Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032253.1 Gossypioides kirkii chromosome KI_11
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: 55708359
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 115 of 182
Found at i:37246658 original size:43 final size:43
Alignment explanation
Indices: 37246590--37246695 Score: 178
Period size: 43 Copynumber: 2.4 Consensus size: 43
37246580 TTTTTTTGTA
37246590 AAATTAGGCTTATTGGGCTTTTAGGGTTAGGTTGGTAATTGGGTT
1 AAATTAGG--TATTGGGCTTTTAGGGTTAGGTTGGTAATTGGGTT
37246635 AAATTAGGTATTGGGCTTTTAGGGTTAGGTTGGTAATTGGGTT
1 AAATTAGGTATTGGGCTTTTAGGGTTAGGTTGGTAATTGGGTT
37246678 AAA-TAGGGTATTGGGCTT
1 AAATTA-GGTATTGGGCTT
37246696 AGGACTGGTT
Statistics
Matches: 60, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
42 2 0.03
43 50 0.83
45 8 0.13
ACGTcount: A:0.22, C:0.04, G:0.34, T:0.41
Consensus pattern (43 bp):
AAATTAGGTATTGGGCTTTTAGGGTTAGGTTGGTAATTGGGTT
Found at i:37247033 original size:26 final size:24
Alignment explanation
Indices: 37247004--37247062 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 24
37246994 ATTTTTCTAA
*
37247004 AAAATATTAACAATTTAAAATAAATT
1 AAAA-ATTAACAAATT-AAATAAATT
* *
37247030 AAAAACATAATAAATTAAATAAATT
1 AAAAA-TTAACAAATTAAATAAATT
37247055 AAAAATTA
1 AAAAATTA
37247063 GAAAATAGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
24 2 0.07
25 15 0.54
26 11 0.39
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (24 bp):
AAAAATTAACAAATTAAATAAATT
Found at i:37252086 original size:21 final size:21
Alignment explanation
Indices: 37252039--37252095 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
37252029 AACATTCACC
*
37252039 GGTTATGGTTCTGGTGAAACT
1 GGTTCTGGTTCTGGTGAAACT
* *
37252060 GATTCTGGTTCTGGT-AAAGTT
1 GGTTCTGGTTCTGGTGAAA-CT
*
37252081 GGTTCTAGTTCTGGT
1 GGTTCTGGTTCTGGT
37252096 TCTGGTAAAG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
20 3 0.10
21 27 0.90
ACGTcount: A:0.16, C:0.11, G:0.32, T:0.42
Consensus pattern (21 bp):
GGTTCTGGTTCTGGTGAAACT
Found at i:37253913 original size:13 final size:14
Alignment explanation
Indices: 37253897--37253936 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
37253887 TTTGTAAAGG
37253897 ATATTAATCTAAA-
1 ATATTAATCTAAAC
37253910 ATATTAATCTAAAC
1 ATATTAATCTAAAC
*
37253924 TAAATTAATCTAA
1 -ATATTAATCTAA
37253937 GTTAAAGCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 13 0.54
15 11 0.46
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.38
Consensus pattern (14 bp):
ATATTAATCTAAAC
Found at i:37253962 original size:21 final size:20
Alignment explanation
Indices: 37253919--37253963 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
37253909 AATATTAATC
*
37253919 TAAACTAAATTAATCTAAGT
1 TAAACTAAATTAATCTAAAT
37253939 TAAAGCTAAATTAAAT-TAAAT
1 TAAA-CTAAATT-AATCTAAAT
37253960 TAAA
1 TAAA
37253964 TTCCTATGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 4 0.18
21 15 0.68
22 3 0.14
ACGTcount: A:0.56, C:0.07, G:0.04, T:0.33
Consensus pattern (20 bp):
TAAACTAAATTAATCTAAAT
Found at i:37254215 original size:4 final size:4
Alignment explanation
Indices: 37254206--37254245 Score: 80
Period size: 4 Copynumber: 10.0 Consensus size: 4
37254196 GTGTTATAGC
37254206 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
37254246 TATAAAATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:37254686 original size:12 final size:12
Alignment explanation
Indices: 37254669--37254694 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
37254659 TAATTAAAAA
37254669 ATAATAGCATTC
1 ATAATAGCATTC
37254681 ATAATAGCATTC
1 ATAATAGCATTC
37254693 AT
1 AT
37254695 CATGATAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (12 bp):
ATAATAGCATTC
Found at i:37256885 original size:24 final size:25
Alignment explanation
Indices: 37256853--37256902 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
37256843 ATGGATGTTC
*
37256853 AACCTTTCATCTCCCTTAAC-TTTT
1 AACCTTTCATCTACCTTAACATTTT
*
37256877 AACCTTTCATCTACTTTAACATTTT
1 AACCTTTCATCTACCTTAACATTTT
37256902 A
1 A
37256903 TATGAAGAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 18 0.78
25 5 0.22
ACGTcount: A:0.26, C:0.28, G:0.00, T:0.46
Consensus pattern (25 bp):
AACCTTTCATCTACCTTAACATTTT
Found at i:37262373 original size:10 final size:10
Alignment explanation
Indices: 37262340--37262427 Score: 69
Period size: 10 Copynumber: 9.0 Consensus size: 10
37262330 TTATTATTTT
37262340 ATTTTATTATA
1 ATTTT-TTATA
* *
37262351 ATATTTTACA
1 ATTTTTTATA
37262361 ATTTTTTATA
1 ATTTTTTATA
**
37262371 ATTTTCAATA
1 ATTTTTTATA
37262381 ATTCTTTTA-A
1 ATT-TTTTATA
*
37262391 GTTTTTTAT-
1 ATTTTTTATA
37262400 A-TTTTT-T-
1 ATTTTTTATA
37262407 ATTTTTTATTA
1 ATTTTTTA-TA
37262418 ATTTTTTATA
1 ATTTTTTATA
37262428 TTCTTATAAA
Statistics
Matches: 61, Mismatches: 10, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
7 2 0.03
8 10 0.16
9 5 0.08
10 29 0.48
11 15 0.25
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (10 bp):
ATTTTTTATA
Found at i:37262413 original size:18 final size:18
Alignment explanation
Indices: 37262360--37262426 Score: 57
Period size: 18 Copynumber: 3.6 Consensus size: 18
37262350 AATATTTTAC
* *
37262360 AATTTTTTATAATTTTCAAT
1 AATTTTTTAT--TTTTTATT
37262380 AATTCTTTTAAGTTTTTTA-T
1 AATT-TTTT-A-TTTTTTATT
37262400 -ATTTTTTATTTTTTATT
1 AATTTTTTATTTTTTATT
37262417 AATTTTTTAT
1 AATTTTTTAT
37262427 ATTCTTATAA
Statistics
Matches: 41, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
16 7 0.17
17 2 0.05
18 13 0.32
19 3 0.07
20 5 0.12
21 9 0.22
22 1 0.02
23 1 0.02
ACGTcount: A:0.27, C:0.03, G:0.01, T:0.69
Consensus pattern (18 bp):
AATTTTTTATTTTTTATT
Found at i:37263959 original size:2 final size:2
Alignment explanation
Indices: 37263954--37264015 Score: 63
Period size: 2 Copynumber: 30.0 Consensus size: 2
37263944 GTTTATTCTT
* **
37263954 TA TA TA TA GTA TG TA TA TA T- TA GTCA TA TA CC TA TA TA TA TA
1 TA TA TA TA -TA TA TA TA TA TA TA -T-A TA TA TA TA TA TA TA TA
37263996 TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
37264016 ATCCTGTATA
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
1 1 0.02
2 44 0.88
3 4 0.08
4 1 0.02
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.47
Consensus pattern (2 bp):
TA
Found at i:37275673 original size:50 final size:50
Alignment explanation
Indices: 37275619--37275733 Score: 140
Period size: 50 Copynumber: 2.3 Consensus size: 50
37275609 GCAGAAGAAT
* *
37275619 AGATTAAAGCCGCAATAGCAAATCTCATACACCTAAAGCTGTAAAGGGGC
1 AGATTAAAGTCGCAATAGCAAATCTCATACACCTAAAGCTGTAAAGGAGC
* * * * ** * *
37275669 AGATTGAAGTCACATTGGTGAATCTTATTCACCTAAAGCTGTAAAGGAGC
1 AGATTAAAGTCGCAATAGCAAATCTCATACACCTAAAGCTGTAAAGGAGC
37275719 AGATTAAAGTCGCAA
1 AGATTAAAGTCGCAA
37275734 GGACGAATCT
Statistics
Matches: 52, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.23
Consensus pattern (50 bp):
AGATTAAAGTCGCAATAGCAAATCTCATACACCTAAAGCTGTAAAGGAGC
Found at i:37275759 original size:50 final size:50
Alignment explanation
Indices: 37275639--37275748 Score: 141
Period size: 50 Copynumber: 2.2 Consensus size: 50
37275629 CGCAATAGCA
* * * * *
37275639 AATCTCATACACCTAAAGCTGTAAAGGGGCAGATTGAAGTCACATTGGTG
1 AATCTTATACACCTAAAGCTGTAAAGGAGCAGATTAAAGTCACATAGGCG
* *
37275689 AATCTTATTCACCTAAAGCTGTAAAGGAGCAGATTAAAGTCGCA-AGGACG
1 AATCTTATACACCTAAAGCTGTAAAGGAGCAGATTAAAGTCACATAGG-CG
37275739 AATCTTATAC
1 AATCTTATAC
37275749 TCTTGAAGCT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
49 2 0.04
50 49 0.96
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (50 bp):
AATCTTATACACCTAAAGCTGTAAAGGAGCAGATTAAAGTCACATAGGCG
Found at i:37276261 original size:12 final size:11
Alignment explanation
Indices: 37276243--37276281 Score: 53
Period size: 10 Copynumber: 3.5 Consensus size: 11
37276233 AGCTTATTGT
37276243 TTATATATATA
1 TTATATATATA
37276254 -TATATATATA
1 TTATATATATA
*
37276264 TTATCATGTATA
1 TTAT-ATATATA
37276276 TTATAT
1 TTATAT
37276282 TAATTTGACT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
10 10 0.40
11 5 0.20
12 10 0.40
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (11 bp):
TTATATATATA
Found at i:37279838 original size:2 final size:2
Alignment explanation
Indices: 37279831--37279860 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
37279821 TATTTTTATC
*
37279831 AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
37279861 TAATTTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:37290326 original size:3 final size:3
Alignment explanation
Indices: 37290318--37290352 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
37290308 CATAAATTTA
37290318 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
37290353 ACGTTTGGTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:37299477 original size:20 final size:20
Alignment explanation
Indices: 37299452--37299491 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
37299442 ATAATCATTC
*
37299452 TATTTTAGTTTTAAGATATA
1 TATTTTAGTTTTAAAATATA
*
37299472 TATTTTATTTTTAAAATATA
1 TATTTTAGTTTTAAAATATA
37299492 ATTATATGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (20 bp):
TATTTTAGTTTTAAAATATA
Found at i:37301474 original size:19 final size:19
Alignment explanation
Indices: 37301434--37301478 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
37301424 TTTTATTAGG
37301434 ATTTAATATTTAAGATATT
1 ATTTAATATTTAAGATATT
* *
37301453 ATTTATTATTTAA-ATTTGT
1 ATTTAATATTTAAGATAT-T
37301472 ATTTAAT
1 ATTTAAT
37301479 TCATATTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAAGATATT
Found at i:37307900 original size:3 final size:3
Alignment explanation
Indices: 37307892--37307926 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
37307882 AGGCAACTCA
37307892 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -TT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
37307927 TATTTGTCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
ATT
Found at i:37309485 original size:19 final size:19
Alignment explanation
Indices: 37309463--37309507 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
37309453 TTTTATTAGG
37309463 ATTTAATATTTAAGATAT-T
1 ATTTAATATTTAA-ATATGT
* *
37309482 ATTTATTATTTAAATTTGT
1 ATTTAATATTTAAATATGT
37309501 ATTTAAT
1 ATTTAAT
37309508 TCATGTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAAATATGT
Found at i:37310587 original size:18 final size:18
Alignment explanation
Indices: 37310540--37310588 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
37310530 GGTTTAAATT
37310540 AATTCTAAATTTATTTACA
1 AATT-TAAATTTATTTACA
**
37310559 AATTTGGATTTATCTTA-A
1 AATTTAAATTTAT-TTACA
37310577 AATTTAAATTTA
1 AATTTAAATTTA
37310589 AATCAATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
18 18 0.72
19 7 0.28
ACGTcount: A:0.41, C:0.06, G:0.04, T:0.49
Consensus pattern (18 bp):
AATTTAAATTTATTTACA
Found at i:37310698 original size:15 final size:15
Alignment explanation
Indices: 37310678--37310717 Score: 73
Period size: 14 Copynumber: 2.7 Consensus size: 15
37310668 AGTCCAGAGT
37310678 CCAATTACAAAAGGC
1 CCAATTACAAAAGGC
37310693 CCAATTAC-AAAGGC
1 CCAATTACAAAAGGC
37310707 CCAATTACAAA
1 CCAATTACAAA
37310718 TGTCCAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 14 0.58
15 10 0.42
ACGTcount: A:0.47, C:0.28, G:0.10, T:0.15
Consensus pattern (15 bp):
CCAATTACAAAAGGC
Found at i:37310706 original size:14 final size:14
Alignment explanation
Indices: 37310678--37310739 Score: 72
Period size: 14 Copynumber: 4.4 Consensus size: 14
37310668 AGTCCAGAGT
37310678 CCAATTACAAAAGGC
1 CCAATTAC-AAAGGC
37310693 CCAATTACAAAGGC
1 CCAATTACAAAGGC
* *
37310707 CCAATTACAAATGT
1 CCAATTACAAAGGC
* *
37310721 CCAAATAC-ATGGC
1 CCAATTACAAAGGC
37310734 CCAATT
1 CCAATT
37310740 GGCCCAATCC
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
13 7 0.17
14 25 0.62
15 8 0.20
ACGTcount: A:0.42, C:0.27, G:0.11, T:0.19
Consensus pattern (14 bp):
CCAATTACAAAGGC
Found at i:37311684 original size:16 final size:16
Alignment explanation
Indices: 37311663--37311693 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
37311653 CAAAATGTTT
*
37311663 CCAGATCTGGGTTTTC
1 CCAGATCTGGATTTTC
37311679 CCAGATCTGGATTTT
1 CCAGATCTGGATTTT
37311694 GAAAAGTCAA
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:0.16, C:0.23, G:0.23, T:0.39
Consensus pattern (16 bp):
CCAGATCTGGATTTTC
Found at i:37312457 original size:162 final size:162
Alignment explanation
Indices: 37312284--37312622 Score: 491
Period size: 162 Copynumber: 2.1 Consensus size: 162
37312274 TCTTTTCAAT
* *
37312284 TTAGTCCTTTGACTGTTTGACTGTACCA-GAGGTTGCCACGTGTCATTTTTTGGATTATTTATGC
1 TTAGTCCTTTGACTGTTTGACTGTACCAGGA-GCTGCCACGTGTCACTTTTTGGATTATTTATGC
* *
37312348 ATTCAGTCCCTGACATTTTGGATTTATTTTAATTTAATCCTCAAACCAACTTTTATTTAATTACG
65 ATTCAGTCCCTGACATTTTGAATTTATTTTAATTTAATCCCCAAACCAACTTTTATTTAATTACG
* * * *
37312413 AAATTGGCCCAAGAATTTTTCATGGTTTATAAA
130 AAATTGCCCCAAGAATTTTTCAAGATTTACAAA
*
37312446 TTAGTCCTTTGACTGTTTGACTGTACCAGGAGCTGCCACGTGTCACTTTTTGGCTTATTTATGCA
1 TTAGTCCTTTGACTGTTTGACTGTACCAGGAGCTGCCACGTGTCACTTTTTGGATTATTTATGCA
* * *** * * *
37312511 TTTAGTCCTTTTTATTTTTAATTTGTTTTAATTTAATCCCCAAATCAACTTTTATTTAATTACGA
66 TTCAGTCCCTGACATTTTGAATTTATTTTAATTTAATCCCCAAACCAACTTTTATTTAATTACGA
*
37312576 AATTGCCCCAAGAATTTTTCAAGATTTACAAC
131 AATTGCCCCAAGAATTTTTCAAGATTTACAAA
*
37312608 TTAATCCTTTGACTG
1 TTAGTCCTTTGACTG
37312623 CTGGATGCCT
Statistics
Matches: 157, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
162 155 0.99
163 2 0.01
ACGTcount: A:0.25, C:0.18, G:0.14, T:0.43
Consensus pattern (162 bp):
TTAGTCCTTTGACTGTTTGACTGTACCAGGAGCTGCCACGTGTCACTTTTTGGATTATTTATGCA
TTCAGTCCCTGACATTTTGAATTTATTTTAATTTAATCCCCAAACCAACTTTTATTTAATTACGA
AATTGCCCCAAGAATTTTTCAAGATTTACAAA
Found at i:37312770 original size:29 final size:30
Alignment explanation
Indices: 37312724--37312785 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
37312714 AAAATTTTAG
37312724 AAAATTACATTCTGACCC-CGAAACTTCCA
1 AAAATTACATTCTGACCCTCGAAACTTCCA
* * *
37312753 AAAATTACTATT-TTACCCTCGAATCTTCTA
1 AAAATTAC-ATTCTGACCCTCGAAACTTCCA
37312783 AAA
1 AAA
37312786 TTCCATTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 13 0.46
30 15 0.54
ACGTcount: A:0.39, C:0.26, G:0.05, T:0.31
Consensus pattern (30 bp):
AAAATTACATTCTGACCCTCGAAACTTCCA
Found at i:37312813 original size:59 final size:59
Alignment explanation
Indices: 37312750--37313050 Score: 410
Period size: 59 Copynumber: 5.1 Consensus size: 59
37312740 CCCGAAACTT
* **
37312750 CCAAAAATTACTATTTTACCCTCGAATCTTCTAAAATTCCATTTTTAACCCTGATTTCA
1 CCAAAAATTACCATTTTACCCTCGAATCTTCTAAAATTCCATTTTTAACCCCAATTTCA
*
37312809 CCAAAAATTACCATTTTACCC-CTAAATCTTCTAAAATTCCATTTTTAACCCCAATTTCA
1 CCAAAAATTACCATTTTACCCTC-GAATCTTCTAAAATTCCATTTTTAACCCCAATTTCA
* *
37312868 CTC-AAAATTACCATTTTACCCTTGAATCTTTTAAAATTCCATTTTTAACCCCAATTTCA
1 C-CAAAAATTACCATTTTACCCTCGAATCTTCTAAAATTCCATTTTTAACCCCAATTTCA
* * * * *
37312927 CCGAAAATTACCATTTTACCCCCGAATCTTCTAAAATTTCATTTTTAACCTCGATTTCA
1 CCAAAAATTACCATTTTACCCTCGAATCTTCTAAAATTCCATTTTTAACCCCAATTTCA
* * * * *
37312986 CCGAAAATTACCATTTTACCCTCTAA-CTTTCCAAAATTTCATTTTTAACCCCAATTTTA
1 CCAAAAATTACCATTTTACCCTCGAATC-TTCTAAAATTCCATTTTTAACCCCAATTTCA
37313045 CCAAAA
1 CCAAAA
37313051 TCTCCATTTT
Statistics
Matches: 217, Mismatches: 20, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
58 3 0.01
59 213 0.98
60 1 0.00
ACGTcount: A:0.33, C:0.27, G:0.02, T:0.38
Consensus pattern (59 bp):
CCAAAAATTACCATTTTACCCTCGAATCTTCTAAAATTCCATTTTTAACCCCAATTTCA
Found at i:37313048 original size:29 final size:29
Alignment explanation
Indices: 37312782--37313060 Score: 159
Period size: 30 Copynumber: 9.4 Consensus size: 29
37312772 CGAATCTTCT
** *
37312782 AAAATTCCATTTTTAACCCTGATTTCACC
1 AAAATTCCATTTTTAACCCCAATTTTACC
* *
37312811 AAAAATTACCA-TTTT-ACCCCTAAATCTT-CT
1 -AAAATT-CCATTTTTAACCCC--AATTTTACC
*
37312841 AAAATTCCATTTTTAACCCCAATTTCACTC
1 AAAATTCCATTTTTAACCCCAATTTTAC-C
* *
37312871 AAAATTACCA-TTTT-ACCCTTGAATCTTT--T
1 AAAATT-CCATTTTTAACCC--CAAT-TTTACC
*
37312900 AAAATTCCATTTTTAACCCCAATTTCACC
1 AAAATTCCATTTTTAACCCCAATTTTACC
* * *
37312929 GAAAATTACCA-TTTTACCCCCGAATCTT-CT
1 -AAAATT-CCATTTTTAACCCC-AATTTTACC
* * * *
37312959 AAAATTTCATTTTTAACCTCGATTTCACC
1 AAAATTCCATTTTTAACCCCAATTTTACC
*
37312988 GAAAATTACCA-TTTT-ACCCTCTAACTTT-CC
1 -AAAATT-CCATTTTTAACCC-C-AATTTTACC
*
37313018 AAAATTTCATTTTTAACCCCAATTTTACC
1 AAAATTCCATTTTTAACCCCAATTTTACC
37313047 AAAATCTCCATTTT
1 AAAAT-TCCATTTT
37313061 GCCCCCGGAT
Statistics
Matches: 188, Mismatches: 33, Indels: 56
0.68 0.12 0.20
Matches are distributed among these distances:
27 2 0.01
28 25 0.13
29 65 0.35
30 70 0.37
31 24 0.13
32 2 0.01
ACGTcount: A:0.33, C:0.27, G:0.02, T:0.38
Consensus pattern (29 bp):
AAAATTCCATTTTTAACCCCAATTTTACC
Found at i:37313090 original size:118 final size:118
Alignment explanation
Indices: 37312753--37313103 Score: 374
Period size: 118 Copynumber: 3.0 Consensus size: 118
37312743 GAAACTTCCA
* * ** *
37312753 AAAATTACTATTTTACCCTCGAATC-TTCTAAAATTCCATTTTTAACCCTGATTTCACCAAAAAT
1 AAAATTACCATTTTACCCTTGAATCTTTC-AAAATTCCATTTTTAACCCCAATTTCACCGAAAAT
** * * * *
37312817 TACCATTTTACCCCTAAATCTTCTAAAATTCCATTTTTAACCCCAATTTCACTC
65 TACCATTTTACCCCCGAATCATCCAAAATCCCATTTTTAACCCCGATTTCACTC
*
37312871 AAAATTACCATTTTACCCTTGAATCTTTTAAAATTCCATTTTTAACCCCAATTTCACCGAAAATT
1 AAAATTACCATTTTACCCTTGAATCTTTCAAAATTCCATTTTTAACCCCAATTTCACCGAAAATT
* * ** *
37312936 ACCATTTTACCCCCGAATCTTCTAAAATTTCATTTTTAACCTCGATTTCAC-C
66 ACCATTTTACCCCCGAATCATCCAAAATCCCATTTTTAACCCCGATTTCACTC
* *
37312988 GAAAATTACCATTTTACCCTCT-AA-CTTTCCAAAATTTCATTTTTAACCCCAATTTTACC-AAA
1 -AAAATTACCATTTTACCCT-TGAATCTTT-CAAAATTCCATTTTTAACCCCAATTTCACCGAAA
* * * * *
37313050 ATCT-CCATTTTGCCCCCGGAT-ATCCACAAGTCCCGTTTTTTCACCCCGATTTCA
63 AT-TACCATTTTACCCCCGAATCATCCA-AAATCCC-ATTTTTAACCCCGATTTCA
37313104 TCGTTTATCA
Statistics
Matches: 202, Mismatches: 24, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
116 3 0.01
117 29 0.14
118 167 0.83
119 3 0.01
ACGTcount: A:0.31, C:0.28, G:0.04, T:0.37
Consensus pattern (118 bp):
AAAATTACCATTTTACCCTTGAATCTTTCAAAATTCCATTTTTAACCCCAATTTCACCGAAAATT
ACCATTTTACCCCCGAATCATCCAAAATCCCATTTTTAACCCCGATTTCACTC
Found at i:37325390 original size:76 final size:76
Alignment explanation
Indices: 37325185--37325689 Score: 613
Period size: 76 Copynumber: 6.9 Consensus size: 76
37325175 AACAAGACCT
* *
37325185 TTTCCTATCCGCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
1 TTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAA
*
37325249 GAGCAACA---
66 GAGTAACATCG
* * * * *
37325257 ---CC-ACCCGCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTCATCTCTGAAATTGAAGCAG
1 TTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAA
37325318 GAGTAACATCG
66 GAGTAACATCG
* *
37325329 TTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAG
1 TTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAA
*
37325394 GAGTAACATTG
66 GAGTAACATCG
* *
37325405 TTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGCCTTTATCTCTGAAATTGAAGTAA
1 TTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAA
*
37325470 GAG---CAACG
66 GAGTAACATCG
* * *
37325478 --T-C-ATCCTCTTGAAATTGAAGTAAAGTTGGATAACACGCCTTTATCTCTGAAATTGAAGTAA
1 TTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAA
*
37325539 GAG---CAACG
66 GAGTAACATCG
37325547 --T-C-ATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAA
1 TTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAA
* *
37325608 GAGCAAGATCG
66 GAGTAACATCG
* * * * * * *
37325619 TTTACTATCCTCCTGAAATTGAAGTAAAGCTGGATATCAAATCTTTATCGCTGAAATTGAAGTAA
1 TTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAA
37325684 GAGTAA
66 GAGTAA
37325690 GATAAAGCAC
Statistics
Matches: 389, Mismatches: 29, Indels: 26
0.88 0.07 0.06
Matches are distributed among these distances:
68 22 0.06
69 167 0.43
70 1 0.00
71 1 0.00
72 3 0.01
73 3 0.01
74 1 0.00
75 3 0.01
76 188 0.48
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (76 bp):
TTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAA
GAGTAACATCG
Found at i:37325460 original size:38 final size:38
Alignment explanation
Indices: 37325266--37325606 Score: 226
Period size: 38 Copynumber: 9.3 Consensus size: 38
37325256 ACCACCCGCT
* *
37325266 TGAAATTGAAGTAGAGTTGGATAACAAGTCTTCATCTC
1 TGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTC
* *
37325304 TGAAATTGAAGCAG-G--AG-TAACATCGT-TTCCTATCCTC
1 TGAAATTGAAGTAGAGTTGGATAACA-CGTCTT--TAT-CTC
* *
37325341 TTGAAATTGAAGTAGAGTTGGATAACAAGTCTTCATCTC
1 -TGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTC
* *
37325380 TGAAATTGAAGTAG-G--AG-TAACATTGT-TTCCTATCCTC
1 TGAAATTGAAGTAGAGTTGGATAACA-CGTCTT--TAT-CTC
*
37325417 TTGAAATTGAAGTAGAGTTGGATAACACGCCTTTATCTC
1 -TGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTC
** * **
37325456 TGAAATTGAAGTA-A----GAGCA-ACGTCATCCTCT-
1 TGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTC
* *
37325487 TGAAATTGAAGTAAAGTTGGATAACACGCCTTTATCTC
1 TGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTC
** * **
37325525 TGAAATTGAAGTA-A----GAGCA-ACGTCATCCTCT-
1 TGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTC
*
37325556 TGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTC
1 TGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTC
37325594 TGAAATTGAAGTA
1 TGAAATTGAAGTA
37325607 AGAGCAAGAT
Statistics
Matches: 231, Mismatches: 38, Indels: 68
0.69 0.11 0.20
Matches are distributed among these distances:
31 26 0.11
32 18 0.08
33 6 0.03
34 14 0.06
35 6 0.03
36 10 0.04
37 26 0.11
38 93 0.40
39 8 0.03
40 5 0.02
41 5 0.02
42 14 0.06
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.31
Consensus pattern (38 bp):
TGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTC
Found at i:37325494 original size:31 final size:31
Alignment explanation
Indices: 37325456--37325568 Score: 109
Period size: 31 Copynumber: 3.4 Consensus size: 31
37325446 CCTTTATCTC
37325456 TGAAATTGAAGTAAGAGCAACGTCATCCTCT
1 TGAAATTGAAGTAAGAGCAACGTCATCCTCT
** * * **
37325487 TGAAATTGAAGTAAAGTTGGATAACACGCCTTTATCT
1 TGAAATTGAAGT-AA----GAGCA-ACGTCATCCTCT
37325524 CTGAAATTGAAGTAAGAGCAACGTCATCCTCT
1 -TGAAATTGAAGTAAGAGCAACGTCATCCTCT
37325556 TGAAATTGAAGTA
1 TGAAATTGAAGTA
37325569 GAGTTGGATA
Statistics
Matches: 63, Mismatches: 12, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
31 25 0.40
32 10 0.16
33 3 0.05
36 3 0.05
37 10 0.16
38 12 0.19
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.28
Consensus pattern (31 bp):
TGAAATTGAAGTAAGAGCAACGTCATCCTCT
Found at i:37326264 original size:18 final size:18
Alignment explanation
Indices: 37326217--37326265 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
37326207 GGTTTAAATT
37326217 AATTCTAAATTTATTTACA
1 AATT-TAAATTTATTTACA
**
37326236 AATTTGGATTTATCTTA-A
1 AATTTAAATTTAT-TTACA
37326254 AATTTAAATTTA
1 AATTTAAATTTA
37326266 AATCAATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
18 18 0.72
19 7 0.28
ACGTcount: A:0.41, C:0.06, G:0.04, T:0.49
Consensus pattern (18 bp):
AATTTAAATTTATTTACA
Found at i:37326375 original size:15 final size:15
Alignment explanation
Indices: 37326355--37326394 Score: 73
Period size: 14 Copynumber: 2.7 Consensus size: 15
37326345 AGTCCAGAGT
37326355 CCAATTACAAAAGGC
1 CCAATTACAAAAGGC
37326370 CCAATTAC-AAAGGC
1 CCAATTACAAAAGGC
37326384 CCAATTACAAA
1 CCAATTACAAA
37326395 TGTCCAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 14 0.58
15 10 0.42
ACGTcount: A:0.47, C:0.28, G:0.10, T:0.15
Consensus pattern (15 bp):
CCAATTACAAAAGGC
Found at i:37326383 original size:14 final size:14
Alignment explanation
Indices: 37326355--37326416 Score: 72
Period size: 14 Copynumber: 4.4 Consensus size: 14
37326345 AGTCCAGAGT
37326355 CCAATTACAAAAGGC
1 CCAATTAC-AAAGGC
37326370 CCAATTACAAAGGC
1 CCAATTACAAAGGC
* *
37326384 CCAATTACAAATGT
1 CCAATTACAAAGGC
* *
37326398 CCAAATAC-ATGGC
1 CCAATTACAAAGGC
37326411 CCAATT
1 CCAATT
37326417 GGCCCAATCC
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
13 7 0.17
14 25 0.62
15 8 0.20
ACGTcount: A:0.42, C:0.27, G:0.11, T:0.19
Consensus pattern (14 bp):
CCAATTACAAAGGC
Found at i:37332484 original size:2 final size:2
Alignment explanation
Indices: 37332479--37332544 Score: 132
Period size: 2 Copynumber: 33.0 Consensus size: 2
37332469 TATATATATA
37332479 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
37332521 TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG
37332545 AATTGATGAA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:37340354 original size:31 final size:29
Alignment explanation
Indices: 37340244--37340360 Score: 96
Period size: 31 Copynumber: 3.9 Consensus size: 29
37340234 CAACTTAAAA
* *
37340244 AAAAATGTCATATTTAGGTACTAAATTAGG
1 AAAAATGTCA-AGTTAGGTACCAAATTAGG
*
37340274 AAAAATTGTCAAGTTTGAGTACCAAATT-GG
1 AAAAA-TGTCAAGTTAG-GTACCAAATTAGG
**
37340304 ACCAAAA--AAAAGTTTAGGTACCAAATTAGG
1 A--AAAATGTCAAG-TTAGGTACCAAATTAGG
37340334 AAAAAGTGTCAAGTTCAGGTACCAAAT
1 AAAAA-TGTCAAGTT-AGGTACCAAAT
37340361 ATTATATTAA
Statistics
Matches: 69, Mismatches: 8, Indels: 19
0.72 0.08 0.20
Matches are distributed among these distances:
28 4 0.06
29 13 0.19
30 20 0.29
31 28 0.41
32 4 0.06
ACGTcount: A:0.44, C:0.11, G:0.18, T:0.26
Consensus pattern (29 bp):
AAAAATGTCAAGTTAGGTACCAAATTAGG
Found at i:37343438 original size:25 final size:25
Alignment explanation
Indices: 37343404--37343455 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
37343394 CTATAAAGAT
37343404 ATGATAGTTTCCCATATGTAACATA
1 ATGATAGTTTCCCATATGTAACATA
37343429 ATGATAGTTTCCCATATGTAACATA
1 ATGATAGTTTCCCATATGTAACATA
37343454 AT
1 AT
37343456 TCCCAATTGA
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:0.37, C:0.15, G:0.12, T:0.37
Consensus pattern (25 bp):
ATGATAGTTTCCCATATGTAACATA
Found at i:37346435 original size:27 final size:27
Alignment explanation
Indices: 37346404--37346462 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
37346394 TTTTAAATAG
*
37346404 CTAATTCCTAAAAATCAGAAACTAAAT
1 CTAATTCCTAAAAATCACAAACTAAAT
* *
37346431 CTAATTCCTAATAATCACATACTAAAT
1 CTAATTCCTAAAAATCACAAACTAAAT
*
37346458 TTAAT
1 CTAAT
37346463 ATTCTAAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.47, C:0.19, G:0.02, T:0.32
Consensus pattern (27 bp):
CTAATTCCTAAAAATCACAAACTAAAT
Found at i:37352489 original size:13 final size:11
Alignment explanation
Indices: 37352461--37352503 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
37352451 AGTTAAATAT
37352461 TATTTTATTAA
1 TATTTTATTAA
37352472 TATTTTACTTAGA
1 TATTTTA-TTA-A
*
37352485 TA-TTTATTAT
1 TATTTTATTAA
37352495 TATTTTATT
1 TATTTTATT
37352504 TAGAAAATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 2 0.07
11 16 0.57
12 7 0.25
13 3 0.11
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:37352490 original size:23 final size:23
Alignment explanation
Indices: 37352464--37352507 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
37352454 TAAATATTAT
37352464 TTTATTAATATTTTACTTAGATA
1 TTTATTAATATTTTACTTAGATA
* *
37352487 TTTATTATTATTTTATTTAGA
1 TTTATTAATATTTTACTTAGA
37352508 AAATGGTAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (23 bp):
TTTATTAATATTTTACTTAGATA
Found at i:37355888 original size:30 final size:30
Alignment explanation
Indices: 37355847--37355907 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
37355837 TGATACATTG
37355847 AGTACAAAAACAACAATTGAATTGCAAGCA
1 AGTACAAAAACAACAATTGAATTGCAAGCA
*
37355877 AGTAGAAAAACAACAATTGAATTGCAAGCA
1 AGTACAAAAACAACAATTGAATTGCAAGCA
37355907 A
1 A
37355908 TATTTAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.54, C:0.15, G:0.15, T:0.16
Consensus pattern (30 bp):
AGTACAAAAACAACAATTGAATTGCAAGCA
Found at i:37362016 original size:50 final size:50
Alignment explanation
Indices: 37361958--37362083 Score: 227
Period size: 50 Copynumber: 2.5 Consensus size: 50
37361948 AATGAGAGAG
37361958 TTTTGATTTTTTGGGGGGTAAAAGGAGAGAAATTAAATATATTTGAGGGA
1 TTTTGATTTTTTGGGGGGTAAAAGGAGAGAAATTAAATATATTTGAGGGA
*
37362008 TTTTGATTTTTGGGGGGGTAAAAGGAGAGAAATTAAATATATTTGAGGGA
1 TTTTGATTTTTTGGGGGGTAAAAGGAGAGAAATTAAATATATTTGAGGGA
*
37362058 TTTTGATTTTTT-GGGAGTAAAAGGAG
1 TTTTGATTTTTTGGGGGGTAAAAGGAG
37362084 GAGGGAAAAT
Statistics
Matches: 73, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
49 13 0.18
50 60 0.82
ACGTcount: A:0.33, C:0.00, G:0.31, T:0.37
Consensus pattern (50 bp):
TTTTGATTTTTTGGGGGGTAAAAGGAGAGAAATTAAATATATTTGAGGGA
Found at i:37369054 original size:18 final size:18
Alignment explanation
Indices: 37369028--37369073 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
37369018 TCACTTGCAA
37369028 AAGCAAGACTACATGAAT
1 AAGCAAGACTACATGAAT
* *
37369046 AAGCTAGACTACATGCAT
1 AAGCAAGACTACATGAAT
37369064 AAGCAAGACT
1 AAGCAAGACT
37369074 GAAAAAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.46, C:0.20, G:0.17, T:0.17
Consensus pattern (18 bp):
AAGCAAGACTACATGAAT
Found at i:37370563 original size:21 final size:22
Alignment explanation
Indices: 37370531--37370571 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
37370521 TTTATTTTGA
37370531 AAAACAATGATAATT-TTTACC
1 AAAACAATGATAATTATTTACC
37370552 AAAA-AATGGATAATTATTTA
1 AAAACAAT-GATAATTATTTA
37370572 AAATAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 3 0.17
21 11 0.61
22 4 0.22
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.34
Consensus pattern (22 bp):
AAAACAATGATAATTATTTACC
Found at i:37371340 original size:32 final size:30
Alignment explanation
Indices: 37371303--37371374 Score: 90
Period size: 30 Copynumber: 2.3 Consensus size: 30
37371293 TGACTTCTAA
37371303 TTTAATTTTTAAATGATTCCACATATATAATT
1 TTTAATTTTTAAATGATT--ACATATATAATT
* ***
37371335 TTTAATTTTTAAATGGTTGGTTATATAATT
1 TTTAATTTTTAAATGATTACATATATAATT
37371365 TTTAATTTTT
1 TTTAATTTTT
37371375 GTTCTAATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
30 19 0.53
32 17 0.47
ACGTcount: A:0.32, C:0.04, G:0.07, T:0.57
Consensus pattern (30 bp):
TTTAATTTTTAAATGATTACATATATAATT
Found at i:37371621 original size:39 final size:39
Alignment explanation
Indices: 37371578--37371654 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 39
37371568 AACTTATAAT
*
37371578 AAAAGTCATAACAGTTTCTCTCT-AAAAAAAAGAAAAAGA
1 AAAAGTCATAACAATTTCTCTCTCAAAAAAAA-AAAAAGA
37371617 AAAAGTCATAACAATTTCTCTCTCAAAAAAAAAAAAAG
1 AAAAGTCATAACAATTTCTCTCTCAAAAAAAAAAAAAG
37371655 TCATAACAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
39 28 0.78
40 8 0.22
ACGTcount: A:0.57, C:0.14, G:0.08, T:0.21
Consensus pattern (39 bp):
AAAAGTCATAACAATTTCTCTCTCAAAAAAAAAAAAAGA
Found at i:37373205 original size:132 final size:133
Alignment explanation
Indices: 37372959--37373241 Score: 338
Period size: 132 Copynumber: 2.1 Consensus size: 133
37372949 AAATTTGTTA
* * * *
37372959 ACAAATTATCTACTTTTTGGTGAATTACAAGAACATGACAAAGCCCGAACAAAAAACATGACTAG
1 ACAAATTATCTAATTTTTGGTGAATTACAAGAAAAAGACAAAACCCGAACAAAAAACATGACTAG
* * * * **
37373024 CGCGATTTGAACTTAAACAACATTTGGGGCGATAAACACCCTGACCATCAGATCATCACATGGGG
66 CGCGACTTGAACTCAAACAACATCTAGAACGATAAACACCCTGACCATCAGATCATCACATGGGG
37373089 TTC
131 TTC
* * * * *
37373092 ATAAATTATTTAATTTTTGGTGAATTACAA-AAAAAGGCAAAACCTGAACAAAAAACATGGCTAG
1 ACAAATTATCTAATTTTTGGTGAATTACAAGAAAAAGACAAAACCCGAACAAAAAACATGACTAG
* * * *
37373156 CGCGACTTGAA-TCCAAATC-ACATCTAGAACGATAAACACTCTGATCATCATATCATCACATTG
66 CGCGACTTGAACT-CAAA-CAACATCTAGAACGATAAACACCCTGACCATCAGATCATCACATGG
*
37373219 GTTTC
129 GGTTC
*
37373224 ACAAATCATCTAATTTTT
1 ACAAATTATCTAATTTTT
37373242 AAAACATACT
Statistics
Matches: 125, Mismatches: 23, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
131 1 0.01
132 96 0.77
133 28 0.22
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (133 bp):
ACAAATTATCTAATTTTTGGTGAATTACAAGAAAAAGACAAAACCCGAACAAAAAACATGACTAG
CGCGACTTGAACTCAAACAACATCTAGAACGATAAACACCCTGACCATCAGATCATCACATGGGG
TTC
Found at i:37373859 original size:28 final size:28
Alignment explanation
Indices: 37373822--37373876 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
37373812 ATCATCTAAC
37373822 ATTAAATAAATAATATAGGTTTAAAATT
1 ATTAAATAAATAATATAGGTTTAAAATT
* * *
37373850 ATTAAATAAATTATATATGTTTTAAAT
1 ATTAAATAAATAATATAGGTTTAAAAT
37373877 AATCTAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (28 bp):
ATTAAATAAATAATATAGGTTTAAAATT
Found at i:37374196 original size:22 final size:23
Alignment explanation
Indices: 37374151--37374197 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
37374141 AACAAAACTT
* *
37374151 TCAAAAGTGTTTATTTTTTTAATA
1 TCAAAAGTATTTA-TTTTTAAATA
37374175 TCAAAAGTATTTA-TTTTAAATA
1 TCAAAAGTATTTATTTTTAAATA
37374197 T
1 T
37374198 TTTTAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 9 0.43
24 12 0.57
ACGTcount: A:0.38, C:0.04, G:0.06, T:0.51
Consensus pattern (23 bp):
TCAAAAGTATTTATTTTTAAATA
Found at i:37377066 original size:14 final size:15
Alignment explanation
Indices: 37377041--37377080 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
37377031 ACACAAATTA
37377041 TTAAATTATAAT-AAT
1 TTAAA-TATAATAAAT
37377056 TTAAATATAATAAAT
1 TTAAATATAATAAAT
*
37377071 TAAAATATAA
1 TTAAATATAA
37377081 CCTGAGACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 6 0.26
15 17 0.74
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
TTAAATATAATAAAT
Found at i:37378200 original size:29 final size:32
Alignment explanation
Indices: 37378141--37378204 Score: 89
Period size: 29 Copynumber: 2.1 Consensus size: 32
37378131 TTTTAATGAT
* *
37378141 AAAATTATATTTTAATTTTTTAAAGATAATAA
1 AAAATTATATTTTAATTCTTTAAAAATAATAA
37378173 AAAATTA-A-TTTAA-TCTTTAAAAATAATAA
1 AAAATTATATTTTAATTCTTTAAAAATAATAA
37378202 AAA
1 AAA
37378205 TCAAAGCCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
29 17 0.57
30 5 0.17
31 1 0.03
32 7 0.23
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (32 bp):
AAAATTATATTTTAATTCTTTAAAAATAATAA
Found at i:37381983 original size:16 final size:16
Alignment explanation
Indices: 37381964--37382009 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
37381954 AGAATGGAAA
37381964 AAAATTAGAAAGATGG
1 AAAATTAGAAAGATGG
*
37381980 AAAATT-GAAAGGGTGG
1 AAAATTAGAAA-GATGG
*
37381996 AAAAATAGAAAGAT
1 AAAATTAGAAAGAT
37382010 AAAAAATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
15 4 0.16
16 17 0.68
17 4 0.16
ACGTcount: A:0.57, C:0.00, G:0.26, T:0.17
Consensus pattern (16 bp):
AAAATTAGAAAGATGG
Found at i:37382888 original size:15 final size:16
Alignment explanation
Indices: 37382860--37382890 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
37382850 TTTGCAATAT
37382860 TTTCTTGAAAAATTGA
1 TTTCTTGAAAAATTGA
37382876 TTTCTTG-AAAATTGA
1 TTTCTTGAAAAATTGA
37382891 AATCAAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.35, C:0.06, G:0.13, T:0.45
Consensus pattern (16 bp):
TTTCTTGAAAAATTGA
Found at i:37384974 original size:14 final size:13
Alignment explanation
Indices: 37384936--37384978 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
37384926 ACATCTTTAT
37384936 TTAATGTTTTGCA
1 TTAATGTTTTGCA
**
37384949 TTAATACATTTGCA
1 TTAAT-GTTTTGCA
37384963 TTATATGTTTTGCA
1 TTA-ATGTTTTGCA
37384977 TT
1 TT
37384979 TAATAAAGTC
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
13 5 0.21
14 17 0.71
15 2 0.08
ACGTcount: A:0.26, C:0.09, G:0.12, T:0.53
Consensus pattern (13 bp):
TTAATGTTTTGCA
Found at i:37386530 original size:23 final size:22
Alignment explanation
Indices: 37386502--37386553 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 22
37386492 TTCGAAGAGA
37386502 AAAAAATTCGAAATAGTAAAAAAAT
1 AAAAAA-T-GAAATAGT-AAAAAAT
37386527 AAAAAAATGAAATAGTAAAAAAT
1 -AAAAAATGAAATAGTAAAAAAT
37386550 AAAA
1 AAAA
37386554 GAAAATTCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
22 4 0.15
23 7 0.27
24 8 0.31
25 1 0.04
26 6 0.23
ACGTcount: A:0.73, C:0.02, G:0.08, T:0.17
Consensus pattern (22 bp):
AAAAAATGAAATAGTAAAAAAT
Found at i:37386534 original size:26 final size:27
Alignment explanation
Indices: 37386501--37386575 Score: 90
Period size: 26 Copynumber: 3.0 Consensus size: 27
37386491 ATTCGAAGAG
37386501 AAAAAAATTCGAAATAGTAAAAAAAT-
1 AAAAAAATTCGAAATAGTAAAAAAATA
37386527 AAAAAAA-T-GAAATAGT-AAAAAATA
1 AAAAAAATTCGAAATAGTAAAAAAATA
*
37386551 AAAGAAAATTC-AAA-ATTAAAAAAAT
1 AAA-AAAATTCGAAATAGTAAAAAAAT
37386576 CGATTAATAT
Statistics
Matches: 43, Mismatches: 1, Indels: 10
0.80 0.02 0.19
Matches are distributed among these distances:
23 7 0.16
24 11 0.26
25 7 0.16
26 18 0.42
ACGTcount: A:0.72, C:0.03, G:0.07, T:0.19
Consensus pattern (27 bp):
AAAAAAATTCGAAATAGTAAAAAAATA
Found at i:37386538 original size:24 final size:25
Alignment explanation
Indices: 37386501--37386553 Score: 83
Period size: 23 Copynumber: 2.2 Consensus size: 25
37386491 ATTCGAAGAG
37386501 AAAAAAATTCGAAATAGTAAAAAAAT
1 AAAAAAATTCGAAATAGT-AAAAAAT
37386527 AAAAAAA-T-GAAATAGTAAAAAAT
1 AAAAAAATTCGAAATAGTAAAAAAT
37386550 AAAA
1 AAAA
37386554 GAAAATTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
23 11 0.41
24 8 0.30
25 1 0.04
26 7 0.26
ACGTcount: A:0.74, C:0.02, G:0.08, T:0.17
Consensus pattern (25 bp):
AAAAAAATTCGAAATAGTAAAAAAT
Found at i:37387423 original size:19 final size:19
Alignment explanation
Indices: 37387376--37387431 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 19
37387366 AAGAGTTAAT
* *
37387376 AATGAGCGAAAAATAAAGGA
1 AATGAGAGAAAAA-AAAAGA
37387396 AATTGAGAGAAAAAAAAAGA
1 AA-TGAGAGAAAAAAAAAGA
37387416 AATGAGAGAAAAAAAA
1 AATGAGAGAAAAAAAA
37387432 TTCAAATAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 14 0.42
20 9 0.27
21 10 0.30
ACGTcount: A:0.68, C:0.02, G:0.21, T:0.09
Consensus pattern (19 bp):
AATGAGAGAAAAAAAAAGA
Found at i:37387443 original size:20 final size:19
Alignment explanation
Indices: 37387401--37387444 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
37387391 AAGGAAATTG
* *
37387401 AGAGAAAAAAAAAGAAATG
1 AGAGAAAAAAAAACAAATA
*
37387420 AGAGAAAAAAAATTCAAATA
1 AGAGAAAAAAAA-ACAAATA
37387440 AGAGA
1 AGAGA
37387445 TCTTGAGAGG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.70, C:0.02, G:0.18, T:0.09
Consensus pattern (19 bp):
AGAGAAAAAAAAACAAATA
Found at i:37389265 original size:50 final size:50
Alignment explanation
Indices: 37389211--37389387 Score: 201
Period size: 50 Copynumber: 3.5 Consensus size: 50
37389201 TTCTGCATTT
* * * *
37389211 AATAAAGTCATGCATTCTATAACTCTCATGTTAGTTAAGTATGCATCATA
1 AATAAAGACATGCATTATGTAACTCTCATGTTAGTTAAGTTTGCATCATA
* *
37389261 AATAATGACAGGCATTATGTAACTCTCATGTTAGTTAAGTTTGCATCATA
1 AATAAAGACATGCATTATGTAACTCTCATGTTAGTTAAGTTTGCATCATA
* * ** *
37389311 AATTATGACATGCATTATGTAACTCAAATGTTAGTTAAAGTTTGCATCATTG
1 AATAAAGACATGCATTATGTAACTCTCATGTTAGTT-AAGTTTGCATCA-TA
* * * *
37389363 AATTAAGTCATACATTAAGTAACTC
1 AATAAAGACATGCATTATGTAACTC
37389388 ATTTGTTCAT
Statistics
Matches: 110, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
50 76 0.69
51 12 0.11
52 22 0.20
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (50 bp):
AATAAAGACATGCATTATGTAACTCTCATGTTAGTTAAGTTTGCATCATA
Found at i:37389385 original size:52 final size:50
Alignment explanation
Indices: 37389238--37389414 Score: 178
Period size: 50 Copynumber: 3.5 Consensus size: 50
37389228 TATAACTCTC
* ** **
37389238 ATGTTAGTTAAGTATGCATCATAAA-TAATGACAGGCATTATGTAACTCTC
1 ATGTTAGTTAAGTTTGCATCATAAATTAA-GACATACATTATGTAACTCAA
* *
37389288 ATGTTAGTTAAGTTTGCATCATAAATTATGACATGCATTATGTAACTCAA
1 ATGTTAGTTAAGTTTGCATCATAAATTAAGACATACATTATGTAACTCAA
* * * *
37389338 ATGTTAGTTAAAGTTTGCATCATTGAATTAAGTCATACATTAAGTAACTCAT
1 ATGTTAGTT-AAGTTTGCATCA-TAAATTAAGACATACATTATGTAACTCAA
* * *
37389390 TTGTTCA-TTTAGTTTGCATCTTAAA
1 ATGTT-AGTTAAGTTTGCATCATAAA
37389415 CATGCATTTA
Statistics
Matches: 108, Mismatches: 15, Indels: 8
0.82 0.11 0.06
Matches are distributed among these distances:
50 54 0.50
51 24 0.22
52 29 0.27
53 1 0.01
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.39
Consensus pattern (50 bp):
ATGTTAGTTAAGTTTGCATCATAAATTAAGACATACATTATGTAACTCAA
Found at i:37395144 original size:21 final size:21
Alignment explanation
Indices: 37395120--37395173 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
37395110 CTTGTGATTG
*
37395120 TTCTACCGATACAAGT-GTAAC
1 TTCTACCGATACAAGTCAT-AC
* *
37395141 TTCTACCGAAACAAGTCATGC
1 TTCTACCGATACAAGTCATAC
37395162 TTCTACCGATAC
1 TTCTACCGATAC
37395174 TAAAAAATCC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 27 0.96
22 1 0.04
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.28
Consensus pattern (21 bp):
TTCTACCGATACAAGTCATAC
Found at i:37397612 original size:12 final size:12
Alignment explanation
Indices: 37397595--37397619 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
37397585 ACAGTTTGCC
37397595 CAATTGGGACAT
1 CAATTGGGACAT
37397607 CAATTGGGACAT
1 CAATTGGGACAT
37397619 C
1 C
37397620 TTTGTAATTC
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:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (12 bp):
CAATTGGGACAT
Found at i:37408199 original size:19 final size:18
Alignment explanation
Indices: 37408136--37408210 Score: 73
Period size: 18 Copynumber: 4.2 Consensus size: 18
37408126 TAACAAAACT
* *
37408136 CATAAAATAAGCAGTGCA
1 CATAAAATAAGCAATTCA
* *
37408154 CCTATAATAAGCAATTCA
1 CATAAAATAAGCAATTCA
37408172 CATAAAATAAGC-ATATCA
1 CATAAAATAAGCAAT-TCA
*
37408190 CATAAAAATATG-AATTCA
1 CAT-AAAATAAGCAATTCA
37408208 CAT
1 CAT
37408211 TAAACATAGA
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
17 2 0.04
18 36 0.77
19 9 0.19
ACGTcount: A:0.51, C:0.17, G:0.08, T:0.24
Consensus pattern (18 bp):
CATAAAATAAGCAATTCA
Found at i:37415944 original size:298 final size:298
Alignment explanation
Indices: 37415408--37416300 Score: 1588
Period size: 298 Copynumber: 3.0 Consensus size: 298
37415398 GGAAGAAGCG
* *
37415408 CAACCACCATAAGAGGAAAAGGACATTCACAATCAATCGGGTAACTTCTTTCCTTAATACTTTTT
1 CAACCACCATAAGAAGAAAAGGACATTCACGATCAATCGGGTAACTTCTTTCCTTAATACTTTTT
37415473 GGGCTACACGTTAAGGACAATGTGTTTTCTAAAGTGTGGGGGGATAACATAGGAATTTTTGGCAT
66 GGGCTACACGTTAAGGACAATGTGTTTTCTAAAGTGTGGGGGGATAACATAGGAATTTTTGGCAT
*
37415538 ATAGTTTTTATTTTTATTTTGACTTTTTGATGTGAGCTTGAGCTTGTAGAAATACAAGTGATTGG
131 ATAGTTTTTATTTTTATTTTGACTTTTTGATGTGTGCTTGAGCTTGTAGAAATACAAGTGATTGG
37415603 TTATGAGCATGTATAATAGGTTGATTGTGTTTTCTTGATAAACTTGGCATGATGATGAGGAATTT
196 TTATGAGCATGTATAATAGGTTGATTGTGTTTTCTTGATAAACTTGGCATGATGATGAGGAATTT
37415668 TACATTTTTGAGCATGAAATTTTTGAAGTTCTATAGGA
261 TACATTTTTGAGCATGAAATTTTTGAAGTTCTATAGGA
37415706 CAACCACCATAAGAAGAAAAGGACATTCACGATCAATCGGGTAACTTCTTTCCTTAATACTTTTT
1 CAACCACCATAAGAAGAAAAGGACATTCACGATCAATCGGGTAACTTCTTTCCTTAATACTTTTT
* ** *
37415771 GGGCTACACGTCAAGGACAATGTGTTTTCTAAAGTGTAAGGGGATAACATAGGAATTTTTGGCAC
66 GGGCTACACGTTAAGGACAATGTGTTTTCTAAAGTGTGGGGGGATAACATAGGAATTTTTGGCAT
* *
37415836 ATAGTTTTTATTTTTATTTTGACATTTTGATGTGTGCTTGAGCTTGTAGAAATACAAGTGATTGA
131 ATAGTTTTTATTTTTATTTTGACTTTTTGATGTGTGCTTGAGCTTGTAGAAATACAAGTGATTGG
* *
37415901 TTATGAGCATATATAATAGGTTGATTGTGTTTTCTTGATAAACTTGGCATGGTGATGAGGAATTT
196 TTATGAGCATGTATAATAGGTTGATTGTGTTTTCTTGATAAACTTGGCATGATGATGAGGAATTT
37415966 TACATTTTTGAGCATGAAATTTTTGAAGTTCTATAGGA
261 TACATTTTTGAGCATGAAATTTTTGAAGTTCTATAGGA
37416004 CAACCACCATAAGAAGAAAAGGACATTCACGATCAATCGGGTAACTTCTTTCCTTAATACTTTTT
1 CAACCACCATAAGAAGAAAAGGACATTCACGATCAATCGGGTAACTTCTTTCCTTAATACTTTTT
* * *
37416069 GGGCTACACGTTAATGACAATGTGTTTTTTAAAGTGTGGGGGGATAACATACGAATTTTTGGCAT
66 GGGCTACACGTTAAGGACAATGTGTTTTCTAAAGTGTGGGGGGATAACATAGGAATTTTTGGCAT
* * *
37416134 ATAGTTTCTATTTTTATTTTGACTTTTTGATGTGTGTTTGAGCTTGTAGAAATACAAATGATTGG
131 ATAGTTTTTATTTTTATTTTGACTTTTTGATGTGTGCTTGAGCTTGTAGAAATACAAGTGATTGG
* * *
37416199 TTAGGAGAATGTATAATAGGTTGATTGTGTTTTCTTGATAAACTTGGCATGATGATGAGGAGTTT
196 TTATGAGCATGTATAATAGGTTGATTGTGTTTTCTTGATAAACTTGGCATGATGATGAGGAATTT
* *
37416264 TACATTTTTTAGCATGGAATTTTTGAAGTTCTATAGG
261 TACATTTTTGAGCATGAAATTTTTGAAGTTCTATAGG
37416301 TTACATTATG
Statistics
Matches: 565, Mismatches: 30, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
298 565 1.00
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.38
Consensus pattern (298 bp):
CAACCACCATAAGAAGAAAAGGACATTCACGATCAATCGGGTAACTTCTTTCCTTAATACTTTTT
GGGCTACACGTTAAGGACAATGTGTTTTCTAAAGTGTGGGGGGATAACATAGGAATTTTTGGCAT
ATAGTTTTTATTTTTATTTTGACTTTTTGATGTGTGCTTGAGCTTGTAGAAATACAAGTGATTGG
TTATGAGCATGTATAATAGGTTGATTGTGTTTTCTTGATAAACTTGGCATGATGATGAGGAATTT
TACATTTTTGAGCATGAAATTTTTGAAGTTCTATAGGA
Found at i:37418890 original size:31 final size:32
Alignment explanation
Indices: 37418840--37418909 Score: 115
Period size: 31 Copynumber: 2.2 Consensus size: 32
37418830 CCATATATGC
* *
37418840 ATATATATAATCAAGACCCACGCATATATATT
1 ATATATATAATCAAAACCCACACATATATATT
37418872 ATATATATAA-CAAAACCCACACATATATATT
1 ATATATATAATCAAAACCCACACATATATATT
37418903 ATATATA
1 ATATATA
37418910 CACATACCTT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
31 26 0.72
32 10 0.28
ACGTcount: A:0.49, C:0.17, G:0.03, T:0.31
Consensus pattern (32 bp):
ATATATATAATCAAAACCCACACATATATATT
Found at i:37422789 original size:26 final size:26
Alignment explanation
Indices: 37422760--37422896 Score: 127
Period size: 26 Copynumber: 5.3 Consensus size: 26
37422750 TAGCTCATAT
*
37422760 GAGCCAGTTTAGCT-TATCGCTCTTTC
1 GAGCCAGTTCAG-TATATCGCTCTTTC
* ** *
37422786 GAGCCAGTGT-AGTATATCACTGATAC
1 GAGCCAGT-TCAGTATATCGCTCTTTC
* * *
37422812 GAGCTAGTTCAGCATATCGCTCTTTT
1 GAGCCAGTTCAGTATATCGCTCTTTC
*
37422838 GAGCCAGTGCAGTATATCGCTCTTAT-
1 GAGCCAGTTCAGTATATCGCTCTT-TC
* *
37422864 GAGCTAGTTCAGTATATCGCTCTTAC
1 GAGCCAGTTCAGTATATCGCTCTTTC
37422890 GAGCCAG
1 GAGCCAG
37422897 ATGACATATC
Statistics
Matches: 88, Mismatches: 18, Indels: 10
0.76 0.16 0.09
Matches are distributed among these distances:
25 2 0.02
26 84 0.95
27 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.32
Consensus pattern (26 bp):
GAGCCAGTTCAGTATATCGCTCTTTC
Found at i:37422852 original size:52 final size:52
Alignment explanation
Indices: 37422753--37422896 Score: 180
Period size: 52 Copynumber: 2.8 Consensus size: 52
37422743 AAAAATTTAG
* * * * *
37422753 CTCATATGAGCCAGTTTAGCTTATCGCTCTTTCGAGCCAGTGTAGTATATCA
1 CTCATACGAGCTAGTTCAGCATATCGCTCTTTCGAGCCAGTGCAGTATATCA
* * *
37422805 CTGATACGAGCTAGTTCAGCATATCGCTCTTTTGAGCCAGTGCAGTATATCG
1 CTCATACGAGCTAGTTCAGCATATCGCTCTTTCGAGCCAGTGCAGTATATCA
* * * *
37422857 CTCTTATGAGCTAGTTCAGTATATCGCTCTTACGAGCCAG
1 CTCATACGAGCTAGTTCAGCATATCGCTCTTTCGAGCCAG
37422897 ATGACATATC
Statistics
Matches: 78, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
52 78 1.00
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.33
Consensus pattern (52 bp):
CTCATACGAGCTAGTTCAGCATATCGCTCTTTCGAGCCAGTGCAGTATATCA
Found at i:37423064 original size:24 final size:24
Alignment explanation
Indices: 37423030--37423222 Score: 197
Period size: 24 Copynumber: 8.0 Consensus size: 24
37423020 AAGTTTAGTG
* * * *
37423030 CGTTTACGCTCACCAGCTAATGTA
1 CGTTTATGCTCATCAGCCACTGTA
* * *
37423054 CGTTTATGCTCATTAGTCACTATA
1 CGTTTATGCTCATCAGCCACTGTA
*
37423078 CGTTTATGCTCGTCAGCCACTGTA
1 CGTTTATGCTCATCAGCCACTGTA
37423102 CGTTTATGCTCATCAGCCACTGTA
1 CGTTTATGCTCATCAGCCACTGTA
* * * *
37423126 CATTTATGCTTATCAGCCATTGTG
1 CGTTTATGCTCATCAGCCACTGTA
* ** *
37423150 CATTTATGCTTGTTAGCCACTGTA
1 CGTTTATGCTCATCAGCCACTGTA
* * *
37423174 CGTTTATGCTCGTCAGTCACTATA
1 CGTTTATGCTCATCAGCCACTGTA
* *
37423198 CGTTTATGCTCATTAACCACTGTA
1 CGTTTATGCTCATCAGCCACTGTA
37423222 C
1 C
37423223 ATTTGATACT
Statistics
Matches: 139, Mismatches: 30, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 139 1.00
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.37
Consensus pattern (24 bp):
CGTTTATGCTCATCAGCCACTGTA
Found at i:37423105 original size:48 final size:48
Alignment explanation
Indices: 37423050--37423222 Score: 220
Period size: 48 Copynumber: 3.6 Consensus size: 48
37423040 CACCAGCTAA
* *
37423050 TGTACGTTTATGCTCATTAGTCACTATACGTTTATGCTCGTCAGCCAC
1 TGTACGTTTATGCTCATTAGCCACTGTACGTTTATGCTCGTCAGCCAC
* * ** *
37423098 TGTACGTTTATGCTCATCAGCCACTGTACATTTATGCTTATCAGCCAT
1 TGTACGTTTATGCTCATTAGCCACTGTACGTTTATGCTCGTCAGCCAC
* * ** *
37423146 TGTGCATTTATGCTTGTTAGCCACTGTACGTTTATGCTCGTCAGTCAC
1 TGTACGTTTATGCTCATTAGCCACTGTACGTTTATGCTCGTCAGCCAC
* *
37423194 TATACGTTTATGCTCATTAACCACTGTAC
1 TGTACGTTTATGCTCATTAGCCACTGTAC
37423223 ATTTGATACT
Statistics
Matches: 102, Mismatches: 23, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
48 102 1.00
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.38
Consensus pattern (48 bp):
TGTACGTTTATGCTCATTAGCCACTGTACGTTTATGCTCGTCAGCCAC
Found at i:37423226 original size:72 final size:72
Alignment explanation
Indices: 37423052--37423226 Score: 224
Period size: 72 Copynumber: 2.4 Consensus size: 72
37423042 CCAGCTAATG
* * *
37423052 TACGTTTATGCTCATTAGTCACTATACGTTTATGCTCGTCAGCCACTGTACGTTTATGCTCATCA
1 TACGTTTATGCTCATTAGCCACTGTACATTTATGCTCGTCAGCCACTGTACGTTTATGCTCATCA
*
37423117 GCCACTG
66 GCCACTA
* * * * * * * *
37423124 TACATTTATGCTTATCAGCCATTGTGCATTTATGCTTGTTAGCCACTGTACGTTTATGCTCGTCA
1 TACGTTTATGCTCATTAGCCACTGTACATTTATGCTCGTCAGCCACTGTACGTTTATGCTCATCA
*
37423189 GTCACTA
66 GCCACTA
*
37423196 TACGTTTATGCTCATTAACCACTGTACATTT
1 TACGTTTATGCTCATTAGCCACTGTACATTT
37423227 GATACTTTTA
Statistics
Matches: 84, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
72 84 1.00
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (72 bp):
TACGTTTATGCTCATTAGCCACTGTACATTTATGCTCGTCAGCCACTGTACGTTTATGCTCATCA
GCCACTA
Found at i:37425772 original size:5 final size:5
Alignment explanation
Indices: 37425762--37425803 Score: 52
Period size: 5 Copynumber: 8.8 Consensus size: 5
37425752 TGGATACGAT
* *
37425762 TTTTA TTTTA TTTTA TTTTG GTTT- TTTTA TTTT- TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
37425804 TCATCTTTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
4 7 0.22
5 25 0.78
ACGTcount: A:0.12, C:0.00, G:0.05, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:37425795 original size:9 final size:9
Alignment explanation
Indices: 37425762--37425804 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
37425752 TGGATACGAT
37425762 TTTTATTTTA
1 TTTT-TTTTA
*
37425772 TTTTATTTTG
1 TTTT-TTTTA
*
37425782 GTTTTTTTA
1 TTTTTTTTA
37425791 TTTTTTTTA
1 TTTTTTTTA
37425800 TTTTT
1 TTTTT
37425805 CATCTTTTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
9 17 0.59
10 12 0.41
ACGTcount: A:0.12, C:0.00, G:0.05, T:0.84
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:37425812 original size:24 final size:24
Alignment explanation
Indices: 37425761--37425812 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
37425751 ATGGATACGA
** *
37425761 TTTTTATTTTATTTTATTTTGGTT
1 TTTTTATTTTATTTTATTTTCATC
37425785 TTTTTATTTT-TTTTATTTTTCATC
1 TTTTTATTTTATTTTA-TTTTCATC
37425809 TTTT
1 TTTT
37425813 CTTTATTTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 5 0.21
24 19 0.79
ACGTcount: A:0.12, C:0.04, G:0.04, T:0.81
Consensus pattern (24 bp):
TTTTTATTTTATTTTATTTTCATC
Found at i:37468417 original size:23 final size:22
Alignment explanation
Indices: 37468391--37468443 Score: 54
Period size: 22 Copynumber: 2.3 Consensus size: 22
37468381 AATTCATGAA
37468391 AAATATTATAGTAGAAA-ATTTTT
1 AAATATTA-AGTA-AAACATTTTT
* *
37468414 AAATAATAATTAAAACATTTTT
1 AAATATTAAGTAAAACATTTTT
37468436 AACATATT
1 AA-ATATT
37468444 CAACGAACAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
21 3 0.12
22 11 0.44
23 11 0.44
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.42
Consensus pattern (22 bp):
AAATATTAAGTAAAACATTTTT
Found at i:37468812 original size:18 final size:18
Alignment explanation
Indices: 37468770--37468806 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
37468760 AATAATATTT
*
37468770 ATAATAAAAAAATTGAAA
1 ATAATATAAAAATTGAAA
*
37468788 ATAATATAAAAATTTAAA
1 ATAATATAAAAATTGAAA
37468806 A
1 A
37468807 CTATATTAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (18 bp):
ATAATATAAAAATTGAAA
Found at i:37473602 original size:21 final size:21
Alignment explanation
Indices: 37473560--37473602 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
37473550 CTGCTTCTGT
* *
37473560 ATCCTCAGATCTCCCAGTAGC
1 ATCCTCAAATCTCCCAGCAGC
*
37473581 ATCCTCAAATCTCCCTGCAGC
1 ATCCTCAAATCTCCCAGCAGC
37473602 A
1 A
37473603 ATATTTCTGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.40, G:0.12, T:0.23
Consensus pattern (21 bp):
ATCCTCAAATCTCCCAGCAGC
Found at i:37475289 original size:3 final size:3
Alignment explanation
Indices: 37475281--37475322 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
37475271 AACTTAATGT
37475281 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
37475323 GCACTAGTGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:37475573 original size:15 final size:15
Alignment explanation
Indices: 37475546--37475581 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
37475536 AAAATCGTTA
37475546 TATATTTTTTAATAT
1 TATATTTTTTAATAT
37475561 T-TATTTATTTAATAT
1 TATATTT-TTTAATAT
37475576 TATATT
1 TATATT
37475582 ATATCTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 5 0.26
15 10 0.53
16 4 0.21
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TATATTTTTTAATAT
Found at i:37476358 original size:3 final size:3
Alignment explanation
Indices: 37476350--37476377 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
37476340 ACATGTGTGT
37476350 TCA TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA T
37476378 TAGTGGTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (3 bp):
TCA
Found at i:37480990 original size:20 final size:21
Alignment explanation
Indices: 37480949--37480990 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
37480939 AAACAATGAC
**
37480949 AAAAAGTATCGATACCTTTTT
1 AAAAAGTATCGATACCAGTTT
37480970 AAAAAGTATCGATA-CAGTTT
1 AAAAAGTATCGATACCAGTTT
37480990 A
1 A
37480991 TTAGGTATCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (21 bp):
AAAAAGTATCGATACCAGTTT
Found at i:37482486 original size:22 final size:23
Alignment explanation
Indices: 37482453--37482499 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
37482443 AATAAATTCT
*
37482453 TTGGATTAAAGCATTTCTAC-CA
1 TTGGATTAAAGCAATTCTACACA
37482475 TTGGAATT-AAGCAATTCTACACA
1 TTGG-ATTAAAGCAATTCTACACA
37482498 TT
1 TT
37482500 TTAAGTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (23 bp):
TTGGATTAAAGCAATTCTACACA
Found at i:37484538 original size:10 final size:9
Alignment explanation
Indices: 37484481--37484640 Score: 53
Period size: 9 Copynumber: 17.1 Consensus size: 9
37484471 TTTTTTTAAA
37484481 TATAATTTTT
1 TATAA-TTTT
*
37484491 TACAATTTT
1 TATAATTTT
37484500 TAT-ATTTGCT
1 TATAATTT--T
37484510 TA-ATATTTT
1 TATA-ATTTT
37484519 TATAATTTT
1 TATAATTTT
*
37484528 TATTATATTT
1 TATAAT-TTT
*
37484538 TA-ATTTTTT
1 TATA-ATTTT
* *
37484547 TACAAATTAT
1 TA-TAATTTT
*
37484557 AATAATTTT
1 TATAATTTT
*
37484566 TA-ATTTTT
1 TATAATTTT
37484574 TATAATTTTAT
1 TATAA-TTT-T
* *
37484585 TACAATTTC
1 TATAATTTT
* *
37484594 AATAATCTAT
1 TATAAT-TTT
37484604 TAGTAATTTT
1 TA-TAATTTT
37484614 TAT-ATTTT
1 TATAATTTT
*
37484622 T-TCAATATT
1 TAT-AATTTT
*
37484631 TACAATTTT
1 TATAATTTT
37484640 T
1 T
37484641 TTTGATGAAT
Statistics
Matches: 109, Mismatches: 24, Indels: 35
0.65 0.14 0.21
Matches are distributed among these distances:
7 1 0.01
8 17 0.16
9 47 0.43
10 30 0.28
11 14 0.13
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.61
Consensus pattern (9 bp):
TATAATTTT
Found at i:37484540 original size:28 final size:28
Alignment explanation
Indices: 37484465--37484631 Score: 91
Period size: 28 Copynumber: 6.0 Consensus size: 28
37484455 GTGGTACTTC
* *
37484465 TTATAATTTTT-TTA-AATATAAT-TTT
1 TTATAATTTTTATTATATTTTAATATTT
*
37484490 TTACAATTTTTA-TAT-TTGCTTAATATTT
1 TTATAATTTTTATTATATT--TTAATATTT
*
37484518 TTATAATTTTTATTATATTTTAATTTTT
1 TTATAATTTTTATTATATTTTAATATTT
* * * *
37484546 TTACAAATTATAATA-ATTTTTAAT-TTT
1 TTATAATTTTTATTATA-TTTTAATATTT
* * *
37484573 TTATAA-TTTTATTACAATTTCAATAATCTA
1 TTATAATTTTTATTA-TATTTTAAT-AT-TT
*
37484603 TTAGTAATTTTTA-TATTTTTTCAATATTT
1 TTA-TAATTTTTATTATATTTT-AATATTT
37484632 ACAATTTTTT
Statistics
Matches: 108, Mismatches: 18, Indels: 28
0.70 0.12 0.18
Matches are distributed among these distances:
25 13 0.12
26 6 0.06
27 19 0.18
28 41 0.38
29 5 0.05
30 11 0.10
31 8 0.07
32 5 0.05
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (28 bp):
TTATAATTTTTATTATATTTTAATATTT
Found at i:37485270 original size:17 final size:18
Alignment explanation
Indices: 37485241--37485277 Score: 67
Period size: 17 Copynumber: 2.1 Consensus size: 18
37485231 TGAATTTGAT
37485241 TTTTTAATAATTTTTTAA
1 TTTTTAATAATTTTTTAA
37485259 TTTTTAAT-ATTTTTTAA
1 TTTTTAATAATTTTTTAA
37485276 TT
1 TT
37485278 GAATCTATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTTTAATAATTTTTTAA
Found at i:37485553 original size:12 final size:12
Alignment explanation
Indices: 37485536--37485561 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
37485526 TTGATTTTAC
37485536 CATTTTAACTAA
1 CATTTTAACTAA
37485548 CATTTTAACTAA
1 CATTTTAACTAA
37485560 CA
1 CA
37485562 CCTCATTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.38
Consensus pattern (12 bp):
CATTTTAACTAA
Found at i:37494383 original size:17 final size:19
Alignment explanation
Indices: 37494351--37494386 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
37494341 TAAATTTTGG
37494351 AATTTTTATAAATATTTTT
1 AATTTTTATAAATATTTTT
37494370 AATTTTT-T-AATATTTTT
1 AATTTTTATAAATATTTTT
37494387 GTAATTTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
18 1 0.06
19 7 0.41
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
AATTTTTATAAATATTTTT
Found at i:37494391 original size:19 final size:20
Alignment explanation
Indices: 37494344--37494395 Score: 65
Period size: 19 Copynumber: 2.7 Consensus size: 20
37494334 GAAAATATAA
*
37494344 ATTTTGGAATTTTTATAAAT
1 ATTTTGTAATTTTTATAAAT
37494364 ATTTT-TAATTTTT-T-AAT
1 ATTTTGTAATTTTTATAAAT
37494381 ATTTTTGTAATTTTT
1 A-TTTTGTAATTTTT
37494396 GTTGAGAGAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 4 0.14
18 5 0.17
19 15 0.52
20 5 0.17
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (20 bp):
ATTTTGTAATTTTTATAAAT
Found at i:37494678 original size:13 final size:13
Alignment explanation
Indices: 37494662--37494687 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37494652 TTCTGTGGAG
37494662 AAGTTGAAACGGT
1 AAGTTGAAACGGT
37494675 AAGTTGAAACGGT
1 AAGTTGAAACGGT
37494688 GAGCCATGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.31, T:0.23
Consensus pattern (13 bp):
AAGTTGAAACGGT
Found at i:37502967 original size:14 final size:12
Alignment explanation
Indices: 37502948--37502985 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 12
37502938 ATTTGCATAC
37502948 TTATTTTATTCATT
1 TTATTTTATT--TT
37502962 TTATTTTATTTT
1 TTATTTTATTTT
37502974 TTA-TTTATTTT
1 TTATTTTATTTT
37502985 T
1 T
37502986 GCTACTCTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 9 0.38
12 5 0.21
14 10 0.42
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (12 bp):
TTATTTTATTTT
Found at i:37503068 original size:97 final size:94
Alignment explanation
Indices: 37502960--37503148 Score: 236
Period size: 97 Copynumber: 2.0 Consensus size: 94
37502950 ATTTTATTCA
* * * *
37502960 TTTTATTTTATTTTTTATTTATTT-TTGCTACTCTTATTTTTTGATATTTATATTTTTGCCCCAT
1 TTTTATTTTATTATTTATTTATTTATAGCTACT-TTATTTTTGGATATTTACATTTTTGCCCCAT
37503024 TAAATTTCATTTAAATTTCAATTTAGTCCTC
65 TAAATTTC-TTTAAATTTCAATTTAGTCCTC
* * * **
37503055 TTTTACTTATTATTATTTATTTATTTATAGCTCCTTTATTTTTGGATATTTACATTTTTTCTCTT
1 TTTTA-TT-TTATTATTTATTTATTTATAGCTACTTTATTTTTGGATATTTACATTTTTGCCCCA
* *
37503120 TTGAATTTCTTTAAGTTTCAATTTAGTCC
64 TTAAATTTCTTTAAATTTCAATTTAGTCC
37503149 ATTGCTTATT
Statistics
Matches: 80, Mismatches: 11, Indels: 5
0.83 0.11 0.05
Matches are distributed among these distances:
95 5 0.06
96 21 0.26
97 48 0.60
98 6 0.08
ACGTcount: A:0.22, C:0.12, G:0.05, T:0.61
Consensus pattern (94 bp):
TTTTATTTTATTATTTATTTATTTATAGCTACTTTATTTTTGGATATTTACATTTTTGCCCCATT
AAATTTCTTTAAATTTCAATTTAGTCCTC
Found at i:37503163 original size:4 final size:4
Alignment explanation
Indices: 37503154--37503207 Score: 58
Period size: 4 Copynumber: 13.5 Consensus size: 4
37503144 AGTCCATTGC
* *
37503154 TTAT TTAT TTAT TTATT TTAT ATAT TT-C TT-T TTATT TTAT TTAT TTAT
1 TTAT TTAT TTAT TTA-T TTAT TTAT TTAT TTAT TTA-T TTAT TTAT TTAT
37503202 TTAT TT
1 TTAT TT
37503208 CTAGCTCTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
3 4 0.09
4 31 0.72
5 8 0.19
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:37503188 original size:27 final size:27
Alignment explanation
Indices: 37503157--37503209 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
37503147 CCATTGCTTA
37503157 TTTA-TTTATTTATTTTATATATTTCTT
1 TTTATTTTATTTA-TTTATATATTTCTT
*
37503184 TTTATTTTATTTATTTATTTATTTCT
1 TTTATTTTATTTATTTATATATTTCT
37503210 AGCTCTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 16 0.67
28 8 0.33
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.75
Consensus pattern (27 bp):
TTTATTTTATTTATTTATATATTTCTT
Found at i:37503219 original size:32 final size:32
Alignment explanation
Indices: 37503156--37503234 Score: 79
Period size: 32 Copynumber: 2.4 Consensus size: 32
37503146 TCCATTGCTT
**
37503156 ATTTATTTATTTATTTTATATATTTCTTTTTA
1 ATTTATTTATTTATTTTATATAGCTCTTTTTA
* * *
37503188 TTTTATTTATTTATTTATTTCTAGCTC-TTTTA
1 ATTTATTTATTTATTT-TATATAGCTCTTTTTA
*
37503220 ATTTATGCTATTTAT
1 ATTTAT-TTATTTAT
37503235 AGTTTTGTCC
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
32 25 0.66
33 13 0.34
ACGTcount: A:0.23, C:0.06, G:0.03, T:0.68
Consensus pattern (32 bp):
ATTTATTTATTTATTTTATATAGCTCTTTTTA
Found at i:37503331 original size:3 final size:3
Alignment explanation
Indices: 37503323--37503381 Score: 68
Period size: 3 Copynumber: 20.3 Consensus size: 3
37503313 TATTTTTCCT
* * *
37503323 TTA TTA TTA TTA TTA TTA TTA TT- GTA TT- TGA TTA ATA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
37503369 TTA TTA TCA TTA T
1 TTA TTA TTA TTA T
37503382 AGTTAAATCA
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
2 2 0.04
3 44 0.96
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:37504268 original size:37 final size:38
Alignment explanation
Indices: 37504227--37504304 Score: 99
Period size: 37 Copynumber: 2.1 Consensus size: 38
37504217 TGGTGCTATT
*
37504227 TTTTTATTGTTTTGGT-TTTTTTTGCTATT-TTTT-GTTG
1 TTTTTACTGTTTTGGTATTTTTTT--TATTGTTTTAGTTG
37504264 TTTTTACTGTTTTGGTACTTTTTTTTATTGTTTTAGTTG
1 TTTTTACTGTTTTGGTA-TTTTTTTTATTGTTTTAGTTG
37504303 TT
1 TT
37504305 GTTTTCGTGT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
37 19 0.53
38 4 0.11
39 13 0.36
ACGTcount: A:0.08, C:0.04, G:0.15, T:0.73
Consensus pattern (38 bp):
TTTTTACTGTTTTGGTATTTTTTTTATTGTTTTAGTTG
Found at i:37504298 original size:29 final size:29
Alignment explanation
Indices: 37504212--37504298 Score: 86
Period size: 29 Copynumber: 3.0 Consensus size: 29
37504202 ATTATATTAT
**
37504212 TGTTTTGGTGCTATTTTTTTATTGTTTTGG
1 TGTTTTGGTGCT-TTTTTTTATTGTTTTAC
** * *
37504242 T-TTTTTTTGCTATTTTTTGTTGTTTTTAC
1 TGTTTTGGTGCTTTTTTTTATTG-TTTTAC
*
37504271 TGTTTTGGTACTTTTTTTTATTGTTTTA
1 TGTTTTGGTGCTTTTTTTTATTGTTTTA
37504299 GTTGTTGTTT
Statistics
Matches: 44, Mismatches: 11, Indels: 5
0.73 0.18 0.08
Matches are distributed among these distances:
28 9 0.20
29 18 0.41
30 17 0.39
ACGTcount: A:0.08, C:0.05, G:0.16, T:0.71
Consensus pattern (29 bp):
TGTTTTGGTGCTTTTTTTTATTGTTTTAC
Found at i:37504309 original size:21 final size:21
Alignment explanation
Indices: 37504258--37504309 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
37504248 TTGCTATTTT
*
37504258 TTGTTGTTTTTACTGTTTTGG
1 TTGTTGTTTTTACTGTTTTAG
** * *
37504279 TACTTTTTTTTATTGTTTTAG
1 TTGTTGTTTTTACTGTTTTAG
37504300 TTGTTGTTTT
1 TTGTTGTTTT
37504310 CGTGTTGTTT
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.08, C:0.04, G:0.17, T:0.71
Consensus pattern (21 bp):
TTGTTGTTTTTACTGTTTTAG
Found at i:37505379 original size:25 final size:25
Alignment explanation
Indices: 37505351--37505398 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
37505341 CTATACTTTA
37505351 ATAAAA-TTGAAGAAAAATAATTTTT
1 ATAAAACTT-AAGAAAAATAATTTTT
* *
37505376 ATAAAACTTTATAAAAATAATTT
1 ATAAAACTTAAGAAAAATAATTT
37505399 AGTTTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 18 0.90
26 2 0.10
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (25 bp):
ATAAAACTTAAGAAAAATAATTTTT
Found at i:37505575 original size:97 final size:94
Alignment explanation
Indices: 37505405--37505579 Score: 224
Period size: 97 Copynumber: 1.8 Consensus size: 94
37505395 ATTTAGTTTT
* * **
37505405 TTTTATAAATTTTTATTTTTTAATTAATTTCTAACAATTTTTAAAATTAATTCTTTTTAAACTTT
1 TTTTATAAAATTTTATTTCTTAATTAATTTCTAACAATTTTTAAAATTAATTCTTTCAAAACTTT
37505470 TATGGTTTTTAATAAATTTTTTTTATAAG
66 TATGGTTTTTAATAAATTTTTTTTATAAG
* * ** * *
37505499 TTTTATAAAATTTTATGGTTCTTATTTAATTTCTAACCATTTTTTAAAATTGTTTGTTTCAAAAT
1 TTTTATAAAATTTTAT--TTCTTAATTAATTTCTAA-CAATTTTTAAAATTAATTCTTTCAAAAC
*
37505564 TTTTATTGTTTTTAAT
63 TTTTATGGTTTTTAAT
37505580 TTTTAATTAA
Statistics
Matches: 67, Mismatches: 11, Indels: 3
0.83 0.14 0.04
Matches are distributed among these distances:
94 15 0.22
96 16 0.24
97 36 0.54
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (94 bp):
TTTTATAAAATTTTATTTCTTAATTAATTTCTAACAATTTTTAAAATTAATTCTTTCAAAACTTT
TATGGTTTTTAATAAATTTTTTTTATAAG
Found at i:37505600 original size:19 final size:20
Alignment explanation
Indices: 37505576--37505613 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
37505566 TTATTGTTTT
*
37505576 TAATTTT-TAATTAAAATAA
1 TAATTTTATAAATAAAATAA
37505595 TAATTTTATAAATAAAATA
1 TAATTTTATAAATAAAATA
37505614 TTTAAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TAATTTTATAAATAAAATAA
Found at i:37505609 original size:15 final size:15
Alignment explanation
Indices: 37505588--37505628 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
37505578 ATTTTTAATT
37505588 AAAATAATAATTTTA
1 AAAATAATAATTTTA
*
37505603 TAAATAA-AATATTTA
1 AAAATAATAAT-TTTA
37505618 AAAAT-ATAATT
1 AAAATAATAATT
37505629 GATATTGACC
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
14 5 0.23
15 17 0.77
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
AAAATAATAATTTTA
Found at i:37508506 original size:24 final size:24
Alignment explanation
Indices: 37508474--37508520 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
37508464 TAAGGGATCA
37508474 ATCTAAATATACAATTAGGCTCTT
1 ATCTAAATATACAATTAGGCTCTT
37508498 ATCTAAATATACAATTAGGCTCT
1 ATCTAAATATACAATTAGGCTCT
37508521 AGTAATTGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.36
Consensus pattern (24 bp):
ATCTAAATATACAATTAGGCTCTT
Found at i:37528128 original size:23 final size:23
Alignment explanation
Indices: 37528102--37528147 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
37528092 TGATCTACAT
37528102 AATTT-TTTAATATGATATTTGAA
1 AATTTCTTT-ATATGATATTTGAA
* *
37528125 AATTTCTTTTTATTATATTTGAA
1 AATTTCTTTATATGATATTTGAA
37528148 TTATAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.57
Consensus pattern (23 bp):
AATTTCTTTATATGATATTTGAA
Found at i:37528221 original size:23 final size:23
Alignment explanation
Indices: 37528191--37528234 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
37528181 TTAAATTTTT
37528191 AAAAATTAAT-TAAAA-TAATTAA
1 AAAAATT-ATCTAAAATTAATTAA
37528213 AAAACATTATCTAAAATTAATT
1 AAAA-ATTATCTAAAATTAATT
37528235 TAAATATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 6 0.32
23 8 0.42
24 5 0.26
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (23 bp):
AAAAATTATCTAAAATTAATTAA
Found at i:37528291 original size:16 final size:16
Alignment explanation
Indices: 37528265--37528331 Score: 80
Period size: 16 Copynumber: 4.2 Consensus size: 16
37528255 GGTTCATTGG
*
37528265 AATGGAATAGAGCTGT
1 AATGAAATAGAGCTGT
* *
37528281 AATAAAATAGAACTGT
1 AATGAAATAGAGCTGT
* *
37528297 AATGAAATAAAGTTGT
1 AATGAAATAGAGCTGT
*
37528313 AATGAAATAGAGTTGT
1 AATGAAATAGAGCTGT
37528329 AAT
1 AAT
37528332 CAGTAATTCA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 43 1.00
ACGTcount: A:0.48, C:0.03, G:0.21, T:0.28
Consensus pattern (16 bp):
AATGAAATAGAGCTGT
Found at i:37529505 original size:21 final size:21
Alignment explanation
Indices: 37529481--37529531 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
37529471 ATAATAGCAT
37529481 AATCAAAATATAAAGTTTAGA
1 AATCAAAATATAAAGTTTAGA
* * *
37529502 AATCCAAACATAAAGTTTATA
1 AATCAAAATATAAAGTTTAGA
37529523 AATCAAAAT
1 AATCAAAAT
37529532 TACATAATCC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.57, C:0.10, G:0.06, T:0.27
Consensus pattern (21 bp):
AATCAAAATATAAAGTTTAGA
Found at i:37532068 original size:29 final size:29
Alignment explanation
Indices: 37532025--37532084 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
37532015 CCTTCTATAG
*
37532025 AAGAAAATTATCCCTACCATCATTGGTTA
1 AAGAAAATTAACCCTACCATCATTGGTTA
* *
37532054 AAGAAAATTAACCCTACCGTCGTTGGTTA
1 AAGAAAATTAACCCTACCATCATTGGTTA
37532083 AA
1 AA
37532085 TACATGCAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.38, C:0.20, G:0.13, T:0.28
Consensus pattern (29 bp):
AAGAAAATTAACCCTACCATCATTGGTTA
Found at i:37534053 original size:21 final size:21
Alignment explanation
Indices: 37534029--37534068 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
37534019 ATAAAAGGAA
*
37534029 AAAATGAACCTAAAAATGGTG
1 AAAACGAACCTAAAAATGGTG
37534050 AAAACGAACCTAAAAATGG
1 AAAACGAACCTAAAAATGG
37534069 ACAAATCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.55, C:0.12, G:0.17, T:0.15
Consensus pattern (21 bp):
AAAACGAACCTAAAAATGGTG
Found at i:37535030 original size:18 final size:18
Alignment explanation
Indices: 37535007--37535041 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
37534997 CTGTGAAGTT
*
37535007 TTTTAAGTATATTTCGAG
1 TTTTAAGTATATGTCGAG
*
37535025 TTTTAATTATATGTCGA
1 TTTTAAGTATATGTCGA
37535042 AAATATTCGG
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:0.29, C:0.06, G:0.14, T:0.51
Consensus pattern (18 bp):
TTTTAAGTATATGTCGAG
Found at i:37541726 original size:19 final size:20
Alignment explanation
Indices: 37541704--37541749 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
37541694 TGCTTGTGTA
* *
37541704 ATTGTGAA-AAAGATGTGAT
1 ATTGTGAATAAACATGAGAT
37541723 ATTGTGAATAAACATGAGAT
1 ATTGTGAATAAACATGAGAT
37541743 ATTGTGA
1 ATTGTGA
37541750 TATATGCTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.41, C:0.02, G:0.24, T:0.33
Consensus pattern (20 bp):
ATTGTGAATAAACATGAGAT
Found at i:37543471 original size:16 final size:16
Alignment explanation
Indices: 37543450--37543482 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
37543440 ATTTCATTCC
37543450 ATAAGCCCGTAATAAA
1 ATAAGCCCGTAATAAA
*
37543466 ATAAGCCTGTAATAAA
1 ATAAGCCCGTAATAAA
37543482 A
1 A
37543483 CATTCCATTA
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:0.52, C:0.15, G:0.12, T:0.21
Consensus pattern (16 bp):
ATAAGCCCGTAATAAA
Found at i:37552336 original size:55 final size:55
Alignment explanation
Indices: 37552265--37552429 Score: 194
Period size: 55 Copynumber: 3.0 Consensus size: 55
37552255 GACAGTTGTC
* *
37552265 AGATGCAGCGACAATTCTAGGCGTAATTCTGGATATGCTTATGCAGCGAGCTGTT
1 AGATGCAACGACAATTCTAGGCGTAATTCTGGATATGCTTATGCAGCGAGCTATT
* * * * *
37552320 AGATGCGACGATAATTCTAAGCGTAATTCTGGATATGATTATGCAGCAAGCTATT
1 AGATGCAACGACAATTCTAGGCGTAATTCTGGATATGCTTATGCAGCGAGCTATT
* * *
37552375 AGATGCAATGACAATTCT-GG-GTACAATTCTGGATATGCTCATGTAGCG-GC-ATT
1 AGATGCAACGACAATTCTAGGCGT--AATTCTGGATATGCTTATGCAGCGAGCTATT
37552428 AG
1 AG
37552430 TAGTAAAATA
Statistics
Matches: 93, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
53 7 0.08
54 3 0.03
55 83 0.89
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (55 bp):
AGATGCAACGACAATTCTAGGCGTAATTCTGGATATGCTTATGCAGCGAGCTATT
Found at i:37553481 original size:23 final size:24
Alignment explanation
Indices: 37553450--37553499 Score: 93
Period size: 23 Copynumber: 2.1 Consensus size: 24
37553440 ACTAAATTCT
37553450 AATGACAAATGGAAATGCAATGAC
1 AATGACAAATGGAAATGCAATGAC
37553474 AATG-CAAATGGAAATGCAATGAC
1 AATGACAAATGGAAATGCAATGAC
37553497 AAT
1 AAT
37553500 TAAAATGTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 22 0.85
24 4 0.15
ACGTcount: A:0.50, C:0.12, G:0.20, T:0.18
Consensus pattern (24 bp):
AATGACAAATGGAAATGCAATGAC
Found at i:37553489 original size:12 final size:12
Alignment explanation
Indices: 37553450--37553492 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
37553440 ACTAAATTCT
37553450 AATGACAAATGGA
1 AATG-CAAATGGA
37553463 AATGC-AAT-GA
1 AATGCAAATGGA
37553473 CAATGCAAATGGA
1 -AATGCAAATGGA
37553486 AATGCAA
1 AATGCAA
37553493 TGACAATTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
10 2 0.07
11 8 0.30
12 11 0.41
13 6 0.22
ACGTcount: A:0.51, C:0.12, G:0.21, T:0.16
Consensus pattern (12 bp):
AATGCAAATGGA
Found at i:37553505 original size:23 final size:23
Alignment explanation
Indices: 37553450--37553506 Score: 87
Period size: 23 Copynumber: 2.4 Consensus size: 23
37553440 ACTAAATTCT
37553450 AATGACAAATGGAAATGCAATGAC
1 AATGA-AAATGGAAATGCAATGAC
*
37553474 AATGCAAATGGAAATGCAATGAC
1 AATGAAAATGGAAATGCAATGAC
*
37553497 AATTAAAATG
1 AATGAAAATG
37553507 TAATGACAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 26 0.87
24 4 0.13
ACGTcount: A:0.51, C:0.11, G:0.19, T:0.19
Consensus pattern (23 bp):
AATGAAAATGGAAATGCAATGAC
Found at i:37571126 original size:6 final size:6
Alignment explanation
Indices: 37571117--37571153 Score: 56
Period size: 6 Copynumber: 5.8 Consensus size: 6
37571107 AAAGAAAGGG
37571117 AAAATT AAAATT AAAATT AAAAAATT AAAATT AAAAT
1 AAAATT AAAATT AAAATT --AAAATT AAAATT AAAAT
37571154 AATCAATGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 23 0.79
8 6 0.21
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (6 bp):
AAAATT
Found at i:37571142 original size:14 final size:14
Alignment explanation
Indices: 37571123--37571152 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
37571113 AGGGAAAATT
37571123 AAAATTAAAATTAA
1 AAAATTAAAATTAA
37571137 AAAATTAAAATTAA
1 AAAATTAAAATTAA
37571151 AA
1 AA
37571153 TAATCAATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
AAAATTAAAATTAA
Found at i:37572181 original size:19 final size:19
Alignment explanation
Indices: 37572148--37572185 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
37572138 TTCTAAATGG
37572148 TTATCGTAAAATTTTGATTT
1 TTATCGTAAAATTTT-ATTT
*
37572168 TTAT-GTAAATTTTTATTT
1 TTATCGTAAAATTTTATTT
37572186 GAATGGTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 9 0.53
20 4 0.24
ACGTcount: A:0.29, C:0.03, G:0.08, T:0.61
Consensus pattern (19 bp):
TTATCGTAAAATTTTATTT
Done.