Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015355.1 Kokia drynarioides strain JFW-HI SEQ_130402, 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: 322319
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Warning! 56 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:1293 original size:15 final size:15
Alignment explanation
Indices: 1273--1303 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
1263 CTTGGTTGTG
1273 TGGACATATAGACCT
1 TGGACATATAGACCT
1288 TGGACATATAGACCT
1 TGGACATATAGACCT
1303 T
1 T
1304 ATGTTAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.29
Consensus pattern (15 bp):
TGGACATATAGACCT
Found at i:2223 original size:135 final size:135
Alignment explanation
Indices: 1981--2251 Score: 533
Period size: 135 Copynumber: 2.0 Consensus size: 135
1971 TTCTAAGCAA
1981 TCTAAGGGCTATGAGTTTTATGATCCCGCAATTAGGAATATTTTTTTTAGACGAGAATTGTAACA
1 TCTAAGGGCTATGAGTTTTATGATCCCGCAATTAGGAATATTTTTTTTAGACGAGAATTGTAACA
2046 TTTTTTAGGATGTTGAGTTTGGAGGGAGAAATAAGGTTAGAGACATTGCTTTTGAGGAGGAATTG
66 TTTTTTAGGATGTTGAGTTTGGAGGGAGAAATAAGGTTAGAGACATTGCTTTTGAGGAGGAATTG
2111 AATTC
131 AATTC
*
2116 TCTAAGGGCTATGAGTTTTATGATCTCGCAATTAGGAATATTTTTTTTAGACGAGAATTGTAACA
1 TCTAAGGGCTATGAGTTTTATGATCCCGCAATTAGGAATATTTTTTTTAGACGAGAATTGTAACA
2181 TTTTTTAGGATGTTGAGTTTGGAGGGAGAAATAAGGTTAGAGACATTGCTTTTGAGGAGGAATTG
66 TTTTTTAGGATGTTGAGTTTGGAGGGAGAAATAAGGTTAGAGACATTGCTTTTGAGGAGGAATTG
2246 AATTC
131 AATTC
2251 T
1 T
2252 AACTCAGTTC
Statistics
Matches: 135, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
135 135 1.00
ACGTcount: A:0.30, C:0.08, G:0.26, T:0.37
Consensus pattern (135 bp):
TCTAAGGGCTATGAGTTTTATGATCCCGCAATTAGGAATATTTTTTTTAGACGAGAATTGTAACA
TTTTTTAGGATGTTGAGTTTGGAGGGAGAAATAAGGTTAGAGACATTGCTTTTGAGGAGGAATTG
AATTC
Found at i:14774 original size:25 final size:27
Alignment explanation
Indices: 14741--14795 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
14731 GCTAACCAAT
*
14741 ATCATATTG-CAATTCATTAT-ATTCA
1 ATCAAATTGTCAATTCATTATGATTCA
* *
14766 ATCAAATTGTCATTTCATTATGATTTA
1 ATCAAATTGTCAATTCATTATGATTCA
14793 ATC
1 ATC
14796 CATATCTCAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 8 0.32
26 10 0.40
27 7 0.28
ACGTcount: A:0.35, C:0.15, G:0.05, T:0.45
Consensus pattern (27 bp):
ATCAAATTGTCAATTCATTATGATTCA
Found at i:16962 original size:16 final size:15
Alignment explanation
Indices: 16946--16988 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
16936 CATTATTAAT
16946 TTAAAATTTTATAAA
1 TTAAAATTTTATAAA
***
16961 TTATAAATGACATAAA
1 TTA-AAATTTTATAAA
16977 TTAAAATTTTAT
1 TTAAAATTTTAT
16989 CACTTTAAAA
Statistics
Matches: 21, Mismatches: 6, Indels: 2
0.72 0.21 0.07
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (15 bp):
TTAAAATTTTATAAA
Found at i:18479 original size:34 final size:33
Alignment explanation
Indices: 18439--18511 Score: 92
Period size: 34 Copynumber: 2.2 Consensus size: 33
18429 CTGTTTTTGT
* * *
18439 TGTTTTGGTGTTGTGTTTTTACTGTTTTGGTTGA
1 TGTTTTGGTGCTATGTTTTTACTATTTTGG-TGA
* *
18473 TGTTTTGGTGCTATTTTTTTACTATTTTGGTGC
1 TGTTTTGGTGCTATGTTTTTACTATTTTGGTGA
18506 TGTTTT
1 TGTTTT
18512 TATTGTTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 8 0.24
34 26 0.76
ACGTcount: A:0.07, C:0.05, G:0.25, T:0.63
Consensus pattern (33 bp):
TGTTTTGGTGCTATGTTTTTACTATTTTGGTGA
Found at i:18490 original size:12 final size:12
Alignment explanation
Indices: 18475--18536 Score: 56
Period size: 12 Copynumber: 5.3 Consensus size: 12
18465 TTGGTTGATG
*
18475 TTTTGGTGCTAT
1 TTTTGTTGCTAT
*
18487 TTTT-TTACTA-
1 TTTTGTTGCTAT
* *
18497 TTTTGGTGCTGT
1 TTTTGTTGCTAT
* *
18509 TTTTATTGTTAT
1 TTTTGTTGCTAT
18521 TTTTGTTGCTAT
1 TTTTGTTGCTAT
18533 TTTT
1 TTTT
18537 TCTATTATTT
Statistics
Matches: 37, Mismatches: 11, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
10 4 0.11
11 7 0.19
12 26 0.70
ACGTcount: A:0.10, C:0.06, G:0.16, T:0.68
Consensus pattern (12 bp):
TTTTGTTGCTAT
Found at i:18521 original size:23 final size:22
Alignment explanation
Indices: 18475--18547 Score: 74
Period size: 24 Copynumber: 3.2 Consensus size: 22
18465 TTGGTTGATG
18475 TTTTGGTGCTATTTTTTTACTA
1 TTTTGGTGCTATTTTTTTACTA
* **
18497 TTTTGGTGCTGTTTTTATTGTTA
1 TTTTGGTGCTATTTTT-TTACTA
* *
18520 TTTTTGTTGCTATTTTTTCTATTA
1 -TTTTGGTGCTATTTTTT-TACTA
18544 TTTT
1 TTTT
18548 TACTACTGTT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
22 15 0.36
23 9 0.21
24 18 0.43
ACGTcount: A:0.11, C:0.07, G:0.14, T:0.68
Consensus pattern (22 bp):
TTTTGGTGCTATTTTTTTACTA
Found at i:18530 original size:24 final size:23
Alignment explanation
Indices: 18475--18571 Score: 61
Period size: 24 Copynumber: 4.1 Consensus size: 23
18465 TTGGTTGATG
* * **
18475 TTTTGGTGCTATTTTTTTACTA-
1 TTTTGCTGCTGTTTTTTTGTTAT
*
18497 TTTTGGTGCTGTTTTTATTGTTAT
1 TTTTGCTGCTGTTTTT-TTGTTAT
* * *
18521 TTTTGTTGCTATTTTTTCTATTAT
1 TTTTGCTGCTGTTTTTT-TGTTAT
* * *
18545 TTTTACTACTGTTTTGGTTGTTAT
1 TTTTGCTGCTGTTTT-TTTGTTAT
18569 TTT
1 TTT
18572 GATTGTTTGG
Statistics
Matches: 59, Mismatches: 12, Indels: 6
0.77 0.16 0.08
Matches are distributed among these distances:
22 15 0.25
23 5 0.08
24 38 0.64
25 1 0.02
ACGTcount: A:0.11, C:0.07, G:0.14, T:0.67
Consensus pattern (23 bp):
TTTTGCTGCTGTTTTTTTGTTAT
Found at i:20441 original size:38 final size:38
Alignment explanation
Indices: 20399--20474 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
20389 AGGATTAATA
* *
20399 ACATCTTTTTTACCACTGGAGCCACTAAATTAAATTTG
1 ACATCTTCTTTACCACCGGAGCCACTAAATTAAATTTG
** *
20437 ACATCTTCTTTACCACCGGAGTTACTATATTAAATTTG
1 ACATCTTCTTTACCACCGGAGCCACTAAATTAAATTTG
20475 TATTTAATTA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.30, C:0.21, G:0.11, T:0.38
Consensus pattern (38 bp):
ACATCTTCTTTACCACCGGAGCCACTAAATTAAATTTG
Found at i:20641 original size:9 final size:9
Alignment explanation
Indices: 20627--20759 Score: 80
Period size: 9 Copynumber: 14.9 Consensus size: 9
20617 ATATTTTTCC
20627 ATAAAAATT
1 ATAAAAATT
*
20636 ATAAAAAATC
1 AT-AAAAATT
*
20646 AAAAAAATT
1 ATAAAAATT
20655 ATAAAAATT
1 ATAAAAATT
*
20664 AT-TAAA-T
1 ATAAAAATT
*
20671 ATGAAAA-T
1 ATAAAAATT
*
20679 ATGAAAATT
1 ATAAAAATT
20688 -TACATAAACTT
1 ATA-A-AAA-TT
*
20699 ATAAATATT
1 ATAAAAATT
20708 ATAAAAA-T
1 ATAAAAATT
**
20716 ATAAGTATT
1 ATAAAAATT
*
20725 ATAAATATT
1 ATAAAAATT
*
20734 -TAAAAAAT
1 ATAAAAATT
*
20742 CTAATAAATT
1 ATAA-AAATT
20752 ATAAAAAT
1 ATAAAAAT
20760 ATTTAAATTT
Statistics
Matches: 98, Mismatches: 16, Indels: 20
0.73 0.12 0.15
Matches are distributed among these distances:
7 3 0.03
8 27 0.28
9 44 0.45
10 19 0.19
11 3 0.03
12 2 0.02
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (9 bp):
ATAAAAATT
Found at i:35687 original size:14 final size:14
Alignment explanation
Indices: 35665--35694 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
35655 AAATTATTAT
*
35665 TTAATTAATTGAAA
1 TTAAATAATTGAAA
35679 TTAAATAATTGAAA
1 TTAAATAATTGAAA
35693 TT
1 TT
35695 TGAATTGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (14 bp):
TTAAATAATTGAAA
Found at i:35868 original size:20 final size:20
Alignment explanation
Indices: 35827--35868 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
35817 AATAATTTAA
* * *
35827 TTTGATAAAATAAATAATAT
1 TTTGAAAAAATAAAAAAAAT
35847 TTTGAAAAAATAAAAAAAAT
1 TTTGAAAAAATAAAAAAAAT
35867 TT
1 TT
35869 AAATATTGAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.36
Consensus pattern (20 bp):
TTTGAAAAAATAAAAAAAAT
Found at i:54034 original size:28 final size:28
Alignment explanation
Indices: 53998--54052 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
53988 AAATAAGCAT
*
53998 CATGACCTTTGGGTCAACAGGGAGTAAG
1 CATGACCTTTGGGTCAACAAGGAGTAAG
54026 CATGACCTTTGGGTCAACAAGGAGTAA
1 CATGACCTTTGGGTCAACAAGGAGTAA
54053 ATTGAATATC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.31, C:0.18, G:0.29, T:0.22
Consensus pattern (28 bp):
CATGACCTTTGGGTCAACAAGGAGTAAG
Found at i:56974 original size:51 final size:51
Alignment explanation
Indices: 56911--57193 Score: 415
Period size: 51 Copynumber: 5.5 Consensus size: 51
56901 GAATCTATAA
* *
56911 ACTCACGGTGACACTTAGTCATCGGACCTTTAATCCATACAA-GATTCATTT
1 ACTCACGATGACACTTAGTCATCGGACCATTAATCCATA-AAGGATTCATTT
* *
56962 ACTCACGATGACACTTAGTCATCAGACCGTTAATCCATAAAGGATTCATTT
1 ACTCACGATGACACTTAGTCATCGGACCATTAATCCATAAAGGATTCATTT
* *
57013 ACTCACGATGACACTTAGTCATCGAACCGTTAATCCATAAAGGATTCATTT
1 ACTCACGATGACACTTAGTCATCGGACCATTAATCCATAAAGGATTCATTT
* *
57064 ACTCACAATGATACTTAGTCATCGGACCATTAATCCATAAAGGATTCATTT
1 ACTCACGATGACACTTAGTCATCGGACCATTAATCCATAAAGGATTCATTT
* * * * *
57115 ACTCACGATAATACTTAGTCATCAGACCATTAATCCATAAAGGATTAATTC
1 ACTCACGATGACACTTAGTCATCGGACCATTAATCCATAAAGGATTCATTT
* *
57166 ACTCATGATGACACTTAGCCATCGGACC
1 ACTCACGATGACACTTAGTCATCGGACC
57194 CTTTCGTTTA
Statistics
Matches: 212, Mismatches: 19, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
50 2 0.01
51 210 0.99
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.29
Consensus pattern (51 bp):
ACTCACGATGACACTTAGTCATCGGACCATTAATCCATAAAGGATTCATTT
Found at i:68287 original size:12 final size:12
Alignment explanation
Indices: 68270--68297 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
68260 ATGCCACCAT
68270 GTCGAGACCGAG
1 GTCGAGACCGAG
68282 GTCGAGACCGAG
1 GTCGAGACCGAG
68294 GTCG
1 GTCG
68298 TACTACTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.21, C:0.25, G:0.43, T:0.11
Consensus pattern (12 bp):
GTCGAGACCGAG
Found at i:83411 original size:30 final size:30
Alignment explanation
Indices: 83363--83582 Score: 273
Period size: 30 Copynumber: 7.3 Consensus size: 30
83353 TAAAAATCAT
*
83363 ATTTTAACCCCT-AACTTTTTCAAAATTAC
1 ATTTTAACCCCTAAACTTTTCCAAAATTAC
* *
83392 ATTTTAACCTCTAAACTTTTCTAAAATTAC
1 ATTTTAACCCCTAAACTTTTCCAAAATTAC
*
83422 ATTTTAACCCCTAAAATTTTCCAAAATTAC
1 ATTTTAACCCCTAAACTTTTCCAAAATTAC
83452 ATTTTAACACCC-AAACTTTTCCAAAATTAC
1 ATTTTAAC-CCCTAAACTTTTCCAAAATTAC
* *
83482 ATTTTAACACCTAAACTTTACCAAAATTAC
1 ATTTTAACCCCTAAACTTTTCCAAAATTAC
* * * *
83512 ATTTTGACCACCCAAACTTTTCCAAAATCAT
1 ATTTTAACC-CCTAAACTTTTCCAAAATTAC
* * ** *
83543 ATTTTGACCCCTAATCTTTTTGAAAATCAC
1 ATTTTAACCCCTAAACTTTTCCAAAATTAC
83573 ATTTTAACCC
1 ATTTTAACCC
83583 TCGAACTTCT
Statistics
Matches: 166, Mismatches: 21, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
29 13 0.08
30 124 0.75
31 29 0.17
ACGTcount: A:0.37, C:0.25, G:0.01, T:0.37
Consensus pattern (30 bp):
ATTTTAACCCCTAAACTTTTCCAAAATTAC
Found at i:83455 original size:60 final size:59
Alignment explanation
Indices: 83363--83607 Score: 276
Period size: 60 Copynumber: 4.1 Consensus size: 59
83353 TAAAAATCAT
* * *
83363 ATTTTAACCCCT-AACTTTTTCAAAATTACATTTTAACCTCTAAACTTTTCTAAAATTAC
1 ATTTTAACCCCTAAACTTTTCCAAAATTACATTTTAACC-CCAAACTTTTCCAAAATTAC
*
83422 ATTTTAACCCCTAAAATTTTCCAAAATTACATTTTAACACCCAAACTTTTCCAAAATTAC
1 ATTTTAACCCCTAAACTTTTCCAAAATTACATTTTAAC-CCCAAACTTTTCCAAAATTAC
* * * * *
83482 ATTTTAACACCTAAACTTTACCAAAATTACATTTTGACCACCCAAACTTTTCCAAAATCAT
1 ATTTTAACCCCTAAACTTTTCCAAAATTACATTTT-AAC-CCCAAACTTTTCCAAAATTAC
* * ** * * * * *
83543 ATTTTGACCCCTAATCTTTTTGAAAATCACATTTTAACCCTCGAACTTCTCTAAAATTTC
1 ATTTTAACCCCTAAACTTTTCCAAAATTACATTTTAACCC-CAAACTTTTCCAAAATTAC
83603 ATTTT
1 ATTTT
83608 CATCTCGAGT
Statistics
Matches: 158, Mismatches: 24, Indels: 7
0.84 0.13 0.04
Matches are distributed among these distances:
59 14 0.09
60 93 0.59
61 51 0.32
ACGTcount: A:0.36, C:0.24, G:0.02, T:0.38
Consensus pattern (59 bp):
ATTTTAACCCCTAAACTTTTCCAAAATTACATTTTAACCCCAAACTTTTCCAAAATTAC
Found at i:83488 original size:90 final size:89
Alignment explanation
Indices: 83355--83607 Score: 301
Period size: 91 Copynumber: 2.8 Consensus size: 89
83345 AAACTTCCTA
* *
83355 AAAATCATATTTTAACCCCTAACTTTTTCAAAATTACATTTTAACCTCTAAACTTTTCTAAAATT
1 AAAATCACATTTTAACCCCAAACTTTTTCAAAATTACATTTTAACC-CTAAACTTTTCTAAAATT
*
83420 ACATTTTAACC-CCTAAAATTTTCC
65 ACATTTTAACCACCCAAAATTTTCC
* * * *
83444 AAAATTACATTTTAACACCCAAACTTTTCCAAAATTACATTTTAACACCTAAACTTTACCAAAAT
1 AAAATCACATTTTAAC-CCCAAACTTTTTCAAAATTACATTTTAAC-CCTAAACTTTTCTAAAAT
* *
83509 TACATTTTGACCACCCAAACTTTTCC
64 TACATTTTAACCACCCAAAATTTTCC
* * * * * * *
83535 AAAATCATATTTTGACCCCTAATCTTTTTGAAAATCACATTTTAACCCTCGAACTTCTCTAAAAT
1 AAAATCACATTTTAACCCC-AAACTTTTTCAAAATTACATTTTAACCCT-AAACTTTTCTAAAAT
*
83600 TTCATTTT
64 TACATTTT
83608 CATCTCGAGT
Statistics
Matches: 138, Mismatches: 21, Indels: 8
0.83 0.13 0.05
Matches are distributed among these distances:
89 14 0.10
90 59 0.43
91 65 0.47
ACGTcount: A:0.37, C:0.24, G:0.02, T:0.38
Consensus pattern (89 bp):
AAAATCACATTTTAACCCCAAACTTTTTCAAAATTACATTTTAACCCTAAACTTTTCTAAAATTA
CATTTTAACCACCCAAAATTTTCC
Found at i:83599 original size:30 final size:29
Alignment explanation
Indices: 83363--83607 Score: 224
Period size: 30 Copynumber: 8.2 Consensus size: 29
83353 TAAAAATCAT
*
83363 ATTTTAACCCCTAACTTTT-TCAAAATTAC
1 ATTTTAACCCCAAACTTTTCT-AAAATTAC
*
83392 ATTTTAACCTCTAAACTTTTCTAAAATTAC
1 ATTTTAACC-CCAAACTTTTCTAAAATTAC
* *
83422 ATTTTAACCCCTAAAATTTTCCAAAATTAC
1 ATTTTAACCCC-AAACTTTTCTAAAATTAC
*
83452 ATTTTAACACCCAAACTTTTCCAAAATTAC
1 ATTTTAAC-CCCAAACTTTTCTAAAATTAC
* * *
83482 ATTTTAACACCTAAACTTTACCAAAATTAC
1 ATTTTAAC-CCCAAACTTTTCTAAAATTAC
* * * *
83512 ATTTTGACCACCCAAACTTTTCCAAAATCAT
1 ATTTT-AAC-CCCAAACTTTTCTAAAATTAC
* * *
83543 ATTTTGACCCCTAATCTTTT-TGAAAATCAC
1 ATTTTAACCCC-AAACTTTTCT-AAAATTAC
* * *
83573 ATTTTAACCCTCGAACTTCTCTAAAATTTC
1 ATTTTAACCC-CAAACTTTTCTAAAATTAC
83603 ATTTT
1 ATTTT
83608 CATCTCGAGT
Statistics
Matches: 183, Mismatches: 24, Indels: 17
0.82 0.11 0.08
Matches are distributed among these distances:
29 13 0.07
30 139 0.76
31 31 0.17
ACGTcount: A:0.36, C:0.24, G:0.02, T:0.38
Consensus pattern (29 bp):
ATTTTAACCCCAAACTTTTCTAAAATTAC
Found at i:88667 original size:18 final size:18
Alignment explanation
Indices: 88646--88683 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
88636 ACCCAAAATA
*
88646 AGAAAAATGAAAAAAAAG
1 AGAAAAAGGAAAAAAAAG
*
88664 AGAAAAAGGAAAAAAGAG
1 AGAAAAAGGAAAAAAAAG
88682 AG
1 AG
88684 GTCGAGGTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.24, T:0.03
Consensus pattern (18 bp):
AGAAAAAGGAAAAAAAAG
Found at i:89869 original size:49 final size:49
Alignment explanation
Indices: 89739--89978 Score: 165
Period size: 49 Copynumber: 4.9 Consensus size: 49
89729 ATCTAGTACC
* * *
89739 ACGATGAACCTTGTACCTCAAAAGCATAAAGGGAAAGATTTAAGCCACA
1 ACGATGAACCTTGTACCTCAGAAGCATAAAGGGAAAGATTTAAGTCGCA
*** ** *
89788 ACGGCAAATCC-AATA-C-CATGAAG-ATTTGAAGGGAAA-AGTTTAAGTCGCA
1 ACGATGAA-CCTTGTACCTCA-GAAGCA--TAAAGGGAAAGA-TTTAAGTCGCA
* * *
89837 ACGACGAACCTTGTACCTCAGAAGCATAAAGGGAAAGATTTAAGCCGTA
1 ACGATGAACCTTGTACCTCAGAAGCATAAAGGGAAAGATTTAAGTCGCA
* * * *
89886 ACGATGAA--TTCGGTACCAC-GAA-AATTTGAAGGGAAAGGTTTAAGTCGCA
1 ACGATGAACCTT--GTACCTCAGAAGCA--TAAAGGGAAAGATTTAAGTCGCA
* * *
89935 ATGGTGAACCTTGTACCTCAAAAGCATAAAGGGAAAGATTTAAG
1 ACGATGAACCTTGTACCTCAGAAGCATAAAGGGAAAGATTTAAG
89979 CCGCGACAGC
Statistics
Matches: 143, Mismatches: 30, Indels: 36
0.68 0.14 0.17
Matches are distributed among these distances:
47 6 0.04
48 10 0.07
49 111 0.78
50 10 0.07
51 6 0.04
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.20
Consensus pattern (49 bp):
ACGATGAACCTTGTACCTCAGAAGCATAAAGGGAAAGATTTAAGTCGCA
Found at i:90004 original size:98 final size:97
Alignment explanation
Indices: 89739--90157 Score: 389
Period size: 98 Copynumber: 4.4 Consensus size: 97
89729 ATCTAGTACC
* * * *
89739 ACGATGAACCTTGTACCTCAAAAGCATAAAGGGAAAGATTTAAGCCACAACGGCAAATCCAATAC
1 ACGATGAACCTTGTACCTCAAAAGCATAAAGGGAAAGATTTAAGCCGCAAC-GCGAATCTAGTAC
* *
89804 CATGAAGATTTGAAGGGAAAAGTTTAAGTCGCA
65 CACGAAGATTTGAAGGGAAAGGTTTAAGTCGCA
* * * * *
89837 ACGACGAACCTTGTACCTCAGAAGCATAAAGGGAAAGATTTAAGCCGTAACGATGAAT-TCGGTA
1 ACGATGAACCTTGTACCTCAAAAGCATAAAGGGAAAGATTTAAGCCGCAACG-CGAATCT-AGTA
*
89901 CCACGAAAATTTGAAGGGAAAGGTTTAAGTCGCA
64 CCACGAAGATTTGAAGGGAAAGGTTTAAGTCGCA
* * * *
89935 ATGGTGAACCTTGTACCTCAAAAGCATAAAGGGAAAGATTTAAGCCGCGACAGCGAATCTAGTAT
1 ACGATGAACCTTGTACCTCAAAAGCATAAAGGGAAAGATTTAAGCCGCAAC-GCGAATCTAGTAC
* * * *
90000 CACGAAGATATGAAGGGAAAGATTTAAGCCACA
65 CACGAAGATTTGAAGGGAAAGGTTTAAGTCGCA
* * ** * * **
90033 AC-AGCGAATCC-AGTA-C-CACGAGGATATGATGGGAAAGATTTAAGTTGCAACGGCGAATCTA
1 ACGA-TGAA-CCTTGTACCTCAAAAGCATA--AAGGGAAAGATTTAAGCCGCAAC-GCGAATCTA
*
90094 GTACCACGAAGATTTAAAGGGAAAGG-TTAA--CG--
61 GTACCACGAAGATTTGAAGGGAAAGGTTTAAGTCGCA
90126 AC---GAACCTTGTACCTCAGAAA-CATAAAGGGAA
1 ACGATGAACCTTGTACCTCA-AAAGCATAAAGGGAA
90158 GGTTGAGGCC
Statistics
Matches: 261, Mismatches: 48, Indels: 32
0.77 0.14 0.09
Matches are distributed among these distances:
89 2 0.01
90 12 0.05
91 1 0.00
92 5 0.02
93 3 0.01
95 1 0.00
96 7 0.03
97 6 0.02
98 220 0.84
99 4 0.02
ACGTcount: A:0.40, C:0.18, G:0.23, T:0.19
Consensus pattern (97 bp):
ACGATGAACCTTGTACCTCAAAAGCATAAAGGGAAAGATTTAAGCCGCAACGCGAATCTAGTACC
ACGAAGATTTGAAGGGAAAGGTTTAAGTCGCA
Found at i:90016 original size:49 final size:49
Alignment explanation
Indices: 89767--90118 Score: 252
Period size: 49 Copynumber: 7.2 Consensus size: 49
89757 CAAAAGCATA
* * * * * * *
89767 AAGGGAAAGATTTAAGCCACAACGGCAAATCCAATACCATGAAGATTTG
1 AAGGGAAAGATTTAAGCCGCAACAGCGAATCTAGTACCACGAAGATATG
* * * *
89816 AAGGGAAA-AGTTTAAGTCGCAAC-GACGAACCTTGTACCTCAGAAGCATA--
1 AAGGGAAAGA-TTTAAGCCGCAACAG-CGAATCTAGTACCAC-GAAG-ATATG
* * * * *
89865 AAGGGAAAGATTTAAGCCGTAAC-GATGAAT-TCGGTACCACGAAAATTTG
1 AAGGGAAAGATTTAAGCCGCAACAG-CGAATCT-AGTACCACGAAGATATG
* * ** * * * * *
89914 AAGGGAAAGGTTTAAGTCGCAATGGTGAACCTTGTACCTCAAAAGCATA--
1 AAGGGAAAGATTTAAGCCGCAACAGCGAATCTAGTACCAC-GAAG-ATATG
* *
89963 AAGGGAAAGATTTAAGCCGCGACAGCGAATCTAGTATCACGAAGATATG
1 AAGGGAAAGATTTAAGCCGCAACAGCGAATCTAGTACCACGAAGATATG
* * *
90012 AAGGGAAAGATTTAAGCCACAACAGCGAATCCAGTACCACGAGGATATG
1 AAGGGAAAGATTTAAGCCGCAACAGCGAATCTAGTACCACGAAGATATG
* ** * * *
90061 ATGGGAAAGATTTAAGTTGCAACGGCGAATCTAGTACCACGAAGATTTA
1 AAGGGAAAGATTTAAGCCGCAACAGCGAATCTAGTACCACGAAGATATG
90110 AAGGGAAAG
1 AAGGGAAAG
90119 GTTAACGACG
Statistics
Matches: 235, Mismatches: 54, Indels: 28
0.74 0.17 0.09
Matches are distributed among these distances:
47 5 0.02
48 9 0.04
49 208 0.89
50 9 0.04
51 4 0.02
ACGTcount: A:0.39, C:0.17, G:0.24, T:0.19
Consensus pattern (49 bp):
AAGGGAAAGATTTAAGCCGCAACAGCGAATCTAGTACCACGAAGATATG
Found at i:90100 original size:196 final size:196
Alignment explanation
Indices: 89743--90121 Score: 455
Period size: 196 Copynumber: 1.9 Consensus size: 196
89733 AGTACCACGA
* *
89743 TGAACCTTGTACCTCAAAAGCATAAAGGGAAAGATTTAAGCCACAACGGCAAATCCAATACCATG
1 TGAACCTTGTACCTCAAAAGCATAAAGGGAAAGATTTAAGCCACAACAGCAAATCCAATACCACG
* * * * *
89808 AAGATTTGAAGGGAAAAGTTTAAGTCGCAACGACGAACCTTGTACCTCAGAAGCATAAAGGGAAA
66 AAGATATGAAGGGAAAAGTTTAAGCCACAACGACGAACCTAGTACCACAGAAGCATAAAGGGAAA
* * * *
89873 GATTTAAGCCGTAACGATGAATTCGGTACCACGAAAATTTGAAGGGAAAGGTTTAAGTCGCAATG
131 GATTTAAGCCGCAACGACGAATTCAGTACCACGAAAATTTAAAGGGAAAGGTTTAAGTCGCAATG
89938 G
196 G
* * * * * *
89939 TGAACCTTGTACCTCAAAAGCATAAAGGGAAAGATTTAAGCCGCGACAGCGAATCTAGTATCACG
1 TGAACCTTGTACCTCAAAAGCATAAAGGGAAAGATTTAAGCCACAACAGCAAATCCAATACCACG
* *
90004 AAGATATGAAGGG-AAAGATTTAAGCCACAAC-AGCGAATCC-AGTACCAC-G-AGGATATGATG
66 AAGATATGAAGGGAAAAG-TTTAAGCCACAACGA-CGAA-CCTAGTACCACAGAAGCATA--AAG
** * *
90064 GGAAAGATTTAAGTTGCAACGGCGAA-TCTAGTACCACGAAGATTTAAAGGGAAAGGTT
126 GGAAAGATTTAAGCCGCAACGACGAATTC-AGTACCACGAAAATTTAAAGGGAAAGGTT
90122 AACGACGAAC
Statistics
Matches: 154, Mismatches: 23, Indels: 12
0.81 0.12 0.06
Matches are distributed among these distances:
194 5 0.03
195 8 0.05
196 139 0.90
197 2 0.01
ACGTcount: A:0.39, C:0.17, G:0.24, T:0.20
Consensus pattern (196 bp):
TGAACCTTGTACCTCAAAAGCATAAAGGGAAAGATTTAAGCCACAACAGCAAATCCAATACCACG
AAGATATGAAGGGAAAAGTTTAAGCCACAACGACGAACCTAGTACCACAGAAGCATAAAGGGAAA
GATTTAAGCCGCAACGACGAATTCAGTACCACGAAAATTTAAAGGGAAAGGTTTAAGTCGCAATG
G
Found at i:90531 original size:40 final size:39
Alignment explanation
Indices: 90474--90552 Score: 113
Period size: 39 Copynumber: 2.0 Consensus size: 39
90464 AAGTTACATC
**
90474 ATCATCCAATCTCTTACCCCGATCATGGGGCAAATTGAAA
1 ATCATCCAATCTCTTA-CCAAATCATGGGGCAAATTGAAA
* *
90514 ATCATCCGATCTTTTACCAAATCATGGGGCAAATTGAAA
1 ATCATCCAATCTCTTACCAAATCATGGGGCAAATTGAAA
90553 CCTCAATTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
39 21 0.60
40 14 0.40
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (39 bp):
ATCATCCAATCTCTTACCAAATCATGGGGCAAATTGAAA
Found at i:92507 original size:30 final size:29
Alignment explanation
Indices: 92383--92590 Score: 183
Period size: 30 Copynumber: 7.1 Consensus size: 29
92373 GCCCAAAAGG
* * * * *
92383 CCCCGAACCTTCCAAAAATTACATTTTGA
1 CCCCAAACTTTCCAAAAATCATATTTTAA
92412 CCCCAAACTTTCCAAAAATCATATTTT-A
1 CCCCAAACTTTCCAAAAATCATATTTTAA
* *
92440 CCCCTAAAC-TTCCAAAATTACAT-TCTTAA
1 CCCC-AAACTTTCCAAAAAT-CATATTTTAA
*
92469 CCCCAAACTTCCCAAAAATCATATTTTAA
1 CCCCAAACTTTCCAAAAATCATATTTTAA
* * *
92498 CCCCTAAACTTTTCC-AAAATTACATTTTGA
1 CCCC-AAAC-TTTCCAAAAATCATATTTTAA
*
92528 CACCCAAACTTTTCC-AAAATCATATTTTGA
1 C-CCCAAAC-TTTCCAAAAATCATATTTTAA
* **
92558 CCCCTAATCTTTTTAAAAATCATATTTTAA
1 CCCC-AAACTTTCCAAAAATCATATTTTAA
92588 CCC
1 CCC
92591 TCGAACTTCT
Statistics
Matches: 150, Mismatches: 19, Indels: 19
0.80 0.10 0.10
Matches are distributed among these distances:
28 24 0.16
29 58 0.39
30 61 0.41
31 7 0.05
ACGTcount: A:0.37, C:0.29, G:0.02, T:0.33
Consensus pattern (29 bp):
CCCCAAACTTTCCAAAAATCATATTTTAA
Found at i:92535 original size:60 final size:58
Alignment explanation
Indices: 92392--92570 Score: 256
Period size: 60 Copynumber: 3.0 Consensus size: 58
92382 GCCCCGAACC
92392 TTCCAAAAATTACATTTTGACCCCAAACTTTCCAAAAATCATATTTTACCCCTAAAC--
1 TTCC-AAAATTACATTTTGACCCCAAACTTTCCAAAAATCATATTTTACCCCTAAACTT
* *
92449 TTCCAAAATTACATTCTTAACCCCAAACTTCCCAAAAATCATATTTTAACCCCTAAACTT
1 TTCCAAAATTACATT-TTGACCCCAAACTTTCCAAAAATCATATTTT-ACCCCTAAACTT
*
92509 TTCCAAAATTACATTTTGACACCCAAACTTTTCC-AAAATCATATTTTGACCCCTAATCTT
1 TTCCAAAATTACATTTTGAC-CCCAAAC-TTTCCAAAAATCATATTTT-ACCCCTAAACTT
92569 TT
1 TT
92571 TAAAAATCAT
Statistics
Matches: 110, Mismatches: 6, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
56 11 0.10
57 33 0.30
58 10 0.09
59 4 0.04
60 48 0.44
61 4 0.04
ACGTcount: A:0.36, C:0.28, G:0.02, T:0.34
Consensus pattern (58 bp):
TTCCAAAATTACATTTTGACCCCAAACTTTCCAAAAATCATATTTTACCCCTAAACTT
Found at i:92585 original size:60 final size:58
Alignment explanation
Indices: 92395--92590 Score: 227
Period size: 60 Copynumber: 3.3 Consensus size: 58
92385 CCGAACCTTC
*
92395 CAAAAATTACATTTTGACCCCAAACTTTCCAAAAATCATATTTTACCCCTAAAC--TT
1 CAAAAATCACATTTTGACCCCAAACTTTCCAAAAATCATATTTTACCCCTAAACTTTT
* * * *
92451 CCAAAATTACATTCTTAACCCCAAACTTCCCAAAAATCATATTTTAACCCCTAAACTTTT
1 CAAAAATCACATT-TTGACCCCAAACTTTCCAAAAATCATATTTT-ACCCCTAAACTTTT
* * *
92511 CCAAAATTACATTTTGACACCCAAACTTTTCC-AAAATCATATTTTGACCCCTAATCTTTT
1 CAAAAATCACATTTTGAC-CCCAAAC-TTTCCAAAAATCATATTTT-ACCCCTAAACTTTT
* * *
92571 TAAAAATCATATTTTAACCC
1 CAAAAATCACATTTTGACCC
92591 TCGAACTTCT
Statistics
Matches: 122, Mismatches: 12, Indels: 9
0.85 0.08 0.06
Matches are distributed among these distances:
56 12 0.10
57 29 0.24
58 10 0.08
59 6 0.05
60 61 0.50
61 4 0.03
ACGTcount: A:0.38, C:0.27, G:0.02, T:0.34
Consensus pattern (58 bp):
CAAAAATCACATTTTGACCCCAAACTTTCCAAAAATCATATTTTACCCCTAAACTTTT
Found at i:94104 original size:32 final size:32
Alignment explanation
Indices: 94065--94133 Score: 95
Period size: 32 Copynumber: 2.2 Consensus size: 32
94055 AAAGGATCCA
* *
94065 ATTTTTTTCAGTTTTTCACGG-GTCCAAAAATT
1 ATTTTTTTCAATTTTT-AAGGTGTCCAAAAATT
*
94097 ATTTTTTTCAATTTTTAAGGTTTCCAAAAATT
1 ATTTTTTTCAATTTTTAAGGTGTCCAAAAATT
94129 ATTTT
1 ATTTT
94134 ACCAACTTTG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
31 3 0.09
32 30 0.91
ACGTcount: A:0.28, C:0.12, G:0.09, T:0.52
Consensus pattern (32 bp):
ATTTTTTTCAATTTTTAAGGTGTCCAAAAATT
Found at i:95006 original size:14 final size:14
Alignment explanation
Indices: 94987--95017 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
94977 ATAGACTAAC
94987 TAATTATATCAAAA
1 TAATTATATCAAAA
95001 TAATTATATCAAAA
1 TAATTATATCAAAA
95015 TAA
1 TAA
95018 CATTTTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (14 bp):
TAATTATATCAAAA
Found at i:95993 original size:18 final size:19
Alignment explanation
Indices: 95955--95999 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
95945 ATAAGAATGA
95955 AAAAATTAAAAGTTTATAT
1 AAAAATTAAAAGTTTATAT
*
95974 AAAAATTAAATGTTTA-AT
1 AAAAATTAAAAGTTTATAT
95992 AATAAATT
1 AA-AAATT
96000 TGATAACTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 4 0.17
19 20 0.83
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (19 bp):
AAAAATTAAAAGTTTATAT
Found at i:96628 original size:13 final size:12
Alignment explanation
Indices: 96588--96621 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
96578 ATAATAATAT
96588 AAATTTTTTATA
1 AAATTTTTTATA
96600 AAATATTTTT-TA
1 AAAT-TTTTTATA
96612 AAATTTTTTA
1 AAATTTTTTA
96622 ATTAAATTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 5 0.25
12 10 0.50
13 5 0.25
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
AAATTTTTTATA
Found at i:98412 original size:22 final size:22
Alignment explanation
Indices: 98365--98412 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
98355 TTCATTGTGG
**
98365 AACTATCTTATGAGAGAGAATG
1 AACTATCTTATGAGAGAGAACA
*
98387 AACTATCTTATGAGAGAGTACA
1 AACTATCTTATGAGAGAGAACA
98409 AACT
1 AACT
98413 GATATTTCAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.27
Consensus pattern (22 bp):
AACTATCTTATGAGAGAGAACA
Found at i:101797 original size:18 final size:18
Alignment explanation
Indices: 101774--101816 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
101764 GAATAATTTT
101774 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
* *
101792 TTAATTCAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
101810 TTAATTA
1 TTAATTA
101817 TAACTGAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:102251 original size:10 final size:10
Alignment explanation
Indices: 102193--102252 Score: 52
Period size: 10 Copynumber: 6.0 Consensus size: 10
102183 TGTTGCCTTC
102193 TAAACTTTTTA
1 TAAA-TTTTTA
102204 TAAA-TTTTA
1 TAAATTTTTA
* *
102213 GAAAATTTTA
1 TAAATTTTTA
*
102223 T-GATTTTTAA
1 TAAATTTTT-A
*
102233 TTAATTTTTA
1 TAAATTTTTA
102243 TAAATTTTTA
1 TAAATTTTTA
102253 ATGCTTTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
9 13 0.32
10 17 0.43
11 10 0.25
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (10 bp):
TAAATTTTTA
Found at i:105357 original size:23 final size:22
Alignment explanation
Indices: 105331--105419 Score: 71
Period size: 23 Copynumber: 4.0 Consensus size: 22
105321 AAATAATTCA
*
105331 TTATAATTTATATTTTAAATATT
1 TTATAAATTA-ATTTTAAATATT
*
105354 TTATAACAATTAATTTTAATTA-T
1 TTAT-A-AATTAATTTTAAATATT
105377 TTATAAAATTTAA-TTTAAATA--
1 TTAT-AAA-TTAATTTTAAATATT
105398 -TATAAATTATATTTTAAATATT
1 TTATAAATTA-ATTTTAAATATT
105420 AAAATATAAT
Statistics
Matches: 56, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
18 3 0.05
19 4 0.07
20 11 0.20
22 9 0.16
23 15 0.27
24 10 0.18
25 4 0.07
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (22 bp):
TTATAAATTAATTTTAAATATT
Found at i:105377 original size:24 final size:23
Alignment explanation
Indices: 105335--105419 Score: 83
Period size: 20 Copynumber: 3.8 Consensus size: 23
105325 AATTCATTAT
105335 AATTTATATTTTAAATATTTTATAA
1 AATTTA-ATTTTAAATA-TTTATAA
*
105360 CAA-TTAATTTTAATTATTTATAA
1 -AATTTAATTTTAAATATTTATAA
105383 AATTTAA-TTTAAATA--TAT-A
1 AATTTAATTTTAAATATTTATAA
105402 AA-TTATATTTTAAATATT
1 AATTTA-ATTTTAAATATT
105420 AAAATATAAT
Statistics
Matches: 52, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
18 3 0.06
19 4 0.08
20 11 0.21
22 9 0.17
23 11 0.21
24 9 0.17
25 3 0.06
26 2 0.04
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (23 bp):
AATTTAATTTTAAATATTTATAA
Found at i:105403 original size:20 final size:20
Alignment explanation
Indices: 105378--105429 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
105368 TTTAATTATT
105378 TATAAAATTTAATTTAAATA
1 TATAAAATTTAATTTAAATA
*
105398 TAT-AAATTATATTTTAAATA
1 TATAAAATT-TAATTTAAATA
*
105418 T-TAAAATATAAT
1 TATAAAATTTAAT
105430 CAACAATAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
19 9 0.33
20 18 0.67
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
TATAAAATTTAATTTAAATA
Found at i:107089 original size:6 final size:7
Alignment explanation
Indices: 107073--107148 Score: 55
Period size: 7 Copynumber: 9.9 Consensus size: 7
107063 GAAGAGAGGG
107073 AAAAATA
1 AAAAATA
107080 AAAAATA
1 AAAAATA
*
107087 AAAGGACGTGA
1 AAA--A-AT-A
107098 AAAAA-A
1 AAAAATA
107104 ATAAAATA
1 A-AAAATA
*
107112 AAAATTA
1 AAAAATA
107119 GAAAAATA
1 -AAAAATA
107127 GAAAAATA
1 -AAAAATA
107135 AAAAATA
1 AAAAATA
107142 AATAAAT
1 AA-AAAT
107149 GTGTCATGTG
Statistics
Matches: 57, Mismatches: 4, Indels: 15
0.75 0.05 0.20
Matches are distributed among these distances:
6 2 0.04
7 28 0.49
8 20 0.35
9 2 0.04
10 1 0.02
11 4 0.07
ACGTcount: A:0.75, C:0.01, G:0.08, T:0.16
Consensus pattern (7 bp):
AAAAATA
Found at i:107124 original size:15 final size:14
Alignment explanation
Indices: 107097--107148 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 14
107087 AAAGGACGTG
107097 AAAAAA-AATAAAAT
1 AAAAAATAA-AAAAT
*
107111 AAAAATTAGAAAAAT
1 AAAAAATA-AAAAAT
107126 AGAAAAATAAAAAAT
1 A-AAAAATAAAAAAT
107141 AAATAAAT
1 AAA-AAAT
107149 GTGTCATGTG
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
14 7 0.22
15 18 0.56
16 7 0.22
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17
Consensus pattern (14 bp):
AAAAAATAAAAAAT
Found at i:110944 original size:278 final size:279
Alignment explanation
Indices: 110442--111001 Score: 1023
Period size: 278 Copynumber: 2.0 Consensus size: 279
110432 TTTTAGTGTA
*
110442 TTTGTGATACATGCACGGATAGAGTGAAATTTATTAAATTTCATTCACTAAAGCTGCCAATTTTC
1 TTTGTGATACATGCACAGATAGAGTGAAATTTATTAAATTTCATTCACTAAAGCTGCCAATTTTC
110507 AAGTTTGGAAAATCAATCAACTTGCGATGACTTTTTGGATTGGATCCAGACATTTCTGAGTTTAG
66 AAGTTTGGAAAATCAATCAACTTGCGATGACTTTTTGGATTGGATCCAGACATTTCTGAGTTTAG
110572 ATGTCTTCAAAGACTTTGAAGATATATCTCTTAGCTTCGAAACGCAGTTTGAATCACCCAATTTT
131 ATGTCTTCAAAGACTTTGAAGATATATCTCTTAGCTTCGAAACGCAGTTTGAATCACCCAATTTT
* * * * *
110637 GAGTTCAGGAGCTTTAGTTATGACCATTTTAGTGAGGATTGCACGAGCAGAATTTTTGGACGGGA
196 GAGTTCAGGAGCTCTAGTTATGACCATTTTAGTGAAGATTGCACAAACAGAATTTTTGGAAGGGA
110702 TTGTTACAGAAATTACGAG
261 TTGTTACAGAAATTACGAG
*
110721 TTTG-GATACATGCACAGATAGGGTGAAATTTATTAAATTTCATTCACTAAAGCTGCCAATTTTC
1 TTTGTGATACATGCACAGATAGAGTGAAATTTATTAAATTTCATTCACTAAAGCTGCCAATTTTC
110785 AAGTTTGGAAAATCAATCAACTTGCGATGACTTTTTGGATTGGATCCAGACATTTCTGAGTTTAG
66 AAGTTTGGAAAATCAATCAACTTGCGATGACTTTTTGGATTGGATCCAGACATTTCTGAGTTTAG
*
110850 ATGTCTTCAAAGACTTTGAAGATATATCTCTTAGCTTCGAAACGCAGTTTGAATCACTCAATTTT
131 ATGTCTTCAAAGACTTTGAAGATATATCTCTTAGCTTCGAAACGCAGTTTGAATCACCCAATTTT
* *
110915 GAGTTCAGGAGCTCTAGTTATGACCATTTTAGTGAAGATTGCGCAAACAGAATTTTTGGAATGGA
196 GAGTTCAGGAGCTCTAGTTATGACCATTTTAGTGAAGATTGCACAAACAGAATTTTTGGAAGGGA
110980 TTGTTACAGAAATTACGAG
261 TTGTTACAGAAATTACGAG
110999 TTT
1 TTT
111002 AAATCTTATT
Statistics
Matches: 271, Mismatches: 10, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
278 267 0.99
279 4 0.01
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.35
Consensus pattern (279 bp):
TTTGTGATACATGCACAGATAGAGTGAAATTTATTAAATTTCATTCACTAAAGCTGCCAATTTTC
AAGTTTGGAAAATCAATCAACTTGCGATGACTTTTTGGATTGGATCCAGACATTTCTGAGTTTAG
ATGTCTTCAAAGACTTTGAAGATATATCTCTTAGCTTCGAAACGCAGTTTGAATCACCCAATTTT
GAGTTCAGGAGCTCTAGTTATGACCATTTTAGTGAAGATTGCACAAACAGAATTTTTGGAAGGGA
TTGTTACAGAAATTACGAG
Found at i:114578 original size:36 final size:36
Alignment explanation
Indices: 114531--114602 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
114521 ACTTGATTAA
*
114531 AATCATCTTAACTTGATTAAAAATTTTTCCAAGAGT
1 AATCATCTTAACTTGATTAAAAAATTTTCCAAGAGT
*
114567 AATCATCTTAACTTGATTAAAAAATTTTCTAAGAGT
1 AATCATCTTAACTTGATTAAAAAATTTTCCAAGAGT
114603 TTCAAAGTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.39
Consensus pattern (36 bp):
AATCATCTTAACTTGATTAAAAAATTTTCCAAGAGT
Found at i:115022 original size:46 final size:46
Alignment explanation
Indices: 114954--115047 Score: 118
Period size: 46 Copynumber: 2.0 Consensus size: 46
114944 ACATAAATAC
* * *
114954 AATCGAAATAGAAGAGAAGAGATGAAGGATTTGAAAT-GATTTCAA
1 AATCAAAATAGAAGAGAAGAGATAAAGGATATGAAATGGATTTCAA
* * *
114999 AATCAAAATAGTAGTAGCAGAGATAAAGGATATGAAATGGGTTTCAA
1 AATCAAAATAGAAG-AGAAGAGATAAAGGATATGAAATGGATTTCAA
115046 AA
1 AA
115048 CCCTAATATT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
45 12 0.29
46 20 0.49
47 9 0.22
ACGTcount: A:0.49, C:0.05, G:0.23, T:0.22
Consensus pattern (46 bp):
AATCAAAATAGAAGAGAAGAGATAAAGGATATGAAATGGATTTCAA
Found at i:115126 original size:16 final size:19
Alignment explanation
Indices: 115106--115146 Score: 54
Period size: 16 Copynumber: 2.4 Consensus size: 19
115096 TTAATTACAC
115106 AATAAATTAA-AT-TTTTT
1 AATAAATTAATATGTTTTT
115123 -ATAAA-TAATATGTTTTT
1 AATAAATTAATATGTTTTT
115140 AATAAAT
1 AATAAAT
115147 AAACAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 6
0.77 0.00 0.23
Matches are distributed among these distances:
15 3 0.15
16 7 0.35
17 5 0.25
18 5 0.25
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (19 bp):
AATAAATTAATATGTTTTT
Found at i:115144 original size:18 final size:16
Alignment explanation
Indices: 115106--115149 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 16
115096 TTAATTACAC
115106 AATAAATTAAATTTTTT
1 AATAAA-TAAATTTTTT
115123 -ATAAATAATATGTTTTT
1 AATAAATAA-AT-TTTTT
115140 AATAAATAAA
1 AATAAATAAA
115150 CAAAATTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
15 3 0.12
16 7 0.29
17 6 0.25
18 8 0.33
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (16 bp):
AATAAATAAATTTTTT
Found at i:115643 original size:14 final size:14
Alignment explanation
Indices: 115624--115651 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
115614 AATAGTGGTA
115624 TAGTTGGAAGGCTT
1 TAGTTGGAAGGCTT
115638 TAGTTGGAAGGCTT
1 TAGTTGGAAGGCTT
115652 AAGCCTATTT
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:0.21, C:0.07, G:0.36, T:0.36
Consensus pattern (14 bp):
TAGTTGGAAGGCTT
Found at i:116165 original size:6 final size:6
Alignment explanation
Indices: 116155--116185 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
116145 CGGCTTAGCA
*
116155 AAAAAA AAAAAG AAAAAG AAAAAG AAAAAG A
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG A
116186 GAAGACTTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:132562 original size:13 final size:13
Alignment explanation
Indices: 132544--132568 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
132534 CTGCGGTTTG
132544 TTCTGAACTTCTT
1 TTCTGAACTTCTT
132557 TTCTGAACTTCT
1 TTCTGAACTTCT
132569 AATTTATCAT
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:0.16, C:0.24, G:0.08, T:0.52
Consensus pattern (13 bp):
TTCTGAACTTCTT
Found at i:135992 original size:40 final size:40
Alignment explanation
Indices: 135921--136000 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 40
135911 ATTAATTGAT
* **
135921 AAGTCATTGCATTAATGTCATGCTAAATCTGATAAGTGTA
1 AAGTCATTGCAGTAATGTCACACTAAATCTGATAAGTGTA
* *
135961 AAGTCATTGCAGTAGTGTCACAC-AAAGTCTGATCAGTGTA
1 AAGTCATTGCAGTAATGTCACACTAAA-TCTGATAAGTGTA
136001 TACTAGTAGT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
39 3 0.09
40 31 0.91
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (40 bp):
AAGTCATTGCAGTAATGTCACACTAAATCTGATAAGTGTA
Found at i:137145 original size:20 final size:20
Alignment explanation
Indices: 137120--137159 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
137110 ATTCCTAGGG
137120 AAGATAAGATAGAATTATTT
1 AAGATAAGATAGAATTATTT
* *
137140 AAGATAAGTTAGCATTATTT
1 AAGATAAGATAGAATTATTT
137160 TTATTTTCAG
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:0.45, C:0.03, G:0.15, T:0.38
Consensus pattern (20 bp):
AAGATAAGATAGAATTATTT
Found at i:143715 original size:67 final size:67
Alignment explanation
Indices: 143623--143774 Score: 193
Period size: 67 Copynumber: 2.3 Consensus size: 67
143613 TATATTCATA
* ** *
143623 AAAT-AATAAATAAATAATAATAATATTATTTTACATTTATTTAT-TTATATTCATACAATAATA
1 AAATAAATAAAAAAATAATAATAATATTATTTTACATTTATTTATCTT-TATAAAAACAATAATA
143686 AAT
65 AAT
* * *
143689 AAATAAATAATAAAATAA-AATTAATATTATTTTATATTTATTTATCTTTATAAAAATAATAATA
1 AAATAAATAAAAAAATAATAA-TAATATTATTTTACATTTATTTATCTTTATAAAAACAATAATA
143753 AAT
65 AAT
143756 AAATAAATAAAAATAATAA
1 AAATAAATAAAAA-AATAA
143775 GAAAAATGGA
Statistics
Matches: 74, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
66 6 0.08
67 61 0.82
68 7 0.09
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (67 bp):
AAATAAATAAAAAAATAATAATAATATTATTTTACATTTATTTATCTTTATAAAAACAATAATAA
AT
Found at i:143781 original size:18 final size:18
Alignment explanation
Indices: 143740--143781 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
143730 TTATCTTTAT
*
143740 AAAAATAATAATAAATAA
1 AAAAATAAAAATAAATAA
*
143758 ATAAATAAAAAT-AATAA
1 AAAAATAAAAATAAATAA
143775 GAAAAAT
1 -AAAAAT
143782 GGAATGGGGT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.21
Consensus pattern (18 bp):
AAAAATAAAAATAAATAA
Found at i:144430 original size:58 final size:58
Alignment explanation
Indices: 144345--144456 Score: 188
Period size: 58 Copynumber: 1.9 Consensus size: 58
144335 TAAGAGATCT
* *
144345 GATGGTCTTCAATCTGCCATCTGGTTAGGGTAAAAGATTGGATTGCTTCAATCTGCCC
1 GATGGTCTTCAATATGCCATCTAGTTAGGGTAAAAGATTGGATTGCTTCAATCTGCCC
* *
144403 GATGGTCTTTAATATGCCCTCTAGTTAGGGTAAAAGATTGGATTGCTTCAATCT
1 GATGGTCTTCAATATGCCATCTAGTTAGGGTAAAAGATTGGATTGCTTCAATCT
144457 ACCCCATAGT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 50 1.00
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (58 bp):
GATGGTCTTCAATATGCCATCTAGTTAGGGTAAAAGATTGGATTGCTTCAATCTGCCC
Found at i:144561 original size:80 final size:79
Alignment explanation
Indices: 144470--145196 Score: 932
Period size: 80 Copynumber: 9.1 Consensus size: 79
144460 CCATAGTCGA
*
144470 GGTAAAAGATTGAATTTCTTCAATCTGCCTCATGATCGGGGTAAAAGATCAGATGATCTTCAATC
1 GGTAAAAGATTGAATTTCTTCAATCTGCC-CATGATCGGGGTAAAAGATCAGATGGTCTTCAATC
*
144535 TTGCCCTTTAGTTAG
65 TTGCCCTCTAGTTAG
* * * * *
144550 GGTAAAAGATTGGATTTCTTCAATCTGTCCCATGATCAGAGTAAAAGATC-GAATGGTTTTCGAT
1 GGTAAAAGATTGAATTTCTTCAATCTG-CCCATGATCGGGGTAAAAGATCAG-ATGGTCTTCAAT
* *
144614 C-TACCC-CATAG-TCG
64 CTTGCCCTC-TAGTTAG
* * *
144628 AGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGGCTTCAAT
1 -GGTAAAAGATTGAATTTCTTCAATCTG-CCCATGATCGGGGTAAAAGATCAGATGGTCTTCAAT
*
144693 TTTGCCCTCTAGTTAG
64 CTTGCCCTCTAGTTAG
* *
144709 AGTAAAAGATT-AGATTTCTTCAATTTGTCCCATGATCGGGGTAAAAGATCAGATGGTCTTCAAT
1 GGTAAAAGATTGA-ATTTCTTCAATCTG-CCCATGATCGGGGTAAAAGATCAGATGGTCTTCAAT
144773 CTTGCCCTCTAGTTAG
64 CTTGCCCTCTAGTTAG
* * *
144789 GGTAAAAGATTGGATTTCTTCAATCAGCCCCATGAT-GGAGGTAAAAGATCGGATGGTCTTCAAT
1 GGTAAAAGATTGAATTTCTTCAATCTG-CCCATGATCGG-GGTAAAAGATCAGATGGTCTTCAAT
* *
144853 CTTGCTCTCTGGTTAG
64 CTTGCCCTCTAGTTAG
*
144869 GGTAAAAGATTGAATTTCTTCAATCTGCCCTATGATCGGGGTAAAAGATCAAATGGTCTTCAATC
1 GGTAAAAGATTGAATTTCTTCAATCTGCCC-ATGATCGGGGTAAAAGATCAGATGGTCTTCAATC
*
144934 TTGCCCTCTGGTTAG
65 TTGCCCTCTAGTTAG
* * *
144949 GGTAAAAGATT-AGATTTCTTCAATCTACCCCATGATCGGGGTAAAATATCGGATGGTCTTCAAT
1 GGTAAAAGATTGA-ATTTCTTCAATCT-GCCCATGATCGGGGTAAAAGATCAGATGGTCTTCAAT
*
145013 CTTGCCCTCTGGTTA-
64 CTTGCCCTCTAGTTAG
* * * * *
145028 GGTAAAATATTGGATTTCTTTAATTTGTCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAATC
1 GGTAAAAGATTGAATTTCTTCAATCTG-CCCATGATCGGGGTAAAAGATCAGATGGTCTTCAATC
*
145093 TTACCCTCTAGTTAG
65 TTGCCCTCTAGTTAG
* *
145108 GGTAAAAGATT-AGATTTCTTCAATCTGCCCCATGATCGAGGTAAAAGATCAGATGGTTTTCAAT
1 GGTAAAAGATTGA-ATTTCTTCAATCTG-CCCATGATCGGGGTAAAAGATCAGATGGTCTTCAAT
*
145172 CTTGCCCTCTGGTTAG
64 CTTGCCCTCTAGTTAG
145188 GGTAAAAGA
1 GGTAAAAGA
145197 CTGGAGGTTA
Statistics
Matches: 568, Mismatches: 60, Indels: 38
0.85 0.09 0.06
Matches are distributed among these distances:
78 2 0.00
79 139 0.24
80 417 0.73
81 10 0.02
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (79 bp):
GGTAAAAGATTGAATTTCTTCAATCTGCCCATGATCGGGGTAAAAGATCAGATGGTCTTCAATCT
TGCCCTCTAGTTAG
Found at i:144742 original size:159 final size:160
Alignment explanation
Indices: 144470--145201 Score: 1046
Period size: 159 Copynumber: 4.6 Consensus size: 160
144460 CCATAGTCGA
* * * *
144470 GGTAAAAGATTGAATTTCTTCAATCTGCCTCATGATCGGGGTAAAAGATCAGATGATCTTCAATC
1 GGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAATC
* * * *
144535 TTGCCCTTTAGTTAGGGTAAAAGATTGGATTTCTTCAATCTGTCCCATGATCAGAGTAAAAGATC
66 TTGCCCTCTGGTTAGGGTAAAAGATTGGATTTCTTCAATCTGTCCCATGATCGGGGTAAAAGATC
* * *
144600 GAATGGTTTTCGATC-TACCC-CATAG-TCG
131 GAATGGTCTTCAATCTTACCCTC-TAGTTAG
*
144628 AGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGGCTTCAAT
1 -GGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAAT
* * * * *
144693 TTTGCCCTCTAGTTAGAGTAAAAGATTAGATTTCTTCAATTTGTCCCATGATCGGGGTAAAAGAT
65 CTTGCCCTCTGGTTAGGGTAAAAGATTGGATTTCTTCAATCTGTCCCATGATCGGGGTAAAAGAT
*
144758 C-AGATGGTCTTCAATCTTGCCCTCTAGTTAG
130 CGA-ATGGTCTTCAATCTTACCCTCTAGTTAG
*
144789 GGTAAAAGATTGGATTTCTTCAATCAGCCCCATGAT-GGAGGTAAAAGATCGGATGGTCTTCAAT
1 GGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGG-GGTAAAAGATCGGATGGTCTTCAAT
* *
144853 CTTGCTCTCTGGTTAGGGTAAAAGATTGAATTTCTTCAATCTG-CCCTATGATCGGGGTAAAAGA
65 CTTGCCCTCTGGTTAGGGTAAAAGATTGGATTTCTTCAATCTGTCCC-ATGATCGGGGTAAAAGA
* * *
144917 TCAAATGGTCTTCAATCTTGCCCTCTGGTTAG
129 TCGAATGGTCTTCAATCTTACCCTCTAGTTAG
* * *
144949 GGTAAAAGATTAGATTTCTTCAATCTACCCCATGATCGGGGTAAAATATCGGATGGTCTTCAATC
1 GGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAATC
* * *
145014 TTGCCCTCTGGTTA-GGTAAAATATTGGATTTCTTTAATTTGTCCCATGATCGGGGTAAAAGATC
66 TTGCCCTCTGGTTAGGGTAAAAGATTGGATTTCTTCAATCTGTCCCATGATCGGGGTAAAAGATC
*
145078 GGATGGTCTTCAATCTTACCCTCTAGTTAG
131 GAATGGTCTTCAATCTTACCCTCTAGTTAG
* * * *
145108 GGTAAAAGATTAGATTTCTTCAATCTGCCCCATGATCGAGGTAAAAGATCAGATGGTTTTCAATC
1 GGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAATC
*
145173 TTGCCCTCTGGTTAGGGTAAAAGACTGGA
66 TTGCCCTCTGGTTAGGGTAAAAGATTGGA
145202 GGTTATAACT
Statistics
Matches: 517, Mismatches: 46, Indels: 19
0.89 0.08 0.03
Matches are distributed among these distances:
158 1 0.00
159 276 0.53
160 234 0.45
161 6 0.01
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (160 bp):
GGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAATC
TTGCCCTCTGGTTAGGGTAAAAGATTGGATTTCTTCAATCTGTCCCATGATCGGGGTAAAAGATC
GAATGGTCTTCAATCTTACCCTCTAGTTAG
Found at i:145153 original size:239 final size:239
Alignment explanation
Indices: 144470--145196 Score: 1061
Period size: 239 Copynumber: 3.0 Consensus size: 239
144460 CCATAGTCGA
* *
144470 GGTAAAAGATT-GAATTTCTTCAATCTGCCTCATGATCGGGGTAAAAGATCAGATGATCTTCAAT
1 GGTAAAAGATTAG-ATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCAGATGGTCTTCAAT
* * *
144534 CTTGCCCTTTAGTTAGGGTAAAAGATTGGATTTCTTCAATCTGTCCCATGATCAGAGTAAAAGAT
65 CTTGCCCTCTAGTTAGGGTAAAAGATTGGATTTCTTCAATCTGTCCCATGATCGGGGTAAAAGAT
* * * *
144599 CGAATGGTTTTCGATC-TACCC-CATAG-TCGAGGTAAAAGATTGGATTTCTTCAATCTGCCCCA
130 CGGATGGTCTTCAATCTTACCCTC-TAGTTAG-GGTAAAAGATT-GATTTCTTCAATCTGCCCCA
* * * *
144661 TGATCGGGGTAAAAGATCGGATGGGCTTCAATTTTGCCCTCTAGTTAG
192 TGATCGGGGTAAAAGATCAGATGGTCTTCAATCTTGCCCTCTGGTTAG
* * *
144709 AGTAAAAGATTAGATTTCTTCAATTTGTCCCATGATCGGGGTAAAAGATCAGATGGTCTTCAATC
1 GGTAAAAGATTAGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCAGATGGTCTTCAATC
* *
144774 TTGCCCTCTAGTTAGGGTAAAAGATTGGATTTCTTCAATCAGCCCCATGAT-GGAGGTAAAAGAT
66 TTGCCCTCTAGTTAGGGTAAAAGATTGGATTTCTTCAATCTGTCCCATGATCGG-GGTAAAAGAT
* * * *
144838 CGGATGGTCTTCAATCTTGCTCTCTGGTTAGGGTAAAAGATTGAATTTCTTCAATCTGCCCTATG
130 CGGATGGTCTTCAATCTTACCCTCTAGTTAGGGTAAAAGATTG-ATTTCTTCAATCTGCCCCATG
*
144903 ATCGGGGTAAAAGATCAAATGGTCTTCAATCTTGCCCTCTGGTTAG
194 ATCGGGGTAAAAGATCAGATGGTCTTCAATCTTGCCCTCTGGTTAG
* * *
144949 GGTAAAAGATTAGATTTCTTCAATCTACCCCATGATCGGGGTAAAATATCGGATGGTCTTCAATC
1 GGTAAAAGATTAGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCAGATGGTCTTCAATC
* * * *
145014 TTGCCCTCTGGTTA-GGTAAAATATTGGATTTCTTTAATTTGTCCCATGATCGGGGTAAAAGATC
66 TTGCCCTCTAGTTAGGGTAAAAGATTGGATTTCTTCAATCTGTCCCATGATCGGGGTAAAAGATC
145078 GGATGGTCTTCAATCTTACCCTCTAGTTAGGGTAAAAGATTAGATTTCTTCAATCTGCCCCATGA
131 GGATGGTCTTCAATCTTACCCTCTAGTTAGGGTAAAAGATT-GATTTCTTCAATCTGCCCCATGA
* *
145143 TCGAGGTAAAAGATCAGATGGTTTTCAATCTTGCCCTCTGGTTAG
195 TCGGGGTAAAAGATCAGATGGTCTTCAATCTTGCCCTCTGGTTAG
145188 GGTAAAAGA
1 GGTAAAAGA
145197 CTGGAGGTTA
Statistics
Matches: 438, Mismatches: 42, Indels: 16
0.88 0.08 0.03
Matches are distributed among these distances:
238 1 0.00
239 281 0.64
240 153 0.35
241 3 0.01
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (239 bp):
GGTAAAAGATTAGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCAGATGGTCTTCAATC
TTGCCCTCTAGTTAGGGTAAAAGATTGGATTTCTTCAATCTGTCCCATGATCGGGGTAAAAGATC
GGATGGTCTTCAATCTTACCCTCTAGTTAGGGTAAAAGATTGATTTCTTCAATCTGCCCCATGAT
CGGGGTAAAAGATCAGATGGTCTTCAATCTTGCCCTCTGGTTAG
Found at i:145418 original size:50 final size:51
Alignment explanation
Indices: 145289--145444 Score: 149
Period size: 50 Copynumber: 3.1 Consensus size: 51
145279 TAAGTGAATG
* * * * * * *
145289 AGATTTGCCATTACAGC-TTCATTCTGCCCCTCTACAGCTTTAGGTGTATG
1 AGATTTGCCATTGCAGCTTTCAATCTGCACCTCCACAGATTTAGCTGTATA
* * *
145339 AGATTTG-CATTG-AGGTTTCAATCTACACCTCCATAGATTTAGCTGTATA
1 AGATTTGCCATTGCAGCTTTCAATCTGCACCTCCACAGATTTAGCTGTATA
* * ** *
145388 AGATTTGCCATTGCA-CTTTCAATCTGCACCTTCACAGCTTTAGGGGTAAA
1 AGATTTGCCATTGCAGCTTTCAATCTGCACCTCCACAGATTTAGCTGTATA
145438 AGATTTG
1 AGATTTG
145445 TTGTTCTATC
Statistics
Matches: 85, Mismatches: 18, Indels: 6
0.78 0.17 0.06
Matches are distributed among these distances:
48 2 0.02
49 36 0.42
50 46 0.54
51 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (51 bp):
AGATTTGCCATTGCAGCTTTCAATCTGCACCTCCACAGATTTAGCTGTATA
Found at i:146363 original size:6 final size:6
Alignment explanation
Indices: 146352--146418 Score: 57
Period size: 6 Copynumber: 11.0 Consensus size: 6
146342 TCGACCTCCG
* * *
146352 CTTTTT CTTTTT CTTTTCTT CTTTTT CCTTTT CTTTTT CTCTTT -TTTTA
1 CTTTTT CTTTTT C-TTT-TT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
*
146401 ATTTTGT CTTTTT -TTTTT
1 CTTTT-T CTTTTT CTTTTT
146419 AACTTCTTCC
Statistics
Matches: 50, Mismatches: 7, Indels: 9
0.76 0.11 0.14
Matches are distributed among these distances:
5 8 0.16
6 29 0.58
7 10 0.20
8 3 0.06
ACGTcount: A:0.03, C:0.16, G:0.01, T:0.79
Consensus pattern (6 bp):
CTTTTT
Found at i:146382 original size:15 final size:14
Alignment explanation
Indices: 146356--146396 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
146346 CCTCCGCTTT
146356 TTCTTTTTCTTTTC
1 TTCTTTTTCTTTTC
146370 TTCTTTTTCCTTTTC
1 TTCTTTTT-CTTTTC
*
146385 TT-TTTCTCTTTT
1 TTCTTTTTCTTTT
146397 TTTAATTTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 5 0.20
14 12 0.48
15 8 0.32
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (14 bp):
TTCTTTTTCTTTTC
Found at i:146398 original size:21 final size:20
Alignment explanation
Indices: 146352--146397 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
146342 TCGACCTCCG
*
146352 CTTTTTCTTTTTCTTTTCTT
1 CTTTTTCCTTTTCTTTTCTT
146372 CTTTTTCCTTTTCTTTT-TCT
1 CTTTTTCCTTTTCTTTTCT-T
146392 CTTTTT
1 CTTTTT
146398 TTAATTTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 1 0.04
20 23 0.96
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (20 bp):
CTTTTTCCTTTTCTTTTCTT
Found at i:149199 original size:23 final size:22
Alignment explanation
Indices: 149167--149216 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 22
149157 GCTGGGGAAA
149167 CAGTAAGCACACACAGTGCAAT
1 CAGTAAGCACACACAGTGCAAT
*
149189 CTAGTAGGCACACACAGTGCAAT
1 C-AGTAAGCACACACAGTGCAAT
149212 CAGTA
1 CAGTA
149217 CGAGCACATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 5 0.19
23 21 0.81
ACGTcount: A:0.38, C:0.26, G:0.20, T:0.16
Consensus pattern (22 bp):
CAGTAAGCACACACAGTGCAAT
Found at i:149389 original size:24 final size:26
Alignment explanation
Indices: 149351--149398 Score: 66
Period size: 24 Copynumber: 1.9 Consensus size: 26
149341 TCTACATGGG
149351 CATAATCTCTCATAT-TCATCATTTCT
1 CATAATCTCTCATATATCA-CATTTCT
149377 CATAAT-T-TCATATATCACATTT
1 CATAATCTCTCATATATCACATTT
149399 ACATTTCTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 11 0.52
25 4 0.19
26 6 0.29
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (26 bp):
CATAATCTCTCATATATCACATTTCT
Found at i:153359 original size:18 final size:18
Alignment explanation
Indices: 153318--153359 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
153308 TTATCTTTAT
*
153318 AAAAATAATAATAAATAA
1 AAAAATAAAAATAAATAA
*
153336 ATAAATAAAAAT-AATAA
1 AAAAATAAAAATAAATAA
153353 GAAAAAT
1 -AAAAAT
153360 GGAATGGGGT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.21
Consensus pattern (18 bp):
AAAAATAAAAATAAATAA
Found at i:154008 original size:58 final size:58
Alignment explanation
Indices: 153923--154034 Score: 188
Period size: 58 Copynumber: 1.9 Consensus size: 58
153913 TAAGAGATCT
* *
153923 GATGGTCTTCAATCTGCCATCTGGTTAGGGTAAAAGATTGGATTGCTTCAATCTGCCC
1 GATGGTCTTCAATATGCCATCTAGTTAGGGTAAAAGATTGGATTGCTTCAATCTGCCC
* *
153981 GATGGTCTTTAATATGCCCTCTAGTTAGGGTAAAAGATTGGATTGCTTCAATCT
1 GATGGTCTTCAATATGCCATCTAGTTAGGGTAAAAGATTGGATTGCTTCAATCT
154035 ACCCCATAGT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 50 1.00
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (58 bp):
GATGGTCTTCAATATGCCATCTAGTTAGGGTAAAAGATTGGATTGCTTCAATCTGCCC
Found at i:154139 original size:80 final size:79
Alignment explanation
Indices: 154048--154774 Score: 932
Period size: 80 Copynumber: 9.1 Consensus size: 79
154038 CCATAGTCGA
*
154048 GGTAAAAGATTGAATTTCTTCAATCTGCCTCATGATCGGGGTAAAAGATCAGATGATCTTCAATC
1 GGTAAAAGATTGAATTTCTTCAATCTGCC-CATGATCGGGGTAAAAGATCAGATGGTCTTCAATC
*
154113 TTGCCCTTTAGTTAG
65 TTGCCCTCTAGTTAG
* * * * *
154128 GGTAAAAGATTGGATTTCTTCAATCTGTCCCATGATCAGAGTAAAAGATC-GAATGGTTTTCGAT
1 GGTAAAAGATTGAATTTCTTCAATCTG-CCCATGATCGGGGTAAAAGATCAG-ATGGTCTTCAAT
* *
154192 C-TACCC-CATAG-TCG
64 CTTGCCCTC-TAGTTAG
* * *
154206 AGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGGCTTCAAT
1 -GGTAAAAGATTGAATTTCTTCAATCTG-CCCATGATCGGGGTAAAAGATCAGATGGTCTTCAAT
*
154271 TTTGCCCTCTAGTTAG
64 CTTGCCCTCTAGTTAG
* *
154287 AGTAAAAGATT-AGATTTCTTCAATTTGTCCCATGATCGGGGTAAAAGATCAGATGGTCTTCAAT
1 GGTAAAAGATTGA-ATTTCTTCAATCTG-CCCATGATCGGGGTAAAAGATCAGATGGTCTTCAAT
154351 CTTGCCCTCTAGTTAG
64 CTTGCCCTCTAGTTAG
* * *
154367 GGTAAAAGATTGGATTTCTTCAATCAGCCCCATGAT-GGAGGTAAAAGATCGGATGGTCTTCAAT
1 GGTAAAAGATTGAATTTCTTCAATCTG-CCCATGATCGG-GGTAAAAGATCAGATGGTCTTCAAT
* *
154431 CTTGCTCTCTGGTTAG
64 CTTGCCCTCTAGTTAG
*
154447 GGTAAAAGATTGAATTTCTTCAATCTGCCCTATGATCGGGGTAAAAGATCAAATGGTCTTCAATC
1 GGTAAAAGATTGAATTTCTTCAATCTGCCC-ATGATCGGGGTAAAAGATCAGATGGTCTTCAATC
*
154512 TTGCCCTCTGGTTAG
65 TTGCCCTCTAGTTAG
* * *
154527 GGTAAAAGATT-AGATTTCTTCAATCTACCCCATGATCGGGGTAAAATATCGGATGGTCTTCAAT
1 GGTAAAAGATTGA-ATTTCTTCAATCT-GCCCATGATCGGGGTAAAAGATCAGATGGTCTTCAAT
*
154591 CTTGCCCTCTGGTTA-
64 CTTGCCCTCTAGTTAG
* * * * *
154606 GGTAAAATATTGGATTTCTTTAATTTGTCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAATC
1 GGTAAAAGATTGAATTTCTTCAATCTG-CCCATGATCGGGGTAAAAGATCAGATGGTCTTCAATC
*
154671 TTACCCTCTAGTTAG
65 TTGCCCTCTAGTTAG
* *
154686 GGTAAAAGATT-AGATTTCTTCAATCTGCCCCATGATCGAGGTAAAAGATCAGATGGTTTTCAAT
1 GGTAAAAGATTGA-ATTTCTTCAATCTG-CCCATGATCGGGGTAAAAGATCAGATGGTCTTCAAT
*
154750 CTTGCCCTCTGGTTAG
64 CTTGCCCTCTAGTTAG
154766 GGTAAAAGA
1 GGTAAAAGA
154775 CTGGAGGTTA
Statistics
Matches: 568, Mismatches: 60, Indels: 38
0.85 0.09 0.06
Matches are distributed among these distances:
78 2 0.00
79 139 0.24
80 417 0.73
81 10 0.02
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (79 bp):
GGTAAAAGATTGAATTTCTTCAATCTGCCCATGATCGGGGTAAAAGATCAGATGGTCTTCAATCT
TGCCCTCTAGTTAG
Found at i:154320 original size:159 final size:160
Alignment explanation
Indices: 154048--154779 Score: 1046
Period size: 159 Copynumber: 4.6 Consensus size: 160
154038 CCATAGTCGA
* * * *
154048 GGTAAAAGATTGAATTTCTTCAATCTGCCTCATGATCGGGGTAAAAGATCAGATGATCTTCAATC
1 GGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAATC
* * * *
154113 TTGCCCTTTAGTTAGGGTAAAAGATTGGATTTCTTCAATCTGTCCCATGATCAGAGTAAAAGATC
66 TTGCCCTCTGGTTAGGGTAAAAGATTGGATTTCTTCAATCTGTCCCATGATCGGGGTAAAAGATC
* * *
154178 GAATGGTTTTCGATC-TACCC-CATAG-TCG
131 GAATGGTCTTCAATCTTACCCTC-TAGTTAG
*
154206 AGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGGCTTCAAT
1 -GGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAAT
* * * * *
154271 TTTGCCCTCTAGTTAGAGTAAAAGATTAGATTTCTTCAATTTGTCCCATGATCGGGGTAAAAGAT
65 CTTGCCCTCTGGTTAGGGTAAAAGATTGGATTTCTTCAATCTGTCCCATGATCGGGGTAAAAGAT
*
154336 C-AGATGGTCTTCAATCTTGCCCTCTAGTTAG
130 CGA-ATGGTCTTCAATCTTACCCTCTAGTTAG
*
154367 GGTAAAAGATTGGATTTCTTCAATCAGCCCCATGAT-GGAGGTAAAAGATCGGATGGTCTTCAAT
1 GGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGG-GGTAAAAGATCGGATGGTCTTCAAT
* *
154431 CTTGCTCTCTGGTTAGGGTAAAAGATTGAATTTCTTCAATCTG-CCCTATGATCGGGGTAAAAGA
65 CTTGCCCTCTGGTTAGGGTAAAAGATTGGATTTCTTCAATCTGTCCC-ATGATCGGGGTAAAAGA
* * *
154495 TCAAATGGTCTTCAATCTTGCCCTCTGGTTAG
129 TCGAATGGTCTTCAATCTTACCCTCTAGTTAG
* * *
154527 GGTAAAAGATTAGATTTCTTCAATCTACCCCATGATCGGGGTAAAATATCGGATGGTCTTCAATC
1 GGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAATC
* * *
154592 TTGCCCTCTGGTTA-GGTAAAATATTGGATTTCTTTAATTTGTCCCATGATCGGGGTAAAAGATC
66 TTGCCCTCTGGTTAGGGTAAAAGATTGGATTTCTTCAATCTGTCCCATGATCGGGGTAAAAGATC
*
154656 GGATGGTCTTCAATCTTACCCTCTAGTTAG
131 GAATGGTCTTCAATCTTACCCTCTAGTTAG
* * * *
154686 GGTAAAAGATTAGATTTCTTCAATCTGCCCCATGATCGAGGTAAAAGATCAGATGGTTTTCAATC
1 GGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAATC
*
154751 TTGCCCTCTGGTTAGGGTAAAAGACTGGA
66 TTGCCCTCTGGTTAGGGTAAAAGATTGGA
154780 GGTTATAACT
Statistics
Matches: 517, Mismatches: 46, Indels: 19
0.89 0.08 0.03
Matches are distributed among these distances:
158 1 0.00
159 276 0.53
160 234 0.45
161 6 0.01
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (160 bp):
GGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAATC
TTGCCCTCTGGTTAGGGTAAAAGATTGGATTTCTTCAATCTGTCCCATGATCGGGGTAAAAGATC
GAATGGTCTTCAATCTTACCCTCTAGTTAG
Found at i:154731 original size:239 final size:239
Alignment explanation
Indices: 154048--154774 Score: 1061
Period size: 239 Copynumber: 3.0 Consensus size: 239
154038 CCATAGTCGA
* *
154048 GGTAAAAGATT-GAATTTCTTCAATCTGCCTCATGATCGGGGTAAAAGATCAGATGATCTTCAAT
1 GGTAAAAGATTAG-ATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCAGATGGTCTTCAAT
* * *
154112 CTTGCCCTTTAGTTAGGGTAAAAGATTGGATTTCTTCAATCTGTCCCATGATCAGAGTAAAAGAT
65 CTTGCCCTCTAGTTAGGGTAAAAGATTGGATTTCTTCAATCTGTCCCATGATCGGGGTAAAAGAT
* * * *
154177 CGAATGGTTTTCGATC-TACCC-CATAG-TCGAGGTAAAAGATTGGATTTCTTCAATCTGCCCCA
130 CGGATGGTCTTCAATCTTACCCTC-TAGTTAG-GGTAAAAGATT-GATTTCTTCAATCTGCCCCA
* * * *
154239 TGATCGGGGTAAAAGATCGGATGGGCTTCAATTTTGCCCTCTAGTTAG
192 TGATCGGGGTAAAAGATCAGATGGTCTTCAATCTTGCCCTCTGGTTAG
* * *
154287 AGTAAAAGATTAGATTTCTTCAATTTGTCCCATGATCGGGGTAAAAGATCAGATGGTCTTCAATC
1 GGTAAAAGATTAGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCAGATGGTCTTCAATC
* *
154352 TTGCCCTCTAGTTAGGGTAAAAGATTGGATTTCTTCAATCAGCCCCATGAT-GGAGGTAAAAGAT
66 TTGCCCTCTAGTTAGGGTAAAAGATTGGATTTCTTCAATCTGTCCCATGATCGG-GGTAAAAGAT
* * * *
154416 CGGATGGTCTTCAATCTTGCTCTCTGGTTAGGGTAAAAGATTGAATTTCTTCAATCTGCCCTATG
130 CGGATGGTCTTCAATCTTACCCTCTAGTTAGGGTAAAAGATTG-ATTTCTTCAATCTGCCCCATG
*
154481 ATCGGGGTAAAAGATCAAATGGTCTTCAATCTTGCCCTCTGGTTAG
194 ATCGGGGTAAAAGATCAGATGGTCTTCAATCTTGCCCTCTGGTTAG
* * *
154527 GGTAAAAGATTAGATTTCTTCAATCTACCCCATGATCGGGGTAAAATATCGGATGGTCTTCAATC
1 GGTAAAAGATTAGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCAGATGGTCTTCAATC
* * * *
154592 TTGCCCTCTGGTTA-GGTAAAATATTGGATTTCTTTAATTTGTCCCATGATCGGGGTAAAAGATC
66 TTGCCCTCTAGTTAGGGTAAAAGATTGGATTTCTTCAATCTGTCCCATGATCGGGGTAAAAGATC
154656 GGATGGTCTTCAATCTTACCCTCTAGTTAGGGTAAAAGATTAGATTTCTTCAATCTGCCCCATGA
131 GGATGGTCTTCAATCTTACCCTCTAGTTAGGGTAAAAGATT-GATTTCTTCAATCTGCCCCATGA
* *
154721 TCGAGGTAAAAGATCAGATGGTTTTCAATCTTGCCCTCTGGTTAG
195 TCGGGGTAAAAGATCAGATGGTCTTCAATCTTGCCCTCTGGTTAG
154766 GGTAAAAGA
1 GGTAAAAGA
154775 CTGGAGGTTA
Statistics
Matches: 438, Mismatches: 42, Indels: 16
0.88 0.08 0.03
Matches are distributed among these distances:
238 1 0.00
239 281 0.64
240 153 0.35
241 3 0.01
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (239 bp):
GGTAAAAGATTAGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCAGATGGTCTTCAATC
TTGCCCTCTAGTTAGGGTAAAAGATTGGATTTCTTCAATCTGTCCCATGATCGGGGTAAAAGATC
GGATGGTCTTCAATCTTACCCTCTAGTTAGGGTAAAAGATTGATTTCTTCAATCTGCCCCATGAT
CGGGGTAAAAGATCAGATGGTCTTCAATCTTGCCCTCTGGTTAG
Found at i:154996 original size:50 final size:51
Alignment explanation
Indices: 154867--155022 Score: 149
Period size: 50 Copynumber: 3.1 Consensus size: 51
154857 TAAGTGAATG
* * * * * * *
154867 AGATTTGCCATTACAGC-TTCATTCTGCCCCTCTACAGCTTTAGGTGTATG
1 AGATTTGCCATTGCAGCTTTCAATCTGCACCTCCACAGATTTAGCTGTATA
* * *
154917 AGATTTG-CATTG-AGGTTTCAATCTACACCTCCATAGATTTAGCTGTATA
1 AGATTTGCCATTGCAGCTTTCAATCTGCACCTCCACAGATTTAGCTGTATA
* * ** *
154966 AGATTTGCCATTGCA-CTTTCAATCTGCACCTTCACAGCTTTAGGGGTAAA
1 AGATTTGCCATTGCAGCTTTCAATCTGCACCTCCACAGATTTAGCTGTATA
155016 AGATTTG
1 AGATTTG
155023 TTGTTCTATC
Statistics
Matches: 85, Mismatches: 18, Indels: 6
0.78 0.17 0.06
Matches are distributed among these distances:
48 2 0.02
49 36 0.42
50 46 0.54
51 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (51 bp):
AGATTTGCCATTGCAGCTTTCAATCTGCACCTCCACAGATTTAGCTGTATA
Found at i:155941 original size:6 final size:6
Alignment explanation
Indices: 155930--155996 Score: 57
Period size: 6 Copynumber: 11.0 Consensus size: 6
155920 TCGACCTCCG
* * *
155930 CTTTTT CTTTTT CTTTTCTT CTTTTT CCTTTT CTTTTT CTCTTT -TTTTA
1 CTTTTT CTTTTT C-TTT-TT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
*
155979 ATTTTGT CTTTTT -TTTTT
1 CTTTT-T CTTTTT CTTTTT
155997 AACTTCTTCC
Statistics
Matches: 50, Mismatches: 7, Indels: 9
0.76 0.11 0.14
Matches are distributed among these distances:
5 8 0.16
6 29 0.58
7 10 0.20
8 3 0.06
ACGTcount: A:0.03, C:0.16, G:0.01, T:0.79
Consensus pattern (6 bp):
CTTTTT
Found at i:155960 original size:15 final size:14
Alignment explanation
Indices: 155934--155974 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
155924 CCTCCGCTTT
155934 TTCTTTTTCTTTTC
1 TTCTTTTTCTTTTC
155948 TTCTTTTTCCTTTTC
1 TTCTTTTT-CTTTTC
*
155963 TT-TTTCTCTTTT
1 TTCTTTTTCTTTT
155975 TTTAATTTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 5 0.20
14 12 0.48
15 8 0.32
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (14 bp):
TTCTTTTTCTTTTC
Found at i:155976 original size:21 final size:20
Alignment explanation
Indices: 155930--155975 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
155920 TCGACCTCCG
*
155930 CTTTTTCTTTTTCTTTTCTT
1 CTTTTTCCTTTTCTTTTCTT
155950 CTTTTTCCTTTTCTTTT-TCT
1 CTTTTTCCTTTTCTTTTCT-T
155970 CTTTTT
1 CTTTTT
155976 TTAATTTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 1 0.04
20 23 0.96
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (20 bp):
CTTTTTCCTTTTCTTTTCTT
Found at i:158777 original size:23 final size:22
Alignment explanation
Indices: 158745--158794 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 22
158735 GCTGGGGAAA
158745 CAGTAAGCACACACAGTGCAAT
1 CAGTAAGCACACACAGTGCAAT
*
158767 CTAGTAGGCACACACAGTGCAAT
1 C-AGTAAGCACACACAGTGCAAT
158790 CAGTA
1 CAGTA
158795 CGAGCACATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 5 0.19
23 21 0.81
ACGTcount: A:0.38, C:0.26, G:0.20, T:0.16
Consensus pattern (22 bp):
CAGTAAGCACACACAGTGCAAT
Found at i:158967 original size:24 final size:26
Alignment explanation
Indices: 158929--158976 Score: 66
Period size: 24 Copynumber: 1.9 Consensus size: 26
158919 TCTACATGGG
158929 CATAATCTCTCATAT-TCATCATTTCT
1 CATAATCTCTCATATATCA-CATTTCT
158955 CATAAT-T-TCATATATCACATTT
1 CATAATCTCTCATATATCACATTT
158977 ACATTTCTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 11 0.52
25 4 0.19
26 6 0.29
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (26 bp):
CATAATCTCTCATATATCACATTTCT
Found at i:160182 original size:167 final size:168
Alignment explanation
Indices: 159990--160322 Score: 641
Period size: 167 Copynumber: 2.0 Consensus size: 168
159980 AAAAAAAATA
159990 TATTCACATTAAAAATCATTCTAACATATCATAATCTATGTTTCTAAACCAAAACTAACATGTAT
1 TATTCACATTAAAAATCATTCTAACATATCATAATCTATGTTTCTAAACCAAAACTAACATGTAT
*
160055 TTAAAGAGGAGTTTAGCTTTCTTACCTTAATCACTTGTATTCAACACTAATTCCCATTTTCTTTC
66 TTAAAGAGGAGTTTAGCTTTCTTACCTTAATCACATGTATTCAACACTAATTCCCATTTTCTTTC
160120 TCCTCCAAGACAAGTATAGATGCATTTCTTTTAACATG
131 TCCTCCAAGACAAGTATAGATGCATTTCTTTTAACATG
160158 TATTCACATT-AAAATCATTCTAACATATCATAATCTATGTTTCTAAACCAAAACTAACATGTAT
1 TATTCACATTAAAAATCATTCTAACATATCATAATCTATGTTTCTAAACCAAAACTAACATGTAT
*
160222 TTAAAGAGGAGTTTAGCTTTCTTATCTTAATCACATGTATTCAACACTAATTCCCATTTTCTTTC
66 TTAAAGAGGAGTTTAGCTTTCTTACCTTAATCACATGTATTCAACACTAATTCCCATTTTCTTTC
160287 TCCTCCAAGACAAGTATAGATGCATTTCTTTTAACA
131 TCCTCCAAGACAAGTATAGATGCATTTCTTTTAACA
160323 ATTGGATAGC
Statistics
Matches: 163, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
167 153 0.94
168 10 0.06
ACGTcount: A:0.34, C:0.20, G:0.08, T:0.38
Consensus pattern (168 bp):
TATTCACATTAAAAATCATTCTAACATATCATAATCTATGTTTCTAAACCAAAACTAACATGTAT
TTAAAGAGGAGTTTAGCTTTCTTACCTTAATCACATGTATTCAACACTAATTCCCATTTTCTTTC
TCCTCCAAGACAAGTATAGATGCATTTCTTTTAACATG
Found at i:163630 original size:18 final size:18
Alignment explanation
Indices: 163589--163630 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
163579 TTATCTTTAT
*
163589 AAAAATAATAATAAATAA
1 AAAAATAAAAATAAATAA
*
163607 ATAAATAAAAAT-AATAA
1 AAAAATAAAAATAAATAA
163624 GAAAAAT
1 -AAAAAT
163631 GGAATGGGGT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.21
Consensus pattern (18 bp):
AAAAATAAAAATAAATAA
Found at i:164279 original size:58 final size:58
Alignment explanation
Indices: 164194--164305 Score: 188
Period size: 58 Copynumber: 1.9 Consensus size: 58
164184 TAAGAGATCT
* *
164194 GATGGTCTTCAATCTGCCATCTGGTTAGGGTAAAAGATTGGATTGCTTCAATCTGCCC
1 GATGGTCTTCAATATGCCATCTAGTTAGGGTAAAAGATTGGATTGCTTCAATCTGCCC
* *
164252 GATGGTCTTTAATATGCCCTCTAGTTAGGGTAAAAGATTGGATTGCTTCAATCT
1 GATGGTCTTCAATATGCCATCTAGTTAGGGTAAAAGATTGGATTGCTTCAATCT
164306 ACCCCATAGT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 50 1.00
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (58 bp):
GATGGTCTTCAATATGCCATCTAGTTAGGGTAAAAGATTGGATTGCTTCAATCTGCCC
Found at i:164410 original size:80 final size:79
Alignment explanation
Indices: 164319--165045 Score: 932
Period size: 80 Copynumber: 9.1 Consensus size: 79
164309 CCATAGTCGA
*
164319 GGTAAAAGATTGAATTTCTTCAATCTGCCTCATGATCGGGGTAAAAGATCAGATGATCTTCAATC
1 GGTAAAAGATTGAATTTCTTCAATCTGCC-CATGATCGGGGTAAAAGATCAGATGGTCTTCAATC
*
164384 TTGCCCTTTAGTTAG
65 TTGCCCTCTAGTTAG
* * * * *
164399 GGTAAAAGATTGGATTTCTTCAATCTGTCCCATGATCAGAGTAAAAGATC-GAATGGTTTTCGAT
1 GGTAAAAGATTGAATTTCTTCAATCTG-CCCATGATCGGGGTAAAAGATCAG-ATGGTCTTCAAT
* *
164463 C-TACCC-CATAG-TCG
64 CTTGCCCTC-TAGTTAG
* * *
164477 AGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGGCTTCAAT
1 -GGTAAAAGATTGAATTTCTTCAATCTG-CCCATGATCGGGGTAAAAGATCAGATGGTCTTCAAT
*
164542 TTTGCCCTCTAGTTAG
64 CTTGCCCTCTAGTTAG
* *
164558 AGTAAAAGATT-AGATTTCTTCAATTTGTCCCATGATCGGGGTAAAAGATCAGATGGTCTTCAAT
1 GGTAAAAGATTGA-ATTTCTTCAATCTG-CCCATGATCGGGGTAAAAGATCAGATGGTCTTCAAT
164622 CTTGCCCTCTAGTTAG
64 CTTGCCCTCTAGTTAG
* * *
164638 GGTAAAAGATTGGATTTCTTCAATCAGCCCCATGAT-GGAGGTAAAAGATCGGATGGTCTTCAAT
1 GGTAAAAGATTGAATTTCTTCAATCTG-CCCATGATCGG-GGTAAAAGATCAGATGGTCTTCAAT
* *
164702 CTTGCTCTCTGGTTAG
64 CTTGCCCTCTAGTTAG
*
164718 GGTAAAAGATTGAATTTCTTCAATCTGCCCTATGATCGGGGTAAAAGATCAAATGGTCTTCAATC
1 GGTAAAAGATTGAATTTCTTCAATCTGCCC-ATGATCGGGGTAAAAGATCAGATGGTCTTCAATC
*
164783 TTGCCCTCTGGTTAG
65 TTGCCCTCTAGTTAG
* * *
164798 GGTAAAAGATT-AGATTTCTTCAATCTACCCCATGATCGGGGTAAAATATCGGATGGTCTTCAAT
1 GGTAAAAGATTGA-ATTTCTTCAATCT-GCCCATGATCGGGGTAAAAGATCAGATGGTCTTCAAT
*
164862 CTTGCCCTCTGGTTA-
64 CTTGCCCTCTAGTTAG
* * * * *
164877 GGTAAAATATTGGATTTCTTTAATTTGTCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAATC
1 GGTAAAAGATTGAATTTCTTCAATCTG-CCCATGATCGGGGTAAAAGATCAGATGGTCTTCAATC
*
164942 TTACCCTCTAGTTAG
65 TTGCCCTCTAGTTAG
* *
164957 GGTAAAAGATT-AGATTTCTTCAATCTGCCCCATGATCGAGGTAAAAGATCAGATGGTTTTCAAT
1 GGTAAAAGATTGA-ATTTCTTCAATCTG-CCCATGATCGGGGTAAAAGATCAGATGGTCTTCAAT
*
165021 CTTGCCCTCTGGTTAG
64 CTTGCCCTCTAGTTAG
165037 GGTAAAAGA
1 GGTAAAAGA
165046 CTGGAGGTTA
Statistics
Matches: 568, Mismatches: 60, Indels: 38
0.85 0.09 0.06
Matches are distributed among these distances:
78 2 0.00
79 139 0.24
80 417 0.73
81 10 0.02
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (79 bp):
GGTAAAAGATTGAATTTCTTCAATCTGCCCATGATCGGGGTAAAAGATCAGATGGTCTTCAATCT
TGCCCTCTAGTTAG
Found at i:164591 original size:159 final size:160
Alignment explanation
Indices: 164319--165050 Score: 1046
Period size: 159 Copynumber: 4.6 Consensus size: 160
164309 CCATAGTCGA
* * * *
164319 GGTAAAAGATTGAATTTCTTCAATCTGCCTCATGATCGGGGTAAAAGATCAGATGATCTTCAATC
1 GGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAATC
* * * *
164384 TTGCCCTTTAGTTAGGGTAAAAGATTGGATTTCTTCAATCTGTCCCATGATCAGAGTAAAAGATC
66 TTGCCCTCTGGTTAGGGTAAAAGATTGGATTTCTTCAATCTGTCCCATGATCGGGGTAAAAGATC
* * *
164449 GAATGGTTTTCGATC-TACCC-CATAG-TCG
131 GAATGGTCTTCAATCTTACCCTC-TAGTTAG
*
164477 AGGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGGCTTCAAT
1 -GGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAAT
* * * * *
164542 TTTGCCCTCTAGTTAGAGTAAAAGATTAGATTTCTTCAATTTGTCCCATGATCGGGGTAAAAGAT
65 CTTGCCCTCTGGTTAGGGTAAAAGATTGGATTTCTTCAATCTGTCCCATGATCGGGGTAAAAGAT
*
164607 C-AGATGGTCTTCAATCTTGCCCTCTAGTTAG
130 CGA-ATGGTCTTCAATCTTACCCTCTAGTTAG
*
164638 GGTAAAAGATTGGATTTCTTCAATCAGCCCCATGAT-GGAGGTAAAAGATCGGATGGTCTTCAAT
1 GGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGG-GGTAAAAGATCGGATGGTCTTCAAT
* *
164702 CTTGCTCTCTGGTTAGGGTAAAAGATTGAATTTCTTCAATCTG-CCCTATGATCGGGGTAAAAGA
65 CTTGCCCTCTGGTTAGGGTAAAAGATTGGATTTCTTCAATCTGTCCC-ATGATCGGGGTAAAAGA
* * *
164766 TCAAATGGTCTTCAATCTTGCCCTCTGGTTAG
129 TCGAATGGTCTTCAATCTTACCCTCTAGTTAG
* * *
164798 GGTAAAAGATTAGATTTCTTCAATCTACCCCATGATCGGGGTAAAATATCGGATGGTCTTCAATC
1 GGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAATC
* * *
164863 TTGCCCTCTGGTTA-GGTAAAATATTGGATTTCTTTAATTTGTCCCATGATCGGGGTAAAAGATC
66 TTGCCCTCTGGTTAGGGTAAAAGATTGGATTTCTTCAATCTGTCCCATGATCGGGGTAAAAGATC
*
164927 GGATGGTCTTCAATCTTACCCTCTAGTTAG
131 GAATGGTCTTCAATCTTACCCTCTAGTTAG
* * * *
164957 GGTAAAAGATTAGATTTCTTCAATCTGCCCCATGATCGAGGTAAAAGATCAGATGGTTTTCAATC
1 GGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAATC
*
165022 TTGCCCTCTGGTTAGGGTAAAAGACTGGA
66 TTGCCCTCTGGTTAGGGTAAAAGATTGGA
165051 GGTTATAACT
Statistics
Matches: 517, Mismatches: 46, Indels: 19
0.89 0.08 0.03
Matches are distributed among these distances:
158 1 0.00
159 276 0.53
160 234 0.45
161 6 0.01
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (160 bp):
GGTAAAAGATTGGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTCAATC
TTGCCCTCTGGTTAGGGTAAAAGATTGGATTTCTTCAATCTGTCCCATGATCGGGGTAAAAGATC
GAATGGTCTTCAATCTTACCCTCTAGTTAG
Found at i:165002 original size:239 final size:239
Alignment explanation
Indices: 164319--165045 Score: 1061
Period size: 239 Copynumber: 3.0 Consensus size: 239
164309 CCATAGTCGA
* *
164319 GGTAAAAGATT-GAATTTCTTCAATCTGCCTCATGATCGGGGTAAAAGATCAGATGATCTTCAAT
1 GGTAAAAGATTAG-ATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCAGATGGTCTTCAAT
* * *
164383 CTTGCCCTTTAGTTAGGGTAAAAGATTGGATTTCTTCAATCTGTCCCATGATCAGAGTAAAAGAT
65 CTTGCCCTCTAGTTAGGGTAAAAGATTGGATTTCTTCAATCTGTCCCATGATCGGGGTAAAAGAT
* * * *
164448 CGAATGGTTTTCGATC-TACCC-CATAG-TCGAGGTAAAAGATTGGATTTCTTCAATCTGCCCCA
130 CGGATGGTCTTCAATCTTACCCTC-TAGTTAG-GGTAAAAGATT-GATTTCTTCAATCTGCCCCA
* * * *
164510 TGATCGGGGTAAAAGATCGGATGGGCTTCAATTTTGCCCTCTAGTTAG
192 TGATCGGGGTAAAAGATCAGATGGTCTTCAATCTTGCCCTCTGGTTAG
* * *
164558 AGTAAAAGATTAGATTTCTTCAATTTGTCCCATGATCGGGGTAAAAGATCAGATGGTCTTCAATC
1 GGTAAAAGATTAGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCAGATGGTCTTCAATC
* *
164623 TTGCCCTCTAGTTAGGGTAAAAGATTGGATTTCTTCAATCAGCCCCATGAT-GGAGGTAAAAGAT
66 TTGCCCTCTAGTTAGGGTAAAAGATTGGATTTCTTCAATCTGTCCCATGATCGG-GGTAAAAGAT
* * * *
164687 CGGATGGTCTTCAATCTTGCTCTCTGGTTAGGGTAAAAGATTGAATTTCTTCAATCTGCCCTATG
130 CGGATGGTCTTCAATCTTACCCTCTAGTTAGGGTAAAAGATTG-ATTTCTTCAATCTGCCCCATG
*
164752 ATCGGGGTAAAAGATCAAATGGTCTTCAATCTTGCCCTCTGGTTAG
194 ATCGGGGTAAAAGATCAGATGGTCTTCAATCTTGCCCTCTGGTTAG
* * *
164798 GGTAAAAGATTAGATTTCTTCAATCTACCCCATGATCGGGGTAAAATATCGGATGGTCTTCAATC
1 GGTAAAAGATTAGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCAGATGGTCTTCAATC
* * * *
164863 TTGCCCTCTGGTTA-GGTAAAATATTGGATTTCTTTAATTTGTCCCATGATCGGGGTAAAAGATC
66 TTGCCCTCTAGTTAGGGTAAAAGATTGGATTTCTTCAATCTGTCCCATGATCGGGGTAAAAGATC
164927 GGATGGTCTTCAATCTTACCCTCTAGTTAGGGTAAAAGATTAGATTTCTTCAATCTGCCCCATGA
131 GGATGGTCTTCAATCTTACCCTCTAGTTAGGGTAAAAGATT-GATTTCTTCAATCTGCCCCATGA
* *
164992 TCGAGGTAAAAGATCAGATGGTTTTCAATCTTGCCCTCTGGTTAG
195 TCGGGGTAAAAGATCAGATGGTCTTCAATCTTGCCCTCTGGTTAG
165037 GGTAAAAGA
1 GGTAAAAGA
165046 CTGGAGGTTA
Statistics
Matches: 438, Mismatches: 42, Indels: 16
0.88 0.08 0.03
Matches are distributed among these distances:
238 1 0.00
239 281 0.64
240 153 0.35
241 3 0.01
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (239 bp):
GGTAAAAGATTAGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCAGATGGTCTTCAATC
TTGCCCTCTAGTTAGGGTAAAAGATTGGATTTCTTCAATCTGTCCCATGATCGGGGTAAAAGATC
GGATGGTCTTCAATCTTACCCTCTAGTTAGGGTAAAAGATTGATTTCTTCAATCTGCCCCATGAT
CGGGGTAAAAGATCAGATGGTCTTCAATCTTGCCCTCTGGTTAG
Found at i:165267 original size:50 final size:51
Alignment explanation
Indices: 165138--165293 Score: 149
Period size: 50 Copynumber: 3.1 Consensus size: 51
165128 TAAGTGAATG
* * * * * * *
165138 AGATTTGCCATTACAGC-TTCATTCTGCCCCTCTACAGCTTTAGGTGTATG
1 AGATTTGCCATTGCAGCTTTCAATCTGCACCTCCACAGATTTAGCTGTATA
* * *
165188 AGATTTG-CATTG-AGGTTTCAATCTACACCTCCATAGATTTAGCTGTATA
1 AGATTTGCCATTGCAGCTTTCAATCTGCACCTCCACAGATTTAGCTGTATA
* * ** *
165237 AGATTTGCCATTGCA-CTTTCAATCTGCACCTTCACAGCTTTAGGGGTAAA
1 AGATTTGCCATTGCAGCTTTCAATCTGCACCTCCACAGATTTAGCTGTATA
165287 AGATTTG
1 AGATTTG
165294 TTGTTCTATC
Statistics
Matches: 85, Mismatches: 18, Indels: 6
0.78 0.17 0.06
Matches are distributed among these distances:
48 2 0.02
49 36 0.42
50 46 0.54
51 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (51 bp):
AGATTTGCCATTGCAGCTTTCAATCTGCACCTCCACAGATTTAGCTGTATA
Found at i:166212 original size:6 final size:6
Alignment explanation
Indices: 166201--166267 Score: 57
Period size: 6 Copynumber: 11.0 Consensus size: 6
166191 TCGACCTCCG
* * *
166201 CTTTTT CTTTTT CTTTTCTT CTTTTT CCTTTT CTTTTT CTCTTT -TTTTA
1 CTTTTT CTTTTT C-TTT-TT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
*
166250 ATTTTGT CTTTTT -TTTTT
1 CTTTT-T CTTTTT CTTTTT
166268 AACTTCTTCC
Statistics
Matches: 50, Mismatches: 7, Indels: 9
0.76 0.11 0.14
Matches are distributed among these distances:
5 8 0.16
6 29 0.58
7 10 0.20
8 3 0.06
ACGTcount: A:0.03, C:0.16, G:0.01, T:0.79
Consensus pattern (6 bp):
CTTTTT
Found at i:166231 original size:15 final size:14
Alignment explanation
Indices: 166205--166245 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
166195 CCTCCGCTTT
166205 TTCTTTTTCTTTTC
1 TTCTTTTTCTTTTC
166219 TTCTTTTTCCTTTTC
1 TTCTTTTT-CTTTTC
*
166234 TT-TTTCTCTTTT
1 TTCTTTTTCTTTT
166246 TTTAATTTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 5 0.20
14 12 0.48
15 8 0.32
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (14 bp):
TTCTTTTTCTTTTC
Found at i:166247 original size:21 final size:20
Alignment explanation
Indices: 166201--166246 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
166191 TCGACCTCCG
*
166201 CTTTTTCTTTTTCTTTTCTT
1 CTTTTTCCTTTTCTTTTCTT
166221 CTTTTTCCTTTTCTTTT-TCT
1 CTTTTTCCTTTTCTTTTCT-T
166241 CTTTTT
1 CTTTTT
166247 TTAATTTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 1 0.04
20 23 0.96
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (20 bp):
CTTTTTCCTTTTCTTTTCTT
Found at i:169048 original size:23 final size:22
Alignment explanation
Indices: 169016--169065 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 22
169006 GCTGGGGAAA
169016 CAGTAAGCACACACAGTGCAAT
1 CAGTAAGCACACACAGTGCAAT
*
169038 CTAGTAGGCACACACAGTGCAAT
1 C-AGTAAGCACACACAGTGCAAT
169061 CAGTA
1 CAGTA
169066 CGAGCACATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 5 0.19
23 21 0.81
ACGTcount: A:0.38, C:0.26, G:0.20, T:0.16
Consensus pattern (22 bp):
CAGTAAGCACACACAGTGCAAT
Found at i:169238 original size:24 final size:26
Alignment explanation
Indices: 169200--169247 Score: 66
Period size: 24 Copynumber: 1.9 Consensus size: 26
169190 TCTACATGGG
169200 CATAATCTCTCATAT-TCATCATTTCT
1 CATAATCTCTCATATATCA-CATTTCT
169226 CATAAT-T-TCATATATCACATTT
1 CATAATCTCTCATATATCACATTT
169248 ACATTTCTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 11 0.52
25 4 0.19
26 6 0.29
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (26 bp):
CATAATCTCTCATATATCACATTTCT
Found at i:174137 original size:63 final size:65
Alignment explanation
Indices: 174038--174173 Score: 222
Period size: 67 Copynumber: 2.1 Consensus size: 65
174028 TTGGTTTGTT
174038 ATTTATTTATTTATATTTAT-AAAAT-AATAAATAAATAATAAAACAAAATTAATATTATTTTAC
1 ATTTATTTATTTATATTTATAAAAATAAATAAATAAATAATAAAACAAAATTAATATTATTTTAC
*
174101 ATTTATTTATTTATATTTATACAATAATAAATAAATAAATAATAAAATAAAATTAATATTATTTT
1 ATTTATTTATTTATATTTATA-AA-AATAAATAAATAAATAATAAAACAAAATTAATATTATTTT
*
174166 AT
64 AC
174168 ATTTAT
1 ATTTAT
174174 AAAAATAATA
Statistics
Matches: 67, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
63 20 0.30
65 2 0.03
66 3 0.04
67 42 0.63
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (65 bp):
ATTTATTTATTTATATTTATAAAAATAAATAAATAAATAATAAAACAAAATTAATATTATTTTAC
Found at i:174205 original size:67 final size:66
Alignment explanation
Indices: 174063--174198 Score: 177
Period size: 67 Copynumber: 2.1 Consensus size: 66
174053 TTTATAAAAT
*** * *
174063 AATAAATAAATAATAAAACAAAATTAATATTATTTTACATTTATTTATTTATATTTATACAATAA
1 AATAAATAAATAATAAAACAAAATTAATATTATTTTACATTTA-TTAAAAATAATAATACAATAA
174128 TA
65 TA
* *
174130 AATAAATAAATAATAAAATAAAATTAATATTATTTTATATTTA-TAAAAATAATAATA-AATAAA
1 AATAAATAAATAATAAAACAAAATTAATATTATTTTACATTTATTAAAAATAATAATACAAT-AA
174193 TA
65 TA
174195 AATA
1 AATA
174199 GAAATAATAA
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
64 3 0.05
65 17 0.28
67 41 0.67
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (66 bp):
AATAAATAAATAATAAAACAAAATTAATATTATTTTACATTTATTAAAAATAATAATACAATAAT
A
Found at i:180871 original size:17 final size:18
Alignment explanation
Indices: 180851--180886 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
180841 TTTTTAAAAA
180851 TATAAAT-TTTGGAATTT
1 TATAAATATTTGGAATTT
*
180868 TATAAATATTTTGAATTT
1 TATAAATATTTGGAATTT
180886 T
1 T
180887 TTTTGTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (18 bp):
TATAAATATTTGGAATTT
Found at i:186975 original size:9 final size:8
Alignment explanation
Indices: 186957--186987 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
186947 TGTGATATTT
*
186957 AAAATTAA
1 AAAAATAA
186965 AAAAATAA
1 AAAAATAA
186973 AAAAATAA
1 AAAAATAA
186981 AAAAATA
1 AAAAATA
186988 CTTGGTATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (8 bp):
AAAAATAA
Found at i:188024 original size:29 final size:29
Alignment explanation
Indices: 187977--188032 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
187967 TGTCAGAAAC
187977 TTTAATAAAAGACACAATTAATATTTATT
1 TTTAATAAAAGACACAATTAATATTTATT
* ** *
188006 TTTAATTAAAGACTTAATTAATTTTTA
1 TTTAATAAAAGACACAATTAATATTTA
188033 ATTATTTTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.46
Consensus pattern (29 bp):
TTTAATAAAAGACACAATTAATATTTATT
Found at i:191877 original size:27 final size:27
Alignment explanation
Indices: 191845--191906 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
191835 CCATAGAATT
191845 TCACTTAAAGTGCT-GTAGTTTAATTAA
1 TCACTTAAAGTGCTAGTA-TTTAATTAA
* *
191872 TCACTTAAAGTGTTATTATTTAATTAA
1 TCACTTAAAGTGCTAGTATTTAATTAA
*
191899 TCAATTAA
1 TCACTTAA
191907 TGACATCAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
27 29 0.94
28 2 0.06
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.44
Consensus pattern (27 bp):
TCACTTAAAGTGCTAGTATTTAATTAA
Found at i:193791 original size:16 final size:16
Alignment explanation
Indices: 193770--193800 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
193760 GAACGTCCTT
193770 TTTTTTCTTTCTTTTC
1 TTTTTTCTTTCTTTTC
*
193786 TTTTTTTTTTCTTTT
1 TTTTTTCTTTCTTTT
193801 TGTTCTTGAT
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:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (16 bp):
TTTTTTCTTTCTTTTC
Found at i:194881 original size:39 final size:39
Alignment explanation
Indices: 194848--195024 Score: 203
Period size: 39 Copynumber: 4.5 Consensus size: 39
194838 ATACTAAATC
* *
194848 GGCAGTGACACTGTAAACACTGTAATGTTATACTGAACT
1 GGCAGTGACACTGTAAACACTGCAATGCTATACTGAACT
* * * * * *
194887 GACACTGACACTGTAAACATTGCAACGATATAATGAACT
1 GGCAGTGACACTGTAAACACTGCAATGCTATACTGAACT
* *
194926 GGCAGTGACACTGTAAACACTGTAATGCTATAATGAACT
1 GGCAGTGACACTGTAAACACTGCAATGCTATACTGAACT
* * * *
194965 AGCGGTGACACTGTATACA-TCGCAATGCTATACTGAAGT
1 GGCAGTGACACTGTAAACACT-GCAATGCTATACTGAACT
*
195004 GGTAGTGACACTGTAAACACT
1 GGCAGTGACACTGTAAACACT
195025 ACTAGGCTGT
Statistics
Matches: 113, Mismatches: 23, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
38 1 0.01
39 111 0.98
40 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.25
Consensus pattern (39 bp):
GGCAGTGACACTGTAAACACTGCAATGCTATACTGAACT
Found at i:194974 original size:78 final size:78
Alignment explanation
Indices: 194848--195024 Score: 239
Period size: 78 Copynumber: 2.3 Consensus size: 78
194838 ATACTAAATC
* * *
194848 GGCAGTGACACTGTAAACACTGTAATGTTATACTGAACTGACACTGACACTGTAAACATTGCAAC
1 GGCAGTGACACTGTAAACACTGTAATGCTATAATGAACTGACACTGACACTGTAAACATCGCAAC
194913 GATATAATGAACT
66 GATATAATGAACT
** *
194926 GGCAGTGACACTGTAAACACTGTAATGCTATAATGAACT-AGCGGTGACACTGTATACATCGCAA
1 GGCAGTGACACTGTAAACACTGTAATGCTATAATGAACTGA-CACTGACACTGTAAACATCGCAA
* * * *
194990 TGCTATACTGAAGT
65 CGATATAATGAACT
*
195004 GGTAGTGACACTGTAAACACT
1 GGCAGTGACACTGTAAACACT
195025 ACTAGGCTGT
Statistics
Matches: 87, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
77 1 0.01
78 86 0.99
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.25
Consensus pattern (78 bp):
GGCAGTGACACTGTAAACACTGTAATGCTATAATGAACTGACACTGACACTGTAAACATCGCAAC
GATATAATGAACT
Found at i:195134 original size:31 final size:31
Alignment explanation
Indices: 195096--195158 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
195086 ACATTATGAG
195096 TTATCATTATATTATGCACTAAACTATTGAA
1 TTATCATTATATTATGCACTAAACTATTGAA
195127 TTATCATTATATTATGCACTAAACTATTGAA
1 TTATCATTATATTATGCACTAAACTATTGAA
195158 T
1 T
195159 GTTGTTTTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.43
Consensus pattern (31 bp):
TTATCATTATATTATGCACTAAACTATTGAA
Found at i:195851 original size:31 final size:31
Alignment explanation
Indices: 195779--195851 Score: 76
Period size: 31 Copynumber: 2.3 Consensus size: 31
195769 GATTAACATT
* * *
195779 TCAAATTTGAAAAGTACAAGAATTAAATTTGA
1 TCAAA-TTAAAAAGTACAAGAACTAAAATTGA
* *
195811 CCAATTTAAAAAGTA-ATAGAACTAAAATTGA
1 TCAAATTAAAAAGTACA-AGAACTAAAATTGA
195842 TCAAATTAAA
1 TCAAATTAAA
195852 GTATAAAGAT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
30 1 0.03
31 29 0.88
32 3 0.09
ACGTcount: A:0.53, C:0.08, G:0.10, T:0.29
Consensus pattern (31 bp):
TCAAATTAAAAAGTACAAGAACTAAAATTGA
Found at i:196923 original size:32 final size:33
Alignment explanation
Indices: 196879--196941 Score: 101
Period size: 32 Copynumber: 1.9 Consensus size: 33
196869 TTTCAAAAAC
196879 CATTATCTTTTATATGTAAAACATTTTAAATAT
1 CATTATCTTTTATATGTAAAACATTTTAAATAT
* *
196912 CATTAT-TTTTATATGTGAAATATTTTAAAT
1 CATTATCTTTTATATGTAAAACATTTTAAAT
196942 TAGTATTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 22 0.79
33 6 0.21
ACGTcount: A:0.38, C:0.06, G:0.05, T:0.51
Consensus pattern (33 bp):
CATTATCTTTTATATGTAAAACATTTTAAATAT
Found at i:196967 original size:13 final size:14
Alignment explanation
Indices: 196951--196980 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
196941 TTAGTATTTC
196951 AAATATAT-ATACA
1 AAATATATAATACA
196964 AAATATATAATACA
1 AAATATATAATACA
196978 AAA
1 AAA
196981 ATTTGTCACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (14 bp):
AAATATATAATACA
Found at i:197865 original size:9 final size:8
Alignment explanation
Indices: 197838--197870 Score: 57
Period size: 8 Copynumber: 4.0 Consensus size: 8
197828 TCATTTTGAC
197838 ATTTTAAA
1 ATTTTAAA
197846 ATTTTAAA
1 ATTTTAAA
197854 ATTTTAAAA
1 ATTTT-AAA
197863 ATTTTAAA
1 ATTTTAAA
197871 TTAGTAAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 16 0.67
9 8 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
ATTTTAAA
Found at i:197872 original size:16 final size:16
Alignment explanation
Indices: 197838--197870 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
197828 TCATTTTGAC
197838 ATTTTAAAATTTTAAA
1 ATTTTAAAATTTTAAA
197854 ATTTTAAAAATTTTAAA
1 ATTTT-AAAATTTTAAA
197871 TTAGTAAAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATTTTAAAATTTTAAA
Found at i:199475 original size:25 final size:24
Alignment explanation
Indices: 199438--199488 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
199428 ATCAGGGTAA
* *
199438 AAAAAATTAAG-AATTAAAATAAAT
1 AAAAAATGAAGAAACTAAAA-AAAT
199462 AAAAAATGATAGAAACTAAAAAAAT
1 AAAAAATGA-AGAAACTAAAAAAAT
199487 AA
1 AA
199489 TTTAAAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 8 0.35
25 8 0.35
26 7 0.30
ACGTcount: A:0.73, C:0.02, G:0.06, T:0.20
Consensus pattern (24 bp):
AAAAAATGAAGAAACTAAAAAAAT
Found at i:207789 original size:40 final size:40
Alignment explanation
Indices: 207733--207815 Score: 148
Period size: 40 Copynumber: 2.1 Consensus size: 40
207723 GGTAGATCCA
*
207733 ACAGCATGCGTTAAATCTTTTGGATCACATTCAGGAGGAT
1 ACAGCATGCGTCAAATCTTTTGGATCACATTCAGGAGGAT
*
207773 ACAGCATGCGTCAAATCTTTTGGGTCACATTCAGGAGGAT
1 ACAGCATGCGTCAAATCTTTTGGATCACATTCAGGAGGAT
207813 ACA
1 ACA
207816 ACCCTAATCA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (40 bp):
ACAGCATGCGTCAAATCTTTTGGATCACATTCAGGAGGAT
Found at i:207827 original size:40 final size:40
Alignment explanation
Indices: 207745--207829 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
207735 AGCATGCGTT
* **
207745 AAATCTTTTGGATCACATTCAGGAGGATACAGCATGCGTC
1 AAATCTTTTGGATCACATTCAGGAGGATACACCATGAATC
* *
207785 AAATCTTTTGGGTCACATTCAGGAGGATACAACCCT-AATC
1 AAATCTTTTGGATCACATTCAGGAGGATAC-ACCATGAATC
207825 AAATC
1 AAATC
207830 CAGTATGGAG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 36 0.92
41 3 0.08
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (40 bp):
AAATCTTTTGGATCACATTCAGGAGGATACACCATGAATC
Found at i:209116 original size:18 final size:18
Alignment explanation
Indices: 209093--209130 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
209083 GTCACATTAT
*
209093 GAGTAAATTTGTCAAGTA
1 GAGTAAATTTATCAAGTA
209111 GAGTAAATTTATCAAGTA
1 GAGTAAATTTATCAAGTA
209129 GA
1 GA
209131 ATATTTCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.05, G:0.21, T:0.32
Consensus pattern (18 bp):
GAGTAAATTTATCAAGTA
Found at i:217663 original size:20 final size:20
Alignment explanation
Indices: 217638--217682 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
217628 GGCACACGGG
217638 CATGTGTCCAAGCCATGTGC
1 CATGTGTCCAAGCCATGTGC
217658 CATGTGTCCAAGCCATGTGC
1 CATGTGTCCAAGCCATGTGC
217678 CATGT
1 CATGT
217683 AAACAAGGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (20 bp):
CATGTGTCCAAGCCATGTGC
Found at i:217689 original size:20 final size:20
Alignment explanation
Indices: 217646--217689 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
217636 GGCATGTGTC
***
217646 CAAGCCATGTGCCATGTGTC
1 CAAGCCATGTGCCATGTAAA
217666 CAAGCCATGTGCCATGTAAA
1 CAAGCCATGTGCCATGTAAA
217686 CAAG
1 CAAG
217690 GTGCAAGGGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.30, C:0.27, G:0.23, T:0.20
Consensus pattern (20 bp):
CAAGCCATGTGCCATGTAAA
Found at i:218296 original size:40 final size:40
Alignment explanation
Indices: 218252--218335 Score: 150
Period size: 40 Copynumber: 2.1 Consensus size: 40
218242 ATATTTACTG
218252 AACTGGTAGTAACACTGTAAACACTGCAAGATTACAACTA
1 AACTGGTAGTAACACTGTAAACACTGCAAGATTACAACTA
* *
218292 AACTGGTAGTGACACTGTAAACACTGCAAGATTACAACTG
1 AACTGGTAGTAACACTGTAAACACTGCAAGATTACAACTA
218332 AACT
1 AACT
218336 AGCAGTTGTA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.23
Consensus pattern (40 bp):
AACTGGTAGTAACACTGTAAACACTGCAAGATTACAACTA
Found at i:218346 original size:35 final size:36
Alignment explanation
Indices: 218267--218355 Score: 108
Period size: 40 Copynumber: 2.4 Consensus size: 36
218257 GTAGTAACAC
* *
218267 TGTAAACACTGCAAGATTACAACTAAACTGGTAGTGACA
1 TGTAAACACTGCAAGATTACAACTAAACTAGCAGT---A
*
218306 CTGTAAACACTGCAAGATTACAACTGAACTAGCAGT-
1 -TGTAAACACTGCAAGATTACAACTAAACTAGCAGTA
218342 TGTAAACACTGCAA
1 TGTAAACACTGCAA
218356 TGTGTCAGAT
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
35 14 0.30
40 32 0.70
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.22
Consensus pattern (36 bp):
TGTAAACACTGCAAGATTACAACTAAACTAGCAGTA
Found at i:220649 original size:21 final size:21
Alignment explanation
Indices: 220625--220664 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
220615 CTTGTGTCGG
220625 TAGAA-GAGTCACTTGTATCAA
1 TAGAACGA-TCACTTGTATCAA
*
220646 TAGAACTATCACTTGTATC
1 TAGAACGATCACTTGTATC
220665 GGTAAAAGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (21 bp):
TAGAACGATCACTTGTATCAA
Found at i:227390 original size:19 final size:20
Alignment explanation
Indices: 227368--227412 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
227358 TATGTCCCCC
* *
227368 CTTTTTTTCTCTC-TATTTT
1 CTTTTATTCGCTCATATTTT
227387 CTTTTATTCGCTCATTATTTT
1 CTTTTATTCGCTCA-TATTTT
227408 CTTTT
1 CTTTT
227413 CTTTTTCATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 11 0.50
21 11 0.50
ACGTcount: A:0.09, C:0.20, G:0.02, T:0.69
Consensus pattern (20 bp):
CTTTTATTCGCTCATATTTT
Found at i:238607 original size:63 final size:63
Alignment explanation
Indices: 238529--238656 Score: 231
Period size: 63 Copynumber: 2.0 Consensus size: 63
238519 TGATTACCAC
*
238529 CTTACACCATGATTATAATCTTAA-TTGTGTTTTTAGTTGAAATGTTTCTCAATTCGAAACTAA
1 CTTACACCATGATTATAATC-TAAGTTGTGGTTTTAGTTGAAATGTTTCTCAATTCGAAACTAA
238592 CTTACACCATGATTATAATCTAAGTTGTGGTTTTAGTTGAAATGTTTCTCAATTCGAAACTAA
1 CTTACACCATGATTATAATCTAAGTTGTGGTTTTAGTTGAAATGTTTCTCAATTCGAAACTAA
238655 CT
1 CT
238657 CAATATATTC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
62 3 0.05
63 60 0.95
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.41
Consensus pattern (63 bp):
CTTACACCATGATTATAATCTAAGTTGTGGTTTTAGTTGAAATGTTTCTCAATTCGAAACTAA
Found at i:239289 original size:22 final size:22
Alignment explanation
Indices: 239263--239311 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
239253 GTGTATTAGA
*
239263 AATTCTAATAGAAACTATGAAG
1 AATTCTAACAGAAACTATGAAG
* * *
239285 AATTCTTACAGAAACTTTTAAG
1 AATTCTAACAGAAACTATGAAG
239307 AATTC
1 AATTC
239312 ATGAAGATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (22 bp):
AATTCTAACAGAAACTATGAAG
Found at i:240692 original size:13 final size:13
Alignment explanation
Indices: 240676--240751 Score: 50
Period size: 13 Copynumber: 5.9 Consensus size: 13
240666 TTTAAACCAA
240676 ACTTTTCAAAAGT
1 ACTTTTCAAAAGT
*
240689 ACTTCTT--AAAGC
1 ACTT-TTCAAAAGT
* *
240701 ACTTTTCCACAGT
1 ACTTTTCAAAAGT
* * *
240714 ACTTATCCACAA-C
1 ACTT-TTCAAAAGT
*
240727 ACTTTTTAAAAGT
1 ACTTTTCAAAAGT
240740 ACTTTTCAAAAG
1 ACTTTTCAAAAG
240752 CAATGCTAAA
Statistics
Matches: 45, Mismatches: 13, Indels: 10
0.66 0.19 0.15
Matches are distributed among these distances:
11 2 0.04
12 12 0.27
13 26 0.58
14 5 0.11
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.36
Consensus pattern (13 bp):
ACTTTTCAAAAGT
Found at i:258659 original size:30 final size:28
Alignment explanation
Indices: 258593--258659 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 28
258583 CATAAATTTG
258593 AAATTTAGTCCCTATACTTTTATTTCTA
1 AAATTTAGTCCCTATACTTTTATTTCTA
*
258621 AGAATTTAGTCCCTCTACTTTTCAAATTTC-A
1 A-AATTTAGTCCCTATACTTTT---ATTTCTA
258652 AAATTTAG
1 AAATTTAG
258660 GTCTAAATGT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
28 1 0.03
29 19 0.56
30 7 0.21
31 2 0.06
32 5 0.15
ACGTcount: A:0.31, C:0.18, G:0.06, T:0.45
Consensus pattern (28 bp):
AAATTTAGTCCCTATACTTTTATTTCTA
Found at i:263614 original size:28 final size:30
Alignment explanation
Indices: 263578--263636 Score: 77
Period size: 28 Copynumber: 2.0 Consensus size: 30
263568 TTTAACCTCT
*
263578 CTCTGAATTCGA-TGATTTG-ATTTTTAAC
1 CTCTAAATTCGATTGATTTGAATTTTTAAC
*
263606 CTCTAAATTCGATTTATTTGAAATTTTTAAC
1 CTCTAAATTCGATTGATTTG-AATTTTTAAC
263637 ACTTGAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 11 0.42
29 6 0.23
31 9 0.35
ACGTcount: A:0.29, C:0.14, G:0.10, T:0.47
Consensus pattern (30 bp):
CTCTAAATTCGATTGATTTGAATTTTTAAC
Found at i:266760 original size:14 final size:14
Alignment explanation
Indices: 266741--266770 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
266731 CCCCCTTTTC
266741 TTTTAATTTAATTA
1 TTTTAATTTAATTA
*
266755 TTTTAATTTTATTA
1 TTTTAATTTAATTA
266769 TT
1 TT
266771 ATTATTCATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTTAATTTAATTA
Found at i:275557 original size:29 final size:27
Alignment explanation
Indices: 275491--275557 Score: 71
Period size: 31 Copynumber: 2.3 Consensus size: 27
275481 GGGTTTCACG
* *
275491 TGTATAATTGCATCAAATTAAATTTCA
1 TGTATAATTGCATCAAATCAAAGTTCA
*
275518 TGTATACAATTGCATATTAAATCAAAGTTCA
1 TGTAT--AATTGC--ATCAAATCAAAGTTCA
275549 TGTATAATT
1 TGTATAATT
275558 TTGATATTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
27 5 0.15
29 10 0.30
31 18 0.55
ACGTcount: A:0.40, C:0.10, G:0.09, T:0.40
Consensus pattern (27 bp):
TGTATAATTGCATCAAATCAAAGTTCA
Found at i:276401 original size:24 final size:23
Alignment explanation
Indices: 276358--276414 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 23
276348 TTTATTTAAT
*
276358 TTCACGAACATTAATCGAACATG
1 TTCACGAACATTAATCGAACACG
* *
276381 TTCATGAACATATAATTGAACACG
1 TTCACGAACAT-TAATCGAACACG
276405 TTCACGAACA
1 TTCACGAACA
276415 AGGTTAATGA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 10 0.34
24 19 0.66
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.26
Consensus pattern (23 bp):
TTCACGAACATTAATCGAACACG
Found at i:276513 original size:12 final size:12
Alignment explanation
Indices: 276496--276530 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
276486 ATCATTAATA
**
276496 AATAAACGAGTT
1 AATAAACGAGCC
276508 AATAAACGAGCC
1 AATAAACGAGCC
276520 AATAAACGAGC
1 AATAAACGAGC
276531 TTGTTCGTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.51, C:0.17, G:0.17, T:0.14
Consensus pattern (12 bp):
AATAAACGAGCC
Found at i:296161 original size:18 final size:18
Alignment explanation
Indices: 296138--296172 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
296128 GCAGGTATTT
296138 GTTCAGTGGATGACGCCA
1 GTTCAGTGGATGACGCCA
*
296156 GTTCAGTGGGTGACGCC
1 GTTCAGTGGATGACGCC
296173 CTCAACTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.23, G:0.37, T:0.23
Consensus pattern (18 bp):
GTTCAGTGGATGACGCCA
Done.