTTACGGCGTTTATTGAAAAAA-GCCACTATAGATGACCCTATTGCGGCGTTTG
10579115 TATAAAAACGCCG
130 TATAAAAACGCCG
10579128 TTAAAGTACT
Statistics
Matches: 124, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
163 1 0.01
164 83 0.67
165 29 0.23
166 11 0.09
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (164 bp):
CGTTTGTTGAGAAAATGCCACTATAGATGAACCCTAGTACGGTATTTGTATAAAAAAGCCGCTAA
AGTACTACTCTGTTACGGCGTTTATTGAAAAAAGCCACTATAGATGACCCTATTGCGGCGTTTGT
ATAAAAACGCCGCCAAAATACTACTCTATTACGA
Found at i:10579033 original size:83 final size:83
Alignment explanation
Indices: 10578818--10579137 Score: 387
Period size: 83 Copynumber: 3.9 Consensus size: 83
10578808 TGATAAATTG
* * * *
10578818 CGGCGTTTGTTGAGAAAATGCCATTATAGATGAACCCTATTAC-GTCATTTGTATAAAAATACCG
1 CGGCGTTTGTTGAGAAAATGCCACTATAGATGAACCCTATTGCGGT-GTTTGTATAAAAATGCCG
10578882 CTAAAGTACTACTCTGTTA
65 CTAAAGTACTACTCTGTTA
* * * *
10578901 CGGTGTTTATTGA-AAAA-ACCATTATAGATGAACCCTATTGCGGTGTTTGTATAAAAATGCCGC
1 CGGCGTTTGTTGAGAAAATGCCACTATAGATGAACCCTATTGCGGTGTTTGTATAAAAATGCCGC
* * *
10578964 CAAAATACTACTCTATTA
66 TAAAGTACTACTCTGTTA
* * * * *
10578982 CGACGTTTGTTGAGCAAATGCCACTATAGATGAACCCTAGTGCGGTGTTTGTATAAAAAAGCTGC
1 CGGCGTTTGTTGAGAAAATGCCACTATAGATGAACCCTATTGCGGTGTTTGTATAAAAATGCCGC
* *
10579047 TAAAGTACTACTTTGTTG
66 TAAAGTACTACTCTGTTA
* * * * * *
10579065 CGGCGTTTGTTGAAAAAATGCCACTATAGATG-ACCTTATTGTGGCGTTTGTATAAAAACGCCGT
1 CGGCGTTTGTTGAGAAAATGCCACTATAGATGAACCCTATTGCGGTGTTTGTATAAAAATGCCGC
10579129 TAAAGTACT
66 TAAAGTACT
10579138 GTTTTGTCGC
Statistics
Matches: 201, Mismatches: 33, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
81 64 0.32
82 43 0.21
83 94 0.47
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (83 bp):
CGGCGTTTGTTGAGAAAATGCCACTATAGATGAACCCTATTGCGGTGTTTGTATAAAAATGCCGC
TAAAGTACTACTCTGTTA
Found at i:10579122 original size:41 final size:41
Alignment explanation
Indices: 10578997--10579122 Score: 114
Period size: 41 Copynumber: 3.0 Consensus size: 41
10578987 TTTGTTGAGC
* * *
10578997 AAATGCCACTATAGATGAACCCTAGTGCGGTGTTTGTATAAA
1 AAATGCCACTATAGATG-ACCTTATTGCGGCGTTTGTATAAA
** * * *
10579039 AAA-GCTGCTAAAGTACT-ACTTTGTTGCGGCGTTTGT-TGAAA
1 AAATGCCACTATAG-A-TGACCTTATTGCGGCGTTTGTAT-AAA
*
10579080 AAATGCCACTATAGATGACCTTATTGTGGCGTTTGTATAAA
1 AAATGCCACTATAGATGACCTTATTGCGGCGTTTGTATAAA
10579121 AA
1 AA
10579123 CGCCGTTAAA
Statistics
Matches: 64, Mismatches: 14, Indels: 13
0.70 0.15 0.14
Matches are distributed among these distances:
40 2 0.03
41 49 0.77
42 12 0.19
43 1 0.02
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (41 bp):
AAATGCCACTATAGATGACCTTATTGCGGCGTTTGTATAAA
Found at i:10580369 original size:45 final size:45
Alignment explanation
Indices: 10580314--10580400 Score: 165
Period size: 45 Copynumber: 1.9 Consensus size: 45
10580304 TTTATCTCAC
*
10580314 TATGTTGGAGCTATTACCAACATTACCCAACTTATTTCCTAAAAT
1 TATGTTGGAGCTATTAACAACATTACCCAACTTATTTCCTAAAAT
10580359 TATGTTGGAGCTATTAACAACATTACCCAACTTATTTCCTAA
1 TATGTTGGAGCTATTAACAACATTACCCAACTTATTTCCTAA
10580401 GTCTCTCATT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.33, C:0.22, G:0.09, T:0.36
Consensus pattern (45 bp):
TATGTTGGAGCTATTAACAACATTACCCAACTTATTTCCTAAAAT
Found at i:10580675 original size:38 final size:38
Alignment explanation
Indices: 10580632--10580706 Score: 123
Period size: 38 Copynumber: 2.0 Consensus size: 38
10580622 TTCTTTAAAT
*
10580632 TTTTTCAAAATTATCCTAAGGCATTACCAATGTAATTC
1 TTTTTCAAAATTATCCTAAGGCATTACCAATGCAATTC
* *
10580670 TTTTTCAAAATTATCGTAAGGCATTACTAATGCAATT
1 TTTTTCAAAATTATCCTAAGGCATTACCAATGCAATT
10580707 ATATATGTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.35, C:0.16, G:0.09, T:0.40
Consensus pattern (38 bp):
TTTTTCAAAATTATCCTAAGGCATTACCAATGCAATTC
Found at i:10580719 original size:38 final size:38
Alignment explanation
Indices: 10580636--10580721 Score: 100
Period size: 38 Copynumber: 2.3 Consensus size: 38
10580626 TTAAATTTTT
* * * *
10580636 TCAAAATTATCCTAAGGCATTACCAATGTAATTCTTTT
1 TCAAAATTATCCTAAGGCATTACCAATGCAATTATATA
* *
10580674 TCAAAATTATCGTAAGGCATTACTAATGCAATTATATA
1 TCAAAATTATCCTAAGGCATTACCAATGCAATTATATA
**
10580712 TGTAAATTAT
1 TCAAAATTAT
10580722 ATATCTAAAT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.38
Consensus pattern (38 bp):
TCAAAATTATCCTAAGGCATTACCAATGCAATTATATA
Found at i:10581370 original size:21 final size:21
Alignment explanation
Indices: 10581346--10581385 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
10581336 TTCTTCTTTT
* *
10581346 TCACTTTCACCCTTCTCTTCA
1 TCACTTTCAACCTCCTCTTCA
10581367 TCACTTTCAACCTCCTCTT
1 TCACTTTCAACCTCCTCTT
10581386 TATCCTCCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.42, G:0.00, T:0.42
Consensus pattern (21 bp):
TCACTTTCAACCTCCTCTTCA
Found at i:10585164 original size:21 final size:21
Alignment explanation
Indices: 10585140--10585181 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
10585130 AAATGCACTG
10585140 AAATG-CCACATAGAATGTCCC
1 AAATGACCACATA-AATGTCCC
*
10585161 AAATGACCACATATATGTCCC
1 AAATGACCACATAAATGTCCC
10585182 GAAGGACAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.38, C:0.29, G:0.12, T:0.21
Consensus pattern (21 bp):
AAATGACCACATAAATGTCCC
Found at i:10585207 original size:23 final size:23
Alignment explanation
Indices: 10585175--10585243 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
10585165 GACCACATAT
*
10585175 ATGTCCCGAAGGACAGCGTAGAA
1 ATGTCTCGAAGGACAGCGTAGAA
* *
10585198 ATGTTTCGAAGGACCA-CGTAGGA
1 ATGTCTCGAAGGA-CAGCGTAGAA
* *
10585221 TTGTCTCGAAGGACCGCGTAGAA
1 ATGTCTCGAAGGACAGCGTAGAA
10585244 CACTCGACTC
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
22 1 0.03
23 34 0.92
24 2 0.05
ACGTcount: A:0.30, C:0.20, G:0.30, T:0.19
Consensus pattern (23 bp):
ATGTCTCGAAGGACAGCGTAGAA
Found at i:10592506 original size:20 final size:20
Alignment explanation
Indices: 10592477--10592526 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
10592467 ATGTATGATG
10592477 CTTGGTTGAATAAATATGTC
1 CTTGGTTGAATAAATATGTC
* *
10592497 CTTGGCTGAATGAATATGTC
1 CTTGGTTGAATAAATATGTC
10592517 CTTGGTTGAA
1 CTTGGTTGAA
10592527 AGGTCTCCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.26, C:0.12, G:0.24, T:0.38
Consensus pattern (20 bp):
CTTGGTTGAATAAATATGTC
Found at i:10595703 original size:6 final size:6
Alignment explanation
Indices: 10595692--10595732 Score: 73
Period size: 6 Copynumber: 6.7 Consensus size: 6
10595682 GTATGAGTTC
10595692 TTTTCT TTTTCT TTTTCT TTTTCT TCTTTCT TTTTCT TTTT
1 TTTTCT TTTTCT TTTTCT TTTTCT T-TTTCT TTTTCT TTTT
10595733 GTTGCAACTC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 28 0.82
7 6 0.18
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTCT
Found at i:10595723 original size:19 final size:18
Alignment explanation
Indices: 10595692--10595732 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 18
10595682 GTATGAGTTC
10595692 TTTTCTTTTTCTTTTTCT
1 TTTTCTTTTTCTTTTTCT
10595710 TTTTCTTCTTTCTTTTTCT
1 TTTTCTT-TTTCTTTTTCT
10595729 TTTT
1 TTTT
10595733 GTTGCAACTC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTCTTTTTCTTTTTCT
Found at i:10595948 original size:21 final size:23
Alignment explanation
Indices: 10595924--10595966 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
10595914 GAATGATAAT
10595924 TAAGAAAGGAAA-TATA-AATGA
1 TAAGAAAGGAAAGTATAGAATGA
*
10595945 TAAGAAATGAAAGTATAGAATG
1 TAAGAAAGGAAAGTATAGAATG
10595967 GTTATCAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 11 0.58
22 4 0.21
23 4 0.21
ACGTcount: A:0.58, C:0.00, G:0.21, T:0.21
Consensus pattern (23 bp):
TAAGAAAGGAAAGTATAGAATGA
Found at i:10600080 original size:2 final size:2
Alignment explanation
Indices: 10600073--10600105 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
10600063 GATAATTAAA
10600073 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10600106 TAACTTTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10607289 original size:13 final size:13
Alignment explanation
Indices: 10607271--10607296 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10607261 ATGCTGAAAA
10607271 CACATATATAATC
1 CACATATATAATC
10607284 CACATATATAATC
1 CACATATATAATC
10607297 TTAGTAAACA
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:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (13 bp):
CACATATATAATC
Found at i:10608010 original size:22 final size:23
Alignment explanation
Indices: 10607967--10608010 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
10607957 TATCATACAA
* *
10607967 AATTTAAATCATAATTACATTTG
1 AATTAAAATCATAATTAAATTTG
*
10607990 AATTAAAAT-ATATTTAAATTT
1 AATTAAAATCATAATTAAATTT
10608011 AAAACTAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (23 bp):
AATTAAAATCATAATTAAATTTG
Found at i:10608039 original size:24 final size:24
Alignment explanation
Indices: 10608011--10608083 Score: 71
Period size: 24 Copynumber: 3.0 Consensus size: 24
10608001 ATTTAAATTT
10608011 AAAACTAATATTTAATATATTATC
1 AAAACTAATATTTAATATATTATC
** *
10608035 AAAAC-AATATTTTAATATCACAAAC
1 AAAACTAATA-TTTAATAT-ATTATC
10608060 ATAAA-TAATATTTAA-ATATTATC
1 A-AAACTAATATTTAATATATTATC
10608083 A
1 A
10608084 TGTCATAATC
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
23 8 0.21
24 15 0.38
25 9 0.23
26 7 0.18
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (24 bp):
AAAACTAATATTTAATATATTATC
Found at i:10613767 original size:17 final size:17
Alignment explanation
Indices: 10613734--10613767 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
10613724 ATTTTTATTT
10613734 TATTTTTTATTTAAAAA
1 TATTTTTTATTTAAAAA
10613751 TATTATTTTATTTAAAA
1 TATT-TTTTATTTAAAA
10613768 CTCAAATCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TATTTTTTATTTAAAAA
Found at i:10614460 original size:55 final size:55
Alignment explanation
Indices: 10614370--10614814 Score: 534
Period size: 55 Copynumber: 8.1 Consensus size: 55
10614360 TCAGTGGTTT
* * * * * * * * *
10614370 TTGCACACGTAGTACCGATAC-GATAATTCACAAACTAACTATGAATTACGTGGGG
1 TTGCACACATAGTGCCAATACGGA-AATTCATAAACTCATTATGAATTTCTTGAGG
* * * *
10614425 TTGCACACATAGTTCCAATATGGAAATTCATAAACTCGTTCTGAATTTCTTGAGG
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCTTGAGG
* * * *
10614480 ATGCACACACAGTGCCAATATGGAAATTCATAAACTCATTATGAGTTTCTTGAGG
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCTTGAGG
* * ** *
10614535 TTGCACATAGAGTGCCAATACAAAAATTCATAAACTCATTATGAATTTCTTGTGG
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCTTGAGG
* * *
10614590 TTGCACATAGAGTGCCAATACGGAAATTCATAAACTCATTGTGAATTTCTTGAGG
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCTTGAGG
*
10614645 TTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCGTGAGG
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCTTGAGG
* ** * * *
10614700 TTGTACACATAGTGCCAATACAAAAATTAATAAACTCATTATTAATTT-TATAAGG
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCT-TGAGG
* ** *
10614755 TTGCATACATTCTGCCAATACGGAAATTCATAAACTCGTTATGAATTTCTTGAGG
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCTTGAGG
10614810 TTGCA
1 TTGCA
10614815 GTCACAGTGC
Statistics
Matches: 336, Mismatches: 51, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
55 333 0.99
56 3 0.01
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (55 bp):
TTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCTTGAGG
Found at i:10617402 original size:20 final size:22
Alignment explanation
Indices: 10617373--10617424 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 22
10617363 AGGTAAGGTA
*
10617373 GTATCAATACTCT-ATGATGA-
1 GTATCGATACTCTGATGATGAG
* *
10617393 GTATTGATACTCTGGTGATGAG
1 GTATCGATACTCTGATGATGAG
10617415 GTATCGATAC
1 GTATCGATAC
10617425 CAAAATTAGG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 11 0.42
21 6 0.23
22 9 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.35
Consensus pattern (22 bp):
GTATCGATACTCTGATGATGAG
Found at i:10629683 original size:36 final size:36
Alignment explanation
Indices: 10629636--10629708 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
10629626 AGTTCGGGAA
*
10629636 TTAAGTGATAAAAGAATCAGCCGTGGATATGTAGAT
1 TTAAGTGATAAAAGAATCAGCCATGGATATGTAGAT
*
10629672 TTAAGTGATAAAAGAATCAGTCATGGATATGTAGAT
1 TTAAGTGATAAAAGAATCAGCCATGGATATGTAGAT
10629708 T
1 T
10629709 ATAATTTATC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (36 bp):
TTAAGTGATAAAAGAATCAGCCATGGATATGTAGAT
Found at i:10631495 original size:24 final size:24
Alignment explanation
Indices: 10631475--10631579 Score: 147
Period size: 24 Copynumber: 4.4 Consensus size: 24
10631465 ATAATACCTA
*
10631475 ACCTGAATTCTGATCGGATACTTG
1 ACCTGGATTCTGATCGGATACTTG
10631499 ACCTGGATTCTGATCGGATACTTG
1 ACCTGGATTCTGATCGGATACTTG
* *
10631523 ACTTGGATTCTGATCGAATACTTG
1 ACCTGGATTCTGATCGGATACTTG
* * *
10631547 ACCTGGATTTTGACCTGATACTTG
1 ACCTGGATTCTGATCGGATACTTG
*
10631571 ACCTAGATT
1 ACCTGGATT
10631580 ATGTTTTGAT
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 72 1.00
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (24 bp):
ACCTGGATTCTGATCGGATACTTG
Found at i:10631571 original size:12 final size:13
Alignment explanation
Indices: 10631490--10631574 Score: 65
Period size: 12 Copynumber: 7.0 Consensus size: 13
10631480 AATTCTGATC
10631490 GGATACTTGACCT
1 GGATACTTGACCT
* *
10631503 GGATTC-TGATC-
1 GGATACTTGACCT
*
10631514 GGATACTTGACTT
1 GGATACTTGACCT
* *
10631527 GGATTC-TGATC-
1 GGATACTTGACCT
*
10631538 GAATACTTGACCT
1 GGATACTTGACCT
*
10631551 GGAT-TTTGACCT
1 GGATACTTGACCT
10631563 -GATACTTGACCT
1 GGATACTTGACCT
10631575 AGATTATGTT
Statistics
Matches: 53, Mismatches: 14, Indels: 11
0.68 0.18 0.14
Matches are distributed among these distances:
11 12 0.23
12 28 0.53
13 13 0.25
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.35
Consensus pattern (13 bp):
GGATACTTGACCT
Found at i:10633691 original size:18 final size:18
Alignment explanation
Indices: 10633665--10633710 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
10633655 GTTCCAACCT
* *
10633665 GACCCGACCCGTTTACCC
1 GACCCGACCCCTTGACCC
*
10633683 GACCTGACCCCTTGACCC
1 GACCCGACCCCTTGACCC
10633701 GACCCGACCC
1 GACCCGACCC
10633711 AACCCATTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.17, C:0.52, G:0.17, T:0.13
Consensus pattern (18 bp):
GACCCGACCCCTTGACCC
Found at i:10633715 original size:23 final size:23
Alignment explanation
Indices: 10633679--10633724 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
10633669 CGACCCGTTT
** *
10633679 ACCCGACCTGACCCCTTGACCCG
1 ACCCGACCCAACCCATTGACCCG
*
10633702 ACCCGACCCAACCCATTTACCCG
1 ACCCGACCCAACCCATTGACCCG
10633725 TTGACTGTTG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.22, C:0.52, G:0.13, T:0.13
Consensus pattern (23 bp):
ACCCGACCCAACCCATTGACCCG
Found at i:10636124 original size:48 final size:48
Alignment explanation
Indices: 10636050--10636159 Score: 159
Period size: 48 Copynumber: 2.3 Consensus size: 48
10636040 ATAATACGTA
*
10636050 ACCTGGATTCTGATCGGATACTTGACCTAGATTCTGATC-GGATACTTG
1 ACCTGGATTCTGATCGAATACTTGACCTAGATTCTGA-CAGGATACTTG
* * *
10636098 ACTTGGATTCTGATCGAATACTTGACCTAGATTTTGACATGATACTTG
1 ACCTGGATTCTGATCGAATACTTGACCTAGATTCTGACAGGATACTTG
*
10636146 ACCTGGATTATGAT
1 ACCTGGATTCTGAT
10636160 TTGATTTTTT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
47 1 0.02
48 54 0.98
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.35
Consensus pattern (48 bp):
ACCTGGATTCTGATCGAATACTTGACCTAGATTCTGACAGGATACTTG
Found at i:10636164 original size:24 final size:24
Alignment explanation
Indices: 10636050--10636159 Score: 141
Period size: 24 Copynumber: 4.6 Consensus size: 24
10636040 ATAATACGTA
10636050 ACCTGGATTCTGATCGGATACTTG
1 ACCTGGATTCTGATCGGATACTTG
*
10636074 ACCTAGATTCTGATCGGATACTTG
1 ACCTGGATTCTGATCGGATACTTG
* *
10636098 ACTTGGATTCTGATCGAATACTTG
1 ACCTGGATTCTGATCGGATACTTG
* * *
10636122 ACCTAGATTTTGA-CATGATACTTG
1 ACCTGGATTCTGATC-GGATACTTG
*
10636146 ACCTGGATTATGAT
1 ACCTGGATTCTGAT
10636160 TTGATTTTTT
Statistics
Matches: 73, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
23 1 0.01
24 72 0.99
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.35
Consensus pattern (24 bp):
ACCTGGATTCTGATCGGATACTTG
Found at i:10636371 original size:2 final size:2
Alignment explanation
Indices: 10636364--10636422 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
10636354 TGGATGGGTG
10636364 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10636406 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
10636423 GTTTTAAAAA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10638502 original size:21 final size:21
Alignment explanation
Indices: 10638478--10638528 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
10638468 CACTTATTGG
*
10638478 TCTCAATCCAAGCCCAAATTC
1 TCTCAAACCAAGCCCAAATTC
***
10638499 TCTCAAACTTGGCCCAAATTC
1 TCTCAAACCAAGCCCAAATTC
10638520 TCTCAAACC
1 TCTCAAACC
10638529 TGGCCCAAGG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.31, C:0.37, G:0.06, T:0.25
Consensus pattern (21 bp):
TCTCAAACCAAGCCCAAATTC
Found at i:10638532 original size:21 final size:21
Alignment explanation
Indices: 10638489--10638536 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
10638479 CTCAATCCAA
*
10638489 GCCCAAATTCTCTCAAACTTG
1 GCCCAAATTCTCTCAAACCTG
10638510 GCCCAAATTCTCTCAAACCTG
1 GCCCAAATTCTCTCAAACCTG
10638531 GCCCAA
1 GCCCAA
10638537 GGCTTCCTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.29, C:0.38, G:0.10, T:0.23
Consensus pattern (21 bp):
GCCCAAATTCTCTCAAACCTG
Found at i:10638750 original size:34 final size:34
Alignment explanation
Indices: 10638704--10638777 Score: 121
Period size: 34 Copynumber: 2.2 Consensus size: 34
10638694 AAAGCACGAC
*
10638704 AAGCTAGCTAAAGTATTTTTACTATAAATATATA
1 AAGCTAGATAAAGTATTTTTACTATAAATATATA
* *
10638738 AAGCTAGATAAAGTATTTTTACTATAGATATATG
1 AAGCTAGATAAAGTATTTTTACTATAAATATATA
10638772 AAGCTA
1 AAGCTA
10638778 ACTACCCAAG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.43, C:0.08, G:0.12, T:0.36
Consensus pattern (34 bp):
AAGCTAGATAAAGTATTTTTACTATAAATATATA
Found at i:10642674 original size:33 final size:33
Alignment explanation
Indices: 10642637--10642704 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 33
10642627 TTACAAACTA
* * * *
10642637 CCTAGTTTTTCATGGGCTAAACTAGAACCTTTC
1 CCTAGCTTTTCACGGGATAAACTACAACCTTTC
*
10642670 CCTAGCTTTTCACGGGATCAACTACAACCTTTC
1 CCTAGCTTTTCACGGGATAAACTACAACCTTTC
10642703 CC
1 CC
10642705 CTTTACAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.24, C:0.31, G:0.13, T:0.32
Consensus pattern (33 bp):
CCTAGCTTTTCACGGGATAAACTACAACCTTTC
Found at i:10643089 original size:20 final size:20
Alignment explanation
Indices: 10643064--10643102 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
10643054 CTGTTGTAGT
*
10643064 CAGGGTGAATGGATACACTG
1 CAGGGTGAATCGATACACTG
*
10643084 CAGGGTGTATCGATACACT
1 CAGGGTGAATCGATACACT
10643103 AGTGTATGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.23
Consensus pattern (20 bp):
CAGGGTGAATCGATACACTG
Found at i:10643109 original size:16 final size:16
Alignment explanation
Indices: 10643088--10643118 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10643078 ACACTGCAGG
10643088 GTGTATCGATACACTA
1 GTGTATCGATACACTA
*
10643104 GTGTATGGATACACT
1 GTGTATCGATACACT
10643119 CATAGGTGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (16 bp):
GTGTATCGATACACTA
Found at i:10643129 original size:20 final size:20
Alignment explanation
Indices: 10643067--10643138 Score: 57
Period size: 20 Copynumber: 3.8 Consensus size: 20
10643057 TTGTAGTCAG
* *
10643067 GGTGAATGGATACACTGCA-G
1 GGTGTATGGATACACT-CATA
*
10643087 GGTGTATCGATACA--C-TA
1 GGTGTATGGATACACTCATA
10643104 -GTGTATGGATACACTCATA
1 GGTGTATGGATACACTCATA
10643123 GGTGTATCGG-TACACT
1 GGTGTAT-GGATACACT
10643139 ATTTACATTC
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
16 12 0.29
17 1 0.02
18 1 0.02
19 2 0.05
20 24 0.57
21 2 0.05
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (20 bp):
GGTGTATGGATACACTCATA
Found at i:10643484 original size:21 final size:19
Alignment explanation
Indices: 10643460--10643517 Score: 82
Period size: 18 Copynumber: 3.0 Consensus size: 19
10643450 ATGTTTAATG
10643460 AAAAAGATACCAATTGTTA
1 AAAAAGATACCAATTGTTA
*
10643479 ACAAAAGGATATCAATTGTT-
1 A-AAAA-GATACCAATTGTTA
10643499 AAAAAGATACCAATTGTTA
1 AAAAAGATACCAATTGTTA
10643518 CCAATTGTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
18 12 0.35
19 5 0.15
20 5 0.15
21 12 0.35
ACGTcount: A:0.50, C:0.10, G:0.12, T:0.28
Consensus pattern (19 bp):
AAAAAGATACCAATTGTTA
Found at i:10646478 original size:52 final size:52
Alignment explanation
Indices: 10646416--10646515 Score: 157
Period size: 52 Copynumber: 1.9 Consensus size: 52
10646406 GCAACCAGGA
* * *
10646416 TGTATGGATACACTGCA-GGGTGTATCGATATACTAGTGTATAGATACACTAG
1 TGTATAGATACACT-CATAGGTGTATCGATACACTAGTGTATAGATACACTAG
10646468 TGTATAGATACACTCATAGGTGTATCGATACACTAGTGTATAGATACA
1 TGTATAGATACACTCATAGGTGTATCGATACACTAGTGTATAGATACA
10646516 ATCATAAGTG
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
51 2 0.05
52 42 0.95
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (52 bp):
TGTATAGATACACTCATAGGTGTATCGATACACTAGTGTATAGATACACTAG
Found at i:10646528 original size:20 final size:16
Alignment explanation
Indices: 10646435--10646515 Score: 99
Period size: 16 Copynumber: 4.8 Consensus size: 16
10646425 ACACTGCAGG
* *
10646435 GTGTATCGATATACTA
1 GTGTATAGATACACTA
10646451 GTGTATAGATACACTA
1 GTGTATAGATACACTA
10646467 GTGTATAGATACACTCATA
1 GTGTATAGATACA--C-TA
*
10646486 GGTGTATCGATACACTA
1 -GTGTATAGATACACTA
10646503 GTGTATAGATACA
1 GTGTATAGATACA
10646516 ATCATAAGTG
Statistics
Matches: 57, Mismatches: 4, Indels: 8
0.83 0.06 0.12
Matches are distributed among these distances:
16 39 0.68
17 2 0.04
18 2 0.04
19 2 0.04
20 12 0.21
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.32
Consensus pattern (16 bp):
GTGTATAGATACACTA
Found at i:10646529 original size:36 final size:36
Alignment explanation
Indices: 10646450--10646530 Score: 135
Period size: 36 Copynumber: 2.2 Consensus size: 36
10646440 TCGATATACT
* *
10646450 AGTGTATAGATACACTAGTGTATAGATACACTCATA
1 AGTGTATCGATACACTAGTGTATAGATACAATCATA
*
10646486 GGTGTATCGATACACTAGTGTATAGATACAATCATA
1 AGTGTATCGATACACTAGTGTATAGATACAATCATA
10646522 AGTGTATCG
1 AGTGTATCG
10646531 GTATATTATT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.31
Consensus pattern (36 bp):
AGTGTATCGATACACTAGTGTATAGATACAATCATA
Found at i:10646632 original size:20 final size:20
Alignment explanation
Indices: 10646607--10646655 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
10646597 TACACCAGTT
* *
10646607 TATGGATATAATGCAGGGTG
1 TATGGATACAATACAGGGTG
* *
10646627 TATGGATACACTATAGGGTG
1 TATGGATACAATACAGGGTG
10646647 TATGGATAC
1 TATGGATAC
10646656 CCTTTGACAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.31
Consensus pattern (20 bp):
TATGGATACAATACAGGGTG
Found at i:10647865 original size:40 final size:40
Alignment explanation
Indices: 10647810--10647959 Score: 201
Period size: 40 Copynumber: 3.8 Consensus size: 40
10647800 AGCAATTTAA
*
10647810 TGCATACGGTGGGCACAACCTTATGTGTAATGCACTTCGG
1 TGCATATGGTGGGCACAACCTTATGTGTAATGCACTTCGG
* * *
10647850 TGCATATAGTGGGCACAACCTTATGTGTAACGTACTTCGG
1 TGCATATGGTGGGCACAACCTTATGTGTAATGCACTTCGG
* * *
10647890 TGCATATGGTGGGCACGACCTTATGTGTAATACACTTCGA
1 TGCATATGGTGGGCACAACCTTATGTGTAATGCACTTCGG
* * * *
10647930 TTCATATGGTGGACACGACCTTTTGTGTAA
1 TGCATATGGTGGGCACAACCTTATGTGTAA
10647960 GCATTATGGT
Statistics
Matches: 97, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 97 1.00
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (40 bp):
TGCATATGGTGGGCACAACCTTATGTGTAATGCACTTCGG
Found at i:10652128 original size:12 final size:12
Alignment explanation
Indices: 10652103--10652136 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
10652093 TTATAAGATT
*
10652103 ATAAAAAAAGAA
1 ATAAATAAAGAA
*
10652115 ATAAATAAATAA
1 ATAAATAAAGAA
10652127 ATAAATAAAG
1 ATAAATAAAG
10652137 TTGGTTAAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (12 bp):
ATAAATAAAGAA
Found at i:10654976 original size:40 final size:40
Alignment explanation
Indices: 10654921--10655095 Score: 219
Period size: 40 Copynumber: 4.4 Consensus size: 40
10654911 TATCAATTAA
* * *
10654921 GCACTTCTGTGCATATGGTGGGCATGACCTTATATGTAAT
1 GCACTTCGGTGCATATGGTGGGCACGACCTTATGTGTAAT
*
10654961 GCACTTCGGTGCATATGGTGGGCACGACCTTATGTGTAAC
1 GCACTTCGGTGCATATGGTGGGCACGACCTTATGTGTAAT
* * * * * *
10655001 ACTCTTCGGTCCATATAGAGGGCATGACCTTATGTGTAAT
1 GCACTTCGGTGCATATGGTGGGCACGACCTTATGTGTAAT
*
10655041 GCA-TTACGGTGCATATGGTGGGCACAACCTTATGTGTAA-
1 GCACTT-CGGTGCATATGGTGGGCACGACCTTATGTGTAAT
*
10655080 GCACTACGGTGCATAT
1 GCACTTCGGTGCATAT
10655096 ATTTGACTCG
Statistics
Matches: 114, Mismatches: 19, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
39 15 0.13
40 99 0.87
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.30
Consensus pattern (40 bp):
GCACTTCGGTGCATATGGTGGGCACGACCTTATGTGTAAT
Found at i:10657616 original size:11 final size:11
Alignment explanation
Indices: 10657600--10657632 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
10657590 GTATACCTAC
10657600 CTCAAATTTTT
1 CTCAAATTTTT
*
10657611 CTCAAATATTT
1 CTCAAATTTTT
10657622 CTCAAATTTTT
1 CTCAAATTTTT
10657633 ATTCGATCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.30, C:0.18, G:0.00, T:0.52
Consensus pattern (11 bp):
CTCAAATTTTT
Found at i:10670745 original size:54 final size:54
Alignment explanation
Indices: 10670679--10671061 Score: 579
Period size: 54 Copynumber: 7.1 Consensus size: 54
10670669 GTTGCACCTA
* * *
10670679 AGTGCCTAAATGGTAATTCACAAACTCATTATGAATTACATGGCTTGCACACAT
1 AGTGCCGAAATGGTAATTCACAAACTCATTATGAATTCCATGGGTTGCACACAT
* *
10670733 AGTGCCGAAATGGTAGTTCACAAACTCATTATGAATTCCATGGCTTGCACACAT
1 AGTGCCGAAATGGTAATTCACAAACTCATTATGAATTCCATGGGTTGCACACAT
** * *
10670787 AGTGCCGAAATGGTAAATTCACAAACTCATTACAAATTCCATAGGTT-TACACAT
1 AGTGCCGAAATGGT-AATTCACAAACTCATTATGAATTCCATGGGTTGCACACAT
** * *
10670841 AGTGTTGAAATCGTAATTCACAAACTCATTATGAATTCCATTGGTTGCACACAT
1 AGTGCCGAAATGGTAATTCACAAACTCATTATGAATTCCATGGGTTGCACACAT
*
10670895 AGTGACGAAATGGTAAATTCACAAACTCATTATGAATTCCATGGGTTGCACACAT
1 AGTGCCGAAATGGT-AATTCACAAACTCATTATGAATTCCATGGGTTGCACACAT
*
10670950 AGTGTCGAAATGGTAATTCACAAACTCATTATGAATTCCATGGGTTGCACACAT
1 AGTGCCGAAATGGTAATTCACAAACTCATTATGAATTCCATGGGTTGCACACAT
* * *
10671004 AGTTCCAAAATGGTAATTCACAAACTCATTATGAATTCCATGGGTTGCACATAT
1 AGTGCCGAAATGGTAATTCACAAACTCATTATGAATTCCATGGGTTGCACACAT
10671058 AGTG
1 AGTG
10671062 TTGATAGTAC
Statistics
Matches: 300, Mismatches: 26, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
53 29 0.10
54 192 0.64
55 79 0.26
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (54 bp):
AGTGCCGAAATGGTAATTCACAAACTCATTATGAATTCCATGGGTTGCACACAT
Found at i:10671079 original size:18 final size:18
Alignment explanation
Indices: 10671050--10671103 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 18
10671040 TCCATGGGTT
*
10671050 GCACATATAGTGTTGATA
1 GCACACATAGTGTTGATA
* **
10671068 GTACACATAGTGCCGATA
1 GCACACATAGTGTTGATA
*
10671086 GCACACATAGTATTGATA
1 GCACACATAGTGTTGATA
10671104 CAAAATTGCA
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (18 bp):
GCACACATAGTGTTGATA
Found at i:10671143 original size:2 final size:2
Alignment explanation
Indices: 10671136--10671172 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
10671126 TTGCTTTTTA
*
10671136 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10671173 ATAGAGGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10672297 original size:17 final size:20
Alignment explanation
Indices: 10672259--10672299 Score: 61
Period size: 17 Copynumber: 2.2 Consensus size: 20
10672249 ATTTAATTAT
10672259 TTTTTTATTTGTTTATAATA
1 TTTTTTATTTGTTTATAATA
10672279 TTTTTTA-TT-TTTA-AATA
1 TTTTTTATTTGTTTATAATA
10672296 TTTT
1 TTTT
10672300 AGACGGCATC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.38
18 4 0.19
19 2 0.10
20 7 0.33
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (20 bp):
TTTTTTATTTGTTTATAATA
Found at i:10676722 original size:20 final size:21
Alignment explanation
Indices: 10676678--10676728 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
10676668 GTTCTTTTCT
*
10676678 AGTATCGATACCAAGGTGTTG
1 AGTATCGATACCAAGATGTTG
*
10676699 -GTATCGATACCAATATG-TG
1 AGTATCGATACCAAGATGTTG
10676718 AGTATCGATAC
1 AGTATCGATAC
10676729 TCACTTGAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 2 0.07
20 25 0.93
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (21 bp):
AGTATCGATACCAAGATGTTG
Found at i:10677953 original size:72 final size:70
Alignment explanation
Indices: 10677837--10678073 Score: 273
Period size: 72 Copynumber: 3.3 Consensus size: 70
10677827 TCATTGATGA
* * ** * *
10677837 AATA-TTCTAAATTAATATATATTTATTATCTTTTTGCATTTGAATATTAATAGGATAATTATAT
1 AATATTTC-AAATTAAAAGATATTTATTATCTTTTTAAATTTGAATATTAA-AAGAT-ATAATAT
*
10677901 TTTTTTTA
63 TTTTTTTG
* * * * *
10677909 AATATTTCAAAGTAAATGATATTTATGATCTTCTTAAATTTGAATATTAAAAGATATCAATA-TC
1 AATATTTCAAATTAAAAGATATTTATTATCTTTTTAAATTTGAATATTAAAAGATAT-AATATTT
10677973 TTTTTG
65 TTTTTG
10677979 AATAATTT-AAATTAAAAGATATTTATTATCTTTTTAAATTTGAATATTAAAAGATATCAATATT
1 AAT-ATTTCAAATTAAAAGATATTTATTATCTTTTTAAATTTGAATATTAAAAGATAT-AATA-T
10678043 TTTTTTTG
63 TTTTTTTG
*
10678051 AATATTTCAAATTAAAATATATT
1 AATATTTCAAATTAAAAGATATT
10678074 ATCTTTTAGA
Statistics
Matches: 141, Mismatches: 18, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
70 61 0.43
71 15 0.11
72 62 0.44
73 3 0.02
ACGTcount: A:0.41, C:0.05, G:0.06, T:0.49
Consensus pattern (70 bp):
AATATTTCAAATTAAAAGATATTTATTATCTTTTTAAATTTGAATATTAAAAGATATAATATTTT
TTTTG
Found at i:10677993 original size:35 final size:37
Alignment explanation
Indices: 10677945--10678072 Score: 135
Period size: 35 Copynumber: 3.6 Consensus size: 37
10677935 GATCTTCTTA
10677945 AATTTGAATATTAAAAGATATCAATATCTTTTTGAAT
1 AATTTGAATATTAAAAGATATCAATATCTTTTTGAAT
* *
10677982 AATTT-AA-ATTAAAAGATATTTATTATCTTTTT--A-
1 AATTTGAATATTAAAAGATA-TCAATATCTTTTTGAAT
*
10678015 AATTTGAATATTAAAAGATATCAATATTTTTTTTTGAAT
1 AATTTGAATATTAAAAGATATCAATA--TCTTTTTGAAT
* *
10678054 -ATTTCAA-ATTAAAATATAT
1 AATTTGAATATTAAAAGATAT
10678073 TATCTTTTAG
Statistics
Matches: 76, Mismatches: 7, Indels: 16
0.77 0.07 0.16
Matches are distributed among these distances:
33 5 0.07
34 7 0.09
35 22 0.29
36 19 0.25
37 16 0.21
38 7 0.09
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (37 bp):
AATTTGAATATTAAAAGATATCAATATCTTTTTGAAT
Found at i:10679006 original size:2 final size:2
Alignment explanation
Indices: 10678999--10679025 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
10678989 CTTTCTTTTG
10678999 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
10679026 CCTATAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10679065 original size:2 final size:2
Alignment explanation
Indices: 10679058--10679085 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10679048 CTTTCTTTTG
10679058 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10679086 CCAAATTCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10679065 original size:59 final size:59
Alignment explanation
Indices: 10678973--10679084 Score: 224
Period size: 59 Copynumber: 1.9 Consensus size: 59
10678963 TATAGGTAAG
10678973 ATTATGTTTCCAAATTCTTTCTTTTGATATATATATATATATATATATATATACCTATA
1 ATTATGTTTCCAAATTCTTTCTTTTGATATATATATATATATATATATATATACCTATA
10679032 ATTATGTTTCCAAATTCTTTCTTTTGATATATATATATATATATATATATATA
1 ATTATGTTTCCAAATTCTTTCTTTTGATATATATATATATATATATATATATA
10679085 TCCAAATTCT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 53 1.00
ACGTcount: A:0.36, C:0.09, G:0.04, T:0.52
Consensus pattern (59 bp):
ATTATGTTTCCAAATTCTTTCTTTTGATATATATATATATATATATATATATACCTATA
Found at i:10682113 original size:25 final size:25
Alignment explanation
Indices: 10682083--10682131 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
10682073 GAAAAAACTC
*
10682083 AAGAAAACAAAAACAA-AAACATAAT
1 AAGAAAA-AAAAACAACAAAAATAAT
10682108 AAGAAAAAAAAACAACAAAAATAA
1 AAGAAAAAAAAACAACAAAAATAA
10682132 AAATCACCGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.80, C:0.10, G:0.04, T:0.06
Consensus pattern (25 bp):
AAGAAAAAAAAACAACAAAAATAAT
Found at i:10682228 original size:17 final size:16
Alignment explanation
Indices: 10682190--10682228 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
10682180 TTTTTATACC
10682190 ATTATAAAAAATTAACT
1 ATTA-AAAAAATTAACT
*
10682207 TTTAAAAAAATTAACT
1 ATTAAAAAAATTAACT
10682223 AATTAA
1 -ATTAA
10682229 CATTTTCTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (16 bp):
ATTAAAAAAATTAACT
Found at i:10683264 original size:20 final size:19
Alignment explanation
Indices: 10683232--10683271 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
10683222 AGTTTTTATT
10683232 TAAAAAAAGAAATGAAAAAA
1 TAAAAAAAGAAAT-AAAAAA
10683252 TAAAATAAA-AAATAAAAAA
1 TAAAA-AAAGAAATAAAAAA
10683271 T
1 T
10683272 TGTATTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.37
20 9 0.47
21 3 0.16
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.15
Consensus pattern (19 bp):
TAAAAAAAGAAATAAAAAA
Found at i:10685643 original size:16 final size:16
Alignment explanation
Indices: 10685622--10685673 Score: 79
Period size: 16 Copynumber: 3.3 Consensus size: 16
10685612 TTACAATTTC
10685622 TTTTGTTTTATCTTAT
1 TTTTGTTTTATCTTAT
10685638 TTTTGTTTTATCTTAT
1 TTTTGTTTTATCTTAT
*
10685654 TTTTG-TATATCTTAT
1 TTTTGTTTTATCTTAT
*
10685669 GTTTG
1 TTTTG
10685674 CATTTTCTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
15 13 0.38
16 21 0.62
ACGTcount: A:0.13, C:0.06, G:0.10, T:0.71
Consensus pattern (16 bp):
TTTTGTTTTATCTTAT
Found at i:10689428 original size:21 final size:20
Alignment explanation
Indices: 10689412--10689466 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 20
10689402 GATAAAGAAG
10689412 AGAGAGAAGAA-AATAAAAAAA
1 AGAGAGAAGAAGAAT--AAAAA
*
10689433 AAAGAGAA-AAGAATAAAAA
1 AGAGAGAAGAAGAATAAAAA
*
10689452 AGATAGAAGATAGAA
1 AGAGAGAAGA-AGAA
10689467 GAATTTGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 11 0.39
20 3 0.11
21 14 0.50
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.07
Consensus pattern (20 bp):
AGAGAGAAGAAGAATAAAAA
Found at i:10689466 original size:26 final size:26
Alignment explanation
Indices: 10689409--10689511 Score: 65
Period size: 26 Copynumber: 4.0 Consensus size: 26
10689399 AGAGATAAAG
* *
10689409 AAGAGAGAGAAGAA-AATAAAA-AAAA
1 AAGATAGAAAAGAATAA-AAAAGAAAA
* *
10689434 AAG--AGAAAAGAATAAAAAAGATAG
1 AAGATAGAAAAGAATAAAAAAGAAAA
*
10689458 AAGATAG--AAGAATTTGAAAAAGAAAA
1 AAGATAGAAAAGAA--TAAAAAAGAAAA
*
10689484 AAGATAGAAAAGAAAAAAGAAAAGAAAA
1 AAGATAGAAAAG-AATAA-AAAAGAAAA
10689512 TAATAGAGAA
Statistics
Matches: 60, Mismatches: 8, Indels: 17
0.71 0.09 0.20
Matches are distributed among these distances:
23 12 0.20
24 12 0.20
25 3 0.05
26 18 0.30
27 1 0.02
28 12 0.20
29 2 0.03
ACGTcount: A:0.73, C:0.00, G:0.19, T:0.08
Consensus pattern (26 bp):
AAGATAGAAAAGAATAAAAAAGAAAA
Found at i:10689484 original size:7 final size:7
Alignment explanation
Indices: 10689474--10689620 Score: 93
Period size: 7 Copynumber: 19.3 Consensus size: 7
10689464 GAAGAATTTG
10689474 AAAAAGA
1 AAAAAGA
10689481 AAAAAGA
1 AAAAAGA
10689488 TAGAAAAGA
1 -A-AAAAGA
10689497 AAAAAGA
1 AAAAAGA
10689504 AAAGAA-A
1 AAA-AAGA
10689511 ATAATAGAGA
1 A-AA-A-AGA
10689521 AAAAAGA
1 AAAAAGA
10689528 AAAAA-A
1 AAAAAGA
*
10689534 AGAGAAGA
1 A-AAAAGA
*
10689542 GAAAAAGG
1 -AAAAAGA
*
10689550 AAAAAGG
1 AAAAAGA
10689557 AAAAAGAA
1 AAAAAG-A
*
10689565 AAAAATAA
1 AAAAA-GA
10689573 AAAAAGA
1 AAAAAGA
10689580 AAAGAAGA
1 AAA-AAGA
*
10689588 GAAGAGAAGG
1 -AA-A-AAGA
10689598 AAAAAG-
1 AAAAAGA
10689604 AAAAAGA
1 AAAAAGA
10689611 AAAGAAGA
1 AAA-AAGA
10689619 AA
1 AA
10689621 GAGAACAAAT
Statistics
Matches: 116, Mismatches: 8, Indels: 31
0.75 0.05 0.20
Matches are distributed among these distances:
6 8 0.07
7 52 0.45
8 35 0.30
9 14 0.12
10 7 0.06
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.03
Consensus pattern (7 bp):
AAAAAGA
Found at i:10689497 original size:5 final size:5
Alignment explanation
Indices: 10689475--10689616 Score: 60
Period size: 5 Copynumber: 27.4 Consensus size: 5
10689465 AAGAATTTGA
* * *
10689475 AAAAG AAAA- AAGATAG AAAAG AAAAAAG AAAAG AAAAT AATAG AGAA-
1 AAAAG AAAAG AA-A-AG AAAAG --AAAAG AAAAG AAAAG AAAAG AAAAG
* * * *
10689522 AAAAG AAAA- AAAAG AGAAG AGAA- AAAGG AAAAAGG AAAAAG AAAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG -AAAA-G -AAAAG AAAAG
* * * *
10689568 AATAAA AAAAG AAAAG AAGAG AAGAG -AAGG AAAAAG AAAAAG AAAAG
1 AA-AAG AAAAG AAAAG AAAAG AAAAG AAAAG -AAAAG -AAAAG AAAAG
10689615 AA
1 AA
10689617 GAAAGAGAAC
Statistics
Matches: 108, Mismatches: 16, Indels: 26
0.72 0.11 0.17
Matches are distributed among these distances:
4 13 0.12
5 62 0.57
6 20 0.19
7 13 0.12
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.03
Consensus pattern (5 bp):
AAAAG
Found at i:10689521 original size:24 final size:23
Alignment explanation
Indices: 10689474--10689618 Score: 96
Period size: 23 Copynumber: 5.9 Consensus size: 23
10689464 GAAGAATTTG
* * *
10689474 AAAAAGAAAAAAGATAGAAAAGA
1 AAAAAGAAAAAAAAGAGAAGAGA
*
10689497 AAAAAGAAAAGAAAATA-ATAGAGA
1 AAAAAGAAAA-AAAAGAGA-AGAGA
10689521 AAAAAGAAAAAAAAGAGAAGAGA
1 AAAAAGAAAAAAAAGAGAAGAGA
* * * *
10689544 AAAAGGAAAAAGGAAAAAGAAAAAA
1 AAAAAGAAAAA--AAAGAGAAGAGA
*
10689569 ATAAAAAAAGAAAAGAAGAGAAGAGAA
1 A-AAAAGAA-AAAA-AAGAGAAGAG-A
10689596 GGAAAAAGAAAAAGAAA-AGAAGA
1 --AAAAAGAAAAA-AAAGAGAAGA
10689619 AAGAGAACAA
Statistics
Matches: 97, Mismatches: 13, Indels: 21
0.74 0.10 0.16
Matches are distributed among these distances:
23 31 0.32
24 20 0.21
25 11 0.11
26 18 0.19
27 9 0.09
28 7 0.07
29 1 0.01
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.03
Consensus pattern (23 bp):
AAAAAGAAAAAAAAGAGAAGAGA
Found at i:10689553 original size:30 final size:33
Alignment explanation
Indices: 10689496--10689574 Score: 85
Period size: 30 Copynumber: 2.5 Consensus size: 33
10689486 GATAGAAAAG
10689496 AAAAAAGAAAAGAAAATAATAGAGAAAAAAGAA
1 AAAAAAGAAAAGAAAATAATAGAGAAAAAAGAA
* * *
10689529 AAAAAAGAGAAGAGAA-AA-AG-GAAAAAGGAA
1 AAAAAAGAAAAGAAAATAATAGAGAAAAAAGAA
*
10689559 AAAGAAA-AAAATAAAA
1 AAA-AAAGAAAAGAAAA
10689575 AAAGAAAAGA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
30 18 0.46
31 5 0.13
32 2 0.05
33 14 0.36
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.04
Consensus pattern (33 bp):
AAAAAAGAAAAGAAAATAATAGAGAAAAAAGAA
Found at i:10689559 original size:14 final size:13
Alignment explanation
Indices: 10689518--10689620 Score: 50
Period size: 13 Copynumber: 7.4 Consensus size: 13
10689508 AAAATAATAG
*
10689518 AGAAAAAAGAAAA
1 AGAAAAAGGAAAA
*
10689531 AAAAGAGAAGAGAAAA
1 AGAA-A-AAG-GAAAA
10689547 AGGAAAAAGGAAAA
1 A-GAAAAAGGAAAA
*
10689561 AGAAAAA--AATA
1 AGAAAAAGGAAAA
*
10689572 A-AAAAAGAAAAGAA
1 AGAAAAAG-GAA-AA
10689586 GAGAAGAGAAGGAAAA
1 -AGAA-A-AAGGAAAA
*
10689602 AGAAAAAGAAAAGA
1 AGAAAAAGGAAA-A
10689616 AGAAA
1 AGAAA
10689621 GAGAACAAAT
Statistics
Matches: 70, Mismatches: 7, Indels: 25
0.69 0.07 0.25
Matches are distributed among these distances:
10 5 0.07
11 4 0.06
13 17 0.24
14 15 0.21
15 10 0.14
16 11 0.16
17 5 0.07
18 3 0.04
ACGTcount: A:0.77, C:0.00, G:0.22, T:0.01
Consensus pattern (13 bp):
AGAAAAAGGAAAA
Found at i:10689561 original size:36 final size:40
Alignment explanation
Indices: 10689521--10689618 Score: 116
Period size: 41 Copynumber: 2.5 Consensus size: 40
10689511 ATAATAGAGA
10689521 AAAAAGAAAAAAAAGAGAAGAG-AAA-AAG-GAA-A-AAGG
1 AAAAAGAAAAAAAA-AGAAGAGAAAAGAAGAGAAGAGAAGG
* *
10689557 AAAAAGAAAAAAATAAAAAAAGAAAAGAAGAGAAGAGAAGG
1 AAAAAGAAAAAAA-AAGAAGAGAAAAGAAGAGAAGAGAAGG
10689598 AAAAAGAAAAAGAAAAGAAGA
1 AAAAAGAAAAA-AAAAGAAGA
10689619 AAGAGAACAA
Statistics
Matches: 51, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
36 18 0.35
37 4 0.08
38 3 0.06
39 3 0.06
40 1 0.02
41 20 0.39
42 2 0.04
ACGTcount: A:0.77, C:0.00, G:0.22, T:0.01
Consensus pattern (40 bp):
AAAAAGAAAAAAAAAGAAGAGAAAAGAAGAGAAGAGAAGG
Found at i:10689577 original size:30 final size:29
Alignment explanation
Indices: 10689475--10689582 Score: 80
Period size: 30 Copynumber: 3.7 Consensus size: 29
10689465 AAGAATTTGA
* *
10689475 AAAAGAAAAAAGATA-G-AAAAGAAAAAAG
1 AAAAGAAAAAA-AAAGGAAAAAGGAAAAAG
* * *
10689503 AAAAGAAAATAATAGAGAAAAAAGAAAAA-
1 AAAAGAAAAAAAAAG-GAAAAAGGAAAAAG
*
10689532 AAAGAGAAGAGAAAAAGGAAAAAGGAAAAAG
1 AAA-AGAA-AAAAAAAGGAAAAAGGAAAAAG
*
10689563 AAAA-AAATAAAAAAAGAAAA
1 AAAAGAAA-AAAAAAGGAAAA
10689583 GAAGAGAAGA
Statistics
Matches: 64, Mismatches: 9, Indels: 13
0.74 0.10 0.15
Matches are distributed among these distances:
27 3 0.05
28 11 0.17
29 16 0.25
30 26 0.41
31 8 0.12
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.04
Consensus pattern (29 bp):
AAAAGAAAAAAAAAGGAAAAAGGAAAAAG
Found at i:10689577 original size:76 final size:77
Alignment explanation
Indices: 10689473--10689618 Score: 190
Period size: 76 Copynumber: 1.9 Consensus size: 77
10689463 AGAAGAATTT
* * * *
10689473 GAAAAAGAAAAAAGATAGAAAAGAAAAAAGAAAAGAAAATAATAG-AGAAAAAAGAAAAA-AAAG
1 GAAAAAGAAAAAAGATAAAAAAAAAAAAAGAAAAGAAAAGAAGAGAAGAAAAAAGAAAAAGAAA-
10689536 AGAAGAGAAAAAG
65 AGAAGAGAAAAAG
* * *
10689549 GAAAAAGGAAAAAGA-AAAAAATAAAAAAAGAAAAGAAGAGAAGAGAAGGAAAAAGAAAAAGAAA
1 GAAAAAGAAAAAAGATAAAAAA-AAAAAAAGAAAAGAAAAGAAGAGAAGAAAAAAGAAAAAGAAA
10689613 AGAAGA
65 AGAAGA
10689619 AAGAGAACAA
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
75 5 0.08
76 33 0.55
77 19 0.32
78 3 0.05
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (77 bp):
GAAAAAGAAAAAAGATAAAAAAAAAAAAAGAAAAGAAAAGAAGAGAAGAAAAAAGAAAAAGAAAA
GAAGAGAAAAAG
Found at i:10692067 original size:13 final size:13
Alignment explanation
Indices: 10692049--10692096 Score: 55
Period size: 15 Copynumber: 3.6 Consensus size: 13
10692039 ATATCATTTT
10692049 TTATTTTTTAAAA
1 TTATTTTTTAAAA
10692062 TTATTTTTCTTAAAA
1 TTA-TTTT-TTAAAA
10692077 TTA--TTTTAAAA
1 TTATTTTTTAAAA
10692088 TGTATTTTT
1 T-TATTTTT
10692097 AAGTATTCGA
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
11 7 0.23
12 4 0.13
13 3 0.10
14 7 0.23
15 9 0.30
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (13 bp):
TTATTTTTTAAAA
Found at i:10694060 original size:14 final size:15
Alignment explanation
Indices: 10694025--10694062 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
10694015 GGAAATGAAG
10694025 AAAGAAAGGTAGAAT
1 AAAGAAAGGTAGAAT
10694040 AAAGAAATGG-AGAAT
1 AAAGAAA-GGTAGAAT
10694055 -AAGAAAGG
1 AAAGAAAGG
10694063 ATCGGGTAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 2 0.09
14 6 0.27
15 12 0.55
16 2 0.09
ACGTcount: A:0.61, C:0.00, G:0.29, T:0.11
Consensus pattern (15 bp):
AAAGAAAGGTAGAAT
Found at i:10694110 original size:21 final size:21
Alignment explanation
Indices: 10694080--10694119 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
10694070 AACTGGTAAT
*
10694080 TATTAGTTTGTTAGTTTAAAA
1 TATTAATTTGTTAGTTTAAAA
*
10694101 TATTAATTTGTTTGTTTAA
1 TATTAATTTGTTAGTTTAA
10694120 GTTATATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.57
Consensus pattern (21 bp):
TATTAATTTGTTAGTTTAAAA
Found at i:10694131 original size:28 final size:28
Alignment explanation
Indices: 10694100--10694159 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
10694090 TTAGTTTAAA
* *
10694100 ATATTAATTTGTTTGTTTAAGTTATATT
1 ATATTAATTTGTTAGTTTAAATTATATT
*
10694128 ATATTAGTTTGTTAGTTTAAATTATATT
1 ATATTAATTTGTTAGTTTAAATTATATT
10694156 ATAT
1 ATAT
10694160 ATAAAAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.32, C:0.00, G:0.10, T:0.58
Consensus pattern (28 bp):
ATATTAATTTGTTAGTTTAAATTATATT
Found at i:10694219 original size:43 final size:45
Alignment explanation
Indices: 10694130--10694234 Score: 178
Period size: 45 Copynumber: 2.4 Consensus size: 45
10694120 GTTATATTAT
10694130 ATTAGTTTGTTAGTTTAAATTATATTATATATAAAAAATTAGTTA
1 ATTAGTTTGTTAGTTTAAATTATATTATATATAAAAAATTAGTTA
* *
10694175 ATTAGTTTGTTAGTTTAAGTTATATTATATA-AAAAAA-TATTTA
1 ATTAGTTTGTTAGTTTAAATTATATTATATATAAAAAATTAGTTA
10694218 ATTAGTTTGTTAGTTTA
1 ATTAGTTTGTTAGTTTA
10694235 TTAGTTTAAG
Statistics
Matches: 58, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
43 22 0.38
44 6 0.10
45 30 0.52
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.50
Consensus pattern (45 bp):
ATTAGTTTGTTAGTTTAAATTATATTATATATAAAAAATTAGTTA
Found at i:10694254 original size:23 final size:23
Alignment explanation
Indices: 10694227--10694275 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
10694217 AATTAGTTTG
*
10694227 TTAGTTTATTAGTTTAAGTTATA
1 TTAGTTTATTAGTTCAAGTTATA
* *
10694250 TTAGTTTGTTTGTTCAAGTTATA
1 TTAGTTTATTAGTTCAAGTTATA
10694273 TTA
1 TTA
10694276 TATGAAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.27, C:0.02, G:0.14, T:0.57
Consensus pattern (23 bp):
TTAGTTTATTAGTTCAAGTTATA
Found at i:10694276 original size:74 final size:73
Alignment explanation
Indices: 10694170--10694307 Score: 222
Period size: 74 Copynumber: 1.9 Consensus size: 73
10694160 ATAAAAAATT
* *
10694170 AGTTAATTAGTTTGTTAGTTTAAGTTATATTATATAAAAAAATATTTAATTAGTTTGTTAGTTTA
1 AGTTAATTAGTTTGTTAGTTCAAGTTATATTATATAAAAAAATAGTTAATTAGTTTGTTAGTTTA
10694235 TTAGTTTA
66 TTAGTTTA
* * *
10694243 AGTTATATTAGTTTGTTTGTTCAAGTTATATTATATGAAAAATTAGTTAATTAGTTTGTTAGTTT
1 AGTTA-ATTAGTTTGTTAGTTCAAGTTATATTATATAAAAAAATAGTTAATTAGTTTGTTAGTTT
10694308 GCTACTCCGT
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
73 5 0.08
74 54 0.92
ACGTcount: A:0.33, C:0.01, G:0.14, T:0.52
Consensus pattern (73 bp):
AGTTAATTAGTTTGTTAGTTCAAGTTATATTATATAAAAAAATAGTTAATTAGTTTGTTAGTTTA
TTAGTTTA
Found at i:10698900 original size:60 final size:60
Alignment explanation
Indices: 10698805--10698922 Score: 166
Period size: 60 Copynumber: 2.0 Consensus size: 60
10698795 CTTAAATGTT
* * * *
10698805 TCTCAACCCAATTCACCTTTTCTTTGCGGATACCATCTAATTTGTGGAGGTGATCATGCC
1 TCTCAACCCAATTCACCTTTGCTTTGCGGAGACCATCTAATTTATGGAAGTGATCATGCC
* *
10698865 TCTCAACCCAATTCACCTTTGC-TTGACGGCGACCATCTAATTTATGGAAGTGGTCATG
1 TCTCAACCCAATTCACCTTTGCTTTG-CGGAGACCATCTAATTTATGGAAGTGATCATG
10698923 ATCCCATGGA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
59 3 0.06
60 48 0.94
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.33
Consensus pattern (60 bp):
TCTCAACCCAATTCACCTTTGCTTTGCGGAGACCATCTAATTTATGGAAGTGATCATGCC
Found at i:10700599 original size:10 final size:10
Alignment explanation
Indices: 10700579--10700607 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
10700569 GACATACATA
10700579 TAATA-AATT
1 TAATATAATT
10700588 TAATATAATT
1 TAATATAATT
10700598 TAATATAATT
1 TAATATAATT
10700608 CAACAAACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 5 0.26
10 14 0.74
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (10 bp):
TAATATAATT
Found at i:10700738 original size:48 final size:49
Alignment explanation
Indices: 10700634--10700745 Score: 165
Period size: 48 Copynumber: 2.3 Consensus size: 49
10700624 TATAATTTAT
* * * *
10700634 AACTAACAAACTAATTAAGTACTTTTTTATTTATATATAATATAACTTA
1 AACTAACAAACTAATTAACTAATTTTTTATGTATATATAATATAACATA
10700683 AACTAACAAACTAATTAACTAAATTTTTT-TGT-TATATAATATAACATA
1 AACTAACAAACTAATTAACT-AATTTTTTATGTATATATAATATAACATA
10700731 AACTAACAAACTAAT
1 AACTAACAAACTAAT
10700746 ATTTAAACTA
Statistics
Matches: 58, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
48 30 0.52
49 21 0.36
50 7 0.12
ACGTcount: A:0.48, C:0.12, G:0.02, T:0.38
Consensus pattern (49 bp):
AACTAACAAACTAATTAACTAATTTTTTATGTATATATAATATAACATA
Found at i:10700782 original size:19 final size:18
Alignment explanation
Indices: 10700729--10700771 Score: 59
Period size: 20 Copynumber: 2.3 Consensus size: 18
10700719 TAATATAACA
*
10700729 TAAACTAACAAACTAATATT
1 TAAACTAACAAA-TTA-ATT
10700749 TAAACTAACAAATTAATT
1 TAAACTAACAAATTAATT
10700767 TAAAC
1 TAAAC
10700772 ATTAAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.36
19 2 0.09
20 12 0.55
ACGTcount: A:0.56, C:0.14, G:0.00, T:0.30
Consensus pattern (18 bp):
TAAACTAACAAATTAATT
Found at i:10700835 original size:11 final size:11
Alignment explanation
Indices: 10700819--10700890 Score: 53
Period size: 11 Copynumber: 6.8 Consensus size: 11
10700809 TCTCACTTTC
10700819 TTCTTCTTCCT
1 TTCTTCTTCCT
10700830 TTCTTCTTCCT
1 TTCTTCTTCCT
*
10700841 TTC--CTTTCT
1 TTCTTCTTCCT
**
10700850 TTCTTCCCCCT
1 TTCTTCTTCCT
*
10700861 TTC--CTTTCT
1 TTCTTCTTCCT
*
10700870 TTCTTCTCCCT
1 TTCTTCTTCCT
*
10700881 GTCTTTCTTC
1 TTC-TTCTTC
10700891 TACCTTTCTT
Statistics
Matches: 45, Mismatches: 11, Indels: 9
0.69 0.17 0.14
Matches are distributed among these distances:
9 14 0.31
11 26 0.58
12 5 0.11
ACGTcount: A:0.00, C:0.39, G:0.01, T:0.60
Consensus pattern (11 bp):
TTCTTCTTCCT
Found at i:10700853 original size:20 final size:20
Alignment explanation
Indices: 10700828--10700889 Score: 90
Period size: 20 Copynumber: 3.1 Consensus size: 20
10700818 CTTCTTCTTC
*
10700828 CTTTCTTCTTCCTTTCCTTT
1 CTTTCTTCTCCCTTTCCTTT
*
10700848 CTTTCTTCCCCCTTTCCTTT
1 CTTTCTTCTCCCTTTCCTTT
*
10700868 CTTTCTTCTCCCTGT-CTTT
1 CTTTCTTCTCCCTTTCCTTT
10700887 CTT
1 CTT
10700890 CTACCTTTCT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
19 7 0.18
20 31 0.82
ACGTcount: A:0.00, C:0.39, G:0.02, T:0.60
Consensus pattern (20 bp):
CTTTCTTCTCCCTTTCCTTT
Found at i:10700863 original size:15 final size:15
Alignment explanation
Indices: 10700843--10700905 Score: 54
Period size: 15 Copynumber: 3.9 Consensus size: 15
10700833 TTCTTCCTTT
10700843 CCTTTCTTTCTTCCC
1 CCTTTCTTTCTTCCC
10700858 CCTTTCCTTTCTTTCTTCTC
1 CCTTT-CTTTC-TTC--C-C
* **
10700878 CCTGTCTTTCTTCTA
1 CCTTTCTTTCTTCCC
10700893 CCTTTCTTTCTTC
1 CCTTTCTTTCTTC
10700906 TTACAACCGT
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
15 17 0.44
16 5 0.13
17 3 0.08
18 3 0.08
19 6 0.15
20 5 0.13
ACGTcount: A:0.02, C:0.40, G:0.02, T:0.57
Consensus pattern (15 bp):
CCTTTCTTTCTTCCC
Found at i:10700906 original size:15 final size:15
Alignment explanation
Indices: 10700863--10700906 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
10700853 TTCCCCCTTT
*
10700863 CCTTTCTTTCTTCTC
1 CCTTTCTTTCTTCTA
*
10700878 CCTGTCTTTCTTCTA
1 CCTTTCTTTCTTCTA
10700893 CCTTTCTTTCTTCT
1 CCTTTCTTTCTTCT
10700907 TACAACCGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.02, C:0.36, G:0.02, T:0.59
Consensus pattern (15 bp):
CCTTTCTTTCTTCTA
Found at i:10701261 original size:30 final size:30
Alignment explanation
Indices: 10701219--10701321 Score: 134
Period size: 30 Copynumber: 3.4 Consensus size: 30
10701209 CGCTGCAAGC
*
10701219 ACTTGGCAACCAATGAAGGTCGTTCGGAGG
1 ACTTGGCGACCAATGAAGGTCGTTCGGAGG
* * *
10701249 ACTTTGCGACCAATAAAGGTCGTTCAGAGG
1 ACTTGGCGACCAATGAAGGTCGTTCGGAGG
* **
10701279 ACTTGGCGACCTATGGTGGTCGTTCGGAGG
1 ACTTGGCGACCAATGAAGGTCGTTCGGAGG
*
10701309 ACCTGGCGACCAA
1 ACTTGGCGACCAA
10701322 GAATAAACTG
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 61 1.00
ACGTcount: A:0.24, C:0.22, G:0.32, T:0.21
Consensus pattern (30 bp):
ACTTGGCGACCAATGAAGGTCGTTCGGAGG
Done.