Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 444 of 444
Found at i:129162966 original size:18 final size:18
Alignment explanation
Indices: 129162922--129162972 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
129162912 ATTGTCAAAT
129162922 TTGTAAAATTTGAAAAAA
1 TTGTAAAATTTGAAAAAA
** *
129162940 TTAAAAAATGTGAAAAAA
1 TTGTAAAATTTGAAAAAA
*
129162958 TTGTCAAATTTGAAA
1 TTGTAAAATTTGAAA
129162973 CTAAATATTG
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.55, C:0.02, G:0.12, T:0.31
Consensus pattern (18 bp):
TTGTAAAATTTGAAAAAA
Found at i:129169466 original size:1 final size:1
Alignment explanation
Indices: 129169460--129169494 Score: 70
Period size: 1 Copynumber: 35.0 Consensus size: 1
129169450 ATTAAAAGAT
129169460 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
129169495 CTATTCAGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:129173598 original size:21 final size:21
Alignment explanation
Indices: 129173574--129173615 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
129173564 CTCGAATTCA
129173574 TGATCAATTTCGCATAAAATT
1 TGATCAATTTCGCATAAAATT
129173595 TGATCAATTTCGCATAAAATT
1 TGATCAATTTCGCATAAAATT
129173616 AACAAATCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (21 bp):
TGATCAATTTCGCATAAAATT
Found at i:129175228 original size:78 final size:77
Alignment explanation
Indices: 129175098--129175257 Score: 239
Period size: 78 Copynumber: 2.1 Consensus size: 77
129175088 CAAAAATAAC
*
129175098 ACAAATGTACTAAGTATCCGACATCAAACTTTAAACAAATGCAAAACACCTTTAACACTACTATA
1 ACAAATGTACTAAGTATCCAACATCAAACTTTAAACAAATGCAAAACACCTTTAACACTACTATA
129175163 ACATGAAAATAT
66 ACATGAAAATAT
* * * * * *
129175175 ACAAATGTACTAATTATCCAATATCGAGCTTTATACCAAATGTAAAACACCTTTAACACTACTAT
1 ACAAATGTACTAAGTATCCAACATCAAACTTTA-AACAAATGCAAAACACCTTTAACACTACTAT
129175240 AACATGAAAATAT
65 AACATGAAAATAT
*
129175253 GCAAA
1 ACAAA
129175258 AATAACACAA
Statistics
Matches: 74, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
77 28 0.38
78 46 0.62
ACGTcount: A:0.47, C:0.20, G:0.07, T:0.26
Consensus pattern (77 bp):
ACAAATGTACTAAGTATCCAACATCAAACTTTAAACAAATGCAAAACACCTTTAACACTACTATA
ACATGAAAATAT
Found at i:129186506 original size:19 final size:19
Alignment explanation
Indices: 129186482--129186520 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
129186472 TTGAGAGAAG
129186482 TTCGTGAAATGATTTCTAT
1 TTCGTGAAATGATTTCTAT
129186501 TTCGTGAAATGATTTCTAT
1 TTCGTGAAATGATTTCTAT
129186520 T
1 T
129186521 CTTCAACAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.10, G:0.15, T:0.49
Consensus pattern (19 bp):
TTCGTGAAATGATTTCTAT
Found at i:129192010 original size:21 final size:21
Alignment explanation
Indices: 129191984--129192024 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
129191974 AGACAAGCGA
* *
129191984 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
129192005 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
129192025 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:129195746 original size:400 final size:399
Alignment explanation
Indices: 129194979--129195775 Score: 883
Period size: 402 Copynumber: 2.0 Consensus size: 399
129194969 TCTCTATATA
* * ** * * * *
129194979 TTAGATTAAAGAGCGAACTACTCCTTCTGTTAAAAATTTCATTCATTTCTACTGTTAAAAATTGG
1 TTAGATAAAAGAGCGAACTACTCATTCTGTTAAAAATTTCACCCATTCCTACCGTTAAAAACTAG
* *
129195044 TCTTGCACATCAATATAAGGTACATGCATGCCATGTGTCACTGCTTAGTTATTCCATTAGCCATT
66 TCTTGCACATCAATATAAGATACATGCATGCCAAGTGTCACTGCTTAGTTATTCCATTAGCCATT
* * * *
129195109 CAATTTTTAATTGTACGAATGGACGAATATTTTTAATAGAAAGAACCTGTTTACTATTTGATTTA
131 CAATTTTTAATAGTACAAATGGACGAATATTTTTAACAGAAAGAACCTGTTTACTATTTAATTTA
* * *
129195174 AAACACAATGATTAATTTGTCCATTTTTTGAATAAATGTGGCAAAAGACAATTTAACTCTTAATA
196 AAACACAATGACTAATTTATCCATTTTTTGAATAAATGTGGCAAAAGACAATTTAACTCATAATA
* * * * ** *
129195239 CATAGGCATTTTTGATATCTTGAGCCACTATTTTTGTCTTATATATAATCTATACTATTAATAAA
261 CAGAGGCATCTATGATATCTTGAGCCACCATTTTCATCTTATATATAATCTACACTATTAATAAA
* * * * * * *
129195304 ACCTTTGACTGAGTTGGTGTTATGAGTCAATCGATCACCAACTCGGTTAGAAAATTTACAAAATT
326 ACCTCTGACTGAGTTAGTGTCACGAGTCAACCGAACACCAACTCGGTTAGAAAATTAACAAAATT
129195369 GACCTTACG
391 GACCTTACG
* * *
129195378 TTAGATAAAAGAGCGAATTAGTCATTTTGTTAAAAATTTCACCCATTCCTACCGTTAAAAACTAG
1 TTAGATAAAAGAGCGAACTACTCATTCTGTTAAAAATTTCACCCATTCCTACCGTTAAAAACTAG
* * * * * *
129195443 TTTTGTACATC-ATCATGAGATACACGTGGCATGTCAAGTGTCATTGCTTGGTTATTCCATTAGC
66 TCTTGCACATCAAT-ATAAGATACA--T-GCATGCCAAGTGTCACTGCTTAGTTATTCCATTAGC
* * * ** * * * *
129195507 CTTTTAGTTTTTGGTAGTACAAATGGATGGAAT-TTTTTAACAGAAAGGA-TTGATTTACTCTTT
127 CATTCAATTTTTAATAGTACAAATGGA-CGAATATTTTTAACAGAAAGAACCTG-TTTACTATTT
*** * *
129195570 AATTTAATGTACAATGACTAATTTATCTA-TTTTTGAATAAAT-TGG-ACAAAGCGCAATTTAAC
190 AATTTAAAACACAATGACTAATTTATCCATTTTTTGAATAAATGTGGCA-AAAG-ACAATTTAAC
* * * * * *
129195632 TCATAATACAGAGGCCTCTATGATA-CATTTAGTCACCA-TTTCATCTTATGTATTATTTACACT
253 TCATAATACAGAGGCATCTATGATATC-TTGAGCCACCATTTTCATCTTATATATAATCTACACT
* *
129195695 ATTAATAGAATCC-CTGACTGAGTTAGTGTCACGAGTCAACCGAACACCAACTCGGTTAGAGAAT
317 ATTAATA-AAACCTCTGACTGAGTTAGTGTCACGAGTCAACCGAACACCAACTCGGTTAGAAAAT
129195759 TAACAAAATTGACCTTA
381 TAACAAAATTGACCTTA
129195776 TTTATTTAAA
Statistics
Matches: 326, Mismatches: 62, Indels: 19
0.80 0.15 0.05
Matches are distributed among these distances:
398 2 0.01
399 72 0.22
400 94 0.29
401 57 0.17
402 97 0.30
403 4 0.01
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (399 bp):
TTAGATAAAAGAGCGAACTACTCATTCTGTTAAAAATTTCACCCATTCCTACCGTTAAAAACTAG
TCTTGCACATCAATATAAGATACATGCATGCCAAGTGTCACTGCTTAGTTATTCCATTAGCCATT
CAATTTTTAATAGTACAAATGGACGAATATTTTTAACAGAAAGAACCTGTTTACTATTTAATTTA
AAACACAATGACTAATTTATCCATTTTTTGAATAAATGTGGCAAAAGACAATTTAACTCATAATA
CAGAGGCATCTATGATATCTTGAGCCACCATTTTCATCTTATATATAATCTACACTATTAATAAA
ACCTCTGACTGAGTTAGTGTCACGAGTCAACCGAACACCAACTCGGTTAGAAAATTAACAAAATT
GACCTTACG
Found at i:129208586 original size:145 final size:143
Alignment explanation
Indices: 129208424--129208700 Score: 394
Period size: 145 Copynumber: 1.9 Consensus size: 143
129208414 GTATGTATGT
* * * *
129208424 ATATACAAATATTTAAAATGTGTGCTTAGTTTGAATAAATTTAATAAGTTTTTAA-ATTTTTTGT
1 ATATACAAATATTTAAAATGTGTGATTAGTATAAATAAATTTAAT--GTTTTTAATATTTTTTGC
* * *
129208488 ATGTTTAATATATAAATATTTAAAATGTGTGATTGGTATGAATAAATTCAATAAGTTTTTTAATT
64 ATGTTTAATATATAAATATTTAAAATGTGTGATTGGTATAAATAAATTCAAAAAG-TTTTAAATT
129208553 TTTTTTTGCATGTTTA
128 TTTTTTTGCATGTTTA
* * *
129208569 ATATATAAATATTTAAAATGTGTGATTGGTATAAATAAATTTAATGTTTTTAATTTTTTTTTGCA
1 ATATACAAATATTTAAAATGTGTGATTAGTATAAATAAATTTAATGTTTTTAA-TATTTTTTGCA
* * *
129208634 TGTTTAATATATAAATATTTTAAATGTGTGATTGGTTTAAATAAATTTAAAAAGTTTTAAATTTT
65 TGTTTAATATATAAATATTTAAAATGTGTGATTGGTATAAATAAATTCAAAAAGTTTTAAATTTT
129208699 TT
130 TT
129208701 ACATGTTTAA
Statistics
Matches: 117, Mismatches: 13, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
143 8 0.07
144 12 0.10
145 97 0.83
ACGTcount: A:0.37, C:0.02, G:0.11, T:0.50
Consensus pattern (143 bp):
ATATACAAATATTTAAAATGTGTGATTAGTATAAATAAATTTAATGTTTTTAATATTTTTTGCAT
GTTTAATATATAAATATTTAAAATGTGTGATTGGTATAAATAAATTCAAAAAGTTTTAAATTTTT
TTTTGCATGTTTA
Found at i:129208589 original size:74 final size:73
Alignment explanation
Indices: 129208424--129208700 Score: 400
Period size: 71 Copynumber: 3.8 Consensus size: 73
129208414 GTATGTATGT
* * * * * *
129208424 ATATACAAATATTTAAAATGTGTGCTTAGTTTGAATAAATTTAATAAGTTTTTAA--ATTTTTTG
1 ATATATAAATATTTAAAATGTGTGATTGGTATAAATAAATTTAATAAGTTTTTAATTTTTTTTTG
*
129208487 TATGTTTA
66 CATGTTTA
* *
129208495 ATATATAAATATTTAAAATGTGTGATTGGTATGAATAAATTCAATAAGTTTTTTAATTTTTTTTT
1 ATATATAAATATTTAAAATGTGTGATTGGTATAAATAAATTTAATAAG-TTTTTAATTTTTTTTT
129208560 GCATGTTTA
65 GCATGTTTA
129208569 ATATATAAATATTTAAAATGTGTGATTGGTATAAATAAATTTAAT--GTTTTTAATTTTTTTTTG
1 ATATATAAATATTTAAAATGTGTGATTGGTATAAATAAATTTAATAAGTTTTTAATTTTTTTTTG
129208632 CATGTTTA
66 CATGTTTA
* * * *
129208640 ATATATAAATATTTTAAATGTGTGATTGGTTTAAATAAATTTAAAAAGTTTTAAATTTTTT
1 ATATATAAATATTTAAAATGTGTGATTGGTATAAATAAATTTAATAAGTTTTTAATTTTTT
129208701 ACATGTTTAA
Statistics
Matches: 188, Mismatches: 13, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
71 110 0.59
72 8 0.04
73 13 0.07
74 57 0.30
ACGTcount: A:0.37, C:0.02, G:0.11, T:0.50
Consensus pattern (73 bp):
ATATATAAATATTTAAAATGTGTGATTGGTATAAATAAATTTAATAAGTTTTTAATTTTTTTTTG
CATGTTTA
Found at i:129210057 original size:26 final size:26
Alignment explanation
Indices: 129210027--129210078 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
129210017 AGACATGAGT
129210027 ATGTTCGTATAATCCTCCAAACATTC
1 ATGTTCGTATAATCCTCCAAACATTC
129210053 ATGTTCGTATAATCCTCCAAACATTC
1 ATGTTCGTATAATCCTCCAAACATTC
129210079 TCTAAATACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.35
Consensus pattern (26 bp):
ATGTTCGTATAATCCTCCAAACATTC
Found at i:129211055 original size:25 final size:26
Alignment explanation
Indices: 129211018--129211067 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
129211008 ATCAAATTAG
* * *
129211018 TCCCTCTATTATT-AAATGGATCAAT
1 TCCCTATACTATTAAAAAGGATCAAT
129211043 TCCCTATACTATTAAAAAGGATCAA
1 TCCCTATACTATTAAAAAGGATCAA
129211068 ATAAGTCCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.38, C:0.20, G:0.08, T:0.34
Consensus pattern (26 bp):
TCCCTATACTATTAAAAAGGATCAAT
Found at i:129211304 original size:29 final size:29
Alignment explanation
Indices: 129211239--129211305 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
129211229 ATTTGGCCTT
* * *
129211239 ATTTGATTCTTTTTAATAGTATAGGGACTA
1 ATTTGA-TCTATTTAATAGTAGAAGGACTA
**
129211269 AACTGATCTATTTAATAGTAGAAGGACTA
1 ATTTGATCTATTTAATAGTAGAAGGACTA
129211298 ATTTGATC
1 ATTTGATC
129211306 AGGCCCCTAT
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
29 26 0.87
30 4 0.13
ACGTcount: A:0.34, C:0.09, G:0.16, T:0.40
Consensus pattern (29 bp):
ATTTGATCTATTTAATAGTAGAAGGACTA
Found at i:129214794 original size:37 final size:35
Alignment explanation
Indices: 129214753--129214858 Score: 94
Period size: 35 Copynumber: 3.1 Consensus size: 35
129214743 ATTGATTAAG
* * * *
129214753 GAAGATACAATCAAGGGTAATGCACAACAAACTATAT
1 GAAGACACAATCAAGAGTAA--CACAACAAAATACAT
*
129214790 GAAGACACGATCAAGAGTAACACAACAAAATACAT
1 GAAGACACAATCAAGAGTAACACAACAAAATACAT
* * *
129214825 GAAGGCACAAT---GA-TGACACAGCAAAATACAT
1 GAAGACACAATCAAGAGTAACACAACAAAATACAT
129214856 GAA
1 GAA
129214859 TTGTCAGGTC
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
31 19 0.32
32 2 0.03
35 22 0.37
37 17 0.28
ACGTcount: A:0.51, C:0.18, G:0.17, T:0.14
Consensus pattern (35 bp):
GAAGACACAATCAAGAGTAACACAACAAAATACAT
Found at i:129224970 original size:4 final size:4
Alignment explanation
Indices: 129224961--129224999 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
129224951 AGTGGATATA
* * *
129224961 TTAG TTAG TTTG TTAG TTTG TTTG TTAG TTAG TTAG TTA
1 TTAG TTAG TTAG TTAG TTAG TTAG TTAG TTAG TTAG TTA
129225000 ATCATTTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.18, C:0.00, G:0.23, T:0.59
Consensus pattern (4 bp):
TTAG
Found at i:129224978 original size:12 final size:12
Alignment explanation
Indices: 129224961--129224999 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
129224951 AGTGGATATA
129224961 TTAGTTAGTTTG
1 TTAGTTAGTTTG
*
129224973 TTAGTTTGTTTG
1 TTAGTTAGTTTG
*
129224985 TTAGTTAGTTAG
1 TTAGTTAGTTTG
129224997 TTA
1 TTA
129225000 ATCATTTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.18, C:0.00, G:0.23, T:0.59
Consensus pattern (12 bp):
TTAGTTAGTTTG
Found at i:129246325 original size:24 final size:25
Alignment explanation
Indices: 129246289--129246339 Score: 61
Period size: 23 Copynumber: 2.1 Consensus size: 25
129246279 TTATACACAT
**
129246289 AAATACATAAAATGGATAAAAAATAA
1 AAATACATAAAATACAT-AAAAATAA
129246315 AAAT-CAT-AAATACATAAAAATAA
1 AAATACATAAAATACATAAAAATAA
129246338 AA
1 AA
129246340 TTTTTTTGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 10 0.43
24 6 0.26
25 3 0.13
26 4 0.17
ACGTcount: A:0.71, C:0.06, G:0.04, T:0.20
Consensus pattern (25 bp):
AAATACATAAAATACATAAAAATAA
Found at i:129246331 original size:17 final size:18
Alignment explanation
Indices: 129246286--129246335 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 18
129246276 AATTTATACA
129246286 CATAAATACAT-AAAATG
1 CATAAATACATAAAAATG
* *
129246303 GATAAA-AAATAAAAAT-
1 CATAAATACATAAAAATG
129246319 CATAAATACATAAAAAT
1 CATAAATACATAAAAAT
129246336 AAAATTTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
16 8 0.30
17 19 0.70
ACGTcount: A:0.66, C:0.08, G:0.04, T:0.22
Consensus pattern (18 bp):
CATAAATACATAAAAATG
Found at i:129255422 original size:15 final size:15
Alignment explanation
Indices: 129255402--129255436 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
129255392 GGCTATGGTC
129255402 AGATCTAAATCCGAG
1 AGATCTAAATCCGAG
*
129255417 AGATCTAAATGCGAG
1 AGATCTAAATCCGAG
*
129255432 GGATC
1 AGATC
129255437 GGATGGAGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.37, C:0.17, G:0.26, T:0.20
Consensus pattern (15 bp):
AGATCTAAATCCGAG
Found at i:129260662 original size:42 final size:42
Alignment explanation
Indices: 129260615--129260699 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
129260605 TCTATTCTTA
*
129260615 TGTAGTTTACTCATTTATTTATTTCACTTGCTTAGCCGAACT
1 TGTAGTTCACTCATTTATTTATTTCACTTGCTTAGCCGAACT
*
129260657 TGTAGTTCACTCATTTATTTATTTCACTTGCTTAGCTGAACT
1 TGTAGTTCACTCATTTATTTATTTCACTTGCTTAGCCGAACT
129260699 T
1 T
129260700 TTTAAGATGA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.21, C:0.19, G:0.12, T:0.48
Consensus pattern (42 bp):
TGTAGTTCACTCATTTATTTATTTCACTTGCTTAGCCGAACT
Found at i:129261558 original size:31 final size:30
Alignment explanation
Indices: 129261486--129261545 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 30
129261476 AAATCTTAAA
* *
129261486 ATTATGTATTAATTTTGATTTAATGTGTAAT
1 ATTATATATAAATTTTGATTTAA-GTGTAAT
129261517 ATTATATATAAATTTTGATTTAA-TGTAAT
1 ATTATATATAAATTTTGATTTAAGTGTAAT
129261546 TCTATAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 6 0.22
31 21 0.78
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (30 bp):
ATTATATATAAATTTTGATTTAAGTGTAAT
Found at i:129262898 original size:19 final size:19
Alignment explanation
Indices: 129262874--129262913 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
129262864 AAATTCAGAT
129262874 TAGTCAAATCAATAATTTA
1 TAGTCAAATCAATAATTTA
*
129262893 TAGTCAAATTAATAATTTA
1 TAGTCAAATCAATAATTTA
129262912 TA
1 TA
129262914 TAATTATGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.40
Consensus pattern (19 bp):
TAGTCAAATCAATAATTTA
Found at i:129263540 original size:17 final size:17
Alignment explanation
Indices: 129263480--129263542 Score: 51
Period size: 17 Copynumber: 3.7 Consensus size: 17
129263470 ATATAAAAAT
129263480 TATAATTTAATAATATTA
1 TATAATTTAAT-ATATTA
129263498 T-TGAA-TTAATATA-TA
1 TAT-AATTTAATATATTA
* **
129263513 TTTTACGTTAATATATTA
1 -TATAATTTAATATATTA
129263531 TATAATTTAATA
1 TATAATTTAATA
129263543 AAAAAATTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 11
0.71 0.08 0.22
Matches are distributed among these distances:
15 2 0.06
16 5 0.14
17 24 0.67
18 5 0.14
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.51
Consensus pattern (17 bp):
TATAATTTAATATATTA
Found at i:129281974 original size:3 final size:3
Alignment explanation
Indices: 129281966--129282019 Score: 63
Period size: 3 Copynumber: 18.0 Consensus size: 3
129281956 AACAATTGGG
* * * * *
129281966 TGA TGA TGA AGA TGA AGA TGA AGA TGA AGA TGA AGA TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
129282014 TGA TGA
1 TGA TGA
129282020 GTTCTGTTCT
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.43, C:0.00, G:0.33, T:0.24
Consensus pattern (3 bp):
TGA
Found at i:129282017 original size:12 final size:12
Alignment explanation
Indices: 129281966--129282019 Score: 81
Period size: 12 Copynumber: 4.5 Consensus size: 12
129281956 AACAATTGGG
129281966 TGATGATGAAGA
1 TGATGATGAAGA
*
129281978 TGAAGATGAAGA
1 TGATGATGAAGA
*
129281990 TGAAGATGAAGA
1 TGATGATGAAGA
*
129282002 TGATGATGATGA
1 TGATGATGAAGA
129282014 TGATGA
1 TGATGA
129282020 GTTCTGTTCT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 39 1.00
ACGTcount: A:0.43, C:0.00, G:0.33, T:0.24
Consensus pattern (12 bp):
TGATGATGAAGA
Found at i:129282019 original size:6 final size:6
Alignment explanation
Indices: 129281970--129282016 Score: 76
Period size: 6 Copynumber: 7.8 Consensus size: 6
129281960 ATTGGGTGAT
* *
129281970 GATGAA GATGAA GATGAA GATGAA GATGAA GATGAT GATGAT GATGA
1 GATGAA GATGAA GATGAA GATGAA GATGAA GATGAA GATGAA GATGA
129282017 TGAGTTCTGT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.45, C:0.00, G:0.34, T:0.21
Consensus pattern (6 bp):
GATGAA
Found at i:129282232 original size:10 final size:10
Alignment explanation
Indices: 129282217--129282242 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
129282207 TATGTGCATC
129282217 AAATTCTTGT
1 AAATTCTTGT
129282227 AAATTCTTGT
1 AAATTCTTGT
129282237 AAATTC
1 AAATTC
129282243 ATGAGAAGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.46
Consensus pattern (10 bp):
AAATTCTTGT
Found at i:129284606 original size:22 final size:21
Alignment explanation
Indices: 129284573--129284620 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
129284563 TTTAACAACC
129284573 AAAAT-AGAAAAAAAAACTAATT
1 AAAATAAG-AAAAAAAAC-AATT
*
129284595 AAAATAAG-AAAAAAGCAATT
1 AAAATAAGAAAAAAAACAATT
129284615 AAAATA
1 AAAATA
129284621 GGAATTTGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 10 0.42
21 7 0.29
22 5 0.21
23 2 0.08
ACGTcount: A:0.73, C:0.04, G:0.06, T:0.17
Consensus pattern (21 bp):
AAAATAAGAAAAAAAACAATT
Found at i:129294471 original size:11 final size:11
Alignment explanation
Indices: 129294455--129294480 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
129294445 TATAGCCTAC
129294455 CACCTTCAGCA
1 CACCTTCAGCA
129294466 CACCTTCAGCA
1 CACCTTCAGCA
129294477 CACC
1 CACC
129294481 ACTAGACAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.50, G:0.08, T:0.15
Consensus pattern (11 bp):
CACCTTCAGCA
Found at i:129306152 original size:3 final size:3
Alignment explanation
Indices: 129306144--129306170 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
129306134 ACATACATAA
129306144 AGC AGC AGC AGC AGC AGC AGC AGC AGC
1 AGC AGC AGC AGC AGC AGC AGC AGC AGC
129306171 GTTTTCCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.33, T:0.00
Consensus pattern (3 bp):
AGC
Found at i:129310276 original size:8 final size:8
Alignment explanation
Indices: 129310263--129310298 Score: 72
Period size: 8 Copynumber: 4.5 Consensus size: 8
129310253 ATGAATGATA
129310263 AGCTTTGG
1 AGCTTTGG
129310271 AGCTTTGG
1 AGCTTTGG
129310279 AGCTTTGG
1 AGCTTTGG
129310287 AGCTTTGG
1 AGCTTTGG
129310295 AGCT
1 AGCT
129310299 AAATGACCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.14, C:0.14, G:0.36, T:0.36
Consensus pattern (8 bp):
AGCTTTGG
Found at i:129316500 original size:49 final size:49
Alignment explanation
Indices: 129316447--129316546 Score: 191
Period size: 49 Copynumber: 2.0 Consensus size: 49
129316437 AAAACTTTCA
129316447 TAGTAGTAAATATTATTTTGATATTATTAAGATGCCAATAAAATTAGTT
1 TAGTAGTAAATATTATTTTGATATTATTAAGATGCCAATAAAATTAGTT
*
129316496 TAGTAGTAAATATTATTTTGATATTATTGAGATGCCAATAAAATTAGTT
1 TAGTAGTAAATATTATTTTGATATTATTAAGATGCCAATAAAATTAGTT
129316545 TA
1 TA
129316547 ACTTTATAAA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.40, C:0.04, G:0.13, T:0.43
Consensus pattern (49 bp):
TAGTAGTAAATATTATTTTGATATTATTAAGATGCCAATAAAATTAGTT
Found at i:129319320 original size:1 final size:1
Alignment explanation
Indices: 129319314--129319340 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
129319304 TGAACAAGCC
129319314 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
129319341 GGCTATTCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:129342030 original size:16 final size:15
Alignment explanation
Indices: 129342011--129342059 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
129342001 TACTTTTTAC
129342011 TTTTTTTACTTTTGTT
1 TTTTTTTA-TTTTGTT
* *
129342027 TTTTTTATGTTTTGTC
1 TTTTTT-TATTTTGTT
*
129342043 TTTTTTTATTTTATT
1 TTTTTTTATTTTGTT
129342058 TT
1 TT
129342060 ATTTATTTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
15 8 0.30
16 18 0.67
17 1 0.04
ACGTcount: A:0.08, C:0.04, G:0.06, T:0.82
Consensus pattern (15 bp):
TTTTTTTATTTTGTT
Found at i:129342039 original size:22 final size:22
Alignment explanation
Indices: 129342013--129342056 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
129342003 CTTTTTACTT
* *
129342013 TTTTTACTTTTGTTTTTTTTATG
1 TTTTGACTTTT-TTTATTTTATG
*
129342036 TTTTGTCTTTTTTTATTTTAT
1 TTTTGACTTTTTTTATTTTAT
129342057 TTTATTTATT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.09, C:0.05, G:0.07, T:0.80
Consensus pattern (22 bp):
TTTTGACTTTTTTTATTTTATG
Found at i:129342046 original size:17 final size:17
Alignment explanation
Indices: 129342010--129342051 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
129342000 TTACTTTTTA
129342010 CTTTTTTTA-CTTTTGT
1 CTTTTTTTATCTTTTGT
*
129342026 -TTTTTTTATGTTTTGT
1 CTTTTTTTATCTTTTGT
129342042 CTTTTTTTAT
1 CTTTTTTTAT
129342052 TTTATTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 8 0.35
16 6 0.26
17 9 0.39
ACGTcount: A:0.07, C:0.07, G:0.07, T:0.79
Consensus pattern (17 bp):
CTTTTTTTATCTTTTGT
Found at i:129342105 original size:22 final size:22
Alignment explanation
Indices: 129342080--129342151 Score: 81
Period size: 22 Copynumber: 3.1 Consensus size: 22
129342070 TATTATTAAC
*
129342080 TTTAAAAAATTTGAAATATATA
1 TTTAAAAAATTTTAAATATATA
*
129342102 TTTAAAATATTTTATTAATATATA
1 TTTAAAAAATTTTA--AATATATA
**
129342126 TTTTTTAAAATTTTAAATATATA
1 -TTTAAAAAATTTTAAATATATA
129342149 TTT
1 TTT
129342152 TGAAATTACT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
22 15 0.36
23 8 0.19
24 8 0.19
25 11 0.26
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (22 bp):
TTTAAAAAATTTTAAATATATA
Found at i:129342119 original size:13 final size:12
Alignment explanation
Indices: 129342102--129342230 Score: 51
Period size: 14 Copynumber: 10.7 Consensus size: 12
129342092 GAAATATATA
129342102 TTTAAAATATTT
1 TTTAAAATATTT
129342114 TATTAATATATATTT
1 T-TTAA-A-ATATTT
129342129 TTT-AAA-A--T
1 TTTAAAATATTT
129342137 TTTAAATATATATT
1 TTTAAA-ATAT-TT
* * *
129342151 TTGAAATTACTT
1 TTTAAAATATTT
129342163 TTT-AAA-A--T
1 TTTAAAATATTT
129342171 TTTAAATATTATTT
1 TTTAAA-A-TATTT
* *
129342185 TTTAATATA-TA
1 TTTAAAATATTT
*
129342196 TTTGAAATATTT
1 TTTAAAATATTT
129342208 TATTAATATATATTT
1 T-TTAA-A-ATATTT
129342223 TTTAAAAT
1 TTTAAAAT
129342231 TTTAAATACA
Statistics
Matches: 87, Mismatches: 11, Indels: 38
0.64 0.08 0.28
Matches are distributed among these distances:
8 8 0.09
9 4 0.05
10 4 0.05
11 12 0.14
12 13 0.15
13 12 0.14
14 20 0.23
15 14 0.16
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.57
Consensus pattern (12 bp):
TTTAAAATATTT
Found at i:129342147 original size:21 final size:22
Alignment explanation
Indices: 129342085--129342158 Score: 62
Period size: 21 Copynumber: 3.3 Consensus size: 22
129342075 TTAACTTTAA
* *
129342085 AAAATTTGAA-ATATATATTTA
1 AAAATTTTAATATATATATTTT
*
129342106 AAATATTTTATTAATATATATTTTTT
1 AAA-A--TT-TTAATATATATATTTT
129342132 AAAATTTTAA-ATATATATTTT
1 AAAATTTTAATATATATATTTT
*
129342153 GAAATT
1 AAAATT
129342159 ACTTTTTAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
21 18 0.42
22 5 0.12
23 2 0.05
24 2 0.05
25 4 0.09
26 12 0.28
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (22 bp):
AAAATTTTAATATATATATTTT
Found at i:129342198 original size:26 final size:24
Alignment explanation
Indices: 129342094--129342223 Score: 114
Period size: 24 Copynumber: 5.5 Consensus size: 24
129342084 AAAAATTTGA
*
129342094 AATATATATTTAAAATATTTTATT
1 AATATATATTTTAAATATTTTATT
129342118 AATATATATTTTTTAAA-ATTTTA--
1 AATATATA--TTTTAAATATTTTATT
*
129342141 AATATATATTTTGAAATTACTTT-TT
1 AATATATATTTT-AAA-TATTTTATT
*
129342166 -A-A-A-ATTTTAAATATTATTTTTT
1 AATATATATTTTAAATA-T-TTTATT
*
129342188 AATATATATTTGAAATATTTTATT
1 AATATATATTTTAAATATTTTATT
129342212 AATATATATTTT
1 AATATATATTTT
129342224 TTAAAATTTT
Statistics
Matches: 86, Mismatches: 6, Indels: 28
0.72 0.05 0.23
Matches are distributed among these distances:
19 2 0.02
20 3 0.03
21 12 0.14
22 6 0.07
23 10 0.12
24 30 0.35
25 8 0.09
26 15 0.17
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.56
Consensus pattern (24 bp):
AATATATATTTTAAATATTTTATT
Found at i:129342252 original size:23 final size:24
Alignment explanation
Indices: 129342181--129342254 Score: 71
Period size: 23 Copynumber: 3.1 Consensus size: 24
129342171 TTTAAATATT
* * *
129342181 ATTTTTTAATATATA-TTTGAAAT
1 ATTTTATAATACATATTTTGAAAA
* **
129342204 ATTTTATTAATATATATTTTTTAAA
1 ATTTTA-TAATACATATTTTGAAAA
129342229 ATTTTA-AATACATATTTTGAAAA
1 ATTTTATAATACATATTTTGAAAA
129342252 ATT
1 ATT
129342255 AATTTTGCAA
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
23 22 0.52
24 9 0.21
25 11 0.26
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (24 bp):
ATTTTATAATACATATTTTGAAAA
Found at i:129342311 original size:94 final size:91
Alignment explanation
Indices: 129342106--129342345 Score: 221
Period size: 94 Copynumber: 2.6 Consensus size: 91
129342096 TATATATTTA
* * * * *
129342106 AAATATTTTATTAATATATATTTTTTAAAATTTTAAATATATATTTTGAAATTACTTTTTAAAAT
1 AAATATTTAAATAATATATATTTTTTAAAATTTTAAATACATATTTTGAAATTAATTTTCAAAA-
* **
129342171 TTTAAATATTATTTTTTAATATATATTTG
65 --TAAATATTATTTTTTAAAATATATAAG
* *
129342200 AAATATTTTATTAATATATATTTTTTAAAATTTTAAATACATATTTTGAAAAATTAATTTTGCAA
1 AAATATTTAAATAATATATATTTTTTAAAATTTTAAATACATATTTTG--AAATTAATTTT-CAA
*
129342265 AA-AAAT-TTA-TTTTTAAAATTTATAAG
63 AATAAATATTATTTTTTAAAATATATAAG
*
129342291 AAATAATTTCAAAT-ATATATA---TTT-AAA-TTTAAATATATATTTTTGAAATT-ATTTT
1 AAAT-ATTT-AAATAATATATATTTTTTAAAATTTTAAATACATA-TTTTGAAATTAATTTT
129342346 ATTTTGTTTA
Statistics
Matches: 130, Mismatches: 10, Indels: 21
0.81 0.06 0.13
Matches are distributed among these distances:
85 5 0.04
86 5 0.04
87 11 0.08
88 8 0.06
89 3 0.02
91 17 0.13
92 14 0.11
93 6 0.05
94 47 0.36
96 10 0.08
97 4 0.03
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.52
Consensus pattern (91 bp):
AAATATTTAAATAATATATATTTTTTAAAATTTTAAATACATATTTTGAAATTAATTTTCAAAAT
AAATATTATTTTTTAAAATATATAAG
Found at i:129342326 original size:20 final size:22
Alignment explanation
Indices: 129342295--129342340 Score: 69
Period size: 20 Copynumber: 2.2 Consensus size: 22
129342285 TATAAGAAAT
129342295 AATTTCAAATATATATATTT-A
1 AATTTCAAATATATATATTTGA
*
129342316 AATTT-AAATATATATTTTTGA
1 AATTTCAAATATATATATTTGA
129342337 AATT
1 AATT
129342341 ATTTTATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (22 bp):
AATTTCAAATATATATATTTGA
Found at i:129342371 original size:14 final size:14
Alignment explanation
Indices: 129342352--129342380 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
129342342 TTTTATTTTG
129342352 TTTAAAAATATATT
1 TTTAAAAATATATT
129342366 TTTAAAAATATATT
1 TTTAAAAATATATT
129342380 T
1 T
129342381 AAAATTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TTTAAAAATATATT
Found at i:129342381 original size:12 final size:13
Alignment explanation
Indices: 129342352--129342384 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
129342342 TTTTATTTTG
129342352 TTTAAAAATATATT
1 TTTAAAAATATA-T
129342366 TTTAAAAATATA-
1 TTTAAAAATATAT
129342378 TTTAAAA
1 TTTAAAA
129342385 TTTAAAATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.37
14 12 0.63
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
TTTAAAAATATAT
Found at i:129342492 original size:24 final size:24
Alignment explanation
Indices: 129342465--129342524 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 24
129342455 TACTCAAAAT
129342465 TTTAAAAATAATTT-AAAAATA-ATA
1 TTTAAAAAT--TTTAAAAAATATATA
129342489 TTT-AAAATTTTAAAAAATATATA
1 TTTAAAAATTTTAAAAAATATATA
129342512 TTATAAAACATTT
1 TT-TAAAA-ATTT
129342525 CAAATATACG
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
21 3 0.10
22 7 0.23
23 10 0.32
24 4 0.13
25 3 0.10
26 4 0.13
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (24 bp):
TTTAAAAATTTTAAAAAATATATA
Found at i:129342575 original size:9 final size:9
Alignment explanation
Indices: 129342561--129342594 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
129342551 TTAATAACAA
129342561 AAAATAAAT
1 AAAATAAAT
129342570 AAAATAAAT
1 AAAATAAAT
129342579 AAACA-AAAT
1 AAA-ATAAAT
129342588 AAAATAA
1 AAAATAA
129342595 GAAAAAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 1 0.04
9 21 0.91
10 1 0.04
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (9 bp):
AAAATAAAT
Found at i:129342580 original size:13 final size:13
Alignment explanation
Indices: 129342547--129342590 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
129342537 TTAAATTTTT
*
129342547 TAAATTAATAACAA
1 TAAATAAATAA-AA
*
129342561 AAAATAAATAAAA
1 TAAATAAATAAAA
*
129342574 TAAATAAACAAAA
1 TAAATAAATAAAA
129342587 TAAA
1 TAAA
129342591 ATAAGAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
13 17 0.65
14 9 0.35
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (13 bp):
TAAATAAATAAAA
Found at i:129342639 original size:20 final size:20
Alignment explanation
Indices: 129342613--129342666 Score: 58
Period size: 19 Copynumber: 2.7 Consensus size: 20
129342603 ATAAAACTTA
*
129342613 AAAAAAGAAAAAAATTTAA-
1 AAAAAAGAAAAAAAGTTAAT
*
129342632 AGAAAAAG-ATAAAAGTTAAT
1 A-AAAAAGAAAAAAAGTTAAT
129342652 AAAAAAGTAAAAAAA
1 AAAAAAG-AAAAAAA
129342667 AAGTGAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 16 0.57
20 7 0.25
21 5 0.18
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (20 bp):
AAAAAAGAAAAAAAGTTAAT
Found at i:129342738 original size:18 final size:19
Alignment explanation
Indices: 129342703--129342738 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
129342693 TAAAAAAAAA
129342703 TATTTGTTAAAAAGATATT
1 TATTTGTTAAAAAGATATT
129342722 TATTTGTTAAAAA-ATAT
1 TATTTGTTAAAAAGATAT
129342739 GATGTGACGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.47
Consensus pattern (19 bp):
TATTTGTTAAAAAGATATT
Found at i:129342866 original size:15 final size:15
Alignment explanation
Indices: 129342830--129342866 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
129342820 AATTAAATTC
129342830 ATTTTTTTTAAAAAT
1 ATTTTTTTTAAAAAT
**
129342845 AAATTTTTTAAAAAT
1 ATTTTTTTTAAAAAT
129342860 ATTTTTT
1 ATTTTTT
129342867 ATTTTTTTAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
ATTTTTTTTAAAAAT
Found at i:129343014 original size:21 final size:23
Alignment explanation
Indices: 129342958--129343014 Score: 68
Period size: 21 Copynumber: 2.6 Consensus size: 23
129342948 ATATCTTTAA
129342958 AAATAAT-TTTAAAATCATAATT
1 AAATAATATTTAAAATCATAATT
*
129342980 TAA-AATATTATAAAA-CA-AATT
1 AAATAATATT-TAAAATCATAATT
129343001 AAATAATATTTAAA
1 AAATAATATTTAAA
129343015 TTATTATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
21 13 0.43
22 12 0.40
23 5 0.17
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.37
Consensus pattern (23 bp):
AAATAATATTTAAAATCATAATT
Found at i:129343071 original size:18 final size:18
Alignment explanation
Indices: 129343045--129343093 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
129343035 AATTTGAAAG
* *
129343045 TTTAAAATATTTAAATAT
1 TTTATAATATTTAAAAAT
*
129343063 TTTATAATATTAAAAAAT
1 TTTATAATATTTAAAAAT
*
129343081 ATT-TAATATTTAA
1 TTTATAATATTTAA
129343094 TGTTTAAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 9 0.35
18 17 0.65
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTATAATATTTAAAAAT
Found at i:129343249 original size:22 final size:23
Alignment explanation
Indices: 129343218--129343260 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
129343208 AAATAAAGAA
*
129343218 AAAAGACAAAACA-TAAAAAAAC
1 AAAAGACAAAAAAGTAAAAAAAC
*
129343240 AAAAGTCAAAAAAGTAAAAAA
1 AAAAGACAAAAAAGTAAAAAA
129343261 GTAAAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.77, C:0.09, G:0.07, T:0.07
Consensus pattern (23 bp):
AAAAGACAAAAAAGTAAAAAAAC
Found at i:129350388 original size:26 final size:26
Alignment explanation
Indices: 129350357--129350464 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
129350347 TGAAATGTCC
*
129350357 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
129350383 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
129350409 ATCATGGAATATTTATCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
129350435 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
129350461 ATCA
1 ATCA
129350465 AATTGTACTA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:129361849 original size:18 final size:18
Alignment explanation
Indices: 129361804--129361856 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 18
129361794 GTGCAAAATT
*
129361804 TTGCAATCTTAGTTGTAA
1 TTGCAATCTTAATTGTAA
** * *
129361822 ACGCATTCTTAATTTTAA
1 TTGCAATCTTAATTGTAA
129361840 TTGCAATCTTAA-TGTAA
1 TTGCAATCTTAATTGTAA
129361857 ATGCTTAATT
Statistics
Matches: 26, Mismatches: 9, Indels: 1
0.72 0.25 0.03
Matches are distributed among these distances:
17 4 0.15
18 22 0.85
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.43
Consensus pattern (18 bp):
TTGCAATCTTAATTGTAA
Found at i:129363359 original size:49 final size:49
Alignment explanation
Indices: 129363304--129363402 Score: 189
Period size: 49 Copynumber: 2.0 Consensus size: 49
129363294 GAACTTGATC
129363304 TAAGTAAGAATGCCTCGTGAATATTTAGAAATATTTACAATGTATCACT
1 TAAGTAAGAATGCCTCGTGAATATTTAGAAATATTTACAATGTATCACT
*
129363353 TAAGTAAGAATGTCTCGTGAATATTTAGAAATATTTACAATGTATCACT
1 TAAGTAAGAATGCCTCGTGAATATTTAGAAATATTTACAATGTATCACT
129363402 T
1 T
129363403 TCTTTTATAG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.36
Consensus pattern (49 bp):
TAAGTAAGAATGCCTCGTGAATATTTAGAAATATTTACAATGTATCACT
Found at i:129364038 original size:11 final size:11
Alignment explanation
Indices: 129364019--129364057 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
129364009 GTTGATTTAG
*
129364019 AGAACAAAAAA
1 AGAAAAAAAAA
129364030 AGAAAAAAAAA
1 AGAAAAAAAAA
129364041 AGAAAAAAGAAA
1 AGAAAAAA-AAA
129364053 AGAAA
1 AGAAA
129364058 CAAGAAAGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
11 18 0.69
12 8 0.31
ACGTcount: A:0.85, C:0.03, G:0.13, T:0.00
Consensus pattern (11 bp):
AGAAAAAAAAA
Found at i:129364041 original size:12 final size:12
Alignment explanation
Indices: 129364024--129364057 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
129364014 TTTAGAGAAC
129364024 AAAAAAAG-AAA
1 AAAAAAAGAAAA
129364035 AAAAAAAGAAAA
1 AAAAAAAGAAAA
*
129364047 AAGAAAAGAAA
1 AAAAAAAGAAA
129364058 CAAGAAAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 8 0.38
12 13 0.62
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (12 bp):
AAAAAAAGAAAA
Found at i:129364065 original size:11 final size:11
Alignment explanation
Indices: 129364019--129364065 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
129364009 GTTGATTTAG
129364019 AGAACAAAA-AA
1 AGAA-AAAAGAA
*
129364030 AGAAAAAAAAA
1 AGAAAAAAGAA
129364041 AGAAAAAAGAAA
1 AGAAAAAAG-AA
*
129364053 AGAAACAAGAA
1 AGAAAAAAGAA
129364064 AG
1 AG
129364066 TGAAGTAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
10 4 0.12
11 18 0.56
12 10 0.31
ACGTcount: A:0.81, C:0.04, G:0.15, T:0.00
Consensus pattern (11 bp):
AGAAAAAAGAA
Found at i:129382795 original size:8 final size:8
Alignment explanation
Indices: 129382784--129382808 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
129382774 TTTAATAAGA
129382784 TATTTTAT
1 TATTTTAT
129382792 TATTTTAT
1 TATTTTAT
129382800 TATTTTAT
1 TATTTTAT
129382808 T
1 T
129382809 TAGTATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:129388229 original size:23 final size:22
Alignment explanation
Indices: 129388203--129388248 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 22
129388193 TGTGATGACG
129388203 TTATCTT-ATAAATATGTATGAAT
1 TTATCTTGA-AAATATGT-TGAAT
129388226 TTATCTTGAAAATATGTTGAAT
1 TTATCTTGAAAATATGTTGAAT
129388248 T
1 T
129388249 GATTTGGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 6 0.27
23 15 0.68
24 1 0.05
ACGTcount: A:0.37, C:0.04, G:0.11, T:0.48
Consensus pattern (22 bp):
TTATCTTGAAAATATGTTGAAT
Found at i:129391246 original size:25 final size:25
Alignment explanation
Indices: 129391109--129391237 Score: 199
Period size: 25 Copynumber: 5.2 Consensus size: 25
129391099 TACACACCAA
*
129391109 TGCCATAT-ATATT-CGCACACATAG
1 TGCCATATAAT-TTCCGCACACTTAG
*
129391133 TGCCATAGAATTTCCGCACACTTAG
1 TGCCATATAATTTCCGCACACTTAG
* *
129391158 TGCCATACAATTTCCGTACACTTAG
1 TGCCATATAATTTCCGCACACTTAG
129391183 TGCCATATAATTTCCGCACACTTAG
1 TGCCATATAATTTCCGCACACTTAG
129391208 TGCCATATAATTTCCGCACACTTAG
1 TGCCATATAATTTCCGCACACTTAG
129391233 TGCCA
1 TGCCA
129391238 ACTCATTTCG
Statistics
Matches: 97, Mismatches: 6, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
24 9 0.09
25 88 0.91
ACGTcount: A:0.29, C:0.28, G:0.13, T:0.30
Consensus pattern (25 bp):
TGCCATATAATTTCCGCACACTTAG
Found at i:129397683 original size:25 final size:25
Alignment explanation
Indices: 129397652--129397792 Score: 194
Period size: 25 Copynumber: 5.6 Consensus size: 25
129397642 CATATATATT
* *
129397652 CGCACACATAGTGCCATAGAATTTC
1 CGCACACTTAGTGCCATACAATTTC
129397677 CGCACACTTAGTGCCATACAACTTT-
1 CGCACACTTAGTGCCATACAA-TTTC
129397702 CGCACACTTAGTGCCATACAATTTC
1 CGCACACTTAGTGCCATACAATTTC
** *
129397727 CGCACACTTAGTGCCATATGATTTT
1 CGCACACTTAGTGCCATACAATTTC
* *
129397752 CACACACTTAGTGCCATATAATTTC
1 CGCACACTTAGTGCCATACAATTTC
*
129397777 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
129397793 ACTCATTTCG
Statistics
Matches: 104, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
24 3 0.03
25 98 0.94
26 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (25 bp):
CGCACACTTAGTGCCATACAATTTC
Found at i:129397706 original size:50 final size:50
Alignment explanation
Indices: 129397650--129397792 Score: 214
Period size: 50 Copynumber: 2.9 Consensus size: 50
129397640 GCCATATATA
* *
129397650 TTCGCACACATAGTGCCATAGAATTTCCGCACACTTAGTGCCATACAACT
1 TTCGCACACTTAGTGCCATACAATTTCCGCACACTTAGTGCCATACAACT
** *
129397700 TTCGCACACTTAGTGCCATACAATTTCCGCACACTTAGTGCCATATGATT
1 TTCGCACACTTAGTGCCATACAATTTCCGCACACTTAGTGCCATACAACT
* * *
129397750 TTCACACACTTAGTGCCATATAATTTCTGCACACTTAGTGCCA
1 TTCGCACACTTAGTGCCATACAATTTCCGCACACTTAGTGCCA
129397793 ACTCATTTCG
Statistics
Matches: 85, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 85 1.00
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.30
Consensus pattern (50 bp):
TTCGCACACTTAGTGCCATACAATTTCCGCACACTTAGTGCCATACAACT
Found at i:129397801 original size:75 final size:75
Alignment explanation
Indices: 129397652--129397792 Score: 214
Period size: 75 Copynumber: 1.9 Consensus size: 75
129397642 CATATATATT
*
129397652 CGCACACATAGTGCCATAGAATTTCCGCACACTTAGTGCCATACAACTTTCGCACACTTAGTGCC
1 CGCACACATAGTGCCATAGAATTTCCACACACTTAGTGCCATACAACTTTCGCACACTTAGTGCC
129397717 ATACAATTTC
66 ATACAATTTC
* * *
129397727 CGCACACTTAGTGCCATATG-ATTTTCACACACTTAGTGCCATATAA-TTTCTGCACACTTAGTG
1 CGCACACATAGTGCCATA-GAATTTCCACACACTTAGTGCCATACAACTTTC-GCACACTTAGTG
129397790 CCA
64 CCA
129397793 ACTCATTTCG
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
74 4 0.07
75 55 0.92
76 1 0.02
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (75 bp):
CGCACACATAGTGCCATAGAATTTCCACACACTTAGTGCCATACAACTTTCGCACACTTAGTGCC
ATACAATTTC
Found at i:129408352 original size:39 final size:39
Alignment explanation
Indices: 129408307--129408429 Score: 210
Period size: 39 Copynumber: 3.2 Consensus size: 39
129408297 GAAGTCTAGT
*
129408307 TGAAGCACATAAGTGCTAAACGGAAGCCCGAAGGCTAAC
1 TGAAGCACACAAGTGCTAAACGGAAGCCCGAAGGCTAAC
* *
129408346 TAAAGCACACAAGTGCTAAGCGGAAGCCCGAAGGCTAAC
1 TGAAGCACACAAGTGCTAAACGGAAGCCCGAAGGCTAAC
*
129408385 TGAAGCACACAAGTGCTAAACGGAAGCCCAAAGGCTAAC
1 TGAAGCACACAAGTGCTAAACGGAAGCCCGAAGGCTAAC
129408424 TGAAGC
1 TGAAGC
129408430 TCATCAGAGC
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 78 1.00
ACGTcount: A:0.39, C:0.24, G:0.25, T:0.11
Consensus pattern (39 bp):
TGAAGCACACAAGTGCTAAACGGAAGCCCGAAGGCTAAC
Found at i:129417932 original size:17 final size:17
Alignment explanation
Indices: 129417906--129417946 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
129417896 GAGTTACAAA
129417906 TTTA-TTTATC-AGACAT
1 TTTATTTTATCTAG-CAT
129417922 TTTATTTTATCTAGCAT
1 TTTATTTTATCTAGCAT
129417939 TTATATTT
1 TT-TATTT
129417947 GGGACCAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 4 0.18
17 11 0.50
18 7 0.32
ACGTcount: A:0.27, C:0.10, G:0.05, T:0.59
Consensus pattern (17 bp):
TTTATTTTATCTAGCAT
Found at i:129418234 original size:31 final size:31
Alignment explanation
Indices: 129418199--129418261 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
129418189 AGGGGCATTT
129418199 CGGTAATGTTCTATTTTTCTCGATTTTTCAA
1 CGGTAATGTTCTATTTTTCTCGATTTTTCAA
129418230 CGGTAATGTTCTATTTTTCTCGATTTTTCAA
1 CGGTAATGTTCTATTTTTCTCGATTTTTCAA
129418261 C
1 C
129418262 CAATCTTGAT
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:0.19, C:0.17, G:0.13, T:0.51
Consensus pattern (31 bp):
CGGTAATGTTCTATTTTTCTCGATTTTTCAA
Found at i:129425215 original size:25 final size:25
Alignment explanation
Indices: 129425183--129425237 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
129425173 AGGTACATGA
*
129425183 TTGA-GATTAAAAGTAATCTACAAG
1 TTGATGATTAAAAGCAATCTACAAG
*
129425207 TTGATGATTAAAGGCAATCTACAAG
1 TTGATGATTAAAAGCAATCTACAAG
129425232 TTGATG
1 TTGATG
129425238 TTCTTAAGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
24 4 0.14
25 24 0.86
ACGTcount: A:0.40, C:0.09, G:0.20, T:0.31
Consensus pattern (25 bp):
TTGATGATTAAAAGCAATCTACAAG
Found at i:129433093 original size:47 final size:48
Alignment explanation
Indices: 129432960--129433131 Score: 190
Period size: 47 Copynumber: 3.6 Consensus size: 48
129432950 ATAGTAAAAC
* * * *
129432960 TATGGTCTTACACA-TAGTCACATAATACACACCAAAGCCATAGCCCAGC
1 TATGGTCTTACACAGTAG-CACATAAT-CACACCGATGCCATATCCCAGA
* * * *
129433009 CATGGTCTTACAC-GGATCACAT-ATCACACTGATGCCATATCCCAGA
1 TATGGTCTTACACAGTAGCACATAATCACACCGATGCCATATCCCAGA
*
129433055 TATGGTCTTATACAGTAGCACAT-ATCACACCGATGCCATATCCCAGA
1 TATGGTCTTACACAGTAGCACATAATCACACCGATGCCATATCCCAGA
* * *
129433102 TATGGTCTTATACGGAAGCACATAATCACA
1 TATGGTCTTACACAGTAGCACATAATCACA
129433132 TCTCTCTGAT
Statistics
Matches: 105, Mismatches: 15, Indels: 7
0.83 0.12 0.06
Matches are distributed among these distances:
46 28 0.27
47 53 0.50
48 11 0.10
49 13 0.12
ACGTcount: A:0.34, C:0.28, G:0.15, T:0.24
Consensus pattern (48 bp):
TATGGTCTTACACAGTAGCACATAATCACACCGATGCCATATCCCAGA
Found at i:129438760 original size:47 final size:47
Alignment explanation
Indices: 129438682--129438814 Score: 230
Period size: 47 Copynumber: 2.8 Consensus size: 47
129438672 CCGGGATAAG
* * * *
129438682 CACATAGTGCTTCATCGGAATAAATCCGGAACTTTAACATTATAGTA
1 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACATTACAGTA
129438729 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACATTACAGTA
1 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACATTACAGTA
129438776 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACA
1 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACA
129438815 GTAGTCGACA
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 82 1.00
ACGTcount: A:0.39, C:0.23, G:0.14, T:0.25
Consensus pattern (47 bp):
CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACATTACAGTA
Found at i:129444729 original size:47 final size:47
Alignment explanation
Indices: 129444651--129444783 Score: 239
Period size: 47 Copynumber: 2.8 Consensus size: 47
129444641 CCAGGATAAG
* * *
129444651 CACATAGTGCTTCATCGGAATAAATCCGGAACTTTAACATTATAGTA
1 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
129444698 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
129444745 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACA
1 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACA
129444784 GTAGTCGACA
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 83 1.00
ACGTcount: A:0.39, C:0.22, G:0.14, T:0.26
Consensus pattern (47 bp):
CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
Found at i:129448134 original size:12 final size:13
Alignment explanation
Indices: 129448119--129448170 Score: 54
Period size: 12 Copynumber: 3.9 Consensus size: 13
129448109 AATAGGGGTG
129448119 ATAATAATAATA-
1 ATAATAATAATAC
129448131 ATAATTAATAATAC
1 ATAA-TAATAATAC
*
129448145 A-AACAATAATAC
1 ATAATAATAATAC
129448157 ATATATATATAATA
1 ATA-ATA-ATAATA
129448171 ATAGTAGTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
12 13 0.39
13 11 0.33
14 3 0.09
15 6 0.18
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.33
Consensus pattern (13 bp):
ATAATAATAATAC
Found at i:129448261 original size:3 final size:3
Alignment explanation
Indices: 129448248--129448330 Score: 59
Period size: 3 Copynumber: 27.3 Consensus size: 3
129448238 GAGGGCATAT
129448248 ATA AT- ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA
* *
129448292 ATA ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA A
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA A
129448331 AAAAATAAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
2 9 0.14
3 45 0.69
4 9 0.14
5 2 0.03
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:129448272 original size:12 final size:12
Alignment explanation
Indices: 129448248--129448331 Score: 75
Period size: 12 Copynumber: 6.8 Consensus size: 12
129448238 GAGGGCATAT
129448248 ATAATAT-AATA
1 ATAATATAAATA
129448259 ATAATATAAATA
1 ATAATATAAATA
129448271 ATAATATATACATGA
1 ATAATATA-A-AT-A
129448286 GA-AATA-ATAATA
1 -ATAATATA-AATA
129448298 ATAATATAAATA
1 ATAATATAAATA
* *
129448310 ATAGTAAAAATA
1 ATAATATAAATA
*
129448322 ATAAAATAAA
1 ATAATATAAA
129448332 AAAATAAAAC
Statistics
Matches: 61, Mismatches: 5, Indels: 13
0.77 0.06 0.16
Matches are distributed among these distances:
11 8 0.13
12 38 0.62
13 4 0.07
14 5 0.08
15 5 0.08
16 1 0.02
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (12 bp):
ATAATATAAATA
Found at i:129448292 original size:21 final size:18
Alignment explanation
Indices: 129448253--129448312 Score: 75
Period size: 18 Copynumber: 3.2 Consensus size: 18
129448243 CATATATAAT
*
129448253 ATAATAATAATATAAATA
1 ATAATAATAATAGAAATA
129448271 ATAATATATACATGAGAAATA
1 ATAATA-ATA-AT-AGAAATA
*
129448292 ATAATAATAATATAAATA
1 ATAATAATAATAGAAATA
129448310 ATA
1 ATA
129448313 GTAAAAATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
18 15 0.41
19 5 0.14
20 5 0.14
21 12 0.32
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (18 bp):
ATAATAATAATAGAAATA
Found at i:129448761 original size:22 final size:22
Alignment explanation
Indices: 129448725--129448815 Score: 103
Period size: 22 Copynumber: 4.0 Consensus size: 22
129448715 TTTGTAGGCA
* *
129448725 AGTGGAGTGGGTGGGGTGGTTT
1 AGTGGAGTGGTTGGAGTGGTTT
*
129448747 AGTAGG-GTGGTTGGGGTGGTTT
1 AGT-GGAGTGGTTGGAGTGGTTT
129448769 AGTGGAGTGGTTTAGTGTAGTGGTTT
1 AGTGGAGTGG-TT-G-G-AGTGGTTT
129448795 AGTGGAGTGGTTGGAGTGGTT
1 AGTGGAGTGGTTGGAGTGGTT
129448816 GGAGTGGTTT
Statistics
Matches: 61, Mismatches: 2, Indels: 12
0.81 0.03 0.16
Matches are distributed among these distances:
21 2 0.03
22 32 0.52
23 5 0.08
24 2 0.03
25 3 0.05
26 17 0.28
ACGTcount: A:0.12, C:0.00, G:0.52, T:0.36
Consensus pattern (22 bp):
AGTGGAGTGGTTGGAGTGGTTT
Found at i:129448811 original size:9 final size:9
Alignment explanation
Indices: 129448797--129448824 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
129448787 AGTGGTTTAG
129448797 TGGAGTGGT
1 TGGAGTGGT
129448806 TGGAGTGGT
1 TGGAGTGGT
129448815 TGGAGTGGT
1 TGGAGTGGT
129448824 T
1 T
129448825 TAGTGGAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.11, C:0.00, G:0.54, T:0.36
Consensus pattern (9 bp):
TGGAGTGGT
Found at i:129448833 original size:13 final size:13
Alignment explanation
Indices: 129448735--129448806 Score: 82
Period size: 13 Copynumber: 5.8 Consensus size: 13
129448725 AGTGGAGTGG
*
129448735 GTGGGGTGGTTTA
1 GTGGAGTGGTTTA
129448748 GTAGG-GTGG-TT-
1 GT-GGAGTGGTTTA
129448759 G-GG-GTGGTTTA
1 GTGGAGTGGTTTA
129448770 GTGGAGTGGTTTA
1 GTGGAGTGGTTTA
*
129448783 GTGTAGTGGTTTA
1 GTGGAGTGGTTTA
129448796 GTGGAGTGGTT
1 GTGGAGTGGTT
129448807 GGAGTGGTTG
Statistics
Matches: 52, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
9 6 0.12
10 2 0.04
11 2 0.04
12 4 0.08
13 36 0.69
14 2 0.04
ACGTcount: A:0.11, C:0.00, G:0.50, T:0.39
Consensus pattern (13 bp):
GTGGAGTGGTTTA
Found at i:129451872 original size:46 final size:44
Alignment explanation
Indices: 129451767--129451874 Score: 135
Period size: 44 Copynumber: 2.4 Consensus size: 44
129451757 TGTCTTTGAC
** * * *
129451767 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
129451811 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
*
129451857 ATGGGCTTACATGGCTCA
1 ATGGACTTACATGGCTCA
129451875 TTTCTGTTCT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 33 0.60
46 22 0.40
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:129454114 original size:53 final size:53
Alignment explanation
Indices: 129454047--129454180 Score: 153
Period size: 54 Copynumber: 2.5 Consensus size: 53
129454037 ATTCTCTGAT
* *
129454047 GCCATAGCCTAGCTATGGTCTTATACGG-ATCACTTGTATCACATTAATCCGAA
1 GCCATAGCCCAGCTATGGTCTTATACGGAATCACTTATATCACATT-ATCCGAA
* * *** * *
129454100 GCCATAGCCCAGCTATGGTCATATACGGAAATCACTTATCTTTTATTTTCCGAT
1 GCCATAGCCCAGCTATGGTCTTATACGG-AATCACTTATATCACATTATCCGAA
*
129454154 GCTATAGCCCAGCTATGGTCTTATACG
1 GCCATAGCCCAGCTATGGTCTTATACG
129454181 AATATCGCTT
Statistics
Matches: 68, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
53 26 0.38
54 30 0.44
55 12 0.18
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (53 bp):
GCCATAGCCCAGCTATGGTCTTATACGGAATCACTTATATCACATTATCCGAA
Found at i:129457457 original size:53 final size:52
Alignment explanation
Indices: 129457338--129457474 Score: 168
Period size: 53 Copynumber: 2.6 Consensus size: 52
129457328 TGCGGCTGTT
* ** *
129457338 TAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATATGTGTTCCCGTA
1 TAAGACCATATCTGGGCTATGGCATCGGTGTGATATGATATGTGTTCCCGTA
* * *
129457390 TAAGACCATATCTGGGCTATGACATCGGTGTGATATGATAATGTGATT-TCGTG
1 TAAGACCATATCTGGGCTATGGCATCGGTGTGATATGAT-ATGTG-TTCCCGTA
* *
129457443 TAAGATCATATCTGGGATATGGCATCGGTGTG
1 TAAGACCATATCTGGGCTATGGCATCGGTGTG
129457475 TGATGTGATC
Statistics
Matches: 73, Mismatches: 10, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
52 34 0.47
53 37 0.51
54 2 0.03
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.31
Consensus pattern (52 bp):
TAAGACCATATCTGGGCTATGGCATCGGTGTGATATGATATGTGTTCCCGTA
Found at i:129460648 original size:28 final size:28
Alignment explanation
Indices: 129460617--129460674 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
129460607 TAACCTCTAT
*
129460617 AACCTTAAACTCTAAACCACAAGCTGAG
1 AACCTTAAACTCTAAACCACAAGCTAAG
129460645 AACCTTAAACTCTAAACCACAAGCTAAG
1 AACCTTAAACTCTAAACCACAAGCTAAG
129460673 AA
1 AA
129460675 GCCTCACAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.47, C:0.28, G:0.09, T:0.17
Consensus pattern (28 bp):
AACCTTAAACTCTAAACCACAAGCTAAG
Found at i:129460718 original size:23 final size:22
Alignment explanation
Indices: 129460677--129460732 Score: 62
Period size: 23 Copynumber: 2.6 Consensus size: 22
129460667 GCTAAGAAGC
* *
129460677 CTCACAACCCTAAGTCTAAAGA
1 CTCACAACCCCAAGCCTAAAGA
129460699 CTCACAAACCCCAAGCCTAAA-A
1 CTCAC-AACCCCAAGCCTAAAGA
*
129460721 -TCAGAACCCCAA
1 CTCACAACCCCAA
129460733 AAAGTCTTCT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 8 0.27
21 3 0.10
22 6 0.20
23 13 0.43
ACGTcount: A:0.43, C:0.38, G:0.07, T:0.12
Consensus pattern (22 bp):
CTCACAACCCCAAGCCTAAAGA
Found at i:129460957 original size:5 final size:5
Alignment explanation
Indices: 129460936--129460970 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
129460926 GAAAGGGAGG
*
129460936 AGAAA ATAAA TAGAAA AGAAA AGAAA AGAAA AGAA
1 AGAAA AGAAA -AGAAA AGAAA AGAAA AGAAA AGAA
129460971 GGTAACAATC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
5 23 0.85
6 4 0.15
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.06
Consensus pattern (5 bp):
AGAAA
Found at i:129462988 original size:21 final size:21
Alignment explanation
Indices: 129462964--129463009 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
129462954 GAGGGACCCC
* *
129462964 AAAACAGAAATGAAAAGGAAA
1 AAAACACAAATGAAAAGCAAA
* *
129462985 AAAATACAAATGACAAGCAAA
1 AAAACACAAATGAAAAGCAAA
129463006 AAAA
1 AAAA
129463010 AAACATAGTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.72, C:0.09, G:0.13, T:0.07
Consensus pattern (21 bp):
AAAACACAAATGAAAAGCAAA
Found at i:129464953 original size:114 final size:115
Alignment explanation
Indices: 129464732--129464954 Score: 324
Period size: 118 Copynumber: 1.9 Consensus size: 115
129464722 GAATATACCA
* *
129464732 AAAGAATATATATAGATGCAAATTCCACTTACGGATGCATGCAAATATATCAAAAGAGAATATAT
1 AAAGAATATATATACATCCAAATTCCACTTACGGATGCATGCAAATATAT-AAAAGAGAATATAT
* *
129464797 ATACACACACATTTCACTTAGAGATGCATGAAGCAAAATTTATAACAGATAG
65 ATA-ACACACATTTCACTTACAGATGCAAGAAGCAAAATTTATAACAGATAG
* *
129464849 AAAGAAATATATATACATCCAAATTTCACTTATGGATGCATGCAAATATAT-AAAGAGAATATAT
1 AAAG-AATATATATACATCCAAATTCCACTTACGGATGCATGCAAATATATAAAAGAGAATATAT
* * *
129464913 AT-ACACGCATTTCACTTACAGATGTAAGAAGCAACATTTATA
65 ATAACACACATTTCACTTACAGATGCAAGAAGCAAAATTTATA
129464955 TGGAATGTGC
Statistics
Matches: 96, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
114 35 0.36
116 15 0.16
117 4 0.04
118 42 0.44
ACGTcount: A:0.46, C:0.14, G:0.13, T:0.27
Consensus pattern (115 bp):
AAAGAATATATATACATCCAAATTCCACTTACGGATGCATGCAAATATATAAAAGAGAATATATA
TAACACACATTTCACTTACAGATGCAAGAAGCAAAATTTATAACAGATAG
Found at i:129469900 original size:19 final size:19
Alignment explanation
Indices: 129469854--129469901 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
129469844 GTATATATTT
129469854 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
129469872 TAAATCTTATTT-GGATAGA
1 TAAATTTTATTTAGG-TAGA
*
129469891 TAAGTTTTATT
1 TAAATTTTATT
129469902 CATATTTTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:129469963 original size:43 final size:43
Alignment explanation
Indices: 129469911--129470007 Score: 153
Period size: 43 Copynumber: 2.3 Consensus size: 43
129469901 TCATATTTTA
129469911 GGAA-TATTTT-TATTTTATCTTTTAGTAGTTTACTAGAATAAG
1 GGAACTATTTTCT-TTTTATCTTTTAGTAGTTTACTAGAATAAG
* *
129469953 GGAACTATTTTCTTTTTATGTTTTAGTAGTTTATTAGAATAAG
1 GGAACTATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAG
129469996 GGAACTATTTTC
1 GGAACTATTTTC
129470008 CCAATTAGGA
Statistics
Matches: 51, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
42 4 0.08
43 46 0.90
44 1 0.02
ACGTcount: A:0.29, C:0.06, G:0.15, T:0.49
Consensus pattern (43 bp):
GGAACTATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAG
Found at i:129474630 original size:19 final size:19
Alignment explanation
Indices: 129474584--129474631 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
129474574 GTATATATTT
129474584 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
129474602 TAAATCTTATTT-GGATAGA
1 TAAATTTTATTTAGG-TAGA
*
129474621 TAAGTTTTATT
1 TAAATTTTATT
129474632 CATATTCTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:129474693 original size:43 final size:43
Alignment explanation
Indices: 129474645--129474737 Score: 152
Period size: 43 Copynumber: 2.2 Consensus size: 43
129474635 ATTCTAGAAA
129474645 TATTTT-TATTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
1 TATTTTCT-TTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
* *
129474688 TATTTTCTTTTTATGTTTTAGTAGTTTATTAGAATAAGGGAAC
1 TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
129474731 TATTTTC
1 TATTTTC
129474738 CCAATTAGGA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
43 46 0.98
44 1 0.02
ACGTcount: A:0.28, C:0.06, G:0.14, T:0.52
Consensus pattern (43 bp):
TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
Found at i:129475743 original size:2 final size:2
Alignment explanation
Indices: 129475736--129475770 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
129475726 AACCAGGAGG
129475736 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
129475771 TTACCATACT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:129482236 original size:21 final size:22
Alignment explanation
Indices: 129482210--129482259 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
129482200 TAAAAATACT
* * *
129482210 AAAAATATTAAAAT-ACTTTTC
1 AAAAATATAAAAATAAATTTTA
129482231 AAAAAT-TAAAAATAAATTTTA
1 AAAAATATAAAAATAAATTTTA
129482252 AAAAATAT
1 AAAAATAT
129482260 GTATACTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 6 0.25
21 17 0.71
22 1 0.04
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (22 bp):
AAAAATATAAAAATAAATTTTA
Found at i:129482345 original size:30 final size:30
Alignment explanation
Indices: 129482300--129482357 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
129482290 CTTAATAAGT
129482300 AAATATCTCTAAAATAATAACAAAATTAAC
1 AAATATCTCTAAAATAATAACAAAATTAAC
* *
129482330 AAATTTCTTTAAAATAATAACAAAATTA
1 AAATATCTCTAAAATAATAACAAAATTA
129482358 TTAAAAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.31
Consensus pattern (30 bp):
AAATATCTCTAAAATAATAACAAAATTAAC
Found at i:129482432 original size:11 final size:11
Alignment explanation
Indices: 129482389--129482472 Score: 73
Period size: 11 Copynumber: 7.8 Consensus size: 11
129482379 ATATCCAAAT
129482389 AATAATAATAA
1 AATAATAATAA
* **
129482400 AATAGTAGCAA
1 AATAATAATAA
*
129482411 TATAATAATAA
1 AATAATAATAA
*
129482422 AATAGTAATAA
1 AATAATAATAA
* *
129482433 AATAAAAAAAA
1 AATAATAATAA
*
129482444 AATAACAA-AA
1 AATAATAATAA
*
129482454 AATAATATTAA
1 AATAATAATAA
129482465 AA-AATAAT
1 AATAATAAT
129482473 TTTTTTGTCG
Statistics
Matches: 56, Mismatches: 16, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
10 13 0.23
11 43 0.77
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.24
Consensus pattern (11 bp):
AATAATAATAA
Done.