Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 164 of 295
Found at i:55983419 original size:19 final size:19
Alignment explanation
Indices: 55983392--55983428 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
55983382 AACTCGAGTT
* *
55983392 TTTATTTTTATTTTTTTAG
1 TTTACTTTTATGTTTTTAG
55983411 TTTACTTTTATGTTTTTA
1 TTTACTTTTATGTTTTTA
55983429 TTCAACAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.16, C:0.03, G:0.05, T:0.76
Consensus pattern (19 bp):
TTTACTTTTATGTTTTTAG
Found at i:55983465 original size:16 final size:16
Alignment explanation
Indices: 55983432--55983464 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
55983422 GTTTTTATTC
*
55983432 AACAACAAAAATTCAA
1 AACAACAAAAATTAAA
55983448 AACAA-AAAAATTAAA
1 AACAACAAAAATTAAA
55983463 AA
1 AA
55983465 AAATTACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.76, C:0.12, G:0.00, T:0.12
Consensus pattern (16 bp):
AACAACAAAAATTAAA
Found at i:55983577 original size:31 final size:29
Alignment explanation
Indices: 55983523--55983591 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 29
55983513 ACAAAATTTT
55983523 GAAAAAAAATAAAAAATTGGAAAAGAAAAA
1 GAAAAAAAATAAAAAATTGGAAAA-AAAAA
* * * *
55983553 GAAAAAGAAGTAATAAATTTGAAAAAAAAT
1 GAAAAA-AAATAAAAAATTGGAAAAAAAAA
*
55983583 TAAAAAAAA
1 GAAAAAAAA
55983592 GTGGTCCGCA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
29 2 0.06
30 15 0.47
31 15 0.47
ACGTcount: A:0.74, C:0.00, G:0.12, T:0.14
Consensus pattern (29 bp):
GAAAAAAAATAAAAAATTGGAAAAAAAAA
Found at i:55984931 original size:6 final size:6
Alignment explanation
Indices: 55984922--55984979 Score: 71
Period size: 6 Copynumber: 9.7 Consensus size: 6
55984912 TATTTTTATT
* * * * *
55984922 TTTTTG TTTTTG TTTTTG TTTTTG CTTTTG CTTTTG CTTCTA TTTTTG
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG
55984970 TTTTTG TTTT
1 TTTTTG TTTT
55984980 ATTTTATTAT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.02, C:0.07, G:0.14, T:0.78
Consensus pattern (6 bp):
TTTTTG
Found at i:55997866 original size:26 final size:26
Alignment explanation
Indices: 55997694--55997883 Score: 158
Period size: 26 Copynumber: 7.4 Consensus size: 26
55997684 TACTGAAAAT
* * * *
55997694 GCCATAAAGGCTACCAGACAAAATAC
1 GCCATAAAAGCTATCATACAGAATAC
* * * *
55997720 ACTATAAAGGCTATCATACAAAATAC
1 GCCATAAAAGCTATCATACAGAATAC
* *
55997746 ACCAT-AAAG-TCATCATACAGAATAA
1 GCCATAAAAGCT-ATCATACAGAATAC
*
55997771 GCCA-AAAAGGCTATCATACAGAATAA
1 GCCATAAAA-GCTATCATACAGAATAC
*
55997797 GCCA-AAAAGGCTATCATACATAATAC
1 GCCATAAAA-GCTATCATACAGAATAC
* * *
55997823 ACCATAAAATCTACCATACAGAATAC
1 GCCATAAAAGCTATCATACAGAATAC
**
55997849 GCCATAAAAGCTATCATATGGAAT--
1 GCCATAAAAGCTATCATACAGAATAC
55997873 GCCATAAAAGC
1 GCCATAAAAGC
55997884 ACCCCAAGAA
Statistics
Matches: 139, Mismatches: 20, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
24 12 0.09
25 21 0.15
26 101 0.73
27 5 0.04
ACGTcount: A:0.48, C:0.22, G:0.12, T:0.18
Consensus pattern (26 bp):
GCCATAAAAGCTATCATACAGAATAC
Found at i:56000209 original size:22 final size:23
Alignment explanation
Indices: 56000184--56000236 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
56000174 CCTCCGTCGT
56000184 CAGACCACCACT-CCACCATCGC
1 CAGACCACCACTGCCACCATCGC
* * * *
56000206 CAGACCGCCACTGTCACTATCGT
1 CAGACCACCACTGCCACCATCGC
56000229 CAGACCAC
1 CAGACCAC
56000237 TATCATCGCC
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 11 0.44
23 14 0.56
ACGTcount: A:0.26, C:0.47, G:0.13, T:0.13
Consensus pattern (23 bp):
CAGACCACCACTGCCACCATCGC
Found at i:56000232 original size:23 final size:22
Alignment explanation
Indices: 56000180--56000236 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
56000170 TAGCCCTCCG
56000180 TCGTCAGACCACCACTCCACCA
1 TCGTCAGACCACCACTCCACCA
* * * *
56000202 TCGCCAGACCGCCACTGTCACTA
1 TCGTCAGACCACCACT-CCACCA
56000225 TCGTCAGACCAC
1 TCGTCAGACCAC
56000237 TATCATCGCC
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.25, C:0.46, G:0.14, T:0.16
Consensus pattern (22 bp):
TCGTCAGACCACCACTCCACCA
Found at i:56003281 original size:21 final size:20
Alignment explanation
Indices: 56003244--56003282 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
56003234 TTGGGATCAT
*
56003244 TTTCACTTGGTTAAAAATAA
1 TTTCACTTGCTTAAAAATAA
*
56003264 TTTCACTTGACTTTAAAAT
1 TTTCACTTG-CTTAAAAAT
56003283 TGTTTCAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.36, C:0.13, G:0.08, T:0.44
Consensus pattern (20 bp):
TTTCACTTGCTTAAAAATAA
Found at i:56004176 original size:16 final size:17
Alignment explanation
Indices: 56004139--56004181 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
56004129 AAATTTAAAC
56004139 ATTTT-ATTAAAATAAT
1 ATTTTAATTAAAATAAT
*
56004155 AGTTTAATTAAAATAAT
1 ATTTTAATTAAAATAAT
*
56004172 -TTTTATTTAA
1 ATTTTAATTAA
56004182 TAAATTATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 12 0.52
17 11 0.48
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (17 bp):
ATTTTAATTAAAATAAT
Found at i:56009914 original size:29 final size:29
Alignment explanation
Indices: 56009881--56009938 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
56009871 AAATAATTTG
*
56009881 ATCTTTATCCAACCAATTTCAAATCTTCA
1 ATCTTTATCCAACCAACTTCAAATCTTCA
56009910 ATCTTTATCCAACCAACTTCAAATCTTCA
1 ATCTTTATCCAACCAACTTCAAATCTTCA
56009939 CTATTTCAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.34, C:0.29, G:0.00, T:0.36
Consensus pattern (29 bp):
ATCTTTATCCAACCAACTTCAAATCTTCA
Found at i:56012498 original size:11 final size:11
Alignment explanation
Indices: 56012482--56012515 Score: 59
Period size: 11 Copynumber: 3.0 Consensus size: 11
56012472 TGTTTGGCCC
56012482 TTTTTTTCTTT
1 TTTTTTTCTTT
56012493 TTTTTTTCTTT
1 TTTTTTTCTTT
56012504 TTTTCTTTCTTT
1 TTTT-TTTCTTT
56012516 ATTTGGTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 15 0.68
12 7 0.32
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (11 bp):
TTTTTTTCTTT
Found at i:56012855 original size:5 final size:5
Alignment explanation
Indices: 56012845--56012869 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
56012835 ACTAGAATTC
56012845 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
56012870 GTGGGTTGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:56019507 original size:18 final size:18
Alignment explanation
Indices: 56019484--56019523 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
56019474 TTTAAAAATC
56019484 AAATTTAAACTAAT-TAAA
1 AAATTTAAAC-AATATAAA
*
56019502 AAATTTTAACAATATAAA
1 AAATTTAAACAATATAAA
56019520 AAAT
1 AAAT
56019524 AATTTGATCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 3 0.15
18 17 0.85
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (18 bp):
AAATTTAAACAATATAAA
Found at i:56019563 original size:29 final size:29
Alignment explanation
Indices: 56019530--56019593 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
56019520 AAATAATTTG
*
56019530 ATCTTTATCCAGCCAATTTCAAATATTCA
1 ATCTTTATCCAGCCAACTTCAAATATTCA
* *
56019559 ATCTTTATCTAGCCAACTTCAAATCTTCA
1 ATCTTTATCCAGCCAACTTCAAATATTCA
56019588 ATCTTT
1 ATCTTT
56019594 CAATCTATCC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.31, C:0.25, G:0.03, T:0.41
Consensus pattern (29 bp):
ATCTTTATCCAGCCAACTTCAAATATTCA
Found at i:56020528 original size:2 final size:2
Alignment explanation
Indices: 56020511--56020547 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
56020501 TTATTTCATT
*
56020511 TA TA TA AA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
56020548 AACATTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:56033814 original size:13 final size:13
Alignment explanation
Indices: 56033796--56033820 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56033786 GGGAGTATGG
56033796 ACCACACGGGCAA
1 ACCACACGGGCAA
56033809 ACCACACGGGCA
1 ACCACACGGGCA
56033821 TGTGAGCCCA
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:0.36, C:0.40, G:0.24, T:0.00
Consensus pattern (13 bp):
ACCACACGGGCAA
Found at i:56034259 original size:13 final size:14
Alignment explanation
Indices: 56034241--56034275 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
56034231 ATGAAGGTAG
56034241 GATTCTGTATATTT
1 GATTCTGTATATTT
*
56034255 G-TTCTGCATATTT
1 GATTCTGTATATTT
56034268 GATTCTGT
1 GATTCTGT
56034276 TATCTGTATC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.17, C:0.11, G:0.17, T:0.54
Consensus pattern (14 bp):
GATTCTGTATATTT
Found at i:56037064 original size:18 final size:18
Alignment explanation
Indices: 56037055--56037092 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
56037045 AACATGATAT
56037055 AATAAATAAATCATAGTA
1 AATAAATAAATCATAGTA
56037073 AATAAATAAATCATAGTA
1 AATAAATAAATCATAGTA
56037091 AA
1 AA
56037093 ATATACCTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.26
Consensus pattern (18 bp):
AATAAATAAATCATAGTA
Found at i:56037891 original size:32 final size:29
Alignment explanation
Indices: 56037823--56037883 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
56037813 ATAAGCATTC
56037823 AATTTGAATAGCAACCAACAACAATAAAT
1 AATTTGAATAGCAACCAACAACAATAAAT
56037852 AATTTGAATAGCAACCAACAACAATAAAT
1 AATTTGAATAGCAACCAACAACAATAAAT
56037881 AAT
1 AAT
56037884 CATTTGAAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.56, C:0.16, G:0.07, T:0.21
Consensus pattern (29 bp):
AATTTGAATAGCAACCAACAACAATAAAT
Found at i:56038222 original size:53 final size:53
Alignment explanation
Indices: 56038142--56038252 Score: 195
Period size: 53 Copynumber: 2.1 Consensus size: 53
56038132 ACAAAGCTTC
*
56038142 TCTAAAGTCTTTATTTATAAACATAAGAAGTATAAATGAAGTAGAGATCTATT
1 TCTAAAGTCTTTATTTATAAACATAAGAAGTATAAATGAAGTAGAGATCTACT
* *
56038195 TCTAAAGTTTTTATTTATAGACATAAGAAGTATAAATGAAGTAGAGATCTACT
1 TCTAAAGTCTTTATTTATAAACATAAGAAGTATAAATGAAGTAGAGATCTACT
56038248 TCTAA
1 TCTAA
56038253 TGACTATTAG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.42, C:0.08, G:0.14, T:0.36
Consensus pattern (53 bp):
TCTAAAGTCTTTATTTATAAACATAAGAAGTATAAATGAAGTAGAGATCTACT
Found at i:56045174 original size:43 final size:43
Alignment explanation
Indices: 56045109--56045309 Score: 181
Period size: 43 Copynumber: 4.7 Consensus size: 43
56045099 AATATACAGG
* * *
56045109 TAATT-CTTCGGTATATCCGATGATGCACTGTGTGTGCTAGTA
1 TAATTGCTTCAGTTTATCCGATGATGCACTGTGTGTGCCAGTA
* *
56045151 TAATTGCTTCAGTTTATCTGATGATGCAATGTGTGTGCCAGTA
1 TAATTGCTTCAGTTTATCCGATGATGCACTGTGTGTGCCAGTA
* * * * *
56045194 TAGTTGCTTTAGTTTATCCGATGATACACTATGTGTACCAGTA
1 TAATTGCTTCAGTTTATCCGATGATGCACTGTGTGTGCCAGTA
* * * * * * *
56045237 TAGTTGTTTC-GATATATCCCATGATGCACTATTTGTACCAGTA
1 TAATTGCTTCAG-TTTATCCGATGATGCACTGTGTGTGCCAGTA
* * * * *
56045280 TAGTTGTTTCGGTATATTCGATGATGCACT
1 TAATTGCTTCAGTTTATCCGATGATGCACT
56045310 TCGTATGCCA
Statistics
Matches: 136, Mismatches: 20, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
42 6 0.04
43 129 0.95
44 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.21, T:0.40
Consensus pattern (43 bp):
TAATTGCTTCAGTTTATCCGATGATGCACTGTGTGTGCCAGTA
Found at i:56045302 original size:86 final size:87
Alignment explanation
Indices: 56045115--56045309 Score: 216
Period size: 86 Copynumber: 2.3 Consensus size: 87
56045105 CAGGTAATTC
* * * * **
56045115 TTCGGTATATCCGATGATGCACTGTGTGTGCTAGTATAATTGCTTCAGTTTATCTGATGATGCAA
1 TTCGGTATATCCGATGATGCACTATGTGTACCAGTATAATTGCTTCAGTATATCCCATGATGCAA
* *
56045180 TGTGTGTGCCAGTATAGTTGCT
66 TATGTGTACCAGTATAGTTGCT
* * * * *
56045202 TT-AGTTTATCCGATGATACACTATGTGTACCAGTATAGTTGTTTC-GATATATCCCATGATGCA
1 TTCGGTATATCCGATGATGCACTATGTGTACCAGTATAATTGCTTCAG-TATATCCCATGATGCA
* *
56045265 CTATTTGTACCAGTATAGTTG-T
65 ATATGTGTACCAGTATAGTTGCT
*
56045287 TTCGGTATATTCGATGATGCACT
1 TTCGGTATATCCGATGATGCACT
56045310 TCGTATGCCA
Statistics
Matches: 87, Mismatches: 19, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
85 4 0.05
86 81 0.93
87 2 0.02
ACGTcount: A:0.23, C:0.16, G:0.22, T:0.39
Consensus pattern (87 bp):
TTCGGTATATCCGATGATGCACTATGTGTACCAGTATAATTGCTTCAGTATATCCCATGATGCAA
TATGTGTACCAGTATAGTTGCT
Found at i:56049658 original size:43 final size:43
Alignment explanation
Indices: 56049592--56049677 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
56049582 TATATGATTG
* *
56049592 ATATTGAAATGGCAAAGAAGAGAAATGAGTATGAGATGAGAAA
1 ATATTAAAATGGAAAAGAAGAGAAATGAGTATGAGATGAGAAA
* * *
56049635 ATATTAAAATGGAAAATATGAGAAATGATTATGAGATGAGAAA
1 ATATTAAAATGGAAAAGAAGAGAAATGAGTATGAGATGAGAAA
56049678 TGAAATATGA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.52, C:0.01, G:0.24, T:0.22
Consensus pattern (43 bp):
ATATTAAAATGGAAAAGAAGAGAAATGAGTATGAGATGAGAAA
Found at i:56055407 original size:18 final size:18
Alignment explanation
Indices: 56055381--56055415 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
56055371 TCTTCTTTAA
*
56055381 TCTTTAACCTTCCATCTT
1 TCTTAAACCTTCCATCTT
*
56055399 TCTTAAACCTTTCATCT
1 TCTTAAACCTTCCATCT
56055416 CCTTGTAACC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.20, C:0.31, G:0.00, T:0.49
Consensus pattern (18 bp):
TCTTAAACCTTCCATCTT
Found at i:56064186 original size:18 final size:19
Alignment explanation
Indices: 56064151--56064186 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
56064141 TGATTTTTTT
*
56064151 TTTGAATCAACTCGAATAC
1 TTTGAATCAACTCAAATAC
56064170 TTTGAAT-AACTCAAATA
1 TTTGAATCAACTCAAATA
56064187 ATAAATTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.42, C:0.17, G:0.08, T:0.33
Consensus pattern (19 bp):
TTTGAATCAACTCAAATAC
Found at i:56065737 original size:12 final size:11
Alignment explanation
Indices: 56065708--56065740 Score: 57
Period size: 11 Copynumber: 2.9 Consensus size: 11
56065698 GAAATTATAG
56065708 AAAAATATTTA
1 AAAAATATTTA
56065719 AAAAATATTTA
1 AAAAATATTTA
56065730 AAATAATATTT
1 AAA-AATATTT
56065741 TACAAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.67
12 7 0.33
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (11 bp):
AAAAATATTTA
Found at i:56066462 original size:211 final size:212
Alignment explanation
Indices: 56066067--56066491 Score: 816
Period size: 211 Copynumber: 2.0 Consensus size: 212
56066057 ACAAAATGCC
56066067 AAATAACTCCCAACGTAAGGACCTTAATGCCACTTTAAAAATTACTTCTCATGTCGTTGTTAAAT
1 AAATAACTCCCAACGTAAGGACCTTAATGCCACTTTAAAAATTACTTCTCATGTCGTTGTTAAAT
*
56066132 AATAAATTTTAAACATATTTATATATTTTTTAATACATATAAATTAATTTATTTATTTTTAGTAA
66 AATAAATTTTAAACATATTTATATATTTTTTAATACATATAAATTAATTTATTTATTTTTAATAA
56066197 AAAAATAAAATATAATTTAACTCCGCTTAGATGGTAATTTTATAACTTTAGTCGTATTTTTCATT
131 AAAAATAAAATATAATTTAACTCCGCTTAGATGGTAATTTTATAACTTTAGTCGTATTTTTCATT
56066262 CCATTTATTTAAAATTG
196 CCATTTATTTAAAATTG
**
56066279 AAATAACTCCCGGCGTAAGGACCTTAATGCCACTTTAAAAATTACTTCTCATGTCGTTGTTAAAT
1 AAATAACTCCCAACGTAAGGACCTTAATGCCACTTTAAAAATTACTTCTCATGTCGTTGTTAAAT
56066344 AATAAATTTTAAACATATTTATATA-TTTTTAATACATATAAATTAATTTATTTATTTTTAATAA
66 AATAAATTTTAAACATATTTATATATTTTTTAATACATATAAATTAATTTATTTATTTTTAATAA
56066408 AAAAATAAAATATAATTTAACTCCGCTTAGATGGTAATTTTATAACTTTAGTCGTATTTTTCATT
131 AAAAATAAAATATAATTTAACTCCGCTTAGATGGTAATTTTATAACTTTAGTCGTATTTTTCATT
56066473 CCATTTATTTAAAATTG
196 CCATTTATTTAAAATTG
56066490 AA
1 AA
56066492 GTTATTTAAT
Statistics
Matches: 210, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
211 122 0.58
212 88 0.42
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.43
Consensus pattern (212 bp):
AAATAACTCCCAACGTAAGGACCTTAATGCCACTTTAAAAATTACTTCTCATGTCGTTGTTAAAT
AATAAATTTTAAACATATTTATATATTTTTTAATACATATAAATTAATTTATTTATTTTTAATAA
AAAAATAAAATATAATTTAACTCCGCTTAGATGGTAATTTTATAACTTTAGTCGTATTTTTCATT
CCATTTATTTAAAATTG
Found at i:56073177 original size:18 final size:20
Alignment explanation
Indices: 56073135--56073177 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
56073125 AACTGAAATA
*
56073135 TAAAATATAAAATATCTTTT
1 TAAAATATAAAATATCTTAT
*
56073155 TAAAATATAACAT-T-TTAT
1 TAAAATATAAAATATCTTAT
56073173 TAAAA
1 TAAAA
56073178 ATTATAGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 8 0.38
19 1 0.05
20 12 0.57
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (20 bp):
TAAAATATAAAATATCTTAT
Found at i:56074698 original size:26 final size:29
Alignment explanation
Indices: 56074657--56074710 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 29
56074647 TTATGCTATT
*
56074657 TTTTTGAATTTATGAA-TT-TTTTATATC
1 TTTTTGAATATATGAATTTATTTTATATC
56074684 TTTTTGAATAT-TGAATTTATTTTATAT
1 TTTTTGAATATATGAATTTATTTTATAT
56074711 TTTAATATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 4 0.17
27 12 0.50
28 8 0.33
ACGTcount: A:0.28, C:0.02, G:0.07, T:0.63
Consensus pattern (29 bp):
TTTTTGAATATATGAATTTATTTTATATC
Found at i:56074713 original size:26 final size:27
Alignment explanation
Indices: 56074657--56074713 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 27
56074647 TTATGCTATT
* *
56074657 TTTTTGAATTTATGAATTTTTTATATC
1 TTTTTGAATATATGAATTTTTTATATA
56074684 TTTTTGAATAT-TGAATTTATTT-TATA
1 TTTTTGAATATATGAATTT-TTTATATA
56074710 TTTT
1 TTTT
56074714 AATATTTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 14 0.52
27 13 0.48
ACGTcount: A:0.26, C:0.02, G:0.07, T:0.65
Consensus pattern (27 bp):
TTTTTGAATATATGAATTTTTTATATA
Found at i:56078765 original size:42 final size:41
Alignment explanation
Indices: 56078653--56078765 Score: 111
Period size: 44 Copynumber: 2.7 Consensus size: 41
56078643 TTCCAATGTG
* * **
56078653 TGATTTCATGTAAGACCATGTCTAGGACGTTGGCATCGATT
1 TGATTTCATGTAAGACCATGTCTGGGACATCAGCATCGATT
*
56078694 TGAGATTT-ATGTGCAAGACTATGTCTGGGACATCAGCATCGCATT
1 T--GATTTCATGT--AAGACCATGTCTGGGACATCAGCATCG-ATT
* *
56078739 TGATTTCATGTAAGACCCTGTTTGGGA
1 TGATTTCATGTAAGACCATGTCTGGGA
56078766 TAGTGGCATT
Statistics
Matches: 58, Mismatches: 8, Indels: 11
0.75 0.10 0.14
Matches are distributed among these distances:
41 1 0.02
42 17 0.29
43 10 0.17
44 26 0.45
45 4 0.07
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.34
Consensus pattern (41 bp):
TGATTTCATGTAAGACCATGTCTGGGACATCAGCATCGATT
Found at i:56086445 original size:43 final size:43
Alignment explanation
Indices: 56086376--56086539 Score: 158
Period size: 43 Copynumber: 3.9 Consensus size: 43
56086366 TTCCGATGTG
* * *
56086376 TGATTT-CATGTAAGACCACGTTTGGGACGTTGGCATCG-ATT
1 TGATTTACGTGTAAGACCATGTCTGGGACGTTGGCATCGTATT
* * * *
56086417 TGAGTTTACGTGTAAGACCATGTCTGGGACATCGACATCGTTTT
1 TGA-TTTACGTGTAAGACCATGTCTGGGACGTTGGCATCGTATT
* *
56086461 TGATTT-CGTGTAAGACCTTGGCTGGGACAG-TGGCATCGATATT
1 TGATTTACGTGTAAGACCATGTCTGGGAC-GTTGGCATCG-TATT
* * *
56086504 TGA-TTACATGTAAGACCATATCTAGGACGTTGGCAT
1 TGATTTACGTGTAAGACCATGTCTGGGACGTTGGCAT
56086540 TAAACTAGCT
Statistics
Matches: 98, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
41 3 0.03
42 32 0.33
43 58 0.59
44 5 0.05
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (43 bp):
TGATTTACGTGTAAGACCATGTCTGGGACGTTGGCATCGTATT
Found at i:56101074 original size:6 final size:6
Alignment explanation
Indices: 56101059--56101102 Score: 70
Period size: 6 Copynumber: 7.3 Consensus size: 6
56101049 ACTGAGTGCA
* *
56101059 TTTATC TTTATT TTTATT TTTATT TTTATT TTTATG TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TT
56101103 GTTTTCATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.80
Consensus pattern (6 bp):
TTTATT
Found at i:56112311 original size:53 final size:54
Alignment explanation
Indices: 56112243--56112442 Score: 233
Period size: 53 Copynumber: 3.7 Consensus size: 54
56112233 TTTCCTTTTT
* * * *
56112243 GAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* *
56112296 GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTATA
* * * * * *
56112350 GTAACTCATCAATGGCATGTCTTGACATGGTCTTACATGATTTACTTGCCTTATA
1 G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* * *
56112405 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATG
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATG
56112443 ATAACCTTAT
Statistics
Matches: 125, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
52 2 0.02
53 44 0.35
54 34 0.27
55 44 0.35
56 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.34
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
Found at i:56112381 original size:55 final size:54
Alignment explanation
Indices: 56112254--56112442 Score: 215
Period size: 55 Copynumber: 3.5 Consensus size: 54
56112244 AACTTACCAT
* * * *
56112254 TGCCATGTCTTGACATGGTCTTACGTGGTATCC-TTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGGA-CCTTTGCCTTATAGAACTCATCAA
*
56112307 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGGACCTTTGCCTTATAG-AACTCATCAA
* * ** *
56112362 TGGCATGTCTTGACATGGTCTTACAT--GATTTACTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGGACCT--TTGCCTTATAGAACTCATCAA
*
56112416 TGCCATGCCTTGGCATGGTCTTACATG
1 TGCCATGCCTTGACATGGTCTTACATG
56112443 ATAACCTTAT
Statistics
Matches: 116, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
52 2 0.02
53 38 0.33
54 33 0.28
55 43 0.37
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.35
Consensus pattern (54 bp):
TGCCATGCCTTGACATGGTCTTACATGGGACCTTTGCCTTATAGAACTCATCAA
Found at i:56112485 original size:47 final size:47
Alignment explanation
Indices: 56112429--56112550 Score: 208
Period size: 47 Copynumber: 2.6 Consensus size: 47
56112419 CATGCCTTGG
* * *
56112429 CATGGTCTTACATGATAACCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
*
56112476 GATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
56112523 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
56112551 GTGCCAATGC
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:56127949 original size:49 final size:47
Alignment explanation
Indices: 56127883--56127989 Score: 142
Period size: 49 Copynumber: 2.2 Consensus size: 47
56127873 GAGATGTGTT
*
56127883 AGTGGAAGACCTATCTGGGACATGGCATAAACACAGATAAGTGAGAGAC
1 AGTGTAAGACCTATCTGGGACATGGCATAAACACAGAT--GTGAGAGAC
* * ** *
56127932 AGTGTAAGACCTGTCTGGGACATGGCATCAACTTAGATGTGAGAGCC
1 AGTGTAAGACCTATCTGGGACATGGCATAAACACAGATGTGAGAGAC
56127979 AGTGTAAGACC
1 AGTGTAAGACC
56127990 ATGTTTGGAA
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
47 19 0.37
49 33 0.63
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.20
Consensus pattern (47 bp):
AGTGTAAGACCTATCTGGGACATGGCATAAACACAGATGTGAGAGAC
Found at i:56132287 original size:38 final size:38
Alignment explanation
Indices: 56132195--56132297 Score: 134
Period size: 38 Copynumber: 2.7 Consensus size: 38
56132185 AGCTTAAACA
* * ** * *
56132195 CCCGCAGGCTTCGTCCTGGTAAAATATCCGGGTTAAAT
1 CCCGCAGGCTTAGTGCTGGTATTATATCAGGGATAAAT
*
56132233 CCCGCAGGCTTTGTGCTGGTATTATATCAGGGATAAAT
1 CCCGCAGGCTTAGTGCTGGTATTATATCAGGGATAAAT
*
56132271 CCCGCAGGCCTAGTGCTGGTATTATAT
1 CCCGCAGGCTTAGTGCTGGTATTATAT
56132298 TCGGGCCTTC
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 57 1.00
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.29
Consensus pattern (38 bp):
CCCGCAGGCTTAGTGCTGGTATTATATCAGGGATAAAT
Found at i:56132356 original size:43 final size:43
Alignment explanation
Indices: 56132295--56132484 Score: 317
Period size: 43 Copynumber: 4.4 Consensus size: 43
56132285 GCTGGTATTA
*
56132295 TATTCGGGCCTTCGTGCCTAGTAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
56132338 TATTCGGGCCTTTGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
56132381 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCTGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* * *
56132424 TATTCGGGCCTTCGCGCCTAGCAGGCTTCGTGCCAGTGATGTA
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
56132467 TATTCGGGCCTTCGTGCC
1 TATTCGGGCCTTCGTGCC
56132485 GGTGATGTGT
Statistics
Matches: 136, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 136 1.00
ACGTcount: A:0.11, C:0.25, G:0.33, T:0.32
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:56132489 original size:27 final size:27
Alignment explanation
Indices: 56132449--56132511 Score: 108
Period size: 27 Copynumber: 2.3 Consensus size: 27
56132439 GCCTAGCAGG
56132449 CTTCGTGCCAGTGATGTATATTCGGGC
1 CTTCGTGCCAGTGATGTATATTCGGGC
* *
56132476 CTTCGTGCCGGTGATGTGTATTCGGGC
1 CTTCGTGCCAGTGATGTATATTCGGGC
56132503 CTTCGTGCC
1 CTTCGTGCC
56132512 TAGCAGGCTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.10, C:0.25, G:0.32, T:0.33
Consensus pattern (27 bp):
CTTCGTGCCAGTGATGTATATTCGGGC
Found at i:56132503 original size:70 final size:70
Alignment explanation
Indices: 56132406--56132554 Score: 244
Period size: 70 Copynumber: 2.1 Consensus size: 70
56132396 GCCTAGCAGG
* *
56132406 CTTCATGCTGGTGATGTGTATTCGGGCCTTCGCGCCTAGCAGGCTTCGTGCCAGTGATGTATATT
1 CTTCGTGCCGGTGATGTGTATTCGGGCCTTCGCGCCTAGCAGGCTTCGTGCCAGTGATGTATATT
56132471 CGGGC
66 CGGGC
* * * *
56132476 CTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCCGGTGATGTGTATT
1 CTTCGTGCCGGTGATGTGTATTCGGGCCTTCGCGCCTAGCAGGCTTCGTGCCAGTGATGTATATT
56132541 CGGGC
66 CGGGC
56132546 CTTCGTGCC
1 CTTCGTGCC
56132555 TAGCAGGCTT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
70 73 1.00
ACGTcount: A:0.10, C:0.25, G:0.33, T:0.32
Consensus pattern (70 bp):
CTTCGTGCCGGTGATGTGTATTCGGGCCTTCGCGCCTAGCAGGCTTCGTGCCAGTGATGTATATT
CGGGC
Found at i:56132518 original size:113 final size:113
Alignment explanation
Indices: 56132363--56132597 Score: 407
Period size: 113 Copynumber: 2.1 Consensus size: 113
56132353 GCCTAGCAGG
*
56132363 CTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCTGGTGATGTGTATT
1 CTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTGTATT
56132428 CGGGCCTTCGCGCCTAGCAGGCTTCGTGCCAGTGATGTATATTCGGGC
66 CGGGCCTTCGCGCCTAGCAGGCTTCGTGCCAGTGATGTATATTCGGGC
**
56132476 CTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCCGGTGATGTGTATT
1 CTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTGTATT
* * * *
56132541 CGGGCCTTCGTGCCTAGCAGGCTTTGTGCCGGTGATGTGTATTCGGGC
66 CGGGCCTTCGCGCCTAGCAGGCTTCGTGCCAGTGATGTATATTCGGGC
56132589 CTTCGTGCC
1 CTTCGTGCC
56132598 TAGCAGGCTT
Statistics
Matches: 115, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
113 115 1.00
ACGTcount: A:0.10, C:0.25, G:0.34, T:0.32
Consensus pattern (113 bp):
CTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTGTATT
CGGGCCTTCGCGCCTAGCAGGCTTCGTGCCAGTGATGTATATTCGGGC
Found at i:56132531 original size:199 final size:199
Alignment explanation
Indices: 56132295--56132683 Score: 688
Period size: 199 Copynumber: 2.0 Consensus size: 199
56132285 GCTGGTATTA
* *
56132295 TATTCGGGCCTTCGTGCCTAGTAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTTGTGCCTAGC
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGC
*
56132360 AGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCTGGTGATGTGT
66 AGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTGT
*
56132425 ATTCGGGCCTTCGCGCCTAGCAGGCTTCGTGCCAGTGATGTATATTCGGGCCTTCGTGCCGGTGA
131 ATTCAGGCCTTCGCGCCTAGCAGGCTTCGTGCCAGTGATGTATATTCGGGCCTTCGTGCCGGTGA
56132490 TGTG
196 TGTG
*
56132494 TATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGC
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGC
* *
56132559 AGGCTTTGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGT
66 AGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTGT
* * *
56132624 ATTCAGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCC
131 ATTCAGGCCTTCGCGCCTAGCAGGCTTCGTGCCAGTGATGTATATTCGGGCCTTCGTGCC
56132684 TAGCAGGCAT
Statistics
Matches: 180, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
199 180 1.00
ACGTcount: A:0.10, C:0.25, G:0.34, T:0.32
Consensus pattern (199 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGC
AGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTGT
ATTCAGGCCTTCGCGCCTAGCAGGCTTCGTGCCAGTGATGTATATTCGGGCCTTCGTGCCGGTGA
TGTG
Found at i:56132604 original size:156 final size:156
Alignment explanation
Indices: 56132320--56132640 Score: 561
Period size: 156 Copynumber: 2.1 Consensus size: 156
56132310 GCCTAGTAGG
*
56132320 CTTCGTGCCGGTGATGTGTATTCGGGCCTTTGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATT
1 CTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATT
*
56132385 CGGGCCTTCGTGCCTAGCAGGCTTCATGCTGGTGATGTGTATTCGGGCCTTCGCGCCTAGCAGGC
66 CGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTGTATTCGGGCCTTCGCGCCTAGCAGGC
*
56132450 TTCGTGCCAGTGATGTATATTCGGGC
131 TTCGTGCCAGTGATGTATATTCAGGC
*
56132476 CTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCCGGTGATGTGTATT
1 CTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATT
** *
56132541 CGGGCCTTCGTGCCTAGCAGGCTTTGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGC
66 CGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTGTATTCGGGCCTTCGCGCCTAGCAGGC
* *
56132606 TTCGTGCCGGTGATGTGTATTCAGGC
131 TTCGTGCCAGTGATGTATATTCAGGC
56132632 CTTCGTGCC
1 CTTCGTGCC
56132641 TAGCAGGCTT
Statistics
Matches: 156, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
156 156 1.00
ACGTcount: A:0.10, C:0.25, G:0.34, T:0.32
Consensus pattern (156 bp):
CTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATT
CGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTGTATTCGGGCCTTCGCGCCTAGCAGGC
TTCGTGCCAGTGATGTATATTCAGGC
Found at i:56132704 original size:43 final size:43
Alignment explanation
Indices: 56132476--56132691 Score: 405
Period size: 43 Copynumber: 5.0 Consensus size: 43
56132466 ATATTCGGGC
56132476 CTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGG
1 CTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGG
*
56132519 CTTTGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGG
1 CTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGG
*
56132562 CTTTGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGG
1 CTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGG
*
56132605 CTTCGTGCCGGTGATGTGTATTCAGGCCTTCGTGCCTAGCAGG
1 CTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGG
56132648 CTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGG
1 CTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGG
56132691 C
1 C
56132692 ATAATGCCGG
Statistics
Matches: 169, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 169 1.00
ACGTcount: A:0.10, C:0.25, G:0.34, T:0.31
Consensus pattern (43 bp):
CTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGG
Found at i:56134522 original size:54 final size:54
Alignment explanation
Indices: 56134337--56134642 Score: 404
Period size: 55 Copynumber: 5.6 Consensus size: 54
56134327 AACTTACCAT
* *
56134337 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCATCAA
* *
56134390 TGCCATGCCTT-AGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTCACTCATCAA
1 TGCCATGCCTTGA-CATGGTCTTACATGGTATCC-TTGCCTTATAG-AACTCATCAA
* *
56134445 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCATCAA
* * *
56134499 TGCCATGCCTTGTCATGTTCTTACATGGGA-CCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTATAG-AACTCATCAA
* * * *
56134554 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCATCAA
* *
56134608 TGCCATGCCTTGGCATGGTCTTACATGATATCCTT
1 TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
56134643 ATCTTACCAA
Statistics
Matches: 221, Mismatches: 23, Indels: 17
0.85 0.09 0.07
Matches are distributed among these distances:
52 3 0.01
53 37 0.17
54 87 0.39
55 89 0.40
56 5 0.02
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (54 bp):
TGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCATCAA
Found at i:56134539 original size:109 final size:108
Alignment explanation
Indices: 56134337--56134634 Score: 508
Period size: 109 Copynumber: 2.7 Consensus size: 108
56134327 AACTTACCAT
* *
56134337 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCACCAATGCCATGCCTT
1 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTATCAATGCCATGCCTT
*
56134401 AGCATGGTCTTACATGGGACCTTTGCCTTATAGTCACTCATCAA
66 -GCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
56134445 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTATCAATGCCATGCCTT
1 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTATCAATGCCATGCCTT
*
56134510 GTCATGTTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
66 G-CATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
* *
56134554 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATGCCTT
1 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTATCAATGCCATGCCTT
56134619 GGCATGGTCTTACATG
66 -GCATGGTCTTACATG
56134635 ATATCCTTAT
Statistics
Matches: 180, Mismatches: 7, Indels: 5
0.94 0.04 0.03
Matches are distributed among these distances:
108 43 0.24
109 136 0.76
110 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (108 bp):
TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTATCAATGCCATGCCTT
GCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
Found at i:56134678 original size:47 final size:47
Alignment explanation
Indices: 56134621--56134742 Score: 217
Period size: 47 Copynumber: 2.6 Consensus size: 47
56134611 CATGCCTTGG
* *
56134621 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
*
56134668 CATGGACTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
56134715 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
56134743 GTGCCAATCA
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.35
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:56134829 original size:47 final size:45
Alignment explanation
Indices: 56134763--56134864 Score: 116
Period size: 45 Copynumber: 2.2 Consensus size: 45
56134753 CATCTTGATG
* * * *
56134763 TGGTCTTACATGGAGTCCTTAATCAATGCCGATGCCATGTCTTGACA
1 TGGTCTTACAAGGAGTCCTT--GCAATACCAATGCCATGTCTTGACA
**
56134810 TGGTCTTACACAGGA-TCCTTGCCTTACCAATGCCATGTCTTGACA
1 TGGTCTTACA-AGGAGTCCTTGCAATACCAATGCCATGTCTTGACA
56134855 TGGTCTTACA
1 TGGTCTTACA
56134865 TGGTATCCTT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
45 30 0.62
47 15 0.31
48 3 0.06
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (45 bp):
TGGTCTTACAAGGAGTCCTTGCAATACCAATGCCATGTCTTGACA
Found at i:56135546 original size:29 final size:30
Alignment explanation
Indices: 56135503--56135559 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
56135493 CTAACTCAAA
56135503 CTTTGGCAAAATTACAATTTTGCCCCTAAC
1 CTTTGGCAAAATTACAATTTTGCCCCTAAC
* *
56135533 CTTT-GCAGAATTACGATTTTGCCCCTA
1 CTTTGGCAAAATTACAATTTTGCCCCTA
56135560 GGCTCAGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 21 0.84
30 4 0.16
ACGTcount: A:0.26, C:0.26, G:0.12, T:0.35
Consensus pattern (30 bp):
CTTTGGCAAAATTACAATTTTGCCCCTAAC
Found at i:56138911 original size:44 final size:45
Alignment explanation
Indices: 56138863--56138954 Score: 143
Period size: 44 Copynumber: 2.1 Consensus size: 45
56138853 TAGCTAAATA
56138863 AAATTAAACTATCATCGTTAAT-AAAAAACATCAAAGCGAAA-TGC
1 AAATTAAACTATCATCGTTAATAAAAAAACATCAAAGC-AAATTGC
* *
56138907 AAATTAAGCTATCATTGTTAATAAAAAAACATCAAAGCAAATTGC
1 AAATTAAACTATCATCGTTAATAAAAAAACATCAAAGCAAATTGC
56138952 AAA
1 AAA
56138955 CATATTGAAC
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
44 23 0.52
45 21 0.48
ACGTcount: A:0.53, C:0.14, G:0.09, T:0.24
Consensus pattern (45 bp):
AAATTAAACTATCATCGTTAATAAAAAAACATCAAAGCAAATTGC
Found at i:56143183 original size:27 final size:26
Alignment explanation
Indices: 56143121--56143170 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
56143111 AATCATACAT
56143121 CACATAGGGGCAAAACAGTCATTTAC
1 CACATAGGGGCAAAACAGTCATTTAC
* *
56143147 CACATAGGGGCATAATAGTCATTT
1 CACATAGGGGCAAAACAGTCATTT
56143171 TATCAATTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (26 bp):
CACATAGGGGCAAAACAGTCATTTAC
Found at i:56145720 original size:5 final size:5
Alignment explanation
Indices: 56145710--56145735 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
56145700 ATTTTCTCTG
56145710 AAATT AAATT AAATT AAATT AAATT A
1 AAATT AAATT AAATT AAATT AAATT A
56145736 GTATCCTAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
AAATT
Found at i:56153551 original size:39 final size:39
Alignment explanation
Indices: 56153504--56153581 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
56153494 TAGAAAAATA
56153504 GCTATAGAAATTTTCTAAAATAATTTCTTTACAAAATTT
1 GCTATAGAAATTTTCTAAAATAATTTCTTTACAAAATTT
56153543 GCTATAGAAATTTTCTAAAATAATTTCTTTACAAAATTT
1 GCTATAGAAATTTTCTAAAATAATTTCTTTACAAAATTT
56153582 TCTCTCTATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.44
Consensus pattern (39 bp):
GCTATAGAAATTTTCTAAAATAATTTCTTTACAAAATTT
Found at i:56153733 original size:12 final size:12
Alignment explanation
Indices: 56153688--56153738 Score: 52
Period size: 12 Copynumber: 4.1 Consensus size: 12
56153678 ACTTAATCAC
56153688 TTTAATATTAAA
1 TTTAATATTAAA
56153700 -TTAATATAGATAAA
1 TTTAATAT---TAAA
56153714 TATT-ATATTAAA
1 T-TTAATATTAAA
56153726 TTTAATATTAAA
1 TTTAATATTAAA
56153738 T
1 T
56153739 CTATTAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
11 9 0.27
12 14 0.42
14 4 0.12
15 4 0.12
16 2 0.06
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (12 bp):
TTTAATATTAAA
Found at i:56159223 original size:42 final size:43
Alignment explanation
Indices: 56159121--56159234 Score: 115
Period size: 42 Copynumber: 2.7 Consensus size: 43
56159111 AGTAAATACA
* * * * *
56159121 ATGCCAACGCCCCAGAC-GTGGTCTTACATGTAATCAAACTTTG
1 ATGCCAATGTCCCAGACAG-GGTCTTACACGAAATCAAACTATG
* * * *
56159164 ATGCCATTATCCTAGACAGGGTCTTACACGAAATCATA-TATG
1 ATGCCAATGTCCCAGACAGGGTCTTACACGAAATCAAACTATG
*
56159206 ATGCCAATGTCCCAGACATGGTCTTACAC
1 ATGCCAATGTCCCAGACAGGGTCTTACAC
56159235 ATAAAACAGG
Statistics
Matches: 57, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
42 28 0.49
43 28 0.49
44 1 0.02
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACAGGGTCTTACACGAAATCAAACTATG
Found at i:56167271 original size:17 final size:18
Alignment explanation
Indices: 56167249--56167282 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
56167239 TTTTGGGCTT
56167249 TGTGGGCC-ACATGGGCG
1 TGTGGGCCTACATGGGCG
56167266 TGTGGGCCTACATGGGC
1 TGTGGGCCTACATGGGC
56167283 TCGCATTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.12, C:0.24, G:0.44, T:0.21
Consensus pattern (18 bp):
TGTGGGCCTACATGGGCG
Found at i:56174057 original size:44 final size:43
Alignment explanation
Indices: 56174005--56174104 Score: 121
Period size: 43 Copynumber: 2.3 Consensus size: 43
56173995 TGAAAAAAAT
* **
56174005 GCCA-TAAAAGATCAAGACTTTTAGCAGTGTTTTTGGGAAAGGC
1 GCCACTAAAAG-TCAAGACTTTTAGCAGCGTTTGCGGGAAAGGC
* * * *
56174048 GCCGCTAAAAGTCATGGCTTTTAGCGGCGTTTGCGGGAAAGGC
1 GCCACTAAAAGTCAAGACTTTTAGCAGCGTTTGCGGGAAAGGC
56174091 GCCACTAAAAGTCA
1 GCCACTAAAAGTCA
56174105 TTGCTTTTAG
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 42 0.88
44 6 0.12
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (43 bp):
GCCACTAAAAGTCAAGACTTTTAGCAGCGTTTGCGGGAAAGGC
Found at i:56174069 original size:43 final size:43
Alignment explanation
Indices: 56174022--56174295 Score: 179
Period size: 43 Copynumber: 6.4 Consensus size: 43
56174012 AAGATCAAGA
* * *
56174022 CTTTTAGCAGTGTTTTTGGGAAAGGCGCCGCTAAAAGTCATGG
1 CTTTTAGCGGCGTTTTCGGGAAAGGCGCCGCTAAAAGTCATGG
* * *
56174065 CTTTTAGCGGCGTTTGCGGGAAAGGCGCCACTAAAAGTCATTG
1 CTTTTAGCGGCGTTTTCGGGAAAGGCGCCGCTAAAAGTCATGG
* * * *
56174108 CTTTTAGTGGCGTTTGTGGGGAAA-GCGTCGTTAAAAGTCATGG
1 CTTTTAGCGGCGTTT-TCGGGAAAGGCGCCGCTAAAAGTCATGG
* * * * * **
56174151 CTTTTAGTGGCGTTTGT-GGTGGAA-GCACCGTTAAAAGACATTA
1 CTTTTAGCGGCGTTT-TCGG-GAAAGGCGCCGCTAAAAGTCATGG
* * * *
56174194 CTTTTTA-TGGCATTTTTGGGTCAAA-GTGCCGCTAAAAGTCAT-G
1 C-TTTTAGCGGCGTTTTCGGG--AAAGGCGCCGCTAAAAGTCATGG
** * *
56174237 CTTTTAG-GGCGCTTTTC-CTACAA-ACGCCGCTAAAAGTCATGT
1 CTTTTAGCGGCG-TTTTCGGGA-AAGGCGCCGCTAAAAGTCATGG
56174279 CTTTTAGCGGCGCTTTT
1 CTTTTAGCGGCG-TTTT
56174296 GTTACAAACA
Statistics
Matches: 187, Mismatches: 33, Indels: 22
0.77 0.14 0.09
Matches are distributed among these distances:
40 1 0.01
41 17 0.09
42 19 0.10
43 124 0.66
44 26 0.14
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.32
Consensus pattern (43 bp):
CTTTTAGCGGCGTTTTCGGGAAAGGCGCCGCTAAAAGTCATGG
Found at i:56174186 original size:86 final size:85
Alignment explanation
Indices: 56174039--56174247 Score: 226
Period size: 86 Copynumber: 2.4 Consensus size: 85
56174029 CAGTGTTTTT
* *
56174039 GGGAAAGGCGCCGCTAAAAGTCATGGCTTTTAGCGGCGTTTGCGGGAAAGGCGCCACTAAAAGTC
1 GGGAAA-GCGCCGCTAAAAGTCATGGCTTTTAG-GGCGTTTGCGGGAAAGGCACCACTAAAAGAC
* *
56174104 ATTGC-TTTTAGTGGCGTTTGTG
64 ATTACTTTTTA-TGGCATTTGTG
* * * * **
56174126 GGGAAAGCGTCGTTAAAAGTCATGGCTTTTAGTGGCGTTTGTGGTGGAA-GCACCGTTAAAAGAC
1 GGGAAAGCGCCGCTAAAAGTCATGGCTTTTAG-GGCGTTTGCGG-GAAAGGCACCACTAAAAGAC
*
56174190 ATTACTTTTTATGGCATTTTTG
64 ATTACTTTTTATGGCATTTGTG
* *
56174212 GGTCAAAGTGCCGCTAAAAGTCAT-GCTTTTAGGGCG
1 GG-GAAAGCGCCGCTAAAAGTCATGGCTTTTAGGGCG
56174248 CTTTTCCTAC
Statistics
Matches: 103, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
85 4 0.04
86 68 0.66
87 31 0.30
ACGTcount: A:0.23, C:0.16, G:0.31, T:0.30
Consensus pattern (85 bp):
GGGAAAGCGCCGCTAAAAGTCATGGCTTTTAGGGCGTTTGCGGGAAAGGCACCACTAAAAGACAT
TACTTTTTATGGCATTTGTG
Found at i:56174267 original size:41 final size:43
Alignment explanation
Indices: 56174221--56174312 Score: 143
Period size: 43 Copynumber: 2.2 Consensus size: 43
56174211 GGGTCAAAGT
56174221 GCCGCTAAAAGTCATG-CTTTTAG-GGCGCTTTTCCTACAAAC
1 GCCGCTAAAAGTCATGTCTTTTAGCGGCGCTTTTCCTACAAAC
**
56174262 GCCGCTAAAAGTCATGTCTTTTAGCGGCGCTTTTGTTACAAAC
1 GCCGCTAAAAGTCATGTCTTTTAGCGGCGCTTTTCCTACAAAC
*
56174305 ACCGCTAA
1 GCCGCTAA
56174313 TTTTGGCAGA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
41 16 0.35
42 7 0.15
43 23 0.50
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (43 bp):
GCCGCTAAAAGTCATGTCTTTTAGCGGCGCTTTTCCTACAAAC
Found at i:56177206 original size:21 final size:19
Alignment explanation
Indices: 56177190--56177225 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
56177180 AAAAATTGAA
56177190 AAAGCAGCCATTAAAA-TG
1 AAAGCAGCCATTAAAATTG
*
56177208 GAAGCAGCCATTAAAATT
1 AAAGCAGCCATTAAAATT
56177226 TATTATTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 15 0.94
19 1 0.06
ACGTcount: A:0.47, C:0.17, G:0.17, T:0.19
Consensus pattern (19 bp):
AAAGCAGCCATTAAAATTG
Found at i:56179149 original size:21 final size:21
Alignment explanation
Indices: 56179125--56179178 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
56179115 CTCATAACCT
56179125 TAAACTCTAAACTATATCCCC
1 TAAACTCTAAACTATATCCCC
*
56179146 TAAACCCTAAACTATATCCCC
1 TAAACTCTAAACTATATCCCC
*
56179167 TAAACTATAAAC
1 TAAACTCTAAAC
56179179 CACAAAACAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.43, C:0.31, G:0.00, T:0.26
Consensus pattern (21 bp):
TAAACTCTAAACTATATCCCC
Found at i:56179403 original size:29 final size:29
Alignment explanation
Indices: 56179382--56179454 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
56179372 AACCCCTAAG
*
56179382 CCTAAACCCCTCAACCATTAACCCATAACC
1 CCTAAACCCCT-AACCACTAACCCATAACC
**
56179412 CCTAAACCCCTAACCACTAACTTATAACC
1 CCTAAACCCCTAACCACTAACCCATAACC
*
56179441 CTTAAACCCC-AACC
1 CCTAAACCCCTAACC
56179455 TTTAAACCAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 4 0.10
29 24 0.62
30 11 0.28
ACGTcount: A:0.37, C:0.45, G:0.00, T:0.18
Consensus pattern (29 bp):
CCTAAACCCCTAACCACTAACCCATAACC
Found at i:56179432 original size:22 final size:21
Alignment explanation
Indices: 56179372--56179432 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
56179362 ACAAAACAAT
* *
56179372 AACCCCTAAGCCTAAACCCCTC
1 AACCCCTAACCCT-AACCCCTA
**
56179394 AACCATTAACCCATAACCCCTA
1 AACCCCTAACCC-TAACCCCTA
56179416 AACCCCTAACCACTAAC
1 AACCCCTAACC-CTAAC
56179433 TTATAACCCT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
22 29 0.94
23 2 0.06
ACGTcount: A:0.38, C:0.46, G:0.02, T:0.15
Consensus pattern (21 bp):
AACCCCTAACCCTAACCCCTA
Found at i:56180327 original size:114 final size:114
Alignment explanation
Indices: 56180203--56180410 Score: 251
Period size: 114 Copynumber: 1.8 Consensus size: 114
56180193 TAAAGCGCCA
* * * *
56180203 CTACTACTCGA-CATATAGCAGC-TTTTTCCTGAAAGTGCCACTAATGCCATAGAAGGTCAATTT
1 CTACTACTCGATC-TATAGCAGCGTTTTT-ATGAAAGCGCCACTAATGCCACAGAAGCTCAATTT
56180266 AAACGACGTCATTCGCCTTAA-TCTTTTAGCGGTGCTTTCCTAAAAACACTG
64 AAACGACGTCATTCGCC-TAAGTCTTTTAGCGGTGCTTTCCTAAAAACACTG
* * * * ** *
56180317 CTACTGCTCGATCTTTTGCAGCGTTTTTATGGAAGCGCTGCTAATGCCACGGAAGCTCAATTTAA
1 CTACTACTCGATCTATAGCAGCGTTTTTATGAAAGCGCCACTAATGCCACAGAAGCTCAATTTAA
* *
56180382 ACGACGTCGTTCGGCTAAGTCTTTTAGCG
66 ACGACGTCATTCGCCTAAGTCTTTTAGCG
56180411 ACGTTTCTTG
Statistics
Matches: 78, Mismatches: 13, Indels: 6
0.80 0.13 0.06
Matches are distributed among these distances:
113 3 0.04
114 69 0.88
115 6 0.08
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.31
Consensus pattern (114 bp):
CTACTACTCGATCTATAGCAGCGTTTTTATGAAAGCGCCACTAATGCCACAGAAGCTCAATTTAA
ACGACGTCATTCGCCTAAGTCTTTTAGCGGTGCTTTCCTAAAAACACTG
Found at i:56183045 original size:13 final size:13
Alignment explanation
Indices: 56183029--56183061 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
56183019 TTTAATTAAA
*
56183029 TTAGTTAATTAGT
1 TTAGATAATTAGT
56183042 TTAGATAATTAGT
1 TTAGATAATTAGT
56183055 TTA-ATAA
1 TTAGATAA
56183062 ACGAAGCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:56188476 original size:6 final size:6
Alignment explanation
Indices: 56188461--56188541 Score: 76
Period size: 6 Copynumber: 13.7 Consensus size: 6
56188451 TCCTCCTATC
* * *
56188461 TTTTTA -TTTTA TTTTTA -TTTTA TTATTA TTATTA TTATTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
* * **
56188507 TTTTTC TTTTTA TTTTCA TTTCAA TTTTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA -TTTTTA TTTT
56188542 GAAAGACATA
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
5 10 0.16
6 49 0.78
7 4 0.06
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:56188488 original size:3 final size:3
Alignment explanation
Indices: 56188464--56188508 Score: 58
Period size: 3 Copynumber: 15.7 Consensus size: 3
56188454 TCCTATCTTT
* *
56188464 TTA TT- TTA TTT TTA TT- TTA TTA TTA TTA TTA TTA TTA TTT TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
56188509 TTTCTTTTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
2 4 0.11
3 32 0.89
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (3 bp):
TTA
Found at i:56193279 original size:13 final size:14
Alignment explanation
Indices: 56193256--56193287 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
56193246 ATTATTGCGT
56193256 GAAAGTTTCATGAA
1 GAAAGTTTCATGAA
56193270 GAAA-TTTCATGAA
1 GAAAGTTTCATGAA
56193283 -AAAGT
1 GAAAGT
56193288 GTCCAATCTG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 3 0.18
13 10 0.59
14 4 0.24
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (14 bp):
GAAAGTTTCATGAA
Found at i:56194425 original size:48 final size:48
Alignment explanation
Indices: 56194355--56194587 Score: 214
Period size: 48 Copynumber: 4.9 Consensus size: 48
56194345 TCAGGATATG
* *
56194355 TGTGATCCCATGTAAAACCATGTTTGGGACATGGAATTGGCATCGAAA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGAATTGGCATCGAAA
*
56194403 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC-AATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGAATTGGCATCGAA-A
* * * * * *
56194451 TGAGA-CATCGTGTAAGACCATAG-CTGGG-C-T---ATCGGCTTCGATA
1 TGTGATC-CCATGTAAGACCAT-GTCTGGGACATGGAATTGGCATCGAAA
**
56194494 TGCATGATCCCATGTAAGACCATGTCTGGGACAT-GACATTGGCATCGGTA
1 TG--TGATCCCATGTAAGACCATGTCTGGGACATGGA-ATTGGCATCGAAA
* * * *
56194544 TGTGATCCCATTTAAGACCATATCTGGGATATGGCATTGGCATC
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGAATTGGCATC
56194588 CTACTATGTG
Statistics
Matches: 152, Mismatches: 19, Indels: 28
0.76 0.10 0.14
Matches are distributed among these distances:
43 10 0.07
44 2 0.01
45 19 0.12
46 3 0.02
47 5 0.03
48 99 0.65
49 2 0.01
50 12 0.08
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (48 bp):
TGTGATCCCATGTAAGACCATGTCTGGGACATGGAATTGGCATCGAAA
Found at i:56196774 original size:40 final size:40
Alignment explanation
Indices: 56196709--56196948 Score: 310
Period size: 40 Copynumber: 6.0 Consensus size: 40
56196699 GGGTTTAGCT
* *
56196709 GGATATAGCT-ACT-GCTCAAATGCCTTCGAGACTTAGCCC
1 GGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCC
*
56196748 GGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
1 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
56196788 GGATATAGT-ACTTCGCACAAATGCCTTCGGGACTTAGCCC
1 GGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCC
* *
56196828 GGATACAGTAACTCGCACAAATGCCTTCGGGACATAGCCC
1 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
* * *
56196868 AGATATAATAACTCGCACAATTGCCTTCGGG-CTTAGCCC
1 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
* * * *
56196907 GGA-ATTAGTCACTTGCACAGATGCCTTCGGGACTTATCCC
1 GGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
56196947 GG
1 GG
56196949 TTATCATCCG
Statistics
Matches: 177, Mismatches: 18, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
38 2 0.01
39 42 0.24
40 131 0.74
41 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
Found at i:56204036 original size:40 final size:40
Alignment explanation
Indices: 56203958--56204201 Score: 293
Period size: 40 Copynumber: 6.2 Consensus size: 40
56203948 CCTTCGGGGT
* *
56203958 TTAG-CCGGATATAGCT-ACT-GCTCAAATGCCTTCGGGAC
1 TTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCAGGAC
* *
56203996 TTAGCCCGGTTATAGTAACTCGAACAAATGCCTTCAGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCAGGAC
* *
56204036 TTAGCCCGGATATAGT-ACTTTGCACAAATGCCTTCCGGAC
1 TTAGCCCGGATATAGTAAC-TCGCACAAATGCCTTCAGGAC
*
56204076 TTAGCCCAGATATAGTAACTCGCACAAATGCCTTCAGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCAGGAC
* * *
56204116 TTAGCCCGGATATAATAACTCGCACAATTGCCTTC-GGGC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCAGGAC
* * * *
56204155 TTAGCCCGGA-ATTAGTCACTTGCACAGATGCCTTCGGGAC
1 TTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCAGGAC
56204195 TTAGCCC
1 TTAGCCC
56204202 AGTTATCATC
Statistics
Matches: 178, Mismatches: 21, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
38 6 0.03
39 45 0.25
40 125 0.70
41 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCAGGAC
Found at i:56206205 original size:16 final size:17
Alignment explanation
Indices: 56206175--56206207 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
56206165 TCACACCATG
*
56206175 AATTTCACAAGTGAATT
1 AATTTCACAAATGAATT
56206192 AATTT-ACAAATGAATT
1 AATTTCACAAATGAATT
56206208 CAAAATTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.36
Consensus pattern (17 bp):
AATTTCACAAATGAATT
Found at i:56208711 original size:26 final size:25
Alignment explanation
Indices: 56208678--56208736 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 25
56208668 TTACCCCAAC
56208678 AAAATTTTCAC-AATTTTACCTCTGGT
1 AAAATTTTCACGAATTTTA-C-CTGGT
* *
56208704 AAAATTTTGACGATTTTTACCTGGT
1 AAAATTTTCACGAATTTTACCTGGT
56208729 AAAATTTT
1 AAAATTTT
56208737 GAGAAAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 13 0.43
26 11 0.37
27 6 0.20
ACGTcount: A:0.32, C:0.14, G:0.10, T:0.44
Consensus pattern (25 bp):
AAAATTTTCACGAATTTTACCTGGT
Found at i:56212772 original size:20 final size:21
Alignment explanation
Indices: 56212733--56212772 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
56212723 ATTGAAATGG
*
56212733 CCACACGGGCATGTTGCCCTT
1 CCACACGAGCATGTTGCCCTT
*
56212754 CCACACGAGCGTG-TGCCCT
1 CCACACGAGCATGTTGCCCT
56212773 ATTTCAAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.15, C:0.40, G:0.25, T:0.20
Consensus pattern (21 bp):
CCACACGAGCATGTTGCCCTT
Found at i:56223938 original size:31 final size:30
Alignment explanation
Indices: 56223903--56223986 Score: 98
Period size: 31 Copynumber: 2.7 Consensus size: 30
56223893 TTCTGTCCAA
56223903 TTATAATTTTTATAATTTTTTCTACAATTTG
1 TTATAATTTTTATAATTTTTT-TACAATTTG
* * *
56223934 TTATAAGTTTATATAA-TATTTTACAATTTT
1 TTATAA-TTTTTATAATTTTTTTACAATTTG
56223964 TTAATAATTTTTAATAATTTTTT
1 TT-ATAATTTTT-ATAATTTTTT
56223987 ATTTACATCT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
30 14 0.32
31 18 0.41
32 12 0.27
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (30 bp):
TTATAATTTTTATAATTTTTTTACAATTTG
Found at i:56223965 original size:10 final size:10
Alignment explanation
Indices: 56223903--56223988 Score: 75
Period size: 10 Copynumber: 8.4 Consensus size: 10
56223893 TTCTGTCCAA
56223903 TTATAA-TTT
1 TTATAATTTT
56223912 TTATAATTTTT
1 TTATAA-TTTT
* *
56223923 TCTACAATTTG
1 T-TATAATTTT
*
56223934 TTATAAGTTT
1 TTATAATTTT
* *
56223944 ATATAATATT
1 TTATAATTTT
*
56223954 TTACAATTTT
1 TTATAATTTT
56223964 TTAATAATTTT
1 TT-ATAATTTT
*
56223975 TAATAATTTT
1 TTATAATTTT
56223985 TTAT
1 TTAT
56223989 TTACATCTGG
Statistics
Matches: 59, Mismatches: 14, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
9 6 0.10
10 33 0.56
11 16 0.27
12 4 0.07
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.60
Consensus pattern (10 bp):
TTATAATTTT
Found at i:56231978 original size:26 final size:26
Alignment explanation
Indices: 56231948--56232055 Score: 207
Period size: 26 Copynumber: 4.2 Consensus size: 26
56231938 TGAAATTCCC
56231948 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
56231974 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
56232000 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
56232026 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
56232052 ATCA
1 ATCA
56232056 ATTTGTACCA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.36, C:0.27, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:56235056 original size:17 final size:18
Alignment explanation
Indices: 56235019--56235059 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
56235009 GTATGCCACG
*
56235019 AAATTTATTTTAATTCAA
1 AAATTTATTTTAATGCAA
*
56235037 AAATTTA-TTTCATGCAA
1 AAATTTATTTTAATGCAA
56235054 AAATTT
1 AAATTT
56235060 TGTAGTCCTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.46
Consensus pattern (18 bp):
AAATTTATTTTAATGCAA
Found at i:56238649 original size:17 final size:17
Alignment explanation
Indices: 56238624--56238656 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
56238614 ATAGGGACTA
56238624 ATATATAATAAAATATG
1 ATATATAATAAAATATG
*
56238641 ATATGTAATAAAATAT
1 ATATATAATAAAATAT
56238657 ATAAATGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (17 bp):
ATATATAATAAAATATG
Found at i:56238686 original size:24 final size:22
Alignment explanation
Indices: 56238652--56238699 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 22
56238642 TATGTAATAA
56238652 AATATATAAATGAA-ATATAAAT
1 AATATATAAAT-AACATATAAAT
56238674 AATATGATAAAATAACATATAAAT
1 AATAT-AT-AAATAACATATAAAT
56238698 AA
1 AA
56238700 AAATAATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 5 0.22
23 4 0.17
24 14 0.61
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (22 bp):
AATATATAAATAACATATAAAT
Found at i:56238974 original size:30 final size:30
Alignment explanation
Indices: 56238940--56238997 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
56238930 ATAATGGCCA
*
56238940 TTAGGACTAAATTGAAACAAAAATAAAAGG
1 TTAGGACCAAATTGAAACAAAAATAAAAGG
* ** *
56238970 TTAGGGCCAAATTTTAATAAAAATAAAA
1 TTAGGACCAAATTGAAACAAAAATAAAA
56238998 TGAAATGGTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.55, C:0.07, G:0.14, T:0.24
Consensus pattern (30 bp):
TTAGGACCAAATTGAAACAAAAATAAAAGG
Found at i:56240766 original size:45 final size:45
Alignment explanation
Indices: 56240712--56240903 Score: 187
Period size: 45 Copynumber: 4.3 Consensus size: 45
56240702 CTCGGATGCT
* * *
56240712 TCACTTATATCACGAACTTGGACCAACTCAACAAGTTCAAATTTC
1 TCACATATATCACGAACTCGGACCAACTCAACAAGTTCAGATTTC
* ** *
56240757 TCACATATATCACAAACTCGGACCAACTCAATGAGCTCAGATGTTC
1 TCACATATATCACGAACTCGGACCAACTCAACAAGTTCAGAT-TTC
* * * *
56240803 TCATCCACA-AT---GAACTCGGACCAACTCAACGAGTTCGGA-TAC
1 TCA--CATATATCACGAACTCGGACCAACTCAACAAGTTCAGATTTC
* **
56240845 TTCACATATATCACGAACTTGGACCAACTCAACAAGTTCAGATGCC
1 -TCACATATATCACGAACTCGGACCAACTCAACAAGTTCAGATTTC
56240891 TCACATATATCAC
1 TCACATATATCAC
56240904 ATAATATCAA
Statistics
Matches: 119, Mismatches: 19, Indels: 18
0.76 0.12 0.12
Matches are distributed among these distances:
41 3 0.03
42 4 0.03
43 3 0.03
44 24 0.20
45 73 0.61
46 7 0.06
47 2 0.02
48 3 0.03
ACGTcount: A:0.35, C:0.29, G:0.12, T:0.24
Consensus pattern (45 bp):
TCACATATATCACGAACTCGGACCAACTCAACAAGTTCAGATTTC
Found at i:56240886 original size:89 final size:89
Alignment explanation
Indices: 56240725--56240888 Score: 222
Period size: 89 Copynumber: 1.8 Consensus size: 89
56240715 CTTATATCAC
* * **
56240725 GAACTTGGACCAACTCAACAAGTTCAAATTTCTCACATATATCACAAACTCGGACCAACTCAATG
1 GAACTCGGACCAACTCAACAAGTTCAAATCTCTCACATATATCACAAACTCGGACCAACTCAACA
56240790 AGCTCAGATGTTCTCATCCACAAT
66 AGCTCAGATGTTCTCATCCACAAT
* ** * *
56240814 GAACTCGGACCAACTCAACGAGTTCGGATACT-TCACATATATCACGAACTTGGACCAACTCAAC
1 GAACTCGGACCAACTCAACAAGTTCAAAT-CTCTCACATATATCACAAACTCGGACCAACTCAAC
*
56240878 AAGTTCAGATG
65 AAGCTCAGATG
56240889 CCTCACATAT
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
89 63 0.98
90 1 0.02
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.23
Consensus pattern (89 bp):
GAACTCGGACCAACTCAACAAGTTCAAATCTCTCACATATATCACAAACTCGGACCAACTCAACA
AGCTCAGATGTTCTCATCCACAAT
Found at i:56246612 original size:16 final size:16
Alignment explanation
Indices: 56246591--56246622 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
56246581 TTACCTAAGC
56246591 TTTCTTGTATGCAAAA
1 TTTCTTGTATGCAAAA
56246607 TTTCTTGTATGCAAAA
1 TTTCTTGTATGCAAAA
56246623 ACTATCTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.44
Consensus pattern (16 bp):
TTTCTTGTATGCAAAA
Found at i:56247884 original size:96 final size:96
Alignment explanation
Indices: 56247707--56247885 Score: 261
Period size: 96 Copynumber: 1.9 Consensus size: 96
56247697 TCTTTTCTTG
* * * *
56247707 TTGGATATTTAATTGGACATTGGAAACCTTTATGATATTTTGAACTATACCAATAACATTACACA
1 TTGGATATTTAATTGGACATCGGAAACCCTTATGATATTTTGAACTACACCAAAAACATTACACA
*
56247772 AAAGGTGATAACTCAATCTTATTCTCTCTAT
66 AAAGGTGAGAACTCAATCTTATTCTCTCTAT
* * *
56247803 TTGGATATTTAATTGGACATCGGAAACCCTTATGATCTTTTGAACTACACCAAAAACATTTCGCA
1 TTGGATATTTAATTGGACATCGGAAACCCTTATGATATTTTGAACTACACCAAAAACATTACACA
*
56247868 ACAGGTGAGAGA-TCAATC
66 AAAGGTGAGA-ACTCAATC
56247886 GTACTCCTCT
Statistics
Matches: 73, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
96 72 0.99
97 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (96 bp):
TTGGATATTTAATTGGACATCGGAAACCCTTATGATATTTTGAACTACACCAAAAACATTACACA
AAAGGTGAGAACTCAATCTTATTCTCTCTAT
Found at i:56263961 original size:43 final size:42
Alignment explanation
Indices: 56263894--56264038 Score: 141
Period size: 42 Copynumber: 3.4 Consensus size: 42
56263884 TTTCACAGGA
* **
56263894 TATGGTCTTACATGGGATCACATATCGATGCCGATAGCCCAGC
1 TATGGTCTTACACGAAATCACATATCGATGCC-ATAGCCCAGC
* *
56263937 TATGGTCTTACACGATATCTCATATCGATGCCAT-GTCCCAGAC
1 TATGGTCTTACACGAAATCACATATCGATGCCATAG-CCCAG-C
* ** * * * *
56263980 -ATGGTCTTGCACGAAATCACATATTTATGTCATATCCTAGA
1 TATGGTCTTACACGAAATCACATATCGATGCCATAGCCCAGC
56264021 TATGGTCTTACACGAAAT
1 TATGGTCTTACACGAAAT
56264039 TACACATAAC
Statistics
Matches: 84, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
41 1 0.01
42 54 0.64
43 29 0.35
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.30
Consensus pattern (42 bp):
TATGGTCTTACACGAAATCACATATCGATGCCATAGCCCAGC
Found at i:56266891 original size:20 final size:20
Alignment explanation
Indices: 56266821--56266897 Score: 66
Period size: 20 Copynumber: 3.9 Consensus size: 20
56266811 ATACTGTGAC
*
56266821 TTGTCCGCAATACTGGTAGT
1 TTGTCCGCATTACTGGTAGT
* * *
56266841 TTATCTGCACTACTGGTAGCT
1 TTGTCCGCATTACTGGTAG-T
* *
56266862 TT-TCCACATTACTGGCAGT
1 TTGTCCGCATTACTGGTAGT
* *
56266881 TTGTCTGCATTATTGGT
1 TTGTCCGCATTACTGGT
56266898 GGCTTCGTCC
Statistics
Matches: 44, Mismatches: 11, Indels: 4
0.75 0.19 0.07
Matches are distributed among these distances:
19 3 0.07
20 38 0.86
21 3 0.07
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.40
Consensus pattern (20 bp):
TTGTCCGCATTACTGGTAGT
Found at i:56267092 original size:19 final size:20
Alignment explanation
Indices: 56267047--56267092 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
56267037 TATTGCAATC
* *
56267047 TATGAAATTGTGTTGTTATG
1 TATGAAATTCTGTTATTATG
*
56267067 TAT-AAATTCTGTTATT-TT
1 TATGAAATTCTGTTATTATG
56267085 TATGAAAT
1 TATGAAAT
56267093 GTATGTTTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
18 4 0.18
19 15 0.68
20 3 0.14
ACGTcount: A:0.30, C:0.02, G:0.15, T:0.52
Consensus pattern (20 bp):
TATGAAATTCTGTTATTATG
Found at i:56274229 original size:52 final size:52
Alignment explanation
Indices: 56274143--56274255 Score: 192
Period size: 52 Copynumber: 2.2 Consensus size: 52
56274133 ATATAATTAT
*
56274143 AAAATATTTTTTAAAAATATTTAACTAATTATATTAATGTTATTTAATTTTA
1 AAAATATTTTTTAAAAATATTTAACTAATCATATTAATGTTATTTAATTTTA
*
56274195 AAAACATTTTTTAAAAAATATTTAACTAA-CATATTAATGTTATTTAATTTTA
1 AAAATATTTTTT-AAAAATATTTAACTAATCATATTAATGTTATTTAATTTTA
56274247 AAAATATTT
1 AAAATATTT
56274256 AATATTAAAA
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
52 41 0.72
53 16 0.28
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.49
Consensus pattern (52 bp):
AAAATATTTTTTAAAAATATTTAACTAATCATATTAATGTTATTTAATTTTA
Found at i:56274254 original size:16 final size:16
Alignment explanation
Indices: 56274235--56274265 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
56274225 ATATTAATGT
*
56274235 TATTTAATTTTAAAAA
1 TATTTAATATTAAAAA
56274251 TATTTAATATTAAAA
1 TATTTAATATTAAAA
56274266 CAACGCAAAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TATTTAATATTAAAAA
Found at i:56284219 original size:82 final size:81
Alignment explanation
Indices: 56284108--56284261 Score: 211
Period size: 82 Copynumber: 1.9 Consensus size: 81
56284098 AATTGTACAG
* * * *
56284108 ACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTG
1 ACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTGTG
56284172 CGAATTGACCATGCGGC
65 CGAATTGACCATGCGGC
** *
56284189 ACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTGTG
1 ACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGTG
*
56284254 CGACTTGA
65 CGAATTGA
56284262 TTGTATAGCA
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
81 16 0.25
82 47 0.75
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (81 bp):
ACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGTGC
GAATTGACCATGCGGC
Found at i:56284229 original size:55 final size:53
Alignment explanation
Indices: 56284108--56284256 Score: 167
Period size: 55 Copynumber: 2.8 Consensus size: 53
56284098 AATTGTACAG
*
56284108 ACTAAGTGTGCG-ATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGC
1 ACTAAGTGTGCGAATT-GACTATGTGGCACTAAGTGTGCG-AATGAATATGATGC
* * * *
56284162 ACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTCTAACTATG-TAGC
1 ACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAAT-GAA-TATGAT-GC
* * *
56284217 ACTAAGTGTGCGATTTGATTACGTGGCACTAAGTGTGCGA
1 ACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGA
56284257 CTTGATTGTA
Statistics
Matches: 81, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
53 2 0.02
54 35 0.43
55 44 0.54
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (53 bp):
ACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAATGAATATGATGC
Found at i:56284263 original size:27 final size:27
Alignment explanation
Indices: 56284108--56284261 Score: 159
Period size: 27 Copynumber: 5.7 Consensus size: 27
56284098 AATTGTACAG
*
56284108 ACTAAGTGTGCG-ATTCGACTATGTTGC
1 ACTAAGTGTGCGAATT-GACTATGTGGC
* *
56284135 ACTAAGTGTGCGAAATGAATATGAT-GC
1 ACTAAGTGTGCGAATTGACTATG-TGGC
* *
56284162 ACTAAGTGTGCGAATTGACCATGCGGC
1 ACTAAGTGTGCGAATTGACTATGTGGC
* * *
56284189 ACTAAGTGTGCGAGTCTAACTATGTAGC
1 ACTAAGTGTGCGAAT-TGACTATGTGGC
* * *
56284217 ACTAAGTGTGCGATTTGATTACGTGGC
1 ACTAAGTGTGCGAATTGACTATGTGGC
*
56284244 ACTAAGTGTGCGACTTGA
1 ACTAAGTGTGCGAATTGA
56284262 TTGTATAGCA
Statistics
Matches: 106, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
27 81 0.76
28 25 0.24
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (27 bp):
ACTAAGTGTGCGAATTGACTATGTGGC
Found at i:56292674 original size:39 final size:39
Alignment explanation
Indices: 56292588--56292804 Score: 294
Period size: 39 Copynumber: 5.6 Consensus size: 39
56292578 AGGATTTTAA
* * * *
56292588 CCGGGCTAAGACCCGCAGGCCTT-GTG-TGAGATTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTGATA-TTATAT
* * *
56292626 CTGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTGATATTATAT
* *
56292665 CCGTGCTAAGTCCCGAAGGCATTCGTGCTGGTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTGATATTATAT
*
56292704 CCGGGCTAAGTCCCGAAGGCATTCGTGATGATATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTGATATTATAT
*
56292743 CCGGGCTAAGTCCCGAAGGCATTCGTGCTGATGTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTGATATTATAT
* *
56292782 CTGGGCTAAGTTCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
56292805 TGGGTTGGAA
Statistics
Matches: 160, Mismatches: 17, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
38 19 0.12
39 139 0.87
40 2 0.01
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCTGATATTATAT
Found at i:56293535 original size:28 final size:28
Alignment explanation
Indices: 56293470--56293546 Score: 75
Period size: 28 Copynumber: 2.8 Consensus size: 28
56293460 CATTTAGTGG
* **
56293470 TACTTTGCACACTAAGTGCCATTCTGGA
1 TACTTTGCACACTAAGTGCCATCCCCGA
* *
56293498 T-GTATCGCACACTAAGTGCCATCCCCGA
1 TACT-TTGCACACTAAGTGCCATCCCCGA
**
56293526 TACTTTGCACGTTAAGTGCCA
1 TACTTTGCACACTAAGTGCCA
56293547 CATATAATTA
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
27 1 0.03
28 36 0.95
29 1 0.03
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.29
Consensus pattern (28 bp):
TACTTTGCACACTAAGTGCCATCCCCGA
Found at i:56298543 original size:36 final size:36
Alignment explanation
Indices: 56298496--56298568 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
56298486 AGACGGTTTG
56298496 AAAGAAGACAACAAGTTATTAGTCAGGATTCTAGAA
1 AAAGAAGACAACAAGTTATTAGTCAGGATTCTAGAA
56298532 AAAGAAGACAACAAGTTATTAGTCAGGATTCTAGAA
1 AAAGAAGACAACAAGTTATTAGTCAGGATTCTAGAA
56298568 A
1 A
56298569 TAAAAGAGTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.48, C:0.11, G:0.19, T:0.22
Consensus pattern (36 bp):
AAAGAAGACAACAAGTTATTAGTCAGGATTCTAGAA
Found at i:56306851 original size:43 final size:43
Alignment explanation
Indices: 56306689--56306851 Score: 129
Period size: 42 Copynumber: 3.8 Consensus size: 43
56306679 ATAGGATTCT
* * *
56306689 GATATGTGATTTCATGTAAGACCATGCCTGGGAC-GTTGGCATC
1 GATATTTGATTACATGTAAGACCATGTCTGGGACAG-TGGCATC
* **
56306732 -A-ATTTGAGATTTACATGTAAGACCATGTCTGGGACATTCTCATC
1 GATATTT--GA-TTACATGTAAGACCATGTCTGGGACAGTGGCATC
* * * * * **
56306776 G-TATATGATTTCGTGTTAGACCCTGTGAGGGACAGTGGCATC
1 GATATTTGATTACATGTAAGACCATGTCTGGGACAGTGGCATC
56306818 GATATTTGATTACATGTAAGACC-TCGTCTGGGAC
1 GATATTTGATTACATGTAAGACCAT-GTCTGGGAC
56306852 GTTGACATTG
Statistics
Matches: 90, Mismatches: 22, Indels: 16
0.70 0.17 0.12
Matches are distributed among these distances:
41 3 0.03
42 28 0.31
43 28 0.31
44 28 0.31
45 3 0.03
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (43 bp):
GATATTTGATTACATGTAAGACCATGTCTGGGACAGTGGCATC
Found at i:56307432 original size:24 final size:24
Alignment explanation
Indices: 56307404--56307457 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
56307394 AAGATGATTG
56307404 AGATTATGGAATTGGTTTTAGTAT
1 AGATTATGGAATTGGTTTTAGTAT
*
56307428 AGATTATGGAATTGGTTTTGGTAT
1 AGATTATGGAATTGGTTTTAGTAT
56307452 AGATTA
1 AGATTA
56307458 AATGTTAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.30, C:0.00, G:0.26, T:0.44
Consensus pattern (24 bp):
AGATTATGGAATTGGTTTTAGTAT
Found at i:56321247 original size:12 final size:12
Alignment explanation
Indices: 56321206--56321247 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
56321196 TTAGGCTGTT
*
56321206 ACACGACCTAGC
1 ACACGGCCTAGC
*
56321218 ACACAGCCTAGC
1 ACACGGCCTAGC
56321230 ACACGGCCTAGC
1 ACACGGCCTAGC
*
56321242 ATACGG
1 ACACGG
56321248 GCATGTGGCT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.31, C:0.38, G:0.21, T:0.10
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:56330302 original size:46 final size:46
Alignment explanation
Indices: 56330252--56330424 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
56330242 TTGAGCATCC
*
56330252 GAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
* * * *
56330298 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCT
* *
56330345 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
* *
56330391 GAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56330425 GCAGGTTACA
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 58 0.55
47 28 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
Found at i:56330405 original size:93 final size:93
Alignment explanation
Indices: 56330246--56330417 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
56330236 GGATGATTGA
* * *
56330246 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAACTCGTTGAGT
56330311 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
56330339 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAACTCGTTGAGT
56330404 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
56330418 CTTATGGGCA
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:56337782 original size:37 final size:40
Alignment explanation
Indices: 56337703--56337943 Score: 117
Period size: 47 Copynumber: 5.7 Consensus size: 40
56337693 TGGTTGAGCA
56337703 TCCGAACTCGTTGAGTTGAGTCGAGTTCTTATGGATACGATG
1 TCCGAACTCGTTGAGTTGAGTCGAGTTC-TATGGA-ACGATG
* * *
56337745 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGT-CGAGTTC-T---ATGGAACGATG
*
56337790 CATCCGAACCTCGTTGAGTTGAGTCCGAG-----T-GAGC-A--
1 --TCCGAA-CTCGTTGAGTTGAGT-CGAGTTCTATGGAACGATG
*
56337825 TCCGAACTCGTTGAGTT--GTCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCGAGTT--C-TATGGA-ACG-ATG
* * *
56337868 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGT-CGAGTTC-T---ATGGAACGATG
56337913 CATCCGAACTCGTTGAGTTGAGTCCGAGTTC
1 --TCCGAACTCGTTGAGTTGAGT-CGAGTTC
56337944 ACTTATGGAT
Statistics
Matches: 159, Mismatches: 11, Indels: 53
0.71 0.05 0.24
Matches are distributed among these distances:
29 4 0.03
30 2 0.01
32 11 0.07
33 6 0.04
37 2 0.01
38 4 0.03
39 3 0.02
41 1 0.01
42 21 0.13
43 25 0.16
44 2 0.01
45 8 0.05
46 11 0.07
47 39 0.25
48 20 0.13
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (40 bp):
TCCGAACTCGTTGAGTTGAGTCGAGTTCTATGGAACGATG
Found at i:56337937 original size:122 final size:121
Alignment explanation
Indices: 56337697--56337941 Score: 431
Period size: 123 Copynumber: 2.0 Consensus size: 121
56337687 TAGGGATGGT
56337697 TGAGCATCCGAACTCGTTGAGTTGAGTCGAGTTCTTATGGATACGATGTCCGAACTCGTTGAGTT
1 TGAGCATCCGAACTCGTTGAGTT-AGTCGAGTTCTTATGGATACGATGTCCGAACTCGTTGAGTT
56337762 GAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACCTCGTTGAGTTGAGTCCGAG
65 GAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACCTCGTTGAGTTGAGTCCGAG
*
56337819 TGAGCATCCGAACTCGTTGAGTT-GTCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 TGAGCATCCGAACTCGTTGAGTTAGTCGAGTT--CTTATGGATACG-ATGTCCGAACTCGTTGAG
56337883 TTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAA-CTCGTTGAGTTGAGTCCGAG
63 TTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACCTCGTTGAGTTGAGTCCGAG
56337941 T
1 T
56337942 TCACTTATGG
Statistics
Matches: 119, Mismatches: 1, Indels: 6
0.94 0.01 0.05
Matches are distributed among these distances:
120 8 0.07
122 55 0.46
123 56 0.47
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (121 bp):
TGAGCATCCGAACTCGTTGAGTTAGTCGAGTTCTTATGGATACGATGTCCGAACTCGTTGAGTTG
AGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACCTCGTTGAGTTGAGTCCGAG
Found at i:56337978 original size:93 final size:90
Alignment explanation
Indices: 56337822--56337990 Score: 277
Period size: 93 Copynumber: 1.8 Consensus size: 90
56337812 GTCCGAGTGA
*
56337822 GCATCCGAACTCGTTGAGTTGTCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGA
1 GCATCCGAACTCGTTGAGTTGTCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTGA
56337887 GTCCGAGTTCGTGAGATGTAACTAG
66 GTCCGAGTTCGTGAGATGTAACTAG
*
56337912 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTT--GT-CGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
56337976 TTGAGTCCGAGTTCG
62 TTGAGTCCGAGTTCG
56337991 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 2, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
90 20 0.27
92 4 0.05
93 49 0.67
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (90 bp):
GCATCCGAACTCGTTGAGTTGTCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTGA
GTCCGAGTTCGTGAGATGTAACTAG
Found at i:56337988 original size:46 final size:45
Alignment explanation
Indices: 56337826--56337997 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 45
56337816 GAGTGAGCAT
*
56337826 CCGAACTCGTTGAGTT--GT-CGAGTTCACTTATGGATGCGAATG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
56337868 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 -CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
56337913 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 ---CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
56337961 CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56337998 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 9, Indels: 23
0.77 0.06 0.17
Matches are distributed among these distances:
42 2 0.02
43 20 0.19
45 7 0.07
46 39 0.36
47 29 0.27
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:56340529 original size:46 final size:46
Alignment explanation
Indices: 56340479--56340654 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
56340469 ATGTTGAGCA
56340479 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
56340525 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
56340570 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
56340618 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56340655 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:56340635 original size:93 final size:93
Alignment explanation
Indices: 56340476--56340647 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
56340466 AGGATGTTGA
* *
56340476 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
56340541 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
56340569 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
56340634 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
56340648 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:56348078 original size:46 final size:46
Alignment explanation
Indices: 56348028--56348200 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
56348018 TTGAGCATCC
56348028 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
* * * *
56348074 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCT
* *
56348121 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
* *
56348167 GAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56348201 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 59 0.56
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
Found at i:56348181 original size:93 final size:93
Alignment explanation
Indices: 56348022--56348193 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
56348012 GGATGATTGA
* *
56348022 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAACTCGTTGAGT
56348087 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
56348115 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAACTCGTTGAGT
56348180 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
56348194 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:56354007 original size:15 final size:16
Alignment explanation
Indices: 56353979--56354008 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
56353969 TAATGTTATA
56353979 TTAATTGTGTATAATT
1 TTAATTGTGTATAATT
56353995 TTAATTG-GTATAAT
1 TTAATTGTGTATAAT
56354009 AGCAAATTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.53
Consensus pattern (16 bp):
TTAATTGTGTATAATT
Found at i:56356935 original size:16 final size:15
Alignment explanation
Indices: 56356909--56356939 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
56356899 ACATACACCA
56356909 AGATTAATAAAATCT
1 AGATTAATAAAATCT
56356924 AGATTCAATAAAATCT
1 AGATT-AATAAAATCT
56356940 CATTCTTTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.52, C:0.10, G:0.06, T:0.32
Consensus pattern (15 bp):
AGATTAATAAAATCT
Found at i:56358436 original size:56 final size:56
Alignment explanation
Indices: 56358375--56358523 Score: 199
Period size: 56 Copynumber: 2.7 Consensus size: 56
56358365 AAGTATTAAG
* * * *
56358375 ATATTATTATAAGATATTATCTTTTAACAATTTGATTCTTAATGGGATGTTATAAA
1 ATATTATTATAGGATATTATCTTTTAACAATTTGATTCCTAATGAGATATTATAAA
* * * **
56358431 ATATTATTATAGGATATTATTTTTTAGCAATTTAATTCCTAATGAGATATTATAGG
1 ATATTATTATAGGATATTATCTTTTAACAATTTGATTCCTAATGAGATATTATAAA
* *
56358487 ATATTATTATGGGATATTATCTTTTAACAACTTGATT
1 ATATTATTATAGGATATTATCTTTTAACAATTTGATT
56358524 TTACACTGTA
Statistics
Matches: 79, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
56 79 1.00
ACGTcount: A:0.36, C:0.06, G:0.11, T:0.47
Consensus pattern (56 bp):
ATATTATTATAGGATATTATCTTTTAACAATTTGATTCCTAATGAGATATTATAAA
Found at i:56360974 original size:29 final size:29
Alignment explanation
Indices: 56360917--56360975 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
56360907 TCCTTGAACA
* *
56360917 CAACAAAATAATTTTTCTCGAGTATCTGT
1 CAACAAAATAATTTTTCTCGAGCAGCTGT
56360946 CAACAAAATAATTTTTCTCGAGCAGCTGT
1 CAACAAAATAATTTTTCTCGAGCAGCTGT
56360975 C
1 C
56360976 TTACACTTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (29 bp):
CAACAAAATAATTTTTCTCGAGCAGCTGT
Found at i:56362790 original size:46 final size:46
Alignment explanation
Indices: 56362723--56362894 Score: 193
Period size: 46 Copynumber: 3.7 Consensus size: 46
56362713 TGTAACCCGC
* * *
56362723 CCATAGGTGAACTTGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
* * * * *
56362769 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGACTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-TTCGCAT
* *** * *
56362815 ACATCTCTCGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
56362862 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
56362895 TGGATGCCCA
Statistics
Matches: 99, Mismatches: 24, Indels: 6
0.77 0.19 0.05
Matches are distributed among these distances:
46 65 0.66
47 34 0.34
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:56364896 original size:17 final size:17
Alignment explanation
Indices: 56364874--56364936 Score: 74
Period size: 17 Copynumber: 3.7 Consensus size: 17
56364864 AGAACTCGTA
*
56364874 GGTGAGCTCTCAAGT-TT
1 GGTGAGCTCGC-AGTGTT
56364891 GGTGAGCTCGCAGTGTT
1 GGTGAGCTCGCAGTGTT
* * *
56364908 GGTGAGCTCACAGTCTC
1 GGTGAGCTCGCAGTGTT
56364925 GGTGAGCTCGCA
1 GGTGAGCTCGCA
56364937 CTTTTTTTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
16 3 0.08
17 37 0.93
ACGTcount: A:0.16, C:0.22, G:0.35, T:0.27
Consensus pattern (17 bp):
GGTGAGCTCGCAGTGTT
Found at i:56374563 original size:16 final size:16
Alignment explanation
Indices: 56374544--56374581 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
56374534 TAGATGTATT
56374544 CATTGGTAGAATAATA
1 CATTGGTAGAATAATA
56374560 CATTGGTAGAATAATA
1 CATTGGTAGAATAATA
56374576 CATTGG
1 CATTGG
56374582 ACTGAACCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.39, C:0.08, G:0.21, T:0.32
Consensus pattern (16 bp):
CATTGGTAGAATAATA
Found at i:56377137 original size:125 final size:125
Alignment explanation
Indices: 56377003--56377252 Score: 500
Period size: 125 Copynumber: 2.0 Consensus size: 125
56376993 TTTATATGAG
56377003 ATAGTATGACTTAGAAATGAATTATTACCCCTATGTATATGAAGTACATAGAAATGACATTACCT
1 ATAGTATGACTTAGAAATGAATTATTACCCCTATGTATATGAAGTACATAGAAATGACATTACCT
56377068 GATATAATGATGCATGAATTAGTTATTACATGAATGTGGATCATGCTTGATGACTTTGTT
66 GATATAATGATGCATGAATTAGTTATTACATGAATGTGGATCATGCTTGATGACTTTGTT
56377128 ATAGTATGACTTAGAAATGAATTATTACCCCTATGTATATGAAGTACATAGAAATGACATTACCT
1 ATAGTATGACTTAGAAATGAATTATTACCCCTATGTATATGAAGTACATAGAAATGACATTACCT
56377193 GATATAATGATGCATGAATTAGTTATTACATGAATGTGGATCATGCTTGATGACTTTGTT
66 GATATAATGATGCATGAATTAGTTATTACATGAATGTGGATCATGCTTGATGACTTTGTT
56377253 CATCTATAAT
Statistics
Matches: 125, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
125 125 1.00
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (125 bp):
ATAGTATGACTTAGAAATGAATTATTACCCCTATGTATATGAAGTACATAGAAATGACATTACCT
GATATAATGATGCATGAATTAGTTATTACATGAATGTGGATCATGCTTGATGACTTTGTT
Found at i:56380730 original size:13 final size:13
Alignment explanation
Indices: 56380712--56380736 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56380702 ACAAACGATA
56380712 AAATTTTCACACG
1 AAATTTTCACACG
56380725 AAATTTTCACAC
1 AAATTTTCACAC
56380737 ATATCACATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Done.