Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007923.1 Hibiscus syriacus cultivar Beakdansim tig00110328_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: 8415618
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 29 of 40
Found at i:6021133 original size:31 final size:31
Alignment explanation
Indices: 6021013--6021137 Score: 164
Period size: 31 Copynumber: 4.0 Consensus size: 31
6021003 AGGGTCGAGG
* *
6021013 GTTTACCTATGTTCTTCGGGACATATTGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
*
6021044 GTTTACCTATATTCTTC-GAGACATATGGACT
1 GTTTACCTATGTTCTTCGGA-ACATATGGACT
*
6021075 GTTTACCTATGTTCTTCGGTACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
* *
6021106 GTTTACCTAGGTTCTTCAGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGAA-CATATGGACT
6021137 G
1 G
6021138 GTCCTTCGAG
Statistics
Matches: 83, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
30 1 0.01
31 80 0.96
32 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.40
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGAACATATGGACT
Found at i:6023389 original size:29 final size:30
Alignment explanation
Indices: 6023355--6023436 Score: 103
Period size: 30 Copynumber: 2.8 Consensus size: 30
6023345 CCCGAAGGAC
6023355 CTATCCAGAGGTCACAAAG-ACCCCGACAA
1 CTATCCAGAGGTCACAAAGAACCCCGACAA
* *
6023384 CTATCCAGAGGTCATAAAGAACCTCGACAA
1 CTATCCAGAGGTCACAAAGAACCCCGACAA
* * * *
6023414 CTGTCCATAGGTCCCGAAGAACC
1 CTATCCAGAGGTCACAAAGAACC
6023437 TAGGTAAATT
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
29 18 0.40
30 27 0.60
ACGTcount: A:0.35, C:0.32, G:0.18, T:0.15
Consensus pattern (30 bp):
CTATCCAGAGGTCACAAAGAACCCCGACAA
Found at i:6023472 original size:31 final size:31
Alignment explanation
Indices: 6023415--6023473 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
6023405 CCTCGACAAC
*
6023415 TGTCCATAGGTCCCGAAGAACCTAGGTAAAT
1 TGTCCATAGGTCCCGAAGAACATAGGTAAAT
* *
6023446 TGTCCATATGTCTCGAA-AGACATAGGTA
1 TGTCCATAGGTCCCGAAGA-ACATAGGTA
6023474 CCCTCGACTC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 1 0.04
31 23 0.96
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.25
Consensus pattern (31 bp):
TGTCCATAGGTCCCGAAGAACATAGGTAAAT
Found at i:6023934 original size:14 final size:15
Alignment explanation
Indices: 6023906--6023934 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6023896 CACATATACC
6023906 CATAACTTCATATCA
1 CATAACTTCATATCA
6023921 CATAACTT-ATATCA
1 CATAACTTCATATCA
6023935 ATTCCTATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.41, C:0.24, G:0.00, T:0.34
Consensus pattern (15 bp):
CATAACTTCATATCA
Found at i:6024703 original size:20 final size:20
Alignment explanation
Indices: 6024678--6024715 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
6024668 TTCCCCATGA
6024678 AGTGCATCGATGCATTCTAC
1 AGTGCATCGATGCATTCTAC
6024698 AGTGCATCGATGCATTCT
1 AGTGCATCGATGCATTCT
6024716 TTAACATATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.32
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:6024732 original size:24 final size:20
Alignment explanation
Indices: 6024680--6024735 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 20
6024670 CCCCATGAAG
*
6024680 TGCATCGATGCATTCTACAG
1 TGCATCGATGCATTCTACAA
6024700 TGCATCGATGCATTCTTTAACATA
1 TGCATCGATGCATTC--T-ACA-A
6024724 TGCATCGATGCA
1 TGCATCGATGCA
6024736 CTACTCATGC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 15 0.48
22 1 0.03
23 3 0.10
24 12 0.39
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (20 bp):
TGCATCGATGCATTCTACAA
Found at i:6024835 original size:64 final size:65
Alignment explanation
Indices: 6024723--6024845 Score: 142
Period size: 64 Copynumber: 1.9 Consensus size: 65
6024713 TCTTTAACAT
* ** *
6024723 ATGCATCGATGCACTACTCATGCATCGATACATAATTTACCTTTGATGTT-TTTATTTTAAGGGG
1 ATGCATCGATGCACTACTCATGCATCGATACACAATTTACAATCGATGTTATTTATTTTAAGGGG
* * * *
6024787 ATGCATCGATGCACTCCTTATGCATCGATGCACCAA-TTGCAATCGATGTTCATTTATTT
1 ATGCATCGATGCACTACTCATGCATCGATACA-CAATTTACAATCGATGTT-ATTTATTT
6024846 GAGAGTGCAT
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
64 39 0.81
65 2 0.04
66 7 0.15
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.37
Consensus pattern (65 bp):
ATGCATCGATGCACTACTCATGCATCGATACACAATTTACAATCGATGTTATTTATTTTAAGGGG
Found at i:6027409 original size:21 final size:21
Alignment explanation
Indices: 6027385--6027456 Score: 81
Period size: 21 Copynumber: 3.3 Consensus size: 21
6027375 GCGGTTCTTC
6027385 GGGACATATACGTGGTCCTTT
1 GGGACATATACGTGGTCCTTT
* * *
6027406 GGGATAATTCTACGTGGTCTTTT
1 GGGA-CA-TATACGTGGTCCTTT
*
6027429 GGGACATATATGTGGTCCTTT
1 GGGACATATACGTGGTCCTTT
*
6027450 AGGACAT
1 GGGACAT
6027457 CCTATATTGC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
21 22 0.54
22 2 0.05
23 17 0.41
ACGTcount: A:0.21, C:0.15, G:0.28, T:0.36
Consensus pattern (21 bp):
GGGACATATACGTGGTCCTTT
Found at i:6038163 original size:29 final size:29
Alignment explanation
Indices: 6038108--6038175 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
6038098 CAACAATTCA
* *
6038108 CAACTTTTCCAAAATTGTTAAATTGGTCCC
1 CAACTTTT-CAAAATTGTCAAAATGGTCCC
*
6038138 TAACTTTTCAAAATT-TACAAAATGGTCCC
1 CAACTTTTCAAAATTGT-CAAAATGGTCCC
*
6038167 CAAATTTTC
1 CAACTTTTC
6038176 TAAGCCTTGT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
28 1 0.03
29 24 0.75
30 7 0.22
ACGTcount: A:0.34, C:0.22, G:0.07, T:0.37
Consensus pattern (29 bp):
CAACTTTTCAAAATTGTCAAAATGGTCCC
Found at i:6039319 original size:31 final size:31
Alignment explanation
Indices: 6039283--6039361 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
6039273 AAATTACCAT
* * *
6039283 TTTGGTCTCTAAACTTTTTCAAAGTTTATAC
1 TTTGGTCACTTAACTTTTCCAAAGTTTATAC
6039314 TTTGGTCACTTAACTTTTCCAAAGTTTATAC
1 TTTGGTCACTTAACTTTTCCAAAGTTTATAC
6039345 TTTGGTCACTTAACTTT
1 TTTGGTCACTTAACTTT
6039362 AAAAACTTGT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.24, C:0.18, G:0.10, T:0.48
Consensus pattern (31 bp):
TTTGGTCACTTAACTTTTCCAAAGTTTATAC
Found at i:6040918 original size:10 final size:9
Alignment explanation
Indices: 6040905--6040975 Score: 72
Period size: 10 Copynumber: 7.6 Consensus size: 9
6040895 ATCTCTCATC
6040905 TTTTTTTCT
1 TTTTTTTCT
6040914 CTTTTTTTCT
1 -TTTTTTTCT
6040924 TTTCTTTTCT
1 TTT-TTTTCT
**
6040934 TCCTTTTCT
1 TTTTTTTCT
6040943 TTTCTTTTCT
1 TTT-TTTTCT
6040953 TTTTTTT-T
1 TTTTTTTCT
*
6040961 TCTTTTTTGT
1 T-TTTTTTCT
6040971 TTTTT
1 TTTTT
6040976 GTTTTTTTAG
Statistics
Matches: 53, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
8 2 0.04
9 24 0.45
10 27 0.51
ACGTcount: A:0.00, C:0.15, G:0.01, T:0.83
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:6040928 original size:5 final size:5
Alignment explanation
Indices: 6040908--6040966 Score: 68
Period size: 5 Copynumber: 11.8 Consensus size: 5
6040898 TCTCATCTTT
* *
6040908 TTTTC TCTTT- TTTTC TTTTC TTTTC -TTCC TTTTC TTTTC TTTTC TTTTTT
1 TTTTC T-TTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC -TTTTC
6040958 TTTTC TTTT
1 TTTTC TTTT
6040967 TTGTTTTTTG
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
4 6 0.13
5 33 0.72
6 7 0.15
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTC
Found at i:6040942 original size:19 final size:17
Alignment explanation
Indices: 6040903--6040966 Score: 78
Period size: 19 Copynumber: 3.6 Consensus size: 17
6040893 GCATCTCTCA
6040903 TCTTTT-TTTCTCTTTTTT
1 TCTTTTCTTT-TC-TTTTT
6040921 TCTTTTCTTTTCTTCCTTT
1 TCTTTTCTTTTCTT--TTT
6040940 TCTTTTCTTTTCTTTTT
1 TCTTTTCTTTTCTTTTT
6040957 T-TTTTCTTTT
1 TCTTTTCTTTT
6040967 TTGTTTTTTG
Statistics
Matches: 43, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
16 9 0.21
17 6 0.14
18 8 0.19
19 20 0.47
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (17 bp):
TCTTTTCTTTTCTTTTT
Found at i:6040980 original size:14 final size:13
Alignment explanation
Indices: 6040915--6040983 Score: 61
Period size: 14 Copynumber: 5.2 Consensus size: 13
6040905 TTTTTTTCTC
6040915 TTTTTTTCTTTTCT
1 TTTTTTTCTTTT-T
* *
6040929 TTTCTTCCTTTTCT
1 TTTTTTTCTTTT-T
6040943 TTTCTTTTC--TTT
1 TTT-TTTTCTTTTT
6040955 TTTTTTTCTTTTT
1 TTTTTTTCTTTTT
*
6040968 TGTTTTTTGTTTTT
1 T-TTTTTTCTTTTT
6040982 TT
1 TT
6040984 AGCTCTTATG
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
11 5 0.11
12 4 0.09
13 7 0.15
14 27 0.59
15 3 0.07
ACGTcount: A:0.00, C:0.13, G:0.03, T:0.84
Consensus pattern (13 bp):
TTTTTTTCTTTTT
Found at i:6041946 original size:24 final size:24
Alignment explanation
Indices: 6041918--6041965 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
6041908 ATTAACCCAA
6041918 CCTTAATGCAGAGACAACCAACTC
1 CCTTAATGCAGAGACAACCAACTC
6041942 CCTTAATGCAGAGACAACCAACTC
1 CCTTAATGCAGAGACAACCAACTC
6041966 ATGATCAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.33, G:0.12, T:0.17
Consensus pattern (24 bp):
CCTTAATGCAGAGACAACCAACTC
Found at i:6045298 original size:30 final size:30
Alignment explanation
Indices: 6045241--6045312 Score: 94
Period size: 30 Copynumber: 2.4 Consensus size: 30
6045231 CAACCATTCA
*
6045241 CAACTTTTCTAAAATTATCAAATTGGTCCCC
1 CAACTTTTCTAAAATTATCAAAATGGT-CCC
6045272 CAACTTTTC-AAAATTTAT-AAAATGGTCCC
1 CAACTTTTCTAAAA-TTATCAAAATGGTCCC
*
6045301 CAAATTTTCTAA
1 CAACTTTTCTAA
6045313 GCCTTGTAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
29 11 0.30
30 13 0.35
31 13 0.35
ACGTcount: A:0.36, C:0.22, G:0.06, T:0.36
Consensus pattern (30 bp):
CAACTTTTCTAAAATTATCAAAATGGTCCC
Found at i:6046440 original size:31 final size:31
Alignment explanation
Indices: 6046405--6046502 Score: 169
Period size: 31 Copynumber: 3.2 Consensus size: 31
6046395 TTAGTCCCTA
6046405 AACTTTTCTAATGTTTATACTTTGGTCACTT
1 AACTTTTCTAATGTTTATACTTTGGTCACTT
*
6046436 AACTTTTCTATTGTTTATACTTTGGTCACTT
1 AACTTTTCTAATGTTTATACTTTGGTCACTT
* *
6046467 AACTTTTCCAAAGTTTATACTTTGGTCACTT
1 AACTTTTCTAATGTTTATACTTTGGTCACTT
6046498 AACTT
1 AACTT
6046503 ATAAAGATTT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.23, C:0.17, G:0.09, T:0.50
Consensus pattern (31 bp):
AACTTTTCTAATGTTTATACTTTGGTCACTT
Found at i:6046523 original size:30 final size:30
Alignment explanation
Indices: 6046417--6046523 Score: 126
Period size: 31 Copynumber: 3.5 Consensus size: 30
6046407 CTTTTCTAAT
* **
6046417 GTTTATACTTTGGTCACTTAACTTTTCTATT
1 GTTTATACTTTGGTCACTTAACTTATC-AAA
*
6046448 GTTTATACTTTGGTCACTTAACTTTTCCAAA
1 GTTTATACTTTGGTCACTTAACTTAT-CAAA
6046479 GTTTATACTTTGGTCACTTAACTTAT-AAA
1 GTTTATACTTTGGTCACTTAACTTATCAAA
* *
6046508 GATTTGTATTTTGGTC
1 G-TTTATACTTTGGTC
6046524 TCTAACCAAA
Statistics
Matches: 69, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
29 4 0.06
30 12 0.17
31 52 0.75
32 1 0.01
ACGTcount: A:0.23, C:0.15, G:0.12, T:0.50
Consensus pattern (30 bp):
GTTTATACTTTGGTCACTTAACTTATCAAA
Found at i:6047631 original size:23 final size:22
Alignment explanation
Indices: 6047605--6047652 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
6047595 AAAAGAAAGT
*
6047605 AGACAACAAGCGTGCAAAACTCC
1 AGACAA-AAGCATGCAAAACTCC
* *
6047628 AGACAAAAGTATGCAAAACTGC
1 AGACAAAAGCATGCAAAACTCC
6047650 AGA
1 AGA
6047653 ATCTATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.48, C:0.23, G:0.19, T:0.10
Consensus pattern (22 bp):
AGACAAAAGCATGCAAAACTCC
Found at i:6049282 original size:23 final size:23
Alignment explanation
Indices: 6049255--6049321 Score: 73
Period size: 23 Copynumber: 2.9 Consensus size: 23
6049245 CACCACAGCT
6049255 CGTATAAATGCACTGAAGTGCCA
1 CGTATAAATGCACTGAAGTGCCA
* * *
6049278 CGTATAATTGCACCT-AAGTGTCG
1 CGTATAAATGCA-CTGAAGTGCCA
* *
6049301 CGTAGAAATGCACCGAAGTGC
1 CGTATAAATGCACTGAAGTGC
6049322 ATATAAGATG
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
22 1 0.03
23 32 0.91
24 2 0.06
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.22
Consensus pattern (23 bp):
CGTATAAATGCACTGAAGTGCCA
Found at i:6052231 original size:16 final size:15
Alignment explanation
Indices: 6052210--6052240 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
6052200 AATCCCTTTC
6052210 ATTTCTTTATTTCATT
1 ATTTCTTTA-TTCATT
6052226 ATTTCTTTATTCATT
1 ATTTCTTTATTCATT
6052241 CCCAATTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.19, C:0.13, G:0.00, T:0.68
Consensus pattern (15 bp):
ATTTCTTTATTCATT
Found at i:6054407 original size:23 final size:23
Alignment explanation
Indices: 6054373--6054441 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
6054363 CACCACAGCT
*
6054373 CGTATAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* * **
6054396 CGTAGAATTGCACCTAAGTGCTG
1 CGTAGAAATGCACCGAAGTGCCA
6054419 CGTAGAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
6054442 TATAAGATGT
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.32, C:0.25, G:0.25, T:0.19
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:6060800 original size:14 final size:14
Alignment explanation
Indices: 6060781--6060808 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6060771 TTAAAAGAAG
6060781 GGGGATGATGTGAA
1 GGGGATGATGTGAA
6060795 GGGGATGATGTGAA
1 GGGGATGATGTGAA
6060809 TCGATTCAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.50, T:0.21
Consensus pattern (14 bp):
GGGGATGATGTGAA
Found at i:6060967 original size:15 final size:14
Alignment explanation
Indices: 6060940--6060969 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
6060930 TATAACATAG
6060940 ATATATTCATCTAT
1 ATATATTCATCTAT
6060954 ATATATTACATCTAT
1 ATATATT-CATCTAT
6060969 A
1 A
6060970 GCTATGATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (14 bp):
ATATATTCATCTAT
Found at i:6061393 original size:17 final size:16
Alignment explanation
Indices: 6061373--6061417 Score: 67
Period size: 15 Copynumber: 2.9 Consensus size: 16
6061363 AATTGTACAT
6061373 TTTCTCGAAGAGGTGTA
1 TTTCTC-AAGAGGTGTA
6061390 TTTCT-AAGAGGTGTA
1 TTTCTCAAGAGGTGTA
6061405 TTTC-CAAGAGGTG
1 TTTCTCAAGAGGTG
6061418 ACTTTTCACA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 22 0.81
17 5 0.19
ACGTcount: A:0.24, C:0.11, G:0.29, T:0.36
Consensus pattern (16 bp):
TTTCTCAAGAGGTGTA
Found at i:6062647 original size:23 final size:23
Alignment explanation
Indices: 6062621--6062664 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
6062611 TTTGAGATAC
*
6062621 AACTTCATCACCATCATCCATTA
1 AACTTCAACACCATCATCCATTA
6062644 AACTTCAACACCATCATCCAT
1 AACTTCAACACCATCATCCAT
6062665 CTTCCATTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.36, C:0.36, G:0.00, T:0.27
Consensus pattern (23 bp):
AACTTCAACACCATCATCCATTA
Found at i:6062731 original size:460 final size:458
Alignment explanation
Indices: 6061709--6062634 Score: 1336
Period size: 460 Copynumber: 2.0 Consensus size: 458
6061699 AACCAACATG
* * * * *
6061709 TCACCATTCAGCCAAGGGAGATGTATCTTCATTCTAGCC-GAATCATCATGTCTCCTTTGAATAG
1 TCACCATTCAGCCAAGAGAGA--TATCTTCATACTA-CCTGAATCATCGTGTCTCATTTGAAGAG
** ** * ** * * *
6061773 TTAGCTGAGCCATCACCATGCCAAGGGACTTATTCTTTTAATTGAAGCATTATGTACAATCATGT
63 CCAGCCCAACCATCTTCATCCCAACGAACTTATTCTTTTAATTGAAGCATTATGTACAATCATGT
* *
6061838 ACTTAGCCGAATCATTAGGTGCCTATTCAGCCAAGCCATCTCATTTTCTATAAATTGAGAGGTTG
128 ACTTAGCCGAATCATTAGGTGCCTATTCAGCCAAGCCATCTCATTTCCTATAAATTGAGAGGCTG
*
6061903 CAATCATTTGTACTCATCTCATTCATATTATAAAACAACTTCTTTGTGAGTTAATCTCTCTTCCA
193 CAATCATTTATACTCATCTCATTCATATTATAAAACAACTTCTTTGTGAGTTAATCTCTCTTCCA
* * * *
6061968 AGTTCTTTAAAAACTTTATTGATTAAGCAAGTATATTTCTATACTTGTGGTGTCATCCTTTCCAT
258 AGTTCTTTAAAAACTTTATCGATTAAGCAAGTATATTTATATACTTGTGGCGTCATCATTTCCAT
* * *
6062033 CTTGATTCTTATAATTCCTAAATTTCATATCTAGTGGGATTAAGACACCATTACCATCCCTCAAG
323 CTTGATTCTTATAATACATAAATTTCATATCTAGTGGGATTAAGACACCATTACAATCCCTCAAG
* * *
6062098 CAAGTTTGTGAAGATCGGGGTTGTGCTCTTTAGCATAGCTTCTTCTTTGGCATGTTTGAGATACA
388 CAAGTTTGTGAAGACCGGGGTTGTGCTCTTTAACATAGCTTCTTCTTTGGCATATTTGAGATACA
6062163 ACTTCA
453 ACTTCA
* * * *
6062169 TCACCATTCGGCCAAGAGAGATGTATCTTCATTCTAGCTGAATCATCGTGTCTCATTTGAAGAGT
1 TCACCATTCAGCCAAGAGAGA--TATCTTCATACTACCTGAATCATCGTGTCTCATTTGAAGAGC
* * * * * * *
6062234 TAGTCGAACCATCTTCATGCCAAGGGACTTATTCTTTTAATTGAAGCATTATGTAC-ATGATTGT
64 CAGCCCAACCATCTTCATCCCAACGAACTTATTCTTTTAATTGAAGCATTATGTACAATCA-TGT
* *
6062298 ACTTAGCCGAATCATTAGGTGCCTATTCGGCCAAGCCCTCTCATTTCCTATAAATTGAGAGGCTG
128 ACTTAGCCGAATCATTAGGTGCCTATTCAGCCAAGCCATCTCATTTCCTATAAATTGAGAGGCTG
* *
6062363 CCATCATTTATACTCATCTCATTCATATTATAAAACAACTTCTTTGTGAGTTAATCTCTCTTTCA
193 CAATCATTTATACTCATCTCATTCATATTATAAAACAACTTCTTTGTGAGTTAATCTCTCTTCCA
* *
6062428 ATTTCTTTAAGAACTTTATCGATTAAGCAAGTATATTTATATACTTGTGGCGTCATCATTTCCAT
258 AGTTCTTTAAAAACTTTATCGATTAAGCAAGTATATTTATATACTTGTGGCGTCATCATTTCCAT
* * *
6062493 CTTGATTCTTATAA-ACATATATTTCATATCTAGTGGGTTTAAGACACCATTACAATCCTTCAAG
323 CTTGATTCTTATAATACATAAATTTCATATCTAGTGGGATTAAGACACCATTACAATCCCTCAAG
*
6062557 CAAGTTTGTGAAGACCGGGGTTGTGCTCTTTAACATAGCTTCTTCTTTGGCGTATTTGAGATACA
388 CAAGTTTGTGAAGACCGGGGTTGTGCTCTTTAACATAGCTTCTTCTTTGGCATATTTGAGATACA
6062622 ACTTCA
453 ACTTCA
6062628 TCACCAT
1 TCACCAT
6062635 CATCCATTAA
Statistics
Matches: 429, Mismatches: 35, Indels: 5
0.91 0.07 0.01
Matches are distributed among these distances:
459 122 0.28
460 307 0.72
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (458 bp):
TCACCATTCAGCCAAGAGAGATATCTTCATACTACCTGAATCATCGTGTCTCATTTGAAGAGCCA
GCCCAACCATCTTCATCCCAACGAACTTATTCTTTTAATTGAAGCATTATGTACAATCATGTACT
TAGCCGAATCATTAGGTGCCTATTCAGCCAAGCCATCTCATTTCCTATAAATTGAGAGGCTGCAA
TCATTTATACTCATCTCATTCATATTATAAAACAACTTCTTTGTGAGTTAATCTCTCTTCCAAGT
TCTTTAAAAACTTTATCGATTAAGCAAGTATATTTATATACTTGTGGCGTCATCATTTCCATCTT
GATTCTTATAATACATAAATTTCATATCTAGTGGGATTAAGACACCATTACAATCCCTCAAGCAA
GTTTGTGAAGACCGGGGTTGTGCTCTTTAACATAGCTTCTTCTTTGGCATATTTGAGATACAACT
TCA
Found at i:6064720 original size:19 final size:20
Alignment explanation
Indices: 6064681--6064728 Score: 89
Period size: 19 Copynumber: 2.5 Consensus size: 20
6064671 TTTTTTATAT
6064681 TAATATTTTCGGTAGAAAAA
1 TAATATTTTCGGTAGAAAAA
6064701 TAATATTTTCGGTA-AAAAA
1 TAATATTTTCGGTAGAAAAA
6064720 TAATATTTT
1 TAATATTTT
6064729 AGAAACATTC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.44, C:0.04, G:0.10, T:0.42
Consensus pattern (20 bp):
TAATATTTTCGGTAGAAAAA
Found at i:6066292 original size:21 final size:20
Alignment explanation
Indices: 6066253--6066292 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
6066243 AAATTATATT
6066253 TGTTAAAA-AATATCTTATAG
1 TGTTAAAATAATAT-TTATAG
6066273 TGTTAAAATAATATTGTATA
1 TGTTAAAATAATATT-TATA
6066293 AATTATTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.45, C:0.03, G:0.10, T:0.42
Consensus pattern (20 bp):
TGTTAAAATAATATTTATAG
Found at i:6067159 original size:108 final size:108
Alignment explanation
Indices: 6066970--6067172 Score: 325
Period size: 108 Copynumber: 1.9 Consensus size: 108
6066960 CATGATGAGG
* *
6066970 CGGTTGACATGCGTGAGGGTGCCGGTTTGACTAATCTCAAAGCTACGCCACTTAACGTCGTTTTC
1 CGGTTGACATGCATGACGGTGCCGGTTTGACTAATCTCAAAGCTACGCCACTTAACGTCGTTTTC
6067035 ACACCTCGTCTTCCTCCTCATCTCTATGAATAAACTACGATGC
66 ACACCTCGTCTTCCTCCTCATCTCTATGAATAAACTACGATGC
* * * * * *
6067078 CGGTTGACATGCATGACGGTGTCGGTTTGATTGATCTTAAAGCTACGCCACTTTATGTCGTTTTC
1 CGGTTGACATGCATGACGGTGCCGGTTTGACTAATCTCAAAGCTACGCCACTTAACGTCGTTTTC
*
6067143 ACACCTCGTCTTCCTCCTCATCTGTATGAA
66 ACACCTCGTCTTCCTCCTCATCTCTATGAA
6067173 ATACATATAT
Statistics
Matches: 86, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
108 86 1.00
ACGTcount: A:0.21, C:0.27, G:0.20, T:0.33
Consensus pattern (108 bp):
CGGTTGACATGCATGACGGTGCCGGTTTGACTAATCTCAAAGCTACGCCACTTAACGTCGTTTTC
ACACCTCGTCTTCCTCCTCATCTCTATGAATAAACTACGATGC
Found at i:6070007 original size:20 final size:20
Alignment explanation
Indices: 6069970--6070009 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
6069960 TTTATTATAA
* *
6069970 TTATATTTTTTTTTTAGTTT
1 TTATATTTTTATTATAGTTT
6069990 TTATATTTTTATTATAGTTT
1 TTATATTTTTATTATAGTTT
6070010 AAATTTATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.75
Consensus pattern (20 bp):
TTATATTTTTATTATAGTTT
Found at i:6070010 original size:18 final size:18
Alignment explanation
Indices: 6069953--6070015 Score: 56
Period size: 20 Copynumber: 3.4 Consensus size: 18
6069943 TATTAAAAAA
*
6069953 TATATTTTTTATTATA-AT
1 TATA-TTTTTATTATAGTT
* *
6069971 TATATTTTTTTTTTAGTTTT
1 TATATTTTTATTATAG--TT
6069991 TATATTTTTATTATAGTT
1 TATATTTTTATTATAGTT
*
6070009 TAAATTT
1 TATATTT
6070016 ATATATAATA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
17 9 0.25
18 12 0.33
20 15 0.42
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (18 bp):
TATATTTTTATTATAGTT
Found at i:6070078 original size:52 final size:51
Alignment explanation
Indices: 6070016--6070163 Score: 228
Period size: 50 Copynumber: 2.9 Consensus size: 51
6070006 GTTTAAATTT
6070016 ATATATAATAATATTTTTCTTGAATTTATTAATGTTTAAGTTGATATGATTC
1 ATATATAATAATATTTTT-TTGAATTTATTAATGTTTAAGTTGATATGATTC
*
6070068 ATATATAATAATA-TTTTTTCAATTTATTAATGTTTAAGTTGATATGATTC
1 ATATATAATAATATTTTTTTGAATTTATTAATGTTTAAGTTGATATGATTC
* * *
6070118 ATATATAACAATATATTTTTGAATTTA-TGATAGTTTAAGTTGATAT
1 ATATATAATAATATTTTTTTGAATTTATTAAT-GTTTAAGTTGATAT
6070164 ATATGATTCA
Statistics
Matches: 89, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
50 47 0.53
51 29 0.33
52 13 0.15
ACGTcount: A:0.36, C:0.03, G:0.09, T:0.51
Consensus pattern (51 bp):
ATATATAATAATATTTTTTTGAATTTATTAATGTTTAAGTTGATATGATTC
Found at i:6085376 original size:17 final size:18
Alignment explanation
Indices: 6085340--6085380 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
6085330 ATATTATGTA
*
6085340 TTTAATTTATTTAAGCAT
1 TTTACTTTATTTAAGCAT
*
6085358 TTTACTTTATTTAA-TAT
1 TTTACTTTATTTAAGCAT
6085375 TTTACT
1 TTTACT
6085381 AATATAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.61
Consensus pattern (18 bp):
TTTACTTTATTTAAGCAT
Found at i:6091821 original size:21 final size:21
Alignment explanation
Indices: 6091795--6091869 Score: 78
Period size: 21 Copynumber: 3.4 Consensus size: 21
6091785 CTCAAAACCT
6091795 AAACTCAATTAAACTCAATTC
1 AAACTCAATTAAACTCAATTC
**
6091816 AAACTCAAAAAAACTCAATCTC
1 AAACTCAATTAAACTCAAT-TC
* *
6091838 AAAATTCAATTCAAACTCAATTTT
1 -AAACTCAATT-AAACTCAA-TTC
6091862 AAACTCAA
1 AAACTCAA
6091870 CTCAAGCCCA
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
21 17 0.40
22 2 0.05
23 14 0.33
24 9 0.21
25 1 0.02
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.27
Consensus pattern (21 bp):
AAACTCAATTAAACTCAATTC
Found at i:6091846 original size:13 final size:12
Alignment explanation
Indices: 6091795--6091874 Score: 64
Period size: 10 Copynumber: 7.1 Consensus size: 12
6091785 CTCAAAACCT
6091795 AAACTCAATT--
1 AAACTCAATTCA
6091805 AAACTCAATTC-
1 AAACTCAATTCA
*
6091816 AAACTCAA--AA
1 AAACTCAATTCA
6091826 AAACTCAATCTCA
1 AAACTCAAT-TCA
*
6091839 AAATTCAATTC-
1 AAACTCAATTCA
**
6091850 AAACTCAATTTT
1 AAACTCAATTCA
*
6091862 AAACTCAACTCA
1 AAACTCAATTCA
6091874 A
1 A
6091875 GCCCAATTGT
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
10 18 0.32
11 17 0.30
12 12 0.21
13 9 0.16
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (12 bp):
AAACTCAATTCA
Found at i:6095257 original size:13 final size:13
Alignment explanation
Indices: 6095239--6095300 Score: 70
Period size: 13 Copynumber: 4.6 Consensus size: 13
6095229 GTGCATAACT
6095239 TAAACCTAAACCC
1 TAAACCTAAACCC
*
6095252 TAAACCTAATCCC
1 TAAACCTAAACCC
* *
6095265 TAATACATAAACCT
1 TAA-ACCTAAACCC
*
6095279 TAAACCTAAACCT
1 TAAACCTAAACCC
6095292 TAAATCCTA
1 TAAA-CCTA
6095301 TAATATAAAC
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
13 28 0.67
14 14 0.33
ACGTcount: A:0.45, C:0.31, G:0.00, T:0.24
Consensus pattern (13 bp):
TAAACCTAAACCC
Found at i:6095318 original size:7 final size:6
Alignment explanation
Indices: 6095239--6095291 Score: 52
Period size: 7 Copynumber: 8.2 Consensus size: 6
6095229 GTGCATAACT
* *
6095239 TAAACC TAAACCC TAAACC TAATCCC TAATACA TAAACC TTAAACC TAAACC
1 TAAACC TAAA-CC TAAACC TAA-ACC TAA-ACC TAAACC -TAAACC TAAACC
6095291 T
1 T
6095292 TAAATCCTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
6 18 0.45
7 22 0.55
ACGTcount: A:0.45, C:0.32, G:0.00, T:0.23
Consensus pattern (6 bp):
TAAACC
Found at i:6097099 original size:268 final size:268
Alignment explanation
Indices: 6096622--6097686 Score: 1839
Period size: 268 Copynumber: 4.0 Consensus size: 268
6096612 GGTTCGAAGT
* *
6096622 AAAGTACAAAAAGTTTACAACCAATAATTAGACAGAATTAT-GTTCAAAGTTTCAGACATCCAAG
1 AAAGTACAAAAAGTTTAAAACCAATAATTAGAAAGAATTATGGTT-AAAGTTTCAGACATCCAAG
* * * * * * *
6096686 GGAGGAATGAAGCAGCACAAGCTCTCAATCCCGGCGAAGGCAAAAACTCTTAGGCGGCCACTGCG
65 GAAGGAATGAAGCAGCACAAACTCTCAAGCCTGGCAAAGGCAAAAGCTCTTAGGCGGCAACTGCG
*
6096751 AATGTTTTAT-AGAAACAAGCCTTTGGATTTATCAGCATCAACAAAACCATCAAAACGCACAAAT
130 AATGTTTT-TGAGAAACAAGCCTTTGGATTTATCATCATCAACAAAACCATCAAAACGCACAAAT
* *
6096815 TTAATGATGTTAAAAGACACCCTAGTATACAGGGTAGTATCACGGCATGAAGGAAAGTGTACCAA
194 TTAATGATGTTAAAAGATACCCTAGTATACAGGGTAGTATCAAGGCATGAAGGAAAGTGTACCAA
6096880 AATTATGTTC
259 AATTATGTTC
*
6096890 AAAGTACGAAAAGTTTAAAACCAATAATTAGAAAGAATTATGGTTAAAGTTTCAGACATCCAAGG
1 AAAGTACAAAAAGTTTAAAACCAATAATTAGAAAGAATTATGGTTAAAGTTTCAGACATCCAAGG
*
6096955 AAGGAATGAAGCAGCACAAACTCTCAAGCCTGGCAAAGGCGAAAGCTCTTAGGCGGCAACTGCGA
66 AAGGAATGAAGCAGCACAAACTCTCAAGCCTGGCAAAGGCAAAAGCTCTTAGGCGGCAACTGCGA
6097020 ATGTTTTTGAGAAACAAGCCTTTGGATTTATCATCATCAACAAAACCATCAAAACGCACAAATTT
131 ATGTTTTTGAGAAACAAGCCTTTGGATTTATCATCATCAACAAAACCATCAAAACGCACAAATTT
6097085 AATGATGTTAAAAGATACCCTAGTATACAGGGTAGTATCAAGGCATGAAGGAAAGTGTACCAAAA
196 AATGATGTTAAAAGATACCCTAGTATACAGGGTAGTATCAAGGCATGAAGGAAAGTGTACCAAAA
6097150 TTATGTTC
261 TTATGTTC
6097158 AAAGTACAAAAAGTTTAAAACCAATAATTAGAAAGAATTATGGTTAAAGTTTCAGACATCCAAGG
1 AAAGTACAAAAAGTTTAAAACCAATAATTAGAAAGAATTATGGTTAAAGTTTCAGACATCCAAGG
* *
6097223 AAAGAATGAAGCAGCACAAACTCTCAAGCCTGGCAAAGGCGAAAGCTCTTAGGCGGCAACTGCGA
66 AAGGAATGAAGCAGCACAAACTCTCAAGCCTGGCAAAGGCAAAAGCTCTTAGGCGGCAACTGCGA
*
6097288 ATGTTTTTGAGAAACAAGCCTTTGGATTTATCATCATCAACAAAACCATCAAAACGCACAAACTT
131 ATGTTTTTGAGAAACAAGCCTTTGGATTTATCATCATCAACAAAACCATCAAAACGCACAAATTT
* *
6097353 AATGATTTTAAAAGATACCCTATTATACAGGGTAGTATCAAGGCATGAAGGAAAGTGTACCAAAA
196 AATGATGTTAAAAGATACCCTAGTATACAGGGTAGTATCAAGGCATGAAGGAAAGTGTACCAAAA
6097418 TTATGTTC
261 TTATGTTC
6097426 AAAGTACAAAAAGTTTAAAACCAATAATTAGAAAGAATTATGGTTAAAGTTTCAGACATCCAAGG
1 AAAGTACAAAAAGTTTAAAACCAATAATTAGAAAGAATTATGGTTAAAGTTTCAGACATCCAAGG
** * *
6097491 AAGGGGTGAAGCAGCACAAGCTCTCAAGCCTGGCGAAGGCAAAAGCTCTTAGGCGGCAACTGCGA
66 AAGGAATGAAGCAGCACAAACTCTCAAGCCTGGCAAAGGCAAAAGCTCTTAGGCGGCAACTGCGA
*
6097556 ATGTTTTTGAGAAACAAGCCTTTGGATTTATCATCATCAACAAAACCATTAAAACGCACAAATTT
131 ATGTTTTTGAGAAACAAGCCTTTGGATTTATCATCATCAACAAAACCATCAAAACGCACAAATTT
* * * *
6097621 AATGATGTTAAAAGATACCCTAGTATA-AGAGTAGTATCACGGCATGAAAGAAAGTGTAGCAAAA
196 AATGATGTTAAAAGATACCCTAGTATACAGGGTAGTATCAAGGCATGAAGGAAAGTGTACCAAAA
6097685 TT
261 TT
6097687 GAATTAATTA
Statistics
Matches: 762, Mismatches: 33, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
267 36 0.05
268 723 0.95
269 3 0.00
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.23
Consensus pattern (268 bp):
AAAGTACAAAAAGTTTAAAACCAATAATTAGAAAGAATTATGGTTAAAGTTTCAGACATCCAAGG
AAGGAATGAAGCAGCACAAACTCTCAAGCCTGGCAAAGGCAAAAGCTCTTAGGCGGCAACTGCGA
ATGTTTTTGAGAAACAAGCCTTTGGATTTATCATCATCAACAAAACCATCAAAACGCACAAATTT
AATGATGTTAAAAGATACCCTAGTATACAGGGTAGTATCAAGGCATGAAGGAAAGTGTACCAAAA
TTATGTTC
Found at i:6101713 original size:21 final size:21
Alignment explanation
Indices: 6101687--6101727 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
6101677 ATGCCACAAA
6101687 CTACTGGGTCATCCAAGAGAC
1 CTACTGGGTCATCCAAGAGAC
6101708 CTACTGGGTCATCCAAGAGA
1 CTACTGGGTCATCCAAGAGA
6101728 ACTTCTCTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.27, G:0.24, T:0.20
Consensus pattern (21 bp):
CTACTGGGTCATCCAAGAGAC
Found at i:6111020 original size:18 final size:18
Alignment explanation
Indices: 6110997--6111033 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
6110987 TTGGTAGAAG
6110997 TGTTGGGATTCCAGCTAT
1 TGTTGGGATTCCAGCTAT
6111015 TGTTGGGATTCCAGCTAT
1 TGTTGGGATTCCAGCTAT
6111033 T
1 T
6111034 TGCTTCTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.27, T:0.41
Consensus pattern (18 bp):
TGTTGGGATTCCAGCTAT
Found at i:6118826 original size:18 final size:18
Alignment explanation
Indices: 6118798--6118863 Score: 55
Period size: 18 Copynumber: 3.6 Consensus size: 18
6118788 AGGTTTTAAT
6118798 TATTATTATTTCATTTATC
1 TATT-TTATTTCATTTATC
*
6118817 TATTTTATTTTATTTATAC
1 TATTTTATTTCATTTAT-C
* *
6118836 -ATATATATTTCCTTTAT-
1 TAT-TTTATTTCATTTATC
6118853 TATTTATATTT
1 TATTT-TATTT
6118864 TTTATTTTCT
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
17 1 0.03
18 21 0.55
19 16 0.42
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (18 bp):
TATTTTATTTCATTTATC
Found at i:6118877 original size:49 final size:47
Alignment explanation
Indices: 6118800--6118924 Score: 114
Period size: 49 Copynumber: 2.6 Consensus size: 47
6118790 GTTTTAATTA
6118800 TTATTATTTCAT-TTATCTATTTTATTTTATT-TATACATATATATTTCCT
1 TTATTATTT-ATATTATCTATTTTATTTTATTCTATACATA-ATATTT--T
* * * * *
6118849 TTATTATTTATATTTTTTATTTTCTTTTATTCTTTATATAATATTTT
1 TTATTATTTATATTATCTATTTTATTTTATTCTATACATAATATTTT
*
6118896 TTA-TATTTATATATTTCT-TTTATATTTTA
1 TTATTATTTATAT-TATCTATTT-TATTTTA
6118925 CTATTTTTAG
Statistics
Matches: 65, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
46 12 0.18
47 14 0.22
48 2 0.03
49 31 0.48
50 6 0.09
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (47 bp):
TTATTATTTATATTATCTATTTTATTTTATTCTATACATAATATTTT
Found at i:6118930 original size:19 final size:19
Alignment explanation
Indices: 6118855--6118922 Score: 68
Period size: 19 Copynumber: 3.5 Consensus size: 19
6118845 TCCTTTATTA
*
6118855 TTTATATTT-TTTATTTTCT
1 TTTATATTTATATA-TTTCT
*
6118874 TTTATTCTTTATATAATATT-T
1 TTTA-TATTTATAT-AT-TTCT
6118895 TTTATATTTATATATTTCT
1 TTTATATTTATATATTTCT
6118914 TTTATATTT
1 TTTATATTT
6118923 TACTATTTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
18 2 0.05
19 16 0.39
20 12 0.29
21 8 0.20
22 3 0.07
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTATATTTATATATTTCT
Found at i:6119042 original size:31 final size:31
Alignment explanation
Indices: 6118985--6119043 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
6118975 TAATATTCTA
*
6118985 ATATATATATATATATTTTTATTTATTTATT
1 ATATATATATATATATTTTGATTTATTTATT
6119016 ATATATAT-TAT-TATTTTGACTATTATTT
1 ATATATATATATATATTTTGA-T-TTATTT
6119044 TCTTTATTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 7 0.28
30 4 0.16
31 14 0.56
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.63
Consensus pattern (31 bp):
ATATATATATATATATTTTGATTTATTTATT
Found at i:6119075 original size:43 final size:45
Alignment explanation
Indices: 6119009--6119092 Score: 111
Period size: 43 Copynumber: 1.9 Consensus size: 45
6118999 ATTTTTATTT
6119009 ATTTATTATATATATTATTATTTTGACTATTATTTTCTTTATTCC
1 ATTTATTATATATATTATTATTTTGACTATTATTTTCTTTATTCC
* * *
6119054 ATTTATT-TAT-T-TTACTTATTTTTATTCTTATTTTCTTTA
1 ATTTATTATATATATTA-TTATTTTGACTATTATTTTCTTTA
6119093 GATTTTCTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
42 3 0.09
43 22 0.63
44 3 0.09
45 7 0.20
ACGTcount: A:0.24, C:0.08, G:0.01, T:0.67
Consensus pattern (45 bp):
ATTTATTATATATATTATTATTTTGACTATTATTTTCTTTATTCC
Found at i:6119103 original size:28 final size:28
Alignment explanation
Indices: 6119072--6119139 Score: 102
Period size: 28 Copynumber: 2.4 Consensus size: 28
6119062 ATTTTACTTA
6119072 TTTTTATTCTTATTTTCTTTAG-ATTTTC
1 TTTTTATT-TTATTTTCTTTAGCATTTTC
*
6119100 TTTTTATTTTATTTTCTTTTGCATTTTC
1 TTTTTATTTTATTTTCTTTAGCATTTTC
6119128 TTATTTATTTTA
1 TT-TTTATTTTA
6119140 CCTTTTTTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
27 12 0.32
28 16 0.43
29 9 0.24
ACGTcount: A:0.15, C:0.09, G:0.03, T:0.74
Consensus pattern (28 bp):
TTTTTATTTTATTTTCTTTAGCATTTTC
Found at i:6119148 original size:29 final size:28
Alignment explanation
Indices: 6119072--6119149 Score: 86
Period size: 28 Copynumber: 2.7 Consensus size: 28
6119062 ATTTTACTTA
* *
6119072 TTTTTATTCTTATTTTCTTTAG-ATTTTC
1 TTTTTATT-TTACTTTCTTTTGCATTTTC
*
6119100 TTTTTATTTTATTTTCTTTTGCATTTTC
1 TTTTTATTTTACTTTCTTTTGCATTTTC
*
6119128 TTATTTATTTTACCTTTTTTTT
1 TT-TTTATTTTA-CTTTCTTTT
6119150 TACTTTATTT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
27 12 0.27
28 16 0.36
29 9 0.20
30 7 0.16
ACGTcount: A:0.13, C:0.10, G:0.03, T:0.74
Consensus pattern (28 bp):
TTTTTATTTTACTTTCTTTTGCATTTTC
Found at i:6124666 original size:72 final size:73
Alignment explanation
Indices: 6124575--6124740 Score: 219
Period size: 72 Copynumber: 2.2 Consensus size: 73
6124565 TAATGCAGAT
* ** * *
6124575 GATTTATCTCACTTGAGATTGTTTTTCTTAAGAC-AGACTTTGTCTCACTTGAGACTGTTTT-AC
1 GATTTATTTCACTCAAGATTGTTTTTCTTAAAACAAGA-TTTGTCTCACTTGAGACCGTTTTCAC
6124638 TCAAAAGAA
65 TCAAAAGAA
*
6124647 GATTTATTTCACTCAAGATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACCGTTTTCACT
1 GATTTATTTCACTCAAGATTGTTTTTCTTAAAACAAGATTTGTCTCACTTGAGACCGTTTTCACT
*
6124712 CGAAAGAA
66 CAAAAGAA
6124720 GATATTTCATTTCACTCAAGA
1 G--ATTT-ATTTCACTCAAGA
6124741 CTATTTTTAA
Statistics
Matches: 82, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
72 51 0.62
73 14 0.17
75 4 0.05
76 13 0.16
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.39
Consensus pattern (73 bp):
GATTTATTTCACTCAAGATTGTTTTTCTTAAAACAAGATTTGTCTCACTTGAGACCGTTTTCACT
CAAAAGAA
Found at i:6124707 original size:36 final size:36
Alignment explanation
Indices: 6124575--6124707 Score: 133
Period size: 36 Copynumber: 3.7 Consensus size: 36
6124565 TAATGCAGAT
* *
6124575 GATTTATCTCACTTGAGATTGTTTTTCTTAAGAC-A
1 GATTTATCTCACTTGAGACTGTTTTTCTTAAAACAA
* * * *
6124610 GACTTTGTCTCACTTGAGACTGTTTTACTCAAAAGAA
1 GA-TTTATCTCACTTGAGACTGTTTTTCTTAAAACAA
* ** *
6124647 GATTTATTTCACTCAAGATTGTTTTTCTTAAAACAA
1 GATTTATCTCACTTGAGACTGTTTTTCTTAAAACAA
* * *
6124683 GATTTGTCTCGCTTGAGACCGTTTT
1 GATTTATCTCACTTGAGACTGTTTT
6124708 CACTCGAAAG
Statistics
Matches: 75, Mismatches: 21, Indels: 3
0.76 0.21 0.03
Matches are distributed among these distances:
35 2 0.03
36 70 0.93
37 3 0.04
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.42
Consensus pattern (36 bp):
GATTTATCTCACTTGAGACTGTTTTTCTTAAAACAA
Found at i:6124757 original size:72 final size:72
Alignment explanation
Indices: 6124604--6124773 Score: 186
Period size: 73 Copynumber: 2.3 Consensus size: 72
6124594 TGTTTTTCTT
* * *
6124604 AAGACAGACTTTGTCTCACTTGAGACTGTTTTACTCAAAAGAAGATTTATTTCACTCAAGATTGT
1 AAGA-AGACTTTGTCTCGCTTGAGACCGTTTTACTCAAAAGAAGATTTATTTCACTCAAGA-TCT
*
6124669 TTTTCTTAA
64 ATTTCTTAA
* *
6124678 AACAAGA-TTTGTCTCGCTTGAGACCGTTTTCACTCGAAAGAAGATATTTCATTTCACTCAAGA-
1 AAGAAGACTTTGTCTCGCTTGAGACCGTTTT-ACTCAAAAGAAG--ATTT-ATTTCACTCAAGAT
6124741 CTATTT-TT-A
62 CTATTTCTTAA
* *
6124750 AAGAAGATTTTATCTCGCTTGAGA
1 AAGAAGACTTTGTCTCGCTTGAGA
6124774 TAGTTTCCCT
Statistics
Matches: 83, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
72 28 0.34
73 31 0.37
74 7 0.08
75 4 0.05
76 13 0.16
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (72 bp):
AAGAAGACTTTGTCTCGCTTGAGACCGTTTTACTCAAAAGAAGATTTATTTCACTCAAGATCTAT
TTCTTAA
Found at i:6124767 original size:73 final size:71
Alignment explanation
Indices: 6124598--6124773 Score: 180
Period size: 72 Copynumber: 2.4 Consensus size: 71
6124588 TGAGATTGTT
* * * *
6124598 TTTCTTAAGAC-AGACTTTGTCTCACTTGAGACTGTTTTACTCAAAAGAAGATTTATTTCACTCA
1 TTTCTTAAAACAAGA-TTTATCTCGCTTGAGACCGTTTTACTCAAAAGAAGATTTATTTCACTCA
* *
6124662 AGATTGTT
65 AGA-TCTA
* *
6124670 TTTCTTAAAACAAGATTTGTCTCGCTTGAGACCGTTTTCACTCGAAAGAAGATATTTCATTTCAC
1 TTTCTTAAAACAAGATTTATCTCGCTTGAGACCGTTTT-ACTCAAAAGAAG--ATTT-ATTTCAC
6124735 TCAAGA-CTA
62 TCAAGATCTA
*
6124744 TTT-TT-AAAGAAGATTTTATCTCGCTTGAGA
1 TTTCTTAAAACAAGA-TTTATCTCGCTTGAGA
6124774 TAGTTTCCCT
Statistics
Matches: 90, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
72 38 0.42
73 31 0.34
74 4 0.04
75 4 0.04
76 13 0.14
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (71 bp):
TTTCTTAAAACAAGATTTATCTCGCTTGAGACCGTTTTACTCAAAAGAAGATTTATTTCACTCAA
GATCTA
Found at i:6125169 original size:21 final size:21
Alignment explanation
Indices: 6125143--6125182 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
6125133 CATATTGTCC
6125143 AGAGGGAACCGATTCCCCCAA
1 AGAGGGAACCGATTCCCCCAA
*
6125164 AGAGGGAACTGATTCCCCC
1 AGAGGGAACCGATTCCCCC
6125183 CGAATGGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.33, G:0.25, T:0.12
Consensus pattern (21 bp):
AGAGGGAACCGATTCCCCCAA
Found at i:6126683 original size:19 final size:20
Alignment explanation
Indices: 6126656--6126695 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
6126646 CTTCTTCTAG
*
6126656 AAATGAAAATGGATT-TTGA
1 AAATGAAAATGAATTCTTGA
*
6126675 AAATTAAAATGAATTCTTGA
1 AAATGAAAATGAATTCTTGA
6126695 A
1 A
6126696 GAAGGATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.50, C:0.03, G:0.15, T:0.33
Consensus pattern (20 bp):
AAATGAAAATGAATTCTTGA
Found at i:6129141 original size:21 final size:22
Alignment explanation
Indices: 6129103--6129144 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
6129093 TAATAAATTA
6129103 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
6129125 TTTAAAATAAATC-ATCCATA
1 TTTAAAATAAATCAATCCATA
6129145 CTAATAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:6129153 original size:21 final size:22
Alignment explanation
Indices: 6129105--6129152 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
6129095 ATAAATTATT
**
6129105 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
6129127 TAAAATAAATC-ATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
6129149 TAAA
1 TAAA
6129153 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 7 0.30
22 16 0.70
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:6129174 original size:32 final size:31
Alignment explanation
Indices: 6129125--6129990 Score: 436
Period size: 32 Copynumber: 31.4 Consensus size: 31
6129115 CAATCCATAT
6129125 TTTAAAATAAATC-ATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
*
6129156 TTTAAAATAAATCAATCCATAC-AACTACA-A
1 TTTAAAATAAATCAATCCATACTAA-TAAATA
**
6129186 --T--AATAAATCAATCCATA-TTTTAAA-A
1 TTTAAAATAAATCAATCCATACTAATAAATA
* *
6129211 --T-AAATCAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
* *
6129240 TTTAAAATAAATCAATTCATACTAATACATTA
1 TTTAAAATAAATCAATCCATACTAATA-AATA
6129272 TTTAAAATAAATCAAT-C---C--AT--AT-
1 TTTAAAATAAATCAATCCATACTAATAAATA
*
6129294 TTTAAAATAAATCAATCCATAATAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
6129326 TTTAAAATAAATCAAT-C---C--AT--AT-
1 TTTAAAATAAATCAATCCATACTAATAAATA
6129348 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
*
6129380 TTTAAAATAAATCAATCCATAC-AACTACA-A
1 TTTAAAATAAATCAATCCATACTAA-TAAATA
**
6129410 --T--AATAAATCAATCCATA-TTTTAAA-A
1 TTTAAAATAAATCAATCCATACTAATAAATA
* *
6129435 --T-AAATCAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
6129464 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
*
6129496 TTT---A-AAATCAATCAAT-CT-AT--AT-
1 TTTAAAATAAATCAATCCATACTAATAAATA
*
6129518 TTTAAAATAAATAAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
6129550 TTTAAAATAAATC-A---AT-CT-AT--AT-
1 TTTAAAATAAATCAATCCATACTAATAAATA
6129572 TTTAAAATAAATCAATCC--A----T--AT-
1 TTTAAAATAAATCAATCCATACTAATAAATA
*
6129594 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
6129626 TTTAAAATAAATCAAT-C---C--AT--AT-
1 TTTAAAATAAATCAATCCATACTAATAAATA
*
6129648 TTTAAAATAAATCAATCTATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
* *
6129680 TTTAAAATAAATCAATCTATAC-AACTACA-A
1 TTTAAAATAAATCAATCCATACTAA-TAAATA
* **
6129710 --T--AATAAATTAATCCATA-TTTTAAA-A
1 TTTAAAATAAATCAATCCATACTAATAAATA
6129735 -------TAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
*
6129760 TTTAAAATGAATCAAT-C---C--AT--AT-
1 TTTAAAATAAATCAATCCATACTAATAAATA
*
6129782 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
6129814 TTTAAAATAAATCAAT-C---C--AT--AT-
1 TTTAAAATAAATCAATCCATACTAATAAATA
*
6129836 TTTAAAATAAATCAATACATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
*
6129868 TTTAAAATAAATCAAT-CATAC-AACTACA-A
1 TTTAAAATAAATCAATCCATACTAA-TAAATA
6129897 --T--AATAAATCAATCC--A-T-AT-----
1 TTTAAAATAAATCAATCCATACTAATAAATA
*
6129915 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
6129947 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
6129979 TTTAAAATAAAT
1 TTTAAAATAAAT
6129991 TATTTTAAAA
Statistics
Matches: 666, Mismatches: 45, Indels: 247
0.70 0.05 0.26
Matches are distributed among these distances:
20 1 0.00
22 141 0.21
23 18 0.03
24 9 0.01
25 28 0.04
26 107 0.16
27 15 0.02
28 33 0.05
29 4 0.01
30 12 0.02
31 42 0.06
32 255 0.38
33 1 0.00
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.35
Consensus pattern (31 bp):
TTTAAAATAAATCAATCCATACTAATAAATA
Found at i:6129298 original size:22 final size:22
Alignment explanation
Indices: 6129272--6129314 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
6129262 TAATACATTA
6129272 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
6129294 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
6129315 ATAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:6129323 original size:22 final size:22
Alignment explanation
Indices: 6129274--6129322 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
6129264 ATACATTATT
**
6129274 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
6129296 TAAAATAAATCAATCCATAATAA
1 TAAAATAAATCAATCCAT-ATAA
6129319 TAAA
1 TAAA
6129323 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:6129326 original size:54 final size:54
Alignment explanation
Indices: 6129093--6129990 Score: 718
Period size: 54 Copynumber: 16.4 Consensus size: 54
6129083 ACAACTACAA
6129093 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATC-ATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* **
6129146 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATAC
** * ** * * * * *
6129203 TTTTAAAATAAAT-CAATCAATCCATACAAATAAATTATTTAAAATAAATCAATTCATAC
1 TAATAAATTATTTAAAATAAATCAAT-C-CAT--A-T-TTTAAAATAAATCAATCCATAC
* *
6129262 TAATACATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAA
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
6129316 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* **
6129370 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATAC
** * ** * * * *
6129427 TTTTAAAATAAAT-CAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAAT-C-CAT--A-T-TTTAAAATAAATCAATCCATAC
* * *
6129486 TAATAAATTATTTAAAATCAATCAATCTATATTTTAAAATAAATAAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* *
6129540 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATATTT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA--C
* * * * * *
6129596 TAAAATAAATCAATTCATACT-AATAAAT---TA-TTTAAAATAAATCAATCCATATTT
1 T--AATAAAT-TATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA--C
* * * * * *
6129650 TAAAATAAATCAATCTATACT-AATAAAT---TA-TTTAAAATAAATCAATCTATAC
1 T--AATAAAT-TATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* *
6129702 -AACTACA--A--T--AATAAATTAATCCATATTTTAAAATAAATCAATCCATAC
1 TAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* *
6129750 TAATAAATTATTTAAAATGAATCAATCCATATTTTAAAATAAATCAATTCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
6129804 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATACATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* ** *
6129858 TAATAAATTATTTAAAATAAATCAAT-CATACAACTACAATAATAAATCAATCCATATTT
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATA--C
* * * * *
6129917 TAAAATAAATCAATTCATACT-AATAAAT---TA-TTTAAAATAAATCAATCCATAC
1 T--AATAAAT-TATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
6129969 TAATAAATTATTTAAAATAAAT
1 TAATAAATTATTTAAAATAAAT
6129991 TATTTTAAAA
Statistics
Matches: 701, Mismatches: 95, Indels: 101
0.78 0.11 0.11
Matches are distributed among these distances:
43 2 0.00
44 6 0.01
45 1 0.00
47 3 0.00
48 24 0.03
49 10 0.01
50 14 0.02
52 2 0.00
53 33 0.05
54 376 0.54
55 7 0.01
56 30 0.04
57 49 0.07
58 75 0.11
59 31 0.04
60 19 0.03
61 13 0.02
62 6 0.01
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.35
Consensus pattern (54 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
Found at i:6129352 original size:22 final size:22
Alignment explanation
Indices: 6129326--6129368 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
6129316 TAATAAATTA
6129326 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
6129348 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
6129369 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:6129377 original size:22 final size:22
Alignment explanation
Indices: 6129328--6129376 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
6129318 ATAAATTATT
**
6129328 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
6129350 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
6129373 TAAA
1 TAAA
6129377 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:6129487 original size:224 final size:224
Alignment explanation
Indices: 6129091--6129834 Score: 1120
Period size: 224 Copynumber: 3.4 Consensus size: 224
6129081 ATACAACTAC
6129091 AATAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATC-ATCCATACTAATAAATT
1 AATAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATT
6129155 ATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAAT
66 ATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAAT
*
6129220 CAATCCATACAAATAAATTATTTAAAATAAATCAATTCATACTAATACATTATTTAAAATAAATC
131 CAATCCATACAAATAAATTATTTAAAATAAATCAATCCATACTAATACATTATTTAAAATAAATC
6129285 AATCCATATTTTAAAATAAATCAATCCAT
196 AATCCATATTTTAAAATAAATCAATCCAT
6129314 AATAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATT
1 AATAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATT
6129379 ATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAAT
66 ATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAAT
* *
6129444 CAATCCATACAAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATCAATC
131 CAATCCATACAAATAAATTATTTAAAATAAATCAATCCATACTAATACATTATTTAAAATAAATC
* *
6129509 AATCTATATTTTAAAATAAATAAATCCAT
196 AATCCATATTTTAAAATAAATCAATCCAT
* *
6129538 ACTAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAAT-C---C--AT--A-T
1 AATAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATT
* *
6129594 -TTTAAAATAAATCAATTCATACTAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATA
66 ATTTAAAATAAATCAATCCATAC-AACTACA--A--T--AATAAATCAATCCATATTTTAAAATA
* *
6129657 AATCAATC--T--ATACTAATAAATTATTTAAAATAAATCAATCTATAC-AACTACA--A--T--
124 AATCAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCCATACTAA-TACATTATTTAA
*
6129711 AATAAATTAATCCATATTTTAAAATAAATCAATCCAT
188 AATAAATCAATCCATATTTTAAAATAAATCAATCCAT
* * *
6129748 ACTAATAAATTATTTAAAATGAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATT
1 AATAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATT
6129813 ATTTAAAATAAATCAATCCATA
66 ATTTAAAATAAATCAATCCATA
6129835 TTTTAAAATA
Statistics
Matches: 483, Mismatches: 19, Indels: 41
0.89 0.03 0.08
Matches are distributed among these distances:
210 81 0.17
211 1 0.00
212 1 0.00
214 26 0.05
215 5 0.01
216 41 0.08
218 5 0.01
219 1 0.00
220 55 0.11
223 48 0.10
224 219 0.45
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (224 bp):
AATAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATT
ATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAAT
CAATCCATACAAATAAATTATTTAAAATAAATCAATCCATACTAATACATTATTTAAAATAAATC
AATCCATATTTTAAAATAAATCAATCCAT
Found at i:6129518 original size:21 final size:22
Alignment explanation
Indices: 6129496--6129605 Score: 67
Period size: 22 Copynumber: 4.5 Consensus size: 22
6129486 TAATAAATTA
* *
6129496 TTTAAAATCAATCAATCTATAT
1 TTTAAAATAAATAAATCTATAT
*
6129518 TTTAAAATAAATAAATCCATACT
1 TTTAAAATAAATAAATCTATA-T
**
6129541 AATAAATTATTTAAAATAAATCAATCTATAT
1 TTTAAA--A--T-AAATAAA----TCTATAT
* *
6129572 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATAAATCTATAT
6129594 TTTAAAATAAAT
1 TTTAAAATAAAT
6129606 CAATTCATAC
Statistics
Matches: 68, Mismatches: 10, Indels: 20
0.69 0.10 0.20
Matches are distributed among these distances:
22 36 0.53
23 5 0.07
25 1 0.01
26 6 0.09
27 2 0.03
28 7 0.10
29 1 0.01
31 5 0.07
32 5 0.07
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (22 bp):
TTTAAAATAAATAAATCTATAT
Found at i:6129593 original size:22 final size:22
Alignment explanation
Indices: 6129550--6129614 Score: 112
Period size: 22 Copynumber: 3.0 Consensus size: 22
6129540 TAATAAATTA
*
6129550 TTTAAAATAAATCAATCTATAT
1 TTTAAAATAAATCAATCCATAT
6129572 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
6129594 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATCCATA
6129615 CTAATAAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:6129623 original size:22 final size:22
Alignment explanation
Indices: 6129552--6129622 Score: 79
Period size: 22 Copynumber: 3.2 Consensus size: 22
6129542 ATAAATTATT
* **
6129552 TAAAATAAATCAATCTATATTT
1 TAAAATAAATCAATCCATATAA
**
6129574 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
6129596 TAAAATAAATCAATTCATACTAA
1 TAAAATAAATCAATCCATA-TAA
6129619 TAAA
1 TAAA
6129623 TTATTTAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
22 39 0.89
23 5 0.11
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.35
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:6129674 original size:18 final size:18
Alignment explanation
Indices: 6129652--6129703 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
6129642 CCATATTTTA
6129652 AAATAAATCAATCTATAC
1 AAATAAATCAATCTATAC
* *
6129670 TAATAAAT-TAT-T-TA-
1 AAATAAATCAATCTATAC
6129684 AAATAAATCAATCTATAC
1 AAATAAATCAATCTATAC
6129702 AA
1 AA
6129704 CTACAATAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 8
0.68 0.11 0.21
Matches are distributed among these distances:
14 7 0.27
15 4 0.15
16 2 0.08
17 4 0.15
18 9 0.35
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.33
Consensus pattern (18 bp):
AAATAAATCAATCTATAC
Found at i:6129677 original size:22 final size:22
Alignment explanation
Indices: 6129628--6129676 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
6129618 ATAAATTATT
**
6129628 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
6129650 TAAAATAAATCAATCTATACTAA
1 TAAAATAAATCAATCCATA-TAA
6129673 TAAA
1 TAAA
6129677 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:6129786 original size:22 final size:22
Alignment explanation
Indices: 6129760--6129802 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
6129750 TAATAAATTA
*
6129760 TTTAAAATGAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
6129782 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATCCATA
6129803 CTAATAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.49, C:0.12, G:0.02, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:6129840 original size:22 final size:22
Alignment explanation
Indices: 6129814--6129856 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
6129804 TAATAAATTA
*
6129814 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATACATAT
6129836 TTTAAAATAAATCAATACATA
1 TTTAAAATAAATCAATACATA
6129857 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATACATAT
Found at i:6129865 original size:22 final size:22
Alignment explanation
Indices: 6129816--6129864 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
6129806 ATAAATTATT
* **
6129816 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATACATATAA
6129838 TAAAATAAATCAATACATACTAA
1 TAAAATAAATCAATACATA-TAA
6129861 TAAA
1 TAAA
6129865 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATACATATAA
Found at i:6129941 original size:18 final size:18
Alignment explanation
Indices: 6129920--6129976 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
6129910 CATATTTTAA
6129920 AATAAATCAATTCATACT
1 AATAAATCAATTCATACT
* *
6129938 AATAAAT-TATT--TA-A
1 AATAAATCAATTCATACT
*
6129952 AATAAATCAATCCATACT
1 AATAAATCAATTCATACT
6129970 AATAAAT
1 AATAAAT
6129977 TATTTAAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 8
0.70 0.12 0.19
Matches are distributed among these distances:
14 7 0.23
15 4 0.13
17 5 0.17
18 14 0.47
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.33
Consensus pattern (18 bp):
AATAAATCAATTCATACT
Found at i:6129995 original size:79 final size:80
Alignment explanation
Indices: 6129782--6130058 Score: 285
Period size: 79 Copynumber: 3.5 Consensus size: 80
6129772 CAATCCATAT
*
6129782 TTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAAT--A--AAT-C-TATTTTAAAATAAA
*
6129847 TCAATACATACTAATAAATTA
60 TCAATTCATACTAATAAATTA
* *
6129868 TTTAAAATAAATCAAT-CATAC-AACTACAA-TA-AT-AAATCAATCCATATTTTAAAATAAATC
1 TTTAAAATAAATCAATCCATACTAA-TA-AATTATTTAAAATAAAT-C-TATTTTAAAATAAATC
6129928 AATTCATACTAATAAATTA
62 AATTCATACTAATAAATTA
*
6129947 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT-TATTTTAAAATAAAT-TATT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCTATTTTAAAATAAATCAATT
* *
6130010 -TTA-AAATAAATTA
66 CATACTAATAAATTA
*
6130023 TTTTAAAATAAAT-AA-CC-T--TATTAAATTATTTAAAAT
1 -TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAAT
6130059 TATTTTAATA
Statistics
Matches: 174, Mismatches: 9, Indels: 30
0.82 0.04 0.14
Matches are distributed among these distances:
72 17 0.10
74 1 0.01
75 2 0.01
76 11 0.06
77 14 0.08
78 3 0.02
79 73 0.42
80 9 0.05
81 3 0.02
82 7 0.04
83 4 0.02
84 3 0.02
85 9 0.05
86 18 0.10
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (80 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCTATTTTAAAATAAATCAATT
CATACTAATAAATTA
Found at i:6129999 original size:15 final size:15
Alignment explanation
Indices: 6129970--6130035 Score: 125
Period size: 15 Copynumber: 4.5 Consensus size: 15
6129960 AATCCATACT
6129970 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
6129984 AATAAATTATTTTAA
1 AATAAATTATTTTAA
6129999 AATAAATTATTTTAA
1 AATAAATTATTTTAA
6130014 AATAAATTATTTTAA
1 AATAAATTATTTTAA
6130029 AATAAAT
1 AATAAAT
6130036 AACCTTATTA
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
14 9 0.18
15 42 0.82
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:6130015 original size:30 final size:29
Alignment explanation
Indices: 6129938--6130035 Score: 124
Period size: 30 Copynumber: 3.2 Consensus size: 29
6129928 AATTCATACT
* ** *
6129938 AATAAATTATTTAAAATAAATCAATCCATACT
1 AATAAATTATTTAAAATAAAT-TAT-TTTA-A
6129970 AATAAATTATTTAAAATAAATTATTTTAA
1 AATAAATTATTTAAAATAAATTATTTTAA
6129999 AATAAATTATTTTAAAATAAATTATTTTAA
1 AATAAATTA-TTTAAAATAAATTATTTTAA
6130029 AATAAAT
1 AATAAAT
6130036 AACCTTATTA
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
29 9 0.15
30 29 0.48
31 2 0.03
32 21 0.34
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (29 bp):
AATAAATTATTTAAAATAAATTATTTTAA
Found at i:6132074 original size:22 final size:21
Alignment explanation
Indices: 6132046--6132125 Score: 99
Period size: 23 Copynumber: 3.7 Consensus size: 21
6132036 TAGTGCAGGA
6132046 GGAATCGATACCCCCTTGAAGG
1 GGAATCGATACCCCCTTGAA-G
*
6132068 GGAATCGATTCCCCCTTTGAATG
1 GGAATCGATACCCCC-TTGAA-G
* *
6132091 GGAATCGATTCCCCC-TGGAG
1 GGAATCGATACCCCCTTGAAG
6132111 GGAATCGATACCCCC
1 GGAATCGATACCCCC
6132126 ATGGGATTTG
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
20 15 0.28
21 3 0.06
22 14 0.26
23 21 0.40
ACGTcount: A:0.24, C:0.30, G:0.25, T:0.21
Consensus pattern (21 bp):
GGAATCGATACCCCCTTGAAG
Found at i:6133100 original size:13 final size:13
Alignment explanation
Indices: 6133082--6133106 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6133072 ACCATGTGAC
6133082 ATTGATTATGAAT
1 ATTGATTATGAAT
6133095 ATTGATTATGAA
1 ATTGATTATGAA
6133107 ACTAATGGCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (13 bp):
ATTGATTATGAAT
Found at i:6134538 original size:16 final size:17
Alignment explanation
Indices: 6134519--6134570 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 17
6134509 TTTGAGATTG
6134519 TTTCCCTTGAAACAAAT
1 TTTCCCTTGAAACAAAT
*
6134536 TTCGTCTCACTTGAGAC-AAT
1 TT--TC-C-CTTGAAACAAAT
6134556 TTTCCCTTGAAACAA
1 TTTCCCTTGAAACAA
6134571 GAAATTTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 10
0.70 0.05 0.25
Matches are distributed among these distances:
16 7 0.25
17 4 0.14
18 2 0.07
19 2 0.07
20 6 0.21
21 7 0.25
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.35
Consensus pattern (17 bp):
TTTCCCTTGAAACAAAT
Found at i:6136748 original size:18 final size:18
Alignment explanation
Indices: 6136720--6136785 Score: 55
Period size: 18 Copynumber: 3.6 Consensus size: 18
6136710 AGGTTTTAAT
6136720 TATTATTATTTCATTTATC
1 TATT-TTATTTCATTTATC
*
6136739 TATTTTATTTTATTTATAC
1 TATTTTATTTCATTTAT-C
* *
6136758 GTA-TATATTTCCTTTAT-
1 -TATTTTATTTCATTTATC
6136775 TATTTATATTT
1 TATTT-TATTT
6136786 TTTTATTTTC
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
16 2 0.05
17 1 0.03
18 17 0.45
19 16 0.42
20 2 0.05
ACGTcount: A:0.26, C:0.08, G:0.02, T:0.65
Consensus pattern (18 bp):
TATTTTATTTCATTTATC
Found at i:6136821 original size:27 final size:27
Alignment explanation
Indices: 6136748--6136821 Score: 62
Period size: 27 Copynumber: 2.8 Consensus size: 27
6136738 CTATTTTATT
** *
6136748 TTATTTATACGTATATA-TTTCCTTTA
1 TTATTTATATATATTTATTTTCCTTTA
* * *
6136774 TTATTTATATTTTTTTATTTTCTTTTA
1 TTATTTATATATATTTATTTTCCTTTA
*
6136801 TTTTTTATATAATATTT-TTTT
1 TTATTTATAT-ATATTTATTTT
6136822 AGATTTTACT
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
26 13 0.34
27 21 0.55
28 4 0.11
ACGTcount: A:0.23, C:0.05, G:0.01, T:0.70
Consensus pattern (27 bp):
TTATTTATATATATTTATTTTCCTTTA
Found at i:6136945 original size:19 final size:19
Alignment explanation
Indices: 6136888--6136946 Score: 50
Period size: 19 Copynumber: 3.1 Consensus size: 19
6136878 ATTAATATTC
*
6136888 TAATATATATATATATATT-G
1 TAAT-TATATATAT-TATTAT
* *
6136908 TATTTATTTAT-TTATTTAT
1 TAATTATATATATTA-TTAT
6136927 TAATTATATATATTATTAT
1 TAATTATATATATTATTAT
6136946 T
1 T
6136947 TTGACTATTA
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
17 2 0.06
18 3 0.10
19 20 0.65
20 6 0.19
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (19 bp):
TAATTATATATATTATTAT
Found at i:6136976 original size:21 final size:22
Alignment explanation
Indices: 6136952--6137009 Score: 59
Period size: 21 Copynumber: 2.7 Consensus size: 22
6136942 TTATTTTGAC
6136952 TATTATTTTCTTTAT-TCCATT
1 TATTATTTTCTTTATCTCCATT
**
6136973 TATTTATTTTGC-TTATCTTTATT
1 TA-TTATTTT-CTTTATCTCCATT
6136996 T-TTATTTTCTTTAT
1 TATTATTTTCTTTAT
6137010 ATTGTCTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
20 1 0.03
21 13 0.42
22 11 0.35
23 6 0.19
ACGTcount: A:0.17, C:0.10, G:0.02, T:0.71
Consensus pattern (22 bp):
TATTATTTTCTTTATCTCCATT
Found at i:6137030 original size:11 final size:11
Alignment explanation
Indices: 6136994--6137030 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
6136984 CTTATCTTTA
6136994 TTTTTATTTTC
1 TTTTTATTTTC
* *
6137005 TTTATATTGTC
1 TTTTTATTTTC
6137016 TTTTTATTTTC
1 TTTTTATTTTC
6137027 TTTT
1 TTTT
6137031 CTTTTGCCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.11, C:0.08, G:0.03, T:0.78
Consensus pattern (11 bp):
TTTTTATTTTC
Found at i:6137060 original size:20 final size:21
Alignment explanation
Indices: 6137032--6137074 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
6137022 TTTTCTTTTC
*
6137032 TTTTGCCTTTTCTTA-TTTAT
1 TTTTACCTTTTCTTACTTTAT
*
6137052 TTTTACCTTTTTTTACTTTAT
1 TTTTACCTTTTCTTACTTTAT
6137073 TT
1 TT
6137075 ATCTTACCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.12, C:0.14, G:0.02, T:0.72
Consensus pattern (21 bp):
TTTTACCTTTTCTTACTTTAT
Found at i:6137124 original size:33 final size:33
Alignment explanation
Indices: 6137083--6137149 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
6137073 TTATCTTACC
*
6137083 TACCAGTTTATCTTTGTTTCACTCTAATTTTTT
1 TACCAGTTTATCTTTGCTTCACTCTAATTTTTT
**
6137116 TACCAGTTTATCTTTGCTTCACTCTCCTTTTTT
1 TACCAGTTTATCTTTGCTTCACTCTAATTTTTT
6137149 T
1 T
6137150 TCTTTTATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.15, C:0.22, G:0.06, T:0.57
Consensus pattern (33 bp):
TACCAGTTTATCTTTGCTTCACTCTAATTTTTT
Found at i:6148032 original size:11 final size:11
Alignment explanation
Indices: 6148010--6148039 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
6148000 AATCCCATGA
6148010 AAAGAA-AAAT
1 AAAGAAGAAAT
6148020 AAAGAAGAAAT
1 AAAGAAGAAAT
6148031 AAAGAAGAA
1 AAAGAAGAA
6148040 GAAGATCATG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.32
11 13 0.68
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.07
Consensus pattern (11 bp):
AAAGAAGAAAT
Found at i:6148234 original size:23 final size:25
Alignment explanation
Indices: 6148182--6148239 Score: 77
Period size: 23 Copynumber: 2.4 Consensus size: 25
6148172 AACTATTTAC
6148182 TCTCTTTTAAATAAAGAGATAATAAA
1 TCTCTTTT-AATAAAGAGATAATAAA
6148208 TCTCTTTTAAT-AA-A-ATAATTAAA
1 TCTCTTTTAATAAAGAGATAA-TAAA
6148231 TCTCTTTTA
1 TCTCTTTTA
6148240 TCTTTATCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
22 4 0.13
23 14 0.45
24 2 0.06
25 3 0.10
26 8 0.26
ACGTcount: A:0.43, C:0.10, G:0.03, T:0.43
Consensus pattern (25 bp):
TCTCTTTTAATAAAGAGATAATAAA
Found at i:6160755 original size:2 final size:2
Alignment explanation
Indices: 6160743--6160774 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
6160733 TGTATTTTAA
*
6160743 AT AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6160775 CTTAACATTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:6162226 original size:30 final size:30
Alignment explanation
Indices: 6162190--6162246 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
6162180 AGATAAATTA
6162190 AAAAACTTTTTCAAGAACCATGTTAATATT
1 AAAAACTTTTTCAAGAACCATGTTAATATT
* *
6162220 AAAAACTTTTTCAAGTACTATGTTAAT
1 AAAAACTTTTTCAAGAACCATGTTAAT
6162247 GGTGATATCG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.42, C:0.12, G:0.07, T:0.39
Consensus pattern (30 bp):
AAAAACTTTTTCAAGAACCATGTTAATATT
Found at i:6168222 original size:2 final size:2
Alignment explanation
Indices: 6168211--6168252 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
6168201 GCCATCCCTA
6168211 AT AT AT -T AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6168251 AT
1 AT
6168253 GAATAAAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.05
2 36 0.95
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:6168848 original size:17 final size:17
Alignment explanation
Indices: 6168826--6168880 Score: 58
Period size: 17 Copynumber: 3.1 Consensus size: 17
6168816 AAAAAATTAA
6168826 AAGAAAAATAAATAATT
1 AAGAAAAATAAATAATT
*
6168843 AAG-AAAATAAAATAAAAT
1 AAGAAAAAT-AAAT-AATT
*
6168861 AGACAAAAATAAATAATT
1 A-AGAAAAATAAATAATT
6168879 AA
1 AA
6168881 ATGAGAATAG
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
16 5 0.16
17 8 0.26
18 8 0.26
19 5 0.16
20 5 0.16
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.20
Consensus pattern (17 bp):
AAGAAAAATAAATAATT
Found at i:6168860 original size:22 final size:21
Alignment explanation
Indices: 6168781--6168861 Score: 60
Period size: 22 Copynumber: 3.9 Consensus size: 21
6168771 AACATACCTG
*
6168781 AAAAAATAAAATTAGAAT-ATT
1 AAAAAATAAAA-TAAAATAATT
* ** *
6168802 ACTAAAATAATCTAAAAAAATT
1 A-AAAAATAAAATAAAATAATT
*
6168824 AAAAGA-AAAAT-AAATAATT
1 AAAAAATAAAATAAAATAATT
6168843 AAGAAAATAAAATAAAATA
1 AA-AAAATAAAATAAAATA
6168862 GACAAAAATA
Statistics
Matches: 44, Mismatches: 11, Indels: 9
0.69 0.17 0.14
Matches are distributed among these distances:
19 9 0.20
20 6 0.14
21 13 0.30
22 16 0.36
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.23
Consensus pattern (21 bp):
AAAAAATAAAATAAAATAATT
Found at i:6169183 original size:19 final size:20
Alignment explanation
Indices: 6169159--6169197 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
6169149 TTAAGCATAA
6169159 AATT-AAATA-AATAAACATG
1 AATTAAAATATAA-AAACATG
6169178 AATTAAAATATAAAAACATG
1 AATTAAAATATAAAAACATG
6169198 GCTAATGTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 12 0.67
21 2 0.11
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.26
Consensus pattern (20 bp):
AATTAAAATATAAAAACATG
Found at i:6172250 original size:20 final size:20
Alignment explanation
Indices: 6172224--6172276 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
6172214 ATTGGGGCCT
6172224 CAGTATCGATACTGACACCTG
1 CAGTATCGATACTGAC-CCTG
* *
6172245 -AGTATCGATATTGGCCCTG
1 CAGTATCGATACTGACCCTG
*
6172264 CAGTATTGATACT
1 CAGTATCGATACT
6172277 CCACTTGGCA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 4 0.15
20 23 0.85
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (20 bp):
CAGTATCGATACTGACCCTG
Found at i:6174025 original size:39 final size:39
Alignment explanation
Indices: 6173977--6174064 Score: 158
Period size: 39 Copynumber: 2.3 Consensus size: 39
6173967 TGCTCGTGAA
*
6173977 GCTCGTTGCTAATCAAGCTCGTTATCTGTTAAGCTTGAT
1 GCTCATTGCTAATCAAGCTCGTTATCTGTTAAGCTTGAT
*
6174016 GCTCATTGCTCATCAAGCTCGTTATCTGTTAAGCTTGAT
1 GCTCATTGCTAATCAAGCTCGTTATCTGTTAAGCTTGAT
6174055 GCTCATTGCT
1 GCTCATTGCT
6174065 TGCCTCGTTG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.39
Consensus pattern (39 bp):
GCTCATTGCTAATCAAGCTCGTTATCTGTTAAGCTTGAT
Found at i:6182094 original size:25 final size:25
Alignment explanation
Indices: 6182069--6182116 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
6182059 ATTTGGGTAT
*
6182069 TTAAAT-TATTTTTTATTTTTAATA
1 TTAAATATATTATTTATTTTTAATA
* *
6182093 TTCAGTATATTATTTATTTTTAAT
1 TTAAATATATTATTTATTTTTAAT
6182117 TTCATGAGGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (25 bp):
TTAAATATATTATTTATTTTTAATA
Found at i:6182149 original size:16 final size:16
Alignment explanation
Indices: 6182128--6182162 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
6182118 TCATGAGGTG
6182128 AAAATAT-ATTATTATA
1 AAAATATAATTATT-TA
6182144 AAAATATAATTATTTA
1 AAAATATAATTATTTA
6182160 AAA
1 AAA
6182163 TAATATCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AAAATATAATTATTTA
Found at i:6189938 original size:16 final size:16
Alignment explanation
Indices: 6189914--6189947 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
6189904 TATCGCCGAC
*
6189914 CAAATTTCACTATTCA
1 CAAAATTCACTATTCA
6189930 CAAAATTCACTATTCA
1 CAAAATTCACTATTCA
6189946 CA
1 CA
6189948 TGAATAGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.41, C:0.26, G:0.00, T:0.32
Consensus pattern (16 bp):
CAAAATTCACTATTCA
Found at i:6193281 original size:2 final size:2
Alignment explanation
Indices: 6193274--6193301 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
6193264 ATGAATTTAG
6193274 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
6193302 TTTTATTAAT
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:6194458 original size:5 final size:5
Alignment explanation
Indices: 6194448--6194475 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
6194438 TAGTACATTT
6194448 GAAGA GAAGA GAAGA GAAGA GAAGA GAA
1 GAAGA GAAGA GAAGA GAAGA GAAGA GAA
6194476 TCGAGCGATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (5 bp):
GAAGA
Found at i:6195080 original size:20 final size:20
Alignment explanation
Indices: 6195028--6195081 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
6195018 AACTTAATAT
*
6195028 TATTATTTTTAAAATATTAAAA
1 TATTATTTTT--ATTATTAAAA
*
6195050 TAATT-TATTTATTATTAAAA
1 T-ATTATTTTTATTATTAAAA
6195070 TATTATTTTTAT
1 TATTATTTTTAT
6195082 AATTTTATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
19 3 0.11
20 16 0.59
22 5 0.19
23 3 0.11
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TATTATTTTTATTATTAAAA
Found at i:6195226 original size:23 final size:22
Alignment explanation
Indices: 6195178--6195227 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
6195168 GTATTATATT
**
6195178 ATATTTTAAAATATTAATTAGT
1 ATATTTTAAAATATTAATTAAA
* *
6195200 ATATTTTAAATATCTTTATTAAA
1 ATATTTTAAA-ATATTAATTAAA
6195223 ATATT
1 ATATT
6195228 ATTATATTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 10 0.43
23 13 0.57
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (22 bp):
ATATTTTAAAATATTAATTAAA
Found at i:6195280 original size:27 final size:29
Alignment explanation
Indices: 6195216--6195288 Score: 98
Period size: 30 Copynumber: 2.6 Consensus size: 29
6195206 TAAATATCTT
*
6195216 TATTAA-AATATTATTATATTATTATTAA
1 TATTAATAATATTATTATATTATTAATAA
6195244 TATATAAATAATATTATTA-ATTATTAATAA
1 TAT-T-AATAATATTATTATATTATTAATAA
6195274 T-TTAATAATATTATT
1 TATTAATAATATTATT
6195289 TCTATGAAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
27 12 0.29
28 4 0.10
29 2 0.05
30 13 0.32
31 10 0.24
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (29 bp):
TATTAATAATATTATTATATTATTAATAA
Found at i:6195417 original size:22 final size:23
Alignment explanation
Indices: 6195389--6195435 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
6195379 TTGATTGTTT
6195389 TATTATAATATTAAAAATA-TAA
1 TATTATAATATTAAAAATATTAA
* *
6195411 TATTATATTATTAGAAATATTAA
1 TATTATAATATTAAAAATATTAA
6195434 TA
1 TA
6195436 AATATATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (23 bp):
TATTATAATATTAAAAATATTAA
Found at i:6195440 original size:22 final size:22
Alignment explanation
Indices: 6195397--6195440 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
6195387 TTTATTATAA
*
6195397 TATTAAAAATATAATATTATAT
1 TATTAAAAATATAATATAATAT
*
6195419 TATTAGAAATATTAATA-AATAT
1 TATTAAAAATA-TAATATAATAT
6195441 ATTTTAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
TATTAAAAATATAATATAATAT
Found at i:6199945 original size:39 final size:39
Alignment explanation
Indices: 6199883--6199993 Score: 147
Period size: 39 Copynumber: 2.8 Consensus size: 39
6199873 TTATTTATAA
* *
6199883 TTCTCAAATTATTTCAC-TCTAACATTCTAAATTCTTAAT
1 TTCTTAAATTATTCCACAT-TAACATTCTAAATTCTTAAT
6199922 TTCTTAAATT-TTGCCACCA-TAACATTCTAAATTCTTAAT
1 TTCTTAAATTATT-CCA-CATTAACATTCTAAATTCTTAAT
*
6199961 TTCTTAAATTATTTCACATTAACATTCTAAATT
1 TTCTTAAATTATTCCACATTAACATTCTAAATT
6199994 ATTTTTTAAC
Statistics
Matches: 64, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
38 4 0.06
39 57 0.89
40 3 0.05
ACGTcount: A:0.34, C:0.19, G:0.01, T:0.46
Consensus pattern (39 bp):
TTCTTAAATTATTCCACATTAACATTCTAAATTCTTAAT
Found at i:6200059 original size:22 final size:22
Alignment explanation
Indices: 6200034--6200102 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 22
6200024 AAAATTGAAA
6200034 TTTAATTATAGTTTTTTTAAAT
1 TTTAATTATAGTTTTTTTAAAT
* *
6200056 TTTAAATA-AGTTTTTTTCAAT
1 TTTAATTATAGTTTTTTTAAAT
*
6200077 TATGTAATT-TA-TTTTTTTAAAC
1 T-T-TAATTATAGTTTTTTTAAAT
6200099 TTTA
1 TTTA
6200103 TGTGTGAATA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
20 2 0.05
21 14 0.36
22 18 0.46
23 5 0.13
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.61
Consensus pattern (22 bp):
TTTAATTATAGTTTTTTTAAAT
Found at i:6200829 original size:2 final size:2
Alignment explanation
Indices: 6200822--6200856 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
6200812 TTAATTAATG
6200822 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6200857 GTTAATATTC
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6201728 original size:21 final size:20
Alignment explanation
Indices: 6201694--6201882 Score: 82
Period size: 21 Copynumber: 9.1 Consensus size: 20
6201684 AATGCGATTT
6201694 TCCAAATT-CGTTGCTATAG
1 TCCAAATTCCGTTGCTATAG
* * *
6201713 TCCAAGTTCGCGTTGCGATTTAT
1 TCCAAATTC-CGTTGC--TATAG
* *
6201736 TCCAAATT-CGTTACGATAG
1 TCCAAATTCCGTTGCTATAG
* * * *
6201755 TCCAAGTTCGCATTGCGATTTAT
1 TCCAAATTC-CGTTGC--TATAG
*
6201778 TCCAAATT-CGTTGCGATAG
1 TCCAAATTCCGTTGCTATAG
* *
6201797 TCCAAATTCACGTTGCGATTTAT
1 TCCAAATTC-CGTTGC--TATAG
*
6201820 TCCAAATT-CGTTGCGATAG
1 TCCAAATTCCGTTGCTATAG
* * *
6201839 TCCAAGTTCTCGTTGCAATTTAT
1 TCCAAATTC-CGTTGC--TATAG
*
6201862 TCCAAATT-CGTTGCGATAG
1 TCCAAATTCCGTTGCTATAG
6201881 TC
1 TC
6201883 TAAAATCGCA
Statistics
Matches: 121, Mismatches: 33, Indels: 32
0.65 0.18 0.17
Matches are distributed among these distances:
19 39 0.32
21 44 0.36
23 38 0.31
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (20 bp):
TCCAAATTCCGTTGCTATAG
Found at i:6201739 original size:42 final size:42
Alignment explanation
Indices: 6201686--6201882 Score: 317
Period size: 42 Copynumber: 4.7 Consensus size: 42
6201676 ACTATCGCAA
*
6201686 TGCGA-TT-TTCCAAATTCGTTGCTATAGTCCAAGTTCGCGT
1 TGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCGT
* *
6201726 TGCGATTTATTCCAAATTCGTTACGATAGTCCAAGTTCGCAT
1 TGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCGT
* *
6201768 TGCGATTTATTCCAAATTCGTTGCGATAGTCCAAATTCACGT
1 TGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCGT
*
6201810 TGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCTCGT
1 TGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCGT
*
6201852 TGCAATTTATTCCAAATTCGTTGCGATAGTC
1 TGCGATTTATTCCAAATTCGTTGCGATAGTC
6201883 TAAAATCGCA
Statistics
Matches: 145, Mismatches: 10, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
40 5 0.03
41 2 0.01
42 138 0.95
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (42 bp):
TGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCGT
Found at i:6202639 original size:6 final size:6
Alignment explanation
Indices: 6202628--6202656 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
6202618 CCGTCTCGTC
6202628 TCGTGG TCGTGG TCGTGG TCGTGG TCGTG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTG
6202657 ATCATACGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.17, G:0.48, T:0.34
Consensus pattern (6 bp):
TCGTGG
Found at i:6202771 original size:19 final size:19
Alignment explanation
Indices: 6202747--6202827 Score: 83
Period size: 19 Copynumber: 4.1 Consensus size: 19
6202737 TCGTTGCGAT
6202747 TTTGGACTATCGCAACGAA
1 TTTGGACTATCGCAACGAA
*
6202766 TTTGGAATAAATCGCAACGCGAA
1 TTTGGACT--ATCGCAA--CGAA
*
6202789 CTTT-GACCATCGCAACGAA
1 -TTTGGACTATCGCAACGAA
*
6202808 CTTGGACTATCGCAACGAA
1 TTTGGACTATCGCAACGAA
6202827 T
1 T
6202828 CGCAACGCGA
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
18 2 0.04
19 25 0.50
21 14 0.28
23 6 0.12
24 3 0.06
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.23
Consensus pattern (19 bp):
TTTGGACTATCGCAACGAA
Found at i:6204431 original size:22 final size:23
Alignment explanation
Indices: 6204388--6204432 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
6204378 CGGATATAGT
* *
6204388 AAATTTTTAAATACTTTCTATAAA
1 AAATTTATAAATA-TTTATATAAA
6204412 AAATTTATAAAT-TTTATATAA
1 AAATTTATAAATATTTATATAA
6204433 GTTTACTCAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 8 0.42
24 11 0.58
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (23 bp):
AAATTTATAAATATTTATATAAA
Found at i:6205911 original size:2 final size:2
Alignment explanation
Indices: 6205906--6205939 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
6205896 ATAAACACAC
6205906 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6205940 GTATGGGCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6207824 original size:22 final size:22
Alignment explanation
Indices: 6207796--6207842 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
6207786 TATTATGTTG
*
6207796 TTTATAATATTTTAGATTATAT
1 TTTATAATATTTTAAATTATAT
6207818 TTTATAATATTTTAAATTATAT
1 TTTATAATATTTTAAATTATAT
6207840 TTT
1 TTT
6207843 TCCTTAATCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (22 bp):
TTTATAATATTTTAAATTATAT
Found at i:6216113 original size:9 final size:9
Alignment explanation
Indices: 6216101--6216134 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
6216091 AAATTTTGGG
6216101 TTTTTTGTT
1 TTTTTTGTT
*
6216110 TTTTTTACTT
1 TTTTTT-GTT
6216120 TTTTTTGTT
1 TTTTTTGTT
6216129 TTTTTT
1 TTTTTT
6216135 AAAATAGCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 14 0.64
10 8 0.36
ACGTcount: A:0.03, C:0.03, G:0.06, T:0.88
Consensus pattern (9 bp):
TTTTTTGTT
Found at i:6229580 original size:15 final size:14
Alignment explanation
Indices: 6229554--6229582 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
6229544 TTCTTTTCAA
6229554 AAAATTTCTTTTTT
1 AAAATTTCTTTTTT
6229568 AAAATTTCTTTTTT
1 AAAATTTCTTTTTT
6229582 A
1 A
6229583 TCATCTATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (14 bp):
AAAATTTCTTTTTT
Found at i:6231485 original size:33 final size:29
Alignment explanation
Indices: 6231458--6231517 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
6231448 GACACGTGTC
6231458 ACCTATAAATGATGTAAACTTTAGACACTT
1 ACCTA-AAATGATGTAAACTTTAGACACTT
* * *
6231488 GCTTAAAATGATGTATACTTTAGACACTT
1 ACCTAAAATGATGTAAACTTTAGACACTT
6231517 A
1 A
6231518 TTTTTAATGA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 23 0.88
30 3 0.12
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (29 bp):
ACCTAAAATGATGTAAACTTTAGACACTT
Found at i:6231537 original size:24 final size:24
Alignment explanation
Indices: 6231510--6231561 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
6231500 GTATACTTTA
* *
6231510 GACACTTATTTTTAATGAAAAATT
1 GACACTTACTTTTAACGAAAAATT
6231534 GACACTTACTTTTAACGAAAAATT
1 GACACTTACTTTTAACGAAAAATT
6231558 GACA
1 GACA
6231562 TTCTTCAAGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.35
Consensus pattern (24 bp):
GACACTTACTTTTAACGAAAAATT
Found at i:6231592 original size:38 final size:38
Alignment explanation
Indices: 6231549--6231624 Score: 116
Period size: 38 Copynumber: 2.0 Consensus size: 38
6231539 TTACTTTTAA
*
6231549 CGAAAAATTGACATTCTTCAAGCACTTATTTTTGTATT
1 CGAAAAATTGACATTCTTCAAACACTTATTTTTGTATT
* * *
6231587 CGAAAATTTGACATTCTTTAAATACTTATTTTTGTATT
1 CGAAAAATTGACATTCTTCAAACACTTATTTTTGTATT
6231625 AAGCAAACTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.32, C:0.13, G:0.09, T:0.46
Consensus pattern (38 bp):
CGAAAAATTGACATTCTTCAAACACTTATTTTTGTATT
Done.