Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
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: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 39 of 170
Found at i:10999671 original size:17 final size:18
Alignment explanation
Indices: 10999649--10999685 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
10999639 AGAGCAACCC
*
10999649 AAGAAGAAGATGAA-AAA
1 AAGAAGAAAATGAATAAA
10999666 AAGAAGAAAATGAATAAA
1 AAGAAGAAAATGAATAAA
10999684 AA
1 AA
10999686 AATGAGAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.73, C:0.00, G:0.19, T:0.08
Consensus pattern (18 bp):
AAGAAGAAAATGAATAAA
Found at i:11008066 original size:13 final size:13
Alignment explanation
Indices: 11008048--11008078 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
11008038 AAATAATTGC
11008048 AATTAATTTAATT
1 AATTAATTTAATT
11008061 AATTAATTTAATT
1 AATTAATTTAATT
11008074 AATTA
1 AATTA
11008079 CAAGTATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AATTAATTTAATT
Found at i:11011734 original size:59 final size:57
Alignment explanation
Indices: 11011625--11011735 Score: 134
Period size: 59 Copynumber: 1.9 Consensus size: 57
11011615 TTTTAATGAT
* * * * *
11011625 TAACTTAGATAAAAAAATTCATGTCACAATATGGGAACATTTGCCTAGTTCAGGATC
1 TAACTTAGACAAAAAAATTCAAGTCACAATATGAGAACAGTTGCCAAGTTCAGGATC
*
11011682 TAACTTAGACAAAAAGAAGTTCAAG-CATCAATATGAGAAGAGTTGCCAAGTTCA
1 TAACTTAGACAAAAA-AA-TTCAAGTCA-CAATATGAGAACAGTTGCCAAGTTCA
11011736 AACCCTAAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
57 14 0.31
58 4 0.09
59 27 0.60
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.26
Consensus pattern (57 bp):
TAACTTAGACAAAAAAATTCAAGTCACAATATGAGAACAGTTGCCAAGTTCAGGATC
Found at i:11012655 original size:9 final size:9
Alignment explanation
Indices: 11012641--11012665 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
11012631 ATGCAACTCT
11012641 AATTATTAA
1 AATTATTAA
11012650 AATTATTAA
1 AATTATTAA
11012659 AATTATT
1 AATTATT
11012666 TTTTTAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (9 bp):
AATTATTAA
Found at i:11017262 original size:15 final size:15
Alignment explanation
Indices: 11017253--11017285 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
11017243 CAAATGCTAT
11017253 AATAATAAATACAAC
1 AATAATAAATACAAC
*
11017268 AATAATAAATACATC
1 AATAATAAATACAAC
11017283 AAT
1 AAT
11017286 GGCATAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (15 bp):
AATAATAAATACAAC
Found at i:11017679 original size:28 final size:27
Alignment explanation
Indices: 11017618--11017682 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 27
11017608 AAACATATAC
* *
11017618 ATATAAGTAT-GAAAATATTCATAAAA
1 ATATAAATATAGAAAACATTCATAAAA
* *
11017644 AAATAAATATAGAAAACATTCGTTAAAA
1 ATATAAATATAGAAAACATTC-ATAAAA
11017672 ATATAAATATA
1 ATATAAATATA
11017683 CATACATATA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 8 0.25
27 9 0.28
28 15 0.47
ACGTcount: A:0.60, C:0.05, G:0.06, T:0.29
Consensus pattern (27 bp):
ATATAAATATAGAAAACATTCATAAAA
Found at i:11023664 original size:15 final size:16
Alignment explanation
Indices: 11023631--11023666 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
11023621 ATTTTACGTG
11023631 AAAATCCTTTCGGGAA
1 AAAATCCTTTCGGGAA
11023647 AAAATCCTTTCGGGAA
1 AAAATCCTTTCGGGAA
11023663 AAAA
1 AAAA
11023667 CCACTAGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.17, G:0.17, T:0.22
Consensus pattern (16 bp):
AAAATCCTTTCGGGAA
Found at i:11025581 original size:58 final size:59
Alignment explanation
Indices: 11025490--11025611 Score: 183
Period size: 58 Copynumber: 2.1 Consensus size: 59
11025480 CAGTTTACTA
* *
11025490 ATGCCTTATCCATTAAGAAGTCCTCTTTTGCTTAATTGTGCCATGCCATTCTCACTCAT
1 ATGCCTTATCCATCAAGAAGTCCTCTTTTGCTTAATTCTGCCATGCCATTCTCACTCAT
* * * *
11025549 ATGCC-TATCTATCAAGAAGTCCTTTTTTGCTTAATTCTGTCATGCCATTCTCATTCAT
1 ATGCCTTATCCATCAAGAAGTCCTCTTTTGCTTAATTCTGCCATGCCATTCTCACTCAT
11025607 ATGCC
1 ATGCC
11025612 CTAGATGCAT
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
58 52 0.91
59 5 0.09
ACGTcount: A:0.22, C:0.26, G:0.11, T:0.40
Consensus pattern (59 bp):
ATGCCTTATCCATCAAGAAGTCCTCTTTTGCTTAATTCTGCCATGCCATTCTCACTCAT
Found at i:11028927 original size:37 final size:37
Alignment explanation
Indices: 11028877--11028955 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
11028867 TTATTACGAA
* * *
11028877 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
11028914 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
11028951 GTCTT
1 GTCTT
11028956 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:11029160 original size:47 final size:47
Alignment explanation
Indices: 11029124--11029248 Score: 216
Period size: 47 Copynumber: 2.7 Consensus size: 47
11029114 CTCGGCCCTG
11029124 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
11029171 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
* *
11029218 TCACATATATGCA-TGTTCACATCCATCACAT
1 TCACATATATACACT-TTCACATTCATCACAT
11029249 AGAATCCTAA
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
46 1 0.01
47 74 0.99
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
Found at i:11036161 original size:29 final size:29
Alignment explanation
Indices: 11036060--11036161 Score: 84
Period size: 29 Copynumber: 3.4 Consensus size: 29
11036050 TATATTGTTT
* *
11036060 AAAAATGAAAAATATCATATGTAAAA-TATA
1 AAAAATTAAAAATATTATATG-AAAATTA-A
*
11036090 AAAAA-TAAAAAGTATGTAAATAT-AAATTTAA
1 AAAAATTAAAAA-TAT-T--ATATGAAAATTAA
* *
11036121 AAAAAATCAAAATATTATATGAAAATTAA
1 AAAAATTAAAAATATTATATGAAAATTAA
11036150 AAAAATTAAAAA
1 AAAAATTAAAAA
11036162 ATGCATTTCA
Statistics
Matches: 58, Mismatches: 7, Indels: 15
0.73 0.09 0.19
Matches are distributed among these distances:
28 4 0.07
29 22 0.38
30 9 0.16
31 12 0.21
32 7 0.12
33 4 0.07
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (29 bp):
AAAAATTAAAAATATTATATGAAAATTAA
Found at i:11036163 original size:30 final size:29
Alignment explanation
Indices: 11036060--11036163 Score: 79
Period size: 30 Copynumber: 3.4 Consensus size: 29
11036050 TATATTGTTT
* *
11036060 AAAAATGAAAAATATCATATGTAAAA-TATA
1 AAAAATAAAAAATATTATATG-AAAATTA-A
* *
11036090 AAAAATAAAAAGTATGTAAATAT-AAATTTAA
1 AAAAATAAAAAATAT-T--ATATGAAAATTAA
*
11036121 AAAAA-ATCAAAATATTATATGAAAATTAA
1 AAAAATA-AAAAATATTATATGAAAATTAA
11036150 AAAAATTAAAAAAT
1 AAAAA-TAAAAAAT
11036164 GCATTTCACT
Statistics
Matches: 58, Mismatches: 8, Indels: 16
0.71 0.10 0.20
Matches are distributed among these distances:
28 4 0.07
29 12 0.21
30 20 0.34
31 16 0.28
32 2 0.03
33 4 0.07
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (29 bp):
AAAAATAAAAAATATTATATGAAAATTAA
Found at i:11036362 original size:27 final size:27
Alignment explanation
Indices: 11036332--11036389 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 27
11036322 TATATATATA
11036332 TAGA-AAATTTTTAAATTTTTAGAAATT
1 TAGATAAATTTTTAAATTTTTAG-AATT
*** *
11036359 TAGATTTTTTTTTGAATTTTTAGAATT
1 TAGATAAATTTTTAAATTTTTAGAATT
11036386 TAGA
1 TAGA
11036390 GTTTTTGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 12 0.46
28 14 0.54
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.53
Consensus pattern (27 bp):
TAGATAAATTTTTAAATTTTTAGAATT
Found at i:11036394 original size:27 final size:28
Alignment explanation
Indices: 11036339--11036395 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
11036329 ATATAGAAAA
*
11036339 TTTTTAAATTTTTAGAAATTTAGATTTT
1 TTTTTAAATTTTTAGAAATTTAGAGTTT
*
11036367 TTTTTGAATTTTTAG-AATTTAGAGTTT
1 TTTTTAAATTTTTAGAAATTTAGAGTTT
11036394 TT
1 TT
11036396 GAAAAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 13 0.48
28 14 0.52
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.61
Consensus pattern (28 bp):
TTTTTAAATTTTTAGAAATTTAGAGTTT
Found at i:11036450 original size:19 final size:19
Alignment explanation
Indices: 11036428--11036521 Score: 80
Period size: 19 Copynumber: 5.3 Consensus size: 19
11036418 TAAATTTTCA
11036428 ATTTTTATATAATATTTTT
1 ATTTTTATATAATATTTTT
11036447 ATTTTT-TA-AA-ATTTTT
1 ATTTTTATATAATATTTTT
*
11036463 A--TTTATAT-AT-TTTAT
1 ATTTTTATATAATATTTTT
*
11036478 AATTTTATAT-AT-TTTTT
1 ATTTTTATATAATATTTTT
*
11036495 AAATTTTTATATAATATTTTG
1 --ATTTTTATATAATATTTTT
11036516 ATTTTT
1 ATTTTT
11036522 TAAAAAAATT
Statistics
Matches: 62, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
14 3 0.05
15 8 0.13
16 7 0.11
17 15 0.24
18 2 0.03
19 21 0.34
20 2 0.03
21 4 0.06
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (19 bp):
ATTTTTATATAATATTTTT
Found at i:11036460 original size:29 final size:29
Alignment explanation
Indices: 11036427--11036526 Score: 83
Period size: 29 Copynumber: 3.1 Consensus size: 29
11036417 ATAAATTTTC
11036427 AATTTTTATATAATATTTTTATTTTTTAA
1 AATTTTTATATAATATTTTTATTTTTTAA
*
11036456 AATTTTTATTTATATATTTTATAATTTTATATATTTTTTA
1 AA---TT-TTTATATA----AT-ATTTT-TAT-TTTTTAA
*
11036496 AATTTTTATATAATATTTTGATTTTTTAA
1 AATTTTTATATAATATTTTTATTTTTTAA
11036525 AA
1 AA
11036527 AAATTATATT
Statistics
Matches: 57, Mismatches: 3, Indels: 22
0.70 0.04 0.27
Matches are distributed among these distances:
29 10 0.18
30 2 0.04
31 5 0.09
32 4 0.07
33 8 0.14
36 8 0.14
37 4 0.07
38 5 0.09
39 3 0.05
40 8 0.14
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (29 bp):
AATTTTTATATAATATTTTTATTTTTTAA
Found at i:11036476 original size:9 final size:9
Alignment explanation
Indices: 11036464--11036506 Score: 54
Period size: 9 Copynumber: 5.0 Consensus size: 9
11036454 AAAATTTTTA
11036464 TTTATATAT
1 TTTATATAT
11036473 TTTATA-AT
1 TTTATATAT
11036481 TTTATATAT
1 TTTATATAT
* *
11036490 TTTTTAAAT
1 TTTATATAT
11036499 TTT-TATAT
1 TTTATATAT
11036507 AATATTTTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
8 12 0.40
9 18 0.60
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
TTTATATAT
Found at i:11036486 original size:17 final size:18
Alignment explanation
Indices: 11036464--11036506 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
11036454 AAAATTTTTA
11036464 TTTATATATTTTAT-AAT
1 TTTATATATTTTATAAAT
*
11036481 TTTATATATTTTTTAAAT
1 TTTATATATTTTATAAAT
11036499 TTT-TATAT
1 TTTATATAT
11036507 AATATTTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 18 0.75
18 6 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTATATATTTTATAAAT
Found at i:11036493 original size:40 final size:39
Alignment explanation
Indices: 11036435--11036514 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 39
11036425 TCAATTTTTA
* *
11036435 TATAATATTTTTATTTTTTAAAATTTTTATTTATATATTT
1 TATAATATTTATATTTTTTAAAATTTTTATATA-ATATTT
*
11036475 TATAAT-TTTATATATTTTTTAAATTTTTATATAATATTT
1 TATAATATTTATAT-TTTTTAAAATTTTTATATAATATTT
11036514 T
1 T
11036515 GATTTTTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
39 13 0.36
40 23 0.64
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (39 bp):
TATAATATTTATATTTTTTAAAATTTTTATATAATATTT
Found at i:11036512 original size:69 final size:69
Alignment explanation
Indices: 11036422--11036583 Score: 204
Period size: 69 Copynumber: 2.4 Consensus size: 69
11036412 TTATGATAAA
* * * * *
11036422 TTTTCAATTTTTATATAATATTTTTATTTTTT-AAAATTTTTATTTATATATTTTATAATTTTAT
1 TTTTAAATTTTTATATAATATTTTTATTTTTTAAAAAATTATATTTACATATTTTAGAATTTT-T
11036486 ATATT
65 ATATT
*
11036491 TTTTAAATTTTTATATAATATTTTGATTTTTTAAAAAAATTATATTTACATATTTTAGAATTTTT
1 TTTTAAATTTTTATATAATATTTTTATTTTTT-AAAAAATTATATTTACATATTTTAGAATTTTT
*
11036556 ATTTT
65 ATATT
* *
11036561 TTTTGAACTTTT-TA-AATATTTTT
1 TTTTAAATTTTTATATAATATTTTT
11036584 GAATTATTTA
Statistics
Matches: 81, Mismatches: 10, Indels: 5
0.84 0.10 0.05
Matches are distributed among these distances:
68 8 0.10
69 32 0.40
70 15 0.19
71 26 0.32
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (69 bp):
TTTTAAATTTTTATATAATATTTTTATTTTTTAAAAAATTATATTTACATATTTTAGAATTTTTA
TATT
Found at i:11038014 original size:28 final size:28
Alignment explanation
Indices: 11037961--11038080 Score: 89
Period size: 28 Copynumber: 4.3 Consensus size: 28
11037951 TCATTGGAAT
* * *
11037961 AGTAAACACAA-AAAAATTCGTTGGGAT
1 AGTAAACACAAGGAAAGTTCGTTGGGAC
* **
11037988 AGTGAACACGGGGAAAGTTCGTTGGGAC
1 AGTAAACACAAGGAAAGTTCGTTGGGAC
* * * * *
11038016 AGTAAACACAAGGAAAGTCCATCGAGAT
1 AGTAAACACAAGGAAAGTTCGTTGGGAC
* * * * *
11038044 AATAAACAAAAGGTAAGTCCGTTGGAAC
1 AGTAAACACAAGGAAAGTTCGTTGGGAC
11038072 AGTAAACAC
1 AGTAAACAC
11038081 TGGGTAAGTC
Statistics
Matches: 68, Mismatches: 24, Indels: 1
0.73 0.26 0.01
Matches are distributed among these distances:
27 8 0.12
28 60 0.88
ACGTcount: A:0.43, C:0.15, G:0.24, T:0.17
Consensus pattern (28 bp):
AGTAAACACAAGGAAAGTTCGTTGGGAC
Found at i:11041479 original size:18 final size:18
Alignment explanation
Indices: 11041456--11041498 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
11041446 ACCCAATCTA
**
11041456 AACCCAAGTATTTAACCC
1 AACCCAAGTACCTAACCC
*
11041474 AACCCAATTACCTAACCC
1 AACCCAAGTACCTAACCC
11041492 AACCCAA
1 AACCCAA
11041499 TCATAAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.42, C:0.40, G:0.02, T:0.16
Consensus pattern (18 bp):
AACCCAAGTACCTAACCC
Found at i:11041641 original size:27 final size:27
Alignment explanation
Indices: 11041606--11041672 Score: 98
Period size: 27 Copynumber: 2.5 Consensus size: 27
11041596 GTAGTGATTC
*
11041606 AATTTGGTTAATTCAGTTAATTCGGGT
1 AATTTGGTTAATTCAGGTAATTCGGGT
* * *
11041633 AATTCGGTTAATTCGGGTAATTCGGTT
1 AATTTGGTTAATTCAGGTAATTCGGGT
11041660 AATTTGGTTAATT
1 AATTTGGTTAATT
11041673 TTTAACCAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.25, C:0.07, G:0.22, T:0.45
Consensus pattern (27 bp):
AATTTGGTTAATTCAGGTAATTCGGGT
Found at i:11041673 original size:9 final size:9
Alignment explanation
Indices: 11041606--11041672 Score: 89
Period size: 9 Copynumber: 7.4 Consensus size: 9
11041596 GTAGTGATTC
*
11041606 AATTTGGTT
1 AATTCGGTT
*
11041615 AATTCAGTT
1 AATTCGGTT
*
11041624 AATTCGGGT
1 AATTCGGTT
11041633 AATTCGGTT
1 AATTCGGTT
*
11041642 AATTCGGGT
1 AATTCGGTT
11041651 AATTCGGTT
1 AATTCGGTT
*
11041660 AATTTGGTT
1 AATTCGGTT
11041669 AATT
1 AATT
11041673 TTTAACCAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 50 1.00
ACGTcount: A:0.25, C:0.07, G:0.22, T:0.45
Consensus pattern (9 bp):
AATTCGGTT
Found at i:11041851 original size:12 final size:12
Alignment explanation
Indices: 11041834--11041858 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11041824 TGTTATTTCG
11041834 GGTCGGTTAACC
1 GGTCGGTTAACC
11041846 GGTCGGTTAACC
1 GGTCGGTTAACC
11041858 G
1 G
11041859 AATGAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:11043747 original size:26 final size:26
Alignment explanation
Indices: 11043718--11043772 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
11043708 CCTAAATTTT
*
11043718 TTTTGACAATTTTA-CCCTTGGTAAAA
1 TTTTGACAATTTTATCCC-TGATAAAA
**
11043744 TTTTGATGATTTTATCCCTGATAAAA
1 TTTTGACAATTTTATCCCTGATAAAA
11043770 TTT
1 TTT
11043773 CGAGAAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 22 0.88
27 3 0.12
ACGTcount: A:0.29, C:0.13, G:0.11, T:0.47
Consensus pattern (26 bp):
TTTTGACAATTTTATCCCTGATAAAA
Found at i:11052005 original size:309 final size:312
Alignment explanation
Indices: 11051587--11052182 Score: 757
Period size: 309 Copynumber: 1.9 Consensus size: 312
11051577 TTTGTGTATC
* * *
11051587 TATACTATTATTTAAGTTCCTAACTAAGTTGGTGTCACGAGTTAACCTAGCACCAACTCGATTAG
1 TATAATATTATTTAAGCTCCTAACTAAGTTGGTGTCACAAGTTAACCTAGCACCAACTCGATTAG
*
11051652 GAAAATTAAGAAAATGAACTTTCTTAATTAAAATAAGTTATATTATTCGATG-ACATTTTAGTCT
66 GAAAATTAAGAAAATGAACTTTCTTAATTAAAATAAGTTATATTATTCGA-GAACATTTTAATCT
* * *
11051716 TTTCA-TTTCAACAAAGACCAATAAAAATATGCATAT-GATGAGATTTAAACC-AGTGCCAGTTA
130 TTTCAGTTT-AACAAAAACCAATAAAAATATGCATATAG-TGAGATTTAAACCTA-CGCCAATTA
*
11051778 TATTAGTAAAACCTTAAATTTA-CTACTCAACCAAAACATTATTTTAAT-TAGTTTATACA-CTT
192 TATTAGTAAAAACTTAAATTTATC-ACTCAACCAAAACATTATTTTAATGTAGTTTATACATCTT
11051840 ATTTTAACATGCACAATTTATTATCT-TATTACCTTCATCAATTGTATATCTATCTA
256 ATTTTAACATGCACAATTTATTATCTCTATTACCTTCATCAATTGTATATCTATCTA
* * * * *
11051896 TATAATATTATTTAAGCTCTTGA-TAGAGTTGGTGTCACAAGTTAA-TTGGACACCAACTCGGTT
1 TATAATATTATTTAAGCTCCTAACTA-AGTTGGTGTCACAAGTTAACCTAG-CACCAACTCGATT
* *
11051959 A-GAGAAATTACGAAAATG-TCTTTCTGTAATTAAAATAAGTTATATTATTCGAGAACATTTTAA
64 AGGA-AAATTAAGAAAATGAACTTTCT-TAATTAAAATAAGTTATATTATTCGAGAACATTTTAA
* * * * * *
11052022 TCTTTTTAGTTTAAGAAAAATCAATAAAAATATTCATATAGTGAGATTTGAACCTACGCCAATTG
127 TCTTTTCAGTTTAACAAAAACCAATAAAAATATGCATATAGTGAGATTTAAACCTACGCCAATTA
* * * * * * *
11052087 TTTTATTAAAAACTTAAATTTATCACTTAACTAAAACTTTATTTTAATGTATTTTATACATTTTA
192 TATTAGTAAAAACTTAAATTTATCACTCAACCAAAACATTATTTTAATGTAGTTTATACATCTTA
* *
11052152 TTTTAATATGCACAATTTATTGTCTCTATTA
257 TTTTAACATGCACAATTTATTATCTCTATTA
11052183 GTTGTATACT
Statistics
Matches: 245, Mismatches: 30, Indels: 21
0.83 0.10 0.07
Matches are distributed among these distances:
308 13 0.05
309 185 0.76
310 16 0.07
311 26 0.11
312 5 0.02
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.39
Consensus pattern (312 bp):
TATAATATTATTTAAGCTCCTAACTAAGTTGGTGTCACAAGTTAACCTAGCACCAACTCGATTAG
GAAAATTAAGAAAATGAACTTTCTTAATTAAAATAAGTTATATTATTCGAGAACATTTTAATCTT
TTCAGTTTAACAAAAACCAATAAAAATATGCATATAGTGAGATTTAAACCTACGCCAATTATATT
AGTAAAAACTTAAATTTATCACTCAACCAAAACATTATTTTAATGTAGTTTATACATCTTATTTT
AACATGCACAATTTATTATCTCTATTACCTTCATCAATTGTATATCTATCTA
Found at i:11053977 original size:18 final size:17
Alignment explanation
Indices: 11053954--11053987 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
11053944 AATAAAAGAT
11053954 ATTAAAAGATGATAAATG
1 ATTAAAAGATGA-AAATG
*
11053972 ATTAAATGATGAAAAT
1 ATTAAAAGATGAAAAT
11053988 ATCATCTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.56, C:0.00, G:0.15, T:0.29
Consensus pattern (17 bp):
ATTAAAAGATGAAAATG
Found at i:11054929 original size:43 final size:43
Alignment explanation
Indices: 11054838--11054989 Score: 157
Period size: 43 Copynumber: 3.6 Consensus size: 43
11054828 TACCGAGATA
*
11054838 CGTGTAAGACCATATCTGGGATA-TGGCATCGATATGAGAATT
1 CGTGTAAGACCATGTCTGGGATATTGGCATCGATATGAGAATT
* * * ** *
11054880 CATGTAAGACTATGTCTGCGATATTGGCATCGATATTTGATTT
1 CGTGTAAGACCATGTCTGGGATATTGGCATCGATATGAGAATT
* *
11054923 CGTGTAAGACCATGGT-TGGGCTATTGGCATCGATACGAG-ATT
1 CGTGTAAGACCAT-GTCTGGGATATTGGCATCGATATGAGAATT
* * *
11054965 ACATGTAAGACCATATATGGGATAT
1 -CGTGTAAGACCATGTCTGGGATAT
11054990 AGCATTGTTA
Statistics
Matches: 88, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
42 22 0.25
43 64 0.73
44 2 0.02
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGATATTGGCATCGATATGAGAATT
Found at i:11058420 original size:43 final size:43
Alignment explanation
Indices: 11058371--11058462 Score: 132
Period size: 43 Copynumber: 2.1 Consensus size: 43
11058361 GTTACTCTAC
* *
11058371 GAACCTATGTTATTATGCAAACCCATG-TTGTATGTTATTATGT
1 GAACCTATGTTATTATGCAAACCCATGATTGTATG-AAGTATGT
* *
11058414 GAACCTATGTTATTATGCGAACCTATGATTGTATGAAGTATGT
1 GAACCTATGTTATTATGCAAACCCATGATTGTATGAAGTATGT
11058457 GAACCT
1 GAACCT
11058463 TTATTGATGT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
43 37 0.84
44 7 0.16
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.38
Consensus pattern (43 bp):
GAACCTATGTTATTATGCAAACCCATGATTGTATGAAGTATGT
Found at i:11058424 original size:18 final size:18
Alignment explanation
Indices: 11058401--11058440 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
11058391 ACCCATGTTG
*
11058401 TATGTTATTATGTGAACC
1 TATGTTATTATGCGAACC
11058419 TATGTTATTATGCGAACC
1 TATGTTATTATGCGAACC
11058437 TATG
1 TATG
11058441 ATTGTATGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.28, C:0.12, G:0.17, T:0.42
Consensus pattern (18 bp):
TATGTTATTATGCGAACC
Found at i:11073073 original size:4 final size:4
Alignment explanation
Indices: 11073064--11073092 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
11073054 AAAATCATGC
11073064 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
11073093 TATATAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:11073314 original size:14 final size:14
Alignment explanation
Indices: 11073295--11073351 Score: 53
Period size: 14 Copynumber: 4.1 Consensus size: 14
11073285 AATTAAAATA
11073295 TAAATTAAACTAAT
1 TAAATTAAACTAAT
* * *
11073309 TAAATTAATCAAAC
1 TAAATTAAACTAAT
11073323 TAAATTAAA-TAAT
1 TAAATTAAACTAAT
* *
11073336 CTAAAATAAATTAAT
1 -TAAATTAAACTAAT
11073351 T
1 T
11073352 GAATCTCATA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
13 2 0.06
14 28 0.82
15 4 0.12
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (14 bp):
TAAATTAAACTAAT
Found at i:11073330 original size:19 final size:19
Alignment explanation
Indices: 11073300--11073349 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
11073290 AAATATAAAT
11073300 TAAACT-AATTAAATTAATC
1 TAAACTAAATTAAA-TAATC
11073319 -AAACTAAATTAAATAATC
1 TAAACTAAATTAAATAATC
*
11073337 TAAAATAAATTAA
1 TAAACTAAATTAA
11073350 TTGAATCTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 10 0.36
19 18 0.64
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (19 bp):
TAAACTAAATTAAATAATC
Found at i:11075798 original size:18 final size:19
Alignment explanation
Indices: 11075777--11075815 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
11075767 TTCATAGCAC
*
11075777 AATAGAA-AAAAAAACCAA
1 AATAGAACAAAAAAAACAA
11075795 AATAGAACAAAAAAAACAA
1 AATAGAACAAAAAAAACAA
11075814 AA
1 AA
11075816 AAAAACATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.79, C:0.10, G:0.05, T:0.05
Consensus pattern (19 bp):
AATAGAACAAAAAAAACAA
Found at i:11075822 original size:19 final size:20
Alignment explanation
Indices: 11075783--11075822 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
11075773 GCACAATAGA
* *
11075783 AAAAAAAACCAAAATAGAAC
1 AAAAAAAACCAAAAAAAAAC
11075803 AAAAAAAA-CAAAAAAAAAC
1 AAAAAAAACCAAAAAAAAAC
11075822 A
1 A
11075823 TAATAGAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.82, C:0.12, G:0.03, T:0.03
Consensus pattern (20 bp):
AAAAAAAACCAAAAAAAAAC
Found at i:11084060 original size:12 final size:13
Alignment explanation
Indices: 11084038--11084066 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
11084028 CACTGACTTG
11084038 GGCCTGTGTGCTA
1 GGCCTGTGTGCTA
11084051 GGCC-GTGTGCTA
1 GGCCTGTGTGCTA
11084063 GGCC
1 GGCC
11084067 ATGTAACAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.07, C:0.28, G:0.41, T:0.24
Consensus pattern (13 bp):
GGCCTGTGTGCTA
Found at i:11085248 original size:25 final size:25
Alignment explanation
Indices: 11085204--11085298 Score: 86
Period size: 25 Copynumber: 3.8 Consensus size: 25
11085194 ATGACCTGTG
*
11085204 AATCGGTATGCT-T-AGTCGAGCTGTA
1 AATCGGTATGCTCTCA--CGAGCTATA
*
11085229 GATCGGTATGCTCTCACGAGCTATA
1 AATCGGTATGCTCTCACGAGCTATA
* * * *
11085254 AACCGGTATGCACTTACAAGCTATA
1 AATCGGTATGCTCTCACGAGCTATA
* *
11085279 AATCAGTATGATCTCACGAG
1 AATCGGTATGCTCTCACGAG
11085299 ATGTGGAGTA
Statistics
Matches: 55, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
25 53 0.96
26 1 0.02
27 1 0.02
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.27
Consensus pattern (25 bp):
AATCGGTATGCTCTCACGAGCTATA
Found at i:11092957 original size:25 final size:25
Alignment explanation
Indices: 11092842--11092958 Score: 119
Period size: 25 Copynumber: 4.7 Consensus size: 25
11092832 TCATGTACAT
* *
11092842 GTATGCTCAT-ACGAGCTGTGAATCG
1 GTATGCTC-TCACGAGCTATAAATCG
*** *
11092867 GTATGCTCAGTCGAGCTATAGATCG
1 GTATGCTCTCACGAGCTATAAATCG
*
11092892 GTATGCTCTCACAAGCTATAAATCG
1 GTATGCTCTCACGAGCTATAAATCG
* * *
11092917 GTATGCTTTTACGAGCTATAAATCA
1 GTATGCTCTCACGAGCTATAAATCG
*
11092942 GTATGCTCTCATGAGCT
1 GTATGCTCTCACGAGCT
11092959 GTGGAGTATC
Statistics
Matches: 74, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
25 74 1.00
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (25 bp):
GTATGCTCTCACGAGCTATAAATCG
Found at i:11095465 original size:29 final size:29
Alignment explanation
Indices: 11095428--11095671 Score: 181
Period size: 29 Copynumber: 8.4 Consensus size: 29
11095418 TCGGAGTCTC
* *
11095428 ACCATAAAGGCATTCTTTTAACAGAGATA
1 ACCACAAAGGCATCCTTTTAACAGAGATA
**
11095457 ACCACAAAGGCATCCTTTTAATTGAGATA
1 ACCACAAAGGCATCCTTTTAACAGAGATA
* * *
11095486 CCCACAAAGGCATCTTTTTAACAAAGATA
1 ACCACAAAGGCATCCTTTTAACAGAGATA
* * * * *
11095515 GCCACAAAGGTATCCTTTTAACAAAAATCG
1 ACCACAAAGGCATCCTTTTAACAGAGAT-A
11095545 A-CACAAAGGCATCCTTTTAACAGAGATA
1 ACCACAAAGGCATCCTTTTAACAGAGATA
* * * * * *
11095573 GCCACAAAAGGCAGCCTGTTAATAAAGATT
1 ACCAC-AAAGGCATCCTTTTAACAGAGATA
* * * * *
11095603 GCCACAAAGTCTTCC-TTTAATAGAGATC
1 ACCACAAAGGCATCCTTTTAACAGAGATA
* * *
11095631 GCCGCAAAGGCTTCC-TTTAACATG-GATTA
1 ACCACAAAGGCATCCTTTTAACA-GAGA-TA
*
11095660 GCCACAAAGGCA
1 ACCACAAAGGCA
11095672 ATTTTTTAGG
Statistics
Matches: 173, Mismatches: 37, Indels: 10
0.79 0.17 0.05
Matches are distributed among these distances:
28 31 0.18
29 118 0.68
30 24 0.14
ACGTcount: A:0.38, C:0.23, G:0.16, T:0.24
Consensus pattern (29 bp):
ACCACAAAGGCATCCTTTTAACAGAGATA
Found at i:11095497 original size:58 final size:57
Alignment explanation
Indices: 11095433--11095648 Score: 211
Period size: 58 Copynumber: 3.7 Consensus size: 57
11095423 GTCTCACCAT
* **
11095433 AAAGGCATTCTTTTAACAGAGATAACCACAAAGGCATCCTTTTAATTGAGATACCCAC
1 AAAGGCATTCTTTTAACAGAGATAGCCACAAAGGCATCCTTTTAATAAAGAT-CCCAC
* * * * *
11095491 AAAGGCA-TCTTTTTAACAAAGATAGCCACAAAGGTATCCTTTTAACAAAAATCGACAC
1 AAAGGCATTC-TTTTAACAGAGATAGCCACAAAGGCATCCTTTTAATAAAGATC-CCAC
* * * *
11095549 AAAGGCATCCTTTTAACAGAGATAGCCACAAAAGGCAGCCTGTTAATAAAGATTGCCAC
1 AAAGGCATTCTTTTAACAGAGATAGCCAC-AAAGGCATCCTTTTAATAAAGA-TCCCAC
* * * * * *
11095608 AAAGTC-TTCCTTTAATAGAGATCGCCGCAAAGGCTTCCTTT
1 AAAGGCATTCTTTTAACAGAGATAGCCACAAAGGCATCCTTT
11095649 AACATGGATT
Statistics
Matches: 127, Mismatches: 26, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
57 13 0.10
58 87 0.69
59 26 0.20
60 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.25
Consensus pattern (57 bp):
AAAGGCATTCTTTTAACAGAGATAGCCACAAAGGCATCCTTTTAATAAAGATCCCAC
Found at i:11095622 original size:87 final size:87
Alignment explanation
Indices: 11095459--11095671 Score: 227
Period size: 87 Copynumber: 2.4 Consensus size: 87
11095449 CAGAGATAAC
** * * * *
11095459 CACAAAGGCATCCTTTTAATTGAGATACCCACAAAGGCATCTTTTTAACAAAGATAGCCACAAAG
1 CACAAAGGCATCCTTTTAACAGAGATAGCCACAAAGGCAGCCTGTTAACAAAGATAGCCACAAAG
11095524 GTATCCTTTTAACAAAAATCGA
66 GTATCCTTTTAACAAAAATCGA
* *
11095546 CACAAAGGCATCCTTTTAACAGAGATAGCCACAAAAGGCAGCCTGTTAATAAAGATTGCCACAAA
1 CACAAAGGCATCCTTTTAACAGAGATAGCCAC-AAAGGCAGCCTGTTAACAAAGATAGCCACAAA
* * * * *
11095611 -GTCTTCC-TTTAATAGAGATCGC
65 GGT-ATCCTTTTAACAAAAATCGA
* *
11095633 CGCAAAGGCTTCC-TTTAACATG-GATTAGCCACAAAGGCA
1 CACAAAGGCATCCTTTTAACA-GAGA-TAGCCACAAAGGCA
11095672 ATTTTTTAGG
Statistics
Matches: 107, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
86 16 0.15
87 61 0.57
88 30 0.28
ACGTcount: A:0.38, C:0.23, G:0.16, T:0.23
Consensus pattern (87 bp):
CACAAAGGCATCCTTTTAACAGAGATAGCCACAAAGGCAGCCTGTTAACAAAGATAGCCACAAAG
GTATCCTTTTAACAAAAATCGA
Found at i:11101466 original size:14 final size:13
Alignment explanation
Indices: 11101447--11101477 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
11101437 AAATTATATT
11101447 TTAATTAATCTTAA
1 TTAATTAAT-TTAA
11101461 TTAATTAATTTAA
1 TTAATTAATTTAA
11101474 TTAA
1 TTAA
11101478 AACATTAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (13 bp):
TTAATTAATTTAA
Found at i:11111163 original size:28 final size:28
Alignment explanation
Indices: 11111119--11111187 Score: 102
Period size: 28 Copynumber: 2.4 Consensus size: 28
11111109 CAGAGGGCAT
11111119 CAAAGTGCATTAACAGAACAGAACAACAC
1 CAAAGTGC-TTAACAGAACAGAACAACAC
** *
11111148 CGTAGTGCTTATCAGAACAGAACAACAC
1 CAAAGTGCTTAACAGAACAGAACAACAC
11111176 CAAAGTGCTTAA
1 CAAAGTGCTTAA
11111188 ATAAAACAGA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
28 28 0.82
29 6 0.18
ACGTcount: A:0.45, C:0.23, G:0.16, T:0.16
Consensus pattern (28 bp):
CAAAGTGCTTAACAGAACAGAACAACAC
Found at i:11112065 original size:12 final size:12
Alignment explanation
Indices: 11112050--11112088 Score: 78
Period size: 12 Copynumber: 3.2 Consensus size: 12
11112040 AAAAATTTCT
11112050 ATTAATTTAATA
1 ATTAATTTAATA
11112062 ATTAATTTAATA
1 ATTAATTTAATA
11112074 ATTAATTTAATA
1 ATTAATTTAATA
11112086 ATT
1 ATT
11112089 TTGCAAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (12 bp):
ATTAATTTAATA
Found at i:11119062 original size:41 final size:41
Alignment explanation
Indices: 11119012--11119381 Score: 383
Period size: 41 Copynumber: 9.0 Consensus size: 41
11119002 AATTCATCAT
*
11119012 ATTCGGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
* * * *
11119053 ATTCAGATCACCGGCGCTTAGCCTACTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
* * *
11119094 ATTCAGATCACCGGCGCTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
*
11119135 ATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
** * *
11119176 ATTCAGATCACCGGTGCTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
*
11119217 ATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
* ** * *
11119258 AAATGTG-TCACCGGCA-TTAAGCCTGCTAGACTTATAGTCTG
1 -ATTCAGATCACCGGCACTT-AGCCTGCTAGGCTTATAGCCTG
* ** * *
11119299 AAATGTG-TCACCGGCA-TTAAGCCTGCTAGACTTATAGTCTG
1 -ATTCAGATCACCGGCACTT-AGCCTGCTAGGCTTATAGCCTG
* ** * *
11119340 AAATGTG-TCACCGGCA-TTAAGCCTGCTAGACTTATAGTCTG
1 -ATTCAGATCACCGGCACTT-AGCCTGCTAGGCTTATAGCCTG
11119381 A
1 A
11119382 ATTATGTCAC
Statistics
Matches: 301, Mismatches: 26, Indels: 5
0.91 0.08 0.02
Matches are distributed among these distances:
40 3 0.01
41 296 0.98
42 2 0.01
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (41 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
Found at i:11119312 original size:123 final size:123
Alignment explanation
Indices: 11119018--11119299 Score: 433
Period size: 123 Copynumber: 2.3 Consensus size: 123
11119008 TCATATTCGG
11119018 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTACTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTACTAGG
* * *
11119083 TTTATAACCTGATTCAGATCACCGGCGCTTAGCCTGCTAGGTTTATAACCTGATTCAT
66 TTTATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGAATCAT
* *
11119141 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGTGCTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTACTAGG
* * *
11119206 TTTATAACCTGATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGAAAT-GT
66 TTTATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG-AATCAT
* * *
11119264 GTCACCGGCA-TTAAGCCTGCTAGACTTATAGTCTGA
1 ATCACCGGCACTT-AGCCTGCTAGGCTTATAGCCTGA
11119300 AATGTGTCAC
Statistics
Matches: 146, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
122 2 0.01
123 142 0.97
124 2 0.01
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (123 bp):
ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTACTAGG
TTTATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGAATCAT
Found at i:11127051 original size:41 final size:41
Alignment explanation
Indices: 11127001--11127369 Score: 385
Period size: 41 Copynumber: 9.0 Consensus size: 41
11126991 AATTCATCAT
*
11127001 ATTCGGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
* * *
11127042 ATTCAGATCACCGGCGCTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
* * *
11127083 ATTCAGATCACCGGCGCTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
*
11127124 ATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
* * *
11127165 ATTCAGATCACCGGCGCTTAGCCTGCTA-GTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
*
11127205 ATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
* ** * *
11127246 AAATGTG-TCACCGGCA-TTAAGCCTGCTAGACTTATAGTCTG
1 -ATTCAGATCACCGGCACTT-AGCCTGCTAGGCTTATAGCCTG
* ** * * *
11127287 AAATGTG-TCACCGACA-TTAAGCCTGCTAGACTTATAGTCTG
1 -ATTCAGATCACCGGCACTT-AGCCTGCTAGGCTTATAGCCTG
* * *
11127328 A--AATGTATCACCGGCA-TTAAGCCTGCTAGACTTATAGTCTG
1 ATTCA-G-ATCACCGGCACTT-AGCCTGCTAGGCTTATAGCCTG
11127369 A
1 A
11127370 ATTATGTCAC
Statistics
Matches: 296, Mismatches: 26, Indels: 12
0.89 0.08 0.04
Matches are distributed among these distances:
39 1 0.00
40 39 0.13
41 254 0.86
42 2 0.01
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (41 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
Found at i:11127269 original size:122 final size:123
Alignment explanation
Indices: 11127007--11127287 Score: 442
Period size: 122 Copynumber: 2.3 Consensus size: 123
11126997 TCATATTCGG
11127007 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
* * *
11127072 TTTATAACCTGATTCAGATCACCGGCGCTTAGCCTGCTAGGTTTATAACCTGATTCAT
66 TTTATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGAATCAT
11127130 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTA-G
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
* * *
11127194 TTTATAACCTGATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGAAAT-GT
66 TTTATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG-AATCAT
* * *
11127252 GTCACCGGCA-TTAAGCCTGCTAGACTTATAGTCTGA
1 ATCACCGGCACTT-AGCCTGCTAGGCTTATAGCCTGA
11127288 AATGTGTCAC
Statistics
Matches: 147, Mismatches: 9, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
121 2 0.01
122 80 0.54
123 65 0.44
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (123 bp):
ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
TTTATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGAATCAT
Found at i:11127312 original size:163 final size:164
Alignment explanation
Indices: 11127001--11127363 Score: 391
Period size: 163 Copynumber: 2.2 Consensus size: 164
11126991 AATTCATCAT
* * *
11127001 ATTCGGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCT
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCGGCACTTAGCCT
* * * ** *
11127066 GCTAGGTTTATAACCTGATTCAGATCACCGGCGCTTAGCCTGCTAGGTTTATAACCTGATTCATA
66 GCTAGGCTTATAACCTGAATCAGATCACCGGCGATTAGCCTGCTAGACTTATAACCTGAATCATA
* *
11127131 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
131 TCACCGACACTTAGCCTGCTAGACTTATAGCCTG
* * *
11127165 ATTCAGATCACCGGCGCTTAGCCTGCTA-GTTTATAACCTGATTCATATCACCGGCACTTAGCCT
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCGGCACTTAGCCT
* ** **
11127229 GCTAGGCTTATAGCCTGAAATGTG-TCACCGGC-ATTAAGCCTGCTAGACTTATAGTCTGAAAT-
66 GCTAGGCTTATAACCTG-AATCAGATCACCGGCGATT-AGCCTGCTAGACTTATAACCTG-AATC
* * *
11127291 GTGTCACCGACA-TTAAGCCTGCTAGACTTATAGTCTG
128 ATATCACCGACACTT-AGCCTGCTAGACTTATAGCCTG
* *
11127328 A--AATGTATCACCGGCA-TTAAGCCTGCTAGACTTATA
1 ATTCA-G-ATCACCGGCACTT-AGCCTGCTAGGCTTATA
11127364 GTCTGAATTA
Statistics
Matches: 165, Mismatches: 26, Indels: 16
0.80 0.13 0.08
Matches are distributed among these distances:
161 1 0.01
162 7 0.04
163 121 0.73
164 36 0.22
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (164 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCGGCACTTAGCCT
GCTAGGCTTATAACCTGAATCAGATCACCGGCGATTAGCCTGCTAGACTTATAACCTGAATCATA
TCACCGACACTTAGCCTGCTAGACTTATAGCCTG
Found at i:11131287 original size:17 final size:17
Alignment explanation
Indices: 11131261--11131300 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
11131251 ATTAAATTAA
*
11131261 TTTA-AATTAATTAATT
1 TTTACAATTAAATAATT
11131277 TTTACAATTAAATAATT
1 TTTACAATTAAATAATT
*
11131294 TTCACAA
1 TTTACAA
11131301 CTAGATTCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.47
Consensus pattern (17 bp):
TTTACAATTAAATAATT
Found at i:11149563 original size:12 final size:11
Alignment explanation
Indices: 11149545--11149578 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
11149535 AATTAATTTG
11149545 AAAGAAAACTA
1 AAAGAAAACTA
11149556 ACAAGAAAACCTA
1 A-AAGAAAA-CTA
11149569 AAAGAAAACT
1 AAAGAAAACT
11149579 TAATAAACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
11 3 0.14
12 14 0.67
13 4 0.19
ACGTcount: A:0.68, C:0.15, G:0.09, T:0.09
Consensus pattern (11 bp):
AAAGAAAACTA
Found at i:11154524 original size:31 final size:31
Alignment explanation
Indices: 11154483--11154543 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
11154473 AAACTAGATG
11154483 GAAAAATTAATGTATGTTAACACTGGTTATA
1 GAAAAATTAATGTATGTTAACACTGGTTATA
*
11154514 GAAAAGTTAATGTATGTTAACACTGGTTAT
1 GAAAAATTAATGTATGTTAACACTGGTTAT
11154544 GCCACATGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.39, C:0.07, G:0.18, T:0.36
Consensus pattern (31 bp):
GAAAAATTAATGTATGTTAACACTGGTTATA
Found at i:11156311 original size:16 final size:16
Alignment explanation
Indices: 11156290--11156321 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
11156280 ATAAATTAAT
*
11156290 TAAAATTTAATCATAA
1 TAAAATTTAAACATAA
11156306 TAAAATTTAAACATAA
1 TAAAATTTAAACATAA
11156322 AACACAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.34
Consensus pattern (16 bp):
TAAAATTTAAACATAA
Found at i:11156524 original size:15 final size:16
Alignment explanation
Indices: 11156488--11156526 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
11156478 ATAATAAAAA
11156488 TATAATATTATCATTTT
1 TATAAT-TTATCATTTT
*
11156505 AATAATTTAT-ATTTT
1 TATAATTTATCATTTT
11156520 TATAATT
1 TATAATT
11156527 AACTTAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 11 0.55
16 4 0.20
17 5 0.25
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (16 bp):
TATAATTTATCATTTT
Found at i:11160035 original size:41 final size:41
Alignment explanation
Indices: 11159976--11160057 Score: 130
Period size: 41 Copynumber: 2.0 Consensus size: 41
11159966 AACCTAATTG
*
11159976 GGAAAATAATTCCGTTATTCTAATAAACTACTAAAAGATAA
1 GGAAAATAATTCCGTTATTCAAATAAACTACTAAAAGATAA
*
11160017 GGAAAATAATTCTC-TTATTCAAATAAACTACTAAAATATAA
1 GGAAAATAATTC-CGTTATTCAAATAAACTACTAAAAGATAA
11160058 AATAAAATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
41 37 0.97
42 1 0.03
ACGTcount: A:0.50, C:0.12, G:0.07, T:0.30
Consensus pattern (41 bp):
GGAAAATAATTCCGTTATTCAAATAAACTACTAAAAGATAA
Found at i:11160119 original size:19 final size:19
Alignment explanation
Indices: 11160095--11160135 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
11160085 TGATTTATTC
11160095 TAAGATTTATCTACCCAAA
1 TAAGATTTATCTACCCAAA
*
11160114 TAAGATTTATCTACCTAAA
1 TAAGATTTATCTACCCAAA
11160133 TAA
1 TAA
11160136 CTTTAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.44, C:0.17, G:0.05, T:0.34
Consensus pattern (19 bp):
TAAGATTTATCTACCCAAA
Found at i:11173568 original size:22 final size:22
Alignment explanation
Indices: 11173529--11173576 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
11173519 AAAATTTATT
**
11173529 CAATCTTATTTATCTATTCTCC
1 CAATCTTATACATCTATTCTCC
* *
11173551 CAATCTTATACATTTATTCTCG
1 CAATCTTATACATCTATTCTCC
11173573 CAAT
1 CAAT
11173577 TTTCTGTACT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.25, G:0.02, T:0.46
Consensus pattern (22 bp):
CAATCTTATACATCTATTCTCC
Found at i:11173636 original size:16 final size:17
Alignment explanation
Indices: 11173615--11173651 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
11173605 TTCATTCAAT
11173615 TTTTGTAAATTT-TTT-A
1 TTTTGT-AATTTCTTTAA
11173631 TTTTGTAATTTCTTTAA
1 TTTTGTAATTTCTTTAA
11173648 TTTT
1 TTTT
11173652 ATTTCATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 5 0.26
16 9 0.47
17 5 0.26
ACGTcount: A:0.22, C:0.03, G:0.05, T:0.70
Consensus pattern (17 bp):
TTTTGTAATTTCTTTAA
Found at i:11180706 original size:23 final size:24
Alignment explanation
Indices: 11180680--11180731 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
11180670 TTGTTTCATT
*
11180680 TCATATCTCAATTTCAT-TCTCAA
1 TCATATCACAATTTCATATCTCAA
* * *
11180703 TCATATGACATTTTCATATCTTAA
1 TCATATCACAATTTCATATCTCAA
11180727 TCATA
1 TCATA
11180732 CATCACTATG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 14 0.58
24 10 0.42
ACGTcount: A:0.33, C:0.21, G:0.02, T:0.44
Consensus pattern (24 bp):
TCATATCACAATTTCATATCTCAA
Found at i:11182861 original size:16 final size:18
Alignment explanation
Indices: 11182829--11182861 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
11182819 TCTTGAAGAT
11182829 TTTATAATGAGGATATTA
1 TTTATAATGAGGATATTA
11182847 TTTA-AATGA-GATATT
1 TTTATAATGAGGATATT
11182862 CGATAATTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 5 0.33
18 4 0.27
ACGTcount: A:0.39, C:0.00, G:0.15, T:0.45
Consensus pattern (18 bp):
TTTATAATGAGGATATTA
Found at i:11185738 original size:9 final size:9
Alignment explanation
Indices: 11185726--11185795 Score: 61
Period size: 9 Copynumber: 7.8 Consensus size: 9
11185716 ATTCAATTAG
11185726 GTTAATTCA
1 GTTAATTCA
11185735 GTTAATTC-
1 GTTAATTCA
*
11185743 GAATAATTCA
1 G-TTAATTCA
**
11185753 GTTAATTTG
1 GTTAATTCA
* *
11185762 GGTAATTCG
1 GTTAATTCA
11185771 GTTAATTCA
1 GTTAATTCA
* *
11185780 GGTAATTCG
1 GTTAATTCA
11185789 GTTAATT
1 GTTAATT
11185796 TGGTTAATTT
Statistics
Matches: 48, Mismatches: 11, Indels: 4
0.76 0.17 0.06
Matches are distributed among these distances:
8 1 0.02
9 46 0.96
10 1 0.02
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.43
Consensus pattern (9 bp):
GTTAATTCA
Found at i:11185756 original size:27 final size:27
Alignment explanation
Indices: 11185726--11185795 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
11185716 ATTCAATTAG
*
11185726 GTTAATTCAGTTAATTCGAATAATTCA
1 GTTAATTCGGTTAATTCGAATAATTCA
* * **
11185753 GTTAATTTGGGTAATTCGGTTAATTCA
1 GTTAATTCGGTTAATTCGAATAATTCA
*
11185780 GGTAATTCGGTTAATT
1 GTTAATTCGGTTAATT
11185796 TGGTTAATTT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.43
Consensus pattern (27 bp):
GTTAATTCGGTTAATTCGAATAATTCA
Found at i:11185800 original size:9 final size:9
Alignment explanation
Indices: 11185753--11185805 Score: 54
Period size: 9 Copynumber: 5.9 Consensus size: 9
11185743 GAATAATTCA
11185753 GTTAATTTG
1 GTTAATTTG
* *
11185762 GGTAATTCG
1 GTTAATTTG
*
11185771 GTTAATTCAG
1 GTTAATT-TG
*
11185781 G-TAATTCG
1 GTTAATTTG
11185789 GTTAATTTG
1 GTTAATTTG
11185798 GTTAATTT
1 GTTAATTT
11185806 TTAACCAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
8 2 0.06
9 32 0.89
10 2 0.06
ACGTcount: A:0.25, C:0.06, G:0.23, T:0.47
Consensus pattern (9 bp):
GTTAATTTG
Found at i:11185803 original size:18 final size:18
Alignment explanation
Indices: 11185720--11185804 Score: 82
Period size: 18 Copynumber: 4.7 Consensus size: 18
11185710 TGTGTGATTC
11185720 AATTAGGTTAATTCAGTT
1 AATTAGGTTAATTCAGTT
* **
11185738 AATTCGAATAATTCAGTT
1 AATTAGGTTAATTCAGTT
* * *
11185756 AATTTGGGTAATTCGGTT
1 AATTAGGTTAATTCAGTT
*
11185774 AATTCAGG-TAATTCGGTT
1 AATT-AGGTTAATTCAGTT
*
11185792 AATTTGGTTAATT
1 AATTAGGTTAATT
11185805 TTTAACCAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
17 2 0.04
18 52 0.93
19 2 0.04
ACGTcount: A:0.31, C:0.07, G:0.19, T:0.44
Consensus pattern (18 bp):
AATTAGGTTAATTCAGTT
Found at i:11185951 original size:9 final size:9
Alignment explanation
Indices: 11185937--11185963 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
11185927 TTTTGAAAGG
11185937 TCGGTTAAT
1 TCGGTTAAT
11185946 TCGGTTAAT
1 TCGGTTAAT
11185955 TCGGTTAAT
1 TCGGTTAAT
11185964 GCTATTTCGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.11, G:0.22, T:0.44
Consensus pattern (9 bp):
TCGGTTAAT
Found at i:11188128 original size:26 final size:28
Alignment explanation
Indices: 11188099--11188156 Score: 68
Period size: 25 Copynumber: 2.2 Consensus size: 28
11188089 CGTATAGATT
*
11188099 ATAAAAAAATAATTACA-TATA-AAAAA
1 ATAAAAAAATAAATACATTATATAAAAA
* *
11188125 AT-AACAAATAAATACATTATATTAAAA
1 ATAAAAAAATAAATACATTATATAAAAA
11188152 ATAAA
1 ATAAA
11188157 TATTCTTATG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 12 0.46
26 6 0.23
27 6 0.23
28 2 0.08
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (28 bp):
ATAAAAAAATAAATACATTATATAAAAA
Found at i:11188133 original size:25 final size:27
Alignment explanation
Indices: 11188105--11188155 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 27
11188095 GATTATAAAA
*
11188105 AAATAATTACA-TATA-AAAAAATAAC
1 AAATAAATACATTATATAAAAAATAAC
*
11188130 AAATAAATACATTATATTAAAAATAA
1 AAATAAATACATTATATAAAAAATAA
11188156 ATATTCTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 10 0.45
26 4 0.18
27 8 0.36
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (27 bp):
AAATAAATACATTATATAAAAAATAAC
Found at i:11188240 original size:16 final size:15
Alignment explanation
Indices: 11188211--11188253 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 15
11188201 ATAGATTTAA
*
11188211 AAAAATAATTAAATAT
1 AAAAAT-ATAAAATAT
11188227 GAAAAATATAAAATAT
1 -AAAAATATAAAATAT
11188243 -AAAATATAAAA
1 AAAAATATAAAA
11188254 AATTACTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 11 0.44
16 8 0.32
17 6 0.24
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (15 bp):
AAAAATATAAAATAT
Found at i:11188241 original size:7 final size:7
Alignment explanation
Indices: 11188229--11188253 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
11188219 TTAAATATGA
11188229 AAAATAT
1 AAAATAT
11188236 AAAATAT
1 AAAATAT
11188243 AAAATAT
1 AAAATAT
11188250 AAAA
1 AAAA
11188254 AATTACTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (7 bp):
AAAATAT
Found at i:11194215 original size:50 final size:51
Alignment explanation
Indices: 11194159--11194257 Score: 132
Period size: 51 Copynumber: 2.0 Consensus size: 51
11194149 AGCGAACAAA
* *
11194159 TATATTTATAT-TAAATA-TAAGATCTAAAC-AAAAAAATATAAATAAATACT
1 TATATTTATATCAAAACACTAA-ATCTAAACAAAAAAAAT-TAAATAAATACT
*
11194209 TATATTTATGTCAAAACACTAAATCTAAACAAAAAAAATTAAATAAATA
1 TATATTTATATCAAAACACTAAATCTAAACAAAAAAAATTAAATAAATA
11194258 TACTTATTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
50 10 0.23
51 22 0.51
52 11 0.26
ACGTcount: A:0.59, C:0.08, G:0.02, T:0.31
Consensus pattern (51 bp):
TATATTTATATCAAAACACTAAATCTAAACAAAAAAAATTAAATAAATACT
Found at i:11198016 original size:19 final size:20
Alignment explanation
Indices: 11197957--11198022 Score: 59
Period size: 19 Copynumber: 3.5 Consensus size: 20
11197947 AACTATGAAG
*
11197957 TAAA-AAAACACTCTTAATT
1 TAAAGAAAACACACTTAATT
* *
11197976 TAAAGAAAATAGA-TGTAA-T
1 TAAAGAAAACACACT-TAATT
11197995 TAAA-AAAACACACTTAATT
1 TAAAGAAAACACACTTAATT
*
11198014 TAAATAAAA
1 TAAAGAAAA
11198023 TAAACATAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
18 9 0.24
19 16 0.43
20 12 0.32
ACGTcount: A:0.59, C:0.09, G:0.05, T:0.27
Consensus pattern (20 bp):
TAAAGAAAACACACTTAATT
Found at i:11198033 original size:38 final size:38
Alignment explanation
Indices: 11197938--11198034 Score: 115
Period size: 38 Copynumber: 2.5 Consensus size: 38
11197928 AAAAATAATA
* *
11197938 AAAT-AAATAAACTATGAAGTAAAAAAACACTCTTAATTT
1 AAATAAAATAAAC-AT-AATTAAAAAAACACACTTAATTT
* * **
11197977 AAAGAAAATAGATGTAATTAAAAAAACACACTTAATTT
1 AAATAAAATAAACATAATTAAAAAAACACACTTAATTT
11198015 AAATAAAATAAACATAATTA
1 AAATAAAATAAACATAATTA
11198035 TCTAAAAAAA
Statistics
Matches: 47, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
38 37 0.79
39 4 0.09
40 6 0.13
ACGTcount: A:0.60, C:0.08, G:0.05, T:0.27
Consensus pattern (38 bp):
AAATAAAATAAACATAATTAAAAAAACACACTTAATTT
Found at i:11207223 original size:26 final size:26
Alignment explanation
Indices: 11207187--11207237 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
11207177 TGATCAGTGG
11207187 CACGTCTATTAATAAATGAAAAGATT
1 CACGTCTATTAATAAATGAAAAGATT
*
11207213 CACGTCTATTAATAAATGGAAAGAT
1 CACGTCTATTAATAAATGAAAAGAT
11207238 CCATGGCTGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.29
Consensus pattern (26 bp):
CACGTCTATTAATAAATGAAAAGATT
Found at i:11213802 original size:72 final size:72
Alignment explanation
Indices: 11213680--11213818 Score: 251
Period size: 72 Copynumber: 1.9 Consensus size: 72
11213670 GCGTTGCGCA
*
11213680 TATAGGCCTCAAAATTATGGGCCGCATGATGGGATTGATGGTACTGTTGGGCCGAATGGTGGTGT
1 TATAGGCCTCAAAATTATGGGCCGCATGATGGGATTAATGGTACTGTTGGGCCGAATGGTGGTGT
11213745 TGTTGGT
66 TGTTGGT
* *
11213752 TATAGGCCTCAAAGTTATGGGCCGCATGATGGGATTAATGGTACTTTTGGGCCGAATGGTGGTGT
1 TATAGGCCTCAAAATTATGGGCCGCATGATGGGATTAATGGTACTGTTGGGCCGAATGGTGGTGT
11213817 TG
66 TG
11213819 GGCCGAAGGA
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
72 64 1.00
ACGTcount: A:0.20, C:0.13, G:0.35, T:0.32
Consensus pattern (72 bp):
TATAGGCCTCAAAATTATGGGCCGCATGATGGGATTAATGGTACTGTTGGGCCGAATGGTGGTGT
TGTTGGT
Found at i:11213832 original size:18 final size:18
Alignment explanation
Indices: 11213798--11213840 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
11213788 AATGGTACTT
*
11213798 TTGGGCCGAATGGTGGTG
1 TTGGGCCGAATGGTGGTA
11213816 TTGGGCCGAA-GGATGGTA
1 TTGGGCCGAATGG-TGGTA
11213834 TTGGGCC
1 TTGGGCC
11213841 AAATAATGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 2 0.09
18 21 0.91
ACGTcount: A:0.14, C:0.14, G:0.47, T:0.26
Consensus pattern (18 bp):
TTGGGCCGAATGGTGGTA
Found at i:11218807 original size:13 final size:13
Alignment explanation
Indices: 11218786--11218836 Score: 57
Period size: 13 Copynumber: 3.9 Consensus size: 13
11218776 ACACTCAAAT
11218786 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
* * *
11218799 TTCTCAAAAGTAA
1 TTTTCAAAAGCAC
* *
11218812 TTTTCCACAGCAC
1 TTTTCAAAAGCAC
11218825 TTTTCAAAAGCA
1 TTTTCAAAAGCA
11218837 ATGAAAAACT
Statistics
Matches: 28, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.37, C:0.24, G:0.08, T:0.31
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:11224403 original size:20 final size:20
Alignment explanation
Indices: 11224378--11224417 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
11224368 TGCCTAGGCT
11224378 ATGTGGAGGTCTACACGCCC
1 ATGTGGAGGTCTACACGCCC
*
11224398 ATGTGGTGGTCTACACGCCC
1 ATGTGGAGGTCTACACGCCC
11224418 GTGTAGAGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.17, C:0.30, G:0.30, T:0.23
Consensus pattern (20 bp):
ATGTGGAGGTCTACACGCCC
Found at i:11228137 original size:27 final size:25
Alignment explanation
Indices: 11228102--11228166 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 25
11228092 AATAGAGCAC
11228102 ATAATCGGGAAGCACACTCTCGAGCCAT
1 ATAA-CGGGAAGCACA-TCT-GAGCCAT
* *
11228130 ATAACGGGAAGCTCATGTGAGCCAT
1 ATAACGGGAAGCACATCTGAGCCAT
* *
11228155 GTAACAGGAAGC
1 ATAACGGGAAGC
11228167 TTATCCGGGC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
25 17 0.52
26 2 0.06
27 10 0.30
28 4 0.12
ACGTcount: A:0.34, C:0.23, G:0.26, T:0.17
Consensus pattern (25 bp):
ATAACGGGAAGCACATCTGAGCCAT
Found at i:11228247 original size:25 final size:25
Alignment explanation
Indices: 11228213--11228264 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
11228203 TATAATGGGT
11228213 AGCTCCGAATAGCCATCA-ATCGAGA
1 AGCTCCGAATAGCCAT-ATATCGAGA
11228238 AGCTCCGAATAGCCATATATCGAGA
1 AGCTCCGAATAGCCATATATCGAGA
11228263 AG
1 AG
11228265 TTCAAGCAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 1 0.04
25 25 0.96
ACGTcount: A:0.37, C:0.25, G:0.21, T:0.17
Consensus pattern (25 bp):
AGCTCCGAATAGCCATATATCGAGA
Found at i:11230123 original size:21 final size:21
Alignment explanation
Indices: 11230097--11230139 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
11230087 ACAATTGTTG
11230097 AAATGACCAATATATGGTATA
1 AAATGACCAATATATGGTATA
11230118 AAATGACCAATATATGGTATA
1 AAATGACCAATATATGGTATA
11230139 A
1 A
11230140 GAAAGTTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.49, C:0.09, G:0.14, T:0.28
Consensus pattern (21 bp):
AAATGACCAATATATGGTATA
Found at i:11231763 original size:21 final size:21
Alignment explanation
Indices: 11231695--11231806 Score: 71
Period size: 21 Copynumber: 5.3 Consensus size: 21
11231685 AAGCCCGAAG
* * *
11231695 GCTGCACAGAAGCACATAAGT
1 GCTGAACAGAAGCTCATAAGA
* * * * *
11231716 GCTAAATAGAAACTCGTAAGG
1 GCTGAACAGAAGCTCATAAGA
*
11231737 GTTGAACAGAAGCTCATAAGA
1 GCTGAACAGAAGCTCATAAGA
** * *
11231758 GCTGAAGGGAAACCCATAAGA
1 GCTGAACAGAAGCTCATAAGA
* * * *
11231779 GTTAAACTGAAGCTCAAAAGA
1 GCTGAACAGAAGCTCATAAGA
11231800 GCTGAAC
1 GCTGAAC
11231807 GAAAACCCAT
Statistics
Matches: 64, Mismatches: 27, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
21 64 1.00
ACGTcount: A:0.42, C:0.18, G:0.24, T:0.16
Consensus pattern (21 bp):
GCTGAACAGAAGCTCATAAGA
Found at i:11231770 original size:42 final size:42
Alignment explanation
Indices: 11231700--11231838 Score: 143
Period size: 42 Copynumber: 3.3 Consensus size: 42
11231690 CGAAGGCTGC
* * * ** * * *
11231700 ACAGAAGCACATAAGTGCTAAATAGAAACTCGTAAGGGTTGA
1 ACAGAAGCTCATAAGAGCTGAACGGAAACCCATAAGGGTTAA
* *
11231742 ACAGAAGCTCATAAGAGCTGAAGGGAAACCCATAAGAGTTAA
1 ACAGAAGCTCATAAGAGCTGAACGGAAACCCATAAGGGTTAA
* * * *
11231784 ACTGAAGCTCAAAAGAGCTGAACGAAAACCCATTAGGGTTAA
1 ACAGAAGCTCATAAGAGCTGAACGGAAACCCATAAGGGTTAA
*
11231826 ACAGAAACTCATA
1 ACAGAAGCTCATA
11231839 TGAGTTAAGA
Statistics
Matches: 79, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 79 1.00
ACGTcount: A:0.45, C:0.17, G:0.22, T:0.17
Consensus pattern (42 bp):
ACAGAAGCTCATAAGAGCTGAACGGAAACCCATAAGGGTTAA
Found at i:11236452 original size:25 final size:25
Alignment explanation
Indices: 11236421--11236472 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
11236411 ATCTGTGGAT
11236421 ATCAGAATCCGCAATCTGAATTGTC
1 ATCAGAATCCGCAATCTGAATTGTC
11236446 ATCAGAATCCGCAATCTGAATTGTC
1 ATCAGAATCCGCAATCTGAATTGTC
11236471 AT
1 AT
11236473 TCCTACCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (25 bp):
ATCAGAATCCGCAATCTGAATTGTC
Found at i:11256364 original size:16 final size:16
Alignment explanation
Indices: 11256343--11256374 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
11256333 ATAATATTAT
11256343 TTTAATAAATTTAATA
1 TTTAATAAATTTAATA
*
11256359 TTTAATTAATTTAATA
1 TTTAATAAATTTAATA
11256375 CTTATCATGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTAATAAATTTAATA
Found at i:11257451 original size:10 final size:9
Alignment explanation
Indices: 11257436--11257475 Score: 53
Period size: 10 Copynumber: 4.1 Consensus size: 9
11257426 ATATATTTTT
11257436 TTTATAATTA
1 TTTAT-ATTA
11257446 TTTATAATTA
1 TTTAT-ATTA
11257456 TTTATATTA
1 TTTATATTA
11257465 TGTTATATTA
1 T-TTATATTA
11257475 T
1 T
11257476 AACTTTGATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
9 5 0.17
10 24 0.83
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (9 bp):
TTTATATTA
Found at i:11257464 original size:19 final size:20
Alignment explanation
Indices: 11257436--11257475 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
11257426 ATATATTTTT
11257436 TTTATAATTAT-TTATAATTA
1 TTTAT-ATTATGTTATAATTA
11257456 TTTATATTATGTTAT-ATTA
1 TTTATATTATGTTATAATTA
11257475 T
1 T
11257476 AACTTTGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (20 bp):
TTTATATTATGTTATAATTA
Found at i:11269163 original size:14 final size:14
Alignment explanation
Indices: 11269144--11269175 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
11269134 GATTTTTAAA
11269144 TTTTGTCTAATTAT
1 TTTTGTCTAATTAT
*
11269158 TTTTGTTTAATTAT
1 TTTTGTCTAATTAT
11269172 TTTT
1 TTTT
11269176 AATTTTCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.03, G:0.06, T:0.72
Consensus pattern (14 bp):
TTTTGTCTAATTAT
Found at i:11272927 original size:20 final size:20
Alignment explanation
Indices: 11272902--11272943 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
11272892 TATTTATCAA
11272902 TATAAATATTACATTAAATT
1 TATAAATATTACATTAAATT
*
11272922 TATAAATATTAGATTAAATT
1 TATAAATATTACATTAAATT
11272942 TA
1 TA
11272944 ATATTAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (20 bp):
TATAAATATTACATTAAATT
Found at i:11273033 original size:37 final size:35
Alignment explanation
Indices: 11272991--11273098 Score: 103
Period size: 37 Copynumber: 3.0 Consensus size: 35
11272981 CAAGATAAAC
*
11272991 ATTAAATTAA-ATTAAATATTAATATAATCACTTTAA
1 ATTAAATTAATATTAAATATTAAAATAATCA--TTAA
** * *
11273027 TATTAAATTAATAAAATAATATTAAGATAATTATTAA
1 -ATTAAATTAATATTA-AATATTAAAATAATCATTAA
11273064 ATTAAATTTAATATTAAACTATTAAAATAAT-ATTA
1 ATTAAA-TTAATATTAAA-TATTAAAATAATCATTA
11273099 TTTTTGGAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
36 12 0.20
37 32 0.53
38 2 0.03
39 14 0.23
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.42
Consensus pattern (35 bp):
ATTAAATTAATATTAAATATTAAAATAATCATTAA
Found at i:11273039 original size:11 final size:11
Alignment explanation
Indices: 11273023--11273098 Score: 54
Period size: 11 Copynumber: 6.8 Consensus size: 11
11273013 TATAATCACT
11273023 TTAATATTAAA
1 TTAATATTAAA
11273034 TTAATA--AAA
1 TTAATATTAAA
11273043 -TAATATTAAGA
1 TTAATATTAA-A
11273054 -TAATTATTAAA
1 TTAA-TATTAAA
11273065 TTAA-ATTTAATA
1 TTAATA-TTAA-A
11273077 TTAAACTATTAAA
1 TT-AA-TATTAAA
*
11273090 ATAATATTA
1 TTAATATTA
11273099 TTTTTGGAAT
Statistics
Matches: 54, Mismatches: 1, Indels: 20
0.72 0.01 0.27
Matches are distributed among these distances:
8 5 0.09
9 3 0.06
10 3 0.06
11 20 0.37
12 14 0.26
13 4 0.07
14 4 0.07
15 1 0.02
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:11273347 original size:17 final size:17
Alignment explanation
Indices: 11273309--11273348 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
11273299 CGACCCAACT
* *
11273309 GGTTTGGTCTAGCCACT
1 GGTTGGGTCTAGCCACC
*
11273326 AGTTGGGTCTAGCCACC
1 GGTTGGGTCTAGCCACC
11273343 GGTTGG
1 GGTTGG
11273349 ACCTTTGACC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.12, C:0.23, G:0.35, T:0.30
Consensus pattern (17 bp):
GGTTGGGTCTAGCCACC
Found at i:11282003 original size:37 final size:37
Alignment explanation
Indices: 11281955--11282376 Score: 267
Period size: 37 Copynumber: 11.3 Consensus size: 37
11281945 AAAAAATGAA
* * * *
11281955 TACTGAATATACTGAACGTGCTCAAAAGAACAATGTC
1 TACTGATTATACTGAATGTGCTCAAAAGAGCAATATC
* * *
11281992 TACTGATTATACTGAAAGTTGCTCAAACGAGCGATATC
1 TACTGATTATACTGAATG-TGCTCAAAAGAGCAATATC
* * * * *
11282030 CACTGATTATACTAAATGGGCTCGAACAA-A-AAATGTC
1 TACTGATTATACTGAATGTGCTC-AA-AAGAGCAATATC
* * * *
11282067 TACTGATTATATTGAATGTGCTTAAATGAACAATATC
1 TACTGATTATACTGAATGTGCTCAAAAGAGCAATATC
* * * * *
11282104 TACTGA-AACTACTGAATGTGCTCAAAATAGTAATGTA
1 TACTGATTA-TACTGAATGTGCTCAAAAGAGCAATATC
* * * * *
11282141 TACTGATTATATTGAAAGTTGCTCAGACGAGCGATATC
1 TACTGATTATACTGAATG-TGCTCAAAAGAGCAATATC
* * *
11282179 CACTGATTATACTGAATGGGCTCAAATGAGCAATATC
1 TACTGATTATACTGAATGTGCTCAAAAGAGCAATATC
* * * * * *
11282216 TAATGAATATACTGAACGTGCTCAAAAGATCAATGTG
1 TACTGATTATACTGAATGTGCTCAAAAGAGCAATATC
* * * * * * **
11282253 TATTAATTATATTGAAAGTTTCTCAAACGAGTGATATC
1 TACTGATTATACTGAATG-TGCTCAAAAGAGCAATATC
* * * *
11282291 TACTTATTATACTAAATGGGCTCAAACA-AGCGATATC
1 TACTGATTATACTGAATGTGCTCAAA-AGAGCAATATC
* * * *
11282328 TACTGATTATACGGAATACATGCTCAAACGAGCATTATC
1 TACTGATTATACTGAAT--GTGCTCAAAAGAGCAATATC
*
11282367 CACTGATTAT
1 TACTGATTAT
11282377 GCGAAATGAG
Statistics
Matches: 285, Mismatches: 87, Indels: 24
0.72 0.22 0.06
Matches are distributed among these distances:
35 1 0.00
36 4 0.01
37 170 0.60
38 86 0.30
39 24 0.08
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.30
Consensus pattern (37 bp):
TACTGATTATACTGAATGTGCTCAAAAGAGCAATATC
Found at i:11282065 original size:75 final size:75
Alignment explanation
Indices: 11281956--11282204 Score: 274
Period size: 75 Copynumber: 3.3 Consensus size: 75
11281946 AAAAATGAAT
* * * * *
11281956 ACTGAATATACTGAACGTGCTCAAAAGA-ACAATGTCTACTGATTATACTGAAAGTTGCTCAAAC
1 ACTGATTATACTGAATGGGCTCAAAATAGA-AATGTCTACTGATTATATTGAAAGTTGCTCAAAC
11282020 GAGCGATATCC
65 GAGCGATATCC
* * *
11282031 ACTGATTATACTAAATGGGCTCGAACAA-A-AAATGTCTACTGATTATATTGAATG-TGCTTAAA
1 ACTGATTATACTGAATGGGCTC-AA-AATAGAAATGTCTACTGATTATATTGAAAGTTGCTCAAA
* * * *
11282093 TGAACAATATCT
64 CGAGCGATATCC
* * * * *
11282105 ACTGA-AACTACTGAATGTGCTCAAAATAGTAATGTATACTGATTATATTGAAAGTTGCTCAGAC
1 ACTGATTA-TACTGAATGGGCTCAAAATAGAAATGTCTACTGATTATATTGAAAGTTGCTCAAAC
11282169 GAGCGATATCC
65 GAGCGATATCC
11282180 ACTGATTATACTGAATGGGCTCAAA
1 ACTGATTATACTGAATGGGCTCAAA
11282205 TGAGCAATAT
Statistics
Matches: 142, Mismatches: 25, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
72 2 0.01
73 4 0.03
74 54 0.38
75 75 0.53
76 5 0.04
77 2 0.01
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.29
Consensus pattern (75 bp):
ACTGATTATACTGAATGGGCTCAAAATAGAAATGTCTACTGATTATATTGAAAGTTGCTCAAACG
AGCGATATCC
Found at i:11282184 original size:112 final size:112
Alignment explanation
Indices: 11282068--11282316 Score: 322
Period size: 112 Copynumber: 2.2 Consensus size: 112
11282058 AAAAATGTCT
* * * * * *
11282068 ACTGATTATATTGAATGTGCTTAAATGAACAATATCTACTGAA-ACTACTGAATGTGCTCAAAAT
1 ACTGATTATACTGAATGGGCTCAAATGAACAATATCTAATGAATA-TACTGAACGTGCTCAAAAG
* *
11282132 AGT-AATGTATACTGATTATATTGAAAGTTGCTCAGACGAGCGATATCC
65 A-TCAATGTATACTAATTATATTGAAAGTTGCTCAAACGAGCGATATCC
*
11282180 ACTGATTATACTGAATGGGCTCAAATGAGCAATATCTAATGAATATACTGAACGTGCTCAAAAGA
1 ACTGATTATACTGAATGGGCTCAAATGAACAATATCTAATGAATATACTGAACGTGCTCAAAAGA
* * * * *
11282245 TCAATGTGTATTAATTATATTGAAAGTTTCTCAAACGAGTGATATCT
66 TCAATGTATACTAATTATATTGAAAGTTGCTCAAACGAGCGATATCC
* *
11282292 ACTTATTATACTAAATGGGCTCAAA
1 ACTGATTATACTGAATGGGCTCAAA
11282317 CAAGCGATAT
Statistics
Matches: 119, Mismatches: 16, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
111 1 0.01
112 117 0.98
113 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.32
Consensus pattern (112 bp):
ACTGATTATACTGAATGGGCTCAAATGAACAATATCTAATGAATATACTGAACGTGCTCAAAAGA
TCAATGTATACTAATTATATTGAAAGTTGCTCAAACGAGCGATATCC
Found at i:11282237 original size:149 final size:149
Alignment explanation
Indices: 11281955--11282237 Score: 388
Period size: 149 Copynumber: 1.9 Consensus size: 149
11281945 AAAAAATGAA
*
11281955 TACTGAATATACTGAACGTGCTCAAAAGAACAATGTCTACTGATTATACTGAAAGTTGCTCAAAC
1 TACTGAATATACTGAACGTGCTCAAAAGAACAATGTATACTGATTATACTGAAAGTTGCTCAAAC
* * * * * *
11282020 GAGCGATATCCACTGATTATACTAAATGGGCTCGAACAAAAAATGTCTACTGATTATATTGAATG
66 GAGCGATATCCACTGATTATACTAAATGGGCTCAAACAAAAAATATCTAATGAATATACTGAACG
11282085 TGCTTAAATGAACAATATC
131 TGCTTAAATGAACAATATC
* * ** * *
11282104 TACTGAA-ACTACTGAATGTGCTCAAAATAGTAATGTATACTGATTATATTGAAAGTTGCTCAGA
1 TACTGAATA-TACTGAACGTGCTCAAAAGAACAATGTATACTGATTATACTGAAAGTTGCTCAAA
* ** **
11282168 CGAGCGATATCCACTGATTATACTGAATGGGCTCAAATGAGCAATATCTAATGAATATACTGAAC
65 CGAGCGATATCCACTGATTATACTAAATGGGCTCAAACAAAAAATATCTAATGAATATACTGAAC
11282233 GTGCT
130 GTGCT
11282238 CAAAAGATCA
Statistics
Matches: 115, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
148 1 0.01
149 114 0.99
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.29
Consensus pattern (149 bp):
TACTGAATATACTGAACGTGCTCAAAAGAACAATGTATACTGATTATACTGAAAGTTGCTCAAAC
GAGCGATATCCACTGATTATACTAAATGGGCTCAAACAAAAAATATCTAATGAATATACTGAACG
TGCTTAAATGAACAATATC
Found at i:11285759 original size:17 final size:16
Alignment explanation
Indices: 11285732--11285763 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
11285722 CTAGCTTAAG
11285732 TACATTTTATTTTCTT
1 TACATTTTATTTTCTT
11285748 TACATGTTTATTTTCT
1 TACAT-TTTATTTTCT
11285764 GTTTTTAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.19, C:0.12, G:0.03, T:0.66
Consensus pattern (16 bp):
TACATTTTATTTTCTT
Found at i:11290084 original size:18 final size:17
Alignment explanation
Indices: 11290056--11290090 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11290046 ATTATTAAGA
*
11290056 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
11290073 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
11290091 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:11290228 original size:18 final size:17
Alignment explanation
Indices: 11290200--11290234 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11290190 ATTATTAACC
*
11290200 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
11290217 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
11290235 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:11290445 original size:44 final size:45
Alignment explanation
Indices: 11290396--11290490 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
11290386 TTACACCTCT
* *
11290396 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
11290440 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
11290485 ATTACA
1 ATTACA
11290491 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:11290490 original size:16 final size:16
Alignment explanation
Indices: 11290469--11290501 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
11290459 TTGATTTGCT
*
11290469 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
11290485 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
11290501 A
1 A
11290502 ATCCAATACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.36, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:11290511 original size:21 final size:21
Alignment explanation
Indices: 11290482--11290524 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
11290472 ACACCTCTAT
*
11290482 TCCATTACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
11290503 TCCAATACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
11290524 T
1 T
11290525 ACAGCGAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (21 bp):
TCCAATACACCTCTAATCCAA
Found at i:11302484 original size:13 final size:13
Alignment explanation
Indices: 11302455--11302502 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
11302445 AATGGCATAG
11302455 AAATAATATAAAC-
1 AAATAA-ATAAACA
11302468 AAATAAATAAACA
1 AAATAAATAAACA
* *
11302481 AAATTAATATACA
1 AAATAAATAAACA
11302494 AAA-AAATAA
1 AAATAAATAA
11302503 TAATCCATGA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
12 10 0.33
13 20 0.67
ACGTcount: A:0.73, C:0.06, G:0.00, T:0.21
Consensus pattern (13 bp):
AAATAAATAAACA
Found at i:11311362 original size:15 final size:14
Alignment explanation
Indices: 11311336--11311366 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
11311326 GAATGCGCAC
11311336 CACACACAATCACT
1 CACACACAATCACT
11311350 CACACACCAATCACT
1 CACACA-CAATCACT
11311365 CA
1 CA
11311367 GAACTAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.42, C:0.45, G:0.00, T:0.13
Consensus pattern (14 bp):
CACACACAATCACT
Found at i:11312679 original size:19 final size:19
Alignment explanation
Indices: 11312647--11312692 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
11312637 TCTCTCCCCC
11312647 AACTAAAATAAAAAAAATA
1 AACTAAAATAAAAAAAATA
*
11312666 AACTAGAAAT-AAAATAATA
1 AACTA-AAATAAAAAAAATA
11312685 AAC-AAAAT
1 AACTAAAAT
11312693 CTATTATACT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 4 0.16
18 1 0.04
19 16 0.64
20 4 0.16
ACGTcount: A:0.74, C:0.07, G:0.02, T:0.17
Consensus pattern (19 bp):
AACTAAAATAAAAAAAATA
Found at i:11313284 original size:35 final size:35
Alignment explanation
Indices: 11313234--11313409 Score: 228
Period size: 35 Copynumber: 5.1 Consensus size: 35
11313224 AAACACACCA
* * * *
11313234 AATGCTTACAAGAGCTAGTCCAATCAAAACACGCC
1 AATGCTCATAAGAGCTAGTCCAACCAAAACATGCC
*
11313269 AATACTCATAAGAGCTAGTCCAACCAAAA-ATGCC
1 AATGCTCATAAGAGCTAGTCCAACCAAAACATGCC
* * *
11313303 AATGCGCATAAGATCTAGTCCAGCCAAAACATGCC
1 AATGCTCATAAGAGCTAGTCCAACCAAAACATGCC
* * * *
11313338 AATGCTCATAAGAGCTTGTCCAGCCGAAACACGCC
1 AATGCTCATAAGAGCTAGTCCAACCAAAACATGCC
*
11313373 AATGCTCATAAGAGCTAGTCCAACCGAAACATGCC
1 AATGCTCATAAGAGCTAGTCCAACCAAAACATGCC
11313408 AA
1 AA
11313410 ACATAGAGTA
Statistics
Matches: 123, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
34 29 0.24
35 94 0.76
ACGTcount: A:0.39, C:0.28, G:0.16, T:0.17
Consensus pattern (35 bp):
AATGCTCATAAGAGCTAGTCCAACCAAAACATGCC
Found at i:11313331 original size:69 final size:70
Alignment explanation
Indices: 11313243--11313409 Score: 228
Period size: 69 Copynumber: 2.4 Consensus size: 70
11313233 AAATGCTTAC
* * *
11313243 AAGAGCTAGTCCAATCAAAACACGCCAATACTCATAAGAGCTAGTCCAACC-AAAAATGCCAATG
1 AAGAGCTAGTCCAACCAAAACATGCCAATACTCATAAGAGCTAGTCCAACCGAAAAACGCCAATG
11313307 CGCAT
66 CGCAT
* * * * * *
11313312 AAGATCTAGTCCAGCCAAAACATGCCAATGCTCATAAGAGCTTGTCCAGCCGAAACACGCCAATG
1 AAGAGCTAGTCCAACCAAAACATGCCAATACTCATAAGAGCTAGTCCAACCGAAAAACGCCAATG
*
11313377 CTCAT
66 CGCAT
*
11313382 AAGAGCTAGTCCAACCGAAACATGCCAA
1 AAGAGCTAGTCCAACCAAAACATGCCAA
11313410 ACATAGAGTA
Statistics
Matches: 84, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
69 44 0.52
70 40 0.48
ACGTcount: A:0.39, C:0.29, G:0.16, T:0.16
Consensus pattern (70 bp):
AAGAGCTAGTCCAACCAAAACATGCCAATACTCATAAGAGCTAGTCCAACCGAAAAACGCCAATG
CGCAT
Found at i:11319157 original size:11 final size:11
Alignment explanation
Indices: 11319124--11319150 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
11319114 ATGCATGTTT
11319124 TGAAATGAAAA
1 TGAAATGAAAA
11319135 TGAAATGAAAA
1 TGAAATGAAAA
11319146 TGAAA
1 TGAAA
11319151 AGGAAATCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.63, C:0.00, G:0.19, T:0.19
Consensus pattern (11 bp):
TGAAATGAAAA
Found at i:11324413 original size:45 final size:44
Alignment explanation
Indices: 11324268--11324414 Score: 127
Period size: 45 Copynumber: 3.3 Consensus size: 44
11324258 TATCGTTGGA
* * * * *
11324268 AATAT-AGGTGGATGCTATGTGTTGATTCCACCCGA-AATTAATG
1 AATATAAGGTGGTTGCTATGTGCTGATTTCA-CCGAGTACTAATG
* * * * * *
11324311 AAAATAAAGGTGGTTGCTATGTCCTTATTTCACCCAGTACCATTG
1 AATAT-AAGGTGGTTGCTATGTGCTGATTTCACCGAGTACTAATG
*
11324356 AGTATACAGGTGGTTGCTATGTGCTGATTTCACCGAGTACTAATG
1 AATATA-AGGTGGTTGCTATGTGCTGATTTCACCGAGTACTAATG
*
11324401 ACTATAAGGGTGGT
1 AATATAA-GGTGGT
11324415 GCTGAGTGCT
Statistics
Matches: 80, Mismatches: 19, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
43 4 0.05
44 5 0.06
45 71 0.89
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.33
Consensus pattern (44 bp):
AATATAAGGTGGTTGCTATGTGCTGATTTCACCGAGTACTAATG
Found at i:11331190 original size:39 final size:37
Alignment explanation
Indices: 11331147--11331219 Score: 94
Period size: 39 Copynumber: 1.9 Consensus size: 37
11331137 TTCTATCTAC
*
11331147 TATTATATTAT-ATATTATTATATTATTATAATATTATAA
1 TATTATAATATAAT-TTATTATATTATT-TAA-ATTATAA
*
11331186 TATTATAATATAATTTATTATTTTATTTAAATTA
1 TATTATAATATAATTTATTATATTATTTAAATTA
11331220 ATATTTCTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
37 4 0.13
38 3 0.10
39 22 0.71
40 2 0.06
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (37 bp):
TATTATAATATAATTTATTATATTATTTAAATTATAA
Found at i:11344435 original size:19 final size:19
Alignment explanation
Indices: 11344411--11344454 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
11344401 TAAAAGTAAC
11344411 ACAACATCAACCCAAATAA
1 ACAACATCAACCCAAATAA
* **
11344430 ACAACATGATTCCAAATAA
1 ACAACATCAACCCAAATAA
11344449 ACAACA
1 ACAACA
11344455 AAAATAATAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.57, C:0.27, G:0.02, T:0.14
Consensus pattern (19 bp):
ACAACATCAACCCAAATAA
Found at i:11346391 original size:29 final size:29
Alignment explanation
Indices: 11346359--11346417 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
11346349 TAATTTTTAA
*
11346359 ATGTAGTGTTTTTTAAAAATAAAAAATAT
1 ATGTAGTGTATTTTAAAAATAAAAAATAT
*
11346388 ATGTGGTGTATTTTAAAAATAAAAAATAT
1 ATGTAGTGTATTTTAAAAATAAAAAATAT
11346417 A
1 A
11346418 GTTTATATTA
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:0.49, C:0.00, G:0.12, T:0.39
Consensus pattern (29 bp):
ATGTAGTGTATTTTAAAAATAAAAAATAT
Found at i:11353115 original size:16 final size:16
Alignment explanation
Indices: 11353094--11353126 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
11353084 TGGTGGTTTA
11353094 ATCAATATATATATAT
1 ATCAATATATATATAT
11353110 ATCAATATATATATAT
1 ATCAATATATATATAT
11353126 A
1 A
11353127 CATACTAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (16 bp):
ATCAATATATATATAT
Found at i:11364428 original size:29 final size:30
Alignment explanation
Indices: 11364383--11364442 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
11364373 TAAATTTTAG
*
11364383 TGTGCAATTGTAAACA-TCAATTTTGATTT
1 TGTGCAATTGTAAACATTAAATTTTGATTT
* * *
11364412 TGTGCAATTTTATACATTAAATTTTGGTTT
1 TGTGCAATTGTAAACATTAAATTTTGATTT
11364442 T
1 T
11364443 AACCAATTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 14 0.54
30 12 0.46
ACGTcount: A:0.28, C:0.08, G:0.13, T:0.50
Consensus pattern (30 bp):
TGTGCAATTGTAAACATTAAATTTTGATTT
Found at i:11364600 original size:28 final size:30
Alignment explanation
Indices: 11364569--11364627 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
11364559 TAAAAGAAAG
*
11364569 TGTAT-GA-TGAATCACAATTAAAGTTTCA
1 TGTATAGATTGAACCACAATTAAAGTTTCA
*
11364597 TGTATATATTTGAACCACAATTAAAGTTTCA
1 TGTATAGA-TTGAACCACAATTAAAGTTTCA
11364628 AGTGCATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 5 0.19
29 1 0.04
31 20 0.77
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (30 bp):
TGTATAGATTGAACCACAATTAAAGTTTCA
Found at i:11367974 original size:50 final size:50
Alignment explanation
Indices: 11367920--11368275 Score: 311
Period size: 50 Copynumber: 7.1 Consensus size: 50
11367910 TCAGGAAGGT
** * *
11367920 AAGATTCGCTGTTACAGCTTTAATCTATTCAACTACAATGTCGGGGAAGC
1 AAGATTCGCTGTTGTAGCTTTAATCTTTTCAACTGCAATGTCGGGGAAGC
* * * * * * * * **
11367970 AAGATTCACCGATGTGGCTTTAATCTATTCCACTGC-ATCGCCAGGGAAAT
1 AAGATTCGCTGTTGTAGCTTTAATCTTTTCAACTGCAAT-GTCGGGGAAGC
*
11368020 AAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
1 AAGATTCGCTGTTGTAGCTTTAATCTTTTCAACTGCAATGTCGGGGAAGC
* * * * * * ** * * **
11368070 AAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACCGCCAGGGAAAT
1 AAGATTCGCTGTTGTAGCTTTAATCTTTTCAACTGCAATGTCGGGGAAGC
*
11368120 AAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
1 AAGATTCGCTGTTGTAGCTTTAATCTTTTCAACTGCAATGTCGGGGAAGC
* * * * * * * * * *
11368170 AAGATTCACCGGTGTGGCTTTAATCTGTTCCACTGCACTGCCTGGGAAGT
1 AAGATTCGCTGTTGTAGCTTTAATCTTTTCAACTGCAATGTCGGGGAAGC
* * * *
11368220 AAGATTCG-TGTAGTAGCTTTAATTTTTTTAACTGCAATGTCGGGGAAAC
1 AAGATTCGCTGTTGTAGCTTTAATCTTTTCAACTGCAATGTCGGGGAAGC
11368269 AAGATTC
1 AAGATTC
11368276 ACCATTGTGG
Statistics
Matches: 230, Mismatches: 74, Indels: 5
0.74 0.24 0.02
Matches are distributed among these distances:
49 37 0.16
50 191 0.83
51 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (50 bp):
AAGATTCGCTGTTGTAGCTTTAATCTTTTCAACTGCAATGTCGGGGAAGC
Found at i:11368062 original size:100 final size:100
Alignment explanation
Indices: 11367919--11368323 Score: 643
Period size: 100 Copynumber: 4.1 Consensus size: 100
11367909 ATCAGGAAGG
** * * *
11367919 TAAGATTCGCTGTTACAGCTTTAATCTATTCAACTACAATGTCGGGGAAGCAAGATTCACCGATG
1 TAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATG
* *
11367984 TGGCTTTAATCTATTCCACTGCATCGCCAGGGAAA
66 TGGCTTTAATCTGTTCCACTGCACCGCCAGGGAAA
11368019 TAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATG
1 TAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATG
11368084 TGGCTTTAATCTGTTCCACTGCACCGCCAGGGAAA
66 TGGCTTTAATCTGTTCCACTGCACCGCCAGGGAAA
*
11368119 TAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGGTG
1 TAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATG
* * *
11368184 TGGCTTTAATCTGTTCCACTGCACTGCCTGGGAAG
66 TGGCTTTAATCTGTTCCACTGCACCGCCAGGGAAA
* * *
11368219 TAAGATTCG-TGTAGTAGCTTTAATTTTTTTAACTGCAATGTCGGGGAAACAAGATTCACC-ATT
1 TAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGA-T
* *
11368282 GTGGCGTTAATCTGTTCCACTGCACCACCAGGGAAA
65 GTGGCTTTAATCTGTTCCACTGCACCGCCAGGGAAA
11368318 TAAGAT
1 TAAGAT
11368324 CTGTAATTCT
Statistics
Matches: 284, Mismatches: 20, Indels: 3
0.93 0.07 0.01
Matches are distributed among these distances:
99 86 0.30
100 198 0.70
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.31
Consensus pattern (100 bp):
TAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATG
TGGCTTTAATCTGTTCCACTGCACCGCCAGGGAAA
Found at i:11368316 original size:50 final size:50
Alignment explanation
Indices: 11367936--11368323 Score: 285
Period size: 50 Copynumber: 7.8 Consensus size: 50
11367926 CGCTGTTACA
* * * * * * *
11367936 GCTTTAATCTATTCAACTACAATGTCGGGGAAGCAAGATTCACCGATGTG
1 GCTTTAATCTGTTCCACTGCAATGCCAGGGAAACAAGATTCACCGTTGTG
* * * * *
11367986 GCTTTAATCTATTCCACTGC-ATCGCCAGGGAAATAAGATTCGCTGTTGTA
1 GCTTTAATCTGTTCCACTGCAAT-GCCAGGGAAACAAGATTCACCGTTGTG
* ** * * * *
11368036 GCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTG
1 GCTTTAATCTGTTCCACTGCAATGCCAGGGAAACAAGATTCACCGTTGTG
** * * * *
11368086 GCTTTAATCTGTTCCACTGCACCGCCAGGGAAATAAGATTCGCTGTTGTA
1 GCTTTAATCTGTTCCACTGCAATGCCAGGGAAACAAGATTCACCGTTGTG
* ** * * * *
11368136 GCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGGTGTG
1 GCTTTAATCTGTTCCACTGCAATGCCAGGGAAACAAGATTCACCGTTGTG
* * ** ** * *
11368186 GCTTTAATCTGTTCCACTGCACTGCCTGGGAAGTAAGATTC-GTGTAGTA
1 GCTTTAATCTGTTCCACTGCAATGCCAGGGAAACAAGATTCACCGTTGTG
* * ** * * *
11368235 GCTTTAATTTTTTTAACTGCAATGTCGGGGAAACAAGATTCACCATTGTG
1 GCTTTAATCTGTTCCACTGCAATGCCAGGGAAACAAGATTCACCGTTGTG
* *** *
11368285 GCGTTAATCTGTTCCACTGCACCACCAGGGAAATAAGAT
1 GCTTTAATCTGTTCCACTGCAATGCCAGGGAAACAAGAT
11368324 CTGTAATTCT
Statistics
Matches: 251, Mismatches: 84, Indels: 6
0.74 0.25 0.02
Matches are distributed among these distances:
49 37 0.15
50 212 0.84
51 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.31
Consensus pattern (50 bp):
GCTTTAATCTGTTCCACTGCAATGCCAGGGAAACAAGATTCACCGTTGTG
Found at i:11368696 original size:219 final size:219
Alignment explanation
Indices: 11368310--11368770 Score: 778
Period size: 219 Copynumber: 2.1 Consensus size: 219
11368300 ACTGCACCAC
* * *
11368310 CAGGGAAATAAGATCTGTAATTCTTCGGTCTATTCCATTGTAATCTCAGGGAGATAAGACCTGAT
1 CAGGGAGATAAGATCTGGAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGAT
* *
11368375 ACAATCTACTCTACTGTATCTTCAAATAGATAAGATCCTTTATTTTAATCCGTTCCACTGTAATC
66 ACAATCTACTCTACTGTAACTTCAAAGAGATAAGATCCTTTATTTTAATCCGTTCCACTGTAATC
11368440 TCAGGGAAATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAGATTCACCA
131 TCAGGGAAATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAGATTCACCA
11368505 TTTTCGATTAGATCCACAATTGCT
196 TTTTCGATTAGATCCACAATTGCT
* *
11368529 TAGGGAGATAAGATCTGGAATTCTTTGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGAT
1 CAGGGAGATAAGATCTGGAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGAT
* * * *
11368594 GCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGTTCCCCTGTAATC
66 ACAATCTACTCTACTGTAACTTCAAAGAGATAAGATCCTTTATTTTAATCCGTTCCACTGTAATC
* *
11368659 TCAGGGAAATAGGATTATTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTCACCA
131 TCAGGGAAATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAGATTCACCA
* * *
11368724 TTTTCGATTAGCTTCACTATTGCT
196 TTTTCGATTAGATCCACAATTGCT
11368748 CAGGGAGATAAGATCTGGAATTC
1 CAGGGAGATAAGATCTGGAATTC
11368771 ACTGATCTGT
Statistics
Matches: 225, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
219 225 1.00
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.33
Consensus pattern (219 bp):
CAGGGAGATAAGATCTGGAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGAT
ACAATCTACTCTACTGTAACTTCAAAGAGATAAGATCCTTTATTTTAATCCGTTCCACTGTAATC
TCAGGGAAATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAGATTCACCA
TTTTCGATTAGATCCACAATTGCT
Found at i:11370013 original size:14 final size:14
Alignment explanation
Indices: 11369994--11370034 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 14
11369984 TTAGCCTCTC
11369994 CATTTTTACTTTTT
1 CATTTTTACTTTTT
*
11370008 CATTTTTTCCTTTTT
1 CA-TTTTTACTTTTT
*
11370023 CATTTTGACTTT
1 CATTTTTACTTT
11370035 GATTTTGATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.12, C:0.17, G:0.02, T:0.68
Consensus pattern (14 bp):
CATTTTTACTTTTT
Done.